Molecular analyses of stage IIIa NSCLC patients treated with neoadjuvant chemmoimmuntherapy
This dataset comprises molecular and immunogenomic profiles from 60 individual NSCLC patients (30 male, 30 female), with samples collected at multiple timepoints including initial biopsies (IB), resections (RES), and peripheral blood mononuclear cells (PBMC) at different timepoints during treatment. It includes 32 FFPE tumor samples sequenced on Illumina with the FoundationOne panel, 20 FFPE samples sequenced on IonTorrent with the Oncomine Comphrehensive Assay Plus, and 41 samples assessed with IonTorrent via Oncomine Immune Response Research Assay panel for targeted gene expression. T-cell receptor (TCR) repertoire profiling was performed on 62 tumor samples (initial biopsies and resections, Oncomine TCR Beta-SR Assay), and 155 blood-derived samples were sequenced with Oncomine TCR Beta-LR Assay. Data files include processed sequencing results in bam format.
- 31/10/2025
- 310 samples
- DAC: EGAC00001002981
- Technologies: Ion GeneStudio S5 Prime, Ion Torrent S5, unspecified
Data Access Policy of Datasets controlled by MF-DAC
ATTENTION: Please check the following policy and the documents/information to provide in order to get access to the requested datasets. You can find the governing policy on Zenodo under the link: https://zenodo.org/records/12517622 Please provide all information as requested in the document to the MF-DAC. Additionally, you can find more information about the Data Access Committee of the Medical Faculty of the University of Basel (MF-DAC) under the following link on Zenodo: https://zenodo.org/records/10137776
Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.
| Study ID | Study Title | Study Type |
|---|---|---|
| EGAS50000001136 | Cancer Genomics | |
| EGAS50000001137 | RNASeq | |
| EGAS50000001138 | RNASeq | |
| EGAS50000001139 | Cancer Genomics | |
| EGAS50000001140 | RNASeq |
This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.
| ID | File Type | Size | Quality Report |
Located in
i
|
|---|---|---|---|---|
| EGAF50000402552 | bam | 2.5 GB |
|
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| EGAF50000402553 | bam | 3.3 GB |
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| EGAF50000402554 | bam | 2.5 GB |
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| EGAF50000402555 | bam | 3.0 GB |
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| EGAF50000402556 | bam | 1.8 GB |
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| EGAF50000402557 | bam | 2.9 GB |
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| EGAF50000402558 | bam | 2.6 GB |
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| EGAF50000402559 | bam | 2.3 GB |
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| EGAF50000402560 | bam | 3.0 GB |
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| EGAF50000402561 | bam | 2.4 GB |
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| EGAF50000402562 | bam | 3.1 GB |
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| EGAF50000402563 | bam | 3.5 GB |
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| EGAF50000402564 | bam | 2.3 GB |
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| EGAF50000402565 | bam | 3.4 GB |
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| EGAF50000402566 | bam | 2.8 GB |
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| EGAF50000402567 | bam | 3.2 GB |
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| EGAF50000402568 | bam | 2.5 GB |
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| EGAF50000402569 | bam | 3.1 GB |
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| EGAF50000402570 | bam | 2.7 GB |
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| EGAF50000402571 | bam | 3.5 GB |
|
|
| EGAF50000402572 | bam | 725.9 MB |
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| EGAF50000402573 | bam | 294.9 MB |
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| EGAF50000402574 | bam | 591.9 MB |
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| EGAF50000402575 | bam | 209.9 MB |
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| EGAF50000402576 | bam | 570.5 MB |
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| EGAF50000402577 | bam | 213.9 MB |
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| EGAF50000402578 | bam | 704.9 MB |
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| EGAF50000402579 | bam | 233.9 MB |
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| EGAF50000402580 | bam | 568.7 MB |
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| EGAF50000402581 | bam | 212.7 MB |
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| EGAF50000402582 | bam | 1.1 GB |
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| EGAF50000402583 | bam | 410.8 MB |
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| EGAF50000402584 | bam | 714.9 MB |
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| EGAF50000402585 | bam | 247.4 MB |
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| EGAF50000402586 | bam | 825.6 MB |
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| EGAF50000402587 | bam | 756.5 MB |
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| EGAF50000402588 | bam | 280.2 MB |
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| EGAF50000402589 | bam | 547.8 MB |
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| EGAF50000402590 | bam | 223.2 MB |
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| EGAF50000402591 | bam | 204.7 MB |
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| EGAF50000402592 | bam | 773.0 MB |
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| EGAF50000402593 | bam | 262.1 MB |
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| EGAF50000402594 | bam | 823.3 MB |
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| EGAF50000402595 | bam | 758.3 MB |
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| EGAF50000402596 | bam | 268.4 MB |
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| EGAF50000402597 | bam | 1.0 GB |
|
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| EGAF50000402598 | bam | 939.6 MB |
|
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| EGAF50000402599 | bam | 371.8 MB |
|
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| EGAF50000402600 | bam | 832.5 MB |
|
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| EGAF50000402601 | bam | 886.8 MB |
|
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| EGAF50000402602 | bam | 336.1 MB |
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| EGAF50000402603 | bam | 1.0 GB |
|
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| EGAF50000402604 | bam | 317.2 MB |
|
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| EGAF50000402605 | bam | 852.3 MB |
|
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| EGAF50000402606 | bam | 319.6 MB |
|
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| EGAF50000402607 | bam | 886.0 MB |
|
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| EGAF50000402608 | bam | 354.2 MB |
|
|
| EGAF50000402609 | bam | 367.8 MB |
|
|
| EGAF50000402610 | bam | 941.0 MB |
|
|
| EGAF50000402611 | bam | 348.1 MB |
|
|
| EGAF50000402612 | bam | 815.6 MB |
|
|
| EGAF50000402613 | bam | 308.1 MB |
|
|
| EGAF50000402614 | bam | 273.3 MB |
|
|
| EGAF50000402615 | bam | 3.0 GB |
|
|
| EGAF50000402616 | bam | 15.8 GB |
|
|
| EGAF50000402617 | bam | 13.4 GB |
|
|
| EGAF50000402618 | bam | 11.6 GB |
|
|
| EGAF50000402619 | bam | 15.6 GB |
|
|
| EGAF50000402620 | bam | 16.0 GB |
|
|
| EGAF50000402621 | bam | 14.7 GB |
|
|
| EGAF50000402622 | bam | 19.9 GB |
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|
| EGAF50000402623 | bam | 18.2 GB |
|
|
| EGAF50000402624 | bam | 3.2 GB |
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| EGAF50000402625 | bam | 2.6 GB |
|
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| EGAF50000402626 | bam | 3.2 GB |
|
|
| EGAF50000402627 | bam | 2.5 GB |
|
|
| EGAF50000402628 | bam | 3.3 GB |
|
|
| EGAF50000402629 | bam | 702.2 MB |
|
|
| EGAF50000402630 | bam | 260.2 MB |
|
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| EGAF50000402631 | bam | 842.5 MB |
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| EGAF50000402632 | bam | 666.2 MB |
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| EGAF50000402633 | bam | 853.6 MB |
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| EGAF50000402634 | bam | 1.3 GB |
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| EGAF50000402635 | bam | 1.9 GB |
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| EGAF50000402636 | bam | 739.1 MB |
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| EGAF50000402637 | bam | 846.1 MB |
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| EGAF50000402638 | bam | 1.4 GB |
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| EGAF50000402639 | bam | 2.8 GB |
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| EGAF50000402640 | bam | 883.4 MB |
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| EGAF50000402641 | bam | 993.1 MB |
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| EGAF50000402642 | bam | 2.8 GB |
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| EGAF50000402643 | bam | 2.7 GB |
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| EGAF50000402644 | bam | 882.6 MB |
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| EGAF50000402645 | bam | 2.6 GB |
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| EGAF50000402646 | bam | 1.3 GB |
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| EGAF50000402647 | bam | 2.7 GB |
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| EGAF50000402648 | bam | 3.0 GB |
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| EGAF50000402649 | bam | 1.9 GB |
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| EGAF50000402650 | bam | 1.6 GB |
|
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| EGAF50000402651 | bam | 819.8 MB |
|
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| EGAF50000402652 | bam | 2.0 GB |
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| EGAF50000402653 | bam | 1.7 GB |
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| EGAF50000402654 | bam | 2.2 GB |
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| EGAF50000402655 | bam | 1.3 GB |
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| EGAF50000402656 | bam | 2.4 GB |
|
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| EGAF50000402657 | bam | 1.3 GB |
|
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| EGAF50000402658 | bam | 2.3 GB |
|
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| EGAF50000402659 | bam | 806.6 MB |
|
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| EGAF50000402660 | bam | 1.8 GB |
|
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| EGAF50000402661 | bam | 2.2 GB |
|
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| EGAF50000402662 | bam | 1.0 GB |
|
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| EGAF50000402663 | bam | 911.4 MB |
|
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| EGAF50000402664 | bam | 360.0 MB |
|
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| EGAF50000402665 | bam | 727.0 MB |
|
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| EGAF50000402666 | bam | 278.4 MB |
|
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| EGAF50000402667 | bam | 883.7 MB |
|
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| EGAF50000402668 | bam | 344.2 MB |
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| EGAF50000402669 | bam | 17.5 GB |
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| EGAF50000402670 | bam | 258.8 MB |
|
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| EGAF50000402671 | bam | 811.3 MB |
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| EGAF50000402672 | bam | 14.4 GB |
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| EGAF50000402673 | bam | 20.4 GB |
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| EGAF50000402674 | bam | 2.9 GB |
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| EGAF50000402675 | bam | 10.4 GB |
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| EGAF50000402676 | bam | 10.7 GB |
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| EGAF50000402677 | bam | 10.6 GB |
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| EGAF50000402678 | bam | 10.4 GB |
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| EGAF50000402679 | bam | 20.6 GB |
|
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| EGAF50000402680 | bam | 1.3 GB |
|
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| EGAF50000402681 | bam | 481.9 MB |
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| EGAF50000402682 | bam | 896.7 MB |
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| EGAF50000402683 | bam | 1.3 GB |
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| EGAF50000402684 | bam | 2.3 GB |
|
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| EGAF50000402685 | bam | 711.6 MB |
|
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| EGAF50000402686 | bam | 1.6 GB |
|
|
| EGAF50000402687 | bam | 2.0 GB |
|
|
| EGAF50000402688 | bam | 1.7 GB |
|
|
| EGAF50000402689 | bam | 482.6 MB |
|
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| EGAF50000402690 | bam | 2.2 GB |
|
|
| EGAF50000402691 | bam | 918.9 MB |
|
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| EGAF50000402692 | bam | 2.8 GB |
|
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| EGAF50000402693 | bam | 1.9 GB |
|
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| EGAF50000402694 | bam | 809.2 MB |
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| EGAF50000402695 | bam | 1.3 GB |
|
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| EGAF50000402696 | bam | 588.0 MB |
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| EGAF50000402697 | bam | 902.6 MB |
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| EGAF50000402698 | bam | 1.7 GB |
|
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| EGAF50000402699 | bam | 1.6 GB |
|
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| EGAF50000402700 | bam | 3.7 GB |
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| EGAF50000402701 | bam | 354.9 MB |
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| EGAF50000402702 | bam | 1.2 GB |
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| EGAF50000402703 | bam | 810.1 MB |
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| EGAF50000402704 | bam | 1.7 GB |
|
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| EGAF50000402705 | bam | 1.0 GB |
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| EGAF50000402706 | bam | 1.3 GB |
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| EGAF50000402707 | bam | 1.7 GB |
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| EGAF50000402708 | bam | 1.7 GB |
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| EGAF50000402709 | bam | 1.8 GB |
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| EGAF50000402710 | bam | 2.3 GB |
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| EGAF50000402711 | bam | 2.9 GB |
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| EGAF50000402712 | bam | 1.7 GB |
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| EGAF50000402713 | bam | 1.2 GB |
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| EGAF50000402714 | bam | 646.5 MB |
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| EGAF50000402715 | bam | 1.9 GB |
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| EGAF50000402716 | bam | 3.1 GB |
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| EGAF50000402717 | bam | 1.9 GB |
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| EGAF50000402718 | bam | 788.8 MB |
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| EGAF50000402719 | bam | 2.3 GB |
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| EGAF50000402720 | bam | 471.2 MB |
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| EGAF50000402721 | bam | 2.8 GB |
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| EGAF50000402722 | bam | 1.4 GB |
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| EGAF50000402723 | bam | 1.1 GB |
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| EGAF50000402724 | bam | 3.3 GB |
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| EGAF50000402725 | bam | 797.9 MB |
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| EGAF50000402726 | bam | 1.3 GB |
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| EGAF50000402727 | bam | 2.8 GB |
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| EGAF50000402728 | bam | 2.9 GB |
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| EGAF50000402729 | bam | 3.0 GB |
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| EGAF50000402730 | bam | 59.6 MB |
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| EGAF50000402731 | bam | 2.0 GB |
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| EGAF50000402732 | bam | 2.5 GB |
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| EGAF50000402733 | bam | 2.8 GB |
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| EGAF50000402734 | bam | 2.9 GB |
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| EGAF50000402735 | bam | 302.9 MB |
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| EGAF50000402736 | bam | 441.1 MB |
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| EGAF50000402737 | bam | 629.0 MB |
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| EGAF50000402738 | bam | 3.2 GB |
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| EGAF50000402739 | bam | 20.9 MB |
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| EGAF50000402740 | bam | 936.5 MB |
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| EGAF50000402741 | bam | 1.3 GB |
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| EGAF50000402742 | bam | 1.3 GB |
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| EGAF50000402743 | bam | 2.8 GB |
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| EGAF50000402744 | bam | 2.2 GB |
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| EGAF50000402745 | bam | 647.2 MB |
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| EGAF50000402746 | bam | 2.0 GB |
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| EGAF50000402747 | bam | 596.4 MB |
|
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| EGAF50000402748 | bam | 197.2 MB |
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| EGAF50000402749 | bam | 1.6 GB |
|
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| EGAF50000402750 | bam | 3.1 GB |
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| EGAF50000402751 | bam | 1.9 GB |
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| EGAF50000402752 | bam | 946.2 MB |
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| EGAF50000402753 | bam | 2.1 GB |
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| EGAF50000402754 | bam | 1.6 GB |
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| EGAF50000402755 | bam | 1.1 GB |
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| EGAF50000402756 | bam | 2.6 GB |
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| EGAF50000402757 | bam | 82.3 MB |
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| EGAF50000402758 | bam | 2.6 GB |
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| EGAF50000402759 | bam | 1.5 GB |
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| EGAF50000402760 | bam | 2.7 GB |
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| EGAF50000402761 | bam | 1.6 GB |
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| EGAF50000402762 | bam | 1.4 GB |
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| EGAF50000402763 | bam | 2.3 GB |
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| EGAF50000402764 | bam | 1.3 GB |
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| EGAF50000402765 | bam | 193.9 MB |
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| EGAF50000402766 | bam | 867.1 MB |
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| EGAF50000402767 | bam | 1.1 GB |
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| EGAF50000402768 | bam | 2.9 GB |
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| EGAF50000402769 | bam | 1.2 GB |
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| EGAF50000402770 | bam | 1.6 GB |
|
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| EGAF50000402771 | bam | 1.1 GB |
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| EGAF50000402772 | bam | 932.6 MB |
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| EGAF50000402773 | bam | 1.6 GB |
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| EGAF50000402774 | bam | 2.6 GB |
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| EGAF50000402775 | bam | 15.6 GB |
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| EGAF50000402776 | bam | 9.4 GB |
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| EGAF50000402777 | bam | 2.9 GB |
|
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| EGAF50000402778 | bam | 4.1 GB |
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| EGAF50000402779 | bam | 571.2 MB |
|
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| EGAF50000402780 | bam | 890.1 MB |
|
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| EGAF50000402781 | bam | 1.4 GB |
|
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| EGAF50000402782 | bam | 611.2 MB |
|
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| EGAF50000402783 | bam | 1.4 GB |
|
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| EGAF50000402784 | bam | 1.6 GB |
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| EGAF50000402785 | bam | 1.6 GB |
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| EGAF50000402786 | bam | 521.4 MB |
|
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| EGAF50000402787 | bam | 2.1 GB |
|
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| EGAF50000402788 | bam | 18.6 GB |
|
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| EGAF50000402789 | bam | 2.5 GB |
|
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| EGAF50000402790 | bam | 2.8 GB |
|
|
| EGAF50000402791 | bam | 2.6 GB |
|
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| EGAF50000402792 | bam | 2.7 GB |
|
|
| EGAF50000402793 | bam | 335.9 MB |
|
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| EGAF50000402794 | bam | 791.5 MB |
|
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| EGAF50000402795 | bam | 303.6 MB |
|
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| EGAF50000402796 | bam | 677.9 MB |
|
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| EGAF50000402797 | bam | 281.3 MB |
|
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| EGAF50000402798 | bam | 590.1 MB |
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| EGAF50000402799 | bam | 316.0 MB |
|
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| EGAF50000402800 | bam | 705.7 MB |
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| EGAF50000402801 | bam | 315.8 MB |
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| EGAF50000402802 | bam | 271.5 MB |
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| EGAF50000402803 | bam | 736.0 MB |
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| EGAF50000402804 | bam | 394.9 MB |
|
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| EGAF50000402805 | bam | 964.0 MB |
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| EGAF50000402806 | bam | 364.5 MB |
|
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| EGAF50000402807 | bam | 302.1 MB |
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| EGAF50000402808 | bam | 240.6 MB |
|
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| EGAF50000402809 | bam | 316.4 MB |
|
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| EGAF50000402810 | bam | 688.9 MB |
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| EGAF50000402811 | bam | 1.3 GB |
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| EGAF50000402812 | bam | 2.3 GB |
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| EGAF50000402813 | bam | 2.2 GB |
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| EGAF50000402814 | bam | 1.3 GB |
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| EGAF50000402815 | bam | 2.1 GB |
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| EGAF50000402816 | bam | 1.6 GB |
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| EGAF50000402817 | bam | 1.5 GB |
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| EGAF50000402818 | bam | 944.5 MB |
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| EGAF50000402819 | bam | 15.3 MB |
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| EGAF50000402820 | bam | 797.3 MB |
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| EGAF50000402821 | bam | 2.0 GB |
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| EGAF50000402822 | bam | 1.6 GB |
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| EGAF50000402823 | bam | 1.2 GB |
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| EGAF50000402824 | bam | 768.5 MB |
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| EGAF50000402825 | bam | 1.4 GB |
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| EGAF50000402826 | bam | 4.0 GB |
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| EGAF50000402827 | bam | 1.0 GB |
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| EGAF50000402828 | bam | 2.3 GB |
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| EGAF50000402829 | bam | 3.0 GB |
|
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| EGAF50000402830 | bam | 494.3 MB |
|
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| EGAF50000402831 | bam | 2.2 GB |
|
|
| EGAF50000402832 | bam | 2.2 GB |
|
|
| EGAF50000402833 | bam | 2.5 GB |
|
|
| EGAF50000402834 | bam | 1.2 GB |
|
|
| EGAF50000402835 | bam | 321.8 MB |
|
|
| EGAF50000402836 | bam | 313.6 MB |
|
|
| EGAF50000402837 | bam | 757.4 MB |
|
|
| EGAF50000402838 | bam | 283.8 MB |
|
|
| EGAF50000402839 | bam | 811.5 MB |
|
|
| EGAF50000402840 | bam | 310.6 MB |
|
|
| EGAF50000402841 | bam | 826.4 MB |
|
|
| EGAF50000402842 | bam | 2.4 GB |
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| EGAF50000402843 | bam | 2.2 GB |
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| EGAF50000402844 | bam | 1.4 GB |
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| EGAF50000402845 | bam | 2.4 GB |
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| EGAF50000402846 | bam | 2.8 GB |
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| EGAF50000402847 | bam | 908.4 MB |
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| EGAF50000402848 | bam | 2.5 GB |
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| EGAF50000402849 | bam | 3.5 GB |
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| EGAF50000402850 | bam | 1.0 GB |
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| EGAF50000402851 | bam | 2.1 GB |
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| EGAF50000402852 | bam | 1.2 GB |
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| EGAF50000402853 | bam | 813.3 MB |
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| EGAF50000402854 | bam | 4.3 GB |
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| EGAF50000402855 | bam | 882.3 MB |
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| EGAF50000402856 | bam | 2.1 GB |
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| EGAF50000402857 | bam | 1.1 GB |
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| EGAF50000402858 | bam | 94.0 MB |
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| EGAF50000402859 | bam | 2.4 GB |
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| EGAF50000402860 | bam | 115.6 MB |
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| EGAF50000402861 | bam | 3.1 GB |
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| EGAF50000402862 | bam | 962.8 MB |
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| EGAF50000402863 | bam | 248.1 MB |
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| EGAF50000402864 | bam | 1.8 GB |
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| EGAF50000402865 | bam | 1.1 GB |
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| EGAF50000402866 | bam | 910.0 MB |
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| EGAF50000402867 | bam | 1.5 GB |
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| EGAF50000402868 | bam | 552.7 MB |
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| EGAF50000402869 | bam | 1.0 GB |
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| EGAF50000402870 | bam | 741.2 MB |
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| EGAF50000402871 | bam | 776.7 MB |
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| EGAF50000402872 | bam | 1.5 GB |
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| EGAF50000402873 | bam | 834.1 MB |
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| EGAF50000402874 | bam | 1.1 GB |
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| EGAF50000402875 | bam | 1.3 GB |
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| EGAF50000402876 | bam | 2.8 GB |
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| EGAF50000402877 | bam | 3.0 GB |
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| EGAF50000402878 | bam | 798.7 MB |
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| EGAF50000402879 | bam | 252.2 MB |
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| EGAF50000402880 | bam | 1.3 GB |
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| EGAF50000402881 | bam | 180.2 MB |
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| EGAF50000402882 | bam | 1.1 GB |
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| EGAF50000402883 | bam | 752.6 MB |
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| EGAF50000402884 | bam | 1.8 GB |
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| EGAF50000402885 | bam | 653.2 MB |
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| EGAF50000402886 | bam | 1.3 GB |
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| EGAF50000402887 | bam | 558.5 MB |
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| EGAF50000402888 | bam | 362.6 MB |
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| EGAF50000402889 | bam | 952.8 MB |
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| EGAF50000402890 | bam | 760.0 MB |
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| EGAF50000402891 | bam | 617.1 MB |
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| EGAF50000402892 | bam | 1.3 GB |
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| EGAF50000402893 | bam | 1.5 GB |
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| EGAF50000402894 | bam | 1.5 GB |
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| EGAF50000402895 | bam | 2.2 GB |
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| EGAF50000402896 | bam | 1.5 GB |
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| EGAF50000402897 | bam | 907.9 MB |
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| EGAF50000402898 | bam | 1.3 GB |
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| EGAF50000402899 | bam | 2.0 GB |
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| EGAF50000402900 | bam | 921.2 MB |
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| EGAF50000402901 | bam | 1.6 GB |
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| EGAF50000402902 | bam | 1.1 GB |
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| 351 Files (758.1 GB) | ||||