SampleID,Lanes,Index,# Reads,# Perfect Index Reads,# One Mismatch Index Reads,# Two Mismatch Index Reads,% Reads,% Perfect Index Reads,% One Mismatch Index Reads,% Two Mismatch Index Reads
22Rv1_FFPE_RNA_0001_B23LG7FLT4_1,"1,2,3,4",ATACACACCT-AGTGTGATAG,17701448,17051882,649566,0,0.0005,0.9633,0.0367,0.0
22Rv1_FFPE_RNA_0001_B23LG7FLT4_2,"1,2,3,4",AACGCTCTGA-GAGTAACGTG,15751549,15193639,557910,0,0.0005,0.9646,0.0354,0.0
22Rv1_FFPE_RNA_0001_B23LG7FLT4_3,"1,2,3,4",CAACCATGAT-ATAAGGTGAC,17658335,17068618,589717,0,0.0005,0.9666,0.0334,0.0
786-O_FFPE_RNA_0001_B23LG7FLT4_1,"1,2,3,4",CAACTACCGC-ATGCTGCAGG,467394846,452593192,14801654,0,0.0143,0.9683,0.0317,0.0
786-O_FFPE_RNA_0001_B23LG7FLT4_2,"1,2,3,4",CTCTCTCTAG-ACTTGATTGG,517372845,498701213,18671632,0,0.0158,0.9639,0.0361,0.0
786-O_FFPE_RNA_0001_B23LG7FLT4_3,"1,2,3,4",CCACTCAACG-CCTGTCTAGA,485199530,468667120,16532410,0,0.0148,0.9659,0.0341,0.0
A549_FFPE_01_RNA_0001_B23LG7FLT4_1,"1,2,3,4",ACTCGTCCAG-TGGTCCTCGT,3995385,3860896,134489,0,0.0001,0.9663,0.0337,0.0
A549_FFPE_01_RNA_0001_B23LG7FLT4_2,"1,2,3,4",AAGGCTCCAT-TGAAGATGGA,2980467,2886752,93715,0,0.0001,0.9686,0.0314,0.0
A549_FFPE_01_RNA_0001_B23LG7FLT4_3,"1,2,3,4",AGCCACTCGT-CCAAGAGGAT,4618078,4359172,258906,0,0.0001,0.9439,0.0561,0.0
A673_FFPE_RNA_0001_B23LG7FLT4_1,"1,2,3,4",GATCCACTTA-GTGTTCTGTT,473453433,457280238,16173195,0,0.0145,0.9658,0.0342,0.0
A673_FFPE_RNA_0001_B23LG7FLT4_2,"1,2,3,4",CAGACTGCAG-ACCGGCCTTA,404128147,371593876,32534271,0,0.0123,0.9195,0.0805,0.0
A673_FFPE_RNA_0001_B23LG7FLT4_3,"1,2,3,4",ATCGAGAGAC-TGGAAGCAGA,312903780,302266413,10637367,0,0.0096,0.966,0.034,0.0
BT-20_FFPE_RNA_0001_B23LG7FLT4_1,"1,2,3,4",CCGAAGGTTC-TCTATCTGAC,89349155,86647604,2701551,0,0.0027,0.9698,0.0302,0.0
BT-20_FFPE_RNA_0001_B23LG7FLT4_2,"1,2,3,4",TATACGATGC-CTCCTAATCT,89745342,86547749,3197593,0,0.0027,0.9644,0.0356,0.0
BT-20_FFPE_RNA_0001_B23LG7FLT4_3,"1,2,3,4",TCTACAGCTA-AATGGAAGAC,84139808,81103709,3036099,0,0.0026,0.9639,0.0361,0.0
BreastNB_FFPE_L01_RNA_01_B23LG7FLT4_1,"5,6,7,8",ACTGGCAAGA-TGTTGTCCAT,52978814,52144974,833840,0,0.0016,0.9843,0.0157,0.0
BreastNB_FFPE_L02_RNA_01_B23LG7FLT4_1,"5,6,7,8",ACAAGAACCT-CGATACTGAA,56438162,55228871,1209291,0,0.0017,0.9786,0.0214,0.0
BreastNB_FFPE_L03_RNA_01_B23LG7FLT4_1,"5,6,7,8",AGAGTATGTG-AGATGGCTTC,81365957,79877017,1488940,0,0.0025,0.9817,0.0183,0.0
BreastNP_FFPE_L02_RNA_01_B23LG7FLT4_1,"1,2,3,4",CTGAACGTAT-GCCAATACAT,15162667,14667615,495052,0,0.0005,0.9674,0.0326,0.0
BreastNP_FFPE_L02_RNA_01_B23LG7FLT4_2,"5,6,7,8",ACCTTCGGAC-GACCGTAGAT,16590658,16282224,308434,0,0.0005,0.9814,0.0186,0.0
BreastNP_FFPE_L03_RNA_01_B23LG7FLT4_1,"5,6,7,8",TTCTACCGGC-TACTCGTAAG,42015743,41334905,680838,0,0.0013,0.9838,0.0162,0.0
BreastNP_FFPE_L04_RNA_01_B23LG7FLT4_1,"5,6,7,8",TAAGCCACGC-TTACGAACGA,38527645,37940999,586646,0,0.0012,0.9848,0.0152,0.0
ColoN_FFPE_L01_RNA_01_B23LG7FLT4_1,"1,2,3,4",TCCGAGATGC-TGTCACCTTA,18721246,17698477,1022769,0,0.0006,0.9454,0.0546,0.0
ColoN_FFPE_L01_RNA_01_B23LG7FLT4_2,"5,6,7,8",ACTTAGATCG-CGGAATTCTT,273291249,262391012,10900237,0,0.0083,0.9601,0.0399,0.0
ColoN_FFPE_L02_RNA_01_B23LG7FLT4_1,"5,6,7,8",CACGAGAAGT-GTCTGCGTAG,40107246,38956587,1150659,0,0.0012,0.9713,0.0287,0.0
ColoN_FFPE_L03_RNA_01_B23LG7FLT4_1,"5,6,7,8",AATCGAACTC-ACGAACCTTA,19058536,18641455,417081,0,0.0006,0.9781,0.0219,0.0
ColoN_FFPE_L06_RNA_01_B23LG7FLT4_1,"1,2,3,4",GTTAGTGCCT-CTGCATAGCA,15151093,14641751,509342,0,0.0005,0.9664,0.0336,0.0
ColoN_FFPE_L06_RNA_01_B23LG7FLT4_2,"5,6,7,8",GATCAACAAG-AAGCACTGTC,132597913,129920483,2677430,0,0.004,0.9798,0.0202,0.0
ColoN_FFPE_L07_RNA_01_B23LG7FLT4_1,"5,6,7,8",GACAATTAGC-CCGGTCATGA,46778364,45840512,937852,0,0.0014,0.98,0.02,0.0
ColoN_FFPE_L08_RNA_01_B23LG7FLT4_1,"5,6,7,8",AGGCTGGAGA-CAACTGTCAT,116429517,114305182,2124335,0,0.0036,0.9818,0.0182,0.0
EndoN_FFPE_L01_RNA_01_B23LG7FLT4_1,"5,6,7,8",AACCGGCCTT-TGTTCAGATC,641320430,629048005,12272425,0,0.0196,0.9809,0.0191,0.0
EndoN_FFPE_L02_RNA_01_B23LG7FLT4_1,"1,2,3,4",CGCAATAAGA-CCTACAGCGT,17448653,16765666,682987,0,0.0005,0.9609,0.0391,0.0
EndoN_FFPE_L02_RNA_01_B23LG7FLT4_2,"5,6,7,8",CGTCTAGTAA-TTAATCCAGC,88800769,87430729,1370040,0,0.0027,0.9846,0.0154,0.0
EndoN_FFPE_L03_RNA_01_B23LG7FLT4_1,"5,6,7,8",TGACAAGAGG-AATCTGTTGG,113065956,111097847,1968109,0,0.0035,0.9826,0.0174,0.0
EndoN_FFPE_L04_RNA_01_B23LG7FLT4_1,"5,6,7,8",CATTATCGCT-CGAGTTGCTT,514417418,505702289,8715129,0,0.0157,0.9831,0.0169,0.0
EndoN_FFPE_L05_RNA_01_B23LG7FLT4_1,"5,6,7,8",CATTGAGCTA-ACTTCACATC,31291361,30668082,623279,0,0.001,0.9801,0.0199,0.0
EndoN_FFPE_L06_RNA_01_B23LG7FLT4_1,"5,6,7,8",CTTCGGAATC-CGTCGGTAAG,219847588,214384270,5463318,0,0.0067,0.9751,0.0249,0.0
EndoN_FFPE_L08_RNA_01_B23LG7FLT4_1,"5,6,7,8",TGTTCGCTCT-ACTTGCGTGT,41878760,41029882,848878,0,0.0013,0.9797,0.0203,0.0
EndoN_FFPE_L09_RNA_01_B23LG7FLT4_1,"5,6,7,8",AACCACACTA-CCTCTGCTGA,696681967,683509916,13172051,0,0.0213,0.9811,0.0189,0.0
FFPE_HD789_01_RNA_0002_B23LG7FLT4_1,"1,2,3,4",TCGGTCTGTT-TGGTTGGTAC,381010539,369495478,11515061,0,0.0116,0.9698,0.0302,0.0
FFPE_HD789_01_RNA_0004_B23LG7FLT4_1,"5,6,7,8",CCTCTGTCAT-CGTATCGATT,2419440325,2386032637,33407688,0,0.0739,0.9862,0.0138,0.0
FFPE_V4_0001_RNA_0001_B23LG7FLT4_1,"1,2,3,4",GCATTCCTTC-GAGCCTGCTT,279995908,205129497,74866411,0,0.0086,0.7326,0.2674,0.0
FFPE_V4_0001_RNA_0001_B23LG7FLT4_2,"5,6,7,8",GCAGATGTAA-TACACGCCTC,1932935325,1893472791,39462534,0,0.059,0.9796,0.0204,0.0
HeadNeckN_FFPE_L01_RNA_01_B23LG7FLT4_1,"5,6,7,8",TCACACGGAT-CTTCTGATCG,133377356,131507464,1869892,0,0.0041,0.986,0.014,0.0
HeadNeckN_FFPE_L02_RNA_01_B23LG7FLT4_1,"5,6,7,8",AGGATACGGT-AACCACGTCA,107190221,105247384,1942837,0,0.0033,0.9819,0.0181,0.0
HeadNeckN_FFPE_L03_RNA_01_B23LG7FLT4_1,"5,6,7,8",TCGACGTTGG-GATAAGTGTG,73822217,70604870,3217347,0,0.0023,0.9564,0.0436,0.0
HeadNeckN_FFPE_L04_RNA_01_B23LG7FLT4_1,"5,6,7,8",ACGGCCTACA-TCTCACTCTA,58610291,57627770,982521,0,0.0018,0.9832,0.0168,0.0
HeadNeckN_FFPE_L05_RNA_01_B23LG7FLT4_1,"5,6,7,8",GCTACAGGTC-TTATGCAGGA,23355997,22841567,514430,0,0.0007,0.978,0.022,0.0
HeadNeckN_FFPE_L06_RNA_01_B23LG7FLT4_1,"5,6,7,8",GCCAAGTAAC-TGCGTGATGA,73271128,71242219,2028909,0,0.0022,0.9723,0.0277,0.0
HeadNeckN_FFPE_L08_RNA_01_B23LG7FLT4_1,"5,6,7,8",AAGAGTACGA-GCAAGGACGT,561886802,551593531,10293271,0,0.0172,0.9817,0.0183,0.0
HeadNeckN_FFPE_L09_RNA_01_B23LG7FLT4_1,"5,6,7,8",CACGTAAGAG-TCAATCCGCG,148249073,137646342,10602731,0,0.0045,0.9285,0.0715,0.0
Hs746T_FFPE_RNA_0001_23LG7FLT4_1,"1,2,3,4",CTTGTTACTG-AATTCGGTGG,614254436,595558302,18696134,0,0.0188,0.9696,0.0304,0.0
Hs746T_FFPE_RNA_0001_B23LG7FLT4_1,"1,2,3,4",AGCCTCTGCT-TTCGCCTTAG,551496763,525434074,26062689,0,0.0168,0.9527,0.0473,0.0
Hs746T_FFPE_RNA_0001_B23LG7FLT4_2,"1,2,3,4",GATTGGCGAT-CTGTCTCATT,481509500,463863926,17645574,0,0.0147,0.9634,0.0366,0.0
KG1_FFPE_01_RNA_0003_B23LG7FLT4_1,"1,2,3,4",CGCACATTAC-TGGAACGTAG,387668627,375529415,12139212,0,0.0118,0.9687,0.0313,0.0
KG1_FFPE_01_RNA_0003_B23LG7FLT4_2,"1,2,3,4",AATCGTGCGG-GTTCAGTAGA,445976109,431980274,13995835,0,0.0136,0.9686,0.0314,0.0
KG1_FFPE_01_RNA_0003_B23LG7FLT4_3,"1,2,3,4",CTAGACGAGC-GAGGATGGAT,512218603,495143600,17075003,0,0.0156,0.9667,0.0333,0.0
LungN_FFPE_L01_RNA_01_B23LG7FLT4_1,"5,6,7,8",CAACCATACA-ACCGGTTATA,831238019,809513695,21724324,0,0.0254,0.9739,0.0261,0.0
LungN_FFPE_L02_RNA_01_B23LG7FLT4_1,"5,6,7,8",GTAGGCCGTT-GCCACTGTCT,182032840,178222864,3809976,0,0.0056,0.9791,0.0209,0.0
LungN_FFPE_L03_RNA_01_B23LG7FLT4_1,"5,6,7,8",CGGATTGATC-AGTCACAACA,621340947,608796294,12544653,0,0.019,0.9798,0.0202,0.0
MCF7_FFPE_RNA_0001_B23LG7FLT4_1,"1,2,3,4",ATCTAACCTG-CCTGTGGTTC,441120918,426053512,15067406,0,0.0135,0.9658,0.0342,0.0
MCF7_FFPE_RNA_0001_B23LG7FLT4_2,"1,2,3,4",TACCGGAGCA-CTTAGCAGGC,387567195,375056807,12510388,0,0.0118,0.9677,0.0323,0.0
MCF7_FFPE_RNA_0001_B23LG7FLT4_3,"1,2,3,4",GTAATACTCG-CTCACGAATC,446470668,417352862,29117806,0,0.0136,0.9348,0.0652,0.0
NCI-H2228_FFPE_RNA_0001_B23LG7FLT4_1,"1,2,3,4",GCGACAATAT-ATTCGTACGG,615805720,595455519,20350201,0,0.0188,0.967,0.033,0.0
NCI-H2228_FFPE_RNA_0001_B23LG7FLT4_2,"1,2,3,4",AGCACCAGTC-CTCGTGTAGC,499848672,482437209,17411463,0,0.0153,0.9652,0.0348,0.0
NCI-H2228_FFPE_RNA_0001_B23LG7FLT4_3,"1,2,3,4",GATTCTTAGC-TGCTAGCGGT,466440831,452282985,14157846,0,0.0142,0.9696,0.0304,0.0
NTC_0001_0001_B23LG7FLT4_1,"1,2,3,4",CGTCGCCTAT-TATCTTCTCG,874575,830528,44047,0,0.0,0.9496,0.0504,0.0
NTC_0001_0001_B23LG7FLT4_2,"5,6,7,8",CTCATCATCT-TAAGCCTCTA,1173175,1142568,30607,0,0.0,0.9739,0.0261,0.0
OvarianND_FFPE_L01_RNA_01_B23LG7FLT4_1,"5,6,7,8",TTGTGAAGGC-TCGTCAGTAC,958448138,941809924,16638214,0,0.0293,0.9826,0.0174,0.0
OvarianND_FFPE_L02_RNA_01_B23LG7FLT4_1,"5,6,7,8",GTCGACTCCT-TGCCGTTAGC,825367536,801676344,23691192,0,0.0252,0.9713,0.0287,0.0
OvarianND_FFPE_L03_RNA_01_B23LG7FLT4_1,"5,6,7,8",CTGAGCTTGT-CTTCTTGCGT,991538490,977747476,13791014,0,0.0303,0.9861,0.0139,0.0
OvarianNP_FFPE_L01_RNA_01_B23LG7FLT4_1,"5,6,7,8",GTACAGCGGA-CAATCTGTGT,16695125,16436644,258481,0,0.0005,0.9845,0.0155,0.0
OvarianNP_FFPE_L02_RNA_01_B23LG7FLT4_1,"5,6,7,8",ACTTCAACAG-GCGTGAGCAT,17839955,17482214,357741,0,0.0005,0.9799,0.0201,0.0
OvarianNP_FFPE_L05_RNA_01_B23LG7FLT4_1,"5,6,7,8",TGGACAATAG-GAGTCCTGTG,48475141,47435920,1039221,0,0.0015,0.9786,0.0214,0.0
OvarianN_FFPE_L03_RNA_01_B23LG7FLT4_1,"1,2,3,4",CACTAGACTT-TGTGGATTAG,6491904,6278238,213666,0,0.0002,0.9671,0.0329,0.0
OvarianN_FFPE_L03_RNA_01_B23LG7FLT4_2,"5,6,7,8",TCTTAGGTGG-GATCACTGGT,195770788,192695237,3075551,0,0.006,0.9843,0.0157,0.0
OvarianN_FFPE_L04_RNA_01_B23LG7FLT4_1,"5,6,7,8",AGGTATTCGG-AGATGTGCGC,503106710,484903659,18203051,0,0.0154,0.9638,0.0362,0.0
RT4_FFPE_RNA_0001_B23LG7FLT4_1,"1,2,3,4",TCACCGTGGT-TCGCTCTGCT,386433180,374022634,12410546,0,0.0118,0.9679,0.0321,0.0
RT4_FFPE_RNA_0001_B23LG7FLT4_2,"1,2,3,4",CGGATCATTA-CCGTAACCTT,374402249,359856881,14545368,0,0.0114,0.9612,0.0388,0.0
RT4_FFPE_RNA_0001_B23LG7FLT4_3,"1,2,3,4",CAAGACGGAC-GTACTCCGTC,315072446,304780301,10292145,0,0.0096,0.9673,0.0327,0.0
SK-BR-3_FFPE_01_RNA_0001_B23LG7FLT4_1,"1,2,3,4",TTGTGAGAAG-TTCACTGGCT,654884306,634776365,20107941,0,0.02,0.9693,0.0307,0.0
SK-BR-3_FFPE_01_RNA_0001_B23LG7FLT4_2,"1,2,3,4",GCAGAAGTCT-CTGCGTCGAA,591065579,571395124,19670455,0,0.018,0.9667,0.0333,0.0
SK-BR-3_FFPE_01_RNA_0001_B23LG7FLT4_3,"1,2,3,4",TGTCGGTGCT-AGTTCTTCCG,562734423,545007840,17726583,0,0.0172,0.9685,0.0315,0.0
SW780_FFPE_RNA_0001_B23LG7FLT4_1,"1,2,3,4",TTGCCGTATC-ACATTAGCGG,366947484,354658049,12289435,0,0.0112,0.9665,0.0335,0.0
SW780_FFPE_RNA_0001_B23LG7FLT4_2,"1,2,3,4",TACCTAGACT-GCATTCGAAT,380476223,363264623,17211600,0,0.0116,0.9548,0.0452,0.0
SW780_FFPE_RNA_0001_B23LG7FLT4_3,"1,2,3,4",TGTGATCGCG-AGACGAGTCT,363036674,348410911,14625763,0,0.0111,0.9597,0.0403,0.0
SkinN_FFPE_L01_RNA_01_B23LG7FLT4_1,"1,2,3,4",ATAGAGTTCG-GCATAACGGC,10108986,9720075,388911,0,0.0003,0.9615,0.0385,0.0
SkinN_FFPE_L01_RNA_01_B23LG7FLT4_2,"5,6,7,8",TATCATGTCG-TAATCTGCAC,115367823,113465293,1902530,0,0.0035,0.9835,0.0165,0.0
SkinN_FFPE_L02_RNA_01_B23LG7FLT4_1,"5,6,7,8",GTGAGAGTAT-ATCTGTGAGG,83106995,81560363,1546632,0,0.0025,0.9814,0.0186,0.0
SkinN_FFPE_L04_RNA_01_B23LG7FLT4_1,"5,6,7,8",AACATAAGGC-GTTAGCTTAG,371430344,364304779,7125565,0,0.0113,0.9808,0.0192,0.0
SkinN_FFPE_L07_RNA_01_B23LG7FLT4_1,"5,6,7,8",CTGGAGAATA-TCCATACAAC,221740431,216767114,4973317,0,0.0068,0.9776,0.0224,0.0
SkinN_FFPE_L08_RNA_01_B23LG7FLT4_1,"5,6,7,8",TCAATCAGAG-GACTCTGGTT,74464669,72424303,2040366,0,0.0023,0.9726,0.0274,0.0
SkinN_FFPE_L09_RNA_01_B23LG7FLT4_1,"5,6,7,8",TTGCAATGCG-CGAGACTTCA,487642108,476586205,11055903,0,0.0149,0.9773,0.0227,0.0
U118MG_FFPE_RNA_0001_B23LG7FLT4_1,"1,2,3,4",TCCGGAGAAC-ATTCCTCTGG,547849826,530013015,17836811,0,0.0167,0.9674,0.0326,0.0
U118MG_FFPE_RNA_0001_B23LG7FLT4_2,"1,2,3,4",GATAGATCAG-CGTACGCCAT,576428001,556443428,19984573,0,0.0176,0.9653,0.0347,0.0
U118MG_FFPE_RNA_0001_B23LG7FLT4_3,"1,2,3,4",GCGAAGAATT-TCACGGATGA,574008244,553498866,20509378,0,0.0175,0.9643,0.0357,0.0
Undetermined,"1,2,3,4,5,6,7,8",,2128960884,2128960884,0,0,0.065,1.0,0.0,0.0