Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A5 F28 I2 R1 721 0.0 1472758 54.8% 807071 56.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA W3110S.gb 2,064,317 A→T intergenic (‑247/‑80) nac ← / → asnV DNA‑binding transcriptional dual regulator/tRNA‑Asn

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb2,064,3170AT80.4% 297.4 / 62.7 148intergenic (‑247/‑80)nac/asnVDNA‑binding transcriptional dual regulator/tRNA‑Asn
Reads supporting (aligned to +/- strand):  ref base A (13/16);  new base T (119/0);  total (132/16)
Fisher's exact test for biased strand distribution p-value = 6.21e-14
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 148 total aligned reads displayed.

AAGATTGAAAGCTCACCACTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGCATTTCACCCTTTGACATCACCA  >  W3110S.gb/2064285‑2064361
                                |                                            
aaGATTGAAAGCTCACCACTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGc                        <  1:5517/55‑1 (MQ=255)
aaGATTGAAAGCTCACCACTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGc                        <  1:286029/55‑1 (MQ=255)
aaGATTGAAAGCTCACCACTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGc                        <  1:107614/55‑1 (MQ=255)
aaGATTGAAAGCTCACCACTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGc                        <  1:578169/55‑1 (MQ=255)
aaGATTGAAAGCTCACCACTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGc                        <  1:452191/55‑1 (MQ=255)
aaGATTGAAAGCTCACCACTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGc                        <  1:671281/55‑1 (MQ=255)
aaGATTGAAAGCTCACCACTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGc                        <  1:684206/55‑1 (MQ=255)
aaGATTGAAAGCTCACCACTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGc                        <  1:1437585/55‑1 (MQ=255)
aaGATTGAAAGCTCACCACTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGc                        <  1:73511/55‑1 (MQ=255)
 aGATTGAAAGCTCACCACTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGc                        <  1:113698/54‑1 (MQ=255)
          gCTCGCCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:247315/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACaaaaaaa                           >  1:917924/1‑42 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCAttt                    >  1:1385790/1‑49 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCAttt                    >  1:1312641/1‑49 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCAttt                    >  1:718071/1‑49 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCAttt                    >  1:930155/1‑49 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCAttt                    >  1:348559/1‑49 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCAttt                    >  1:721746/1‑49 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:438413/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:318079/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:498078/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:277555/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:455115/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:346887/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:350455/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:442625/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:426871/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:355878/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:368183/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:421215/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:405548/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:384991/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:779341/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:892035/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:887954/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:867045/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:865520/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:847213/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:822468/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:822369/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:807215/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:511909/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:709861/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:687015/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:684623/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:63082/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:588933/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:933207/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:57871/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:567842/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:117820/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1287615/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1276333/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:968254/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:12517/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1249012/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1224397/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1205052/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1201926/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1199630/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1184582/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1292952/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:116313/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:116029/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1129559/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1108732/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1016918/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1095743/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1053533/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1026767/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:102338/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1432421/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:289196/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:283852/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:247800/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:214075/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:19870/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:189013/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1465786/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1454595/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:935461/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1427849/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1409571/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1394162/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:138756/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:132691/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1320582/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:961817/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTc                   >  1:1306513/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAACAAACAAAAAAATGCATTTCAc                 >  1:1373223/1‑52 (MQ=255)
          gCTCACCACTTTGTTGAAATTGTCAGCAAAAAAACAAAAAAATGCAATTc                   >  1:1090429/1‑50 (MQ=255)
          gCTCACCACTTTGTTGAAATCGTCAGCAAACAAACAAAAAAATGCAttt                    >  1:1416920/1‑49 (MQ=39)
                cacTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGCATTTCACCCTTTGACATCACCa  >  1:971148/1‑61 (MQ=255)
                cacTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGCATTTCACCCTTTGACATCACCa  >  1:910853/1‑61 (MQ=255)
                cacTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGCATTTCACCCTTTGACATCACCa  >  1:836075/1‑61 (MQ=255)
                cacTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGCATTTCACCCTTTGACATCACCa  >  1:304261/1‑61 (MQ=255)
                cacTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGCATTTCACCCTTTGACATCACCa  >  1:1306997/1‑61 (MQ=255)
                cacTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGCATTTCACCCTTTGACATCACCa  >  1:1274808/1‑61 (MQ=255)
                cacTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGCATTTCACCCTTTGACATCACCa  >  1:1105904/1‑61 (MQ=255)
                cacTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGCATTTCACCCTCTGACATCACCa  >  1:586333/1‑61 (MQ=255)
                                |                                            
AAGATTGAAAGCTCACCACTTTGTTGAAATTGACAGCAAACAAACAAAAAAATGCATTTCACCCTTTGACATCACCA  >  W3110S.gb/2064285‑2064361

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A