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 2,320,617 C→T S40N (AGC→AAC)  rcsC ← hybrid sensory kinase in two‑component regulatory system with RcsB and YojN

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb2,320,6170CT100.0% 214.1 / NA 77S40N (AGC→AAC) rcsChybrid sensory kinase in two‑component regulatory system with RcsB and YojN
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (0/77);  total (0/77)

ACGATATCAATATGATTCTTGCTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGTTTT  >  W3110S.gb/2320596‑2320657
                     |                                        
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:455753/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:561326/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:555133/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:551003/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:530300/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:487559/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:470684/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:47048/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:461471/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:563819/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:454872/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:432314/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:414006/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:405616/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:402675/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:393707/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1009910/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:350032/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:790746/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:992751/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:981614/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:963181/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:928542/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:92466/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:905750/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:866943/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:855575/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:371308/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:789566/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:702954/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:680938/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:66800/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:655782/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:652816/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:651406/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:586091/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1161390/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1351729/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:347041/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1309875/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:129241/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1271981/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1265981/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1188773/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1178164/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1168129/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1332710/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1156956/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1152984/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1108643/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1081599/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1080344/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1053110/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1031250/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1014003/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1464540/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:345871/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:330955/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:315543/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:273603/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:26214/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:250916/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:207357/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1374081/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1440847/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1426801/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:140610/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1403476/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1402953/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1383782/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1381864/62‑1 (MQ=255)
aCGATATCAATATGATTCTTGTTAAGTACATCAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:449684/62‑1 (MQ=255)
 ctatatCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:639900/59‑1 (MQ=255)
 cGATATCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:1057129/61‑1 (MQ=255)
      tCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:496069/56‑1 (MQ=255)
      tCAATATGATTCTTGTTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGtttt  <  1:992378/56‑1 (MQ=255)
              aTTCTTGTTAAGTACATTAAGCGAATCGACGCCATCATTCGCGGtttt  <  1:617114/48‑1 (MQ=38)
                     |                                        
ACGATATCAATATGATTCTTGCTAAGTACATTAAGCGCATCGACGCCATCATTCGCGGTTTT  >  W3110S.gb/2320596‑2320657

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A