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 I3 R2 489 0.0 1652083 58.3% 963164 55.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA W3110S.gb 3,148,896 T→C S193S (AGT→AGC)  yghA → predicted glutathionylspermidine synthase, with NAD(P)‑binding Rossmann‑fold domain

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb3,148,8960TC94.8% 444.4 / 5.6 174S193S (AGT→AGC) yghApredicted glutathionylspermidine synthase, with NAD(P)‑binding Rossmann‑fold domain
Reads supporting (aligned to +/- strand):  ref base T (0/9);  new base C (165/0);  total (165/9)
Fisher's exact test for biased strand distribution p-value = 3.06e-15
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.72e-01

Only 100 of 174 total aligned reads displayed.

CCACTTCGTCAATCCAGGCATACCAGCCAAGTCCGCATTTACTGGACTATGCGGCTACGAAGGCGGCGATTCTGAACTACA  >  W3110S.gb/3148865‑3148945
                               |                                                 
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCAttt                                           >  1:1312184/1‑40 (MQ=38)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTa                                          >  1:560342/1‑41 (MQ=38)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTAc                         >  1:1625665/1‑58 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGaa                      >  1:973070/1‑61 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGaa                      >  1:376955/1‑61 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGaa                      >  1:708941/1‑61 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGaa                      >  1:716328/1‑61 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGaa                      >  1:189504/1‑61 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGaa                      >  1:883057/1‑61 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGaa                      >  1:117763/1‑61 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:609143/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:561362/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:586918/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:600329/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:470798/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:609708/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:625038/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:533233/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:529437/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:513791/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1003653/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:452416/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:424460/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:415493/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:406092/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:389157/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:343440/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:335498/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:851024/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:995722/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:969396/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:952917/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:92921/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:92288/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:920437/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:894332/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:881211/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:871953/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:858849/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:64723/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:831556/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:826670/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:812627/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:800738/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:7764/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:771991/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:737277/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:732342/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:679050/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:666240/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1187935/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:281456/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1443302/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1395528/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1358012/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1334314/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1323553/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:127806/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1273116/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1252653/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1199621/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1191604/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1460704/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1185366/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1166362/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1137434/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:111858/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1101064/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1071939/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1044808/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1040581/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:101785/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1005866/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1596397/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:257756/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:236676/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:219009/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:20057/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1642509/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1642297/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1615757/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1607896/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:160456/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1461061/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1579232/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1562995/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1556363/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1546596/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1498159/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1483321/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:148233/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1477035/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:1465305/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAGCCAAGCCAGCATTTACTGGACTATGCGGCTACGAAg                     >  1:35557/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATACCAG‑CAAGCCCGCATTTACTGGACTATGCGGCTACGAAgg                    >  1:669159/1‑62 (MQ=255)
ccacTTCCTCAATCCAGGCATAACAGCCAAGCCCGCATTTACTGGACTATGCGGCTACGAAg                     >  1:426775/1‑62 (MQ=255)
ccacTTACTCAATCCAGGCATACAAGCCAAGCCCGCAt                                             >  1:1398644/1‑38 (MQ=21)
ccaaTTCCTCAATCCAGGCATACCAGCCAAGCCCGCAtt                                            >  1:479256/1‑39 (MQ=37)
                   aTACCAGCCAAGTCCGCATTTACTGGACTATGCGGCTACGAAGGCGGCGATTCTGAACTACa  <  1:1317691/62‑1 (MQ=255)
                   aTACCAGCCAAGTCCGCATTTACTGGACTATGCGGCTACGAAGGCGGCGATTCTGAACTACa  <  1:961861/62‑1 (MQ=255)
                               |                                                 
CCACTTCGTCAATCCAGGCATACCAGCCAAGTCCGCATTTACTGGACTATGCGGCTACGAAGGCGGCGATTCTGAACTACA  >  W3110S.gb/3148865‑3148945

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A