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 808,387 T→C intergenic (‑56/+3) ybhB ← / ← bioA predicted kinase inhibitor/7,8‑diaminopelargonic acid synthase, PLP‑dependent

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb808,3870TC86.5% 470.9 / 43.8 222intergenic (‑56/+3)ybhB/bioApredicted kinase inhibitor/7,8‑diaminopelargonic acid synthase, PLP‑dependent
Reads supporting (aligned to +/- strand):  ref base T (0/30);  new base C (192/0);  total (192/30)
Fisher's exact test for biased strand distribution p-value = 8.40e-38
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.35e-01

Only 100 of 222 total aligned reads displayed.

CAGAAAGTGTAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGC  >  W3110S.gb/808352‑808422
                                   |                                   
cAGAAAGTGTATCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:974464/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCTCGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1193075/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCCCGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:920319/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCg                                   >  1:1121681/1‑38 (MQ=38)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCaaaaaa                     >  1:489127/1‑52 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAAtt                  >  1:614079/1‑54 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCAt            >  1:779634/1‑61 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:413886/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:624197/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:586063/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:569841/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:529068/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:509558/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:492157/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:468901/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:437367/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:344643/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:309893/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:408005/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:407474/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:397820/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:39702/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:364009/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:359000/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:351694/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1007009/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:831300/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:961884/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:956154/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:939372/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:895299/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:889321/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:876553/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:853551/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:85069/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:847425/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:843645/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:646953/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:816778/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:794961/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:749097/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:732030/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:728093/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:688369/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:675986/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:655955/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:654078/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1217969/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1422993/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:230269/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1397591/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1386866/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:137806/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1356936/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1316421/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1303451/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1299557/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1246691/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1228865/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1401251/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1186391/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:115259/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1143871/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1118260/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:110729/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:110063/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1088542/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1060048/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1048195/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1030655/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1459358/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:207803/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:196695/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:171523/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1644956/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1590952/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1580093/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1575607/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1454572/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1463303/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1480081/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCGTTATTGGCAAAAAAATGTTTCATc           >  1:1506145/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCCCTTATTGGCAAAAAAATGTTTCATc           >  1:428596/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGACTTCCAGTTATTGGCAAAAAAATGTTTCATc           >  1:866692/1‑62 (MQ=255)
cAGAAAGTGTAGCCAGAAACCCTCACGCTGAATTCCCGTTATTGGCAAAAAAATGTTTCAt            >  1:301228/1‑61 (MQ=255)
       tgtAGCCAGAAACCCTCA‑‑CGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACcgc  <  1:1630983/62‑1 (MQ=255)
         tacccAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACcgc  <  1:905220/59‑1 (MQ=255)
         tAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACcgc  <  1:1518491/62‑1 (MQ=255)
         tAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACcgc  <  1:1240516/62‑1 (MQ=255)
         tAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACcgc  <  1:1603822/62‑1 (MQ=255)
         tAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACcgc  <  1:1528977/62‑1 (MQ=255)
         tAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACcgc  <  1:1250460/62‑1 (MQ=255)
         tAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACcgc  <  1:382806/62‑1 (MQ=255)
         tAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACcgc  <  1:757812/62‑1 (MQ=255)
         tAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACcgc  <  1:543842/62‑1 (MQ=255)
         tAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACcgc  <  1:190066/62‑1 (MQ=255)
         tAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACcgc  <  1:1075637/62‑1 (MQ=255)
         tAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACcgc  <  1:1408638/62‑1 (MQ=255)
         tAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACcgc  <  1:1552133/62‑1 (MQ=255)
         tAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACcgc  <  1:462845/62‑1 (MQ=255)
                                   |                                   
CAGAAAGTGTAGCCAGAAACCCTCACGCGGACTTCTCGTTATTGGCAAAAAAATGTTTCATCCTGTACCGC  >  W3110S.gb/808352‑808422

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