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 2,964,544 G→A S50S (AGC→AGT)  lgt ← phosphatidylglycerol‑prolipoprotein diacylglyceryl transferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb2,964,5440GA100.0% 204.7 / NA 72S50S (AGC→AGT) lgtphosphatidylglycerol‑prolipoprotein diacylglyceryl transferase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (0/72);  total (0/72)

ATAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCGCTGCCCGGACGATTCGCCCGTCGTG  >  W3110S.gb/2964508‑2964569
                                    |                         
attgagTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:321859/59‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:270747/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:466544/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:451686/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:381445/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:371263/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:350346/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:299770/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:283688/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:485607/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:268865/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:267691/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:255024/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:250949/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:24103/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:222150/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:17391/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:703205/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:937966/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:925356/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:898220/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:790521/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:741199/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:732164/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:72029/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:704616/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1101170/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:701248/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:698961/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:662382/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:565502/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:559767/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:522444/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:507014/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:163685/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1148235/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1154699/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1163678/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1179414/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:118792/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1235106/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:125640/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1269885/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1270484/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1271108/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1288693/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:132990/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1337130/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1338730/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1395419/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1411357/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1411966/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1501278/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:170982/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1528091/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1608744/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1606987/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1542646/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1408914/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1595180/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1603101/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTTCATTTTTGGGCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1170742/62‑1 (MQ=255)
aTAGAGTAAGTTTTCAACTGCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1623928/62‑1 (MQ=255)
 tAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCcgtcgtt  <  1:1571987/61‑2 (MQ=255)
 tAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1298707/61‑1 (MQ=255)
         gTTTTCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1249368/53‑1 (MQ=255)
            ttCAACTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:66133/50‑1 (MQ=255)
               aaCTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:569038/47‑1 (MQ=255)
               aaCTTCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:214051/47‑1 (MQ=255)
                  ttCATTTTTGGTCCAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:542810/44‑1 (MQ=255)
                      tttttGGTCCAGCCAATGCCCGGACGATTCGCGCGTCgtg  <  1:1089366/40‑1 (MQ=37)
                         ttGGTCAAGCCACTGCCCGGACGATTCGCCCGTCgtg  <  1:1540705/37‑1 (MQ=38)
                                    |                         
ATAGAGTAAGTTTTCAACTTCATTTTTGGTCCAGCCGCTGCCCGGACGATTCGCCCGTCGTG  >  W3110S.gb/2964508‑2964569

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