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 R2 154 32.4 3140800 76.4% 2399571 54.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA W3110S.gb 3,824,326 T→C pseudogene (459/687 nt) rph → ECK3633:JW3618:b3643; ribonuclease PH

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb3,824,3260TC100.0% 223.3 / NA 62pseudogene (459/687 nt)rphECK3633:JW3618:b3643; ribonuclease PH
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (6/56);  total (6/56)

AGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAATCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGAATTGTGAACGG  >  W3110S.gb/3824281‑3824373
                                             |                                               
aGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg                                 <  1:1492926/62‑1 (MQ=255)
aGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg                                 <  1:1804242/62‑1 (MQ=255)
aGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg                                 <  1:1739901/62‑1 (MQ=255)
aGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg                                 <  1:1640704/62‑1 (MQ=255)
aGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg                                 <  1:1598840/62‑1 (MQ=255)
aGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg                                 <  1:1593854/62‑1 (MQ=255)
aGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg                                 <  1:2353426/62‑1 (MQ=255)
aGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg                                 <  1:2380515/62‑1 (MQ=255)
aGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg                                 <  1:1509149/62‑1 (MQ=255)
aGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg                                 <  1:1478457/62‑1 (MQ=255)
aGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg                                 <  1:2458587/62‑1 (MQ=255)
aGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg                                 <  1:2793008/62‑1 (MQ=255)
aGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg                                 <  1:684346/62‑1 (MQ=255)
aGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATgg                                 <  1:892392/62‑1 (MQ=255)
            gAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:1084173/62‑1 (MQ=255)
            gAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:293703/62‑1 (MQ=255)
            gAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:57782/62‑1 (MQ=255)
            gAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:841734/62‑1 (MQ=255)
            gAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:1369352/62‑1 (MQ=255)
            gAAGCTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:1513242/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:2595186/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:2755722/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:2928261/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:2422074/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:1413041/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:500716/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:2367135/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:2525702/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:2598703/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:2203948/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:809722/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:2162397/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:2613026/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:1945893/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:2642037/62‑1 (MQ=255)
                cTGGTGGAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:1745705/62‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:2754791/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:1071072/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:3008582/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:1308971/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:1265930/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:803717/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:1151551/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:845907/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:1749689/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:2457428/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:1782057/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:2108633/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:2318730/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:2328334/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:2367467/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:2426083/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:2711827/53‑1 (MQ=255)
                     ggAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:1345394/57‑1 (MQ=255)
                      gAAAACGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGt                 <  1:2892539/56‑1 (MQ=255)
                       aaaaCGGCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGttt                     <  1:1576550/51‑1 (MQ=255)
                            ggCAAGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCgg              >  1:1889670/1‑53 (MQ=255)
                                aGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACgg  >  1:2965032/1‑61 (MQ=255)
                                aGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACgg  >  1:2396765/1‑61 (MQ=255)
                                aGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACgg  >  1:318934/1‑61 (MQ=255)
                                aGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACgg  >  1:2180372/1‑61 (MQ=255)
                                aGCTGAAAACCAACCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGTATTGTAAACgg  >  1:2451466/1‑61 (MQ=255)
                                             |                                               
AGATGCGCTACAGAAGCTGGTGGAAAACGGCAAGCTGAAAACCAATCCGATGAAAGGGATGGTAGCCGCAGTTTCTGTCGGAATTGTGAACGG  >  W3110S.gb/3824281‑3824373

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