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
A2 F1 I0 R1 4577 57.4 3436498 77.7% 2670158 63.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 412,911 T→C 61.5% Q424Q (CAA→CAG)  lnt ← apolipoprotein N‑acyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE412,9110TC61.5% 38.2 / 42.3 70Q424Q (CAA→CAG) lntapolipoprotein N‑acyltransferase
Reads supporting (aligned to +/- strand):  ref base T (10/17);  new base C (8/35);  total (18/52)
Fisher's exact test for biased strand distribution p-value = 1.00e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01

Only 100 of 104 total aligned reads displayed.

CCGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCGG  >  minE/412843‑412979
                                                                    |                                                                    
ccGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAgtgt                                                                      >  1:1213030/1‑69 (MQ=255)
ccGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAgtgt                                                                      >  1:1560750/1‑69 (MQ=255)
ccGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAgtgt                                                                      >  1:1859251/1‑69 (MQ=255)
ccGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAgtgt                                                                      >  1:568601/1‑69 (MQ=255)
ccGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAgtgt                                                                      >  1:623037/1‑69 (MQ=255)
ccGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAgtgt                                                                      >  1:654117/1‑69 (MQ=255)
ccGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAgtgt                                                                      >  1:2933919/1‑69 (MQ=255)
ccGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAgtgt                                                                      >  1:907686/1‑69 (MQ=255)
ccGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAgtgt                                                                      >  1:270154/1‑69 (MQ=255)
ccGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCAAGCGCACGCATTCGCGCCATCTGGAAgtgt                                                                      >  1:1946686/1‑69 (MQ=255)
cagttgttGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAgtgt                                                                      >  1:2695746/3‑69 (MQ=255)
     gttgGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCa                                                                 >  1:1529112/1‑69 (MQ=255)
       tgGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCAt                                                                <  1:468385/68‑1 (MQ=255)
        ggTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATg                                                               <  1:2056416/68‑1 (MQ=255)
        ggTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATg                                                               <  1:1988976/68‑1 (MQ=255)
        ggTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATg                                                               <  1:1977970/68‑1 (MQ=255)
        ggTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATg                                                               <  1:2546811/68‑1 (MQ=255)
        ggTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATg                                                               <  1:2242975/68‑1 (MQ=255)
        ggTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATg                                                               <  1:193335/68‑1 (MQ=255)
        ggTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATg                                                               <  1:2698436/68‑1 (MQ=255)
        ggTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATg                                                               <  1:508427/68‑1 (MQ=255)
        ggTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATg                                                               <  1:906554/68‑1 (MQ=255)
        ggTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATg                                                               <  1:1141707/68‑1 (MQ=255)
        ggTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATg                                                               <  1:754586/68‑1 (MQ=255)
        ggTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATg                                                               <  1:1446024/68‑1 (MQ=255)
              gcgcAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATGGAcc                                                           >  1:280023/1‑66 (MQ=255)
              gcgcAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATGGAcc                                                           >  1:873613/1‑66 (MQ=255)
              gcgcAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATGGAcc                                                           >  1:2307213/1‑66 (MQ=255)
              gcgcAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATGGAcc                                                           >  1:2073807/1‑66 (MQ=255)
              gcgcAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATGGAcc                                                           >  1:992936/1‑66 (MQ=255)
              gcgcAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATGGAcc                                                           >  1:1631692/1‑66 (MQ=255)
              gcgcAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGCTGCCATGGAc                                                            >  1:1734267/1‑65 (MQ=255)
                   aCAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGAtt                                                   <  1:917203/69‑1 (MQ=255)
                   aCAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGAtt                                                   <  1:702687/69‑1 (MQ=255)
                   aCAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGAtt                                                   <  1:43326/69‑1 (MQ=255)
                      gTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTAc                                                <  1:1929214/69‑1 (MQ=255)
                      gTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTAc                                                <  1:2166241/69‑1 (MQ=255)
                      gTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTAc                                                <  1:3061090/69‑1 (MQ=255)
                      gTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTAc                                                <  1:2077022/69‑1 (MQ=255)
                      gTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTAc                                                <  1:2426985/69‑1 (MQ=255)
                      gTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTAc                                                <  1:3280013/69‑1 (MQ=255)
                        gggCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCa                                              <  1:34661/69‑1 (MQ=255)
                        gggCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCa                                              >  1:1946055/1‑69 (MQ=255)
                         ggCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCaa                                             <  1:814621/69‑1 (MQ=255)
                                  gCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGc                                                                   <  1:1257736/38‑1 (MQ=255)
                                     ccAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCGt                                 >  1:1871953/1‑69 (MQ=255)
                                        gcgcACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGAtt                                                   <  1:2677117/48‑1 (MQ=255)
                                             ctcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:446358/67‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:103146/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:2839220/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:2896197/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:3100486/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:595649/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:3280841/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:422128/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:525434/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:1246462/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:1570363/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:1400705/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:2096917/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:2185811/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:1204419/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:2205091/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:2249382/69‑1 (MQ=255)
                                             cgcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:1171634/69‑1 (MQ=255)
                                              gcaTTCGCGCCATCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATa                         <  1:3222195/68‑1 (MQ=255)
                                                   cgcgCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCAt                                    >  1:795146/1‑52 (MQ=255)
                                                   cgcgCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGgaga                           <  1:1348661/61‑1 (MQ=255)
                                                   cgcgCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGgaga                           >  1:2303042/1‑61 (MQ=255)
                                                   cgcgCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGgaga                           >  1:553400/1‑61 (MQ=255)
                                                   cgcgCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGgaga                           <  1:1498282/61‑1 (MQ=255)
                                                   cgcgCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGgaga                           <  1:2436909/61‑1 (MQ=255)
                                                   cgcgCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGgag                            >  1:1088289/1‑60 (MQ=255)
                                                   cgcgCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTc                      >  1:1025786/1‑66 (MQ=255)
                                                   cgcgCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTc                      >  1:312404/1‑66 (MQ=255)
                                                          tCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGt            <  1:1848766/69‑1 (MQ=255)
                                                          tCTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGt            <  1:850175/69‑1 (MQ=255)
                                                           cTGGAAGTGCTGCCATGGACCAATAGACTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGt            <  1:593535/68‑1 (MQ=255)
                                                                   gtTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCgg         <  1:2540620/63‑1 (MQ=255)
                                                                   gtTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCgg         <  1:1893140/63‑1 (MQ=255)
                                                                   gtTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCgg         <  1:2734290/63‑1 (MQ=255)
                                                                   gtTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCgg         <  1:792478/63‑1 (MQ=255)
                                                                   gtTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCgg         <  1:2160386/63‑1 (MQ=255)
                                                                   gtTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCgg         <  1:1604947/63‑1 (MQ=255)
                                                                   gtTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCACCAGATAGTCgg         <  1:2325026/63‑1 (MQ=255)
                                                                   gtTGCCATGGACCAATAGATTTACCAAACAACGCATCGTTGGAGATAGTCAGCAGATAGTCgg         <  1:129508/63‑1 (MQ=255)
                                                                    ttGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCgg         <  1:1212280/62‑1 (MQ=255)
                                                                    ttGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCgg  >  1:3145895/1‑69 (MQ=255)
                                                                    ttGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCgg  >  1:1825712/1‑69 (MQ=255)
                                                                    ttGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCgg  >  1:1154593/1‑69 (MQ=255)
                                                                    ttGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCgg  >  1:2259797/1‑69 (MQ=255)
                                                                    ttGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCgg  >  1:1184524/1‑69 (MQ=255)
                                                                    ttGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCgg  >  1:1812055/1‑69 (MQ=255)
                                                                    ttGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCgg  >  1:834287/1‑69 (MQ=255)
                                                                    ttGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCgg  >  1:1199496/1‑69 (MQ=255)
                                                                    ttGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCgg  >  1:2201432/1‑69 (MQ=255)
                                                                    ttGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCgg  >  1:1990047/1‑69 (MQ=255)
                                                                    ttGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCgg  >  1:3107741/1‑69 (MQ=255)
                                                                    ttGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCgc  >  1:28528/1‑68 (MQ=255)
                                                                    ttGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCg   >  1:1682258/1‑68 (MQ=255)
                                                                    |                                                                    
CCGTTGTTGGTGCTGCGCAACAGTGGGCGCGCCAGCTCCAGCGCACGCATTCGCGCCATCTGGAAGTGTTGCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCGG  >  minE/412843‑412979

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