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 F8 I0 R2 296 77.6 4260404 88.1% 3753415 61.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,215,064 G→A 60.4% L291L (CTG→CTA)  yebQ → predicted transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,215,0640GA60.4% 54.6 / 110.7 91L291L (CTG→CTA) yebQpredicted transporter
Reads supporting (aligned to +/- strand):  ref base G (20/16);  new base A (26/29);  total (46/45)
Fisher's exact test for biased strand distribution p-value = 5.22e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.02e-02

TGTTTTCACTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCTGACACCGTGGCCGT  >  minE/1214997‑1215134
                                                                   |                                                                      
tGTTTTCACTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGccc                                                                     >  1:3649714/1‑71 (MQ=255)
 gTTTTCACTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCt                                                                    >  1:1893621/1‑71 (MQ=255)
 gTTTTCACTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCt                                                                    >  1:3816234/1‑71 (MQ=255)
 gTTTTCACTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCt                                                                    >  1:615298/1‑71 (MQ=255)
 gTTTTCACTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCt                                                                    >  1:3283951/1‑71 (MQ=255)
    ttCACTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCttt                                                                  >  1:830104/1‑70 (MQ=255)
    ttCACTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCttt                                                                  >  1:3051003/1‑70 (MQ=255)
     tCACTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCtttt                                                                 <  1:3851707/70‑1 (MQ=255)
     tCACTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCtttt                                                                 <  1:1182239/70‑1 (MQ=255)
     tCACTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCtttt                                                                 <  1:3861016/70‑1 (MQ=255)
     tCACTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCtttt                                                                 <  1:3894815/70‑1 (MQ=255)
     tCACTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCtttt                                                                 <  1:2883712/70‑1 (MQ=255)
     tCACTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCtttt                                                                 <  1:311457/70‑1 (MQ=255)
       aCTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCTTTTAcc                                                              <  1:2623716/71‑1 (MQ=255)
          ttCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTACCTg                                                            >  1:3113463/1‑70 (MQ=255)
          ttCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTACCTg                                                            >  1:1225811/1‑70 (MQ=255)
               tttGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCTTTTACCTGCAAAc                                                       <  1:1507063/70‑1 (MQ=255)
               tttGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCtttt                                                                 <  1:639278/60‑1 (MQ=255)
               tttGCACATCTGTTTGCTCTTGCTGCGCACAAATGCTGGCAATGGGTTCCCTGCCCTTTTACCTGCAAAcc                                                      <  1:3977063/71‑1 (MQ=255)
                 tGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTAc                                                               >  1:646578/1‑60 (MQ=255)
                 tGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTAc                                                               >  1:1834166/1‑60 (MQ=255)
                    acaTCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCaaa                                                        <  1:2186860/64‑1 (MQ=255)
                    acaTCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTg                                                   >  1:2544729/1‑69 (MQ=255)
                    acaTCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCt                                                 >  1:2263762/1‑71 (MQ=255)
                    acaTCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCt                                                 <  1:1003965/71‑1 (MQ=255)
                     caTCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTc                                                <  1:2567639/71‑1 (MQ=255)
                        cTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCTTTTACCTGCAAACCGTGCTCgg                                              >  1:2506431/1‑70 (MQ=255)
                           tttGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCggg                                             <  1:1097739/68‑1 (MQ=255)
                           tttGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCggg                                             <  1:3998997/68‑1 (MQ=255)
                            ttGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCTTTTAc                                                               >  1:3648377/1‑49 (MQ=255)
                            ttGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCTTTTAc                                                               >  1:4207180/1‑49 (MQ=255)
                            ttGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCTTTTAc                                                               >  1:4241833/1‑49 (MQ=255)
                            ttGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCTTTTAc                                                               >  1:1502709/1‑49 (MQ=255)
                            ttGCTCTTTCTGCGCACAAATGCT‑GCAATGGTTTCCCTGCCCTTTTAc                                                               >  1:2408576/1‑48 (MQ=39)
                             tGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCTTTTACCTGCAAACCGTGCTCGGGCGTa                                         <  1:511291/70‑1 (MQ=255)
                                  tttCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAg                                   >  1:1372496/1‑71 (MQ=255)
                                  tttCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAgagatg                                   >  1:1534571/1‑69 (MQ=255)
                                  tttCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAgagatg                                   >  1:2571851/1‑69 (MQ=255)
                                  ttgcTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAg                                   >  1:1821537/4‑71 (MQ=255)
                                    tCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCTTTTAc                                                               >  1:1587224/1‑41 (MQ=255)
                                    tCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCTTTTAc                                                               >  1:3828855/1‑41 (MQ=255)
                                    tCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCTTTTACCTGCAAACCGTGCTCg                                               >  1:1084907/1‑57 (MQ=255)
                                    tCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTa                                                                >  1:3162181/1‑40 (MQ=255)
                                    tCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTc                                 >  1:1347481/1‑71 (MQ=255)
                                    tCTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTc                                 >  1:2240883/1‑71 (MQ=255)
                                     cagcgcACAAATGCTGGCAATGGTTTCCCTGCCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTc                                 <  1:1450829/68‑1 (MQ=255)
                                     cTGCGCACAAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTc                                 >  1:3454447/1‑70 (MQ=255)
                                        cgcACAAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGa                               <  1:3365095/69‑1 (MQ=255)
                                          cacaAATGCTGGCAATGGTTTCCCTGCCCTTTTACCTGCAAACCGTGc                                                  >  1:589432/1‑48 (MQ=255)
                                          cacaAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACa                           <  1:2748674/71‑1 (MQ=255)
                                          cacaAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACa                           <  1:4250399/71‑1 (MQ=255)
                                          cacaAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACa                           <  1:4012315/71‑1 (MQ=255)
                                          cacaAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACa                           <  1:184047/71‑1 (MQ=255)
                                          cacaAATGCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACa                           <  1:3491413/71‑1 (MQ=255)
                                           acaAATGCTGGCAATGGTTTCCCTGCCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAAc                            <  1:348016/69‑1 (MQ=255)
                                               aTGCTGGCAATGGTTTCCCTGCCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGttt                      <  1:1087480/71‑1 (MQ=255)
                                               aTGCTGGCAATGGTTTCCCTGCCATTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGttt                      <  1:2834750/71‑1 (MQ=255)
                                                tGCTGGCAATGGTTTCCCTACCCTTTTACCTGCaaa                                                        <  1:2931211/36‑1 (MQ=255)
                                                 gCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTAc                    >  1:1750347/1‑71 (MQ=255)
                                                 gCTGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTAc                    >  1:3826715/1‑71 (MQ=255)
                                                   tGGCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCt                                                 <  1:658300/40‑1 (MQ=255)
                                                     gCAATGGTTTCCCTGCCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCt                <  1:3182437/71‑1 (MQ=255)
                                                     gCAATGGTTTCCCTGCCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCt                <  1:59961/71‑1 (MQ=255)
                                                     gCAATGGTTTCCCTGCCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCt                <  1:2041030/71‑1 (MQ=255)
                                                     gCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGTCCTAGTGAAGTCGAAACAGGTTTACTTCt                <  1:2022785/71‑1 (MQ=255)
                                                     gCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAAc                            >  1:391228/1‑59 (MQ=255)
                                                     gCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAAc                            >  1:2798545/1‑59 (MQ=255)
                                                     gCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAAc                            >  1:2854910/1‑59 (MQ=255)
                                                     gCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAAc                            >  1:4241649/1‑59 (MQ=255)
                                                     gCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCt                <  1:3227424/71‑1 (MQ=255)
                                                     gCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCt                <  1:3882358/71‑1 (MQ=255)
                                                     gCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCt                <  1:3393126/71‑1 (MQ=255)
                                                     gCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCt                <  1:1356416/71‑1 (MQ=255)
                                                     gCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCt                <  1:3318174/71‑1 (MQ=255)
                                                     gCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCt                <  1:1723723/71‑1 (MQ=255)
                                                     gCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCt                <  1:2423616/71‑1 (MQ=255)
                                                     gCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCt                <  1:2884786/71‑1 (MQ=255)
                                                     gCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCt                <  1:476360/71‑1 (MQ=255)
                                                     gCAATGGTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCt                <  1:2549676/71‑1 (MQ=255)
                                                           gTTTCCCTGCCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCTGACAcc          >  1:1987984/1‑71 (MQ=255)
                                                           gTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGaaa                             >  1:1612145/1‑52 (MQ=255)
                                                           gTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGaaa                             >  1:2895278/1‑52 (MQ=255)
                                                           gTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGaaa                             >  1:3520742/1‑52 (MQ=255)
                                                           gTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGaaa                             >  1:1693638/1‑52 (MQ=255)
                                                           gTTTCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGaaa                             >  1:2592087/1‑52 (MQ=255)
                                                            tttCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCTGACACCg         <  1:1660981/71‑1 (MQ=255)
                                                            tttCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCTGACACCg         <  1:582008/71‑1 (MQ=255)
                                                             ttCCCTGCCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTg                                      <  1:1218562/41‑1 (MQ=255)
                                                              tCCCTGCCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCt                >  1:3416970/1‑62 (MQ=255)
                                                              tCCCTGCCCTTTTACCTCCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTc                 >  1:1940773/1‑61 (MQ=255)
                                                              tCCCTACCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCTGACACCGTg       >  1:3019286/1‑71 (MQ=255)
                                                                   gCCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCTGACACCGTGGCCGt  >  1:3911608/1‑71 (MQ=255)
                                                                   gCCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCTGACACCGTGGCCGt  >  1:1745044/1‑71 (MQ=255)
                                                                   |                                                                      
TGTTTTCACTTTCTATTTGCACATCTGTTTGCTCTTTCTGCGCACAAATGCTGGCAATGGTTTCCCTGCCCTTTTACCTGCAAACCGTGCTCGGGCGTAGTGAAGTCGAAACAGGTTTACTTCTGACACCGTGGCCGT  >  minE/1214997‑1215134

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