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 2,087,781 T→C 33.9% F92F (TTT→TTC)  yhaH → predicted inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,087,7810TC33.9% 78.5 / 59.3 106F92F (TTT→TTC) yhaHpredicted inner membrane protein
Reads supporting (aligned to +/- strand):  ref base T (35/35);  new base C (21/15);  total (56/50)
Fisher's exact test for biased strand distribution p-value = 5.38e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 115 total aligned reads displayed.

TCAGTTCCGCCGCCTGCACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGAAAACCGCTTTGG  >  minE/2087715‑2087846
                                                                  |                                                                 
tCAGTTCCGCCGCCTGCACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTAt                                                                 >  1:2485642/1‑69 (MQ=255)
tCAGTTCCGCCGCCTGCACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTAt                                                                 >  1:2043363/1‑69 (MQ=255)
            ccTGCACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCttat                                                     <  1:821330/69‑1 (MQ=255)
            ccTGCACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCttat                                                     <  1:1038658/69‑1 (MQ=255)
            ccTGCACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCttat                                                     <  1:2133706/69‑1 (MQ=255)
            ccTGCACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCttat                                                     <  1:2768536/69‑1 (MQ=255)
            ccTGCACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCttat                                                     <  1:58846/69‑1 (MQ=255)
                cACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTtattat                                                  >  1:519002/1‑68 (MQ=255)
                cACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTatc                                                 >  1:942209/1‑69 (MQ=255)
                cACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTatc                                                 >  1:2422998/1‑69 (MQ=255)
                cACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTatc                                                 >  1:2139020/1‑69 (MQ=255)
                cACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTatc                                                 >  1:1937378/1‑69 (MQ=255)
                cACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTatc                                                 >  1:1910910/1‑69 (MQ=255)
                cACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTatc                                                 >  1:3173103/1‑69 (MQ=255)
                cACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTatc                                                 >  1:1386915/1‑69 (MQ=255)
                cACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTatc                                                 >  1:1362899/1‑69 (MQ=255)
                cACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTatc                                                 >  1:381776/1‑69 (MQ=255)
                cACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTatc                                                 >  1:1092242/1‑69 (MQ=255)
                cACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTatc                                                 >  1:119732/1‑69 (MQ=255)
                cACGACACCGACCGCTCGGCGTGGTGGGCACTGCTAGTCTTAATCCCGTTTATCGGCTGGCTTATTatc                                                 >  1:3113542/1‑69 (MQ=255)
                  cGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTatc                                                 <  1:3143134/67‑1 (MQ=255)
                  cGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTatc                                                 <  1:2331344/67‑1 (MQ=255)
                  cGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTatc                                                 <  1:1427242/67‑1 (MQ=255)
                        cgaccgCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGttt                                                                   >  1:325016/1‑43 (MQ=255)
                        cgaccgCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGttt                                                                   >  1:3136549/1‑43 (MQ=255)
                        cgaccgCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGttt                                                                   >  1:328104/1‑43 (MQ=255)
                        cgaccgCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGttt                                                                   >  1:717652/1‑43 (MQ=255)
                        cgaccgCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGttt                                                                   >  1:2897909/1‑43 (MQ=255)
                        cgaccgCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGttt                                                                   >  1:1945947/1‑43 (MQ=255)
                        cgaccgCT‑GGCGTGGTGGGCACTGCTATTCTTAATCCCGttt                                                                   >  1:1852419/1‑42 (MQ=255)
                         gaccgCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCttt                                        <  1:2145243/69‑1 (MQ=255)
                         gaccgCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCttt                                        <  1:730063/69‑1 (MQ=255)
                         gaccgCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCttt                                        <  1:1079557/69‑1 (MQ=255)
                         gaccgCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCttt                                        <  1:921433/69‑1 (MQ=255)
                         gaccgCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCttt                                        <  1:3308663/69‑1 (MQ=255)
                         gaccgCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCttt                                        <  1:3366724/69‑1 (MQ=255)
                             gCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACt                                    <  1:2259675/69‑1 (MQ=255)
                             gCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACt                                    <  1:683922/69‑1 (MQ=255)
                             gCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACt                                    <  1:1985591/69‑1 (MQ=255)
                              cTCGGCGTGGTGGGCACTGCTATTCTTAATCCAGTTTATCGGCTGGCTTATTATCATCGTCTTTAACt                                    >  1:375129/1‑68 (MQ=255)
                                       gtggGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCggg                          <  1:2334737/69‑1 (MQ=255)
                                                gCTATTCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAg                  >  1:354734/1‑68 (MQ=255)
                                                gCTATTCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAg                  >  1:24911/1‑68 (MQ=255)
                                                gCTATTCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAg                  >  1:3010450/1‑68 (MQ=255)
                                                     tCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACt                                    <  1:3203302/45‑1 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTc                                           <  1:3395605/37‑1 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTc                                           <  1:2250500/37‑1 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTc                                           <  1:2332542/37‑1 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTc                                           <  1:1055018/37‑1 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTc                                           <  1:1626074/37‑1 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTc                                           <  1:1649350/37‑1 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTc                                           <  1:2116483/37‑1 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTc                                           <  1:2805345/37‑1 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTc                                           <  1:730013/37‑1 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTc                                           <  1:780595/37‑1 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTc                                           <  1:193926/37‑1 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCTaaa            >  1:1741337/1‑68 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGaaaa           >  1:1049038/1‑69 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGaaaa           >  1:554284/1‑69 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGaaaa           >  1:1102659/1‑69 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGaaaa           >  1:2877586/1‑69 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGaaaa           >  1:2446885/1‑69 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGaaaa           >  1:2152622/1‑69 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGaaaa           >  1:838367/1‑69 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGaaaa           >  1:833319/1‑69 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGaaaa           >  1:783837/1‑69 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGaaaa           >  1:768739/1‑69 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGaaa            >  1:2592808/1‑68 (MQ=255)
                                                      cTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGaaa            >  1:3429132/1‑68 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCa                                >  1:2200755/1‑48 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGc                             >  1:1207164/1‑51 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGc                             >  1:641664/1‑51 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGc                             >  1:1235230/1‑51 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGc                             >  1:583088/1‑51 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGc                             >  1:1237100/1‑51 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGc                             >  1:1500541/1‑51 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGc                             >  1:507719/1‑51 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGc                             >  1:483725/1‑51 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGc                             >  1:1312122/1‑51 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGc                             >  1:1373613/1‑51 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGc                             >  1:1625055/1‑51 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGc                             >  1:2620889/1‑51 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGc                             >  1:3193553/1‑51 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGc                             >  1:1271379/1‑51 (MQ=255)
                                                      cTTAATCCCGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGc                             >  1:2839651/1‑51 (MQ=255)
                                                              tgTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGc                <  1:814065/55‑1 (MQ=255)
                                                              cGTTCATCGTCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGc                <  1:246033/56‑1 (MQ=39)
                                                              cGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGc                <  1:3060077/56‑1 (MQ=255)
                                                              cGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGc                <  1:2400039/56‑1 (MQ=255)
                                                              cGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGc                <  1:2669556/56‑1 (MQ=255)
                                                              cGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGc                <  1:1055098/56‑1 (MQ=255)
                                                              cGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGc                <  1:2868612/56‑1 (MQ=255)
                                                              cGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGc                <  1:1774590/56‑1 (MQ=255)
                                                              cGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGc                <  1:3014415/56‑1 (MQ=255)
                                                              cGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGc                <  1:1735980/56‑1 (MQ=255)
                                                              cGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGc                <  1:1230053/56‑1 (MQ=255)
                                                              cGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGc                <  1:1664654/56‑1 (MQ=255)
                                                              cGTTCATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGc                <  1:3271676/56‑1 (MQ=255)
                                                                  tATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGAAAACCGCTTTgg  >  1:1467186/1‑66 (MQ=255)
                                                                  tATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGAAAACCGCTTTgg  >  1:389744/1‑66 (MQ=255)
                                                                  |                                                                 
TCAGTTCCGCCGCCTGCACGACACCGACCGCTCGGCGTGGTGGGCACTGCTATTCTTAATCCCGTTTATCGGCTGGCTTATTATCATCGTCTTTAACTGCCAGGCGGGTACGCCAGGCGAAAACCGCTTTGG  >  minE/2087715‑2087846

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