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 345,177 A→C 29.0% R42R (CGA→CGC)  ybbM → predicted inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE345,1770AC29.0% 66.5 / 34.9 62R42R (CGA→CGC) ybbMpredicted inner membrane protein
Reads supporting (aligned to +/- strand):  ref base A (16/28);  new base C (14/4);  total (30/32)
Fisher's exact test for biased strand distribution p-value = 4.68e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GTGGCAATCTTAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGGATGATGC  >  minE/345109‑345239
                                                                    |                                                              
gtggCAATCTTAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGgcga                                                                >  1:3199732/1‑69 (MQ=255)
gtggCAATCTTAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGgcga                                                                >  1:1233654/1‑69 (MQ=255)
gtggCAATCTTAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGgcga                                                                >  1:1397451/1‑69 (MQ=255)
gtggCAATCTTAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGgcga                                                                >  1:227454/1‑69 (MQ=255)
        cTTAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATaa                                                         >  1:1259820/1‑68 (MQ=255)
        cTTAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATaa                                                         >  1:3029015/1‑68 (MQ=255)
               aGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGgcgcgcga                                                            <  1:2642311/58‑1 (MQ=255)
               aGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGgcgcgcga                                                            <  1:192948/58‑1 (MQ=255)
               aGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGgcgcgcga                                                            <  1:3111463/58‑1 (MQ=255)
               aGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGgcgcgcga                                                            <  1:2839593/58‑1 (MQ=255)
               aGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGgcgcgcga                                                            <  1:913049/58‑1 (MQ=255)
                gCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGgcgcgcga                                                            <  1:1589435/57‑1 (MQ=255)
                    tAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGatta                                             <  1:1676503/68‑1 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGCGCGATAAt                                                        >  1:2395115/1‑56 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGCGCGATAATTCAGCTg                                                 >  1:2773748/1‑63 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGCGCGATAATTCAGCTg                                                 >  1:2690743/1‑63 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGCGCGATAATTCAGCTg                                                 >  1:2162211/1‑63 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGCGCGATAATTCAGCTg                                                 >  1:3131808/1‑63 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGCGCGATAATTCAGCTg                                                 >  1:2048275/1‑63 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGCGCGATAATTCAGCTg                                                 >  1:2646047/1‑63 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGCGCGATAATTCAGCTg                                                 >  1:1127697/1‑63 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGCGCGATAATTCAGCTg                                                 >  1:1817759/1‑63 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGCGCGATAATTCAGCTg                                                 >  1:1305194/1‑63 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGCGCGATAATTCAGCTg                                                 >  1:1422739/1‑63 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGCGCGATAATTCAGCTg                                                 >  1:1671402/1‑63 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGCGCGATAATTCAGCTg                                                 >  1:583974/1‑63 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGCGCGATAATTCAGCTg                                                 >  1:1740550/1‑63 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGattatt                                           <  1:342743/69‑1 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGattatt                                           <  1:2663496/69‑1 (MQ=255)
                     aaaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGattatt                                           <  1:1784551/69‑1 (MQ=255)
                      aaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTg                                                 >  1:785398/1‑62 (MQ=255)
                      aaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTg                                          >  1:1810376/1‑69 (MQ=255)
                      aaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTg                                          >  1:1620738/1‑69 (MQ=255)
                      aaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTg                                          >  1:2034848/1‑69 (MQ=255)
                      aaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTg                                          >  1:2506527/1‑69 (MQ=255)
                      aaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTg                                          >  1:550937/1‑69 (MQ=255)
                      aaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTg                                          >  1:1153218/1‑69 (MQ=255)
                        gAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGt                                         >  1:1725434/1‑68 (MQ=255)
                           aaaCTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGc                                     >  1:3110738/1‑69 (MQ=255)
                           aaaCTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGc                                     >  1:2709410/1‑69 (MQ=255)
                           aaaCTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGc                                     >  1:50862/1‑69 (MQ=255)
                           aaaCTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGc                                     >  1:1132149/1‑69 (MQ=255)
                           aaaCTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGc                                     >  1:2048794/1‑69 (MQ=255)
                             aCTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTa                                   <  1:3294497/69‑1 (MQ=255)
                             aCTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTa                                   <  1:2573019/69‑1 (MQ=255)
                             aCTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTa                                   <  1:2514265/69‑1 (MQ=255)
                             aCTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTa                                   <  1:2499037/69‑1 (MQ=255)
                             aCTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTa                                   <  1:236626/69‑1 (MQ=255)
                             aCTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTa                                   <  1:2258760/69‑1 (MQ=255)
                             aCTGGCGCTGGAGAAAGATATTCTCTGGAGCGTAGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTa                                   <  1:1842782/69‑1 (MQ=255)
                                  cgcTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGattatt                                           <  1:1686177/56‑1 (MQ=255)
                                         gaAAGATATTCTCTGGAGCGTCGGGCGAGCTATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGta                       <  1:717685/69‑1 (MQ=255)
                                         gaAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGta                       <  1:3387094/69‑1 (MQ=255)
                                         gaAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGta                       <  1:684924/69‑1 (MQ=255)
                                         gaAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGta                       <  1:2665270/69‑1 (MQ=255)
                                         gaAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGta                       <  1:2601797/69‑1 (MQ=255)
                                         gaAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGta                       <  1:2629164/69‑1 (MQ=255)
                                                          gCGTCGGGCGCGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTg          <  1:672570/65‑1 (MQ=255)
                                                          gCGTCGGGCGCGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTg          <  1:505411/65‑1 (MQ=255)
                                                          gCGTCGGGCGCGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTg          <  1:26187/65‑1 (MQ=255)
                                                          gCGTCGGGCGCGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTg          <  1:2210283/65‑1 (MQ=255)
                                                          gCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGgat       <  1:332375/68‑1 (MQ=255)
                                                          gCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGgat       <  1:2026651/68‑1 (MQ=255)
                                                          gCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGgat       <  1:1810652/68‑1 (MQ=255)
                                                          gCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGgat       <  1:564370/68‑1 (MQ=255)
                                                          gCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGgat       <  1:2114355/68‑1 (MQ=255)
                                                          gCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGgat       <  1:3004079/68‑1 (MQ=255)
                                                          gCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGgat       <  1:1378373/68‑1 (MQ=255)
                                                          gCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGgat       <  1:898062/68‑1 (MQ=255)
                                                          gCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGgat       <  1:1296231/68‑1 (MQ=255)
                                                           cggcGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGgat       <  1:2227849/64‑1 (MQ=255)
                                                               gggCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGGATGATGc  >  1:1825518/1‑68 (MQ=255)
                                                                    |                                                              
GTGGCAATCTTAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGGATGATGC  >  minE/345109‑345239

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