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 278,229 A→T 47.5% V294V (GTT→GTA)  cyoB ← cytochrome o ubiquinol oxidase subunit I

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE278,2290AT47.5% 9.7 / 118.9 99V294V (GTT→GTA) cyoBcytochrome o ubiquinol oxidase subunit I
Reads supporting (aligned to +/- strand):  ref base A (35/17);  new base T (10/37);  total (45/54)
Fisher's exact test for biased strand distribution p-value = 6.19e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 102 total aligned reads displayed.

CAGCGAGGTATAACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATGTACATCATCA  >  minE/278163‑278296
                                                                  |                                                                   
cAGCGAGGTATAACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAc                                                                   >  1:3376075/1‑69 (MQ=255)
cAGCGAGGTATAACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAc                                                                   >  1:1166289/1‑69 (MQ=255)
cAGCGAGGTATAACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAc                                                                   >  1:2385297/1‑69 (MQ=255)
cAGCGAGGTATAACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAc                                                                   >  1:1208032/1‑69 (MQ=255)
cAGCGAGGTATAACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAc                                                                   >  1:2314370/1‑69 (MQ=255)
cAGCGAGGTATAACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAc                                                                   >  1:2262286/1‑69 (MQ=255)
       gTATAACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAcaggcagg                                                            <  1:648857/69‑1 (MQ=255)
       gTATAACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAcaggcagg                                                            <  1:559651/69‑1 (MQ=255)
       gTATAACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAcaggcagg                                                            <  1:1353640/69‑1 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAca                                                                  <  1:1040519/60‑1 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAca                                                                  <  1:916273/60‑1 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAca                                                                  <  1:3320857/60‑1 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAca                                                                  <  1:2065618/60‑1 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAca                                                                  <  1:2027416/60‑1 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAca                                                                  <  1:1687562/60‑1 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAca                                                                  <  1:1655088/60‑1 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGcaggatc                                                         >  1:3199077/1‑69 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGcaggatc                                                         >  1:727378/1‑69 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGcaggatc                                                         >  1:2929877/1‑69 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGcaggatc                                                         >  1:1118027/1‑69 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGcaggatc                                                         >  1:1303607/1‑69 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGcaggatc                                                         >  1:853535/1‑69 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGcaggatc                                                         >  1:1571211/1‑69 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGcaggatc                                                         >  1:117007/1‑69 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGcaggatc                                                         >  1:760789/1‑69 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGcaggatc                                                         >  1:512504/1‑69 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGcagga                                                           >  1:2139375/1‑67 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGcagga                                                           >  1:687786/1‑67 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGcagga                                                           >  1:1098369/1‑67 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGcagga                                                           >  1:553276/1‑67 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGcagga                                                           >  1:477082/1‑67 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGcagga                                                           >  1:413822/1‑67 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGcagga                                                           >  1:1329590/1‑67 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGcagga                                                           >  1:2802471/1‑67 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGcagga                                                           >  1:154508/1‑67 (MQ=255)
          taACCAAACAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGcagga                                                           >  1:3058169/1‑67 (MQ=255)
           aaCCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAca                                                                  <  1:2351565/59‑1 (MQ=255)
            aCCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGcaggatcag                                                       >  1:3229196/1‑69 (MQ=255)
            aCCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGcaggatcag                                                       >  1:1391014/1‑69 (MQ=255)
            aCCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGcaggatcag                                                       >  1:1905962/1‑69 (MQ=255)
            aCCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGcaggatcag                                                       >  1:784576/1‑69 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATAGAGGCAGGATCAAGATGTa                                                 <  1:1417637/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:388163/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:2586721/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:353481/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:263909/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:795328/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:1532364/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:2915767/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:1488099/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:3320478/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:2985949/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:299987/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:1482094/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:329545/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:2171688/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:392209/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:1727783/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:45413/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:242473/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:1944079/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:1222153/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:1947021/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:1248693/69‑1 (MQ=255)
                  cAGACGTTTACGCGAGAAAGTTGCCGCAACTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTa                                                 <  1:1957854/69‑1 (MQ=255)
                   aGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAAcaggcagg                                                            <  1:2222585/57‑1 (MQ=255)
                       gTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGCAGGATCAGGATGTAAACtt                                            >  1:1856277/1‑69 (MQ=255)
                              cgAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTAAACTTCCGGGt                                      <  1:457929/68‑1 (MQ=255)
                              cgAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTAAACTTCCGGGt                                      <  1:3391965/68‑1 (MQ=255)
                              cgAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTAAACTTCCGGGt                                      <  1:541417/68‑1 (MQ=255)
                              cgAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTAAACTTCCGGGt                                      <  1:2795747/68‑1 (MQ=255)
                              cgAGAAAGTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTAAACTTCCGGGt                                      <  1:244358/68‑1 (MQ=255)
                                  aaagTTGCCGCAATTTCTGAGAACACACCGAATACAGGCAGGATCAAGATGTAAACTTCCGGGTGGccc                                 <  1:3278274/66‑1 (MQ=255)
                                  aaagTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTAAACTTCCGGGTGGccc                                 <  1:1006728/66‑1 (MQ=255)
                                  aaagTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTAAACTTCCGGGTGGccc                                 <  1:1236754/66‑1 (MQ=255)
                                  aaagTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTAAACTTCCGGGTGGccc                                 <  1:2430594/66‑1 (MQ=255)
                                  aaagTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTAAACTTCCGGGTGGccc                                 <  1:252492/66‑1 (MQ=255)
                                  aaagTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTAAACTTCCGGGTGGccc                                 <  1:2585867/66‑1 (MQ=255)
                                   aagTTGCCGCAATTTCGGAGAACACACCGAATACAGGCAGGATCAAGATGTAAACTTCCGGGTGGccc                                 <  1:288394/66‑1 (MQ=255)
                                     gTTGCCGCAATTTCGGAGAACACACCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAg                              >  1:3128391/1‑69 (MQ=255)
                                     gTTGCCGCAATTTCGGAGAACACACCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAg                              >  1:1079156/1‑69 (MQ=255)
                                      ttGCCGCAATTTCGGAGAACACACCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAgg                             >  1:690156/1‑69 (MQ=255)
                                      ttGCCGCAATTTCGGAGAACACACCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAgg                             >  1:3060425/1‑69 (MQ=255)
                                                       aaCACACCTAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATg            <  1:2634631/69‑1 (MQ=255)
                                                       aaCACACCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATg            <  1:3387688/69‑1 (MQ=255)
                                                       aaCACACCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATg            <  1:338664/69‑1 (MQ=255)
                                                       aaCACACCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATg            <  1:2286187/69‑1 (MQ=255)
                                                        acacacCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATg            <  1:2843396/68‑1 (MQ=255)
                                                         cacacCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATg            >  1:2411051/1‑67 (MQ=255)
                                                         cacacCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATg            >  1:2977684/1‑67 (MQ=255)
                                                         cacacCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATg            >  1:1158295/1‑67 (MQ=255)
                                                         cacacCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATg            >  1:2533609/1‑67 (MQ=255)
                                                         cacacCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATGTa          >  1:2402473/1‑69 (MQ=255)
                                                         cacacCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATGTa          >  1:2462927/1‑69 (MQ=255)
                                                         cacacCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATGTa          >  1:1771698/1‑69 (MQ=255)
                                                         cacacCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATGTa          >  1:2636648/1‑69 (MQ=255)
                                                              cGAATACAGGCAGGATCAAGATGTAAACTTCCGGGTGGccc                                 <  1:1550264/41‑1 (MQ=38)
                                                                 aaaCAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATGTAcatcatca  <  1:2236717/69‑1 (MQ=255)
                                                                 aaaCAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATGTAcatcatca  <  1:1728090/69‑1 (MQ=255)
                                                                 aaaCAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATGTAcatcatca  <  1:1349402/69‑1 (MQ=255)
                                                                  |                                                                   
CAGCGAGGTATAACCAAACAGACGTTTACGCGAGAAGGTTGCCGCAATTTCGGAGAACACACCGAAAACAGGCAGGATCAGGATGTAAACTTCCGGGTGGCCCCAGGCCCAAATCAGGTTGATGTACATCATCA  >  minE/278163‑278296

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