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 2,439,549 C→T 44.8% V365V (GTG→GTA)  ilvC ← ketol‑acid reductoisomerase, NAD(P)‑binding

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,439,5490CT44.8% 24.3 / 88.7 110V365V (GTG→GTA) ilvCketol‑acid reductoisomerase, NAD(P)‑binding
Reads supporting (aligned to +/- strand):  ref base C (8/52);  new base T (35/14);  total (43/67)
Fisher's exact test for biased strand distribution p-value = 8.21e-10
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.42e-01

Only 100 of 110 total aligned reads displayed.

ATATGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAATCATCAGTACGCCTTTATCGAAGTACTCCTGCTCGCCGATTTTGCCTTCAT  >  minE/2439483‑2439610
                                                                  |                                                             
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:366522/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:179676/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:2117208/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:2305574/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:2560891/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:2571453/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:2714750/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:2815239/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:2949008/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:1079359/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:429914/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:466753/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:592625/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:708072/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:789300/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:863577/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:880250/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:1289354/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:1284325/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:1410896/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:1171758/69‑1 (MQ=255)
atatGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTAAc                                                             <  1:114885/69‑1 (MQ=255)
   tGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCAc                                                             <  1:72857/66‑1 (MQ=255)
     cAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATc                                                         >  1:2676521/1‑68 (MQ=255)
          tctTCGATGATGCCGGAATCAACCATGGTTTCAAACTCCAACTCAACGCCTGCTTTTACCATCGCGatc                                                   >  1:1684764/1‑69 (MQ=255)
          tctTCGATGATGCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGatc                                                   >  1:1111401/1‑69 (MQ=255)
          tctTCGATGATGCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGatc                                                   >  1:744707/1‑69 (MQ=255)
          tctTCGATGATGCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGatc                                                   >  1:753982/1‑69 (MQ=255)
          tctTCGATGATGCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGatc                                                   >  1:1262569/1‑69 (MQ=255)
          tctTCGATGATGCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGatc                                                   >  1:103095/1‑69 (MQ=255)
          tctTCGATGATGCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGatc                                                   >  1:2402000/1‑69 (MQ=255)
          tctTCGATGATGCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGatc                                                   >  1:3077571/1‑69 (MQ=255)
          tctTCGATGATGCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGatc                                                   >  1:2519116/1‑69 (MQ=255)
          tctTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAatc                                                   >  1:3144318/1‑69 (MQ=255)
          tctTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAatc                                                   >  1:135680/1‑69 (MQ=255)
          tctTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAat                                                    >  1:3181218/1‑68 (MQ=255)
                atgatgCCGGAATCGAGCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAatcatc                                                <  1:2956986/66‑1 (MQ=255)
                atgatgCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAatcatc                                                <  1:1325765/66‑1 (MQ=255)
                atgatgCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAatcatc                                                <  1:1350197/66‑1 (MQ=255)
                atgatgCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAatcatc                                                <  1:274342/66‑1 (MQ=255)
                atgatgCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAatcatc                                                <  1:3168586/66‑1 (MQ=255)
                atgatgCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAatcatc                                                <  1:1546740/66‑1 (MQ=255)
                atgatgCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAatcatc                                                <  1:751958/66‑1 (MQ=255)
                atgatgCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAatcatc                                                <  1:1773915/66‑1 (MQ=255)
                atgatgCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAatcatc                                                <  1:847354/66‑1 (MQ=255)
                atgatgCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAatcatc                                                <  1:1423978/66‑1 (MQ=255)
                atgatgCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAATCATCAg                                              <  1:747094/68‑1 (MQ=255)
                atgatgCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAATCATCAg                                              <  1:3185525/68‑1 (MQ=255)
                 tgatgCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAATCATCAGTa                                            <  1:1643091/69‑1 (MQ=255)
                  gatgCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAATCATCAGTa                                            <  1:1973441/68‑1 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:2987486/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:662912/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:950326/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:885345/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:3256387/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:447391/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:567570/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:822403/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:595857/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:64500/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:722120/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:1149744/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:1557789/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:1811497/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:1882685/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:1422337/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:2143389/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:21591/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:246220/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:2571512/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:2582695/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:2761832/1‑69 (MQ=255)
                  gatgCCGGAATCAACCATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:1321545/1‑69 (MQ=255)
                  gatgCCGGAATCAACAATGGTTTCAAACGCCAACTCAACGCCTGCTTTTACCATCGCGATCATCAGTAc                                           >  1:3226208/1‑69 (MQ=255)
                        ggAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAatcatc                                                <  1:2855503/58‑1 (MQ=255)
                                ccATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAATCATCAGTACGCCTTTATCGAAg                              <  1:2931062/68‑1 (MQ=255)
                                ccATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAATCATCAGTACGCCTTTATCGAAg                              <  1:63579/68‑1 (MQ=255)
                                ccATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAATCATCAGTACGCCTTTATCGAAg                              <  1:2829540/68‑1 (MQ=255)
                                ccATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAATCATCAGTACGCCTTTATCGAAg                              <  1:451198/68‑1 (MQ=255)
                                ccATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAATCATCAGTACGCCTTTATCGAAg                              <  1:1268706/68‑1 (MQ=255)
                                     gTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAATCATCAGTACGCCTTTATCGAAGTACTcc                        >  1:354062/1‑69 (MQ=255)
                                     gTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAATCATCAGTACGCCTTTATCGAAGTACTcc                        >  1:3405036/1‑69 (MQ=255)
                                        tCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAATCAT‑AGTACGCCTTTATCGAAGTACTCCTGCt                    >  1:454727/1‑69 (MQ=255)
                                             cGCCAGTTCAACGCCCGCTTTCACCATCGCAATCATCAGTa                                            <  1:531034/41‑1 (MQ=255)
                                                          cccGCTTTCACCATCGCAATCATCAGTACGCCTTTATCGAAGTACTCCTGCTCGCCGATTTTGCCTTCa   <  1:2303700/69‑1 (MQ=255)
                                                          cccGCTTTCACCATCGCAATCATCAGTACGCCTTTATCGAAGTACTCCTGCTCGCCGATTTTGCCTTCa   <  1:1714603/69‑1 (MQ=255)
                                                           ctgCTTTTACCATCGCGATCATCAGTACGCCTTTATCGAAGTACTCCTGTTCACCGATTTTGCCTTCAt  <  1:1507216/67‑1 (MQ=255)
                                                           ctgCTTTTACCATCGCGATCATCAGTACGCCTTTATCGAAGTACTCCTGTTCACCGATTTTGCCTTCAt  <  1:1449830/67‑1 (MQ=255)
                                                           ctgCTTTTACCATCGCGATCATCAGTACGCCTTTATCGAAGTACTCCTGTTCACCGATTTTGCCTTCAt  <  1:2908527/67‑1 (MQ=255)
                                                           ctgCTTTTACCATCGCGATCATCAGTACGCCTTTATCGAAGTACTCCTGTTCACCGATTTTGCCTTCAt  <  1:861423/67‑1 (MQ=255)
                                                           ctgCTTTTACCATCGCGATCATCAGTACGCCTTTATCGAAGTACTCCTGTTCACCGATTTTGCCTTCAt  <  1:3372345/67‑1 (MQ=255)
                                                           ctgCTTTTACCATCGCGATCATCAGTACGCCTTTATCGAAGTACTCCTGTTCACCGATTTTGCCTTCAt  <  1:1973008/67‑1 (MQ=255)
                                                           ctgCTTTTACCATCGCGATCATCAGTACGCCTTTATCGAAGTACTCCTGTTCACCGATTTTGCCTTCAt  <  1:2132531/67‑1 (MQ=255)
                                                           ctgCTTTTACCATCGCGATCATCAGTACGCCTTTATCGAAGTACTCCTGTTCACCGATTTTGCCTTCAt  <  1:751126/67‑1 (MQ=255)
                                                           ctgCTTTTACCATCGCGATCATCAGTACGCCTTTATCGAAGTACTCCTGTTCACCGATTTTGCCTTCAt  <  1:2884817/67‑1 (MQ=255)
                                                           ctgCTTTTACCATCGCGATCATCAGTACGCCTTTATCGAAGTACTCCTGTTCACCGATTTTGCCTTCAt  <  1:2349725/67‑1 (MQ=255)
                                                           ctgCTTTTACCATCGCGATCATCAGTACGCCTTTATCGAAGTACTCCTGTTCACCGATTTTGCCTTCAt  <  1:430240/67‑1 (MQ=255)
                                                           ccGCTTTCACCATCGCAATCATCAGTACGCCTTTATCGAAGTACTCCTGCTCGCCGATTTTGCCTTCAt  <  1:857752/69‑1 (MQ=255)
                                                           ccGCTTTCACCATCGCAATCATCAGTACGCCTTTATCGAAGTACTCCTGCTCGCCGATTTTGCCTTCAt  <  1:2205888/69‑1 (MQ=255)
                                                            tgCTTTTACCATCGCGATCATCAGTACGCCTTTATCGAAGTACTCCTGTTCACCGATTTTGCCTTCAt  <  1:2055025/67‑1 (MQ=255)
                                                                  |                                                             
ATATGCAGACTCTTCAATGATGCCGGAATCGACCATGGTTTCGAACGCCAGTTCAACGCCCGCTTTCACCATCGCAATCATCAGTACGCCTTTATCGAAGTACTCCTGCTCGCCGATTTTGCCTTCAT  >  minE/2439483‑2439610

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