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 2,473,223 C→T 39.3% H166H (CAC→CAT)  glmS → L‑glutamine:D‑fructose‑6‑phosphate aminotransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,473,2230CT39.3% 49.2 / 62.0 94H166H (CAC→CAT) glmSL‑glutamine:D‑fructose‑6‑phosphate aminotransferase
Reads supporting (aligned to +/- strand):  ref base C (13/44);  new base T (15/22);  total (28/66)
Fisher's exact test for biased strand distribution p-value = 1.05e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.64e-01

CTGCGTGCTATCCCGCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGGATGGGCG  >  minE/2473164‑2473284
                                                           |                                                             
cTGCGTGCTATCCCGCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCg                                                            <  1:623857/63‑1 (MQ=255)
cTGCGTGCTATCCCGCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCg                                                            <  1:3313682/63‑1 (MQ=255)
cTGCGTGCTATCCCGCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCg                                                            <  1:2863938/63‑1 (MQ=255)
cTGCGTGCTATCCCGCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCg                                                            <  1:2482043/63‑1 (MQ=255)
cTGCGTGCTATCCCGCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCg                                                            <  1:1760140/63‑1 (MQ=255)
cTGCGTGCTATCCCGCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCg                                                            <  1:1703100/63‑1 (MQ=255)
cTGCGTGCTATCCCGCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCg                                                            <  1:1612437/63‑1 (MQ=255)
cTGCGTGCTATCCCGCAGCTGCGTGGTGCGTACGGTACAGTAATCATGGACTCCCGTCACCCg                                                            <  1:1644029/63‑1 (MQ=255)
 tGCGTGCTATCCCGCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCg                                                            <  1:524220/62‑1 (MQ=255)
          tCCCGCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTggcgg                                            >  1:700030/1‑69 (MQ=255)
          tCCCGCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTggcgg                                            >  1:2854956/1‑69 (MQ=255)
          tCCCGCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTggcgg                                            >  1:2585195/1‑69 (MQ=255)
            ccGCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCa                                          >  1:2907537/1‑69 (MQ=255)
            ccGCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCa                                          >  1:2221779/1‑69 (MQ=255)
              gCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCg                                                            <  1:1071582/49‑1 (MQ=255)
                    gCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCg                                                            <  1:2999997/43‑1 (MQ=255)
                    gCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:3301927/69‑1 (MQ=255)
                       tggtgCGTACGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:2769292/66‑1 (MQ=255)
                            cGTACGGTACAGTGATCATGGACTCCCGTCACCCg                                                            <  1:594811/35‑1 (MQ=255)
                            cGTACGGTACAGTGATCATGGACTCCCGTCACCCg                                                            <  1:1053534/35‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:1306466/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:714226/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:729980/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:1371608/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:688895/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:859256/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:2405812/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:3303612/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:2269128/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:3070392/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:2765518/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:1730124/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:3260006/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:3325673/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:207998/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:2070729/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:2064945/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:92568/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:607516/60‑1 (MQ=255)
                             gTACGGTACAGTGATCATGGACTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:2007602/60‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGTGGCACGTTCTGGTAGTCCGCTGGt                      <  1:1745348/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:620645/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:2628926/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:2830813/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:2855940/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:1306535/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:120853/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:850309/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:862103/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:1215020/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:2207568/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:2193779/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:2177505/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:1534531/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:2018748/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:465815/69‑1 (MQ=255)
                                cGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:1454971/69‑1 (MQ=255)
                                            cATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTggg          <  1:2266898/69‑1 (MQ=255)
                                            cATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTggg          <  1:1890113/69‑1 (MQ=255)
                                             aTGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:2312625/56‑1 (MQ=255)
                                                gACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGGAt       >  1:1387158/1‑68 (MQ=255)
                                                gACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGGATg      >  1:449128/1‑69 (MQ=255)
                                                gACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGGATg      >  1:560756/1‑69 (MQ=255)
                                                gACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGGATg      >  1:1556858/1‑69 (MQ=255)
                                                gACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGGATg      >  1:2043581/1‑69 (MQ=255)
                                                gACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGGATg      >  1:1476195/1‑69 (MQ=255)
                                                 aCTCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:2684926/40‑1 (MQ=255)
                                                 aCTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGt                      <  1:3208961/52‑1 (MQ=255)
                                                   tCCCGTCATCCGGATACCCTGCTGGCGGCACGTTCTgg                                  <  1:399676/38‑1 (MQ=255)
                                                    cccGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGGATGGGc   >  1:510597/1‑68 (MQ=255)
                                                    cccGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGGATGGGc   >  1:546920/1‑68 (MQ=255)
                                                     ccGTCATCCGGATACCCTGCTGGCGGCAGGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGTATGGGCg  >  1:1388571/1‑68 (MQ=255)
                                                     ccGTCATCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTgg                       >  1:2130519/1‑47 (MQ=255)
                                                     ccGTCATCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGTGTATGGGCg  >  1:10810/1‑68 (MQ=255)
                                                     ccGTCATCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGTATGGGCg  >  1:677149/1‑68 (MQ=255)
                                                     ccGTCATCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGTATGGGCg  >  1:974258/1‑68 (MQ=255)
                                                     ccGTCATCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGTATGGGCg  >  1:983114/1‑68 (MQ=255)
                                                     ccGTCATCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGTATGGGCg  >  1:309098/1‑68 (MQ=255)
                                                     ccGTCATCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGTATGGGCg  >  1:1862197/1‑68 (MQ=255)
                                                     ccGTCATCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGTATGGGCg  >  1:2306725/1‑68 (MQ=255)
                                                     ccGTCATCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGTATGGGCg  >  1:2556639/1‑68 (MQ=255)
                                                     ccGTCATCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGTATGGGCg  >  1:2569708/1‑68 (MQ=255)
                                                     ccGTCATCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGTATGGGCg  >  1:2570821/1‑68 (MQ=255)
                                                     ccGTCATCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGTATGGGCg  >  1:1315116/1‑68 (MQ=255)
                                                     ccGTCATCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGTATGGGCg  >  1:3362470/1‑68 (MQ=255)
                                                     ccGTCATCCGGATACCCTGCTGGCGGCACGGTCTGGTAGTCCGCTg                        >  1:2585803/1‑46 (MQ=255)
                                                     ccGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTg                     <  1:2787973/49‑1 (MQ=255)
                                                     ccGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTg                     <  1:2811769/49‑1 (MQ=255)
                                                     ccGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTg                     <  1:254972/49‑1 (MQ=255)
                                                     ccGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTg                     <  1:2409859/49‑1 (MQ=255)
                                                     ccGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTg                     <  1:2036071/49‑1 (MQ=255)
                                                     ccGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTg                     <  1:956496/49‑1 (MQ=255)
                                                     ccGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTg                     <  1:1568843/49‑1 (MQ=255)
                                                     acGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTg                     <  1:2597920/48‑1 (MQ=255)
                                                           |                                                             
CTGCGTGCTATCCCGCAGCTGCGTGGTGCGTACGGTACAGTGATCATGGACTCCCGTCACCCGGATACCCTGCTGGCGGCACGTTCTGGTAGTCCGCTGGTGATTGGCCTGGGGATGGGCG  >  minE/2473164‑2473284

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