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 1,080,862 A→G 39.3% N220N (AAT→AAC)  ydhV ← predicted oxidoreductase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,080,8620AG39.3% 43.3 / 63.8 94N220N (AAT→AAC) ydhVpredicted oxidoreductase
Reads supporting (aligned to +/- strand):  ref base A (22/35);  new base G (26/11);  total (48/46)
Fisher's exact test for biased strand distribution p-value = 3.27e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01

GTACTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGTTGACCCCTTTCGTCCCTTCAACCGCAATC  >  minE/1080806‑1080925
                                                        |                                                               
gTACTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCtt                                                      <  1:1317698/68‑1 (MQ=255)
gTACTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCtt                                                      <  1:1576506/68‑1 (MQ=255)
gTACTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCtt                                                      <  1:1618911/68‑1 (MQ=255)
gTACTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCtt                                                      <  1:3419601/68‑1 (MQ=255)
gTACTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCtt                                                      <  1:393034/68‑1 (MQ=255)
gTACTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCtt                                                      <  1:83435/68‑1 (MQ=255)
gTACTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCtt                                                      <  1:901302/68‑1 (MQ=255)
gTACTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCtt                                                      <  1:966141/68‑1 (MQ=255)
gTACTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTc                                                     <  1:557363/69‑1 (MQ=255)
gTAATTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCtt                                                      <  1:1268775/68‑1 (MQ=255)
   cTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCAtc                                                  >  1:3273428/1‑69 (MQ=255)
   cTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCAtc                                                  >  1:115318/1‑69 (MQ=255)
   cTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCAtc                                                  >  1:3011750/1‑69 (MQ=255)
   cTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCAtc                                                  >  1:2704119/1‑69 (MQ=255)
   cTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCAtc                                                  >  1:2183943/1‑69 (MQ=255)
   cTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCAtc                                                  >  1:2074236/1‑69 (MQ=255)
   cTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCAtc                                                  >  1:1917360/1‑69 (MQ=255)
   cTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCAtc                                                  >  1:1708872/1‑69 (MQ=255)
   cTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCAtc                                                  >  1:1656323/1‑69 (MQ=255)
   cTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCAtc                                                  >  1:1040946/1‑69 (MQ=255)
   cTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCAtc                                                  >  1:1327364/1‑69 (MQ=255)
   cTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCAtc                                                  >  1:1214114/1‑69 (MQ=255)
   cTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCAtc                                                  >  1:1269344/1‑69 (MQ=255)
   cTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATAGAGACGCTTCAtc                                                  >  1:2927193/1‑69 (MQ=255)
        cACGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTcc                                               <  1:353258/67‑1 (MQ=255)
        cACGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTcc                                               <  1:1942144/67‑1 (MQ=255)
        cACGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTcc                                               <  1:3203171/67‑1 (MQ=255)
        cACGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTcc                                               <  1:1859540/67‑1 (MQ=255)
        cACGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTcc                                               <  1:3365160/67‑1 (MQ=255)
        cACGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTcc                                               <  1:212899/67‑1 (MQ=255)
        cACGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTcc                                               <  1:51774/67‑1 (MQ=255)
        cACGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTcc                                               <  1:136089/67‑1 (MQ=255)
        cACGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTcc                                               <  1:73499/67‑1 (MQ=255)
        cACGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTcc                                               <  1:1583394/67‑1 (MQ=255)
        cACGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTcc                                               <  1:1579486/67‑1 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGa                                            >  1:1531465/1‑68 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGa                                            >  1:2288030/1‑68 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGa                                            >  1:188463/1‑68 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:3095359/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:3039150/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:3020704/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:1318642/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:3229251/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:323995/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:2578745/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:3375474/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:2415173/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:629752/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:974109/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:187306/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:1583059/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:2181645/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:2021767/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:2089537/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:1497415/1‑69 (MQ=255)
          cGACATGGTTGTTATTCGCACCGATAAGTTCAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGAc                                           >  1:169037/1‑69 (MQ=255)
           gACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACg                                          <  1:1532258/69‑1 (MQ=255)
           gACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACg                                          <  1:1480029/69‑1 (MQ=255)
           gACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACg                                          <  1:2932032/69‑1 (MQ=255)
           gACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACg                                          <  1:2872937/69‑1 (MQ=255)
           gACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACg                                          <  1:2442788/69‑1 (MQ=255)
                 gttgttATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGc                                    <  1:888484/69‑1 (MQ=255)
                 gttgttATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGc                                    <  1:1962770/69‑1 (MQ=255)
                 gttgttATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGc                                    <  1:1880815/69‑1 (MQ=255)
                 gttgttATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGc                                    <  1:2249461/69‑1 (MQ=255)
                       aTTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:1206007/69‑1 (MQ=255)
                       aTTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:673775/69‑1 (MQ=255)
                       aTTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:1699350/69‑1 (MQ=255)
                       aTTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:3375253/69‑1 (MQ=255)
                       aTTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:1804409/69‑1 (MQ=255)
                       aTTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:1286304/69‑1 (MQ=255)
                       aTTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:2203315/69‑1 (MQ=255)
                       aTTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:2971721/69‑1 (MQ=255)
                       aTTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:2269663/69‑1 (MQ=255)
                       aTTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:140468/69‑1 (MQ=255)
                        ttCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:395190/68‑1 (MQ=255)
                        ttCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:2441607/68‑1 (MQ=255)
                          cGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:1711775/66‑1 (MQ=255)
                          cGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:1974494/66‑1 (MQ=255)
                          cGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:665547/66‑1 (MQ=255)
                          cGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGtt                              <  1:669669/66‑1 (MQ=255)
                                    aGTTCAGTCATCATGTAATCATTGAGCCGCTTCATCTCCTGACGATCGGCAATGTTGACCCCTTTCGTc                 >  1:700396/1‑69 (MQ=255)
                                    aGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGTTGACCCCTTTCGTc                 >  1:178186/1‑69 (MQ=255)
                                    aGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGTTGACCCCTTTCGTc                 >  1:2076052/1‑69 (MQ=255)
                                    aGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGTTGACCCCTTTCGTc                 >  1:1507165/1‑69 (MQ=255)
                                        cAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGACGATCGGCAATGTTGACCCCTTTCGTCCCt              >  1:1810826/1‑68 (MQ=255)
                                        cAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGACGATCGGCAATGTTGACCCCTTTCGTCCCt              >  1:1180771/1‑68 (MQ=255)
                                        cAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGACGATCGGCAATGTTGACCCCTTTCGTCCCt              >  1:797207/1‑68 (MQ=255)
                                        cAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGACGATCGGCAATGTTGACCCCTTTCGTCCCt              >  1:268938/1‑68 (MQ=255)
                                        cAGTCATCATGTAATCGTTGAGACGCTTCATCTCCTGACGATCGGCAATGTTGACCCCTTTCGTCCCt              >  1:1378453/1‑68 (MQ=255)
                                                   tAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGTTGACCCCTTTCGTCCCTTCAACCGCAATc  >  1:2531910/1‑69 (MQ=255)
                                                   tAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGTTGACCCCTTTCGTCCCTTCAACCGCAATc  >  1:652792/1‑69 (MQ=255)
                                                   tAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGTTGACCCCTTTCGTCCCTTCAACCGCAATc  >  1:1176906/1‑69 (MQ=255)
                                                   tAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGTTGACCCCTTTCGTCCCTTCAACCGCAATc  >  1:3430902/1‑69 (MQ=255)
                                                        |                                                               
GTACTTGGCACGACATGGTTGTTATTCGCACCAATAAGTTCAGTCATCATGTAATCATTGAGACGCTTCATCTCCTGACGATCGGCAATGTTGACCCCTTTCGTCCCTTCAACCGCAATC  >  minE/1080806‑1080925

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A