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 1,570,482 T→G 64.2% V274V (GTT→GTG)  nupC → nucleoside (except guanosine) transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,570,4820TG64.2% 106.2 / 78.5 106V274V (GTT→GTG) nupCnucleoside (except guanosine) transporter
Reads supporting (aligned to +/- strand):  ref base T (14/24);  new base G (48/20);  total (62/44)
Fisher's exact test for biased strand distribution p-value = 9.85e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.90e-01

Only 100 of 110 total aligned reads displayed.

ATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTG  >  minE/1570414‑1570546
                                                                    |                                                                
aTCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGtt                                                                  >  1:2178886/1‑69 (MQ=255)
aTCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGtt                                                                  <  1:759169/69‑1 (MQ=255)
aTCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGtt                                                                  >  1:3235778/1‑69 (MQ=255)
               cTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGc                                                   <  1:3034744/69‑1 (MQ=255)
                         ttATCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGtt                                                                  <  1:931616/44‑1 (MQ=255)
                             cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt                                      >  1:1031452/1‑68 (MQ=255)
                             cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt                                      >  1:2159720/1‑68 (MQ=255)
                             cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt                                      >  1:2249152/1‑68 (MQ=255)
                             cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt                                      >  1:2264164/1‑68 (MQ=255)
                             cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt                                      >  1:2397932/1‑68 (MQ=255)
                             cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt                                      >  1:2455547/1‑68 (MQ=255)
                             cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt                                      >  1:2500772/1‑68 (MQ=255)
                             cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt                                      >  1:264421/1‑68 (MQ=255)
                             cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt                                      >  1:2739212/1‑68 (MQ=255)
                             cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt                                      >  1:2958476/1‑68 (MQ=255)
                             cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt                                      >  1:2982123/1‑68 (MQ=255)
                             cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt                                      >  1:1580967/1‑68 (MQ=255)
                             cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt                                      >  1:1411120/1‑68 (MQ=255)
                             cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt                                      >  1:3267729/1‑68 (MQ=255)
                             cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt                                      >  1:1038666/1‑68 (MQ=255)
                                ccTGATCGCTGCATTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:855434/69‑1 (MQ=255)
                                ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:3002974/69‑1 (MQ=255)
                                ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:2964696/69‑1 (MQ=255)
                                ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:3096375/69‑1 (MQ=255)
                                ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:3202483/69‑1 (MQ=255)
                                ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:324491/69‑1 (MQ=255)
                                ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:2310214/69‑1 (MQ=255)
                                ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:751048/69‑1 (MQ=255)
                                ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:2251970/69‑1 (MQ=255)
                                ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:269176/69‑1 (MQ=255)
                                ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:1680707/69‑1 (MQ=255)
                                ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:2036395/69‑1 (MQ=255)
                                ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:1624449/69‑1 (MQ=255)
                                ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:1532824/69‑1 (MQ=255)
                                ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:188518/69‑1 (MQ=255)
                                ccTGATCGCCGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:1455502/69‑1 (MQ=255)
                                 cTGATCTCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:390164/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTg                                                     >  1:816104/1‑49 (MQ=25)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:1942650/68‑1 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  >  1:1415318/1‑68 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:3239472/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:126098/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:3230650/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:659935/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:3419646/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:3337454/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:446454/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:2845071/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:2817319/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:2800024/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:2770400/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:3281763/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:1928690/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:1027171/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:2638637/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:938942/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:80355/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:2574350/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:816713/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:2447063/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:1974190/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:2490730/1‑69 (MQ=255)
                                 cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:1071476/1‑69 (MQ=255)
                                 cTGATCGCTGAACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:112178/1‑69 (MQ=255)
                                 atGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  >  1:840975/2‑68 (MQ=255)
                                  tGATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:2981029/1‑68 (MQ=255)
                                  tGATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:1047235/1‑68 (MQ=255)
                                  tGATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:3108035/1‑68 (MQ=255)
                                  tGATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:304799/1‑68 (MQ=255)
                                  tGATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:2893864/1‑68 (MQ=255)
                                  tGATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg                                 >  1:1156640/1‑68 (MQ=255)
                                   gATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAggg                               >  1:2151255/1‑69 (MQ=255)
                                   gATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAggg                               >  1:2305634/1‑69 (MQ=255)
                                   gATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAggg                               >  1:1610997/1‑69 (MQ=255)
                                   gATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAggg                               >  1:626072/1‑69 (MQ=255)
                                   gATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAgg                                >  1:347520/1‑68 (MQ=255)
                                   gATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAgg                                >  1:2104051/1‑68 (MQ=255)
                                     tCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa                                  <  1:1887095/64‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTGCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:2191080/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCTATTg  <  1:1600078/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:2694981/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:969377/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:966142/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:93620/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:1809891/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:1779964/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:253428/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:2564609/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:2589014/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:1778550/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:3270483/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:2756147/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:633753/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:2826868/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:16774/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:373636/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:1226544/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:1197109/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTg  <  1:3378543/69‑1 (MQ=255)
                                                                ccGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACAACTTCTATCCGATTg  <  1:43582/69‑1 (MQ=255)
                                                                    |                                                                
ATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGGCATCCTGGGCTACATCTTCTATCCGATTG  >  minE/1570414‑1570546

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