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 1,570,458 G→A 67.7% A266A (GCG→GCA)  nupC → nucleoside (except guanosine) transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,570,4580GA67.7% 108.1 / 73.9 136A266A (GCG→GCA) nupCnucleoside (except guanosine) transporter
Reads supporting (aligned to +/- strand):  ref base G (34/10);  new base A (72/20);  total (106/30)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.42e-01

Only 100 of 136 total aligned reads displayed.

GGTTTCAAAGTTGCCATTATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGG  >  minE/1570396‑1570517
                                                              |                                                           
 gTTTCAAAGTTGCCATTATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACg                                                      >  1:1602064/1‑69 (MQ=255)
 gTTTCAAAGTTGCCATTATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACg                                                      >  1:2098509/1‑69 (MQ=255)
 gTTTCAAAGTTGCCATTATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACg                                                      >  1:1153482/1‑69 (MQ=255)
 gTTTCAAAGTTGCCATTATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACg                                                      >  1:338876/1‑69 (MQ=255)
 gTTTCAAAGTTGCCATTATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACg                                                      >  1:1234628/1‑69 (MQ=255)
 gTTTCAAAGTTGCCATTATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACg                                                      >  1:2291938/1‑69 (MQ=255)
   ttCAAAGTTGCCATTATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCa                                                    >  1:283621/1‑69 (MQ=255)
    tCAAAGTTGCCATTATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCAc                                                   >  1:2132322/1‑69 (MQ=255)
    tCAAAGTTGCCATTATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCAc                                                   >  1:206613/1‑69 (MQ=255)
    tCAAAGTTGCCATTATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCAc                                                   >  1:324472/1‑69 (MQ=255)
    tCAAAGTTGCCATTATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCAc                                                   >  1:544225/1‑69 (MQ=255)
                 tATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGTACGCACTGTTTGCCACCGt                                      <  1:604222/69‑1 (MQ=255)
                 tATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAATGCACTGTTTGCCACCGt                                      <  1:1197700/69‑1 (MQ=255)
                 tATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGt                                      <  1:1392839/69‑1 (MQ=255)
                 tATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGt                                      <  1:2420585/69‑1 (MQ=255)
                  aTCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCACTGTTTGc                                            >  1:1523192/1‑62 (MQ=255)
                  aTCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGtt                                     >  1:2178886/1‑69 (MQ=255)
                  aTCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGtt                                     <  1:759169/69‑1 (MQ=255)
                                 cTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGc                      <  1:3034744/69‑1 (MQ=255)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:2527348/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:2829374/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:2133143/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:86805/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:847618/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:2854810/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:2485381/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:2007355/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:218686/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:2223618/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:3089040/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:1868553/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:26480/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:410431/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:3424291/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAcc                                        >  1:1597435/1‑42 (MQ=25)
                                          tttATCGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTAc                                         >  1:949205/1‑41 (MQ=21)
                                          tttATCGCCCTGATCGCTGCACTGAACGATCTGTTTGCTAcc                                        >  1:1677962/1‑42 (MQ=16)
                                              tCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGt                                      >  1:181251/1‑40 (MQ=255)
                                              tCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGt                                      >  1:566554/1‑40 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:2958476/1‑68 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:2982123/1‑68 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:2739212/1‑68 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:3267729/1‑68 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:264421/1‑68 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:2455547/1‑68 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:2397932/1‑68 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:1031452/1‑68 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:1038666/1‑68 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:1411120/1‑68 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:1580967/1‑68 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:1705213/1‑68 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:212510/1‑68 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:2159720/1‑68 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:2249152/1‑68 (MQ=255)
                                               cGCCCTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCt         >  1:2264164/1‑68 (MQ=255)
                                                  ccTGATCGCTGCATTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa     <  1:855434/69‑1 (MQ=255)
                                                  ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa     <  1:751048/69‑1 (MQ=255)
                                                  ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa     <  1:1624449/69‑1 (MQ=255)
                                                  ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa     <  1:1680707/69‑1 (MQ=255)
                                                  ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa     <  1:1359640/69‑1 (MQ=255)
                                                  ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa     <  1:3202483/69‑1 (MQ=255)
                                                  ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa     <  1:3096375/69‑1 (MQ=255)
                                                  ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa     <  1:3002974/69‑1 (MQ=255)
                                                  ccTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa     <  1:2964696/69‑1 (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)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:80355/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:3281763/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:659935/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:126098/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:816713/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:1071476/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:446454/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:2490730/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:938942/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:2574350/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:243636/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:3337454/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:2770400/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:2800024/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:2817319/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:2648778/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:2845071/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:1974190/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:1928690/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:3230650/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:3239472/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:1027171/1‑69 (MQ=255)
                                                   cTGATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:3419646/1‑69 (MQ=255)
                                                   cTGATCGCTGAACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:112178/1‑69 (MQ=255)
                                                    tGATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:3108035/1‑68 (MQ=255)
                                                    tGATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAg    >  1:2893864/1‑68 (MQ=255)
                                                     gATCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTAGAGCATCTCCTTCCa     <  1:3226820/66‑1 (MQ=255)
                                                     gATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAggg  >  1:626072/1‑69 (MQ=255)
                                                     gATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAggg  >  1:2305634/1‑69 (MQ=255)
                                                     gATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAgg   >  1:2104051/1‑68 (MQ=255)
                                                     gATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAgg   >  1:347520/1‑68 (MQ=255)
                                                       tCGCTGCACTGAACGCTCTGTTTGCTACCGTGACTGGCTGGTTTGGCTACAGCATCTCCTTCCa     <  1:1887095/64‑1 (MQ=255)
                                                              |                                                           
GGTTTCAAAGTTGCCATTATCGTTGCCGCGATGCTGATTGGCTTTATCGCCCTGATCGCCGCGCTGAACGCACTGTTTGCCACCGTTACTGGCTGGTTTGGCTACAGCATCTCCTTCCAGGG  >  minE/1570396‑1570517

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A