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 F8 I0 R2	296	77.6	4260404	88.1%	3753415	61.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	2,732,305:1	+G	40.4%	coding (375/723 nt)	yheO →	predicted DNA‑binding transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	2,732,305	1	.	G	40.4%	‑4.6 / 213.5	94	coding (375/723 nt)	yheO	predicted DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand): ref base . (28/28); new base G (12/26); total (40/54)
Fisher's exact test for biased strand distribution p-value = 9.16e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 101 total aligned reads displayed.

CAAAAGCGGCGTATTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGCACCTTTGTGCC  >  minE/2732242‑2732370

cAAAAGCGGCGTATTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTctgc                                                            <  1:1736123/71‑1 (MQ=255)

cAAAAGCGGCGTATTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTctgc                                                            <  1:2177251/71‑1 (MQ=255)

cAAAAGCGGCGTATTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTctgc                                                            <  1:2359767/71‑1 (MQ=255)

cAAAAGCGGCGTATTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTctgc                                                            <  1:251267/71‑1 (MQ=255)

cAAAAGCGGCGTATTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTctgc                                                            <  1:3552073/71‑1 (MQ=255)

 aaaaGCGGCGTATTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATTGGGTctgc                                                            >  1:1018707/1‑71 (MQ=255)

  aaaGCGGCGTATTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAAtt                                                                    >  1:2472001/1‑62 (MQ=255)

  aaaGCGGCGTATTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAAtt                                                                    >  1:2765272/1‑62 (MQ=255)

  aaaGCGGCGTATTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAAtt                                                                    >  1:935935/1‑62 (MQ=255)

          gTATTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCaa                                                  <  1:1333228/71‑1 (MQ=255)

          gTATTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCaa                                                  <  1:1800759/71‑1 (MQ=255)

            aTTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCAt                                                     <  1:2105032/66‑1 (MQ=255)

            aTTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCAt                                                     <  1:2093422/66‑1 (MQ=255)

            aTTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCAt                                                     <  1:2845758/66‑1 (MQ=255)

             ttAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATTGGGTctgc                                                            <  1:1143926/59‑1 (MQ=39)

             ttAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATTGGGTctgc                                                            <  1:258993/59‑1 (MQ=39)

             ttAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAata                                                >  1:1574106/1‑71 (MQ=255)

             ttAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑gg                                                                 >  1:737913/1‑53 (MQ=255)

             ttAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑gg                                                                 >  1:2953810/1‑53 (MQ=255)

               aaTGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATg                                              >  1:1004231/1‑70 (MQ=255)

               aaTGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATg                                              >  1:1342922/1‑70 (MQ=255)

               aaTGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATg                                              >  1:3648428/1‑70 (MQ=255)

                aTGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATg                                              <  1:1093120/70‑1 (MQ=255)

                 tGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGt                                                                >  1:1072174/1‑50 (MQ=255)

                 tGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCaa                                                  <  1:3842145/64‑1 (MQ=255)

                 tGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCaa                                                  <  1:2101245/64‑1 (MQ=255)

                 tGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCaa                                                  <  1:3573616/64‑1 (MQ=255)

                 tGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCaa                                                  <  1:1863834/64‑1 (MQ=255)

                 tGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCaa                                                  <  1:1697183/64‑1 (MQ=255)

                    aGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCt                                         >  1:2075082/1‑71 (MQ=255)

                    aGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCt                                         >  1:696982/1‑71 (MQ=255)

                    aGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCt                                         >  1:721060/1‑71 (MQ=255)

                     gTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCtt                                        <  1:1571625/71‑1 (MQ=255)

                            aCTATCGCGATTCGTAACCGCGAACAGCGTGTAATTGGGTctgc                                                            <  1:1967503/44‑1 (MQ=38)

                            aCTATCGCGATTCGTAACCGCGAACAGCGTGTAATTGGGTctgc                                                            <  1:2034493/44‑1 (MQ=38)

                            aCTATCGCGATTCGTAACCGCGAACAGCGTGTAATTGGGTctgc                                                            <  1:3028731/44‑1 (MQ=38)

                            aCTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGa                                             >  1:3134895/1‑58 (MQ=255)

                            aCTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTcc                                <  1:964103/71‑1 (MQ=255)

                              tATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCtgtg                                                        >  1:4009426/1‑45 (MQ=255)

                              tATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCtgtg                                                        >  1:878990/1‑45 (MQ=255)

                              tATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATc                                                    <  1:535299/49‑1 (MQ=255)

                                tCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTtc                            >  1:3776414/1‑71 (MQ=255)

                                  gcgATTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATc                                          >  1:3926808/1‑56 (MQ=255)

                                  gcgATTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATc                                          >  1:2119771/1‑56 (MQ=255)

                                  gcgATTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATc                                          >  1:3636297/1‑56 (MQ=255)

                                  gcgATTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATc                                          >  1:3231046/1‑56 (MQ=255)

                                  gcgATTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATc                                          >  1:4147914/1‑56 (MQ=255)

                                  gcgATTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGtt                                  <  1:1844952/64‑1 (MQ=255)

                                  gcgATTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTtct                           >  1:2805539/1‑71 (MQ=255)

                                  gcgATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCt                                         >  1:1942959/1‑56 (MQ=255)

                                  gcgATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCt                                         >  1:3692190/1‑56 (MQ=255)

                                  gcgATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTtctc                          >  1:4090793/1‑71 (MQ=255)

                                     aTTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCtt                                        <  1:1662652/55‑1 (MQ=255)

                                     aTTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCtt                                        <  1:293809/55‑1 (MQ=255)

                                     aTTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCtt                                        <  1:1089928/55‑1 (MQ=255)

                                     aTTCGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCtt                                        <  1:1334309/55‑1 (MQ=255)

                                      ttCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCtt                                        <  1:3218837/53‑1 (MQ=255)

                                        cGTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCg                         >  1:786270/1‑67 (MQ=255)

                                        cGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGAt                    >  1:3863758/1‑71 (MQ=255)

                                        cGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGAt                    >  1:3618277/1‑71 (MQ=255)

                                         gTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGAt                    <  1:2225082/71‑1 (MQ=255)

                                         gTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGAt                    <  1:717688/71‑1 (MQ=255)

                                         gTAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGAt                    <  1:2114203/71‑1 (MQ=255)

                                         gTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCaa                                                  <  1:1879665/40‑1 (MQ=255)

                                         gTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGAtt                   <  1:2551081/71‑1 (MQ=255)

                                         gTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGAt                    <  1:841027/70‑1 (MQ=255)

                                         gTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGAt                    <  1:313865/70‑1 (MQ=255)

                                          tAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGAtt                   <  1:3400289/71‑1 (MQ=255)

                                          tAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGAtt                   <  1:751634/71‑1 (MQ=255)

                                          tAACCGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGAtt                   <  1:2035379/71‑1 (MQ=255)

                                          tAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGAt                    <  1:2724493/69‑1 (MQ=255)

                                            aCCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGa                                      >  1:4052202/1‑49 (MQ=255)

                                            aCCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTAt                 <  1:1513053/70‑1 (MQ=255)

                                             ccGCGAACAGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATg                <  1:4089867/71‑1 (MQ=255)

                                               gcgAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGc             <  1:2282447/71‑1 (MQ=255)

                                               gcgAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGc             <  1:193099/71‑1 (MQ=255)

                                               gcgAACAGCGTGTAATT‑‑GTCTGCTGTGCATCAATATGAATCTTGATGTTcc                                >  1:688445/1‑51 (MQ=255)

                                                     aGCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGCACCtt        <  1:1032078/71‑1 (MQ=255)

                                                      gCGTGTAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGCACCttt       <  1:2307204/71‑1 (MQ=255)

                                                      gCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGCACCTTtg      >  1:1500453/1‑71 (MQ=255)

                                                      gCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGCACCTTtg      >  1:216027/1‑71 (MQ=255)

                                                      gCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGCACCTTtg      >  1:2123227/1‑71 (MQ=255)

                                                      gCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGCACCTTtg      >  1:17111/1‑71 (MQ=255)

                                                      gCGTGTAATT‑GGGCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGAt                    <  1:1184392/57‑1 (MQ=255)

                                                         tgtAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGAt                    <  1:3099070/55‑1 (MQ=255)

                                                         tgtAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGCACCTTtgtg    <  1:310658/71‑1 (MQ=255)

                                                         tgtAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTACCTTCTCGCatat                    <  1:3863098/55‑1 (MQ=255)

                                                         tgtAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGCa            >  1:2650002/1‑62 (MQ=255)

                                                         tgtAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGCa            >  1:626827/1‑62 (MQ=255)

                                                          gtAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGCACCTTTGTgcc  >  1:2909601/1‑71 (MQ=255)

                                                           tAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGCACCTTtgt     <  1:2451025/68‑1 (MQ=255)

                                                           tAATTGGGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGCACCTTtgt     <  1:4084858/68‑1 (MQ=255)

                                                             aTT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCa                       >  1:1989054/1‑47 (MQ=255)

                                                             aTT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCa                       >  1:519146/1‑47 (MQ=255)

                                                             aTT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCa                       >  1:749759/1‑47 (MQ=255)

                                                             aTT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCa                       >  1:2514090/1‑47 (MQ=255)

                                                             aTT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCa                       >  1:2074808/1‑47 (MQ=255)

                                                             aTT‑GGTATGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCa                       >  1:499/1‑47 (MQ=255)

                                                              tt‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGAtt                   <  1:3100981/50‑1 (MQ=255)

                                                              tt‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTAGCAGAtt                   <  1:1223297/50‑1 (MQ=255)

CAAAAGCGGCGTATTAATGAAGTCCCTGACTATCGCGATTCGTAACCGCGAACAGCGTGTAATT‑GGTCTGCTGTGCATCAATATGAATCTTGATGTTCCCTTCTCGCAGATTATGAGCACCTTTGTGCC  >  minE/2732242‑2732370

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 21 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A