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 2,015,613 A→G 37.9% Q206Q (CAA→CAG)  metC → cystathionine beta‑lyase, PLP‑dependent

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,015,6130AG37.9% 62.0 / 76.9 116Q206Q (CAA→CAG) metCcystathionine beta‑lyase, PLP‑dependent
Reads supporting (aligned to +/- strand):  ref base A (21/51);  new base G (17/27);  total (38/78)
Fisher's exact test for biased strand distribution p-value = 3.14e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01

Only 100 of 124 total aligned reads displayed.

TGGGCAGCCGGTGTGCTGTTTAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCCGTGTGCAAT  >  minE/2015557‑2015673
                                                        |                                                            
tGGGCAGCCGGTGTGCTGTTTAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCaaa                                                  >  1:2191550/1‑69 (MQ=255)
tGGGCAGCCGGTGTGCTGTTTAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCaaa                                                  >  1:1965677/1‑69 (MQ=255)
tGGGCAGCCGGTGTGCTGTTTAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCaaa                                                  >  1:902559/1‑69 (MQ=255)
tGGGCAGCCGGTGTGCTGTTTAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCaaa                                                  >  1:276144/1‑69 (MQ=255)
tGGGCAGCCGGTGTGCTGTTTAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCaaa                                                  >  1:1769024/1‑69 (MQ=255)
tGGGCAGCCGGTGTGCTGTTTAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCaaa                                                  >  1:3310937/1‑69 (MQ=255)
tGGGCAGCCGGTGTGCTGTTTAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCaaa                                                  >  1:3417085/1‑69 (MQ=255)
               cTGTTTAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAat                                                 >  1:2347776/1‑55 (MQ=255)
               cTGTTTAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAat                                                 >  1:2575534/1‑55 (MQ=255)
               cTGTTTAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAat                                                 >  1:156350/1‑55 (MQ=255)
               cTGTTTAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAat                                                 <  1:600773/55‑1 (MQ=255)
               cTGTTTAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAat                                                 <  1:1331059/55‑1 (MQ=255)
               cTGTTTAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAat                                                 <  1:1042776/55‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCaa                                                              <  1:2185658/37‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCaa                                                              <  1:2038332/37‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCaa                                                              <  1:392435/37‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCaa                                                              <  1:679977/37‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCaa                                                              <  1:3133690/37‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:1349890/67‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:1070193/67‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:1940255/67‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:1913430/67‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:2961616/67‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:3045879/67‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:1528634/67‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:121327/67‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:1600803/67‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:567928/67‑1 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGa                              >  1:239309/1‑69 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGa                              >  1:70599/1‑69 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGa                              >  1:2850382/1‑69 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGa                              >  1:1917690/1‑69 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGa                              >  1:2755589/1‑69 (MQ=255)
                    tAAGGCGCTGGATTTTGGCATAGATGTTTCTATTCaa                                                              <  1:196704/37‑1 (MQ=255)
                          gcTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCgat                        <  1:130407/69‑1 (MQ=255)
                           cTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCgat                        <  1:629988/68‑1 (MQ=255)
                           cTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCgat                        <  1:1064920/68‑1 (MQ=255)
                           cTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCgat                        <  1:3202160/68‑1 (MQ=255)
                            tGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCgatg                       <  1:865260/68‑1 (MQ=255)
                             ggATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:3303735/58‑1 (MQ=255)
                             ggATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:947001/58‑1 (MQ=255)
                             ggATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:249069/58‑1 (MQ=255)
                             ggATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:2683801/58‑1 (MQ=255)
                             ggATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:634066/58‑1 (MQ=255)
                             ggATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:450356/58‑1 (MQ=255)
                             ggATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:3233730/58‑1 (MQ=255)
                             ggATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:1787246/58‑1 (MQ=255)
                             ggATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:1952022/58‑1 (MQ=255)
                             ggATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:1593154/58‑1 (MQ=255)
                             ggATGTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCa                                <  1:1469668/58‑1 (MQ=255)
                              gATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGa                              <  1:71772/59‑1 (MQ=255)
                              gATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGa                              <  1:2858152/59‑1 (MQ=255)
                              gATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGa                              <  1:2839702/59‑1 (MQ=255)
                              gATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGa                              <  1:1255277/59‑1 (MQ=255)
                              gATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGa                              <  1:2638113/59‑1 (MQ=255)
                              gATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGa                              <  1:1831669/59‑1 (MQ=255)
                              gATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGa                              <  1:1989938/59‑1 (MQ=255)
                              gATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGa                              <  1:825790/59‑1 (MQ=255)
                              gATTTTGGCATCGATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGa                              <  1:243145/59‑1 (MQ=255)
                              gATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCgatg                       <  1:621468/66‑1 (MQ=255)
                              gATTTTGGCATCGATGTTTCTATT‑AAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCgatg                       <  1:2570400/65‑1 (MQ=255)
                                ttttGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTgg                  <  1:662774/69‑1 (MQ=255)
                                ttttGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTgg                  <  1:1374049/69‑1 (MQ=255)
                                ttttGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTgg                  <  1:3242803/69‑1 (MQ=255)
                                ttttGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTgg                  <  1:1295595/69‑1 (MQ=255)
                                ttttGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTgg                  <  1:1596769/69‑1 (MQ=255)
                                ttttGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTgg                  <  1:1927653/69‑1 (MQ=255)
                                ttttGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTgg                  <  1:2608376/69‑1 (MQ=255)
                                ttttGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTgg                  <  1:1171736/69‑1 (MQ=255)
                                ttttGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTgg                  <  1:2508662/69‑1 (MQ=255)
                                 tttGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGc                 <  1:1915594/69‑1 (MQ=255)
                                 tttGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGc                 <  1:1182721/69‑1 (MQ=255)
                                 tttGGCATCGATGTTTCTAATCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGc                 <  1:2595243/69‑1 (MQ=255)
                                          gATGTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGa                              <  1:1862956/47‑1 (MQ=255)
                                             gTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCGGtgtg      >  1:1981105/1‑68 (MQ=255)
                                             gTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCGGTGTGc     >  1:3130492/1‑69 (MQ=255)
                                             gTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCGGTGTGc     >  1:524693/1‑69 (MQ=255)
                                             gTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCGGTGTGc     >  1:495319/1‑69 (MQ=255)
                                             gTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCGGTGTGc     >  1:476418/1‑69 (MQ=255)
                                             gTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCGGTGTGc     >  1:1074456/1‑69 (MQ=255)
                                             gTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCGGTGTGc     >  1:163085/1‑69 (MQ=255)
                                             gTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCGGTGTGc     >  1:1822673/1‑69 (MQ=255)
                                             gTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCGGTGTGc     >  1:1840189/1‑69 (MQ=255)
                                             gTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCGGTGTGc     >  1:2612825/1‑69 (MQ=255)
                                             gTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCGGTGTGc     >  1:3066441/1‑69 (MQ=255)
                                             gTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCGGTGTGc     >  1:1859970/1‑69 (MQ=255)
                                             gTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCGGTGTGc     >  1:3024510/1‑69 (MQ=255)
                                             gTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCGGTGTGc     >  1:294230/1‑69 (MQ=255)
                                             gTTTCTATTCAGGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCGGTGTGc     >  1:2780494/1‑69 (MQ=255)
                                             gTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCCGTGTGc     <  1:107053/69‑1 (MQ=255)
                                             gTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCCGTGTGc     <  1:3424785/69‑1 (MQ=255)
                                             gTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCCGTGTGc     <  1:2103009/69‑1 (MQ=255)
                                             gTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCCGTGTGc     <  1:2573821/69‑1 (MQ=255)
                                             gTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCCGTGTGc     <  1:3121701/69‑1 (MQ=255)
                                             gTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCCGTGTGc     <  1:1761974/69‑1 (MQ=255)
                                             gTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCCGTGTGc     <  1:1707859/69‑1 (MQ=255)
                                                tCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCCGTGTGCaa   <  1:2821063/68‑1 (MQ=255)
                                                tCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCCGTGTGCaa   <  1:253914/68‑1 (MQ=255)
                                                tCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCCGTGTGCAAt  >  1:2770756/1‑69 (MQ=255)
                                                tCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCCGTGTGCAAt  >  1:2140365/1‑69 (MQ=255)
                                                        |                                                            
TGGGCAGCCGGTGTGCTGTTTAAGGCGCTGGATTTTGGCATCGATGTTTCTATTCAAGCCGCCACCAAATATCTGGTTGGGCATTCAGATGCGATGATTGGCACTGCCGTGTGCAAT  >  minE/2015557‑2015673

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