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 1,336,234 G→A 36.1% H229H (CAC→CAT)  gmd ← GDP‑D‑mannose dehydratase, NAD(P)‑binding

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,336,2340GA36.1% 72.6 / 61.9 105H229H (CAC→CAT) gmdGDP‑D‑mannose dehydratase, NAD(P)‑binding
Reads supporting (aligned to +/- strand):  ref base G (20/47);  new base A (15/23);  total (35/70)
Fisher's exact test for biased strand distribution p-value = 3.90e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-01

Only 100 of 105 total aligned reads displayed.

AAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCACGACTCCAGCCCCTGGGCGA  >  minE/1336175‑1336298
                                                           |                                                                
aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGcccc                                                           >  1:1545059/1‑67 (MQ=255)
aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa                                                          >  1:1727482/1‑68 (MQ=255)
aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa                                                          >  1:3423282/1‑68 (MQ=255)
aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa                                                          >  1:2202117/1‑68 (MQ=255)
aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa                                                          >  1:2060917/1‑68 (MQ=255)
aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa                                                          >  1:245572/1‑68 (MQ=255)
aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa                                                          >  1:1932457/1‑68 (MQ=255)
aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa                                                          >  1:3342658/1‑68 (MQ=255)
aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa                                                          >  1:3291667/1‑68 (MQ=255)
aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa                                                          >  1:1828488/1‑68 (MQ=255)
aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa                                                          >  1:1803991/1‑68 (MQ=255)
aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa                                                          >  1:1731790/1‑68 (MQ=255)
aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa                                                          >  1:1580017/1‑68 (MQ=255)
aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCATGGCCCCa                                                          >  1:1312983/1‑68 (MQ=255)
aaaTCTTCCGGTTGTTCCTGTTGCAGCATCATCCACAGCATTTTTACGTAGTCTTTGGCATGGCCCCa                                                          >  1:1833324/1‑68 (MQ=255)
          gCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAggg                                               <  1:3247262/69‑1 (MQ=255)
          gCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAggg                                               <  1:1777576/69‑1 (MQ=255)
          gCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAggg                                               <  1:1927089/69‑1 (MQ=255)
          gCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAggg                                               <  1:145022/69‑1 (MQ=255)
          gCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAggg                                               <  1:2160356/69‑1 (MQ=255)
                ccTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:2900276/69‑1 (MQ=255)
                ccTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGGCACGCAGGGAATCCa                                         <  1:225066/69‑1 (MQ=255)
                  tgctgcAGCATCATCTACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:1198963/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:3020657/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:228446/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:2274356/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:2952098/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:760426/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:1837841/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:2346367/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:1146580/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:1149917/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:2341379/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:3287867/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:604123/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:1541832/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:2325403/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:1413921/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCat                                        <  1:1374370/68‑1 (MQ=255)
                  tgctgcAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCAAGTCACGCAGGGAATCCat                                        <  1:752472/68‑1 (MQ=255)
                         gcaTCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCg                                 <  1:205409/68‑1 (MQ=255)
                            tcatcCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAgg                              >  1:1441782/1‑68 (MQ=255)
                              atcCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATAtt                                     >  1:2412089/1‑59 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGTCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:1058274/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:3158560/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:3413190/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:3058565/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:2467002/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:3212460/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:2615304/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:328318/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:2263887/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:447246/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:1986081/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:471411/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:506701/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:522428/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:567876/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:611549/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:1060875/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:1338470/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:755843/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:1107242/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:775138/69‑1 (MQ=255)
                                    tGCATTTTTACGTAGTCTTTGGCATGGCCCCAGTCACGAAGGGAATCCATATTGCCGAGATACAGGCAc                     <  1:423187/69‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGTAATCCa                                         <  1:441793/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:702772/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:96818/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:3221073/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:1034537/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:2873817/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:1029254/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:1111436/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:1137526/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:1240983/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:1342251/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:1441820/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:1573481/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:1983647/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:2268372/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:3166405/48‑1 (MQ=255)
                                     gCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:2481352/48‑1 (MQ=255)
                                      cATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCa                                         <  1:791278/47‑1 (MQ=255)
                                      cATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCACGa                   >  1:623432/1‑69 (MQ=255)
                                      cATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCACGa                   >  1:3268541/1‑69 (MQ=255)
                                      cATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCACGa                   >  1:2481454/1‑69 (MQ=255)
                                          tttACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCAc                     >  1:1593857/1‑63 (MQ=255)
                                          tttACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCAc                     >  1:1869392/1‑63 (MQ=255)
                                          tttACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCAc                     >  1:332053/1‑63 (MQ=255)
                                          tttACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCAc                     >  1:2322382/1‑63 (MQ=255)
                                          tttACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCAc                     >  1:694349/1‑63 (MQ=255)
                                          tttACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCAc                     >  1:69961/1‑63 (MQ=255)
                                          tttACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCAc                     >  1:503904/1‑63 (MQ=255)
                                          tttACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCAc                     >  1:2496362/1‑63 (MQ=255)
                                          tttACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCAc                     >  1:2640169/1‑63 (MQ=255)
                                          tttACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCAc                     >  1:1062526/1‑63 (MQ=255)
                                          tttACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCAc                     >  1:2326231/1‑63 (MQ=255)
                                          tttACGTAGTCTTTGGCGTGG‑‑CCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCAc                     >  1:240496/1‑61 (MQ=255)
                                          tttACGTAGTCTTTGGAGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCAc                     >  1:2041943/1‑63 (MQ=255)
                                                       tGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACATGCACGACTCCAGCCCCTGGGCGa  >  1:1830493/1‑69 (MQ=255)
                                                           |                                                                
AAATCTTCCGGCTGTTCCTGCTGCAGCATCATCCACTGCATTTTTACGTAGTCTTTGGCGTGGCCCCAGTCACGCAGGGAATCCATATTGCCGAGGTACAGGCACGACTCCAGCCCCTGGGCGA  >  minE/1336175‑1336298

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