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 1,756,442 C→T 45.1% L344L (CTA→TTA)  pssA → phosphatidylserine synthase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,756,4420CT45.1% 47.2 / 153.0 186L344L (CTA→TTA) pssAphosphatidylserine synthase
Reads supporting (aligned to +/- strand):  ref base C (38/64);  new base T (28/56);  total (66/120)
Fisher's exact test for biased strand distribution p-value = 6.45e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.27e-01

Only 100 of 189 total aligned reads displayed.

TTATCTCTATGAGATCAATCTGCGTCGTTTCCTGAGCCGTTTGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTGGGTTGATGATA  >  minE/1756375‑1756508
                                                                   |                                                                  
ttATCTCTATGAGATCAATCTGCGTCGTTTCCTGAGCCGTTTGCAGTATTACGTCAATACTGACCAGc                                                                    <  1:446337/68‑1 (MQ=255)
          gagaTCAATCTGCGTCGTTTCCTGAGTCGTTTACAGTATTACGTCAACACTGACCAGTTAGTAGTTct                                                          <  1:939776/68‑2 (MQ=255)
          gagaTCAATCTGCGTCGTTTCCTGAGTCGTTTACAGTATTACGTCAACACTGACCAGTTAGTAGTTCg                                                          <  1:2368325/68‑1 (MQ=255)
          gagaTCAATCTGCGTCGTTTCCTGAGTCGTTTACAGTATTACGTCAACACTGACCAGTTAGTAGTTCg                                                          <  1:2129218/68‑1 (MQ=255)
          gagaTCAATCTGCGTCGTTTCCTGAGTCGTTTACAGTATTACGTCAACACTGACCAGTTAGTAGTTCg                                                          <  1:2619505/68‑1 (MQ=255)
          gagaTCAATCTGCGTCGTTTCCTGAGTCGTTTACAGTATTACGTCAACACTGACCAGTTAGTAGTTCg                                                          <  1:3073973/68‑1 (MQ=255)
          gagaTCAATCTGCGTCGTTTCCTGAGTCGTTTACAGTATTACGTCAACACTGACCAGTTAGTAGTTCg                                                          <  1:2149545/68‑1 (MQ=255)
          gagaTCAATCTGCGTCGTTTCCTGAGTCGTTTACAGTATTACGTCAACACTGACCAGTTAGTAGTTCg                                                          <  1:1507944/68‑1 (MQ=255)
          gagaTCAATCTGCGTCGTTTCCTGAGTCGTTTACAGTATTACGTCAACACTGACCAGTTAGTAGTTCg                                                          <  1:429627/68‑1 (MQ=255)
          gagaTCAATCTGCGTCGTTTCCTGAGTCGTTTACAGTATTACGTCAACACTGACCAGTTAGTAGTTCg                                                          <  1:423666/68‑1 (MQ=255)
           agaTCAATCTGCGTCGTTTCCTGAGTCGTTTACAGTATTACGTCAACACTGACCAGTTAGTAGTTCg                                                          <  1:1558661/67‑1 (MQ=255)
                   cTGCGTCGTTTCCTGAGCCGTTTGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGaaa                                                <  1:2682802/69‑1 (MQ=255)
                    tGCGTCGTTTCCTGAGTCGTTTACAGTATTACGTCAACACTGACCAGTTAGTAGTTCg                                                          <  1:1399586/58‑1 (MQ=255)
                    tGCGTCGTTTCCTGAGCCGTTTGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGaaa                                                <  1:2357163/68‑1 (MQ=255)
                          gtTTCCTGAGCCGTTTGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATgac                                          >  1:918884/1‑68 (MQ=255)
                             tCCTGAGCCGTTTGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATgacgac                                       >  1:1179319/1‑68 (MQ=255)
                                 gAGCCGTTTGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGacaaca                                   <  1:3355795/68‑1 (MQ=255)
                                 gAGCCGTTTGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGacaaca                                   <  1:3336335/68‑1 (MQ=255)
                                 gAGCCGTTTGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGacaaca                                   <  1:1249782/68‑1 (MQ=255)
                                 gAGCCGTTTGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGacaaca                                   <  1:589929/68‑1 (MQ=255)
                                 gAGCCGTTTGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGacaaca                                   <  1:2202632/68‑1 (MQ=255)
                                 gAGCCGTTTGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGacaaca                                   <  1:1749154/68‑1 (MQ=255)
                                 gAGCCGTTTGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGacaaca                                   <  1:1809533/68‑1 (MQ=255)
                                      gTTTGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATc                             <  1:2818523/69‑1 (MQ=255)
                                      gTTTGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATc                             <  1:1800224/69‑1 (MQ=255)
                                         tacAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCt                                <  1:199133/61‑1 (MQ=255)
                                         tacAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCt                                <  1:1958922/61‑1 (MQ=255)
                                         tacAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCt                                <  1:2736018/61‑1 (MQ=255)
                                         tacAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCt                                <  1:2282048/61‑1 (MQ=255)
                                         tacAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCt                                <  1:2938663/61‑1 (MQ=255)
                                         tacAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCt                                <  1:3010465/61‑1 (MQ=255)
                                         tacAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCt                                <  1:3250307/61‑1 (MQ=255)
                                         tacAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCt                                <  1:64711/61‑1 (MQ=255)
                                         tacAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCt                                <  1:1011682/61‑1 (MQ=255)
                                         tGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCAc                           >  1:2248073/1‑68 (MQ=255)
                                           cAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCTATCACCt                         <  1:2504962/68‑1 (MQ=255)
                                           cAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCTATCACCt                         <  1:2328344/68‑1 (MQ=255)
                                           cAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCTATCACCt                         <  1:2747249/68‑1 (MQ=255)
                                           cAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCTATCACCt                         <  1:2276683/68‑1 (MQ=255)
                                           cAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCTATCACCt                         <  1:2951638/68‑1 (MQ=255)
                                           cAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCTATCACCt                         <  1:608397/68‑1 (MQ=255)
                                           cAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCTATCACCt                         <  1:685084/68‑1 (MQ=255)
                                           cAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCTATCACCt                         <  1:1042082/68‑1 (MQ=255)
                                           cAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCTATCACCt                         <  1:1147587/68‑1 (MQ=255)
                                           cAGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCTATCACCt                         <  1:144967/68‑1 (MQ=255)
                                            aGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATgac                                          >  1:2799500/1‑50 (MQ=255)
                                            aGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGacaa                                     >  1:1595799/1‑55 (MQ=255)
                                            aGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGacaa                                     >  1:94965/1‑55 (MQ=255)
                                            aGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGacaa                                     >  1:1130465/1‑55 (MQ=255)
                                            aGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGacaa                                     >  1:1274363/1‑55 (MQ=255)
                                            aGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGacaa                                     >  1:2986943/1‑55 (MQ=255)
                                            aGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGacaa                                     >  1:2916145/1‑55 (MQ=255)
                                            aGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGacaa                                     >  1:1805079/1‑55 (MQ=255)
                                            aGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGacaa                                     >  1:2712524/1‑55 (MQ=255)
                                            aGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGacaa                                     >  1:1869901/1‑55 (MQ=255)
                                            aGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGacaa                                     >  1:26503/1‑55 (MQ=255)
                                            aGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGacaa                                     >  1:2262929/1‑55 (MQ=255)
                                            aGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGacaa                                     >  1:2079713/1‑55 (MQ=255)
                                            aGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGacaa                                     >  1:2386005/1‑55 (MQ=255)
                                            aGTATTACGTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGacaa                                     >  1:2350388/1‑55 (MQ=255)
                                            aGTATTACGACAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGacaa                                     >  1:2856131/1‑55 (MQ=255)
                                                ttACGTCAATACTGACCAGCTATTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGATAgg                   <  1:41267/69‑1 (MQ=255)
                                                ttACGTCAATACTGACCAGCTATTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAgg                   <  1:1189713/69‑1 (MQ=255)
                                                ttACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAgg                   <  1:2345761/69‑1 (MQ=255)
                                                ttACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAgg                   >  1:452965/1‑69 (MQ=255)
                                                ttACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAgg                   <  1:3235699/69‑1 (MQ=255)
                                                ttACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAgg                   <  1:2790983/69‑1 (MQ=255)
                                                 tACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAgg                   <  1:3092827/68‑1 (MQ=255)
                                                  aCGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGa                 <  1:932620/69‑1 (MQ=255)
                                                  aCGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGa                 >  1:1568515/1‑69 (MQ=255)
                                                  aCGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGa                 <  1:147300/69‑1 (MQ=255)
                                                  aCGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGa                 <  1:1359223/69‑1 (MQ=255)
                                                    gTCAACACTGACCAGTTAGTAGTTCGGTTATGGAAAGATGACGACAACACCTATCACCt                         <  1:1657480/59‑1 (MQ=255)
                                                      cAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGAtgtg             <  1:1897055/69‑1 (MQ=255)
                                                      cAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGAtgtg             <  1:767440/69‑1 (MQ=255)
                                                      cAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGAtgtg             <  1:1928534/69‑1 (MQ=255)
                                                       aaTACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTgg            <  1:1735889/69‑1 (MQ=255)
                                                       aaTACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTgg            <  1:1714798/69‑1 (MQ=255)
                                                       aaTACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTgg            <  1:1251077/69‑1 (MQ=255)
                                                       aaTACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTgg            <  1:385948/69‑1 (MQ=255)
                                                       aaTACTGACCAGCTAGTGGTCCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTgg            <  1:203566/69‑1 (MQ=255)
                                                        aTACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGAtgtg             <  1:1967003/67‑1 (MQ=255)
                                                        aTACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTgg            <  1:1827047/68‑1 (MQ=255)
                                                          aCTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGAt                >  1:2054592/1‑62 (MQ=255)
                                                          aCTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTGGGtt         >  1:2597088/1‑69 (MQ=255)
                                                          aCTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTGGGtt         >  1:2213937/1‑69 (MQ=255)
                                                          aCTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTGGGtt         >  1:3186670/1‑69 (MQ=255)
                                                          aCTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTGGGtt         >  1:120816/1‑69 (MQ=255)
                                                          aCTGACCAGCTAGTGGTTCGGTTATAGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTGGGtt         >  1:833125/1‑69 (MQ=255)
                                                             gACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTgg            <  1:549653/63‑1 (MQ=255)
                                                              aCCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTGGGTtgat      >  1:627064/1‑68 (MQ=255)
                                                              aCCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTGGGTtgat      >  1:1085996/1‑68 (MQ=255)
                                                              aCCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTGGGTtgat      >  1:2106364/1‑68 (MQ=255)
                                                              aCCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTGGGTtgat      >  1:2576016/1‑68 (MQ=255)
                                                              aCCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTGGGTtgat      >  1:631186/1‑68 (MQ=255)
                                                              aCCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTGGGTtgat      >  1:2556185/1‑68 (MQ=255)
                                                              aCCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTGGGTtgat      >  1:418497/1‑68 (MQ=255)
                                                              aCCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGCGATGTGGGTtga       >  1:1239901/1‑67 (MQ=255)
                                                                 aGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTGGGTTGATGATa  <  1:3153520/69‑1 (MQ=255)
                                                                   cTAGTGGTTCGGTTATGTAAAGATGACGACAACACCTATCACCTGAAAGGGa                 <  1:1073745/52‑1 (MQ=255)
                                                                   |                                                                  
TTATCTCTATGAGATCAATCTGCGTCGTTTCCTGAGCCGTTTGCAGTATTACGTCAATACTGACCAGCTAGTGGTTCGGTTATGGAAAGATGACGACAACACCTATCACCTGAAAGGGATGTGGGTTGATGATA  >  minE/1756375‑1756508

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