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 617,160 C→G 41.6% V66V (GTC→GTG)  ycaL → predicted peptidase with chaperone function

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE617,1600CG41.6% 55.8 / 107.0 108V66V (GTC→GTG) ycaLpredicted peptidase with chaperone function
Reads supporting (aligned to +/- strand):  ref base C (24/39);  new base G (20/25);  total (44/64)
Fisher's exact test for biased strand distribution p-value = 5.55e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 116 total aligned reads displayed.

AAGCGATGCCGATGCAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATATT  >  minE/617094‑617226
                                                                  |                                                                  
aaGCGATGCCGATGCAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCACGTc                                                                    >  1:2181198/1‑67 (MQ=255)
aaGCGATGCCGATGCAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTc                                                                    >  1:2925828/1‑67 (MQ=255)
aaGCGATGCCGATGCAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTc                                                                    >  1:3423876/1‑67 (MQ=255)
aaGCGATGCCGATGCAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTc                                                                    >  1:2850908/1‑67 (MQ=255)
aaGCGATGCCGATGCAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTc                                                                    >  1:2881211/1‑67 (MQ=255)
aaGCGATGCCGATGCAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTc                                                                    >  1:1548175/1‑67 (MQ=255)
aaGCGATGCCGAAGCAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTc                                                                    >  1:1348700/1‑67 (MQ=255)
     atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGt                                                              >  1:1094688/1‑68 (MQ=255)
     atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTa                                                             >  1:703561/1‑69 (MQ=255)
     atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTa                                                             >  1:2416231/1‑69 (MQ=255)
     atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTa                                                             >  1:621951/1‑69 (MQ=255)
     atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTa                                                             >  1:837714/1‑69 (MQ=255)
     atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTa                                                             >  1:355874/1‑69 (MQ=255)
     atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTa                                                             >  1:842147/1‑69 (MQ=255)
     atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTa                                                             >  1:3059249/1‑69 (MQ=255)
                aaaGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAg                                                  <  1:1911010/69‑1 (MQ=255)
                       ttGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTa                                           <  1:2086742/69‑1 (MQ=255)
                       ttGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTa                                           <  1:1718614/69‑1 (MQ=255)
                       ttGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTa                                           <  1:2439693/69‑1 (MQ=255)
                               cAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCt                                    >  1:2756439/1‑68 (MQ=255)
                               cAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCt                                    >  1:1598806/1‑68 (MQ=255)
                               cAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCt                                    >  1:926612/1‑68 (MQ=255)
                               cAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCt                                    >  1:1546802/1‑68 (MQ=255)
                               cAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCt                                    >  1:1302792/1‑68 (MQ=255)
                               cAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCt                                    >  1:609569/1‑68 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:2959851/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:3014848/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:2808051/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:488109/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:2736500/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:689222/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:724470/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:877319/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:2142873/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:2354925/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1778318/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1288150/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:132166/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1366708/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1157910/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1618834/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1088220/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:190949/69‑1 (MQ=255)
                                  ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1014010/69‑1 (MQ=255)
                                   gCTGTGTCCAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:2123430/68‑1 (MQ=255)
                                     tgtgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCaaaa                             <  1:2074820/69‑1 (MQ=255)
                                     tgtgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCaaaa                             <  1:3190178/69‑1 (MQ=255)
                                     tgtgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCaaaa                             <  1:293428/69‑1 (MQ=255)
                                      gtgtCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1628310/65‑1 (MQ=255)
                                       tgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCaaaatt                           >  1:2481873/1‑67 (MQ=255)
                                       tgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAAt                           >  1:901180/1‑69 (MQ=255)
                                       tgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAAt                           >  1:3181157/1‑69 (MQ=255)
                                       tgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAAt                           >  1:2606061/1‑69 (MQ=255)
                                         tcGATATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:891201/61‑1 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAATCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:252159/1‑69 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACg                                              >  1:2275917/1‑44 (MQ=38)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTgg                                  >  1:2272110/1‑56 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATc                          >  1:3112079/1‑64 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:354971/1‑69 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:3131665/1‑69 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:3078932/1‑69 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:1346211/1‑69 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:2108146/1‑69 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:2294459/1‑69 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:2995445/1‑69 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:2226952/1‑69 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:2773926/1‑69 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:815124/1‑69 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:2182558/1‑69 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:1781174/1‑69 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:2024753/1‑69 (MQ=255)
                                             aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:1082924/1‑69 (MQ=255)
                                                ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCaaaa                             <  1:3391805/58‑1 (MQ=255)
                                                ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:1011112/69‑1 (MQ=255)
                                                ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:1193835/69‑1 (MQ=255)
                                                ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:2045515/69‑1 (MQ=255)
                                                ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:1106539/69‑1 (MQ=255)
                                                ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:302321/69‑1 (MQ=255)
                                                ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:3038985/69‑1 (MQ=255)
                                                ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:2445483/69‑1 (MQ=255)
                                                ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:523912/69‑1 (MQ=255)
                                                            tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:2084587/69‑1 (MQ=255)
                                                            tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:1025832/69‑1 (MQ=255)
                                                            tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:1190221/69‑1 (MQ=255)
                                                            tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:1319462/69‑1 (MQ=255)
                                                            tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:3352461/69‑1 (MQ=255)
                                                            tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:1403169/69‑1 (MQ=255)
                                                            tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:2671760/69‑1 (MQ=255)
                                                            tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:2278056/69‑1 (MQ=255)
                                                            tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:2259864/69‑1 (MQ=255)
                                                            tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:2205516/69‑1 (MQ=255)
                                                            tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:2063861/69‑1 (MQ=255)
                                                             cAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      >  1:75086/1‑68 (MQ=255)
                                                             cAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      >  1:1811227/1‑68 (MQ=255)
                                                               aGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAata    >  1:1166095/1‑68 (MQ=255)
                                                                gTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATAtt  <  1:295779/69‑1 (MQ=255)
                                                                gTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATAtt  <  1:1580644/69‑1 (MQ=255)
                                                                gTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATAtt  <  1:805149/69‑1 (MQ=255)
                                                                gTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATAtt  <  1:2773910/69‑1 (MQ=255)
                                                                 tCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATAtt  <  1:1757289/68‑1 (MQ=255)
                                                                  |                                                                  
AAGCGATGCCGATGCAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATATT  >  minE/617094‑617226

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