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 2,719,154 C→T 38.1% L322L (CTG→TTG)  argD → bifunctional acetylornithine aminotransferase and succinyldiaminopimelate aminotransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,719,1540CT38.1% 78.1 / 85.3 131L322L (CTG→TTG) argDbifunctional acetylornithine aminotransferase and succinyldiaminopimelate aminotransferase
Reads supporting (aligned to +/- strand):  ref base C (36/45);  new base T (9/41);  total (45/86)
Fisher's exact test for biased strand distribution p-value = 2.33e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.71e-01

Only 100 of 131 total aligned reads displayed.

ATCATCAATACCCCTGAAGTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGATATTCGCGGTATGGGGCTGTTGATTG  >  minE/2719091‑2719217
                                                               |                                                               
atcatcAATACCCCTGAAGTGCTTGAAGGTATTCAAGCGAAACGCCAGCATTTTGTTGACCATTTGCag                                                            <  1:635526/69‑1 (MQ=255)
atcatcAATACCCCTGAAGTGCTGGAAGGTATTCAAGCGAAACGCCAGCATTTTGTTGACCATTTGCag                                                            <  1:1056102/69‑1 (MQ=255)
atcatcAATACCCCTGAAGTGCTGGAAGGTATTCAAGCGAAACGCCAGCATTTTGTTGACCATTTGCag                                                            <  1:844153/69‑1 (MQ=255)
atcatcAATACCCCTGAAGTGCTGGAAGGTATTCAAGCGAAACGCCAGCATTTTGTTGACCATTTGCag                                                            <  1:3132992/69‑1 (MQ=255)
atcatcAATACCCCTGAAGTGCTGGAAGGTATTCAAGCGAAACGCCAGCATTTTGTTGACCATTTGCag                                                            <  1:1980376/69‑1 (MQ=255)
atcatcAATACCCCTGAAGTGCTGGAAGGTATTCAAGCGAAACGCCAGCATTTTGTTGACCATTTGCag                                                            <  1:1169284/69‑1 (MQ=255)
atcatcAATACCCCTGAAGTGCTGGAAGGTATTCAAGCGAAACGCCAGCATTTTGTTGACCATTTGCag                                                            <  1:336164/69‑1 (MQ=255)
 tcatcaATACCCCTGAAGTGCTGGAAGGTATTCAAGCGAAACGCCAGCATTTTGTTGACCATTTGCag                                                            <  1:2328166/68‑1 (MQ=255)
   atcaATACCCCTGAAGTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGc                                                              >  1:938862/1‑64 (MQ=255)
   atcaATACCCCTGAAGTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGc                                                              >  1:211352/1‑64 (MQ=255)
   atcaATACCCCTGAAGTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGc                                                              >  1:3046688/1‑64 (MQ=255)
   atcaATACCCCTGAAGTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGc                                                              >  1:3147091/1‑64 (MQ=255)
   atcaATACCCCTGAAGTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGc                                                              >  1:61242/1‑64 (MQ=255)
   atcaATACCCCTGAAGTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGc                                                              >  1:799295/1‑64 (MQ=255)
   atcaATACCCCTGAAGTGCTAGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGc                                                              >  1:1330144/1‑64 (MQ=255)
   atcaATACCCCTGAACTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGc                                                              >  1:2107795/1‑64 (MQ=255)
        tACCCCTGAAGTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:496180/68‑1 (MQ=255)
        tACCCCTGAAGTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:556821/68‑1 (MQ=255)
        tACCCCTGAAGTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     >  1:893162/1‑68 (MQ=255)
        tACCCCTGAAGTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     >  1:2193730/1‑68 (MQ=255)
                  gTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTAc                                          >  1:3161004/1‑69 (MQ=255)
                  gTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTAc                                          >  1:2550935/1‑69 (MQ=255)
                  gTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTAc                                          >  1:2818005/1‑69 (MQ=255)
                  gTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTAc                                          >  1:1160882/1‑69 (MQ=255)
                       ggAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATg                                      <  1:2443637/68‑1 (MQ=255)
                       ggAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATg                                      <  1:1716642/68‑1 (MQ=255)
                           ggCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTAttt                                 <  1:1258015/69‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:688628/47‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:2439931/47‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:550277/47‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:1181398/47‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:1219650/47‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:1112326/47‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:1351301/47‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:2630784/47‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:1932036/47‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:1109337/47‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:1297894/47‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:3088587/47‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:109015/47‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:919765/47‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:3021073/47‑1 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTa                                >  1:363336/1‑68 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTa                                >  1:2686671/1‑68 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTa                                >  1:1245543/1‑68 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTa                                >  1:3009700/1‑68 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTa                                >  1:585490/1‑68 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTa                                >  1:2224604/1‑68 (MQ=255)
                             cATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTa                                >  1:1472509/1‑68 (MQ=255)
                              aTTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:3315014/46‑1 (MQ=255)
                              aTTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAgatcg                                                     <  1:1852475/46‑1 (MQ=255)
                                 cAGGCGAAACGCCATCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGat                           <  1:1447415/69‑1 (MQ=255)
                                 cAGGCGAAACGCCAGTGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGat                           >  1:3319883/1‑69 (MQ=255)
                                 cAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGat                           <  1:3423900/69‑1 (MQ=255)
                                 cAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGat                           <  1:824282/69‑1 (MQ=255)
                                 cAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGat                           <  1:101748/69‑1 (MQ=255)
                                 cAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGat                           <  1:32611/69‑1 (MQ=255)
                                 cAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGat                           <  1:1313199/69‑1 (MQ=255)
                                 cAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGat                           <  1:1871459/69‑1 (MQ=255)
                                 cAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGat                           <  1:2865005/69‑1 (MQ=255)
                                   ggCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGata                          <  1:241361/68‑1 (MQ=255)
                                    gCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGATAtt                        <  1:1610964/69‑1 (MQ=255)
                                          cGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGATATTCGCGGt                  <  1:18344/69‑1 (MQ=255)
                                              aGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGat                           <  1:1446402/56‑1 (MQ=255)
                                                    ttgttgACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGATATTCGCGGTATGGGGCTg         >  1:421032/1‑68 (MQ=255)
                                                    ttgttgACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGATATTCGCGGTATGGGGCTg         >  1:2994885/1‑68 (MQ=255)
                                                    ttgttgACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGATATTCGCGGTATGGGGCTg         >  1:1811646/1‑68 (MQ=255)
                                                    ttgttgACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGATATTCGCGGTATGGGGCTg         >  1:1861572/1‑68 (MQ=255)
                                                    ttgttgACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGATATTCGCGGTATGGGGCTg         >  1:2530055/1‑68 (MQ=255)
                                                    ttgttgACCATCTGAAGAAGATCGATCAGCAGTACGATGTATTTAGCGATATTCGCGGTATGGGGCTg         >  1:3224629/1‑68 (MQ=255)
                                                      cgagACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGATATTCGCGGTATGGGGCTGTTg      <  1:2726330/66‑1 (MQ=255)
                                                      cgagACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGATATTCGCGGTATGGGGCTGTTg      <  1:2479535/66‑1 (MQ=255)
                                                          atcATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  >  1:3281118/3‑69 (MQ=255)
                                                          aCCATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  >  1:1337053/1‑69 (MQ=255)
                                                          aCCATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  >  1:1049349/1‑69 (MQ=255)
                                                          aCCATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  >  1:1550217/1‑69 (MQ=255)
                                                          aCCATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  >  1:1207066/1‑69 (MQ=255)
                                                          aCCATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  >  1:450210/1‑69 (MQ=255)
                                                          aCCATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  >  1:365247/1‑69 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATTGGGCTGTTGATTg  <  1:512294/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:1118733/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:1022636/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:1696448/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:179297/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:2748342/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:267962/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:703700/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:2603394/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:674604/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:228335/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:2379263/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:2296776/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:2303215/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:2309643/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:3264155/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:252489/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:437554/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:135702/68‑1 (MQ=255)
                                                           ccATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:2379355/68‑1 (MQ=255)
                                                            cATTTGCAGAAGATCGATCAGCAGTACGATGTGTTTAGCGATATTCGCGGTATGGGGCTGTTGATTg  <  1:1719668/67‑1 (MQ=255)
                                                               |                                                               
ATCATCAATACCCCTGAAGTGCTGGAAGGCATTCAGGCGAAACGCCAGCGTTTTGTTGACCATCTGCAGAAGATCGATCAGCAGTACGATGTATTTAGCGATATTCGCGGTATGGGGCTGTTGATTG  >  minE/2719091‑2719217

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A