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 F28 I1 R1 155 60.3 2039550 99.3% 2025273 138.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,925,446 A→G V63A (GTG→GCG)  mnmG ← 5‑carboxymethylaminomethyluridine‑tRNA synthase subunit MnmG

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,925,4460AG97.6% 134.3 / ‑6.3 42V63A (GTG→GCG) mnmG5‑carboxymethylaminomethyluridine‑tRNA synthase subunit MnmG
Reads supporting (aligned to +/- strand):  ref base A (0/0);  major base G (26/15);  minor base C (1/0);  total (27/15)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCTGACGGTAGAGCACACGATCCGCCTGAGCTCGGGTAGCGCGAACCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCACTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGT  >  NC_000913/3925315‑3925579
                                                                                                                                    |                                                                                                                                      
ccTGAGGGAAGAGCACACGACCCGTCTGAGCTGGGGTAGCGCGAACCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCtttt                                                                                                                                <  1:410611/140‑1 (MQ=255)
   gACGGTAGAGCACACGATCCGCCTGAGCTCGGGTAGCGCGAACCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTAcc                                                                                                                             >  2:419825/1‑140 (MQ=255)
      gggagacCACACGACCCGCCTGAGCTCGGGTGGCGCAAACCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGa                                                                                                                          <  1:645137/137‑1 (MQ=255)
           ggCACCCGACCCCCCGGGGCTGGGGTAGCGCAACCCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTcc                                                                                                                     <  2:289142/139‑1 (MQ=255)
           agCACACGATCCGCCTGAGCTCGGGTAGCGCGAACCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTcc                                                                                                                     >  2:688501/1‑140 (MQ=255)
           agCACACGACCCCCCTGAGCCGGGGTAGCGCGAACCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCACCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTcc                                                                                                                     <  1:836911/140‑1 (MQ=255)
           accccccGACCCCCCTGAGCGGGGGTGGCGCGACCCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTcc                                                                                                                     <  2:454405/134‑1 (MQ=255)
                acGATCCGCCTGAGCTCGGGTAGCGCGAACCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCCCTTCTTTTACCAGATGTCCCTTcc                                                                                                                >  1:655136/1‑140 (MQ=255)
                         cTGAGCTCGGGTAGCGCGAACCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATAccgc                                                                                                      >  1:833848/1‑140 (MQ=255)
                         cTGAGCTCGGGTAGCGCGAACCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATAccgc                                                                                                      >  1:754309/1‑140 (MQ=255)
                              cTCGGGTAGCGCGAACCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATc                                                                                                 >  2:456476/1‑140 (MQ=255)
                                   gTAGCGCGAACCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCgg                                                                                            >  1:259942/1‑140 (MQ=255)
                                       cgcgAACCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTg                                                                                        >  1:67426/1‑140 (MQ=255)
                                        gcgAACCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGc                                                                                       >  2:405793/1‑140 (MQ=255)
                                             ccgccgGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTc                                                                                  >  2:404023/1‑140 (MQ=255)
                                               gccgGTCCTTTGCTTGCTTTTAGTATCCTAAA‑CTGGATCCCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCAt                                                                                <  2:820305/140‑1 (MQ=255)
                                                       tttgtttgCTTTTAGTACCCTAAA‑CTGAATCCCCGCCTGATCGATCGCTTTCGCCACCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCa                                                                        <  2:963719/140‑1 (MQ=255)
                                                        ttgcttgcGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCag                                                                       >  1:610638/1‑140 (MQ=255)
                                                        ttgcttgcGTTTAGTATCCTAAA‑CTGGATACCCGCCTAATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCag                                                                       >  2:899097/1‑140 (MQ=255)
                                                          ttttgcGTTTAGTCCCCAAAA‑GTGAACCCCCCCTTGGTCAACCGCTTGCCCAATCAGCCCCCGGAGTTCTTCCGCTTCTTTTACCAGTTGCCCTTTCCA‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCagag                                                                     <  2:666359/138‑1 (MQ=255)
                                                          gcttgtTTTTAGTACCCAAAC‑CTGGATCCCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTCCCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCagag                                                                     <  2:390396/140‑1 (MQ=255)
                                                             tgtttttAGTA‑CCTAAATCGGGTTCCCCGCCTGATCGTTCGCTTTCGCCATCAGCCCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTCCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAgtgt                                                                  <  2:754309/136‑1 (MQ=255)
                                                                   tAGTATCCAAAA‑CTGGATCCCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCC‑GGTTGCAGCTCATCTGCCCCAGAGTGTCGATAtt                                                           <  1:166715/140‑1 (MQ=255)
                                                                        tCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATtgtgt                                                       >  1:790418/1‑140 (MQ=255)
                                                                          cTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTgtgtgt                                                     >  2:962074/1‑140 (MQ=255)
                                                                           tAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTc                                                    >  1:948549/1‑140 (MQ=255)
                                                                                 tGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAg                                               >  2:554101/1‑140 (MQ=255)
                                                                                 tGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAg                                               <  1:962074/140‑1 (MQ=255)
                                                                                 tGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAg                                               >  1:235630/1‑140 (MQ=255)
                                                                                   gATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCaactgtc                                             >  1:184386/1‑135 (MQ=255)
                                                                                   gATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCa                                             >  2:443194/1‑140 (MQ=255)
                                                                                   gATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCa                                             >  2:330159/1‑140 (MQ=255)
                                                                                   gATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCa                                             >  1:691399/1‑140 (MQ=255)
                                                                                    ttccccGCCTGGTCGCTCGCTTCCGCCAGCAGACCCCGGGGGCCAGCCGTTTCTTTTCCCGGATGCCCCTTCCA‑AATGCCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCag                                            <  2:833848/137‑1 (MQ=255)
                                                                                    ttccccGCCTGATCGATCGCTTTCGCCATCAGCCCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCag                                            <  2:349227/137‑1 (MQ=255)
                                                                                     tccccGCCTGATCGATCGCTTTCGCCATCAGCCCGCCGGGTGCATCCGCTTCTTTTCCCAGATGTCCCTCCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCaga                                           <  2:806420/138‑1 (MQ=255)
                                                                                     tACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCaga                                           <  1:899097/140‑1 (MQ=255)
                                                                                        ccGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTc                                        >  1:826612/1‑140 (MQ=255)
                                                                                        ccGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGACGATATTGTGTGTCAAAAGCAGAGTc                                        >  2:952996/1‑140 (MQ=255)
                                                                                           ccTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGt                                     >  2:647238/1‑140 (MQ=255)
                                                                                            cTGATCGATCGCTTTCGCCATCAGCCCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGtt                                    <  2:832186/140‑1 (MQ=255)
                                                                                            cTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGtt                                    <  1:330159/140‑1 (MQ=255)
                                                                                                              catggacccgccgAGTGCACCCGCTTCTTTTACCAGATG‑CCCTTCCCAAATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCgg                  <  2:235630/133‑1 (MQ=255)
                                                                                                                 cAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCa               >  2:577496/1‑140 (MQ=255)
                                                                                                                 cAGACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCa               >  1:493556/1‑140 (MQ=255)
                                                                                                                   gACCGCCGAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATc             <  1:647238/140‑1 (MQ=255)
                                                                                                                    cccgccgAGTGCATCCGCTTTTTTTACCAGATGCCCCTCCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATcg            <  2:493556/139‑1 (MQ=255)
                                                                                                                         cgAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTAACCCATACGCGCCGCGGCCATCGCGGcc       <  1:404023/140‑1 (MQ=255)
                                                                                                                          gAGTGCATCCGCTTCTTTTACCAGATGTCCCTTCCA‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCt      <  1:688501/140‑1 (MQ=255)
                                                                                                                              gCATCCGCTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGt  >  2:358863/1‑140 (MQ=255)
                                                                                                                              gCACCCGCTTTTTTTACCAGATGCCCCTCCCA‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGt  <  2:487337/140‑1 (MQ=255)
                                                                                                                                    |                                                                                                                                      
CCTGACGGTAGAGCACACGATCCGCCTGAGCTCGGGTAGCGCGAACCGCCGGTCCTTTGCTTGCGTTTAGTATCCTAAA‑CTGGATACCCGCCTGATCGATCGCTTTCGCCATCAGACCGCCGAGTGCATCCACTTCTTTTACCAGATGTCCCTTCCC‑AATACCGCCGATCGCCGGGTTGCAGCTCATCTGCCCCAGAGTGTCGATATTGTGTGTCAAAAGCAGAGTCTGTTGACCCATACGCGCCGCGGCCATCGCGGCCTCGGT  >  NC_000913/3925315‑3925579

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A