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
A12 F28 I1 R1 176 31.5 1082462 98.8% 1069472 138.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,965,961 G→A I77I (ATC→ATT)  flhB ← flagellar biosynthesis protein FlhB

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,965,9610GA100.0% 62.0 / NA 19I77I (ATC→ATT) flhBflagellar biosynthesis protein FlhB
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (9/10);  total (9/10)

AAGGATTTGCCGCTAAATACCAGCCCTCCCAGCATGACCGGAGAAATGAGCGCCACCAGCACCACGCCGCTAATCAGCGGCAGCAGCGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGGATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCAGCGGAGAGCATGCCCGACAATCGACGGGCCAGCGACACACCGCCAAACCAGATAACACTAACGCCCA  >  NC_000913/1965833‑1966073
                                                                                                                                |                                                                                                                
aaGGATTTGCCGCTAAATACCAGCCCTCCCAGCATGACCGGAGAAATGAGCGCCACCAGCACCACGCCGCTAATCAGCGGCAGCAGCGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCgg                                                                                                       <  1:541112/140‑1 (MQ=255)
 aGGATTTGCCGCTAAATACCAGCCCTCCCAGCATGACCGGAGAAATGAGCGCCACCAGCACCACGCCGCTAATCAGCGGCAGCAGCGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCggg                                                                                                      <  1:3089/140‑1 (MQ=255)
   gATTTGCCGCTAAATACCAGCCCTCCCAGCATGACCGGAGAAATGAGCGCCACCAGCACCACGCCGCTAATCAGCGGCAGCAGCGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTc                                                                                                    <  2:341296/140‑1 (MQ=255)
                       cccTCCCAGCATGACCGGAGAAATGAGCGCCACCAGCACCACGCCGCTAATCAGCGGCAGCAGCGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCaa                                                                                >  1:420032/1‑140 (MQ=255)
                                  tGACCGGAGAAATGAGCGCCACCAGCACCACGCCGCTAATCAGCGGCAGCAGCGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCa                                                                     <  2:420032/140‑1 (MQ=255)
                                    aCCGGAGAAATGAGCGCCACCAGCACCACGCCGCTAATCAGCGGCAGCAGCGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCAGc                                                                   >  1:117426/1‑140 (MQ=255)
                                    aCCGGAGAAATGAGCGCCACCAGCACCACGCCGCTAATCAGCGGCAGCAGCGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCAGc                                                                   >  2:98706/1‑140 (MQ=255)
                                     ccGGAGAAATGAGCGCCACCAGCACCACGCCGCTAATCAGCGGCAGCAGCGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCAGCg                                                                  <  1:285265/140‑1 (MQ=255)
                                     ccGGAGAAATGAGCGCCACCAGCACCACGCCGCTAATCAGCGGCAGCAGCGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCAGCg                                                                  >  2:88683/1‑140 (MQ=255)
                                                       ccaGCACCACGCCGCTAATCAGCGGCAGCAGCGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCAGCGGAGAGCATGCCCGACAAt                                                >  1:367212/1‑140 (MQ=255)
                                                               acGCCGCTAATCAGCGGCAGCAGCGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCAGCGGAGAGCATGCCCGACAATCGACGGGc                                        >  2:371188/1‑140 (MQ=255)
                                                                        aTCAGCGGCAGCAGCGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCAGCGGAGAGCATGCCCGACAATCGACGGGCCAGCGacac                               <  2:117426/140‑1 (MQ=255)
                                                                             cGGCAGCAGCGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCACAGCGGAGAGCATGCCCGACAATCGACGGGCCAGCGACACACCGc                          >  1:29541/1‑140 (MQ=255)
                                                                                 agcagcGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCAGCGGAGAGCATGCCCGACAATCGACGGGCCAGCGACACACCGCCaaa                      <  1:368960/140‑1 (MQ=255)
                                                                                 agcagcGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCAGCGGAGAGCATGCCCGACAATCGACGGGCCAGCGACACACCGCCaaa                      <  1:98706/140‑1 (MQ=255)
                                                                                          aGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCAGCGGAGAGCATGCCCGACAATCGACGGGCCAGCGACACACCGCCAAACCAGATAac             >  1:28009/1‑140 (MQ=255)
                                                                                            cATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCAGCGGAGAGCATGCCCGACAATCGACGGGCCAGCGACACACCGCCaaa                      >  2:468804/1‑129 (MQ=255)
                                                                                            cATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCAGCGGAGAGCATGCCCGACAATCGACGGGCCAGCGACACACCGCCaaa                      <  1:468804/129‑1 (MQ=255)
                                                                                                     tctGATCAGCAGAATAATCTGCCCGAGAATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCAGCGGAGAGCATGCCCGACAATCGACGGGCCAGCGACACACCGCCAAACCAGATAACACTAACGCcca  <  1:30571/140‑1 (MQ=255)
                                                                                                                                |                                                                                                                
AAGGATTTGCCGCTAAATACCAGCCCTCCCAGCATGACCGGAGAAATGAGCGCCACCAGCACCACGCCGCTAATCAGCGGCAGCAGCGCCAGCATGGCTTCTCTGATCAGCAGAATAATCTGCCCGAGGATCAGATTCGGGTCATTGATAATACTGTGATCAAAATGCAGCCCAGCGGAGAGCATGCCCGACAATCGACGGGCCAGCGACACACCGCCAAACCAGATAACACTAACGCCCA  >  NC_000913/1965833‑1966073

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A