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 F5 I184 R1	278	29.6	1166432	97.3%	1134938	124.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	675,373	A→G	E137G (GAA→GGA)	ybeU →	DUF1266 domain‑containing protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	675,373	0	A	G	100.0%	105.3 / NA	30	E137G (GAA→GGA)	ybeU	DUF1266 domain‑containing protein
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (16/14); total (16/14)

TTGATTTATACCCAATTCGTTGCCCAAACCGCTATGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGAAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAGGACGTCTCTACTGGCAATCTTCTCAGTGCGAAGACAA  >  NZ_CP009273/675249‑675502

ttGATTTATACCCAATTCGTTGCCCAAACCGCTATGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTAt                                                                                                                     <  2:176928/139‑1 (MQ=255)

ttGATTTATACCCAATTCGTTGCCCAAACCGCTATGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTAt                                                                                                                     >  1:577064/1‑139 (MQ=255)

  gATTTATACCCAATTCGTTGCCCAAACCGCTATGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATgg                                                                                                                   >  1:488616/1‑139 (MQ=255)

               ttCGTTGCCCAAACCGCTATGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATcgcgcg                                                                                                      >  1:527095/1‑139 (MQ=255)

                      cccAAACCGCTATGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGt                                                                                               <  2:457445/139‑1 (MQ=255)

                               cTATGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCa                                                                                      >  2:286544/1‑139 (MQ=255)

                                tATGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCAc                                                                                     >  2:541340/1‑139 (MQ=255)

                                  tgtgCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCAcc                                                                                    <  2:488616/138‑1 (MQ=255)

                                    tgCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCAtt                                                                                 <  1:428257/139‑1 (MQ=255)

                                              aaGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAg                                                                                          <  1:467286/120‑1 (MQ=255)

                                              aaGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAg                                                                                          >  2:467286/1‑120 (MQ=255)

                                              aaGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAg                                                                       >  1:532086/1‑139 (MQ=255)

                                              aaGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAg                                                                       >  1:399276/1‑139 (MQ=255)

                                                 ggggAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTg                                                                    >  2:372044/1‑139 (MQ=255)

                                                     aaTCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATg                                                                <  2:491647/139‑1 (MQ=255)

                                                        cAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCAc                                                             >  2:219366/1‑139 (MQ=255)

                                                                             aaTGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGt                                          >  2:341618/1‑137 (MQ=255)

                                                                              aTGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAg                                       <  2:577064/139‑1 (MQ=255)

                                                                              aTGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAg                                       <  2:277573/139‑1 (MQ=255)

                                                                              aTGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAg                                       <  2:224993/139‑1 (MQ=255)

                                                                                                gTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAGGACGTCTCTACTGGCAAt                     >  2:537320/1‑139 (MQ=255)

                                                                                                       tgCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAGGACGTCTCTACTGGCAATCTtctc               <  1:6008/138‑1 (MQ=255)

                                                                                                       tgCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAGGACGTCTCTACTGGCAATCTtctc               <  1:286544/138‑1 (MQ=255)

                                                                                                         cTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAGGACGTCTCTAc                            <  2:189682/123‑1 (MQ=255)

                                                                                                         cTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAGGACGTCTCTAc                            >  1:189682/1‑123 (MQ=255)

                                                                                                          tCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCt                                                                                                   >  1:563029/1‑51 (MQ=255)

                                                                                                          tCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCt                                                                                                   <  2:563029/51‑1 (MQ=255)

                                                                                                                 gTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTTCGAg                                                                                          <  2:561806/53‑1 (MQ=255)

                                                                                                                 gTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAg                                                                                          >  1:561806/1‑53 (MQ=255)

                                                                                                                    gCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAGGACGTCTCTACTGGCAATCTTCTCAGTGCGAAGacaa  >  2:18729/1‑138 (MQ=255)

TTGATTTATACCCAATTCGTTGCCCAAACCGCTATGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGAAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAGGACGTCTCTACTGGCAATCTTCTCAGTGCGAAGACAA  >  NZ_CP009273/675249‑675502

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

BRESEQ :: bam2aln output

GGTGGCTCGGAGAGAGGGTTGATTTATACCCAATTCGTTGCCCAAACCGCTATGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGAAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAGGACGTCTCTACTGGCAATCTTCTCAGTGCGAAGACAACACTTCGCTACGCGAGGC  >  NZ_CP009273/675231‑675520

GGTGGCTCGGAGAGAGGGTTGATTTATACCCAATTCGTTGCCCAAACCGCTATGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAG                                                                                                                                              <  SRR3722139.62069/150‑1 (MQ=60)

       CGGAGAGAGGGTTGATTTATACCCAATTCGTTGCCCAAACCGCTATGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATG                                                                                                                                      >  SRR3722139.583648/1‑151 (MQ=60)

         GAGAGAGGGTTGATTTATACCCAATTCGTTGCCCAAACCGCTATGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGC                                                                                                                                    >  SRR3722139.494292/1‑151 (MQ=60)

                      TTTATACCCAATTCGTTGCCCAAACCGCTATGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGT                                                                                                                       >  SRR3722139.533166/1‑151 (MQ=60)

                                            aagagacagGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTAC                                                                                                 <  SRR3722139.472744/142‑1 (MQ=60)

                                                     GTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGC                                                                                        >  SRR3722139.404008/1‑151 (MQ=60)

                                                     GTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGC                                                                                        <  SRR3722139.433290/151‑1 (MQ=60)

                                                     GTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGC                                                                                        >  SRR3722139.538204/1‑151 (MQ=60)

                                                                                                                GGGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAGGACGTCTCTACTGGCAATCTTCctgtct                             >  SRR3722139.192033/1‑145 (MQ=60)

                                                                                                                 GGTCGGTGTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCtgtctcttatacacatctccgagcccacgagaccgtactagatctcgtatgccgtcttctgcttgaaaaaaaaaaa                             >  SRR3722139.569485/1‑74 (MQ=60)

                                                                                                                        GTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCAgtacctgtctcttatacacatctccgagcccacgagaccgtactagatttcgtataccgtcttctgcttgaaaaaaaaa                      >  SRR3722139.568232/1‑71 (MQ=60)

                                                                                                                        GTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAGGACGTCTCTACTGGCAATCTTCTCAGTGCGAAGAC                      <  SRR3722139.290142/150‑1 (MQ=60)

                                                                                                                        GTGCTCAACAAGTGGCTGACGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAGGACGTCTCTACTGGCAATCTTCTCAGTGCGAAGAC                      <  SRR3722139.6065/150‑1 (MQ=60)

                                                                                                                                           CGGGAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAGGACGTCTCTACTGGCAATCTTCTCAGTGCGAAGACAACACTTCGCTACGCGAGGC  <  SRR3722139.547583/151‑1 (MQ=60)

GGTGGCTCGGAGAGAGGGTTGATTTATACCCAATTCGTTGCCCAAACCGCTATGTGCTGTGGGGAAGGGGGAATCAAAGCCTGGGATTATGTTCGAATGGGGTTTCTGTCACGGGTCGGTGTGCTCAACAAGTGGCTGACGGAAGAAGAGAGTTTATGGCTGCAATCGCGCGTCTATGTACGAGCTCACCATTACTATCACAGCTGGATGCACTATTTTTCCGCCTATTCGTTAGGACGTCTCTACTGGCAATCTTCTCAGTGCGAAGACAACACTTCGCTACGCGAGGC  >  NZ_CP009273/675231‑675520

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`