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 F1 I1 R1	760	58.2	3022526	90.8%	2744453	102.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,203,224	G→A	67 (TAG→TAA)	croE →	e14 prophage, putative DNA‑binding transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,203,224	0	G	A	100.0%	95.6 / NA	30	67 (TAG→TAA)	croE	e14 prophage, putative DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (14/16); total (14/16)

TTACGGCTGGTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAGCAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTGGTACGTGAAAGCTGTCAGAAAAACTATCGCGGCGTTGCCGAGTGGTT  >  NC_000913/1203102‑1203355

ttACGGCTGGTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAAtt                                                                                                                     >  2:137079/1‑139 (MQ=255)

     gCTGGTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTaa                                                                                                                <  1:765951/139‑1 (MQ=255)

         gTTTTCAATGGTTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGGAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACca                                                                                                             <  1:896379/138‑1 (MQ=255)

         gTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACca                                                                                                             >  2:896379/1‑138 (MQ=255)

                 tGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGAt                                                                                                    <  1:137079/139‑1 (MQ=255)

                   gCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACca                                                                                                             <  1:1090329/128‑1 (MQ=255)

                   gCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACca                                                                                                             >  2:1090329/1‑128 (MQ=255)

                            aaGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCg                                                                                         <  2:1100208/139‑1 (MQ=255)

                                       gtgCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCAt                                                                              <  1:62228/139‑1 (MQ=255)

                                         gCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAg                                                                                 <  2:498237/139‑1 (MQ=255)

                                             gCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCTCAGAACGATGAGGCTAATCGTGGGTAAGCAt                                                                              >  1:269754/1‑133 (MQ=255)

                                             gCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCTCAGAACGATGAGGCTAATCGTGGGTAAGCAt                                                                              <  2:269754/133‑1 (MQ=255)

                                                                    aTCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGaaa                                                              <  1:30000/126‑1 (MQ=255)

                                                                    aTCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGaaa                                                              >  2:30000/1‑126 (MQ=255)

                                                                     tCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAg                                                   >  1:1112461/1‑136 (MQ=255)

                                                                     tCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAg                                                   <  2:1112461/136‑1 (MQ=255)

                                                                         gTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAATTAGAAAAACAGCCTGAGTGGTACg                                            >  1:842832/1‑139 (MQ=255)

                                                                              aTTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTGGTACGTGaaa                                       <  2:842832/139‑1 (MQ=255)

                                                                                         tGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCa                                                                            <  2:173232/91‑1 (MQ=255)

                                                                                         tGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCa                                                                            >  1:173232/1‑91 (MQ=255)

                                                                                           aCTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGaaaaa                                                            >  1:525284/1‑105 (MQ=255)

                                                                                           aCTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGaaaaa                                                            <  2:525284/105‑1 (MQ=255)

                                                                                           aCTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTGGTACGTGAAAGCTGTCAGaaaaa                          <  2:294904/139‑1 (MQ=255)

                                                                                               aa‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAg                                                   <  1:459898/110‑1 (MQ=255)

                                                                                               aa‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAg                                                   >  2:459898/1‑110 (MQ=255)

                                                                                               aa‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTGGTACGTGAAAGCTGTCAGAAAAACTAt                      >  2:708638/1‑139 (MQ=255)

                                                                                                      gACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTGGTACGTGAAAGCTGTCAGAAAAACTATcg                    >  2:953826/1‑139 (MQ=255)

                                                                                                                   tcCGAAAGATTAACAGAACACTTTCAATTTTTAACcaca                                                                                                           <  2:376705/39‑1 (MQ=255)

                                                                                                                   tcCGAAAGATTAACAGAACACTTTCAATTTTTAACcaca                                                                                                           >  1:376705/1‑39 (MQ=255)

                                                                                                                        aaGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTGGTACGTGAAAGCTGTCAGAAAAACTATCGCGGCGTTGCCGAGTGGtt  >  2:658676/1‑139 (MQ=255)

TTACGGCTGGTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAA‑‑‑‑‑GACCGGATATCTATCCGAAAGATTAGCAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTGGTACGTGAAAGCTGTCAGAAAAACTATCGCGGCGTTGCCGAGTGGTT  >  NC_000913/1203102‑1203355

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A