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
A11 F28 I1 R1	132	43.0	1464274	99.1%	1451095	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,426,475	C→T	L8F (CTC→TTC)	ynaA →	Rac prophage; putative prophage tail length tape measure domain‑containing protein YnaA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,426,475	0	C	T	100.0%	173.7 / NA	49	L8F (CTC→TTC)	ynaA	Rac prophage; putative prophage tail length tape measure domain‑containing protein YnaA
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (25/24); total (25/24)

ATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTCTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAATAGCGCAGGGAAAGTGACTAAGGCAAC  >  NC_000913/1426340‑1426599

aTCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGc                                                                                                                          <  1:78500/140‑1 (MQ=255)

aTCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGc                                                                                                                          <  1:725018/140‑1 (MQ=255)

 tCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCa                                                                                                                         >  2:586257/1‑140 (MQ=255)

     tgatgCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCaataa                                                                                                                     >  2:367479/1‑140 (MQ=255)

             cTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGAt                                                                                                             <  2:376277/140‑1 (MQ=255)

               ggAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAatt                                                                                                                   >  1:65325/1‑132 (MQ=255)

               ggAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAatt                                                                                                                   <  2:65325/132‑1 (MQ=255)

                               tGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAaat                                                                                           <  2:157541/140‑1 (MQ=255)

                                ggCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAaata                                                                                          <  1:698306/140‑1 (MQ=255)

                                      gTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTg                                                                                    <  1:367479/140‑1 (MQ=255)

                                       tAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGa                                                                                   >  1:586955/1‑140 (MQ=255)

                                              tataTCTACTATTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGAc                                                                                  >  1:475126/1‑134 (MQ=255)

                                              tataTCTACTATTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGAc                                                                                  <  2:475126/134‑1 (MQ=255)

                                                     actaTTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGAcctcct                                                                     >  2:597876/1‑140 (MQ=255)

                                                          tatGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTa                                                                >  1:51657/1‑140 (MQ=255)

                                                            tGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGt                                                              >  1:553885/1‑140 (MQ=255)

                                                            tGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGt                                                              >  2:300178/1‑140 (MQ=255)

                                                            tGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGt                                                              >  1:246093/1‑140 (MQ=255)

                                                            tGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGt                                                              >  2:551572/1‑140 (MQ=255)

                                                                gCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCaaa                                                          >  1:455342/1‑140 (MQ=255)

                                                                 ccTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGAc                                                                          <  2:703075/123‑1 (MQ=255)

                                                                 ccTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGAc                                                                          >  1:703075/1‑123 (MQ=255)

                                                                 ccTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCaaaa                                                         >  2:450206/1‑140 (MQ=255)

                                                                 ccTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCaaaa                                                         >  2:557185/1‑140 (MQ=255)

                                                                 ccTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCaaaa                                                         >  2:96723/1‑140 (MQ=255)

                                                                 ccTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCaaaa                                                         >  1:676586/1‑140 (MQ=255)

                                                                 ccTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCaaaa                                                         >  1:43092/1‑140 (MQ=255)

                                                                 ccTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCaaaa                                                         >  1:405011/1‑140 (MQ=255)

                                                                     aaaCCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGAc                                                     <  1:118545/140‑1 (MQ=255)

                                                                      aaCCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACg                                                    <  2:231001/140‑1 (MQ=255)

                                                                      aaCCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACg                                                    <  1:557185/140‑1 (MQ=255)

                                                                                   gTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGaaa                                       >  2:651787/1‑140 (MQ=255)

                                                                                   gTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGaaa                                       <  2:43092/140‑1 (MQ=255)

                                                                                             tgttgtCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCaaa                             <  1:551572/140‑1 (MQ=255)

                                                                                                tgtCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAATAg                          >  1:552970/1‑140 (MQ=255)

                                                                                                 gtCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAATAgc                         >  2:186512/1‑140 (MQ=255)

                                                                                                  tCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAGTAgcg                        <  2:553885/140‑1 (MQ=255)

                                                                                                  tCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAATAgcg                        >  2:148486/1‑140 (MQ=255)

                                                                                                    aGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAAt                            <  2:220843/134‑1 (MQ=255)

                                                                                                    aGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAAt                            >  1:220843/1‑134 (MQ=255)

                                                                                                    aGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAATAGCGCa                      <  1:96723/140‑1 (MQ=255)

                                                                                                          tttAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAATAGCGCAGGGaaa                <  1:651787/140‑1 (MQ=255)

                                                                                                          tttAATAAATGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAATAGCGCAGGGaaa                <  2:676586/140‑1 (MQ=255)

                                                                                                                aaaTGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAATAGCGCAGGGAAAGTGACt          <  1:526579/140‑1 (MQ=255)

                                                                                                                  aTGGCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAATAGCGCAGGGAAAGTGACTaa        <  2:16845/140‑1 (MQ=255)

                                                                                                                     gCAGAGCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAATAGCGCAGGGAAAGTGACTAAGGc     <  2:51657/140‑1 (MQ=255)

                                                                                                                        gagCAAACCTCGCGTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAATAGCGCAGGGAAAGTGACTAAGGCAAc  <  1:300178/140‑1 (MQ=255)

                                                                                                                                   gcgTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAATAGCGCAGGGAAAGTGACTAAGGCaa   >  2:189547/1‑128 (MQ=255)

                                                                                                                                   gcgTTTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAATAGCGCAGGGAAAGTGACTAAGGCaa   <  1:189547/128‑1 (MQ=255)

ATCGATGATGCTCCTGGAGAAAAGCATTGCGTGGCCTCGTAATCGCTATATCTACTATTATGTCGCCTGAAACCCACTTCGCGGTGGGTTTTTTGTTGTCAGGAGTTTTAATAAATGGCAGAGCAAACCTCGCGTCTCGCAATAATTATTGATAGCACTGGAGCGAAAAATAATGCTGACAATCTGACCTCCTCATTAGTCAAAATGACGCAGGCTGGGGAAACTGCTGCAAATAGCGCAGGGAAAGTGACTAAGGCAAC  >  NC_000913/1426340‑1426599

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A