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 F1 I1 R1	748	32.0	1685426	92.6%	1560704	103.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,441,538	C→T	213 (TAG→TAA)	msrA ←	methionine sulfoxide reductase A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,441,538	0	C	T	100.0%	121.1 / NA	38	213 (TAG→TAA)	msrA	methionine sulfoxide reductase A
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (21/17); total (21/17)

TGCCGATCAGGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGCTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATAAAACGGTGTGGCGTTAGCGATTTCCGTGGTGAT  >  NC_000913/4441406‑4441669

tGCCGATCAGGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCt                                                                                                                               >  2:561321/1‑139 (MQ=255)

          gCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTATTCCTGGTAAGTCGTTTACGCCGCACAAGGCATAGACAAAGAGCGATTCATCAACAAACTACAGTTGTACACGTAACGGTATGCTTCcggtgaca                                                                                                                     >  2:467046/1‑134 (MQ=37)

          gCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGca                                                                                                                     >  1:163824/1‑139 (MQ=255)

                         gCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcgccaattc                                                                                                      >  1:383120/1‑139 (MQ=255)

                         gCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcgccaattc                                                                                                      >  1:687562/1‑139 (MQ=255)

                            atatatTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcgccaattccgc                                                                                                   <  2:383120/139‑1 (MQ=255)

                                 ttGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcgccaattccgccaatt                                                                                              <  2:384356/139‑1 (MQ=255)

                                 gtggaattGGACGATTTTGTGGGCCTTGTAAGTCGTTTACGACGCATCAGTCATAGACGAAGGGCAGTTTATCAACAAACTGCATTTGTACCCATCACGTTATGCTTCCGGCGGCAGACAGAcgccaattccgccaatt                                                                                              <  2:371665/133‑1 (MQ=255)

                                  tGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcg                                                                                                             <  1:342890/123‑1 (MQ=255)

                                  tGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcg                                                                                                             >  2:342890/1‑123 (MQ=255)

                                           aCGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAAc                                                                                    >  1:799840/1‑139 (MQ=255)

                                                             tAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTCTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACTCCAATGCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCa                                                                  <  1:561321/139‑1 (MQ=255)

                                                              aaGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAg                                                                 >  2:811221/1‑139 (MQ=255)

                                                                      tACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCt                                                         >  1:273032/1‑139 (MQ=255)

                                                                             cATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcgccaattccgc                                                                                                   <  2:321665/90‑1 (MQ=255)

                                                                             cATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcgccaattccgc                                                                                                   >  1:321665/1‑90 (MQ=255)

                                                                             cATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTa                                                                      <  1:113546/119‑1 (MQ=255)

                                                                             cATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTa                                                                      >  2:113546/1‑119 (MQ=255)

                                                                             cATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTc                                                  <  2:799840/139‑1 (MQ=255)

                                                                                       aGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCtggt                                                      <  2:302896/125‑1 (MQ=255)

                                                                                       aGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCtggt                                                      >  1:302896/1‑125 (MQ=255)

                                                                                             agagCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATg                                                                    <  2:215855/105‑1 (MQ=255)

                                                                                             agagCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATg                                                                    >  1:215855/1‑105 (MQ=255)

                                                                                             agagCACTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCAtaataa                                  >  2:775774/1‑139 (MQ=255)

                                                                                                  aCTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcgccaattccgc                                                                                                   <  2:637361/69‑1 (MQ=255)

                                                                                                  aCTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcgccaattccgc                                                                                                   >  1:637361/1‑69 (MQ=255)

                                                                                                   cTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCgg                                          >  1:161130/1‑125 (MQ=255)

                                                                                                   cTTTATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCgg                                          <  2:161130/125‑1 (MQ=255)

                                                                                                    tttATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATAAAACGgtg                           <  2:273032/139‑1 (MQ=255)

                                                                                                      tATCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATAAAACGGtgtg                         >  1:163997/1‑139 (MQ=255)

                                                                                                       aTCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGcaga                                                                                                                   >  1:842237/1‑48 (MQ=255)

                                                                                                       aTCAACAAACTACATTTGTACCCGTAACGTTATGCTTCCGGCGGcaga                                                                                                                   <  2:842237/48‑1 (MQ=255)

                                                                                                                         tACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcgccaattccgccaatt                                                                                              <  1:801909/51‑1 (MQ=255)

                                                                                                                         tACCCGTAACGTTATGCTTCCGGCGGCAGACAGAcgccaattccgccaatt                                                                                              >  2:801909/1‑51 (MQ=255)

                                                                                                                             cGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCAt                                                                                 <  2:590698/60‑1 (MQ=255)

                                                                                                                             cGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCAt                                                                                 >  1:590698/1‑60 (MQ=255)

                                                                                                                             cGTAACGTTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATAAAACGGTGTGGCGTTAGCGATTTCCGTGGTGAt  >  1:684596/1‑139 (MQ=255)

                                                                                                                                aaCGTTATGCTTCCGGCGGCAGACAGAcgccaattccgccaa                                                                                                <  2:564238/42‑1 (MQ=255)

                                                                                                                                aaCGTTATGCTTCCGGCGGCAGACAGAcgccaattccgccaa                                                                                                >  1:564238/1‑42 (MQ=255)

TGCCGATCAGGCCTACGCAGTCCTTGCAATATATTGAATTTGGACGATTTTGTAGGCCTGGTAAGTCGTTTACGCCGCATCAGGCATAGACAAAGAGCACTTTATCAACAAACTACATTTGTACCCGTAACGCTATGCTTCCGGCGGCAGACAGACGCCAATTCCGCCAATTCCACAGTAACCATACGGGTTTTTATGCAGATATTGCTGGTGGTCATCTTCGGCATAATAAAACGGTGTGGCGTTAGCGATTTCCGTGGTGAT  >  NC_000913/4441406‑4441669

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A