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
A9 F1 I2 R1	760	52.7	2744488	90.2%	2475528	105.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,769,478	(G)_7→8	coding (405/1113 nt)	ydiK →	UPF0118 family inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,769,471	1	.	G	100.0%	103.8 / NA	30	M133R (ATG→AGG)	ydiK	UPF0118 family inner membrane protein
Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (14/16); total (14/16)

TATCGTCGACGGCAGCGGCCCGCTAATTAAAGCCATTTCCAGCGGTGACATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑GGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGATGCTT  >  NC_000913/1769337‑1769586

tATCGTCGACGGCAGCGGCCCGCTAATTAAAGCCATTTCAAGCGGTGACATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑gggg                                                                                                                 >  1:176420/1‑139 (MQ=255)

  tcgtcgACGGCAGCGGCCCGCTAATTAAAGCCATTTCCAGCGGTGACATGACGTTACCCGATCTGGCGT‑GCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑ggggggg                                                                                                              >  2:368224/1‑139 (MQ=255)

                   ccGCTAATTAAAGCCATTTCCAGCGGTGACATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCg                                                                                               <  1:444051/139‑1 (MQ=255)

                                   tttCCAGCGGTGACATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTc                                                                                         >  1:1162202/1‑129 (MQ=255)

                                   tttCCAGCGGTGACATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTc                                                                                         <  2:1162202/129‑1 (MQ=255)

                                      ccAGCGGTGACATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTg                                                                            <  2:1067717/139‑1 (MQ=255)

                                               aCATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCg                                                                                       <  1:1098189/119‑1 (MQ=255)

                                               aCATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCg                                                                                       >  2:1098189/1‑119 (MQ=255)

                                                       ttACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATAtt                                                                             >  2:209775/1‑121 (MQ=255)

                                                       ttACCCGATCTGGCGTGGCTTAATACCATTCCGGGGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATAtt                                                                             <  1:209775/121‑1 (MQ=255)

                                                               tCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTc                                                                                         >  2:218136/1‑101 (MQ=255)

                                                               tCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTc                                                                                         <  1:218136/101‑1 (MQ=255)

                                                                        gCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGACTGGCACAACTTGCTGACTATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTAGTTGGGCAggcggc                                          >  1:1356916/1‑139 (MQ=255)

                                                                                  aTTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATCTGGGGGGGGACGGCGATCATGGCTAAAGTCCGCCCTTATGTTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCggg                                <  2:869375/139‑1 (MQ=255)

                                                                                   ttCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGgc                               >  1:510699/1‑139 (MQ=255)

                                                                                        gTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTc                                                                                         >  2:396216/1‑76 (MQ=255)

                                                                                        gTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTc                                                                                         <  1:396216/76‑1 (MQ=255)

                                                                                        gTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCttt                          <  2:176420/139‑1 (MQ=255)

                                                                                             tGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑g                                                                                                                    >  1:1061355/1‑43 (MQ=255)

                                                                                             tGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑g                                                                                                                    <  2:1061355/43‑1 (MQ=255)

                                                                                              ggCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑ggg                                                                                                                  <  1:698657/44‑1 (MQ=255)

                                                                                              ggCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑ggg                                                                                                                  >  2:698657/1‑44 (MQ=255)

                                                                                                     aGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCt                                                                                   <  2:1296896/69‑1 (MQ=255)

                                                                                                     aGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCt                                                                                   >  1:1296896/1‑69 (MQ=255)

                                                                                                             gCAGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGATg     >  2:1252283/1‑139 (MQ=255)

                                                                                                               aGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGccc                                                                                    >  1:778517/1‑58 (MQ=255)

                                                                                                               aGGCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGccc                                                                                    <  2:778517/58‑1 (MQ=255)

                                                                                                                ggCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGATGCtt  <  1:70292/139‑1 (MQ=255)

                                                                                                                 gCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGt                     <  1:709092/119‑1 (MQ=255)

                                                                                                                 gCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGt                     >  2:709092/1‑119 (MQ=255)

                                                                                                                 gCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTg                    <  2:645867/120‑1 (MQ=255)

                                                                                                                 gCTGGCACAACTTGCTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTg                    >  1:645867/1‑120 (MQ=255)

                                                                                                                               cTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTcc                                                                                        >  1:367610/1‑38 (MQ=255)

                                                                                                                               cTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTcc                                                                                        <  2:367610/38‑1 (MQ=255)

                                                                                                                               cTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGcaccacc                                                                    >  1:1135128/1‑58 (MQ=255)

                                                                                                                               cTGGATATGGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGcaccacc                                                                    <  2:1135128/58‑1 (MQ=255)

TATCGTCGACGGCAGCGGCCCGCTAATTAAAGCCATTTCCAGCGGTGACATGACGTTACCCGATCTGGCGTGGCTTAATACCATTCCGGTGATTGGCGCGAAGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑GGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGATGCTT  >  NC_000913/1769337‑1769586

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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