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 F17 I1 R1	9	35.8	789048	93.0%	733814	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	2,187,071	C→T	R331K (AGA→AAA)	rsbU ←	sigma factor B regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	2,187,071	0	C	T	100.0%	107.2 / NA	31	R331K (AGA→AAA)	rsbU	sigma factor B regulator
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (6/25); total (6/25)

AAGATTCATTTCATTACACTCCTACTTATTAAAAATATTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTCTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCATATGTTTATGTTTTTTAATATATTCTAAAAGT  >  CP000730/2186934‑2187199

aaGATTCATTTCATTACACTCCTACTTATTAAAAATATTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTtttt                                                                                                                               >  2:221427/1‑141 (MQ=255)

        tttcattACACTCCTACTTATTAAAAATATTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATc                                                                                                                       <  2:325181/141‑1 (MQ=255)

        tttcattACACTCCTACTTATTAAAAATATTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATc                                                                                                                       <  1:140959/141‑1 (MQ=255)

        tttcattACACTCCTACTTATTAAAAATATTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATc                                                                                                                       <  1:350911/141‑1 (MQ=255)

               acacTCCTACTTATTAAAAATATTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAg                                                                                                                <  1:214385/141‑1 (MQ=255)

               acacTCCTACTTATTAAAAATATTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAg                                                                                                                <  1:214390/141‑1 (MQ=255)

               acacTCCTACTTATTAAAAATATTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATAACCATCGAAATAATTTATAAACTTCTTCATTAAATTAAATTACTTTTTTTATAATCAAAATAg                                                                                                                >  1:57764/1‑141 (MQ=255)

                cacTCCTACTTATTAAAAATATTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGt                                                                                                               >  2:80473/1‑141 (MQ=255)

                  cTCCTACTTATTAAAAATATTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCa                                                                                                             <  2:184144/141‑1 (MQ=255)

                      tACTTATTAAAAATATTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATatc                                                                                                         <  1:221427/141‑1 (MQ=255)

                                                tttAAGCTCTTTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCt                                                                               <  2:57764/141‑1 (MQ=255)

                                                 ttAAGCGNTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCtt                                                                              <  2:296714/141‑1 (MQ=255)

                                                    aGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTaa                                                                           >  2:152950/1‑141 (MQ=255)

                                                      cgcTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTaaaa                                                                         >  2:157889/1‑141 (MQ=255)

                                                               caccaTATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCAt                                                                <  1:80473/141‑1 (MQ=255)

                                                                             ttCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACa                                                  <  1:82153/141‑1 (MQ=255)

                                                                                  attattATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATc                                             <  2:244382/141‑1 (MQ=255)

                                                                                  attattATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATc                                             <  1:69233/141‑1 (MQ=255)

                                                                                    tattatATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCtt                                           <  1:77604/141‑1 (MQ=255)

                                                                                     attatATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTtg                                          <  1:368849/141‑1 (MQ=255)

                                                                                                         atTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCAtatgtttatgtt                      <  1:351850/141‑1 (MQ=255)

                                                                                                         atTTCTAATCTTCTTTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCAtatgtttatgtt                      <  1:155703/141‑1 (MQ=255)

                                                                                                                  cttcttTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCATATGTTTATGTTTTTTAatat             <  2:1031/141‑1 (MQ=255)

                                                                                                                  cttcttTNTTCAATTTCTTTACTTTTTTTATACTCAAAATAGTCATATCATTTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATTTATCATTTGAACATTACCTTGTGGGTGCATATGTTCATCTTTTTTAatat             <  2:295985/141‑1 (MQ=255)

                                                                                                                     cttTTTTAAATTATTTTACTTTTTATATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAATCTTTAAAATTGCTTAATATATAATTTAAACAATATCTTGTGTGTGCATATGTTTATGTTTTTTAATATAtt          <  1:227700/141‑1 (MQ=255)

                                                                                                                     cttTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCATATGTTTATGTTTTTTAATATAtt          <  1:167034/141‑1 (MQ=255)

                                                                                                                     cttTTTTAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCATATGTTTATGTTTTTTAATATAtt          <  1:287869/141‑1 (MQ=255)

                                                                                                                       tttttAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTTTTTGTTTTTTGAAGCTTTAAAATTGCTTCATATATAATTTTAACAATATCTTGTGGTTGCATATGTTTATGTTTTTTAATATAtttt        >  2:298410/1‑139 (MQ=255)

                                                                                                                       tttttAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCATATGTTTATGTTTTTTAATATATTCt        <  1:150257/141‑1 (MQ=255)

                                                                                                                        ttttAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCATATGTTTATGTTTTTTAATATATTCTa       <  2:222628/141‑1 (MQ=255)

                                                                                                                           tAAATTAATTTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCATATGTTTATGTTTTTTAATATATTCTaaaa    <  1:253146/141‑1 (MQ=255)

                                                                                                                             aattaattTACTTTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCATATGTTTATGTTTTTTAATATATTCTAAAAGt  >  1:31402/1‑141 (MQ=255)

AAGATTCATTTCATTACACTCCTACTTATTAAAAATATTTATCTTCATTTTAAGCGCTGTATCCACCATATTTATATTTCAAATTATTATATACCCATCGAAATAATTTCTAATCTTCTTTTTTAAATTAATTTACTCTTTTTATAATCAAAATAGTCATATCATCTTTTTTATTTGGGTTTTGAAGCTTTAAAATTGCTTCATAGATAATTTGAACAATATCTTGTGGGTGCATATGTTTATGTTTTTTAATATATTCTAAAAGT  >  CP000730/2186934‑2187199

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A