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
A1 F1 I2 R1	765	46.1	2269152	93.8%	2128464	105.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,083,620	G→A	R60C (CGT→TGT)	speB ←	agmatinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,083,620	0	G	A	100.0%	102.4 / NA	32	R60C (CGT→TGT)	speB	agmatinase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (16/16); total (16/16)

GCTTTTCGCTCATCTCACGGGCATCGCCAAAGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACGGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATACGGCTGGAAGTTCATCGGCAGGCGTAAA  >  NC_000913/3083485‑3083741

gCTTTTCGCTCATCTCACGGGCATCGCCAAAGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGAt                                                                                                                        <  2:641755/139‑1 (MQ=255)

                       tCGCCAAAGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGaccac                                                                                                 >  1:1101267/1‑139 (MQ=255)

                              aGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACg                                                                                          >  1:625877/1‑139 (MQ=255)

                                         aGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTgg                                                                               <  2:1101267/139‑1 (MQ=255)

                                          gATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGc                                                                              >  1:477749/1‑139 (MQ=255)

                                          gATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGc                                                                              >  1:939609/1‑139 (MQ=255)

                                             cgccgcAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGAc                                                                                        >  1:504134/1‑126 (MQ=255)

                                             cgccgcAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGAc                                                                                        <  2:504134/126‑1 (MQ=255)

                                             cgccgcAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCat                                                                           >  1:934771/1‑139 (MQ=255)

                                               ccgcAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCatat                                                                         >  1:240473/1‑139 (MQ=255)

                                                   aGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCAGGACCGTGGCGACCACCCGCACGACCAGTAGTGGCCATATCGaa                                                                     <  2:800432/139‑1 (MQ=255)

                                                       cACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGAc                                                                                        <  2:926823/116‑1 (MQ=255)

                                                       cACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGAc                                                                                        >  1:926823/1‑116 (MQ=255)

                                                       cACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGc                                                                 <  1:1108146/139‑1 (MQ=255)

                                                             gTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCa                                                           >  2:813604/1‑139 (MQ=255)

                                                                      cTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACgg                                                                  <  1:466883/123‑1 (MQ=255)

                                                                      cTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACgg                                                                  >  2:466883/1‑123 (MQ=255)

                                                                      cTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCAcc                                                  >  2:300465/1‑139 (MQ=255)

                                                                       tCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCAccc                                                 >  2:623859/1‑139 (MQ=255)

                                                                               gTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCa                                         <  2:240473/139‑1 (MQ=255)

                                                                                tCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCAt                                        <  1:813604/139‑1 (MQ=255)

                                                                                 cGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATc                                       <  2:934771/139‑1 (MQ=255)

                                                                                           cGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATAc                             >  1:192632/1‑139 (MQ=255)

                                                                                                            cccAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATACGGCTGGAAGTTCATCgg            <  2:1000228/139‑1 (MQ=255)

                                                                                                             ccAGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATACGGCTGGAAGTTCATCGGc           <  2:192632/139‑1 (MQ=255)

                                                                                                               aGGCCAGATTCGTCGAAACCTGACAGATCGCTGCCGTACCGTGGCGAGCACCCGCACGACCAGTAGTGGCCATATCGAACGGCACGCTAGTAATCACCCAGTCTGCATCGCTGTCATACGGCTGGAAGTTCATCGGCAg         >  1:720735/1‑139 (MQ=255)

                                                                                                                     gATTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATACGGCTGGAAGTTCATCGGCAGGCGTaa   <  2:477749/139‑1 (MQ=255)

                                                                                                                      aTTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGcc                                                                             >  2:1056780/1‑64 (MQ=255)

                                                                                                                      aTTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGcc                                                                             <  1:1056780/64‑1 (MQ=255)

                                                                                                                      aTTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATACGGCTGGAAGTTCATCGGCAGGCGTaaa  >  2:266261/1‑139 (MQ=255)

                                                                                                                      aTTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATACGGCTGGAAGTTCATCGGCAGGCGTaaa  <  2:625877/139‑1 (MQ=255)

                                                                                                                      aTTCGTCGAAACCTGACAGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATACGGCTGGAAGTTCATCGGCAGGCGTaaa  <  1:266261/139‑1 (MQ=255)

GCTTTTCGCTCATCTCACGGGCATCGCCAAAGGCATATACCAGATCGCCGCAGTCCACGACGTTCAGACGCTCACGCATGTCGAAATTCCACGGGAAGCGGTTGTGTTCCCAGGCCAGATTCGTCGAAACCTGACGGATCGCTGCCGGACCGTGGCGACCACCCGCACGACCAGAAGTGGCCATATCGAACGGCACGCCAGTAATCACCCAGTCTGCATCGCTGTCATACGGCTGGAAGTTCATCGGCAGGCGTAAA  >  NC_000913/3083485‑3083741

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