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
A5 F1 I2 R1	77	34.8	1608548	95.0%	1528120	114.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,185,875	(G)_7→6	intergenic (‑79/‑42)	rcnR ← / → rcnA	transcriptional repressor of rcnA/membrane protein conferring nickel and cobalt resistance

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,185,869	0	G	.	100.0%	127.4 / NA	30	intergenic (‑73/‑48)	rcnR/rcnA	transcriptional repressor of rcnA/membrane protein conferring nickel and cobalt resistance
Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (16/14); total (16/14)

GGCCCTGAATCTTACTGGCACGCGCTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTGGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAGCGCCATCTTACTTGGTG  >  NC_000913/2185736‑2185989

ggCCCTGAATCTTACTGGCACGCGCTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTgggggg                                                                                                                     >  2:373366/1‑139 (MQ=255)

       aaTCTTACTGGCACGCGCTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGaa                                                                                                             >  1:144458/1‑139 (MQ=255)

                ggCACGCGCTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTACTCTACTGGGGGGTAGTATCAGGTACT‑GTGGGGAGTAGAATCAGATTGc                                                                                                    <  2:144458/139‑1 (MQ=255)

                      cgcTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAAtt                                                                                              <  2:385699/139‑1 (MQ=255)

                      cgcTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAAtt                                                                                              >  1:82382/1‑139 (MQ=255)

                               tttCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAg                                                                                     <  2:82382/139‑1 (MQ=255)

                               tttCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAg                                                                                     <  2:560130/139‑1 (MQ=255)

                                                           aTGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTggggggag                                                                                                                   <  2:507790/82‑3 (MQ=255)

                                                           aTGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTgggcggag                                                                                                                   >  1:507790/1‑80 (MQ=255)

                                                             ggCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCa                                                                                                          <  1:493349/88‑1 (MQ=255)

                                                             ggCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCa                                                                                                          >  2:493349/1‑88 (MQ=255)

                                                             ggCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTa                                                                                       <  1:232775/107‑1 (MQ=255)

                                                             ggCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTa                                                                                       >  2:232775/1‑107 (MQ=255)

                                                             ggCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGAcc                                                                     >  2:74427/1‑125 (MQ=255)

                                                             ggCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGAcc                                                                     <  1:74427/125‑1 (MQ=255)

                                                             ggCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAActct                                                       >  1:221804/1‑139 (MQ=255)

                                                             ggCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAActct                                                       >  1:262709/1‑139 (MQ=255)

                                                                        gTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTggg                                                                                                                        <  1:401384/64‑1 (MQ=255)

                                                                        gTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTggg                                                                                                                        >  2:401384/1‑64 (MQ=255)

                                                                                           aTCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCAt                         >  1:193952/1‑139 (MQ=255)

                                                                                           aTCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCAt                         <  2:193952/139‑1 (MQ=255)

                                                                                                   aCTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAgcg                 <  2:262709/139‑1 (MQ=255)

                                                                                                   aCTATTAATCTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAgcg                 <  1:373366/139‑1 (MQ=255)

                                                                                                            cTACTGGGGGGTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAGCGCCATCTTAc        >  2:282711/1‑139 (MQ=255)

                                                                                                                 ggggggTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATa                                                                                          >  2:628528/1‑52 (MQ=255)

                                                                                                                 ggggggTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATa                                                                                          <  1:628528/52‑1 (MQ=255)

                                                                                                                 ggggggTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGACTTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAGCGCCATCTTACTTGGt   >  1:664306/1‑139 (MQ=255)

                                                                                                                 ggggggTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATccc                      <  2:265028/120‑1 (MQ=255)

                                                                                                                 ggggggTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATccc                      >  1:265028/1‑120 (MQ=255)

                                                                                                                 ggggggTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAGCGCCATCTTACTTGGt   >  2:45907/1‑139 (MQ=255)

                                                                                                                  gggggTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAgc                  >  1:762498/1‑123 (MQ=255)

                                                                                                                  gggggTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAgc                  <  2:762498/123‑1 (MQ=255)

                                                                                                                  gggggTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAGCGCCATCTTACTTGGTg  >  1:88178/1‑139 (MQ=255)

                                                                                                                     ggTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGc                                                                                                    >  2:497237/1‑38 (MQ=255)

                                                                                                                     ggTAGTATCAGGTACT‑GGGGGGAGTAGAATCAGATTGc                                                                                                    <  1:497237/38‑1 (MQ=255)

GGCCCTGAATCTTACTGGCACGCGCTTTCAGTTTCTGTTTATCACGGATTGTATGAGACATGGCAACACCTGGTTAACAAGAATATGAAAAATCATAGCACTATTAATCTACTGGGGGGTAGTATCAGGTACTGGGGGGGAGTAGAATCAGATTGCCGAATTAATACTAAGAATTATTATCATGACCGAATTTACAACTCTTCTTCAGCAAGGAAACGCCTGGTTCTTCATCCCCAGCGCCATCTTACTTGGTG  >  NC_000913/2185736‑2185989

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A