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	1,670,581	G→A	G295R (GGA→AGA)	ynfM →	putative arabinose efflux transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,670,581	0	G	A	100.0%	124.9 / NA	39	G295R (GGA→AGA)	ynfM	putative arabinose efflux transporter
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/18); total (21/18)

TGTTTAATTACATCGGCTATCGGTTGATGCTCTCCCCCTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCGGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCTCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGG  >  NC_000913/1670468‑1670714

tGTTTAATTACATCGGCTATCGGTTGATGCTCTCCCCCTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCg                                                                                                              <  2:777365/139‑1 (MQ=255)

   ttAATTACATCGGCTATCGGTTGATGCTCTCCCCCTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTgg                                                                                                           >  1:294819/1‑139 (MQ=255)

   ttAATTACATCGGCTATCGGTTGATGCTCTCCCCCTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTgg                                                                                                           >  2:806330/1‑139 (MQ=255)

            tCGGCTATCGGTTGATGCTCTCCCCCTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGAt                                                                                                  >  1:331958/1‑139 (MQ=255)

            tCGGCTATCGGTTGATGCTCTCCCCCTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGAt                                                                                                  >  2:510842/1‑139 (MQ=255)

            tCGGCTATCGGTTGATGCTCTCCCCCTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGAt                                                                                                  >  1:732643/1‑139 (MQ=255)

                cTATCGGTTGATGCTCTCCCCCTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGAtgttg                                                                                              >  1:396682/1‑139 (MQ=255)

                  aTCGGTTGATGCTCTCCCCCTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTc                                                                                                         >  2:384820/1‑126 (MQ=255)

                  aTCGGTTGATGCTCTCCCCCTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTc                                                                                                         <  1:384820/126‑1 (MQ=255)

                  aTCGGTTGATGCTCTCCCCCTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATgttgtt                                                                                            <  1:48452/139‑1 (MQ=255)

                        tGATGCTCTCCCCCTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCt                                                                                                                     >  2:5595/1‑108 (MQ=255)

                        tGATGCTCTCCCCCTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCt                                                                                                                     <  1:5595/108‑1 (MQ=255)

                             ctctCCCCCTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACggggg                                                                                 >  2:610300/1‑139 (MQ=255)

                                 cccccTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCg                                                                                                                       >  1:544004/1‑97 (MQ=255)

                                 cccccTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCg                                                                                                                       <  2:544004/97‑1 (MQ=255)

                                      tGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGt                                                                        <  1:610300/139‑1 (MQ=255)

                                         cATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTg                                                                     >  2:705446/1‑139 (MQ=255)

                                            gtcagtcaGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCg                                                                                                              <  2:703150/95‑1 (MQ=255)

                                            gtcagtcaGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCg                                                                                                              >  1:703150/1‑95 (MQ=255)

                                            gtcagtcaGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGtt                                                                  <  2:161007/139‑1 (MQ=255)

                                                  cagGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCa                                                                                                       >  1:49544/1‑96 (MQ=255)

                                                  cagGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCa                                                                                                       <  2:49544/96‑1 (MQ=255)

                                                  cagGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACtga                                                            <  1:806330/139‑1 (MQ=255)

                                                  cagGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACtga                                                            <  1:705446/139‑1 (MQ=255)

                                                                             gCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCa                                                                                                       >  2:334648/1‑69 (MQ=255)

                                                                             gCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCa                                                                                                       <  1:334648/69‑1 (MQ=255)

                                                                                      aCCGGTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCTCGCTGTGGCTGATCTTTGCCg                        <  2:642189/139‑1 (MQ=255)

                                                                                          gTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCg                                                                                                              >  2:494790/1‑49 (MQ=255)

                                                                                          gTACATGGAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCg                                                                                                              <  1:494790/49‑1 (MQ=255)

                                                                                                ggAGCTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCTCGCTGTGGCTGATCTTTGCCGGAATGTTAct              >  1:199692/1‑139 (MQ=255)

                                                                                                    cTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACtga                                                            <  1:822837/89‑1 (MQ=255)

                                                                                                    cTCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACtga                                                            >  2:822837/1‑89 (MQ=255)

                                                                                                     tCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCTCGCTGTGGCTGATCTTTGCCg                        >  2:507734/1‑124 (MQ=255)

                                                                                                     tCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCTCGCTGTGGCTGATCTTTGCCg                        <  1:507734/124‑1 (MQ=255)

                                                                                                     tCACCCAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCTCGCTGTGGCTGATCTTTGCCGGAATGTTACtcttct         >  2:317146/1‑139 (MQ=255)

                                                                                                       aCCCAAAGCCAGAACCATGACCACCCGCTATGGGCg                                                                                                              >  2:402349/1‑36 (MQ=255)

                                                                                                       aCCCAAAGCCAGAACCATGACCACCCGCTATGGGCg                                                                                                              <  1:402349/36‑1 (MQ=255)

                                                                                                          cAAAGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCTCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTcagca    <  1:317146/139‑1 (MQ=255)

                                                                                                            aaGCCAGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCTCGCCGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAgg  >  1:350111/1‑139 (MQ=255)

TGTTTAATTACATCGGCTATCGGTTGATGCTCTCCCCCTGGCATGTCAGTCAGGCCGTGGTTGGCTTATTATCGCTGGCTTATTTGACCGGTACATGGAGCTCACCCAAAGCCGGAACCATGACCACCCGCTATGGGCGTGGTCCAGTGATGTTGTTTTCGACGGGGGTTATGCTGTTTGGTTTACTGATGACCTTATTCAGCTCGCTGTGGCTGATCTTTGCCGGAATGTTACTCTTCTCAGCAGG  >  NC_000913/1670468‑1670714

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `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