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
A12 F1 I2 R1	766	55.6	2631458	94.7%	2491990	109.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,442,007	T→C	E57G (GAG→GGG)	msrA ←	methionine sulfoxide reductase A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,442,007	0	T	C	100.0%	142.9 / NA	41	E57G (GAG→GGG)	msrA	methionine sulfoxide reductase A
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (22/19); total (22/19)

TCGTAAACAATGCGTACCGCTTCGGCATGACCCGTATCACCGGAGCACACTTCCCGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGTCCAGGCAGGGCATCGGCG  >  NC_000913/4441872‑4442141

tCGTAAACAATGCGTACCGCTTCGGCATGACCCGTATCACCGGAGCACACTTCCCGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCca                                                                                                                                     >  2:159063/1‑139 (MQ=255)

 cGTAAACAATGCGTACCGCTTCGGCATGACCCGTATCACCGGAGCACACTTCCCGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCcac                                                                                                                                    <  1:159063/139‑1 (MQ=255)

              tACCGCTTCGGCATGACCCGTATCACCGGAGCACACTTCCCGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAaacaa                                                                                                                       >  2:1220083/1‑139 (MQ=255)

                    ttCGGCATGACCCGTATCACCGGAGCACACTTCCCGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATc                                                                                                                 >  1:1283181/1‑139 (MQ=255)

                           tGACCCGTATCACCGGAGCACACTTCCCGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCaaaaa                                                                                                          <  2:900662/139‑1 (MQ=255)

                             aCCCGTATCACCGGAGCACACTTCCCGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATg                                                                                                        >  2:316006/1‑139 (MQ=255)

                               ccGTATCACCGGAGCACACTTCCCGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGc                                                                                                      <  1:1284854/139‑1 (MQ=255)

                                       ccGGAGCACACTTCCCGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCa                                                                                              >  1:206598/1‑139 (MQ=255)

                                        cGGAGCACACTTCCCGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCAt                                                                                             >  1:1157004/1‑139 (MQ=255)

                                           aGCACACTTCCCGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTcc                                                                                          <  1:316006/139‑1 (MQ=255)

                                             cacaCTTCCCGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCca                                                                                                                                     >  2:951803/1‑94 (MQ=255)

                                             cacaCTTCCCGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCca                                                                                                                                     <  1:951803/94‑1 (MQ=255)

                                                      cGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACAt                                                                               <  1:1010422/139‑1 (MQ=255)

                                                            gTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAAt                                                                                                   <  1:1084887/113‑1 (MQ=255)

                                                            gTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAAt                                                                                                   >  2:1084887/1‑113 (MQ=255)

                                                                       cGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGTCATTGAGTGACCg                                                              >  2:885811/1‑139 (MQ=255)

                                                                                gccgGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAATTGCCAGAACAGACGCCCCATACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGCTCATTGAGTGACCGTTGACCGCa                                                     >  2:867015/1‑139 (MQ=255)

                                                                                   ggTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCAtt                                                                                            >  1:736382/1‑97 (MQ=255)

                                                                                   ggTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCAtt                                                                                            <  2:736382/97‑1 (MQ=255)

                                                                                     tataGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCaaa                                                                                                            <  1:1141384/79‑1 (MQ=255)

                                                                                     tataGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCaaa                                                                                                            >  2:1141384/1‑79 (MQ=255)

                                                                                          ccTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTgg                                           >  1:491678/1‑139 (MQ=255)

                                                                                            tGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCca                                                                                                                                     >  1:12890/1‑47 (MQ=255)

                                                                                            tGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCca                                                                                                                                     <  2:12890/47‑1 (MQ=255)

                                                                                            tGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGTCATTGAGTGACCGTTGACCGCATg                                                   <  1:1164175/129‑1 (MQ=255)

                                                                                            tGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGTCATTGAGTGACCGTTGACCGCATg                                                   >  2:1164175/1‑129 (MQ=255)

                                                                                            tGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCt                                         >  1:85940/1‑139 (MQ=255)

                                                                                              cggcggTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGt                                                                           >  1:1304996/1‑103 (MQ=255)

                                                                                              cggcggTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGt                                                                           <  2:1304996/103‑1 (MQ=255)

                                                                                               ggcggTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGc                                                                                                      <  1:549314/75‑1 (MQ=255)

                                                                                               ggcggTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGc                                                                                                      >  2:549314/1‑75 (MQ=255)

                                                                                                gcggTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACgg                                     <  1:623946/139‑1 (MQ=255)

                                                                                                    tGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCaaaa                                                                                                           >  2:2043/1‑65 (MQ=255)

                                                                                                    tGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCaaaa                                                                                                           <  1:2043/65‑1 (MQ=255)

                                                                                                    tGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCAt                                 <  2:85940/139‑1 (MQ=255)

                                                                                                        gTAAACGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCggg                             <  2:1016313/139‑1 (MQ=255)

                                                                                                           aaCGCCGGGTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGgtg                          >  2:598855/1‑139 (MQ=255)

                                                                                                                 gggTAACTGCCAGAACAGACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGt                    <  2:1283181/139‑1 (MQ=255)

                                                                                                                                  gACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCAtt                                                                                            >  2:1125966/1‑50 (MQ=255)

                                                                                                                                  gACGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCAtt                                                                                            <  1:1125966/50‑1 (MQ=255)

                                                                                                                                   aCGCCCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGTCCAGGCAGGGCATcggcg  >  2:67441/1‑139 (MQ=255)

TCGTAAACAATGCGTACCGCTTCGGCATGACCCGTATCACCGGAGCACACTTCCCGATAAGTCGGATTTGGCGTATAGCCGCCGGTATAGCCTGCGGCGGTGCTGTAAACGCCGGGTAACTGCCAGAACAGACGCTCCACACCCCAGAAACAACCCATCGCAAAAATGGCAATCTCCATTCCGTCAGGTACATTGGTCATTGAGTGACCGTTGACCGCATGCAGCGTGGCTACGGGCATCGGGGTGTTACGTCCAGGCAGGGCATCGGCG  >  NC_000913/4441872‑4442141

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