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
A11 F1 I2 R1	760	67.6	3323148	92.7%	3080558	109.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	586,280	T→C	N210S (AAC→AGC)	envY ←	porin thermoregulatory transcriptional activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	586,280	0	T	C	100.0%	157.6 / NA	45	N210S (AAC→AGC)	envY	porin thermoregulatory transcriptional activator
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (18/27); total (18/27)

CTTCACCACATCACTTTTTGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGTTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTAAACATAGCGAACTGGCGACAATTCGCA  >  NC_000913/586145‑586415

cTTCACCACATCACTTTTTGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTAt                                                                                                                                      <  2:1518050/139‑1 (MQ=255)

      cacaTCACTTTTTGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCa                                                                                                                                >  1:1164157/1‑139 (MQ=255)

       acaTCACTTTTTGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGG‑CGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAAt                                                                                                                              <  1:1309456/139‑1 (MQ=255)

        caTCACTTTTTGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACCTAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAAt                                                                                                                              <  2:321163/139‑1 (MQ=255)

        caTCACTTTTTGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAAt                                                                                                                              <  1:402445/139‑1 (MQ=255)

             cTTTTTGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACAt                                                                                                                         <  1:30950/139‑1 (MQ=255)

                        tGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATaa                                                                                                                            >  2:769741/1‑125 (MQ=255)

                        tGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATaa                                                                                                                            <  1:769741/125‑1 (MQ=255)

                           ttGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAAc                                                                                                           <  2:1242674/139‑1 (MQ=255)

                               cGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCAt                                                                                                       <  2:1164157/139‑1 (MQ=255)

                                   aTAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGa                                                                                                   <  1:299835/139‑1 (MQ=255)

                                   aTAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGa                                                                                                   <  1:1632674/139‑1 (MQ=255)

                                   aTAATTCAACGGTGTCAGGCAGTAAAACGCCTTAAAGACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGa                                                                                                   <  1:21770/139‑1 (MQ=255)

                                     aaTTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGaca                                                                                                 <  2:1632648/139‑1 (MQ=255)

                                               tgtCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATaa                                                                                                                            <  2:648820/102‑1 (MQ=255)

                                               tgtCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATaa                                                                                                                            >  1:648820/1‑102 (MQ=255)

                                                    ggCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTg                                                                                  >  2:1569564/1‑139 (MQ=255)

                                                         tAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCtat                                                                             >  1:1259781/1‑139 (MQ=255)

                                                         tAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCtat                                                                             >  1:740849/1‑139 (MQ=255)

                                                         gaaaaGGCCTTACAGATAGAGATAACGTAAGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCtat                                                                             >  2:607692/2‑139 (MQ=255)

                                                                        aCAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGt                                                              <  2:1259781/139‑1 (MQ=255)

                                                                                        acgTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCttttt                                              >  2:734100/1‑139 (MQ=255)

                                                                                           tgctgcTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAg                                           <  2:36331/139‑1 (MQ=255)

                                                                                           tgctgcTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAg                                           <  1:1361956/139‑1 (MQ=255)

                                                                                             ctgctATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAAc                                                                                                           >  1:630956/1‑73 (MQ=255)

                                                                                             ctgctATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAAc                                                                                                           <  2:630956/73‑1 (MQ=255)

                                                                                                 tataGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCt                                     <  2:1133795/139‑1 (MQ=255)

                                                                                                  ataGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATGCGCCAAAAACATGTGTACGGCGTAGCGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTg                                    <  2:924428/139‑1 (MQ=255)

                                                                                                   taGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTgg                                   <  1:734100/139‑1 (MQ=255)

                                                                                                   taGCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTga                                   >  1:1147473/1‑138 (MQ=255)

                                                                                                     gCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATaa                                                                                                                            >  2:546949/1‑48 (MQ=255)

                                                                                                     gCCACATAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATaa                                                                                                                            <  1:546949/48‑1 (MQ=255)

                                                                                                          aTAATTGCGCCACCTGAGTGATATTTTTGCTATCCa                                                                                                                                   <  2:1487686/36‑1 (MQ=255)

                                                                                                          aTAATTGCGCCACCTGAGTGATATTTTTGCTATCCa                                                                                                                                   >  1:1487686/1‑36 (MQ=255)

                                                                                                          aTAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAAt                                                                                     >  1:73162/1‑82 (MQ=255)

                                                                                                          aTAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAAt                                                                                     <  2:73162/82‑1 (MQ=255)

                                                                                                          aTAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATc                                                                                    <  2:456396/83‑1 (MQ=255)

                                                                                                          aTAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATc                                                                                    >  1:456396/1‑83 (MQ=255)

                                                                                                          aTAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTgg                                   >  1:1390611/1‑132 (MQ=255)

                                                                                                          aTAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTgg                                   <  2:1390611/132‑1 (MQ=255)

                                                                                                          aTAATTGCGCCACCTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTaa                            >  1:758018/1‑139 (MQ=255)

                                                                                                                       cTGAGTGATATTTTTGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTAAACATAGCGAACTg               >  2:1129/1‑139 (MQ=255)

                                                                                                                                    ttGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAAt                                                                                     >  1:387914/1‑56 (MQ=255)

                                                                                                                                    ttGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTAAACATAGCGAACTGGCGACAATTCg    <  2:333163/137‑1 (MQ=255)

                                                                                                                                    ttGCTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTAAACATAGCGAACTGGCGACAATTCGCa  <  2:740849/139‑1 (MQ=255)

CTTCACCACATCACTTTTTGTCGCTGTTTGGCGAGATAATTCAACGGTGTCAGGCCGTAAAACGCCTTAAAAACAGAGATAAAGTACGACGTGCTGCTATAGCCACATAATTGCGCCACCTGAGTGATATTTTTGTTATCCATCAATAACATCTGTACGGCGTAACGCATACGACACTCTGTGACAATCTGGCTATAGCTGGTATTTTCGTTTTTTAATTTCTTTTTGAGCAGGCTGGGGCTTAAACATAGCGAACTGGCGACAATTCGCA  >  NC_000913/586145‑586415

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A