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 I2 R1	78	65.3	3016648	94.6%	2853749	111.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,440,918	T→C	T38A (ACT→GCT)	rpoA ←	RNA polymerase, alpha subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,440,918	0	T	C	100.0%	187.7 / NA	49	T38A (ACT→GCT)	rpoA	RNA polymerase, alpha subunit
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (28/21); total (28/21)

GATTTCCAGGATATCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTT  >  NC_000913/3440787‑3441042

gATTTCCAGGATATCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCa                                                                                                                       <  2:194054/139‑1 (MQ=255)

     ccAGGATATCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGcc                                                                                                                  >  2:273841/1‑139 (MQ=255)

      cAGGATATCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCa                                                                                                                 <  1:273841/139‑1 (MQ=255)

           tatCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGctc                                                                                                            >  1:183584/1‑139 (MQ=255)

              cTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTaa                                                                                                         >  1:985802/1‑139 (MQ=255)

                 ccTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAgg                                                                                                      >  1:631287/1‑139 (MQ=255)

                           ttcttTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTc                                                                                            >  2:21293/1‑139 (MQ=255)

                                              tGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAAc                                                                         <  1:84196/139‑1 (MQ=255)

                                                  gtaCACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCAc                                                                     >  1:1334479/1‑139 (MQ=255)

                                                  gtaCACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCAc                                                                     >  1:55768/1‑139 (MQ=255)

                                                  gtaCACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCAACTTGGCGTGCGTCGAACTCAc                                                                     >  1:885964/1‑139 (MQ=255)

                                                        cATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAggg                                                                                              >  2:172134/1‑108 (MQ=255)

                                                        cATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAggg                                                                                              <  1:172134/108‑1 (MQ=255)

                                                         aTCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCg                                                              >  2:518802/1‑139 (MQ=255)

                                                          tCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCa                                                                                                                 <  1:1443348/87‑1 (MQ=255)

                                                          tCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCa                                                                                                                 >  2:1443348/1‑87 (MQ=255)

                                                          tCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGa                                                             >  1:798322/1‑139 (MQ=255)

                                                             aTCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCAc                                                                     <  2:698921/128‑1 (MQ=255)

                                                             aTCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCAc                                                                     >  1:698921/1‑128 (MQ=255)

                                                             aTCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGatat                                                          >  2:813103/1‑139 (MQ=255)

                                                                    ccTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGcc                                                                                                                  >  1:548036/1‑76 (MQ=255)

                                                                    ccTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGcc                                                                                                                  <  2:548036/76‑1 (MQ=255)

                                                                     cTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAgg                                                  <  1:21293/139‑1 (MQ=255)

                                                                        ggTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGgc                                                                                    >  1:552540/1‑102 (MQ=255)

                                                                        ggTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGgc                                                                                    <  2:552540/102‑1 (MQ=255)

                                                                         gTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACACAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGcgcg                                              >  1:1123655/1‑139 (MQ=255)

                                                                          tCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCgg                                             >  1:645210/1‑139 (MQ=255)

                                                                          tCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCgg                                             >  2:1039462/1‑139 (MQ=255)

                                                                              cgcgCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGtttt                                         >  1:1468548/1‑139 (MQ=255)

                                                                              cgcgCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGtttt                                         >  1:1415610/1‑139 (MQ=255)

                                                                               gcgcAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCt                                                                <  1:707995/115‑1 (MQ=255)

                                                                               gcgcAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCt                                                                >  2:707995/1‑115 (MQ=255)

                                                                                 gcAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGa                                      <  1:518802/139‑1 (MQ=255)

                                                                                      ccGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAActc                                 <  2:645210/139‑1 (MQ=255)

                                                                                      ccGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAActc                                 <  2:183584/139‑1 (MQ=255)

                                                                                           aTCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTCGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTca                            <  2:666452/139‑1 (MQ=255)

                                                                                             cGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTcaca                          <  2:55768/139‑1 (MQ=255)

                                                                                               aTGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGc                                                                                                                   <  2:1303571/48‑1 (MQ=255)

                                                                                               aTGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGc                                                                                                                   >  1:1303571/1‑48 (MQ=255)

                                                                                               aTGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGa                        >  2:322001/1‑139 (MQ=255)

                                                                                               aTGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGa                        >  2:644286/1‑139 (MQ=255)

                                                                                                   gagCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCa                                                                                                  <  1:1260233/61‑1 (MQ=255)

                                                                                                   gagCAGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCa                                                                                                  >  2:1260233/1‑61 (MQ=255)

                                                                                                       aGAATACGGCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCa                <  1:56863/139‑1 (MQ=255)

                                                                                                              ggCGCAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTc         <  2:1468548/139‑1 (MQ=255)

                                                                                                                cgcAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCct       <  1:644286/139‑1 (MQ=255)

                                                                                                                cgcAGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCct       >  1:592939/1‑139 (MQ=255)

                                                                                                                   aGTGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCctctc    >  2:554831/1‑139 (MQ=255)

                                                                                                                     tGCGTTACCCAGAGCATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAATCCTGCATTGTGTCCTCTCtt  <  2:885964/139‑1 (MQ=255)

GATTTCCAGGATATCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTT  >  NC_000913/3440787‑3441042

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