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
A6 F1 I2 R1	758	59.3	2864096	93.9%	2689386	105.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,796,146	C→T	A158V (GCG→GTG)	csiR →	transcriptional repressor of csiD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,796,146	0	C	T	100.0%	165.5 / NA	52	A158V (GCG→GTG)	csiR	transcriptional repressor of csiD
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (28/24); total (28/24)

AGCTTGAGGCCTGTGACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGCGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGCGCGCCAGTGAGTTAATGC  >  NC_000913/2796011‑2796280

aGCTTGAGGCCTGTGACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTggtggc                                                                                                                                     <  2:99273/139‑1 (MQ=255)

aGCTTGAGGCCTGTGACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTggtggc                                                                                                                                     <  2:857635/139‑1 (MQ=255)

aGCTTGAGGCCTGTGACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTggtggc                                                                                                                                     >  1:155270/1‑139 (MQ=255)

      aGGCCTGTGACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTa                                                                                                                               >  2:172679/1‑139 (MQ=255)

                        agaAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTgcg                                                                                                             <  1:790343/139‑1 (MQ=255)

                           aaaTGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTgcggcg                                                                                                          <  1:608921/139‑1 (MQ=255)

                                    atgaGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCt                                                                                                 <  2:699878/139‑1 (MQ=255)

                                        gTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTATGGCGGGCTGTGGTTCTCACTGTTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCg                                                                                             >  1:963775/1‑139 (MQ=255)

                                            gATCTGCGTCATCAGGCGTTTCATACGGGAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTgg                                                                                         <  2:155270/139‑1 (MQ=255)

                                              tCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGaa                                                                                       >  1:746363/1‑139 (MQ=255)

                                               cTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGaaa                                                                                      >  1:301924/1‑139 (MQ=255)

                                                tGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAAt                                                                                     >  1:565836/1‑139 (MQ=255)

                                                   gTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGt                                                                                                    <  2:1234576/121‑1 (MQ=255)

                                                   gTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGt                                                                                                    >  1:1234576/1‑121 (MQ=255)

                                                      atcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTgga                                                                               >  2:1207309/1‑139 (MQ=255)

                                                       tcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCg                                                                                             <  2:1115432/124‑1 (MQ=255)

                                                       tcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCg                                                                                             >  1:1115432/1‑124 (MQ=255)

                                                       tcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTggag                                                                              >  2:126839/1‑139 (MQ=255)

                                                       tcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTggag                                                                              <  2:301924/139‑1 (MQ=255)

                                                                 cATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCt                                                                                                 >  1:1310355/1‑110 (MQ=255)

                                                                 cATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCt                                                                                                 <  2:1310355/110‑1 (MQ=255)

                                                                   tACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGAt                                                                  >  2:1372147/1‑139 (MQ=255)

                                                                         aaTTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCCGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCAc                                                            <  1:172679/139‑1 (MQ=255)

                                                                              tgGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGAc                                                       >  2:643857/1‑139 (MQ=255)

                                                                                     cTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAAc                                                                                                       >  2:626900/1‑84 (MQ=255)

                                                                                     cTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAAc                                                                                                       <  1:626900/84‑1 (MQ=255)

                                                                                      tgtgGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTg                                               >  2:1185809/1‑139 (MQ=255)

                                                                                        tgGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTggagga                                                                            <  1:71709/108‑1 (MQ=255)

                                                                                        tgGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTggagga                                                                            >  2:71709/1‑108 (MQ=255)

                                                                                        tgGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTgcg                                             >  2:84507/1‑139 (MQ=255)

                                                                                          gTTCTCACTATTTGTTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTgcggc                                           >  1:1426904/1‑139 (MQ=255)

                                                                                             ctcACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTg                                                                                 <  1:65197/98‑1 (MQ=255)

                                                                                             ctcACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTg                                                                                 >  2:65197/1‑98 (MQ=255)

                                                                                                 cTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTg                                    <  1:1372147/139‑1 (MQ=255)

                                                                                                  tATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTc                                                                                              >  1:1092476/1‑80 (MQ=255)

                                                                                                  tATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTc                                                                                              <  2:1092476/80‑1 (MQ=255)

                                                                                                     ttGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGAc                                                 <  2:398312/122‑1 (MQ=255)

                                                                                                     ttGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGAc                                                 >  1:398312/1‑122 (MQ=255)

                                                                                                       gctgcAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCga                              >  2:1215292/1‑139 (MQ=255)

                                                                                                          gcAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTggagga                                                                            <  1:375067/90‑1 (MQ=255)

                                                                                                          gcAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTggagga                                                                            >  2:375067/1‑90 (MQ=255)

                                                                                                            aaaTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTgcg                                                                                                             <  2:662599/55‑1 (MQ=255)

                                                                                                            aaaTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTgcg                                                                                                             >  1:662599/1‑55 (MQ=255)

                                                                                                            aaaTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTg                                               >  2:937478/1‑117 (MQ=255)

                                                                                                            aaaTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTg                                               <  1:937478/117‑1 (MQ=255)

                                                                                                                     aaCGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCgcgcgcgc                <  1:643857/139‑1 (MQ=255)

                                                                                                                     aaCGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCgcgcgcgc                <  1:126839/139‑1 (MQ=255)

                                                                                                                     aaCGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCgcgcgcgc                <  1:84507/139‑1 (MQ=255)

                                                                                                                     aaCGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCgcgcgcgc                >  2:25058/1‑139 (MQ=255)

                                                                                                                          ttgttTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAAc                                                                                                       >  2:1028856/1‑47 (MQ=255)

                                                                                                                          ttgttTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAAc                                                                                                       <  1:1028856/47‑1 (MQ=255)

                                                                                                                               tGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGCGCGCCAGTGAGTTa      <  1:1207309/139‑1 (MQ=255)

                                                                                                                                  tCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCa                                                          >  1:1403552/1‑84 (MQ=255)

                                                                                                                                  tCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCa                                                          <  2:1403552/84‑1 (MQ=255)

                                                                                                                                  tCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGG‑AATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGCGCGCCAGTGAGTTAATgc  >  2:895267/1‑139 (MQ=255)

AGCTTGAGGCCTGTGACGCCAGCGAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGCGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGCGCGCCAGTGAGTTAATGC  >  NC_000913/2796011‑2796280

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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