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
A10 F1 I1 R1	759	65.2	3386260	90.7%	3071337	101.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,203,224	G→A	67 (TAG→TAA)	croE →	e14 prophage, putative DNA‑binding transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,203,224	0	G	A	100.0%	171.1 / NA	53	67 (TAG→TAA)	croE	e14 prophage, putative DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (26/27); total (26/27)

CACCTGGCTACTTACGGCTGGTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAGCAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTGGTACGTGAAAGCTGTCAGAAAAA  >  NC_000913/1203091‑1203331

cacCTGGCTACTTACGGCTGGTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGaa                                                                                                        <  1:987655/139‑1 (MQ=255)

      gCTACTTACGGCTGGTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACttt                                                                                                  >  2:930994/1‑139 (MQ=255)

                gCTGGTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTaa                                                                                        >  2:1585074/1‑139 (MQ=255)

                gCTGGTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTaa                                                                                        >  2:513032/1‑139 (MQ=255)

                   ggTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACca                                                                                     <  1:513032/139‑1 (MQ=255)

                    gTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGaa                                                                                                        <  1:1463693/119‑1 (MQ=255)

                    gTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGaa                                                                                                        >  2:1463693/1‑119 (MQ=255)

                    gTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACca                                                                                     >  2:1557497/1‑138 (MQ=255)

                    gTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACca                                                                                     <  1:1557497/138‑1 (MQ=255)

                                        aGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGt                                                                >  1:76809/1‑139 (MQ=255)

                                         gCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGaa                                                                                                        <  1:1533986/98‑1 (MQ=255)

                                         gCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGaa                                                                                                        >  2:1533986/1‑98 (MQ=255)

                                                        gCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAAttttt                                                                                          <  1:685464/97‑1 (MQ=255)

                                                        gCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAAttttt                                                                                          >  2:685464/1‑97 (MQ=255)

                                                        gCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGa                                                                             <  2:304018/110‑1 (MQ=255)

                                                        gCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGa                                                                             >  1:304018/1‑110 (MQ=255)

                                                                     aGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAAc                                   <  1:1585074/139‑1 (MQ=255)

                                                                        aaTACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATAACTATCCGAAAGATTAACATAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGTAAAACAGc                                <  2:197584/139‑1 (MQ=255)

                                                                             acaTCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAg                           <  2:76809/139‑1 (MQ=255)

                                                                                  aGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTGGTa                      <  1:930994/139‑1 (MQ=255)

                                                                                    gTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGaa                                                                                                        <  2:1690672/55‑1 (MQ=255)

                                                                                    gTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGaa                                                                                                        >  1:1690672/1‑55 (MQ=255)

                                                                                    gTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAAtttt                                                                                           >  1:998956/1‑68 (MQ=255)

                                                                                    gTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAAtttt                                                                                           <  2:998956/68‑1 (MQ=255)

                                                                                    gTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGc                                >  1:1669303/1‑127 (MQ=255)

                                                                                    gTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGc                                <  2:1669303/127‑1 (MQ=255)

                                                                                    gTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTgg                        >  1:1270017/1‑135 (MQ=255)

                                                                                    gTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTgg                        <  2:1270017/135‑1 (MQ=255)

                                                                                    gTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTGGTACg                    >  1:1616459/1‑139 (MQ=255)

                                                                                    gTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGATAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTgg                        >  1:70375/1‑135 (MQ=255)

                                                                                    gTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGATAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTgg                        <  2:70375/135‑1 (MQ=255)

                                                                                      gCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAAtt                                                                                             <  2:412024/64‑1 (MQ=255)

                                                                                      gCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAAtt                                                                                             >  1:412024/1‑64 (MQ=255)

                                                                                         aTTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCt                                                                      <  2:294838/84‑1 (MQ=255)

                                                                                         aTTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCt                                                                      >  1:294838/1‑84 (MQ=255)

                                                                                             cGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGc                                >  1:1358114/1‑118 (MQ=255)

                                                                                             cGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGc                                <  2:1358114/118‑1 (MQ=255)

                                                                                                      aCTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGAt                                                                            >  1:1378278/1‑65 (MQ=255)

                                                                                                      aCTTAAGACCGGATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGAt                                                                            <  2:1378278/65‑1 (MQ=255)

                                                                                                                ggATATCTATCCGAAAGATTAACAGAACACTTTCAAttttt                                                                                          <  1:1429636/41‑1 (MQ=255)

                                                                                                                ggATATCTATCCGAAAGATTAACAGAACACTTTCAAttttt                                                                                          >  2:1429636/1‑41 (MQ=255)

                                                                                                                 gATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGAt                                                                            >  1:706944/1‑54 (MQ=255)

                                                                                                                 gATATCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGAt                                                                            <  2:706944/54‑1 (MQ=255)

                                                                                                                  atatCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATa                                          <  1:173058/87‑1 (MQ=255)

                                                                                                                  atatCTATCCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATa                                          >  2:173058/1‑87 (MQ=255)

                                                                                                                      ctatcCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTGGTACGTGAAAGCTGTCAGaaaaa  >  2:279083/1‑123 (MQ=255)

                                                                                                                      ctatcCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTGGTACGTGAAAGCTGTCAGaaaaa  <  1:279083/123‑1 (MQ=255)

                                                                                                                       tatcCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGaaaa                                            >  2:1489041/1‑80 (MQ=255)

                                                                                                                       tatcCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGaaaa                                            <  1:1489041/80‑1 (MQ=255)

                                                                                                                        atcCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTgg                        <  2:198711/99‑1 (MQ=255)

                                                                                                                        atcCGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTgg                        >  1:198711/1‑99 (MQ=255)

                                                                                                                           cGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAg                           <  1:510971/93‑1 (MQ=255)

                                                                                                                           cGAAAGATTAACAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAg                           >  2:510971/1‑93 (MQ=255)

CACCTGGCTACTTACGGCTGGTTTTCAATGGCTATAAAAAAGCCAGTTTTGTGCTGGCTAAAAAACTTGAGCAATACACATCAGGTGCAATTACGAAATCTGACTTAAGACCGGATATCTATCCGAAAGATTAGCAGAACACTTTCAATTTTTAACCACAGAACGATGAGGCTAATCGTGGGTAAGCATCACTGGAAAATAGAAAAACAGCCTGAGTGGTACGTGAAAGCTGTCAGAAAAA  >  NC_000913/1203091‑1203331

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A