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
A14 F1 I1 R1	71	51.6	2219666	95.9%	2128659	118.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,637,373	T→C	V226V (GTT→GTC)	creC →	sensory histidine kinase in two‑component regulatory system with CreB or PhoB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,637,373	0	T	C	100.0%	172.5 / NA	46	V226V (GTT→GTC)	creC	sensory histidine kinase in two‑component regulatory system with CreB or PhoB
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (17/29); total (17/29)

AGCGGCGAATTTTATGGGCCAGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTTCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAGTATGTTTACGCATTAACTCATGAGCTAAA  >  NC_000913/4637237‑4637498

agcgGCGAATTTTATGGGCCAGCGCTATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTccc                                                                                                                             <  1:492052/139‑1 (MQ=255)

      gAATTTTATGGGCCAGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTccc                                                                                                                       <  2:360254/139‑1 (MQ=255)

       aaTTTTATGGGCCAGCGCCATTTTGTTGCGGCTTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCCACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTcccc                                                                                                                      <  1:547873/139‑1 (MQ=255)

        aTTTTATGGGCCAGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCg                                                                                                                     <  2:1536/139‑1 (MQ=255)

                   cAGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGgtagt                                                                                                          >  2:668824/1‑139 (MQ=255)

                         taTTTTGTAGGGGATTGCGCTGCTGCTTGGCGCGGGGATGGTCTGGTGCCTCAACTGCCCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTGGGTAGTAGCGAg                                                                                                    <  1:1108454/138‑1 (MQ=255)

                         cATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAg                                                                                                    <  2:83840/139‑1 (MQ=255)

                         cATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAg                                                                                                    <  1:610328/139‑1 (MQ=255)

                                        tGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTcgcg                                                                                     >  1:290388/1‑139 (MQ=255)

                                           aCTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAg                                                                                  <  1:668824/139‑1 (MQ=255)

                                             tGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGgc                                                                                <  2:401587/139‑1 (MQ=255)

                                             tGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGgc                                                                                <  2:190499/139‑1 (MQ=255)

                                              ggTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGgcg                                                                               <  2:805825/139‑1 (MQ=255)

                                                 gATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTg                                                                            <  1:1011202/139‑1 (MQ=255)

                                                  aTTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTgg                                                                           >  2:97429/1‑139 (MQ=255)

                                                    tGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTcccc                                                                                                                      >  2:590186/1‑94 (MQ=255)

                                                    tGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTcccc                                                                                                                      <  1:590186/94‑1 (MQ=255)

                                                                      gtggATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTcgctactaccg                                                                              >  2:887041/1‑108 (MQ=255)

                                                                      gtggATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTcgctactaccg                                                                              <  1:887041/116‑9 (MQ=255)

                                                                      gtggATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTg                                                       >  1:962475/1‑139 (MQ=255)

                                                                           tCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAgg                                                  >  1:676514/1‑139 (MQ=255)

                                                                            cAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAggg                                                 <  2:499065/139‑1 (MQ=255)

                                                                                       ttGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAggg                                                 <  2:95029/128‑1 (MQ=255)

                                                                                       ttGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAggg                                                 >  1:95029/1‑128 (MQ=255)

                                                                                       ttGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTatat                                      <  2:652961/139‑1 (MQ=255)

                                                                                       ttGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTatat                                      <  1:466261/139‑1 (MQ=255)

                                                                                        tGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATAtt                                     <  1:45048/139‑1 (MQ=255)

                                                                                           ccGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAg                                  <  2:1043826/139‑1 (MQ=255)

                                                                                           ccGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAg                                  <  2:64078/139‑1 (MQ=255)

                                                                                             ggCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCa                                <  2:641765/139‑1 (MQ=255)

                                                                                              gCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAg                               <  1:97429/139‑1 (MQ=255)

                                                                                                   cTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAGTATGt                          <  2:924309/139‑1 (MQ=255)

                                                                                                          tGCTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAGTATGTTTACGCa                   >  2:814250/1‑139 (MQ=255)

                                                                                                            cTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACt                                          <  1:167580/114‑1 (MQ=255)

                                                                                                            cTGATTCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACt                                          >  2:167580/1‑114 (MQ=255)

                                                                                                                 tCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAGTATGTTTACGCATTAACTc            <  1:1008411/139‑1 (MQ=255)

                                                                                                                 tCCGTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAGTATGTTTACGCATTAACTc            <  1:814250/139‑1 (MQ=255)

                                                                                                                    gTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGaaaaa                                            <  2:612190/104‑1 (MQ=255)

                                                                                                                    gTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGaaaaa                                            >  1:612190/1‑104 (MQ=255)

                                                                                                                    gTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAg                               <  2:723399/117‑1 (MQ=255)

                                                                                                                    gTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAg                               >  1:723399/1‑117 (MQ=255)

                                                                                                                    gTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAGTATGTTTACGCATTAACTCATg         >  1:464157/1‑139 (MQ=255)

                                                                                                                    gTCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAGTATGTTTACGCATTAACTCATg         >  2:965747/1‑139 (MQ=255)

                                                                                                                     tCACTGACAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAGTATGTTTACGCATTAACTCATGa        >  2:533452/1‑139 (MQ=255)

                                                                                                                           aCAATAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAGTATGTTTACGCATTAACTCATGAGCTaaa  >  1:834276/1‑139 (MQ=255)

                                                                                                                              aTAAGCCCGTCCCTCTCCCCGGTCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAggg                                                 <  2:816848/89‑1 (MQ=255)

                                                                                                                              aTAAGCCCGTCCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAggg                                                 >  1:816848/1‑89 (MQ=255)

AGCGGCGAATTTTATGGGCCAGCGCCATTTTGTTGGGGATTGCACTGGTGATTGGCGCAGGCATGGTTTGGTGGATCAACCGCTCTATTGCCCGGCTCACTCGCTATGCTGATTCCGTCACTGACAATAAGCCCGTTCCTCTCCCCGATCTCGGTAGTAGCGAGTTGCGTAAACTCGCGCAGGCGCTGGAAAGTATGCGCGTGAAGCTGGAAGGGAAAAACTATATTGAGCAGTATGTTTACGCATTAACTCATGAGCTAAA  >  NC_000913/4637237‑4637498

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A