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
A13 F1 I1 R1	778	68.7	3228504	93.4%	3015422	109.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,683,630	C→T	663 (TAG→TAA)	yhjK ←	cyclic‑di‑GMP phosphodiesterase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,683,630	0	C	T	100.0%	172.7 / NA	55	663 (TAG→TAA)	yhjK	cyclic‑di‑GMP phosphodiesterase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (30/25); total (30/25)

CCTGCGGCCTTAAAATAACACCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGCTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCAGTCTCCACGCCTTCGGCAAT  >  NC_000913/3683494‑3683764

ccTGCGGCCTTAAAATAACACCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTa                                                                                                                                      >  2:976866/1‑139 (MQ=255)

ccTGCGGCCTTAAAATAACACCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTa                                                                                                                                      >  1:549489/1‑139 (MQ=255)

    cGGCCTTAAAATAACACCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACttt                                                                                                                                  >  1:1292967/1‑139 (MQ=255)

      gCCTTAAAATAACACCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTAGGGGTAGTTACTTttc                                                                                                                                <  1:322400/139‑1 (MQ=255)

          tAAAATAACACCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTcc                                                                                                                            <  2:1082794/139‑1 (MQ=255)

                       aGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTCGGGGTAGTTACTTTTCTTCCAGGTAACTCTCtt                                                                                                               >  1:1439560/1‑139 (MQ=255)

                             caTCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGa                                                                                                         >  1:1062862/1‑139 (MQ=255)

                             caTCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGa                                                                                                         >  1:365477/1‑139 (MQ=255)

                             caTCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGa                                                                                                         <  2:1206479/139‑1 (MQ=255)

                             caTCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGa                                                                                                         >  2:1028348/1‑139 (MQ=255)

                             caTCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACACTCTTCGAAGa                                                                                                         <  1:547518/139‑1 (MQ=255)

                               tCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGAtt                                                                                                       <  2:49530/139‑1 (MQ=255)

                                    gAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAAt                                                                                                  <  2:1062862/139‑1 (MQ=255)

                                          tACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAg                                                                                            >  1:134264/1‑139 (MQ=255)

                                               ggATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGc                                                                                       <  2:365477/139‑1 (MQ=255)

                                                 aTCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTcc                                                                                                                            <  1:995848/100‑1 (MQ=255)

                                                 aTCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTcc                                                                                                                            >  2:995848/1‑100 (MQ=255)

                                                 aTCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGa                                                                                     >  2:650965/1‑139 (MQ=255)

                                                    aTAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCg                                                                                                             <  2:1169725/112‑1 (MQ=255)

                                                    aTAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCg                                                                                                             >  1:1169725/1‑112 (MQ=255)

                                                       aTTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCaaaa                                                                               >  1:1332406/1‑139 (MQ=255)

                                                          gAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAGAAgg                                                                            <  2:1484335/139‑1 (MQ=255)

                                                          gAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAgg                                                                            <  1:530975/139‑1 (MQ=255)

                                                          gAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAgg                                                                            <  1:5234/139‑1 (MQ=255)

                                                          gAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAgg                                                                            <  2:134264/139‑1 (MQ=255)

                                                           aaaCAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCg                                                                                                             >  2:772318/1‑105 (MQ=255)

                                                           aaaCAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCg                                                                                                             <  1:772318/105‑1 (MQ=255)

                                                                aaaaGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGccc                                                                      <  2:1332406/139‑1 (MQ=255)

                                                                         aaaaGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATa                                                             >  2:1269448/1‑139 (MQ=255)

                                                                               ttGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGAtt                                                                                                       >  2:573608/1‑91 (MQ=255)

                                                                               ttGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGAtt                                                                                                       <  1:573608/91‑1 (MQ=255)

                                                                                tGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGc                                                      >  2:1583356/1‑139 (MQ=255)

                                                                                tGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGc                                                      >  1:800924/1‑139 (MQ=255)

                                                                                       gCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTggg                                                                                        >  2:247877/1‑98 (MQ=255)

                                                                                       gCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTggg                                                                                        <  1:247877/98‑1 (MQ=255)

                                                                                       gCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCttt                                               >  1:1194510/1‑139 (MQ=255)

                                                                                                 aCCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAAct                                                                                                                    <  1:1073719/60‑1 (MQ=255)

                                                                                                 aCCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAAct                                                                                                                    >  2:1073719/1‑60 (MQ=255)

                                                                                                 aCCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGcc                                                                       >  2:170478/1‑105 (MQ=255)

                                                                                                 aCCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGcc                                                                       <  1:170478/105‑1 (MQ=255)

                                                                                                 aCCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGccagccag                                     >  1:545489/1‑139 (MQ=255)

                                                                                                 aCCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGccagccag                                     >  2:860213/1‑139 (MQ=255)

                                                                                                  ccAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGt                                    >  1:49023/1‑139 (MQ=255)

                                                                                                    aGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTcg                                  <  2:549489/139‑1 (MQ=255)

                                                                                                      cACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTcgcg                                <  1:976866/139‑1 (MQ=255)

                                                                                                        cTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGtt                              <  1:860213/139‑1 (MQ=255)

                                                                                                         tttttAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTtg                             >  2:578790/1‑139 (MQ=255)

                                                                                                           tttAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTtgtg                           >  1:316307/1‑139 (MQ=255)

                                                                                                                     tGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGACCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCa                      >  1:1171400/1‑134 (MQ=255)

                                                                                                                     tGTAAGCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCa                      <  2:1171400/134‑1 (MQ=255)

                                                                                                                              tttGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCAGTCTCCACGCCTTc        >  2:152944/1‑139 (MQ=255)

                                                                                                                                 ggggTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCAGTCTCCACGCCTTCGGc     >  2:1188103/1‑139 (MQ=255)

                                                                                                                                   ggTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCAGTCTCCACGCCTTCGGCaa   <  2:113779/139‑1 (MQ=255)

                                                                                                                                   ggTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCAGTCTCCACGCCTTCGGCaa   >  1:113779/1‑139 (MQ=255)

                                                                                                                                    gTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCAGTCTCCACGCCTTCGGCAAt  <  2:800924/139‑1 (MQ=255)

CCTGCGGCCTTAAAATAACACCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGCTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCAGTCTCCACGCCTTCGGCAAT  >  NC_000913/3683494‑3683764

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A