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
A12 F1 I2 R1	766	55.6	2631458	94.7%	2491990	109.9

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%	144.2 / NA	45	663 (TAG→TAA)	yhjK	cyclic‑di‑GMP phosphodiesterase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (21/24); total (21/24)

TGCGGCCTTAAAATAACACCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGCTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCAGTCTCCACGCCTTCGGCAAT  >  NC_000913/3683496‑3683764

tGCGGCCTTAAAATAACACCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACt                                                                                                                                    <  2:77629/139‑1 (MQ=255)

 gCGGCCTTAAAATAACACCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACtt                                                                                                                                   <  1:490057/139‑1 (MQ=255)

    gCCTTAAAATAACACCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTttc                                                                                                                                >  2:94471/1‑139 (MQ=255)

      cTTAAAATAACACCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTttctt                                                                                                                              >  1:1189004/1‑139 (MQ=255)

               acacCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAAc                                                                                                                     >  1:889369/1‑139 (MQ=255)

               acacCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAAc                                                                                                                     >  1:606487/1‑139 (MQ=255)

                cacCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAAct                                                                                                                    <  2:1189004/139‑1 (MQ=255)

                     aGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCtt                                                                                                               >  2:701778/1‑139 (MQ=255)

                           caTCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCg                                                                                                             <  1:198712/135‑1 (MQ=255)

                           caTCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCg                                                                                                             >  2:198712/1‑135 (MQ=255)

                                caGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCa                                                                                                    >  1:715073/1‑139 (MQ=255)

                                      tGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAggg                                                                                              >  2:1285079/1‑139 (MQ=255)

                                              gATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCg                                                                                      <  1:1285079/139‑1 (MQ=255)

                                               aTCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGa                                                                                     >  1:577069/1‑139 (MQ=255)

                                                tCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAg                                                                                    >  2:95115/1‑139 (MQ=255)

                                                   tAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCaa                                                                                 >  1:1032480/1‑139 (MQ=255)

                                                        gAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAgg                                                                            <  2:1032480/139‑1 (MQ=255)

                                                         aaaCAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAg                                                                                                          <  2:936061/108‑1 (MQ=255)

                                                         aaaCAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAg                                                                                                          >  1:936061/1‑108 (MQ=255)

                                                             aaaaaGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAggg                                                                                              >  2:982782/1‑116 (MQ=255)

                                                             aaaaaGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAggg                                                                                              <  1:982782/116‑1 (MQ=255)

                                                             aaaaaGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGcc                                                                       <  2:1045544/139‑1 (MQ=255)

                                                             aaaaaGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGcc                                                                       <  2:889369/139‑1 (MQ=255)

                                                              aaaaGGTTCAACAGTTTGAGCTCCCTCGCACAAACCAGCTCTTTTTAAAGTTTTGCAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGccc                                                                      <  2:332597/139‑1 (MQ=255)

                                                              aaaaGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGccc                                                                      <  1:95115/139‑1 (MQ=255)

                                                                aaGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTg                                                                    <  2:577069/139‑1 (MQ=255)

                                                                  ggTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCCTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTggg                                                                  <  2:1072108/139‑1 (MQ=255)

                                                                      aaaaaGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAAt                                                              >  2:1201489/1‑139 (MQ=255)

                                                                                                  aGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGaa                                                                                                           <  1:76870/66‑1 (MQ=255)

                                                                                                  aGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGaa                                                                                                           >  2:76870/1‑66 (MQ=255)

                                                                                                       tttttAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTtg                             <  2:715073/139‑1 (MQ=255)

                                                                                                         tttAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAAc                                                                                                                     <  2:1038042/49‑1 (MQ=255)

                                                                                                         tttAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAAc                                                                                                                     >  1:1038042/1‑49 (MQ=255)

                                                                                                         tttAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGaa                                                                                                           <  1:254256/59‑1 (MQ=255)

                                                                                                         tttAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGaa                                                                                                           >  2:254256/1‑59 (MQ=255)

                                                                                                         tttAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAgg                                                                            >  1:394492/1‑90 (MQ=255)

                                                                                                         tttAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAgg                                                                            <  2:394492/90‑1 (MQ=255)

                                                                                                         tttAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTtgtg                           >  2:1062819/1‑139 (MQ=255)

                                                                                                         tttAAAGTTTTGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTtgtg                           <  1:148215/139‑1 (MQ=255)

                                                                                                                 tttGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCAGtc                   >  2:1022149/1‑139 (MQ=255)

                                                                                                                   tGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCa                      >  2:733560/1‑134 (MQ=255)

                                                                                                                   tGTAATCAGTTTGGGGTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCa                      <  1:733560/134‑1 (MQ=255)

                                                                                                                                 ggTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCAGTCTCCACGCCTTCGGCaa   <  1:94471/139‑1 (MQ=255)

                                                                                                                                  gTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCAGTCTCCACGCCTTCGGCAAt  <  1:701778/139‑1 (MQ=255)

                                                                                                                                  gTAGTTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCAGTCTCCACGCCTTCGGCAAt  <  1:1022149/139‑1 (MQ=255)

TGCGGCCTTAAAATAACACCCAGACAACATCACAGAAATGTACCTGGATCATAATTGAAACAAAAAGGTTAAAAAGTTTGAGCTGGCTCGCACAAACCAGCACTTTTTAAAGTTTTGTAATCAGTTTGGGGTAGCTACTTTTCTTCCAGGTAACTCTCTTCGAAGATTTCAATAGGGAGTGGGCGAGCAAAAAGGAAGCCCTGGGCAATACCAACGCCCGCTTTTGCCAGCCAGTCGCGTTGTGCTTCAGTCTCCACGCCTTCGGCAAT  >  NC_000913/3683496‑3683764

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