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
A4 F28 I1 R1	159	82.1	2830106	99.3%	2810295	139.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,278,113	A→G	intergenic (‑47/‑366)	ryjA ← / → ghxP	small RNA RyjA/guanine/hypoxanthine transporter GhxP

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,278,113	0	A	G	100.0%	215.1 / NA	58	intergenic (‑47/‑366)	ryjA/ghxP	small RNA RyjA/guanine/hypoxanthine transporter GhxP
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (31/27); total (31/27)

TCTCTCTATCCCGCTGGTACACAGGAGGGTTTCCCCCGACGTCAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATACTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGTTTGCGCATCAATTGCCTGGTTTTTCATCGTC  >  NC_000913/4277977‑4278247

tctctcTATCCCGCTGGTACACAGAAGGGTTTACCCCGACGTCAACACACCTCATTCGAGTACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTAACCGCCGTTTCTTCGCCAGTGTAAAAGTATGCtt                                                                                                                                     >  2:203748/1‑140 (MQ=255)

      tATCCCGCTGGTACACAGGAGGGTTTCCCCCGACGTCAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAAc                                                                                                                               >  2:226815/1‑140 (MQ=255)

         cccGCTGGTACACAGGAGGGTTTCCCCCGACGTCAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGc                                                                                                                            >  2:768356/1‑140 (MQ=255)

           cGCTGGTACACAGGAGGGTTTCCCCCGACGTCAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCaa                                                                                                                          >  1:503209/1‑140 (MQ=255)

             cTGGTACACAGGAGGGTTTCCCCCGACGTCAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAata                                                                                                                        >  1:1305344/1‑140 (MQ=255)

             cTGGTACACAGGAGGGTTTCCCCCGACGTCAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAata                                                                                                                        >  1:210428/1‑140 (MQ=255)

                       ggaggGTTTCCCCCGACGTCAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCAt                                                                                                              >  2:216745/1‑140 (MQ=255)

                           ggTTTCCCCCGACGTCAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATAtt                                                                                                                      <  1:597929/128‑1 (MQ=255)

                           ggTTTCCCCCGACGTCAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATAtt                                                                                                                      >  2:597929/1‑128 (MQ=255)

                            gTTTCCCCCGACGTCAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAg                                                                                                         >  2:915604/1‑140 (MQ=255)

                             tttCCCCCGACGTCAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGa                                                                                                        <  2:160513/140‑1 (MQ=255)

                             tttCCCCCGACGTCAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGa                                                                                                        <  2:274805/140‑1 (MQ=255)

                             tttCCCCCGACGTCAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGa                                                                                                        >  2:854612/1‑140 (MQ=255)

                                      aCGTCAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGAtttttt                                                                                               >  2:494401/1‑140 (MQ=255)

                                          cAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCg                                                                                           <  1:768356/140‑1 (MQ=255)

                                          cAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCAACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCg                                                                                           <  2:1157658/140‑1 (MQ=255)

                                            acacacCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCa                                                                                         <  2:210428/140‑1 (MQ=255)

                                                 ccTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCt                                                                                    <  2:1241579/140‑1 (MQ=255)

                                                 ccTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCt                                                                                    <  2:307537/140‑1 (MQ=255)

                                                 ccTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCt                                                                                    <  1:854612/140‑1 (MQ=255)

                                                 ccTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCt                                                                                    <  2:237476/140‑1 (MQ=255)

                                                 ccTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCt                                                                                    <  1:1140020/140‑1 (MQ=255)

                                                 ccTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGATTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCt                                                                                    <  2:1305344/140‑1 (MQ=255)

                                                   tCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCt                                                                                    >  1:1365590/1‑138 (MQ=255)

                                                   tCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCt                                                                                    <  2:1365590/138‑1 (MQ=255)

                                                   tCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGa                                                                                  <  1:494401/140‑1 (MQ=255)

                                                    cATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGaa                                                                                 <  2:503209/140‑1 (MQ=255)

                                                    cATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGaa                                                                                 <  1:180517/140‑1 (MQ=255)

                                                          aGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCt                                                                                    <  2:487687/131‑1 (MQ=255)

                                                          aGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCt                                                                                    >  1:487687/1‑131 (MQ=255)

                                                           gCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGtata                                                                          <  2:344582/140‑1 (MQ=255)

                                                            cACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATAc                                                                         >  2:177350/1‑140 (MQ=255)

                                                              cGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACgg                                                                       >  1:393117/1‑140 (MQ=255)

                                                                 ggtggAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTc                                                                    >  1:740358/1‑140 (MQ=255)

                                                                         ttCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGc                                                            >  1:1148491/1‑140 (MQ=255)

                                                                           ccGGTTGGTGTTGATGCTTTAATTGTATGTCACCGAGGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTg                                                          >  2:1146081/1‑140 (MQ=255)

                                                                           ccGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTg                                                          >  2:788175/1‑140 (MQ=255)

                                                                             ggTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCa                                                        >  1:812685/1‑140 (MQ=255)

                                                                                  gtgtTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCtt                                                   >  2:524034/1‑140 (MQ=255)

                                                                                    gtTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTgc                                                 >  1:106211/1‑140 (MQ=255)

                                                                                        aTGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCAc                                             <  2:860668/140‑1 (MQ=255)

                                                                                          gCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACcg                                           <  1:226815/140‑1 (MQ=255)

                                                                                             ttAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACcgacg                                        >  1:390426/1‑140 (MQ=255)

                                                                                               aaTTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGAt                                      <  1:524034/140‑1 (MQ=255)

                                                                                                    tATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGt                                 >  2:646436/1‑140 (MQ=255)

                                                                                                     aTGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGtt                                >  1:1119706/1‑140 (MQ=255)

                                                                                                       gTCACCGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGTTTg                              >  1:964557/1‑140 (MQ=255)

                                                                                                           ccGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGTTTGCGCa                          >  1:383534/1‑140 (MQ=255)

                                                                                                            cGACGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGTTTGCGCAt                         >  2:580931/1‑140 (MQ=255)

                                                                                                              aCGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGTTTGCGCATCa                       >  1:363347/1‑140 (MQ=255)

                                                                                                              aCGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGTTTGCGCATCa                       >  1:891967/1‑140 (MQ=255)

                                                                                                              aCGTTTCTTCGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTGTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGTTTGCGCATCa                       >  2:1244535/1‑140 (MQ=255)

                                                                                                                  ttcttcGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGTTTGCGCATCAATTg                   <  1:915604/140‑1 (MQ=255)

                                                                                                                    cttcGCCAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGTTTGCGCATCAATTGcc                 <  2:106211/140‑1 (MQ=255)

                                                                                                                         ccAGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGTTTGCGCATCAATTGCCTGGtt            >  2:566792/1‑140 (MQ=255)

                                                                                                                           aGTGTAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGTTTGCGCATCAATTGCCTGGtttt          <  1:1146081/140‑1 (MQ=255)

                                                                                                                             tgtAAAAGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGTTTGCGCATCAATTGCCTGGTTTTTc        <  1:827265/140‑1 (MQ=255)

                                                                                                                                  aaGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGTTTGCGCATCAATTGCCTGGTTTTTCATCGt   <  1:203748/140‑1 (MQ=255)

                                                                                                                                   aGTATGCTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGTTTGCGCATCAATTGCCTGGTTTTTCATCGTc  <  2:390426/140‑1 (MQ=255)

TCTCTCTATCCCGCTGGTACACAGGAGGGTTTCCCCCGACGTCAACACACCTCATTCGAGCACGTGGTGGAGGTTCCGGTTGGTGTTGATGCTTTAATTGTATGTCACCGACGTTTCTTCGCCAGTGTAAAAGTATACTTTTTAACCGCAATATTTTTGTCATCTCAGACGATTTTTTATCGCAATCCTGAACGGTATACGGCTCGATAACGCTGCAATCTTGCGCACCGACGATAACGTTTGCGCATCAATTGCCTGGTTTTTCATCGTC  >  NC_000913/4277977‑4278247

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A