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 F28 I1 R1	176	31.5	1082462	98.8%	1069472	138.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,374,862	T→C	intergenic (‑373/‑7)	nanR ← / → dcuD	DNA‑binding transcriptional dual regulator NanR/putative transporter DcuD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,374,862	0	T	C	100.0%	137.5 / NA	38	intergenic (‑373/‑7)	nanR/dcuD	DNA‑binding transcriptional dual regulator NanR/putative transporter DcuD
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (21/17); total (21/17)

CATATTTTTTAATGAAAAATCACCTCACCTACAATTAAAAACACGACATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGTTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTGCTGGCTGCCGCAGGTATCTTCCTGATGATGTGCGGTGTCTGGT  >  NC_000913/3374725‑3374992

cATATTTTTTAATGAAAAATCACCTCACCTACAATTAAAAACACGACATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTc                                                                                                                                  >  2:164515/1‑140 (MQ=255)

cATATTTTTTAATGAAAAATCACCTCACCTACAATTAAAAACACGACATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTc                                                                                                                                  >  1:502984/1‑140 (MQ=255)

         tAATGAAAAATCACCTCACCTACAATTAAAAACACGACATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGtt                                                                                                                         <  2:70821/140‑1 (MQ=255)

           aTGAAAAATCACCTCACCTACAATTAAAAACACGACATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCg                                                                                                                       >  1:85234/1‑140 (MQ=255)

            tGAAAAATCACCTCACCTACAATTAAAAACACGACATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCgg                                                                                                                      <  2:85234/140‑1 (MQ=255)

             gAAAAATCACCTCACCTACAATTAAAAACACGACATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGc                                                                                                                     >  1:307868/1‑140 (MQ=255)

                           cctACAATTAAAAACACGACATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGt                                                                                                       >  2:451637/1‑140 (MQ=255)

                            ctACAATTAAAAACACGACATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTc                                                                                                      <  1:164515/140‑1 (MQ=255)

                                      aaaCACGACATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTattaa                                                                                            <  2:307371/140‑1 (MQ=255)

                                            gACATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGa                                                                                      >  2:487488/1‑140 (MQ=255)

                                            gACATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGa                                                                                      <  1:192448/140‑1 (MQ=255)

                                            gACATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGa                                                                                      >  1:86404/1‑140 (MQ=255)

                                              cATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATg                                                                                    <  2:307868/140‑1 (MQ=255)

                                              cATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATg                                                                                    <  2:86404/140‑1 (MQ=255)

                                                        aTAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGa                                                                          >  1:482721/1‑140 (MQ=255)

                                                         tAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGAt                                                                         >  2:67852/1‑140 (MQ=255)

                                                                ccTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGaaa                                                                  >  2:341515/1‑140 (MQ=255)

                                                                     cAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTa                                                             >  2:205889/1‑140 (MQ=255)

                                                                          aaTATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAAc                                                        >  1:31024/1‑140 (MQ=255)

                                                                                aCATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAgg                                                  <  2:143991/140‑1 (MQ=255)

                                                                                    cGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAggtggt                                              >  2:102051/1‑140 (MQ=255)

                                                                                    cGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAggtggt                                              >  2:51590/1‑140 (MQ=255)

                                                                                            tCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTgctggctg                                      <  1:51590/140‑1 (MQ=255)

                                                                                            tCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTgctggctg                                      <  1:166578/140‑1 (MQ=255)

                                                                                            tCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTgctggctg                                      <  2:31024/140‑1 (MQ=255)

                                                                                                  tGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTGCTGGCTGCCGCAg                                <  1:155742/140‑1 (MQ=255)

                                                                                                   gCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTGCTGGCTGCCGCAgg                               >  2:369171/1‑140 (MQ=255)

                                                                                                   gCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTGCTGGCTGCCGCAgg                               >  2:137271/1‑140 (MQ=255)

                                                                                                    ccGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTGCTGGCTGCCGCAGGt                              >  2:52786/1‑140 (MQ=255)

                                                                                                      gTTTATGGGATTGACGGTTTTCTTTTGCCACGGAGCTTACCACTGTTCGTCATAAGTATATCTATCATCGTATTAATTACGATGGGATATTTGTTCCTGAAAAACTACAAACCTCAGGTTGTGCTGGCTGCCGCAGGTAt                            <  2:502984/140‑1 (MQ=255)

                                                                                                      gTTTATGGGATTGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTGCTGGCTGCCGCAGGTAt                            <  1:205889/140‑1 (MQ=255)

                                                                                                                 tGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTGCTGGCTGCCGCAGGTATCTTc                        >  2:294320/1‑133 (MQ=255)

                                                                                                                 tGACCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTGCTGGCTGCCGCAGGTATCTTc                        <  1:294320/133‑1 (MQ=255)

                                                                                                                   aCCGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTGCTGGCTGCCGCAGGTATCTTCCTGatgatg               >  1:417609/1‑140 (MQ=255)

                                                                                                                     cGTTTTCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTGCTGGCTGCCGCAGGTATCTTCCTGATGAtgtg             <  2:482721/140‑1 (MQ=255)

                                                                                                                       ttttCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTGCTGGCTGCCGCAGGTATCTTCCTGATGATGTGCg           <  1:341515/140‑1 (MQ=255)

                                                                                                                        tttCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTGCTGGCTGCCGCAGGTATCTTCCTGATGATGTGCgg          >  2:321194/1‑140 (MQ=255)

                                                                                                                        tttCTTTTGACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTGCTGGCTGCCGCAGGTATCTTCCTGATGATGTGCgg          >  2:401291/1‑140 (MQ=255)

                                                                                                                                gACACGGAGCTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTGCTGGCTGCCGCAGGTATCTTCCTGATGATGTGCGGTGTCTGGt  <  1:321194/140‑1 (MQ=255)

CATATTTTTTAATGAAAAATCACCTCACCTACAATTAAAAACACGACATCCGCACCATAAATAGCCTTGCAAAAAATATAACATCGTTGTTTTCAATCTGCCGTTTATGGGATTGACCGTTTTCTTTTGACACGGAGTTCAACAATGTTCGGCATAATTATATCTGTCATCGTATTAATTACGATGGGCTATTTGATCCTGAAAAACTACAAACCTCAGGTGGTGCTGGCTGCCGCAGGTATCTTCCTGATGATGTGCGGTGTCTGGT  >  NC_000913/3374725‑3374992

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