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
A1 F28 I1 R1	163	52.9	1786516	99.3%	1774010	139.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,821,015	C→T	R67H (CGC→CAC)	chbC ←	N,N'‑diacetylchitobiose‑specific PTS enzyme IIC component

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,821,015	0	C	T	100.0%	141.1 / NA	42	R67H (CGC→CAC)	chbC	N,N'‑diacetylchitobiose‑specific PTS enzyme IIC component
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (26/16); total (26/16)

CCAGCGCCATGCCAATAAAGAACGGTGCCATTAAAGACATTATTCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGCGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTG  >  NC_000913/1820896‑1821151

ccAGCGCCATGCCAATAAAGAACGGTGCCATTAAAGACATTATTCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATaaaaa                                                                                                                      >  2:576233/1‑140 (MQ=255)

     gcCATGCCAATAAAGAACGGTGCCATTAAAGACATTATTCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGa                                                                                                                 <  2:123080/140‑1 (MQ=255)

     gcCATGCCAATAAAGAACGGTGCCATTAAAGACATTATTCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGa                                                                                                                 >  1:609836/1‑140 (MQ=255)

        aTGCCAATAAAGAACGGTGCCATTAAAGACATTATTCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGAccc                                                                                                              >  1:621015/1‑140 (MQ=255)

         tGCCAATAAAGAACGGTGCCATTAAAGACATTATTCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGAcccc                                                                                                             >  2:16645/1‑140 (MQ=255)

          gCCAATAAAGAACGGTGCCATTAAAGACATTATTCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCt                                                                                                            >  1:121515/1‑140 (MQ=255)

               tAAAGAACGGTGCCATTAAAGACATTATTCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCa                                                                                                       <  2:621015/140‑1 (MQ=255)

                         tGCCATTAAAGACATTATTCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGaa                                                                                             >  2:345321/1‑140 (MQ=255)

                         tGCCATTAAAGACATTATTCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGaa                                                                                             >  2:76623/1‑140 (MQ=255)

                                   gACATTATTCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACgttgtt                                                                                   <  1:345321/140‑1 (MQ=255)

                                      attattCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGttaat                                                                                >  1:794811/1‑140 (MQ=255)

                                      attattCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGttaat                                                                                <  1:17018/140‑1 (MQ=255)

                                      attattCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGttaat                                                                                >  2:376836/1‑140 (MQ=255)

                                      attattCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGttaat                                                                                <  1:434060/140‑1 (MQ=255)

                                          ttCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTtaattaat                                                                            >  1:605953/1‑140 (MQ=255)

                                                    tCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATgg                                                                  >  1:732554/1‑140 (MQ=255)

                                                    tCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATgg                                                                  >  2:540526/1‑140 (MQ=255)

                                                       gTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGccc                                                               <  2:732554/140‑1 (MQ=255)

                                                                 ttGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGt                                                     <  2:121515/140‑1 (MQ=255)

                                                                     cgccAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAAc                                                 >  2:544167/1‑140 (MQ=255)

                                                                              cTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAg                                        <  1:271455/140‑1 (MQ=255)

                                                                              cTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAg                                        <  1:512807/140‑1 (MQ=255)

                                                                                 tCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGa                                     >  1:840407/1‑140 (MQ=255)

                                                                                       cATTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAg                               >  2:801239/1‑140 (MQ=255)

                                                                                        aTTAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGc                              >  2:556487/1‑140 (MQ=255)

                                                                                          tAAGTGTTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCa                            >  2:24044/1‑140 (MQ=255)

                                                                                               gtTTCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCAttttt                       >  2:529295/1‑140 (MQ=255)

                                                                                                 ttCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGa                     >  1:731620/1‑140 (MQ=255)

                                                                                                 ttCAATGGTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGa                     >  2:422186/1‑140 (MQ=255)

                                                                                                       ggTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCAt               <  2:428290/140‑1 (MQ=255)

                                                                                                        gTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCAtt              >  2:850933/1‑140 (MQ=255)

                                                                                                        gTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCAtt              >  1:560055/1‑140 (MQ=255)

                                                                                                        gTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCAtt              >  1:537773/1‑140 (MQ=255)

                                                                                                        gTTGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGGTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCAtt              >  2:128895/1‑140 (MQ=255)

                                                                                                          tGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTaa            <  2:605953/140‑1 (MQ=255)

                                                                                                          tGAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTaa            <  1:576233/140‑1 (MQ=255)

                                                                                                           gAGGCGTCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAAc           >  2:296400/1‑140 (MQ=255)

                                                                                                                 tCGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTgg     <  1:128895/140‑1 (MQ=255)

                                                                                                                  cGAGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGgc    >  2:831395/1‑140 (MQ=255)

                                                                                                                    aGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGgctg  <  1:831395/140‑1 (MQ=255)

                                                                                                                    aGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGgctg  <  1:650402/140‑1 (MQ=255)

                                                                                                                    aGGTGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGgctg  <  1:16645/140‑1 (MQ=255)

CCAGCGCCATGCCAATAAAGAACGGTGCCATTAAAGACATTATTCCTAATGTTCCGTTATATACGTTGCCGCCAATACCTTTCAGACCATTAAGTGTTTCAATGGTTGAGGCGTCGAGGCGAATACCTAAGGAATAAAAAAACGACCCCTCCCCAAAGCTTAGAAAAACGTTGTTAATTAATACAAACATGGCCCCCGCAAGGGTTAACGGCATTAAGCGAATAAAGCCATTTTTGATTGCATTAACGTGTGGCTG  >  NC_000913/1820896‑1821151

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A