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
A33 F60 I1 R1	12	29.2	1043458	98.6%	1028849	132.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,651,306	A→C	pseudogene (16/746 nt)	yhiS →	putative uncharacterized protein YhiS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,651,306	0	A	C	100.0%	147.1 / NA	39	pseudogene (16/746 nt)	yhiS	putative uncharacterized protein YhiS
Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (17/22); total (17/22)

ATATCAGGAAGATATAACGCATTACATTTATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTACCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑CACAACAAATACCGATAATGCTAAAACGCCAGACACACCGAAGTGGCCTTGCGATAATTGGGAAGAACAACAACCCAT  >  NC_000913/3651177‑3651427

atatCAGGAAGATATAACGCATTACATTTATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTcccc                                                                                                                          <  1:513585/133‑1 (MQ=255)

atatCAGGAAGATATAACGCATTACATTTATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTcccc                                                                                                                          <  1:504881/133‑1 (MQ=255)

 tatCAGGAAGATATAACGCATTACATTTATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCcccc                                                                                                                         <  2:51484/133‑1 (MQ=255)

 tatCAGGAAGATATAACGCATTACATTTATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCcccc                                                                                                                         <  2:363118/133‑1 (MQ=255)

    cAGGAAGATATAACGCATTACATTTATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGCATTATATGTCAATTGACTTTCCCCCAgg                                                                                                                      >  2:224440/1‑133 (MQ=255)

     aGGAAGATATAACGCATTACATTTATTGTGTGCAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGt                                                                                                                     <  2:186655/133‑1 (MQ=255)

       gAAGATATAACGCATTACATTTATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCcccc                                                                                                                         <  1:121629/127‑1 (MQ=255)

       gAAGATATAACGCATTACATTTATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCcccc                                                                                                                         >  2:121629/1‑127 (MQ=255)

           atatAACGCATTACATTTATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTataata                                                                                                               >  2:379925/1‑133 (MQ=255)

                      tACATTTATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCa                                                                                                    <  2:264159/133‑1 (MQ=255)

                           ttATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCg                                                                                               <  1:370637/133‑1 (MQ=255)

                           ttATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCg                                                                                               >  2:415102/1‑133 (MQ=255)

                           ttATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCg                                                                                               <  1:38855/133‑1 (MQ=255)

                           ttATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCg                                                                                               <  1:289505/133‑1 (MQ=255)

                           ttATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCg                                                                                               <  2:19371/133‑1 (MQ=255)

                           ttATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCg                                                                                               <  1:283922/133‑1 (MQ=255)

                           ttATTGTGCGTAGAACAAGATCTATTCCTGCTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCg                                                                                               <  1:140391/133‑1 (MQ=255)

                             aTTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGat                                                                                             >  1:322643/1‑133 (MQ=255)

                                   tgtAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCg                                                                                               >  2:77678/1‑125 (MQ=255)

                                   tgtAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCg                                                                                               <  1:77678/125‑1 (MQ=255)

                                   tgtAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGAATAATAAGTACGTAGCACGGCGATATTtat                                                                                       >  1:145581/1‑133 (MQ=255)

                                     tAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCg                                                                                               >  2:349034/1‑123 (MQ=255)

                                     tAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCg                                                                                               <  1:349034/123‑1 (MQ=255)

                                     tAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATaa                                                                                     <  2:449063/133‑1 (MQ=255)

                                         agaaAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑c                                                                               <  1:8198/133‑1 (MQ=255)

                                          gaaAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑ca                                                                              <  1:4371/133‑1 (MQ=255)

                                          gaaAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑ca                                                                              <  1:415102/133‑1 (MQ=255)

                                             aaTCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑Cacaa                                                                           >  1:65753/1‑133 (MQ=255)

                                             aaTCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑Cacaa                                                                           >  1:322007/1‑133 (MQ=255)

                                                                          aaaCATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑CACAACAAATACCGATAATGCTAAAACGCCAGac                                              >  1:407834/1‑133 (MQ=255)

                                                                                 ttAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑CACAACAAATACCGATAATGCTAAATCGCCAg                                                >  1:184514/1‑124 (MQ=255)

                                                                                 ttAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑CACAACAAATACCGATAATGCTAAAACGCCAg                                                <  2:184514/124‑1 (MQ=255)

                                                                                          aaCAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTGCACACAACAAATACCGATAATGCTAAAACGCCAGACACACCGAAGTgg                                  <  2:82688/131‑1 (MQ=255)

                                                                                          aaCAAATGATGAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTGCACACAACAAATACCGATAATGCTAAAACGCCAGACACACCGAAGTgg                                  >  1:82688/1‑131 (MQ=255)

                                                                                               atgatgAATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑CACAACAAATACCGATAATGCTAAAACGCCAGACACACCGAAGTGGCCTTGCGAt                         >  2:50915/1‑133 (MQ=255)

                                                                                                    gaATAAGGAATTTTATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑CACAACAAATACCGATAATGCTAAAACGCCAGACACACCGAAGTGGCCTTGCGATAATTg                    >  1:105432/1‑133 (MQ=255)

                                                                                                               tttATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑CACAACAAATACCGATAATGCTAAAACGCCAGACACACCGAAGTGGCCTTGCGATAATTGGGAAGaacaac         <  1:379925/133‑1 (MQ=255)

                                                                                                                 tATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑CACAACAAATACCGATAATGCTAAAACGCCAGACACACCGAAGTGGCCTTGCGATAATTGGGAAGaacaacaa       <  1:391052/133‑1 (MQ=255)

                                                                                                                 tATGTCAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑CACAACAAATACCGATAATGCTAAAACGCCAGACACACCGAAGTGGCCTTGCGATAATTGGGAAGaacaacaa       <  2:65753/133‑1 (MQ=255)

                                                                                                                      cAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑CACAACAAATACCGATAATGCTAAAACGCCAGACACACCGAAGTGGCCTTGCGATAATTGGGAAGAACAACAACCCAt  >  2:337683/1‑133 (MQ=255)

                                                                                                                      cAATTGACTTTCCCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑CACAACAAATACAGATAATGCTAAAACGCCAGACACACCGAAGTGGCCTTGCGATAATTGGGAAGAACAACAACCCAt  >  2:333433/1‑133 (MQ=255)

ATATCAGGAAGATATAACGCATTACATTTATTGTGTGTAGAAGAAAATCCATTCCTGTTCTAATTATCCAATTTAAACATCTTAGCATAAAACAAATGATGAATAAGGAATTTTATGTCAATTGACTTTACCCCAGGTATAATAAATACATATCACGGCGATATTTATAACTG‑‑CACAACAAATACCGATAATGCTAAAACGCCAGACACACCGAAGTGGCCTTGCGATAATTGGGAAGAACAACAACCCAT  >  NC_000913/3651177‑3651427

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