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
A7 F1 I1 R1	776	60.0	3074904	90.1%	2770488	104.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,245,600	G→A	147 (TAG→TAA)	ycgY →	uncharacterized protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,245,600	0	G	A	100.0%	145.2 / NA	45	147 (TAG→TAA)	ycgY	uncharacterized protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/24); total (21/24)

CCAACGTCGGCGTAAATCGCCGGGTGATGAAAGTGAAACACTTACCCGTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAGAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGCCTCTTTGGTTGAGGGTTGCGTCGTTGCT  >  NC_000913/1245468‑1245724

ccAACGTCGGCGTAAATCGCCGGGTGATGAAAGTGAAACACTTACCCGTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTaaaaaaaa                                                                                                                        >  2:549812/1‑139 (MQ=255)

ccAACGTCGGCGTAAATCGCCGGGTGATGAAAGTGAAACACTTACCCGTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTaaaaaaaa                                                                                                                        >  2:1080155/1‑139 (MQ=255)

   aCGTCGGCGTAAATCGCCGGGTGATGAAAGTGAAACACTTACCCGTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCa                                                                                                                     >  2:288441/1‑139 (MQ=255)

      tCGGCGTAAATCGCCGGGTGATGAAAGTGAAACACTTACCCGTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAg                                                                                                                  <  1:288441/139‑1 (MQ=255)

        ggCGTAAATCGCCGGGTGATGAAAGTGAAACACTTACCCGTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCt                                                                                                                <  1:1080155/139‑1 (MQ=255)

        ggCGTAAATCGCCGGGTGATGAAAGTGAAACACTTACCCGTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCt                                                                                                                <  1:141620/139‑1 (MQ=255)

        ggCGTAAATCGCCGGGTGATGAAAGTGAAACACTTACCCGTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCt                                                                                                                <  2:228906/139‑1 (MQ=255)

                    cGGGTGATGAAAGTGAAACACTTACCCGTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCt                                                                                                    >  1:375308/1‑139 (MQ=255)

                                gTGAAACACTTACCCGTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAAc                                                                                                                       >  2:5411/1‑108 (MQ=255)

                                gTGAAACACTTACCCGTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAAc                                                                                                                       <  1:5411/108‑1 (MQ=255)

                                           aCCCGTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAaaaa                                                                                                                           >  1:1146692/1‑93 (MQ=255)

                                           aCCCGTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAaaaa                                                                                                                           <  2:1146692/93‑1 (MQ=255)

                                              cGTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCg                                                                          <  2:375308/139‑1 (MQ=255)

                                               gTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGa                                                                         >  1:86274/1‑139 (MQ=255)

                                                 aGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAAt                                                                       >  2:1525845/1‑139 (MQ=255)

                                                        aCGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCt                                                                                                                >  1:505867/1‑91 (MQ=255)

                                                        aCGCTATCTTCGGCAACCACGTAGGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCt                                                                                                                <  2:505867/91‑1 (MQ=255)

                                                               cTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGt                                                         <  2:86274/139‑1 (MQ=255)

                                                                        ccACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGgaga                                                                               <  1:1508270/108‑1 (MQ=255)

                                                                        ccACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGgaga                                                                               >  2:1508270/1‑108 (MQ=255)

                                                                        ccACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACg                                                                   <  1:238300/120‑1 (MQ=255)

                                                                        ccACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACg                                                                   >  2:238300/1‑120 (MQ=255)

                                                                        ccACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTgg                                                >  1:1360384/1‑139 (MQ=255)

                                                                          aCGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGtt                                              <  2:999570/139‑1 (MQ=255)

                                                                                ggCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGgtg                                        <  2:856650/139‑1 (MQ=255)

                                                                                  catataTTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAAt                                                                       >  2:891706/6‑106 (MQ=255)

                                                                                  cAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAAt                                                                       <  1:891706/106‑1 (MQ=255)

                                                                                  cAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGtgtg                                      >  1:1294808/1‑139 (MQ=255)

                                                                                  cAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGtgtg                                      <  1:549812/139‑1 (MQ=255)

                                                                                      cATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAg                                                                             >  1:347180/1‑96 (MQ=255)

                                                                                      cATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAg                                                                             <  2:347180/96‑1 (MQ=255)

                                                                                               aaTACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGCCTCtt                         <  1:1525845/139‑1 (MQ=255)

                                                                                                 tACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGt                                                         >  1:30207/1‑105 (MQ=255)

                                                                                                 tACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGt                                                         <  2:30207/105‑1 (MQ=255)

                                                                                                      cccGCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGCCTCTTTGGTTGa                  >  2:494487/1‑139 (MQ=255)

                                                                                                         gCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACg                                                                                          >  1:982950/1‑64 (MQ=255)

                                                                                                         gCCAGGACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACg                                                                                          <  2:982950/64‑1 (MQ=255)

                                                                                                              gACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGgt                                                                                                           >  2:300974/1‑42 (MQ=255)

                                                                                                              gACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGgt                                                                                                           <  1:300974/42‑1 (MQ=255)

                                                                                                              gACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGCCTCTTTGGTTGAGGGTTGcg          >  2:337952/1‑139 (MQ=255)

                                                                                                              gACTTGAAAAACCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGCCTCTTTGGTTGAGGGTTGcg          >  1:377978/1‑139 (MQ=255)

                                                                                                                     aaaaCCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGCCTCTTTGGTTGAGGGTTGCGTCGTTGc   <  1:494487/139‑1 (MQ=255)

                                                                                                                      aaaCCGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGCCTCTTTGGTTGAGGGTTGCGTCGTTGCt  <  2:1360384/139‑1 (MQ=255)

                                                                                                                         ccGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACg                                                                                          <  1:1467093/48‑1 (MQ=255)

                                                                                                                         ccGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACg                                                                                          >  2:1467093/1‑48 (MQ=255)

                                                                                                                          cGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGc                              >  2:22808/1‑107 (MQ=255)

                                                                                                                          cGTCTGTGTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGc                              <  1:22808/107‑1 (MQ=255)

                                                                                                                              tgtgTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGga                                                                                 <  2:342009/52‑1 (MQ=255)

                                                                                                                              tgtgTAAAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGga                                                                                 >  1:342009/1‑52 (MQ=255)

CCAACGTCGGCGTAAATCGCCGGGTGATGAAAGTGAAACACTTACCCGTAGAAATGACGCTATCTTCGGCAACCACGTATGGCAAACATTTGCGCAATACTTCCCGCCAGGACTTGAAAAACCGTCTGTGTAGAAAAAACCATAGCTATGGTGTTATCTGCCGACAACGCCATCCGGAGAAGCCGAATGACGTTGTCGGAGTAAGCGCTGGTTAAGGTGTGGGTTGTGCCTCTTTGGTTGAGGGTTGCGTCGTTGCT  >  NC_000913/1245468‑1245724

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `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