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
A11 F1 I2 R1	760	67.6	3323148	92.7%	3080558	109.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,149,712	G→A	318 (TAG→TAA)	fabH →	3‑oxoacyl‑[acyl‑carrier‑protein] synthase III

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,149,712	0	G	A	100.0%	123.3 / NA	39	318 (TAG→TAA)	fabH	3‑oxoacyl‑[acyl‑carrier‑protein] synthase III
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (17/22); total (17/22)

TAATACCTCTGCGGCCTCTGTCCCGTGCGCGCTGGATGAAGCTGTACGCGACGGGCGCATTAAGCCGGGGCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAGGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCCCTGGACAGGGTTCTCAAACCGTTGGAATGCTGGCTGATATGGCGGCGAGCTATCCAATTGTCGAAGAAACGTTTGCTGAAGCTTCTGCGG  >  NC_000913/1149577‑1149842

tAATACCTCTGCGGCCTCTGTCCCGTGCGCGCTGGATGAAGCTGTACGCGACGGGCGCATTAAGCCGGGGCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGAt                                                                                                                                 <  2:1211794/139‑1 (MQ=255)

tAATACCTCTGCGGCCTCTGTCCCGTGCGCGCTGGATGAAGCTGTACGCGACGGGCGCATTAAGCCGGGGCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGAt                                                                                                                                 <  1:1394418/139‑1 (MQ=255)

 aaTACCTCTGCGGCCTCTGTCCCGTGCGCGCTGGATGAAGCTGTACGCGACGGGCGCATTAAGCCGGGGCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATa                                                                                                                                <  1:1368908/139‑1 (MQ=255)

   tACCTCTGCGGCCTCTGTCCCGTGCGCGCTGGATGAAGCTGTACGCGACGGGCGCATTAAGCCGGGGCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAg                                                                                                                              <  2:1117052/139‑1 (MQ=255)

     ccTCTGCGGCCTCTGTCCCGTGCGCGCTGGATGAAGCTGTACGCGACGGGCGCATTAAGCCGGGGCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGa                                                                                                                            <  1:1314965/139‑1 (MQ=255)

               ctctGTCCCGTGCGCGCTGGATGAAGCTGTACGCGACGGGCGCATTAAGCCGGGGCAGTTGGTTCTGCTTGAAGTCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATg                                                                                                                  >  1:842057/1‑139 (MQ=255)

                  tGTCCCGTGCGCGCTGGATGAAGCTGTACGCGACGGGCGCATTAAGCCGGGGCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACg                                                                                                               >  2:557660/1‑139 (MQ=255)

                  tGTCCCGTGCGCGCTGGATGAAGCTGTACGCGACGGGCGCATTAAGCCGGGGCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACg                                                                                                               <  1:281392/139‑1 (MQ=255)

                            gcgcTGGATGAAGCTGTACGCGACGGGCGCATTAAGCCGGGGCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCAt                                                                                                     <  1:208769/139‑1 (MQ=255)

                                         cTGTACGCGACGGGCGCATTAAGCCGGGGCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAGCATGACGCAATTTGCATTTGTGTTCCCTgg                                                                                        <  1:557660/139‑1 (MQ=255)

                                          tGTACGCGACGGGCGCATTAAGCCGGGGCAGTTGGTTCTGCTTGAAGTCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCCCTGGa                                                                                       <  2:842057/139‑1 (MQ=255)

                                            tACGCGACGGGCGCATTAAGCCGGGGCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTtgt                                                                                                 >  2:556523/1‑127 (MQ=255)

                                            tACGCGACGGGCGCATTAAGCCGGGGCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTtgt                                                                                                 <  1:556523/127‑1 (MQ=255)

                                                                  ggggCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCCCTGGACAGGGTTCTCAAACCGTTGGAATg                                                               <  2:921112/139‑1 (MQ=255)

                                                                     gCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTtgt                                                                                                 >  1:1497388/1‑102 (MQ=255)

                                                                     gCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTtgt                                                                                                 <  2:1497388/102‑1 (MQ=255)

                                                                              tCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTtgt                                                                                                 <  2:671364/93‑1 (MQ=255)

                                                                              tCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTtgt                                                                                                 >  1:671364/1‑93 (MQ=255)

                                                                                 gCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCCCTGGACAGGGTTCTCAAACCGTTGGAATGCTGGCTGATATggcg                                                <  1:1183651/139‑1 (MQ=255)

                                                                                  cTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCCCTGGACAGGGTTCTCAAACCGTTGGAATg                                                               >  1:1645812/1‑123 (MQ=255)

                                                                                  cTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCCCTGGACAGGGTTCTCAAACCGTTGGAATg                                                               <  2:1645812/123‑1 (MQ=255)

                                                                                   ttGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATa                                                                                                                                <  2:177729/57‑1 (MQ=255)

                                                                                   ttGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATa                                                                                                                                >  1:177729/1‑57 (MQ=255)

                                                                                            ttGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCCCTGGACAGGGTTCTCAAACCGTTGGAATGCTGGCTGATATGGCGGCGAGCTATcc                                     >  1:1285232/1‑139 (MQ=255)

                                                                                                   tGGAATCACCTGGGGCTGCGCGTTGGTTCGCTTCTAAGATAAGGATTACAACATGACGCAACTTGCATTTGTGTTCCCTGGACAGGGTTATCAAACCGTTGGAATGCTGGCTGATATGACGGCGAGTTATCCAATTGTc                              >  2:1208666/1‑139 (MQ=255)

                                                                                                          aCCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCCCTGGACAGGGTTCTCAAACCGTTGGAATGCTGGCTGATATGGCGGCGAGCTATCCAAt                                  >  2:1004222/1‑128 (MQ=255)

                                                                                                          aCCTGGGGCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCCCTGGACAGGGTTCTCAAACCGTTGGAATGCTGGCTGATATGGCGGCGAGCTATCCAAt                                  <  1:1004222/128‑1 (MQ=255)

                                                                                                               gggCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAAtt                                                                                                          >  1:1379230/1‑51 (MQ=255)

                                                                                                               gggCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAAtt                                                                                                          <  2:1379230/51‑1 (MQ=255)

                                                                                                               gggCTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCCCTGGACAGGGTTCTCAAACCGTTGGAATGCTGGCTGATATGGCGGCGAGCTATCCAATTGTCGAAGAAACGttt                  >  2:1546297/1‑139 (MQ=255)

                                                                                                                  cTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTtgt                                                                                                 <  2:1425701/57‑1 (MQ=255)

                                                                                                                  cTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTtgt                                                                                                 >  1:1425701/1‑57 (MQ=255)

                                                                                                                  cTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTtgt                                                                                                 <  2:338360/57‑1 (MQ=255)

                                                                                                                  cTCCGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTtgt                                                                                                 >  1:338360/1‑57 (MQ=255)

                                                                                                                    ccGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCCCTGGACAGGGTTCTCa                                                                            <  2:294263/76‑1 (MQ=255)

                                                                                                                    ccGCGCTGGTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCCCTGGACAGGGTTCTCa                                                                            >  1:294263/1‑76 (MQ=255)

                                                                                                                            gTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCCCTGGACAGGGTTCTCAAACCGTTGGAATGCTGGCTGATATggcg                                                >  2:996972/1‑96 (MQ=255)

                                                                                                                            gTTCGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCCCTGGACAGGGTTCTCAAACCGTTGGAATGCTGGCTGATATggcg                                                <  1:996972/96‑1 (MQ=255)

                                                                                                                               cGTTTCTAAGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCAATGGACAGGGTTCTCAAACCGTTGGAATGCTGGCTGATATGGCGGCGAGCTATCCAATTGTCGAAGAAACGTTTGCTGAAGCTTCTgcgg  >  2:1298968/1‑139 (MQ=255)

TAATACCTCTGCGGCCTCTGTCCCGTGCGCGCTGGATGAAGCTGTACGCGACGGGCGCATTAAGCCGGGGCAGTTGGTTCTGCTTGAAGCCTTTGGCGGTGGATTCACCTGGGGCTCCGCGCTGGTTCGTTTCTAGGATAAGGATTAAAACATGACGCAATTTGCATTTGTGTTCCCTGGACAGGGTTCTCAAACCGTTGGAATGCTGGCTGATATGGCGGCGAGCTATCCAATTGTCGAAGAAACGTTTGCTGAAGCTTCTGCGG  >  NC_000913/1149577‑1149842

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A