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 F28 I1 R1	228	65.7	2434974	91.7%	2232871	138.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,604,643	T→C	V266A (GTT→GCT)	hyfC →	hydrogenase 4 component C

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,604,643	0	T	C	100.0%	143.5 / NA	41	V266A (GTT→GCT)	hyfC	hydrogenase 4 component C
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (18/23); total (18/23)

GTGCCGGGCTGGCGCTAGCGAAATGGGGGCTGGGGCTGAAACAGGTCGTGATGGCATCACTGTTTGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGTTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCATGTGACCTGGCTTGGCTTCAGCCTTGCTGCGCTTGCATGGGTCT  >  NC_000913/2604508‑2604774

gTGCCGGGCTGGCGCTAGCGAAATGGGGGCTGGGGCTGAAACAGGTCGTGATGGCATCACTGTTTGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACg                                                                                                                                 <  1:614304/140‑1 (MQ=255)

gTGCCGGGCTGGCGCTAGCGAAATGGGGGCTGGGGCTGAAACAGGTCGTGATGGCATCACTGTTTGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACg                                                                                                                                 >  1:440763/1‑140 (MQ=255)

          ggCGCTAGCGAAATGGGGGCTGGGGCTGAAACAGGTCGTGATGGCATCACTGTTTGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAgg                                                                                                                       <  2:922106/140‑1 (MQ=255)

                 gCGAAATGGGGGCTGGGGCTGAAACAGGTCGTGATGGCATCACTGTTTGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCt                                                                                                                >  1:259133/1‑140 (MQ=255)

                           ggctggggctgAAACAGGTCGTGATGGCATCACTGTTTGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTa                                                                                                      >  2:912412/1‑140 (MQ=255)

                              tggggctgAAACAGGTCGTGATGGCATCACTGTTTGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTg                                                                                                   >  1:333525/1‑140 (MQ=255)

                                     gAAACAGGTCGTGATGGCATCACTGTTTGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCaa                                                                                            <  1:912412/140‑1 (MQ=255)

                                               gTGATGGCATCACTGTTTGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGaaaa                                                                                  <  2:233495/140‑1 (MQ=255)

                                               gTGATGGCATCACTGTTTGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGaaaa                                                                                  <  2:715688/140‑1 (MQ=255)

                                                    ggCATCACTGTTTGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGc                                                                             <  1:1034656/140‑1 (MQ=255)

                                                      cATCACTGTTTGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTg                                                                           >  2:457346/1‑140 (MQ=255)

                                                          aCTGTTTGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCAc                                                                       >  2:1029604/1‑140 (MQ=255)

                                                           cTGTTTGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCAcg                                                                      <  1:319123/140‑1 (MQ=255)

                                                              tttGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCgg                                                                   <  1:314710/140‑1 (MQ=255)

                                                               ttGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCggg                                                                  >  1:835264/1‑140 (MQ=255)

                                                                tgtgGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGc                                                                 <  1:980945/140‑1 (MQ=255)

                                                                      ccTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGttttt                                                           <  1:202602/140‑1 (MQ=255)

                                                                      ccTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGttttt                                                           >  2:189987/1‑140 (MQ=255)

                                                                        tGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTa                                                         >  1:361201/1‑140 (MQ=255)

                                                                        tGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTa                                                         <  2:426960/140‑1 (MQ=255)

                                                                              tGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCAtt                                                   >  2:330730/1‑140 (MQ=255)

                                                                                cccTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAGTCGCAGAAAACACGCTGGCACGCGGGCGttttt                                                           >  2:1129068/1‑130 (MQ=255)

                                                                                cccTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGttttt                                                           <  1:1129068/130‑1 (MQ=255)

                                                                                    ttGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACt                                                       >  2:1111350/1‑130 (MQ=255)

                                                                                    ttGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACt                                                       <  1:1111350/130‑1 (MQ=255)

                                                                                    ttGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCAt                                             <  2:262446/140‑1 (MQ=255)

                                                                                    ttGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCAt                                             >  2:799782/1‑140 (MQ=255)

                                                                                     tGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCAtg                                            >  2:708036/1‑140 (MQ=255)

                                                                                         cgcgcgcAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCATGTGAc                                        <  2:1217454/140‑1 (MQ=255)

                                                                                         cgcgcgcAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCATGTGAc                                        <  1:1071772/140‑1 (MQ=255)

                                                                                           cgcgcAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCATGTGACCt                                      >  2:928209/1‑140 (MQ=255)

                                                                                           cgcgcAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCATGTGACCt                                      >  2:14119/1‑140 (MQ=255)

                                                                                              gcAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCATGTGACCtggc                                   <  1:928209/140‑1 (MQ=255)

                                                                                                             cGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCATGTGACCTGGCTTGGCTTCAGCCTtg                    <  2:67499/140‑1 (MQ=255)

                                                                                                             cGCCTGCCTGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCATGTGACCTGGCTTGGCTTCAGCCTtg                    <  1:508447/140‑1 (MQ=255)

                                                                                                              gcctgcctGCTGACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCATGTGACCTGGCTTGGCTTCAGCCTtgc                   >  1:577962/1‑140 (MQ=255)

                                                                                                                      gctgACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTGCTCATTCTCCATGTGACCTGGCTTGGCTTCAGCCTTGCTGCGCTTg           <  2:370575/140‑1 (MQ=255)

                                                                                                                         gACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCATGTGACCTGGCTTGGCTTCAGCCTTGCTGCGCTTGCAt        <  2:577962/140‑1 (MQ=255)

                                                                                                                         gACTTCACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCATGTGACCTGGCTTGGCTTCAGCCTTGCTGCGCTTGCAt        <  2:440763/140‑1 (MQ=255)

                                                                                                                              cACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTTACCATGTGACCTGGCTTGGCTTCAGCCTTGCTGCGCTTGCATGGGtc   >  2:779313/1‑140 (MQ=255)

                                                                                                                              cACTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCATGTGACCTGGCTTGGCTTCAGCCTTGCTGCGCTTGCATGGGtc   <  1:708036/140‑1 (MQ=255)

                                                                                                                               aCTTGTCGCTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCATGTGACCTGGCTTGGCTTCAGCCTTGCTGCGCTTGCATGGGtct  <  1:1029604/140‑1 (MQ=255)

GTGCCGGGCTGGCGCTAGCGAAATGGGGGCTGGGGCTGAAACAGGTCGTGATGGCATCACTGTTTGTGGCCCTGTTTCTGCCCTTTGGGCGCGCGCAAGAACTTTCTCTCGCCTGCCTGCTGACTTCACTTGTCGTTACGCTGCTCAAGGTTTTGCTGATTTTTGTACTGGCCTCAATCGCAGAAAACACGCTGGCACGCGGGCGTTTTTTACTCATTCACCATGTGACCTGGCTTGGCTTCAGCCTTGCTGCGCTTGCATGGGTCT  >  NC_000913/2604508‑2604774

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