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 F2 I194 R1
|
197 |
32.2 |
1845014 |
95.2% |
1756453 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,004,326 |
T→G |
V256G (GTG→GGG) |
yigL → |
sugar/pyridoxal phosphate phosphatase YigL |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,004,326 | 0 | T | G | 100.0%
| 137.6
/ NA
| 39 | V256G (GTG→GGG) | yigL | sugar/pyridoxal phosphate phosphatase YigL |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (12/27); total (12/27) |
AGGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGATA > NZ_CP009273/4004240‑4004410
|
aGGCTGCATTATGGGCAGTGCGCATCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGcc < 2:110614/90‑1 (MQ=255)
gCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCAtt > 1:852934/1‑90 (MQ=255)
aTTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTAt < 2:695011/90‑1 (MQ=255)
tATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCt < 2:769762/90‑1 (MQ=255)
tATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCt < 1:576708/90‑1 (MQ=255)
gggCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCg < 1:502395/90‑1 (MQ=255)
ggCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGt < 1:665475/90‑1 (MQ=255)
gCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTa < 1:646437/90‑1 (MQ=255)
cAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTaa > 2:559895/1‑90 (MQ=255)
aGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTaaa > 1:848748/1‑90 (MQ=255)
gTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAAc > 2:264603/1‑90 (MQ=255)
gTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAAc < 1:65923/90‑1 (MQ=255)
gTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAAc < 2:821260/90‑1 (MQ=255)
tGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAAct < 1:563569/90‑1 (MQ=255)
tGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAAct > 2:57835/1‑90 (MQ=255)
gcgcACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAActc > 2:214377/1‑90 (MQ=255)
cACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTAt > 2:310897/1‑90 (MQ=255)
gCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATc < 1:703711/90‑1 (MQ=255)
gCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATc > 1:455045/1‑90 (MQ=255)
tGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAAt < 1:316565/90‑1 (MQ=255)
gAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATc < 1:253844/90‑1 (MQ=255)
gAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATc < 2:40142/90‑1 (MQ=255)
gAAAGACCTTCATCCCGAGCTGGAAGTAATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATc < 2:326448/90‑1 (MQ=255)
gACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTc < 1:383958/90‑1 (MQ=255)
gACCTTAATCCCGAGCTGGTTGGGATTGGCACTAATGCCGACGACGCGGGGCCGCTTAATCTTCGTAGAGTCTCTTTATCGTAATGGTTc > 2:876883/1‑90 (MQ=255)
ttCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATc > 1:309899/1‑82 (MQ=255)
ttCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATc < 2:309899/82‑1 (MQ=255)
gAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCa < 1:739440/90‑1 (MQ=255)
gAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTc < 2:455045/90‑1 (MQ=255)
aCTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACtt < 2:920567/90‑1 (MQ=255)
cTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTc < 2:289949/90‑1 (MQ=255)
aaTGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGc > 2:790224/1‑90 (MQ=255)
tGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTa < 1:457551/90‑1 (MQ=255)
tGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTa < 1:358831/90‑1 (MQ=255)
gCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTAc < 2:154551/90‑1 (MQ=255)
cgacgaCGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACaa > 2:92741/1‑90 (MQ=255)
acgCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGAt < 2:401416/90‑1 (MQ=255)
acgCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGAt < 1:564556/90‑1 (MQ=255)
cgcgGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATAGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGATa < 1:518157/90‑1 (MQ=255)
|
AGGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGATA > NZ_CP009273/4004240‑4004410
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GGGAAAGGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGATACCCGTTAATC > NZ_CP009273/4004235‑4004420
|
GGGAAAGGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATT > SRR3722072.867666/1‑100 (MQ=60)
GAAAGGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTAT < SRR3722072.841735/100‑1 (MQ=60)
agaagacggcatacgagataatcggacgtctcgtgggctcggagatgtgtataagagacAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATC < SRR3722072.510842/41‑1 (MQ=60)
CATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAA > SRR3722072.863422/1‑100 (MQ=60)
TATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTC < SRR3722072.587007/100‑1 (MQ=60)
GGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTAT < SRR3722072.511463/100‑1 (MQ=60)
GGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATT < SRR3722072.677373/100‑1 (MQ=60)
GCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTT < SRR3722072.657974/100‑1 (MQ=60)
GTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATC < SRR3722072.67140/100‑1 (MQ=60)
GTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATC > SRR3722072.463377/1‑100 (MQ=60)
TGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCG < SRR3722072.573672/100‑1 (MQ=60)
ggacgtctcgtgggctcggagatgtgtataagagacaGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTC < SRR3722072.615996/63‑1 (MQ=60)
GCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTC < SRR3722072.716269/100‑1 (MQ=60)
CTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTA > SRR3722072.315285/1‑100 (MQ=60)
TGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTAT < SRR3722072.322110/100‑1 (MQ=60)
GAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATT < SRR3722072.258149/100‑1 (MQ=60)
GACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGT < SRR3722072.390821/100‑1 (MQ=60)
GAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACC < SRR3722072.752538/100‑1 (MQ=60)
TGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGATAC < SRR3722072.465929/100‑1 (MQ=60)
TGCCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGATAC < SRR3722072.365183/100‑1 (MQ=60)
CCGACGACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGATACNC < SRR3722072.12001/100‑1 (MQ=60)
ACGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGATACCCGTTAAT < SRR3722072.574674/100‑1 (MQ=60)
CGCGGGGCCGCATTATCTGCGTAAACTCTATTTATCGTAATAGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGATACCCGTTAATC < SRR3722072.527483/100‑1 (MQ=60)
|
GGGAAAGGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAACTCTATTTATCGTAATCGTTCTTTATTTGGTCAGTTGTCAACCTGATACTTCGCTACAATGGATACCCGTTAATC > NZ_CP009273/4004235‑4004420
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
