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 F1 I1 R1
|
154 |
26.6 |
2069536 |
90.2% |
1866721 |
108.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
3,529,526 |
+G |
intergenic (‑40/‑264) |
secA ← / → h16_A3265 |
preprotein translocase subunit SecA/Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,529,524 | 1 | . | G | 100.0%
| 112.2
/ NA
| 29 | intergenic (‑38/‑266) | secA/h16_A3265 | preprotein translocase subunit SecA/Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (15/14); total (15/14) |
CAGCGCATTGATCTGCGCCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTG > AM260479/3529394‑3529648
|
cAGCGCATTGATCTGCGCCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑g < 2:151592/132‑1 (MQ=255)
gcCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCcgg > 2:811691/1‑134 (MQ=255)
gcCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCcgg < 1:176139/134‑1 (MQ=255)
gcCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCcgg < 1:811691/134‑1 (MQ=255)
cggcgATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGc < 1:99972/134‑1 (MQ=255)
gcgATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGc > 1:646320/1‑132 (MQ=255)
gcgATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGc > 1:91798/1‑132 (MQ=255)
cTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaa < 2:328790/134‑1 (MQ=255)
tCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaa > 1:325873/1‑133 (MQ=255)
aTTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCaaaa < 1:393839/133‑1 (MQ=255)
gCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGcc > 1:192715/1‑134 (MQ=255)
cGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGcc < 2:646320/133‑1 (MQ=255)
ccGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGttt < 2:91798/133‑1 (MQ=255)
gACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCAtg < 1:389358/134‑1 (MQ=255)
gagaAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGcc > 1:168095/1‑80 (MQ=255)
gagaAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGcc < 2:168095/80‑1 (MQ=255)
gagaAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGt > 1:742882/1‑134 (MQ=255)
gTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGttt > 1:858904/1‑109 (MQ=255)
gTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGttt < 2:858904/109‑1 (MQ=255)
gTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCg < 1:532597/120‑1 (MQ=255)
gTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCg > 2:532597/1‑120 (MQ=255)
gTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCAcgg‑ccgg > 2:287515/1‑130 (MQ=255)
gTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCAcgg‑ccgg > 1:752281/1‑130 (MQ=255)
atcatcGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg < 2:325873/134‑1 (MQ=255)
gcgcGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGcc < 2:709140/80‑1 (MQ=255)
gcgcGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGcc > 1:709140/1‑80 (MQ=255)
gAACCGGGCGGCACCCGAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg < 2:165665/109‑1 (MQ=255)
gAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAggg > 2:1005608/1‑132 (MQ=255)
gAACCGGGCGGCACCCAAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg > 1:165665/1‑109 (MQ=255)
gcACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTg > 1:369583/1‑134 (MQ=255)
|
CAGCGCATTGATCTGCGCCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTG > AM260479/3529394‑3529648
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
BRESEQ :: bam2aln output
GCTCGAACTTCGGCTCCAGCGCATTGATCTGCGCCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGC > AM260479/3529378‑3529649
|
GCTCGAACTTCGGCTCCAGCGCATTGATCTGCGCCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGG < GWNJ‑0478:712:GW2002102894th:2:1203:2244:67357/150‑1 (MQ=60)
CCAGCGCATTGATCTGCGCCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCctgtctc > GWNJ‑0478:712:GW2002102894th:2:1209:3398:65776/1‑143 (MQ=60)
CTGCGCCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCG > GWNJ‑0478:712:GW2002102894th:2:1106:15186:24277/1‑148 (MQ=60)
CTGCGCCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCG > GWNJ‑0478:712:GW2002102894th:2:2109:10336:65178/1‑148 (MQ=60)
CGCCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAA < GWNJ‑0478:712:GW2002102894th:2:2202:16752:67772/150‑1 (MQ=60)
CGCCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAA < GWNJ‑0478:712:GW2002102894th:2:1113:16022:39051/150‑1 (MQ=60)
GCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGAT < GWNJ‑0478:712:GW2002102894th:2:1106:15538:76457/150‑1 (MQ=60)
CGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGgactgtctcttatacacatctccgagcccacgagacggagct > GWNJ‑0478:712:GW2002102894th:2:2113:7626:46526/1‑108 (MQ=60)
TGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAA > GWNJ‑0478:712:GW2002102894th:2:1204:10472:84693/1‑149 (MQ=60)
TGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGgactgtctcttatacacatctccgagcccacgagacggagctacatctcgt > GWNJ‑0478:712:GW2002102894th:2:2106:19347:69740/1‑99 (MQ=60)
GATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCG > GWNJ‑0478:712:GW2002102894th:2:1112:21231:36780/1‑150 (MQ=60)
agcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCAT < GWNJ‑0478:712:GW2002102894th:2:1115:8784:26456/87‑1 (MQ=60)
CATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCAT < GWNJ‑0478:712:GW2002102894th:2:1211:12167:7690/149‑1 (MQ=60)
GCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATctgtctcttatacacatctccgagcccacgagacggagct > GWNJ‑0478:712:GW2002102894th:2:1110:7662:93147/1‑110 (MQ=60)
GCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTC > GWNJ‑0478:712:GW2002102894th:2:2114:13524:25258/1‑150 (MQ=60)
AGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑C < GWNJ‑0478:712:GW2002102894th:2:1209:19829:81443/150‑1 (MQ=60)
TTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCtgtctcttat > GWNJ‑0478:712:GW2002102894th:2:2209:6074:75477/1‑140 (MQ=60)
TTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGA > GWNJ‑0478:712:GW2002102894th:2:2114:13371:79076/1‑149 (MQ=60)
TCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAA < GWNJ‑0478:712:GW2002102894th:2:2101:20315:98957/149‑1 (MQ=60)
CGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCtgtctcttatacacatctccgagcccacgagacggagct > GWNJ‑0478:712:GW2002102894th:2:2112:11847:35510/1‑111 (MQ=60)
GCTTTCACCTGCGCGGAACCGGGCGGCACCCAAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCtgtctcttat > GWNJ‑0478:712:GW2002102894th:2:1110:7102:78970/1‑140 (MQ=60)
GCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGC > GWNJ‑0478:712:GW2002102894th:2:1208:7812:61029/1‑150 (MQ=60)
|
GCTCGAACTTCGGCTCCAGCGCATTGATCTGCGCCACCGTGCGGCGATATTGTTTGATCAGCCGCTCATTGCGGCTGCCGAAGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGC > AM260479/3529378‑3529649
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
