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 |
3,529,607 |
+C |
intergenic (‑121/‑183) |
secA ← / → h16_A3265 |
preprotein translocase subunit SecA/Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,529,606 | 1 | . | C | 100.0%
| 76.4
/ NA
| 21 | intergenic (‑120/‑184) | secA/h16_A3265 | preprotein translocase subunit SecA/Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (10/11); total (10/11) |
GTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGCC > AM260479/3529479‑3529731
|
gTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCAcgg‑ccgg > 1:752281/1‑130 (MQ=255)
gTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCAcgg‑ccgg > 2:287515/1‑130 (MQ=255)
atcatcGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAAcg < 2:325873/134‑1 (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)
gATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCg < 2:369583/134‑1 (MQ=255)
ggCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCAcg < 1:146129/134‑1 (MQ=255)
ctCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCgtgt < 1:287515/134‑1 (MQ=255)
ggcggcCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTc > 2:1023363/1‑134 (MQ=255)
cggcCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCg < 2:742882/134‑1 (MQ=255)
ggCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGAtt < 1:1005608/134‑1 (MQ=255)
gATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGcc < 1:1023363/134‑1 (MQ=255)
aaaCGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCa > 1:828710/1‑134 (MQ=255)
aaaCGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCa > 2:599675/1‑134 (MQ=255)
aaaCGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGACCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCa > 2:291578/1‑134 (MQ=255)
tgtgCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTgggg < 1:599675/134‑1 (MQ=255)
ggggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGgccg > 2:494321/1‑134 (MQ=255)
gggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCAt > 1:946315/1‑111 (MQ=255)
gggTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCAt < 2:946315/111‑1 (MQ=255)
cACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGgccgcc > 2:57409/1‑131 (MQ=255)
cACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGgccgcc < 1:57409/131‑1 (MQ=255)
|
GTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGCC > AM260479/3529479‑3529731
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ 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
AGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGCCGCAGCTTCAATCCAC > AM260479/3529459‑3529746
|
AGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCAGGGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑C < GWNJ‑0478:712:GW2002102894th:2:1209:19829:81443/150‑1 (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)
gttggcacgttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACG < GWNJ‑0478:712:GW2002102894th:2:2209:8921:19723/61‑1 (MQ=60)
tcatgaccgtatgatatatctctttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCC < GWNJ‑0478:712:GW2002102894th:2:1115:4674:76534/48‑1 (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)
GGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGA < GWNJ‑0478:712:GW2002102894th:2:1111:11838:62869/150‑1 (MQ=60)
GCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCC < GWNJ‑0478:712:GW2002102894th:2:1202:14993:29835/150‑1 (MQ=60)
catacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCC < GWNJ‑0478:712:GW2002102894th:2:2212:5412:54058/99‑1 (MQ=60)
GGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCC < GWNJ‑0478:712:GW2002102894th:2:2215:13572:40883/150‑1 (MQ=60)
GGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCAT > GWNJ‑0478:712:GW2002102894th:2:2204:4387:82355/1‑150 (MQ=60)
AGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGC < GWNJ‑0478:712:GW2002102894th:2:2216:17477:38758/150‑1 (MQ=60)
GTTTATCATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGctgtctctt > GWNJ‑0478:712:GW2002102894th:2:2212:6257:11573/1‑141 (MQ=60)
ATGTGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGCCGCAGCTT < GWNJ‑0478:712:GW2002102894th:2:2107:7190:65929/150‑1 (MQ=60)
TGCCGGGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGctgtctcttatacacatctccgagcccacgagacggagctacatctcgtat > GWNJ‑0478:712:GW2002102894th:2:2113:17282:6777/1‑99 (MQ=60)
GGGTCACGGCCGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGCCGCAGCTTCAATCCAC < GWNJ‑0478:712:GW2002102894th:2:1102:6206:96865/150‑1 (MQ=60)
|
AGACTTTCTTGAGAAGGCCGGTGATCATCGATTGCTTTCACCTGCGCGGAACCGGGCGGCACCCCA‑GGATGCGGGCTGCTCCGGCGGCCGGGCGAGGAATGGATAGATTGGCGCAAAACGCCGAGTTTATCATGTGCCGGGGTCACGG‑CGGAACGCGCCTGGCCCCGTCCCGCAAGGGCAGGCAAGCCTGCCGGATGTCGGCCACGCGTGTGGTCCGCAGATTGCCCGCGTGATTGCCCGTGCGCCCATTGGCCACAGTTTGGGGCGGCCGCCGCAGCTTCAATCCAC > AM260479/3529459‑3529746
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
