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 |
275,969 |
+C |
coding (268/558 nt) |
h16_A0264 ← |
Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 275,968 | 1 | . | C | 100.0%
| 95.7
/ NA
| 25 | A90G (GCC→GGC) | h16_A0264 | Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (14/11); total (14/11) |
CCGCCGGGTGGAGTTGCGCAAGCGGCTCGGCCATGCCCTTGCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGG‑CTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTGCGCAGGCCACGCGAATAGCGCGGTGCGATCCTC > AM260479/275837‑276087
|
ccgccgGGTGGAGTTGCGCAAGCGGCTCGGCCATGCCCTTGCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGG‑cc < 1:666937/134‑2 (MQ=255)
gccgGGTGGAGTTGCGCAAGCGGCTCGGCCATGCCCTTGCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGG‑cctg < 2:304060/134‑4 (MQ=255)
aGCGGCTCGGCCATGCCCTTGCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGAt > 1:22638/1‑134 (MQ=255)
cGGCTCGGCCATGCCCTTGCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCg < 2:585189/134‑1 (MQ=255)
cGGCTCGGCCATGCCCTTGCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCATTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCg < 2:496823/134‑1 (MQ=255)
aGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTc > 1:488664/1‑134 (MQ=255)
aGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGG‑cctgc < 2:946264/93‑5 (MQ=255)
aGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGG‑cctgc > 1:946264/1‑89 (MQ=255)
gCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCgcag > 2:644048/1‑132 (MQ=255)
gCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCgcag > 2:251790/1‑132 (MQ=255)
cACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCcgg > 1:351221/1‑134 (MQ=255)
cAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTc < 2:22638/133‑1 (MQ=255)
gAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTgcgc < 2:974084/63‑1 (MQ=255)
gAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTgcgc > 1:974084/1‑63 (MQ=255)
aaTAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCcagcagcagcag < 2:488664/134‑1 (MQ=255)
aaTAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCcagcagcagcag < 1:644048/134‑1 (MQ=255)
ccTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCcagca > 2:345787/1‑118 (MQ=255)
ccTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCcagca < 1:345787/118‑1 (MQ=255)
ccTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTgcg > 2:463574/1‑134 (MQ=255)
ttGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGAtt < 1:689202/57‑1 (MQ=255)
ttGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGAtt > 2:689202/1‑57 (MQ=255)
ttGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCg > 2:248791/1‑67 (MQ=255)
ttGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCg < 1:248791/67‑1 (MQ=255)
ttCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTGCGCAGGCCa > 2:79924/1‑134 (MQ=255)
gcgcCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTGCGCAGGCCACGCGAATAGCGCGGTGCGa < 1:251790/134‑1 (MQ=255)
ggTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTgcgc > 1:740096/1‑104 (MQ=255)
ggTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTgcgc < 2:740096/104‑1 (MQ=255)
ggTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTGCGCAGGCCACGCGAATAGCGCGGTGCGATCCTc > 2:542642/1‑134 (MQ=255)
ggTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTGCGCAGGCCACGCGAATAGCGCGGTGCGATCCTc > 2:681767/1‑134 (MQ=255)
|
CCGCCGGGTGGAGTTGCGCAAGCGGCTCGGCCATGCCCTTGCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGG‑CTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTGCGCAGGCCACGCGAATAGCGCGGTGCGATCCTC > AM260479/275837‑276087
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
AGTTCCGGCGAGGCGCCCGCCGGGTGGAGTTGCGCAAGCGGCTCGGCCATGCCCTTGCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGG‑CTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTGCGCAGGCCACGCGAATAGCGCGGTGCGATCCTCGCCATCGACGCATCGGTGTCGTC > AM260479/275821‑276110
|
attattctttctttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGG‑CC < GWNJ‑0478:712:GW2002102894th:2:1101:3091:93367/58‑1 (MQ=60)
atacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGCCCTTGCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGG‑CC < GWNJ‑0478:712:GW2002102894th:2:1211:8472:27304/100‑1 (MQ=60)
acgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGCCCTTGCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGG‑CC < GWNJ‑0478:712:GW2002102894th:2:1111:14346:61329/100‑1 (MQ=60)
CCCGCCGGGTGGAGTTGCGCAAGCGGCTCGGCCATGCCCTTGCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCC < GWNJ‑0478:712:GW2002102894th:2:2111:9441:86174/150‑1 (MQ=60)
GGGTGGAGTTGCGCAAGCGGCTCGGCCATGCCCTTGCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATC > GWNJ‑0478:712:GW2002102894th:2:1103:16229:61354/1‑150 (MQ=60)
gcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACC < GWNJ‑0478:712:GW2002102894th:2:2113:15622:18456/87‑1 (MQ=60)
gcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCG < GWNJ‑0478:712:GW2002102894th:2:1116:10459:57171/97‑1 (MQ=60)
GCCATGCCCTTGCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGctgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:2212:2849:11266/1‑123 (MQ=60)
GCCATGCCCTTGCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCG > GWNJ‑0478:712:GW2002102894th:2:1214:2131:31879/1‑150 (MQ=60)
GCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGC > GWNJ‑0478:712:GW2002102894th:2:1206:19383:46139/1‑150 (MQ=60)
GGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtc > GWNJ‑0478:712:GW2002102894th:2:2213:17790:67977/1‑94 (MQ=60)
AGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTGC < GWNJ‑0478:712:GW2002102894th:2:1206:4276:11994/150‑1 (MQ=60)
AAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTGCGCAGGCC < GWNJ‑0478:712:GW2002102894th:2:2109:1432:51467/150‑1 (MQ=60)
GCTGTAGAACGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTGCGCAGGCCACGCGAATAGCtgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:2114:7437:9933/1‑135 (MQ=60)
caGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTGCGCAGGCCACGCGAATAGCGCGGTGCGATCCTCGCCATCGAC < GWNJ‑0478:712:GW2002102894th:2:1206:3373:37911/148‑1 (MQ=60)
CGCGCCGGTCGTGACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTGCGCAGGCCACGCGAATAGCGCGGTGCGATCCTCGCCATCGACG < GWNJ‑0478:712:GW2002102894th:2:1116:14366:75564/150‑1 (MQ=60)
ACGCCGGCCTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTGCGCAGGCCACGCGAATAGCGCGGTGCGATCCTCGCCATCGACGCATCGGTGTCGTC > GWNJ‑0478:712:GW2002102894th:2:2212:4892:69599/1‑150 (MQ=60)
CTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGC < GWNJ‑0478:712:GW2002102894th:2:1214:14187:60173/50‑1 (MQ=60)
|
AGTTCCGGCGAGGCGCCCGCCGGGTGGAGTTGCGCAAGCGGCTCGGCCATGCCCTTGCGCAGCGTGGCCAGCACCAGGGCTTGCAGCGCCCTGAAATAGCTATCCTTGCCTTCGAAGCGGCTGTAGAACGCGCCGGTCGTGACGCCGG‑CTGCGCGCAGATTTCCTGGATCGAGACCTGTTCCAGCGTGCGCTCGCAGCAGCCGGCGGCCGGCTTCCAGCAGCAGCAGCGTGGTGCGCAGGCCACGCGAATAGCGCGGTGCGATCCTCGCCATCGACGCATCGGTGTCGTC > AM260479/275821‑276110
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
