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 |
1,081,436 |
+C |
coding (437/447 nt) |
h16_A0989 → |
Hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,081,433 | 1 | . | C | 100.0%
| 42.4
/ NA
| 12 | G145A (GGC→GCC) | h16_A0989 | Hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (6/6); total (6/6) |
GCAGGAGCTGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGC > AM260479/1081302‑1081554
|
gCAGGAGCTGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCTTCGGCCGGCGGCACGCAAGG‑cc < 2:858232/134‑1 (MQ=255)
ttGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATc > 1:175178/1‑134 (MQ=255)
tCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGcc > 1:325920/1‑134 (MQ=255)
cgtcGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCgggg < 2:325920/133‑1 (MQ=255)
cGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACg > 1:827537/1‑134 (MQ=255)
aTGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGcc > 2:708987/1‑134 (MQ=255)
ggCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCg < 1:708987/134‑1 (MQ=255)
aTGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCggg < 2:827537/134‑1 (MQ=255)
ccATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTgc < 1:565514/134‑1 (MQ=255)
tGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTgcgcc > 1:346063/1‑133 (MQ=255)
ccTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGcc > 1:171098/1‑97 (MQ=255)
ccTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGcc < 2:171098/97‑1 (MQ=255)
cggcACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGc < 1:391473/134‑1 (MQ=255)
|
GCAGGAGCTGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGC > AM260479/1081302‑1081554
|
| 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
CGGCAGCCGGCAGGAGCTGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACG > AM260479/1081293‑1081569
|
gatgtgtataagagacagGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGAC < GWNJ‑0478:712:GW2002102894th:2:1210:2313:26284/132‑1 (MQ=60)
cagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGAC < GWNJ‑0478:712:GW2002102894th:2:2213:5656:95178/88‑1 (MQ=60)
ttgttcttcttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGAC < GWNJ‑0478:712:GW2002102894th:2:2205:18204:52452/61‑1 (MQ=60)
GGCAGGAGCTGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCT > GWNJ‑0478:712:GW2002102894th:2:1113:10579:33908/1‑150 (MQ=60)
GCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCG > GWNJ‑0478:712:GW2002102894th:2:1204:14596:84835/1‑150 (MQ=60)
GGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGG > GWNJ‑0478:712:GW2002102894th:2:2204:7051:74519/1‑150 (MQ=60)
gtcttgtctctattatttgtttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagcCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTA < GWNJ‑0478:712:GW2002102894th:2:1208:19341:99531/47‑1 (MQ=60)
CTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCctggacctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttc > GWNJ‑0478:712:GW2002102894th:2:1211:18523:60858/1‑84 (MQ=60)
ttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaggcCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCC < GWNJ‑0478:712:GW2002102894th:2:1104:2882:53633/69‑1 (MQ=60)
GGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCC < GWNJ‑0478:712:GW2002102894th:2:2112:16726:34594/150‑1 (MQ=60)
CAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCT > GWNJ‑0478:712:GW2002102894th:2:1206:20062:13576/1‑150 (MQ=60)
GCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCG < GWNJ‑0478:712:GW2002102894th:2:2105:3722:36821/150‑1 (MQ=60)
ATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCtgtctcttatacacatctccg > GWNJ‑0478:712:GW2002102894th:2:1113:9616:10997/1‑128 (MQ=60)
GCGGCACGCAAGGCCCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCCTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACG < GWNJ‑0478:712:GW2002102894th:2:1209:5834:93961/150‑1 (MQ=60)
|
CGGCAGCCGGCAGGAGCTGGTGATTGCGCTGGCGCAGGCCTCGTCCGTCGACGTGCTGCGCTTCCGCGGCCTGTCCGATGCCGGGGCGCGCAGCAATGCGCGCCATGCCCGCGTCGAAGCCTCGGCCGGCGGCACGCAAGG‑CCCTGGACCGTGATCTACGATGCGGACCTGCCGGGGCAGGACGGCTACGATACCCGCGTGCCGCTGGCCCAGCCCGTCAAGGCCGGGGCCCTGCGCTTGACGCTTACCGGCAACCGCTGGCCGGGCGACCAGGACG > AM260479/1081293‑1081569
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
