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
|
150 |
26.0 |
2053212 |
90.0% |
1847890 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
1,744,688 |
G→C |
G211A (GGC→GCC) |
h16_A1608 → |
conserved hypothetical protein containing von Willebrand factor (vWF) type A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,744,688 | 0 | G | C | 100.0%
| 52.7
/ NA
| 15 | G211A (GGC→GCC) | h16_A1608 | conserved hypothetical protein containing von Willebrand factor (vWF) type A |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (8/7); total (8/7) |
GGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGGCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACGTGTGTT > AM260479/1744575‑1744817
|
ggtgccggGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCcg < 1:958899/126‑1 (MQ=255)
ggtgccggGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCcg > 2:958899/1‑126 (MQ=255)
gcgACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGc > 1:665971/1‑134 (MQ=255)
cgACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGcc < 1:600911/134‑1 (MQ=255)
cGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACg > 1:622719/1‑133 (MQ=255)
cgTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTTGTGCTGGCCATCGGCACGGAACAgggcgg < 2:15421/134‑1 (MQ=255)
gTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAgggcggg > 1:2705/1‑134 (MQ=255)
ggCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGc < 2:622719/134‑1 (MQ=255)
tGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCCGGCCGCTGCGCAATGCAGCGGGCGGCTATGTc > 1:428573/1‑134 (MQ=255)
cGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAAc < 2:499375/134‑1 (MQ=255)
gACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCTAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGaa > 2:418297/1‑132 (MQ=255)
cGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAgggcgg < 1:438652/93‑1 (MQ=255)
cGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAgggcgg > 2:438652/1‑93 (MQ=255)
cGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAg < 1:70430/88‑1 (MQ=255)
cGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAg > 2:70430/1‑88 (MQ=255)
gccgccAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCGGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACGTGTGtt < 2:428573/134‑1 (MQ=255)
|
GGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGGCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACGTGTGTT > AM260479/1744575‑1744817
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ 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
CCTTTGTCGATGCGCTGCAGACCCGCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGGCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCG > AM260479/1744541‑1744795
|
CCTTTGTCGATGCGCTGCAGACCCGCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCC > GWNJ‑0478:712:GW2002102894th:2:1103:19935:9808/1‑149 (MQ=60)
gtttattcagtagaactctagattatttttttttttcaagcagaagacggcatacgatatgtagctccgtctcgtgggctcggagatgtgtataagagacagCCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCT < GWNJ‑0478:712:GW2002102894th:2:1108:4901:58269/48‑1 (MQ=60)
CATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAG < GWNJ‑0478:712:GW2002102894th:2:2213:13853:15606/150‑1 (MQ=60)
TGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCC > GWNJ‑0478:712:GW2002102894th:2:2111:17860:100732/1‑150 (MQ=60)
GCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGG < GWNJ‑0478:712:GW2002102894th:2:2107:19970:92661/150‑1 (MQ=60)
GCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGG > GWNJ‑0478:712:GW2002102894th:2:2108:13329:37600/1‑149 (MQ=60)
ACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGC > GWNJ‑0478:712:GW2002102894th:2:1101:7243:20874/1‑150 (MQ=60)
cgtgggctcggagatgtgtataagagacagGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGC < GWNJ‑0478:712:GW2002102894th:2:1104:13288:80837/118‑1 (MQ=60)
gggctcggagatgtgtataagagacagGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGC < GWNJ‑0478:712:GW2002102894th:2:1213:11862:72370/123‑1 (MQ=60)
GCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCCGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCG > GWNJ‑0478:712:GW2002102894th:2:1213:1768:17667/1‑150 (MQ=60)
|
CCTTTGTCGATGCGCTGCAGACCCGCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGGCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCG > AM260479/1744541‑1744795
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
