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
|
152 |
24.9 |
2083062 |
91.6% |
1908084 |
109.2 |
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%
| 91.8
/ NA
| 25 | 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 (11/14); total (11/14) |
CCGCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGGCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACG > AM260479/1744563‑1744811
|
ccGCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCt < 2:191614/134‑1 (MQ=255)
gCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTc < 1:133416/134‑1 (MQ=255)
atGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCcgcgc > 1:528228/1‑134 (MQ=255)
aTGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGcag > 1:868055/1‑134 (MQ=255)
caGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCagccagcc > 1:691463/1‑134 (MQ=255)
tGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATc > 1:789320/1‑122 (MQ=255)
tGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATc < 2:789320/122‑1 (MQ=255)
tGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAg > 1:287699/1‑134 (MQ=255)
cgTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAgggcgg < 2:868055/134‑1 (MQ=255)
tGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTgcgc < 2:178598/134‑1 (MQ=255)
cGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATg > 1:752434/1‑134 (MQ=255)
cACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAg < 2:528228/134‑1 (MQ=255)
cATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAgcgg < 2:287699/134‑1 (MQ=255)
gTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGcc < 1:452472/65‑1 (MQ=255)
gTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGcc > 2:452472/1‑65 (MQ=255)
ttCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGggcggc < 2:752434/132‑1 (MQ=255)
tGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCggt < 1:311278/73‑1 (MQ=255)
tGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCggt > 2:311278/1‑73 (MQ=255)
tGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAgggcgggc > 1:202204/1‑105 (MQ=255)
tGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAgggcgggc < 2:202204/105‑1 (MQ=255)
cGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAAc < 2:691463/134‑1 (MQ=255)
aCGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCAt > 2:918768/1‑79 (MQ=255)
aCGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCAt < 1:918768/79‑1 (MQ=255)
gccgccAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATc > 2:625241/1‑63 (MQ=255)
gccgccAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATc < 1:625241/63‑1 (MQ=255)
gccgccAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACg > 2:110708/1‑128 (MQ=255)
gccgccAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACg < 1:110708/128‑1 (MQ=255)
ccgCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGcc > 2:361494/1‑36 (MQ=255)
ccgCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGcc < 1:361494/36‑1 (MQ=255)
|
CCGCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGGCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACG > AM260479/1744563‑1744811
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ 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
TGCGCTGCAGACCCGCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGGCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACGTGTGTTCGCGCGGCT > AM260479/1744551‑1744826
|
gtagctccgtctcgtgggctcggagatgtgtataagagacagGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCG < GWNJ‑0478:712:GW2002102894th:2:2203:14226:5638/108‑1 (MQ=60)
CTGCAGACCCGCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCG > GWNJ‑0478:712:GW2002102894th:2:2101:8609:36749/1‑150 (MQ=60)
CGCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGAC < GWNJ‑0478:712:GW2002102894th:2:1109:12831:87858/150‑1 (MQ=60)
GTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGC > GWNJ‑0478:712:GW2002102894th:2:2206:10305:5483/1‑150 (MQ=60)
GGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCG > GWNJ‑0478:712:GW2002102894th:2:2113:11035:9194/1‑150 (MQ=60)
cggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGG < GWNJ‑0478:712:GW2002102894th:2:1212:19185:18241/95‑1 (MQ=60)
atcgcgctttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGG < GWNJ‑0478:712:GW2002102894th:2:1206:2706:95812/67‑1 (MQ=60)
gagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGG < GWNJ‑0478:712:GW2002102894th:2:1205:5645:71676/104‑1 (MQ=60)
CCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGG > GWNJ‑0478:712:GW2002102894th:2:1202:18979:12817/1‑150 (MQ=60)
CCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGG > GWNJ‑0478:712:GW2002102894th:2:2201:17046:80497/1‑150 (MQ=60)
gacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGC < GWNJ‑0478:712:GW2002102894th:2:2108:8466:10694/93‑1 (MQ=60)
agctccgtctcgtgggctcggagatgtgtataagagacagTCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGG < GWNJ‑0478:712:GW2002102894th:2:2211:19723:24650/109‑1 (MQ=60)
GCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGC > GWNJ‑0478:712:GW2002102894th:2:2114:7238:52327/1‑150 (MQ=60)
GCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCtgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:1112:20928:84910/1‑136 (MQ=60)
CCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACGTGTGTTCGCGCGGCT < GWNJ‑0478:712:GW2002102894th:2:1108:2624:47977/150‑1 (MQ=60)
|
TGCGCTGCAGACCCGCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGGCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACGTGTGTTCGCGCGGCT > AM260479/1744551‑1744826
|
| 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: ‑ |
