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 |
1,744,688 |
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%
| 59.0
/ NA
| 16 | 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 (8/8); total (8/8) |
ATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGGCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACGTGTGTT > AM260479/1744567‑1744817
|
atcatGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCcg < 2:723099/134‑1 (MQ=255)
gccggtgccggGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCcgcgcg > 2:681950/1‑133 (MQ=255)
ggtgccggGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTc < 1:115530/124‑1 (MQ=255)
ggtgccggGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTc > 2:115530/1‑124 (MQ=255)
cggGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGa > 1:66163/1‑133 (MQ=255)
cacaGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGcagccag < 2:66163/134‑1 (MQ=255)
cacaGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGcagccag < 1:681950/134‑1 (MQ=255)
aCCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTc < 2:854358/90‑1 (MQ=255)
aCCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTc > 1:854358/1‑90 (MQ=255)
aCCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGc > 2:403011/1‑134 (MQ=255)
gCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGc < 1:229340/134‑1 (MQ=255)
cATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAgcgg < 1:403011/134‑1 (MQ=255)
gTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGggcggc > 2:319213/1‑133 (MQ=255)
tGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGcagccag < 2:157721/56‑1 (MQ=255)
tGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGcagccag > 1:157721/1‑56 (MQ=255)
ccccGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCAc > 2:223778/1‑134 (MQ=255)
cgccgccgcCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACgtg < 1:319213/134‑1 (MQ=255)
gccgccAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATc < 2:401050/63‑1 (MQ=255)
gccgccAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATc > 1:401050/1‑63 (MQ=255)
gccgccAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACGTGTGtt > 1:496764/1‑134 (MQ=255)
|
ATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGGCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACGTGTGTT > AM260479/1744567‑1744817
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 37 ≤ 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
GTCGATGCGCTGCAGACCCGCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGGCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACGTGTGTTCGCGCGGCTGG > AM260479/1744546‑1744828
|
GTCGATGCGCTGCAGACCCGCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGC < GWNJ‑0478:712:GW2002102894th:2:2115:18840:94817/149‑1 (MQ=60)
tttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGC < GWNJ‑0478:712:GW2002102894th:2:2101:12492:90927/79‑1 (MQ=60)
CGCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGAC < GWNJ‑0478:712:GW2002102894th:2:1108:17675:75805/150‑1 (MQ=60)
GCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGAC > GWNJ‑0478:712:GW2002102894th:2:1104:11037:58197/1‑149 (MQ=60)
GCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACctgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:2209:10921:47844/1‑120 (MQ=60)
GCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCC < GWNJ‑0478:712:GW2002102894th:2:2110:2267:76402/150‑1 (MQ=60)
AGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGG < GWNJ‑0478:712:GW2002102894th:2:1114:18651:44987/150‑1 (MQ=60)
CCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAAC < GWNJ‑0478:712:GW2002102894th:2:1211:3091:58797/150‑1 (MQ=60)
ATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGG > GWNJ‑0478:712:GW2002102894th:2:1205:19629:65820/1‑38 (MQ=60)
gccctggcggCGGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgct > GWNJ‑0478:712:GW2002102894th:2:1110:2765:30784/11‑86 (MQ=60)
GGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtc > GWNJ‑0478:712:GW2002102894th:2:1211:3261:47879/1‑93 (MQ=60)
GGCGTGGACCCCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACGTGTGTTC > GWNJ‑0478:712:GW2002102894th:2:1214:10709:75432/1‑150 (MQ=60)
CCGCCGCCGCCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACGTGTGTTCGCGCGGCTGG < GWNJ‑0478:712:GW2002102894th:2:1204:9970:39816/150‑1 (MQ=60)
|
GTCGATGCGCTGCAGACCCGCATCATGCCGGTGCCGGGGCGCGACATGGCACAGGCGCTGCGCACCATTGACGCCGACCTGGCGCGTGAGCCGGTGCCCGGCACCATCCTGTTCCTGACCGACGGCGTGGACCCCGCCGCCGGCAGGGCCTTCCGCGCGCAGGCGGACAGCGGCCGCAGCCAGCCGGTGGTGCTGGCCATCGGCACGGAACAGGGCGGGCCGCTGCGCAATGCAGCGGGCGGCTATGTCGAACAGGACGGCGCACGTGTGTTCGCGCGGCTGG > AM260479/1744546‑1744828
|
| 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: ‑ |
