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 |
AM260480 |
2,422,560 |
C→T |
intergenic (+124/‑116) |
h16_B2141 → / → h16_B2142 |
ABC‑type transporter, permease component/Sodium/glutamate symporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 2,422,560 | 0 | C | T | 100.0%
| 60.1
/ NA
| 17 | intergenic (+124/‑116) | h16_B2141/h16_B2142 | ABC‑type transporter, permease component/Sodium/glutamate symporter |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (9/8); total (9/8) |
GAGCGAGGGTTCGCTCCCCTCTCCCGCAAGCGGGAGAGGGAGCACGGCATCGGCATTCACGGCCCGGTAGTCGCTGCGCCCCACCCCCAACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAACCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCTCTCCGCCAGGACGCCCCCGATGAACC > AM260480/2422435‑2422682
|
gAGCGAGGGTTCGCTCCCCTCTCCCGCAAGCGGGAGAGGGAGCGCGGCATCGGCATTCACGGCCCGGTAGTCGCTGCGCCCCACCCCCAACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAATCCGTAGt > 2:797202/1‑133 (MQ=255)
ccGCAAGCGGGAGAGGGAGCGCGGCATCGGCATTCACGGCCCGGTAGTCGCTGCGCCCCACCCCCAACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCAtt < 1:797202/134‑1 (MQ=255)
gggAGCACGGCATCGGCATTCACGGCCCGGTAGTCGCTGCGCCCCACCCCCAACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTg > 2:881091/1‑134 (MQ=255)
ggcatTCACGGCCCGGTAGTCGCTGCGCCCCACCCCCAACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACgg < 1:881091/134‑1 (MQ=255)
aaCCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCAcccc < 2:848438/89‑1 (MQ=255)
aaCCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCAcccc > 1:848438/1‑89 (MQ=255)
ttGCCTTATTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCTCTCCGCCAg > 2:264693/1‑134 (MQ=255)
aTTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCAcccc < 1:794578/73‑1 (MQ=255)
aTTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCAcccc > 2:794578/1‑73 (MQ=255)
aTTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAg > 1:659246/1‑102 (MQ=255)
aTTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAg < 2:659246/102‑1 (MQ=255)
ttCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCTCTCCGCCAGGACGcccc < 1:264693/134‑1 (MQ=255)
cgcgTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCaa < 2:682819/104‑1 (MQ=255)
cgcgTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCaa > 1:682819/1‑104 (MQ=255)
cgcgTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCTCTCCGCCAGGACGCCCCCGATGAAcc > 1:940453/1‑134 (MQ=255)
tCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCTCTCCGCCAGGACGccc < 2:228855/120‑1 (MQ=255)
tCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCTCTCCGCCAGGACGccc > 1:228855/1‑120 (MQ=255)
|
GAGCGAGGGTTCGCTCCCCTCTCCCGCAAGCGGGAGAGGGAGCACGGCATCGGCATTCACGGCCCGGTAGTCGCTGCGCCCCACCCCCAACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAACCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCTCTCCGCCAGGACGCCCCCGATGAACC > AM260480/2422435‑2422682
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GGACGCGTTGCGGGCGCGCTGAGCGAGGGTTCGCTCCCCTCTCCCGCAAGCGGGAGAGGGAGCACGGCATCGGCATTCACGGCCCGGTAGTCGCTGCGCCCCACCCCCAACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAACCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCTCTCCGCCAGGACGCCCCCGATGAACCTCGACCTGCTGGGCTCGCTGCTGAC > AM260480/2422415‑2422707
|
gtacagcgattatgtgttttttatttttttctttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagAACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAATC < GWNJ‑0478:712:GW2002102894th:2:2115:12857:64454/39‑1 (MQ=60)
cgtgggctcggagatgtgtataagagacagTCGCTCCCCTCTCCCGCAAGCGGGAGAGGGAGCACGGCATCGGCATTCACGGCCCGGTAGTCGCTGCGCCCCACCCCCAACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAATC < GWNJ‑0478:712:GW2002102894th:2:1213:20143:34041/117‑1 (MQ=60)
ACGCGTTGCGGGCGCGCTGAGCGAGGGTTCGCTCCCCTCTCCCGCAAGCGGGAGAGGGAGCACGGCATCGGCATTCACGGCCCGGTAGTCGCTGCGCCCCACCCCCAACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAATCCGTAG < GWNJ‑0478:712:GW2002102894th:2:2109:5321:8829/150‑1 (MQ=60)
CCCGCAAGCGGGAGAGGGAGCGCGGCATCGGCATTCACGGCCCGGTAGTCGCTGCGCCCCACCCCCAACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGC < GWNJ‑0478:712:GW2002102894th:2:2202:13014:11989/150‑1 (MQ=60)
gttcttagtgcctgtctttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGC < GWNJ‑0478:712:GW2002102894th:2:1213:1750:75850/55‑1 (MQ=60)
AGGGAGCACGGCATCGGCATTCACGGCCCGGTAGTCGCTGCGCCCCACCCCCAACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAATCCGTAGTctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgc > GWNJ‑0478:712:GW2002102894th:2:1109:17869:35278/1‑97 (MQ=60)
gagatgtagctccgtctcgtgggctcggagatgtgtataagagacagACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGG < GWNJ‑0478:712:GW2002102894th:2:2203:18640:93499/103‑1 (MQ=60)
CGGCATTCACGGCCCGGTAGTCGCTGCGCCCCACCCCCAACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGAT < GWNJ‑0478:712:GW2002102894th:2:2207:16133:49717/150‑1 (MQ=60)
CTGCGCCCCACCCCCAACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCtgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:2209:19953:45873/1‑120 (MQ=60)
ACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCctgtctcttatacacatc > GWNJ‑0478:712:GW2002102894th:2:2111:11225:61796/1‑132 (MQ=60)
GCCTTATTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCTCTCCGCCAGGACtgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:2113:2341:2090/1‑135 (MQ=60)
GCCTTATTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCTCTCCGCCAGGACGCCCCCGATGAACCT > GWNJ‑0478:712:GW2002102894th:2:2212:17690:8834/1‑150 (MQ=60)
TATTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCTCTCCGCCAGGACGCCCCCGATGAACCTCGAC > GWNJ‑0478:712:GW2002102894th:2:1114:15441:48711/1‑150 (MQ=60)
ATTCCACCCGCGCGTCTACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCTCTCCGCCAGGACGCCCCCGATGAACCTCGACC < GWNJ‑0478:712:GW2002102894th:2:1201:17536:85266/150‑1 (MQ=60)
ACAATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCTCTCCGCCAGGACtgtctcttatacacatctccgagcccacgagacgg > GWNJ‑0478:712:GW2002102894th:2:2210:9420:70113/1‑113 (MQ=60)
AATCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCTCTCCGCCAGGACGCCCCCGATGAACCTCGACCTGCTGGGCTCGCTGCTGAC < GWNJ‑0478:712:GW2002102894th:2:2204:20687:4318/150‑1 (MQ=60)
|
GGACGCGTTGCGGGCGCGCTGAGCGAGGGTTCGCTCCCCTCTCCCGCAAGCGGGAGAGGGAGCACGGCATCGGCATTCACGGCCCGGTAGTCGCTGCGCCCCACCCCCAACCTTTCCTTGCCTTATTCCACCCGCGCGTCTACAACCCGTAGTGATGCATGCTCCCCGTCAGGCATTGCCGGCGGCCAGTGCACCCCCGGCACGGCCAGCGGCGCCCGATGGCAAGGTACCCCCGCAACCCTCTCCGCCAGGACGCCCCCGATGAACCTCGACCTGCTGGGCTCGCTGCTGAC > AM260480/2422415‑2422707
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
