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 |
|
A0 F0 I1 R1
|
149 |
26.7 |
2337422 |
87.5% |
2045244 |
105.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260480 |
2,256,779 |
G→A |
P94S (CCG→TCG) |
h16_B1998 ← |
transcriptional regulator, XRE‑family |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 2,256,779 | 0 | G | A | 100.0%
| 105.3
/ NA
| 28 | P94S (CCG→TCG) | h16_B1998 | transcriptional regulator, XRE‑family |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (14/14); total (14/14) |
CCATTGGCTGGTCTTGTGCCAGCGTGAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGGAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACGTCGAGGGCCTCGGCCAGCTTGAGCACCGTACCGATGGTCGGC > AM260480/2256653‑2256897
|
ccATTGGCTGGTCTTGTGCCAGCGTGAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCgg < 2:1128013/134‑1 (MQ=255)
ccATTGGCTGGTCTTGTGCCAGCGTGAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCgg < 2:1077678/134‑1 (MQ=255)
ttGGCTGGTCTTGTGCCAGCGTGAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTcc < 2:837117/134‑1 (MQ=255)
tGGCTGGTCTTGTGCCAGCGTGAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCcg > 1:134397/1‑134 (MQ=255)
tCTTGTGCCAGCGTGAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCtt < 1:621024/134‑1 (MQ=255)
tgCCAGCGTGAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACca < 1:258484/134‑1 (MQ=255)
gAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGAc < 1:1028256/123‑1 (MQ=255)
gAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGAc > 2:1028256/1‑123 (MQ=255)
gAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACca > 1:1134434/1‑125 (MQ=255)
gAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACca < 2:1134434/125‑1 (MQ=255)
cTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGa < 2:134397/134‑1 (MQ=255)
gCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCgg > 1:1031336/1‑78 (MQ=255)
gCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCgg < 2:1031336/78‑1 (MQ=255)
gTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTc > 2:1054763/1‑132 (MQ=255)
gTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTc < 1:1054763/132‑1 (MQ=255)
gTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGa > 1:358015/1‑134 (MQ=255)
tCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGAc < 2:358015/134‑1 (MQ=255)
cgcgCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGt > 2:618660/1‑133 (MQ=255)
cTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCAtt > 1:867179/1‑93 (MQ=255)
cTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCAtt < 2:867179/93‑1 (MQ=255)
tCCGTGGCAATGGCTTCGTA‑GTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACGTc > 2:719934/1‑133 (MQ=255)
ggCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACg > 1:34745/1‑127 (MQ=255)
ggCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACg < 2:34745/127‑1 (MQ=255)
ggTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACGTCGAGGGCCTCGGCCAGCtt > 2:655708/1‑132 (MQ=255)
cTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTgg < 2:120139/85‑1 (MQ=255)
cTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTgg > 1:120139/1‑85 (MQ=255)
cTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACGTCGAGGGCCTCGGCCAGCTTGAGCACCGTACCGATgg > 1:670187/1‑134 (MQ=255)
ggACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACGTCGAGGGCCTCGGCCAGCTTGAGCACCGTACCGATGGTCGGc > 1:250262/1‑133 (MQ=255)
|
CCATTGGCTGGTCTTGTGCCAGCGTGAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGGAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACGTCGAGGGCCTCGGCCAGCTTGAGCACCGTACCGATGGTCGGC > AM260480/2256653‑2256897
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 35 ≤ 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
GGCATGGCTGGCCATTGGCTGGTCTTGTGCCAGCGTGAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGGAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACGTCGAGGGCCTCGGCCAGCTTGAGCACCGTACCGATGGTCGGCGACGACAGGCCGCGCTCCAGCT > AM260480/2256642‑2256919
|
GGCATGGCTGGCCATTGGCTGGTCTTGTGCCAGCGTGAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGC > GWNJ‑0478:712:GW2002102894th:2:1109:11182:24883/1‑150 (MQ=60)
GTCTTGTGCCAGCGTGAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTC < GWNJ‑0478:712:GW2002102894th:2:2102:17764:96174/150‑1 (MQ=60)
GTCTTGTGCCAGCGTGAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTC > GWNJ‑0478:712:GW2002102894th:2:2215:7067:52178/1‑150 (MQ=60)
TGTGCCAGCGTGAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATT < GWNJ‑0478:712:GW2002102894th:2:2211:12833:34031/149‑1 (MQ=60)
GTGCCAGCGTGAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGC < GWNJ‑0478:712:GW2002102894th:2:1114:11797:73008/150‑1 (MQ=60)
ACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCctgtctcttatacacatctccgagcccacgagacactcgct > GWNJ‑0478:712:GW2002102894th:2:2211:5786:50611/1‑108 (MQ=60)
GGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGAC > GWNJ‑0478:712:GW2002102894th:2:1204:4191:69128/1‑150 (MQ=60)
CGCCTTNTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTctgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:2116:21330:88424/1‑123 (MQ=60)
TGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACGTCGAG < GWNJ‑0478:712:GW2002102894th:2:2210:2019:71022/148‑1 (MQ=60)
acgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACGTCGAGGGC < GWNJ‑0478:712:GW2002102894th:2:2106:17558:41824/102‑1 (MQ=60)
GTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACGTCGAGGGC > GWNJ‑0478:712:GW2002102894th:2:1105:10099:23259/1‑150 (MQ=60)
GGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACGTCGctgtctcttatacacatctccgagcccacgagac > GWNJ‑0478:712:GW2002102894th:2:1108:11245:43890/1‑115 (MQ=60)
GGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACGTCGAGGGCCTCGGCCAGCTTGAGCACCGTACCGATGGT > GWNJ‑0478:712:GW2002102894th:2:2107:3919:83514/1‑150 (MQ=60)
GCCCTGGCGCTCGGCGGACGGGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACGTCGAGGGCCTCGGCCAGCTTGAGCACCGTACCGATGGTCGGCG > GWNJ‑0478:712:GW2002102894th:2:1114:17445:32313/1‑149 (MQ=60)
GGCTGAACGAAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACGTCGAGGGCCTCGGCCAGCTTGAGCACCGTACCGATGGTCGGCGACGACAGGCCGCGCTCCAGCT > GWNJ‑0478:712:GW2002102894th:2:2204:13369:77916/1‑150 (MQ=60)
|
GGCATGGCTGGCCATTGGCTGGTCTTGTGCCAGCGTGAACGGCGGCACCATGACGAAGGGCTGCATCGCCTTGTCCACGCGCTCCGTGGCAATGGCTTCGTAGGTATAGCCCTGGCGCTCGGCGGACGGGCTGAACGGAACCCGGTCCGCGGCCTTGACCAGCAGGATCTCATTGCCGCGCTGCGGCTTGGCGATCAGCTGGTCGACGGTCACGTCGAGGGCCTCGGCCAGCTTGAGCACCGTACCGATGGTCGGCGACGACAGGCCGCGCTCCAGCT > AM260480/2256642‑2256919
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
