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 F5 I102 R1
|
278 |
39.1 |
2251254 |
95.8% |
2156701 |
87.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
715,111 |
A→G |
I269T (ATC→ACC) |
speF ← |
ornithine decarboxylase SpeF |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 715,111 | 0 | A | G | 100.0%
| 147.8
/ NA
| 40 | I269T (ATC→ACC) | speF | ornithine decarboxylase SpeF |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (15/25); total (15/25) |
ATAAATCGTACCGTCGTAGGTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGATCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGTTACGTGCCGTTTC > NZ_CP009273/715023‑715190
|
ataAATCGTACCGTCGTAGGTGCCTAACTGAATAACGGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTc < 2:657969/91‑1 (MQ=255)
gTACCGTCGTAGGTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCAc > 2:1019894/1‑91 (MQ=255)
tACCGTCGTAGGTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACg > 1:1067807/1‑91 (MQ=255)
ggTGCCTAACTGAATCACAGGGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACtt < 1:945505/91‑1 (MQ=255)
ggTGCCTAACTGAATCACAGCGAGGGGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACtt < 2:195798/91‑1 (MQ=255)
ggTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACtt < 1:1025933/91‑1 (MQ=255)
ggTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACtt < 1:509676/91‑1 (MQ=255)
ggTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACtt < 1:275839/91‑1 (MQ=255)
tGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTttc < 1:67616/91‑1 (MQ=255)
ccTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCa > 2:956524/1‑79 (MQ=255)
ccTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCa < 1:956524/79‑1 (MQ=255)
ccTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTttctt > 1:15136/1‑91 (MQ=255)
cTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTttcttc > 1:2479/1‑91 (MQ=255)
aaCTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCaa > 1:463318/1‑91 (MQ=255)
aCTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCaaa < 2:977474/91‑1 (MQ=255)
tGAATCACAGCGAGGCGGAAAGGGCGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAAc < 2:464568/91‑1 (MQ=255)
tGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTATGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAAc < 1:697554/91‑1 (MQ=255)
gAATCACAGCGAGGCGGAAAGGGCGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAAc < 2:475414/90‑1 (MQ=255)
gAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAAc > 1:475414/1‑90 (MQ=255)
aTCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGt > 2:946695/1‑91 (MQ=255)
cacaGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTgc < 2:947576/91‑1 (MQ=255)
cacaGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTgc < 2:27784/91‑1 (MQ=255)
caGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACg > 2:546458/1‑64 (MQ=255)
caGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACg < 1:546458/64‑1 (MQ=255)
gAAAGGGCGAGCGTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCa < 2:512926/91‑1 (MQ=255)
gAAAGGAGGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCa < 2:863662/91‑1 (MQ=255)
aaaGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCAc < 2:1067807/91‑1 (MQ=255)
gACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGAt > 2:1095964/1‑91 (MQ=255)
ggAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATaa < 2:723586/90‑1 (MQ=255)
gAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATaaa < 2:463318/91‑1 (MQ=255)
aGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAg < 1:802043/91‑1 (MQ=255)
gCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAAc > 1:725687/1‑64 (MQ=255)
gCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAAc < 2:725687/64‑1 (MQ=255)
gCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGc < 2:215659/91‑1 (MQ=255)
ctTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATa > 1:108767/1‑91 (MQ=255)
gCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGTTACg > 2:453512/1‑91 (MQ=255)
cTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGTTACGt > 1:1099920/1‑91 (MQ=255)
cTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGTTACGt > 1:321752/1‑91 (MQ=255)
cGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGTTACGTGCCGTTTc < 1:1019894/91‑1 (MQ=255)
cGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGTTACGTGCCGTTTc < 1:569645/91‑1 (MQ=255)
|
ATAAATCGTACCGTCGTAGGTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGATCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGTTACGTGCCGTTTC > NZ_CP009273/715023‑715190
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TTATAAATCGTACCGTCGTAGGTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGATCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGTTACGTGCCGTTTCCAGATAAACCGGTGTTGCACC > NZ_CP009273/715021‑715211
|
TTATAAATCGTACCGTCGTAGGTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACG > SRR3722125.1091879/1‑101 (MQ=60)
atgtgtataagagacagAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTT < SRR3722125.558140/84‑1 (MQ=60)
agGTCGTAGGTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTC < SRR3722125.977821/99‑1 (MQ=60)
GTCGTAGGTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTT > SRR3722125.15418/1‑101 (MQ=60)
TCGTAGGTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTC > SRR3722125.2541/1‑101 (MQ=60)
GTAGGTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAA > SRR3722125.473088/1‑101 (MQ=60)
GGTGCCTAACTGAATCACAGGGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAAC < SRR3722125.966528/101‑1 (MQ=60)
GGTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAAG < SRR3722125.1048928/101‑1 (MQ=60)
GGTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAAC < SRR3722125.281413/101‑1 (MQ=60)
GGTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAAC < SRR3722125.520486/101‑1 (MQ=60)
GTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGCGCGACTTCCGCGGTCAGCTCACGCAGGCAACTTTCTTCAAAACA > SRR3722125.485439/1‑101 (MQ=60)
TGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAG < SRR3722125.68855/101‑1 (MQ=60)
TGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTATGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATC < SRR3722125.712588/101‑1 (MQ=60)
GAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCctgtctcttatacacat > SRR3722125.741328/1‑84 (MQ=60)
GGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATA > SRR3722125.110816/1‑101 (MQ=60)
AGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGT < SRR3722125.819572/101‑1 (MQ=60)
CTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGTTACGT > SRR3722125.1124695/1‑101 (MQ=60)
CTTTTGCCCGCTGCGGTGCGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGTTACGT > SRR3722125.328361/1‑101 (MQ=60)
CGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGTTACGTGCCGTTTCCAGATAAACC < SRR3722125.1042743/101‑1 (MQ=60)
CGACTTCCGCGGTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGTTACGTGCCGTTTCCAGATAAACC < SRR3722125.581824/101‑1 (MQ=60)
GTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGTTACGTGCtgtctcttatacacatctccgagccca > SRR3722125.442370/1‑74 (MQ=60)
GTCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGTTACGTGCCGTTTCCAGATAAACCGGTGTTGCACC < SRR3722125.370645/101‑1 (MQ=60)
|
TTATAAATCGTACCGTCGTAGGTGCCTAACTGAATCACAGCGAGGCGGAAAGGACGAGCCTCTTTTGCCCGCTGCGGTGCGACTTCCGCGATCAGCTCACGCAGGTAACTTTCTTCAAAACAGTGCGCATCAATGCCACCGATAAAGCCATACGGGTTACGTGCCGTTTCCAGATAAACCGGTGTTGCACC > NZ_CP009273/715021‑715211
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
