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 |
|
A10 F28 I1 R1
|
100 |
50.0 |
1731240 |
97.4% |
1686227 |
138.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,532,756 |
A→G |
D314G (GAC→GGC) |
ydcC → |
H repeat‑associated putative transposase YdcC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,532,756 | 0 | A | G | 97.8%
| 142.7
/ ‑4.2
| 45 | D314G (GAC→GGC) | ydcC | H repeat‑associated putative transposase YdcC |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base G (22/22); total (23/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
ATAATAGCAGAACAAAAGAAAGAGCTCGAAATGACGGTCAGATATTATATCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATATTTTGACGAATGATAAGGTATTCA > NC_000913/1532620‑1532866
|
ataataGCAGAACAAAAGAAAGAGCTCGAAATGACGGTCAGATATTATATCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGt > 2:71644/1‑140 (MQ=255)
gCAGAACAAAAGAAAGAGCTCGAAATGACGGTCAGATATTATATCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTaat < 1:71644/140‑1 (MQ=255)
cAGAACAAAAGAAAGAGCTCGAAATGACGGTCAGATATTATATCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTaat < 2:134351/139‑1 (MQ=255)
cAGAACAAAAGAAAGAGCTCGAAATGACGGTCAGATATTATATCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTaat > 1:134351/1‑139 (MQ=255)
gAACAAAAGAAAGAGCTCGAAATGACGGTCAGATATTATATCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTaatgaa > 1:374066/1‑140 (MQ=255)
agagCTCGAAATGACGGTCAGATATTATATCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACt < 2:418966/140‑1 (MQ=255)
agagCTCGAAATGACGGTCAGATATTATATCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCACGTGGAGAATAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACt > 2:659144/1‑140 (MQ=25)
agCTCGAAATGACGGTCAGATATTATATCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTaatga > 2:465349/1‑126 (MQ=255)
agCTCGAAATGACGGTCAGATATTATATCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTaatga < 1:465349/126‑1 (MQ=255)
gTCAGATATTATATCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAgg < 1:746689/140‑1 (MQ=21)
aGATATTATATCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAgg > 1:522369/1‑137 (MQ=25)
aGATATTATATCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAgg < 2:522369/137‑1 (MQ=21)
tatCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGcagcag > 2:634979/1‑140 (MQ=255)
tatCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGcagcag > 1:34264/1‑140 (MQ=255)
tatCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGcagcag > 2:742744/1‑140 (MQ=255)
aGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAatt > 2:245256/1‑140 (MQ=255)
gTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAatta > 1:688478/1‑140 (MQ=255)
ttCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATgcag < 2:247867/131‑1 (MQ=255)
ttCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATgcag > 1:247867/1‑131 (MQ=255)
ttCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAattat > 1:402970/1‑140 (MQ=255)
ctgctgATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTAttt > 1:831953/1‑140 (MQ=255)
ctgctgATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTAttt > 1:670076/1‑140 (MQ=255)
tgctgcTTTCACCGCTGAGAGGTTCTGCACCGCCCTCCCAATCCACTGGCGTGGGGGAAATAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAATACGCCTGCAAAATGAGAAGAGGGAATGCAGCAGAAATAtttt > 2:422500/1‑140 (MQ=2)
gctgATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTc < 2:670076/140‑1 (MQ=255)
ttAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAg > 2:306703/1‑136 (MQ=255)
ttAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAg < 1:306703/136‑1 (MQ=255)
tAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGAtg < 2:322996/140‑2 (MQ=255)
aCCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACg > 1:558902/1‑140 (MQ=255)
gCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGca < 2:831953/140‑1 (MQ=255)
cAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGcac < 1:235801/140‑1 (MQ=255)
gagaAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACAt < 2:143430/140‑1 (MQ=255)
agaAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACAtt < 2:402970/140‑1 (MQ=255)
cGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTa > 1:630428/1‑140 (MQ=255)
cacaGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACAt < 2:87992/129‑1 (MQ=38)
cacaGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACAt > 1:87992/1‑129 (MQ=255)
cacaGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAata > 2:216692/1‑140 (MQ=255)
caGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATAtt > 2:293907/1‑140 (MQ=255)
caGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATAtt > 2:225218/1‑140 (MQ=255)
cAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATATTTTg > 2:864563/1‑140 (MQ=38)
aTCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATATTTTGAc < 2:724975/140‑1 (MQ=21)
tCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATATTTTGACg > 2:451002/1‑140 (MQ=37)
ccACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATATTTTGACGAATGATa < 1:864563/140‑1 (MQ=18)
aCTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATATTTTGACGAATGATAAg < 2:558902/140‑1 (MQ=17)
aCTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATATTTTGACGAATGATAAg < 1:742744/140‑1 (MQ=17)
cATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATATTTTGACGAATGATAAGGTAtt < 2:34264/140‑1 (MQ=17)
cATGTGGAGAATAAGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATATTTTGACGAATGATAAGGTAtt < 2:630428/140‑1 (MQ=17)
tgtgGAGAATAAGCTGCACTGGCGTCTGGGCGTGTTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATATTTTGACGAATGATAAGGTATTCa < 1:366066/140‑1 (MQ=11)
|
ATAATAGCAGAACAAAAGAAAGAGCTCGAAATGACGGTCAGATATTATATCAGTTCTGCTGATTTAACCGCAGAGAAGTTCGCCACAGCAATCCGAAACCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATATTTTGACGAATGATAAGGTATTCA > NC_000913/1532620‑1532866
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
