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 |
|
A3 F181 I0 R1
|
65 |
126.1 |
6126155 |
96.5% |
5911739 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
4,296,060 |
C→T |
100% |
intergenic (+266/+376) |
gltP → / ← yjcO |
glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,296,060 | 0 | C | T | 89.9%
| 124.7
/ 3.6
| 63 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Reads supporting (aligned to +/- strand): ref base C (5/2); new base T (38/18); total (43/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT > NC_000913/4295964‑4296151
|
gccgcgTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGcc > 1:2161041/3‑100 (MQ=11)
aaCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGcc < 2:1566636/100‑1 (MQ=18)
aCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCt < 1:510224/100‑1 (MQ=18)
aCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCt < 1:975567/100‑1 (MQ=18)
aCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCt < 2:1770460/100‑1 (MQ=18)
cgcgTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTg > 1:35025/1‑100 (MQ=18)
gcgTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGa > 2:1216500/1‑100 (MQ=17)
cgTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGAt > 1:1990910/1‑100 (MQ=18)
cgTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGAt > 1:1711378/1‑100 (MQ=32)
caccctATCACACCCACTCCATACACCGCACTATCCCGATCTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCt < 1:2904488/92‑1 (MQ=2)
tCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATg > 2:2934564/1‑99 (MQ=17)
cTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCg < 2:342042/100‑1 (MQ=18)
cTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCg < 1:2626060/100‑1 (MQ=18)
tATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGAc > 2:2815035/1‑100 (MQ=18)
tATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGAc > 2:2243863/1‑100 (MQ=18)
tATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGAc > 1:1517928/1‑100 (MQ=18)
tATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGAc > 1:867516/1‑100 (MQ=18)
tATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGAc > 1:559690/1‑100 (MQ=18)
tATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGAc > 2:453944/1‑100 (MQ=18)
tATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGAc > 2:533209/1‑100 (MQ=18)
aTCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACg > 1:1626361/1‑100 (MQ=18)
cAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCt > 1:2292738/1‑100 (MQ=18)
ggCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTg < 2:917044/100‑1 (MQ=25)
ccTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGcc > 2:2085742/1‑100 (MQ=25)
ccTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGcc > 2:1559629/1‑100 (MQ=25)
ccTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGcc > 2:2264119/1‑100 (MQ=38)
ccTACGCCAGACAGCGCAATAGCCAGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGc > 1:218256/1‑99 (MQ=255)
cTACGCCAGACAGCGCAATAGCCTGATTTGGCGTGATTTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGGCATCAATGTCTGATGCGATGCtgac > 1:1806512/1‑96 (MQ=11)
aCGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCcgcg < 2:388092/100‑1 (MQ=25)
cGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGt > 1:1566087/1‑100 (MQ=38)
cGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGt > 1:1587743/1‑100 (MQ=25)
gCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTc > 2:2554872/1‑100 (MQ=25)
ncAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTNGTAGNTCNGATNAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGNGACNCTTGNCNCNTCt > 2:648498/2‑100 (MQ=11)
ccAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCt > 1:2702373/1‑100 (MQ=25)
ccAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCt > 2:134649/1‑100 (MQ=25)
aGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTa > 2:175011/1‑100 (MQ=25)
aCAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATc < 2:2479506/100‑1 (MQ=25)
aCAGCGCAATAGCCTGATTTAGCGTGA‑GTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATc < 2:881032/100‑1 (MQ=255)
ctgcgcAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCa < 1:1747651/98‑1 (MQ=255)
cAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCa > 1:79779/1‑100 (MQ=17)
cAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCa > 1:2293952/1‑100 (MQ=25)
cAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCa > 1:1382471/1‑100 (MQ=25)
cAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCa > 1:3002781/1‑100 (MQ=38)
gcgcAATAGCCTGATTTAGCGTGA‑TTTTTTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAgg < 1:675580/100‑1 (MQ=255)
gcgcAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCaag > 2:1747661/1‑98 (MQ=255)
gcgcAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAgg > 2:1990859/1‑100 (MQ=25)
cgcAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGc > 1:1413779/1‑100 (MQ=25)
cgcAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGc < 2:2410511/100‑1 (MQ=25)
gcAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGcc > 2:88254/1‑100 (MQ=14)
gcAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGcc < 1:409821/100‑1 (MQ=38)
gcAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGcc < 1:1970119/100‑1 (MQ=25)
cAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCt > 2:1084615/1‑100 (MQ=38)
cAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCt > 1:640667/1‑100 (MQ=25)
cAAGAGCCTGATGTAGCGTGA‑TTTTGGAGGTGTGATAAGGCGTTTTCGCCGGATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCt < 2:122981/100‑1 (MQ=11)
tAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTatc > 1:2850413/1‑98 (MQ=16)
gCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTatctt > 2:1477886/1‑96 (MQ=9)
gCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTatctt > 2:1558273/1‑96 (MQ=9)
ccTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTatctta > 2:165037/1‑95 (MQ=2)
cTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTatct < 1:2026850/97‑4 (MQ=16)
GTCGGATAAGGCGTTTATGCCGCATCCGATATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTa > 1:1464697‑M1/1‑99 (MQ=255)
GATAAGGGGTTTACGCCGCCCAAGTCATCAACGCCTGTTGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCg > 1:669363‑M1/1‑98 (MQ=255)
gcATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATa < 2:1472459/100‑1 (MQ=38)
tCAACGCCTGATGCGACGCTTGCCGCGTCTGATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGt < 1:2770206/96‑1 (MQ=25)
|
AACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGA‑TTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGT > NC_000913/4295964‑4296151
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
