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 |
|
A5 F109 I2 R1
|
18 |
64.5 |
2321652 |
91.0% |
2112703 |
142.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,296,381 |
+GC |
intergenic (+587/+55) |
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 | 4,296,380 | 1 | . | C | 97.0%
| 76.9
/ ‑5.0
| 34 | intergenic (+586/+56) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Reads supporting (aligned to +/- strand): ref base . (1/0); major base C (20/12); minor base A (1/0); total (22/12) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
| * | NC_000913 | 4,296,380 | 2 | . | G | 97.1%
| 80.2
/ ‑4.0
| 34 | intergenic (+586/+56) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base G (21/12); total (22/12) |
| 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 |
TAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTA‑‑CCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAG > NC_000913/4296302‑4296513
||
tAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTGTCAGGCCTATCTTAACCg > 1:767777/1‑143 (MQ=255)
aaCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGAGTGATTTTGTAGGTCGGATAAGGCGTTTAAGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCATGCATATCTTAACCGt > 2:517686/1‑143 (MQ=11)
cgcgTCTTATCAGGCCTACGCCGGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTg < 1:445944/143‑1 (MQ=255)
cgcgTCGTAGCAGGCGTACGCCAGCCAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTg < 1:514648/143‑1 (MQ=11)
ttATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTA‑‑CGCCGTCTTTATTAATAGTGCCGAATGCGACACTAGCCGCGTCTTATCAGGCCTATCTTAACAGTAGGTTAAt > 1:534299/1‑143 (MQ=2)
tATGAGGCCTAAGCCAGACAGCGCAATAGGCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAAtt < 1:137500/143‑1 (MQ=14)
tCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTCTCAGGCCTATCTTCACCGTTGGTCAAtttt > 1:593491/1‑143 (MQ=11)
ccTACGCCAGACAGCGCAATAGCTTGATCCAGCGTCATTTTGTAGCTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CAGCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCaaa < 2:1099413/143‑1 (MQ=14)
ccTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAAc > 2:140144/1‑124 (MQ=0)
ccTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAAc < 1:140144/124‑1 (MQ=2)
tACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAAct > 1:167598/1‑143 (MQ=255)
cgaGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTc < 1:1141450/141‑1 (MQ=255)
ccAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATTAATGCCGGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTc < 1:536288/143‑1 (MQ=17)
cAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTca > 2:382650/1‑143 (MQ=255)
cAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACAGTACGTTAATTTTTCAAAATCttta > 1:108794/1‑141 (MQ=14)
aGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTGTTCAAACTCTTCACAccc > 2:156939/1‑143 (MQ=255)
aGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGGTGGTTAATTTGTCAAACTCTTCACAccc > 2:157051/1‑143 (MQ=17)
aTAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTAACACCCGGTATc < 1:252001/143‑1 (MQ=255)
gCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTATCCGTTGGTTACTTTTTCAAACTCTTCACACCCGGTATCaaa < 1:22134/143‑1 (MQ=18)
ccTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGCATCAAAc > 1:922054/1‑143 (MQ=255)
ccTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTGTTCAAACTCTTCACACCCGACATCAAAc > 2:234701/1‑143 (MQ=18)
cTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAAcc > 2:13260/1‑143 (MQ=255)
aTTTCGCGTGATTCTGCAGGTCTGACCAGGCCTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTACCAGTTTGTTTATTTTTCAAACTCTTCACACCCGGTATCAAACCCtt < 2:1132068/143‑1 (MQ=18)
tgtAGCGGGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCACGTCTTATCAGACCTATCTTAACCGTTGGTTAATTTTTCAAACTCGTCAAACCCGGTATCAAACCCTTc > 1:339789/3‑143 (MQ=18)
tAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATA‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTATTATCAGGCCTATCTTAACCGTGGGTTAGACTTTCAAATTCATCACAGCCGGTATCTAACGCTTCCa > 2:1120571/1‑143 (MQ=14)
cGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGATATCAAACACTTCCATaa > 2:778526/1‑142 (MQ=21)
aTTTTGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGCTGCGAAGCTTGCCGCGTCTTATCGGGCCTATCTTAACCGGTCGTTACCGCTTAACAGACTTAACACCCTGTATCAAACACTTCCATACTGCt > 2:238981/1‑143 (MQ=9)
ttttGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGCTGGTTAATTTTTCAAACTCTTCACACCCGATATCAAAACCTTCTATAAAGcaa > 1:835701/1‑141 (MQ=18)
tttGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACGCCCGGTATCAAACCCTTCCATACCCCTCa > 1:456800/1‑143 (MQ=21)
ttGTAGGTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTACCCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTGTCAAACCCTTCCCTACCGCTccg > 1:825863/1‑141 (MQ=21)
ggTCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTAGTAAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCa > 1:769802/1‑143 (MQ=25)
tCGGATAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTACCCGTTGGTTAATTTTTCCAACTCTTCACACCCGGTATCAAACCCTACCATACAGCTCAGGTTCaaa > 1:129461/1‑142 (MQ=25)
aTAAGGCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGt < 1:323390/143‑1 (MQ=255)
ggCGTTTACGCCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAg < 1:833795/143‑1 (MQ=255)
||
TAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTA‑‑CCGCATC‑CGA‑CATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAG > NC_000913/4296302‑4296513
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
