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 |
|
A2 F3 I0 R2
|
232 |
76.3 |
4135488 |
90.9% |
3759158 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,328,372 |
G→A |
50.0% |
F131F (TTC→TTT) |
wzxC ← |
colanic acid exporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,328,372 | 0 | G | A | 50.0%
| ‑3.6
/ 67.9
| 46 | F131F (TTC→TTT) | wzxC | colanic acid exporter |
| Reads supporting (aligned to +/- strand): ref base G (15/8); new base A (14/9); total (29/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.40e-01 |
CCGCCAGCACCGCGCTGGTTTCGATCATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGTTTTAATCAACGGTGCCAGGTCCG > minE/1328302‑1328439
|
ccGCCAGCACCGCGCTGGTTTCGATCATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCgg < 1:3734936/71‑1 (MQ=255)
cAGCACCGCGCTGGTTTCGATCATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGAAACt < 1:3021435/71‑1 (MQ=255)
gcTGGTTTCGATCATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGAAACTGTTGCCCGt > 1:1815732/1‑71 (MQ=255)
gcTGGTTTCGATCATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGAAACTGTTGCCCGt > 1:2137085/1‑71 (MQ=255)
gTTTCGATCATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGAAACTGTTGCCCGTgggg < 1:546801/71‑1 (MQ=255)
ttCGATCATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGAAACTGTTGCCCGTgggg < 1:976099/69‑1 (MQ=255)
ttCGATCATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGAAACTGTTGCCCGTGGGGGa > 1:2339980/1‑71 (MQ=255)
tCGATCATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGAAACTGTTGCCCGTGGGGGAt > 1:3481066/1‑71 (MQ=255)
cGATCATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCTCGAAACTGTTGCCCGTggggg > 1:68311/1‑68 (MQ=255)
cGATCATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGAAACTGTTGCCCGTGGGGGa > 1:147973/1‑69 (MQ=255)
cGATCATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGAAACTGTTGCCCGTGGGGGa > 1:3308075/1‑69 (MQ=255)
cGATCATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGAAACTGTTGCCCGTGGGGGa > 1:2068190/1‑69 (MQ=255)
aTCATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGAAACt < 1:2472050/52‑1 (MQ=255)
cATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACca > 1:2044198/1‑71 (MQ=255)
cATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGAAACTGt > 1:133907/1‑52 (MQ=255)
cATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGAAACTGt > 1:593467/1‑52 (MQ=255)
cATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGAAACTGt > 1:1784908/1‑52 (MQ=255)
aaTGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACca > 1:199710/2‑71 (MQ=255)
tttGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGc > 1:4107526/1‑69 (MQ=255)
tttGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGc > 1:3716758/1‑69 (MQ=255)
tttGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGc > 1:1381727/1‑69 (MQ=255)
tgAACTCCAGCTCTTTTTGCATCAACGCGCGGAACTGTTGc < 1:1698528/41‑1 (MQ=255)
cTCCAGCTCTTTTTGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATg < 1:3589955/71‑1 (MQ=255)
cTCCAGCTCTTTTTGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATg < 1:3318022/71‑1 (MQ=255)
cTCCAGCTCTTTTTGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATg < 1:1765665/71‑1 (MQ=255)
ctctTTTTGCATCAACGCGCGGAACTGTTGTCCGTGGGGGATTACCACAAACGCCAGCGATAATGtttt < 1:1909330/69‑1 (MQ=255)
ctctTTTTGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGtttt < 1:1871662/69‑1 (MQ=255)
ctctTTTTGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGtttt < 1:1607301/69‑1 (MQ=255)
ctctTTTTGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGtttt < 1:784064/69‑1 (MQ=255)
tttttGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGTTTTAATc > 1:377321/1‑70 (MQ=255)
tttGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGTTTTAATCAAc > 1:2616915/1‑71 (MQ=255)
tttGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGTTTTAATCAAc > 1:3187817/1‑71 (MQ=255)
tttGCATCAACGCGCGAAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGTTTTAATCAAc > 1:3421281/1‑71 (MQ=255)
gCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGTTTTAATCAACGGt > 1:1817016/1‑71 (MQ=255)
gCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGTTTTAATCAACGGt > 1:4041566/1‑71 (MQ=255)
gCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGTTTTAATCAACGGt > 1:4130760/1‑71 (MQ=255)
aaCGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATg > 1:3199911/1‑52 (MQ=255)
aaCGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATg > 1:3067128/1‑52 (MQ=255)
aaCGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATg > 1:2629664/1‑52 (MQ=255)
aaCGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATg > 1:1310036/1‑52 (MQ=255)
aaCGCGCGAAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGTTTTAATCAACGGTGCCAg > 1:1581698/1‑71 (MQ=255)
aaCGCGCGAAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGAGATAATGTTTTAATc > 1:2936129/1‑60 (MQ=255)
gcgAAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGTTTTAATCAACGGTGCCAGGTCCg < 1:2117255/71‑1 (MQ=255)
gcgAAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGTTTTAATCAACGGTGCCAGGTCCg < 1:3262695/71‑1 (MQ=255)
gcgAAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGTTTTAATCAACGGTGCCAGGTCCg < 1:2640323/71‑1 (MQ=255)
gcgAAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGTTTTAATCAACGGTGCCAGGTCCg < 1:593157/71‑1 (MQ=255)
gcgAAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGTTTTAATCAACGGTGCCAGGTCCg < 1:224505/71‑1 (MQ=255)
gAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGt < 1:411747/45‑1 (MQ=255)
gAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGt < 1:480805/45‑1 (MQ=255)
|
CCGCCAGCACCGCGCTGGTTTCGATCATGCCGATTTTGTTGAACTCCAGCTCTTTTTGCATCAACGCGCGGAACTGTTGCCCGTGGGGGATTACCACAAACGCCAGCGATAATGTTTTAATCAACGGTGCCAGGTCCG > minE/1328302‑1328439
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
