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 |
|
A17 F55 I0 R1
|
217 |
81.2 |
3243344 |
95.0% |
3081176 |
126.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP006881 |
3,725,043 |
C→A |
100% |
A42A (GCG→GCT) |
U712_19205 ← |
Uncharacterized protein ywcI |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP006881 | 3,725,043 | 0 | C | A | 98.1%
| 57.6
/ ‑6.5
| 22 | A42A (GCG→GCT) | U712_19205 | Uncharacterized protein ywcI |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base A (4/17); total (5/17) |
| Fisher's exact test for biased strand distribution p-value = 2.27e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCTTTCGCTTTTTGTTTTTCTTCCTCATTCACAGCCATCCGCCACTCATAAAACGAAACAAGTCCCGCGGCCTGCACCGCCGCTTTTCTTTGGTATGTACGCTGAGCCGAATAGACAGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACA > CP006881/3724917‑3725177
|
tGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCTTTCGCTTTCTGCTTTTCTTCCTCATTCACAGCCATCCGCCATTCATAAAACGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTCt < 8:20362/138‑1 (MQ=255)
tGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCTTTCGCTTTCTGCTTTTCTTCCTCATTCACAGCCATCCGCCATTCATAAAACGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTCt < 4:123694/138‑1 (MQ=255)
ggCGATTCATTTAAGGATTGAAATCATCTTCTTTTATAATGCGCGGCGGCTTTCGCTTTCTGCTTTTATTCCTCATTCAAAGCCATCCGCCATTCATAAAACGAAACGAGTCCTGCGGCCTGCACAGCCGCctttcttt < 2:121584/139‑1 (MQ=255)
tCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCTTTCGCTTTCTGCTTTTCTTCCTCATTCACAGCCATCCGCCATTCATAAAACGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTCTTTGGTAt < 4:332985/138‑1 (MQ=255)
tCCTTGAAGGCTTGCAAAAATCTTCTTTTATAATGCGCGGAGGCTTTCGCTTTCTGCTTTTATTCCTAATTCACAGCCAACCGCCATTCATAAAACTAAACGAGTCCTTCGGCCTGCACAGCCGCCTTTCTTTTGTAt < 5:6424/138‑1 (MQ=255)
gccTTGAAGGCTTGCAAACATCTTCTTTTAAAAAGCGCGGCGGCTTTCGCTTTCTGCTTTTCTTCCGCATTCACAGCCATCCGCCATTCATAAAACGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTCTTTGGTAt < 5:133115/137‑1 (MQ=255)
gAAGGCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCTTTCGCTTTCTGCTTTTCTTCCTCATTCACAGCCATCCGCCATTCATAAAACGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTCTTTGGTATGTACg < 1:29767/138‑1 (MQ=255)
ggCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCTTTCGCTTTCTGCTTTTCTTCCTCATTCACAGCCATCCGCCATTCATAAAACGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTCTTTGGTATGTACGCTGa < 1:120668/139‑1 (MQ=255)
gCTTGCAAAGATCTTCTTTTATAAAGCGGGGCGGCTTTCGCTTTCTGCTTTTCTTCCTCATTCACAGCCATCCGCCATTCATAAACCGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTCTTTGGTATGTACGCTGAg < 8:234085/139‑1 (MQ=255)
gCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCTTTCGCTTTCTGCTTTTCTTCCTCATTCACAGCCATCCGCCATTCATAAAACGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTCTTTGGTATGTACGCTGAg < 3:241257/139‑1 (MQ=255)
cTTTCGCTTTCTGCTTGTCTTCCTCATTCACAGCCAGCCGCCATTCATACAACGAAACGAGGCCTGCGGCCTGCACAGCCGCCTTTCTTTGGTATGTACGCTGAGCCGAATAGACCGCGGCAGCCGAAGTTTTTCTGTc < 6:184417/139‑1 (MQ=255)
ttCACAGCCATCCGCCATTCATAAAACGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTCTTTGGTATGTACGCTGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGa < 8:165232/139‑1 (MQ=255)
aTCCGCCATTCATATAACGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTCTTTGGTATGTACGCTGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCcaca < 1:341769/139‑1 (MQ=255)
tCCGCCATTCATAAAACGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTCTTTGGTATGTACGCTGCGCCGAATAGACCGCGGCCGCCGCCGTTTTTCTGGGCGGCGTCACCCAGTTGCTCAAAAAGACCCTcccccc > 7:248501/1‑135 (MQ=255)
ttCATAAAACGAAACGAGTCCTGCGGCCTGCACCGCCGCCTTTCTTTGGTATGTACGCTGAGCCGCATAGACCGCGGCAGCCCCAGGTTTTATGGCCGGCGGCCCCCACTTCATCAAAAAGACCAACCACCCCCCTaa > 8:17048/2‑138 (MQ=255)
ttCATAAAACGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTGTTTGGTTTGTACGCTGAGCCGAATAGACCGCGGCAGCCGCAGGTTTTCTGTGCGGCGTCACCCCGGTGCTCAAAAAGACCATCCCAACCCGTaaa > 3:131184/2‑139 (MQ=255)
ttCATAAAACGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTCTTTGGTATGTACGCTGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATc < 8:254407/126‑1 (MQ=255)
ttCATAAAACGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTCTTTGGTATGTACGCTGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATc > 7:254407/2‑127 (MQ=255)
ttCATAAAACGAAACGAGTCCTGCGGCCTGCACAGCCGCCGTTATTTGGTATGTACGCTGAGCCGAATATACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTGCCCCAGTTCATCAAAAAGGCCATCCACCCCCgga > 4:203609/2‑135 (MQ=255)
aTAAAACGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTCTTTGGTATGTACGCTGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGAt < 1:147933/139‑1 (MQ=255)
aaaaaCGAAACGAGTCCTGCGGCCTGCACAGCCGCCTTTCTTTGGTATGTACGCTGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATa < 6:46776/138‑1 (MQ=255)
ggCCTGCACAGCCGCCTTTCTTTGGTATGTACGCTGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGaa < 1:336257/139‑1 (MQ=255)
cacaGCCGCCTTTCTTTGGTATGTACGCGGAGCCGAATAGACCGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACa < 5:254971/138‑1 (MQ=255)
|
TGGCGATTCCTTGAAGGCTTGCAAACATCTTCTTTTATAAAGCGCGGCGGCTTTCGCTTTTTGTTTTTCTTCCTCATTCACAGCCATCCGCCACTCATAAAACGAAACAAGTCCCGCGGCCTGCACCGCCGCTTTTCTTTGGTATGTACGCTGAGCCGAATAGACAGCGGCAGCCGCAGTTTTTCTGTCCGGCGTCACCCAGTTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACA > CP006881/3724917‑3725177
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
