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 |
|
A9 F48 I1 R1
|
82 |
50.4 |
1709896 |
99.0% |
1692797 |
139.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
718,191 |
G→T |
S25S (TCC→TCA) |
potE ← |
putrescine:H(+) symporter/putrescine:ornithine antiporter PotE |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 718,191 | 0 | G | T | 96.7%
| 98.2
/ ‑3.2
| 30 | S25S (TCC→TCA) | potE | putrescine:H(+) symporter/putrescine:ornithine antiporter PotE |
| Reads supporting (aligned to +/- strand): ref base G (1/0); new base T (18/11); total (19/11) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.64e-01 |
CTGAACATACCGCATTTTGCGAATGCCCATGCCAGTGCCATTGAGCCTACGGCTGTCACCAGCCAGGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCGGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTCAACAGGGTGCTTTGCGCATCACGAGGCTTGATGACATAGCA > NC_000913/718069‑718321
|
cTGAACATACCGCATTTTGCGAATGCCCATGCCAGTGCCATTGAGCCTACGGCTGTCACCAGCCAGGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGAc < 2:460840/140‑1 (MQ=255)
tGAACATACCGCATTTTGCGAATGCCCATGCCAGTGCCATTGAGCCTACGGCTGTCACCAGCCAGGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGAcc < 2:280379/140‑1 (MQ=255)
cGCATTTTGCGAATGCCCATGCCAGTGCCATTGAGCCTACGGCTGTCACCAGCCAGGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGt > 1:308753/1‑140 (MQ=255)
gTGCCATTGAGCCTACGGCTGTCACCAGCCAGGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCAtt > 2:27412/1‑140 (MQ=255)
tGCCATTGAGCCTACGGCTGTCACCAGCCAGGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCAttt > 1:165136/1‑140 (MQ=255)
gCCATTGAGCCTACGGCTGTCACCAGCCAGGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCAtttt > 1:729622/1‑140 (MQ=255)
aTTGAGCCTACGGCTGTCACCAGCCAGGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGACAGTATGGTTAACTGAACGACGCCCATTTTGtt < 2:566879/140‑1 (MQ=255)
ccTACGGCTGTCACCAGCCAGGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCGGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGAttt > 1:767211/1‑140 (MQ=255)
ggCTGTCACCAGCCAGGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCt < 2:308753/140‑1 (MQ=255)
tCACCAGCCAGGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCCTGTTTAACATCGTCAGTATGGTTAACTGAACGAGGCCCATTTTGTTCGATTTAGCCTGACTc > 2:147467/1‑140 (MQ=255)
tCACCAGCCAGGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATTGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTc > 2:729050/1‑140 (MQ=255)
tCACCAGCCAGGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTc > 2:665368/1‑140 (MQ=255)
tCACCAGCCAGGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTc > 1:345190/1‑140 (MQ=255)
agccagGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAAt > 2:252332/1‑140 (MQ=255)
ccagGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAAttt > 1:194792/1‑140 (MQ=255)
ccagGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAAttt > 2:725273/1‑140 (MQ=255)
agaTAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTccc > 1:830961/1‑140 (MQ=255)
aTTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGGATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTc > 2:831262/1‑140 (MQ=255)
ttGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTCa < 2:165136/140‑1 (MQ=255)
ttGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTCAACAggg > 1:715381/1‑140 (MQ=255)
tCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTCAACAGGGTGc > 2:259512/1‑140 (MQ=255)
tCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTCAACAGGGTGc > 1:555121/1‑140 (MQ=255)
tCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTCAACAGGGTGc > 1:195546/1‑140 (MQ=255)
cccGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTCAACAGGGTGCt > 2:410733/1‑140 (MQ=255)
cccGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTCAACAGGGTGCt > 1:250070/1‑140 (MQ=255)
cTTCGGCAAGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAAATGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTCAACAGGGTGCTTTgcg < 1:851009/140‑1 (MQ=255)
aGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTCAACAGGGTGCTTTGCGCATCACGa < 1:810300/140‑1 (MQ=255)
aGCTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTCAACAGGGTGCTTTGCGCATCACGa < 2:830961/140‑1 (MQ=255)
cTTTGTCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTCAACAGGGTGCTTTGCGCATCACGAgg < 2:194792/140‑1 (MQ=255)
tCGGCAGCATGATGATACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTCAACAGGGTGCTTTGCGCATCACGAGGCTtga < 1:27412/140‑1 (MQ=255)
gatgatACCTGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTCAACAGGGTGCTTTGCGCATCACGAGGCTTGATGACATAGCa < 1:410733/140‑1 (MQ=255)
|
CTGAACATACCGCATTTTGCGAATGCCCATGCCAGTGCCATTGAGCCTACGGCTGTCACCAGCCAGGAGATAATTGAGATTGTCCCGACTTCGGCAAGCTTTGTCGGCAGCATGATGATACCGGAGCCCATCATGTTGACCATCGTCAGTATGGTTAACTGAACGACGCCCATTTTGTTCGATTTAGCCTGACTCATAATTTTTCCCCTTTCAACAGGGTGCTTTGCGCATCACGAGGCTTGATGACATAGCA > NC_000913/718069‑718321
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
