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 |
|
A1 F1 I2 R1
|
765 |
46.1 |
2269152 |
93.8% |
2128464 |
105.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,965,557 |
(T)8→7 |
coding (74/1266 nt) |
rhlB ← |
ATP‑dependent RNA helicase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,965,550 | 0 | T | . | 97.0%
| 129.3
/ ‑2.7
| 33 | coding (81/1266 nt) | rhlB | ATP‑dependent RNA helicase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base . (13/19); minor base C (1/0); total (14/19) |
| Fisher's exact test for biased strand distribution p-value = 4.24e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAGAGAAGATAATGAAACGTTGACGTAAGAAACGCCATCG‑TTTTCCCGGTACCGGTTTGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCCTTTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACTTCTGTTCTGTTAAATGTGTTTTGCTCATAGTGTGGTAGAATATCAGCTTACTATTGCTTTACGAAAGCGTATCCGGTGAAA > NC_000913/3965413‑3965683
|
gagagaAGATAATGAAACGTTGACGTAAGAAACGCCATCG‑TTTTCCCGGTACCGGTTTGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCCtt < 2:417675/139‑1 (MQ=255)
aagaTAATGAAACGTTGACGTAAGAAACGCCATCG‑TTTTCCCGGTACCGGTTTGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCCttttttt > 2:690270/1‑139 (MQ=255)
agaTAATGAAACGTTGACGTAAGAAACGCCATCG‑TTTTCCCGGTACCGGTTTGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCCtttttttc > 1:1010935/1‑138 (MQ=255)
aTGAAACGTTGACGTAAG‑AACGCCATCGTTTTTCCGGGAACGGGTTTGCCCTTGCCCGGC‑AAGTCCCCACCCGCCAGCCTCAACGGGAGGGCCAGTGCCTTAATGGGCGTACAGTTATGAAACCCCTTTTTTTAAAggc > 2:33538/1‑138 (MQ=255)
gaaacctttGACG‑AAGAAACGCCATCG‑TTTTCCCGGTACCGGTTTGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCt < 1:33538/132‑1 (MQ=255)
gTTGACGTAAGAAACGCCATCG‑TTTTCCCGGTACCGGTTTGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCtt < 1:151499/135‑1 (MQ=255)
gTTGACGTAAGAAACGCCATCG‑TTTTCCCGGTACCGGTTTGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCtt > 2:151499/1‑135 (MQ=255)
gTTGACGTAAGAAACGCCATCG‑TTTTCCCGGTACCGGTTTGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTAc > 1:208879/1‑139 (MQ=255)
gTTGACGTAAGAAACGCCATCG‑TTTTCCCGGTACCGGTTTGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTAc > 2:276921/1‑139 (MQ=255)
ttGACGTAAGAAACGCCATCG‑TTTTCCCGGTACCGGTTTGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACa < 2:896525/139‑1 (MQ=255)
tCCCGGTACCGGTTTGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGAGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCg > 1:764946/1‑139 (MQ=255)
cGGTACCGGTTTGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGaa < 2:1010935/139‑1 (MQ=255)
ccGGTTTGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACtt < 1:276921/139‑1 (MQ=255)
ccGGTTTGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACtt < 2:208879/139‑1 (MQ=255)
tGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACttctgttc > 2:902184/1‑139 (MQ=255)
cgcCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACttctgttctg > 2:1010191/1‑139 (MQ=255)
tCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGTAAACTTCTGTTCTGTTAAATGTGTTTTGCt < 2:182989/139‑1 (MQ=255)
tCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACTTCTGTTCTGTTAAATGTGTTTTGCt < 2:535598/139‑1 (MQ=255)
cACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACTTCTGTTCTGTTAAATGTGTTTTGCTc > 2:43371/1‑139 (MQ=255)
gACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACTTCTGTTCTGTTAAATGTGTTTTGCTCATa < 2:546079/139‑1 (MQ=255)
ccAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACTTCTGTTCTGTTAAATGTGTTTTGCTCATAGTGTgg < 1:273805/139‑1 (MQ=255)
cAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACTTCTGTTCTGTTAAATGTGTTTTGCTCATAGTGTGGt < 1:690270/139‑1 (MQ=255)
tCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACTTCTGTTCTGTTAAATGTGttt < 1:493851/119‑1 (MQ=255)
tCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACTTCTGTTCTGTTAAATGTGttt > 2:493851/1‑119 (MQ=255)
ggAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACTTCTGTTCTGTTAAATGTGTTTTGCTCATAGTGTGGTAGAATATCAg < 1:902184/139‑1 (MQ=255)
aaGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACttctgt < 2:20562/96‑1 (MQ=255)
aaGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACttctgt > 1:20562/1‑96 (MQ=255)
gAATGGGCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACTTCTGTTCTGTTAAATGTGTTTTGCTCATAGTGTGGTAGAATATCAGCTTACTATTGCTTTAc > 1:91510/1‑139 (MQ=255)
gaatggCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCgg < 1:53180/49‑1 (MQ=255)
gaatggCGTACAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCgg > 2:53180/5‑53 (MQ=255)
cAGTTATGAAACCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACTTCTGTTCTGTTAAATGTGTTTTGCTCATAGTGTGGTAGAATATCAGCTTACTATTGCTTTACGAAAGCGTATc < 1:43371/139‑1 (MQ=255)
aaaCCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGa > 2:455238/1‑46 (MQ=255)
aaaCCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGa < 1:455238/46‑1 (MQ=39)
aaaCCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACTTCTGTTCTGTTAAATGTGTTTTGc < 1:1055759/82‑1 (MQ=255)
aaaCCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACTTCTGTTCTGTTAAATGTGTTTTGc > 2:1055759/1‑82 (MQ=255)
aaaCCC‑TTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACTTCTGTTCTGTTAAATGTGTTTTGCTCATAGTGTGGTAGAATATCAGCTTACTATTGCTTTACGAAAGCGTATCCGGTGaaa < 2:91510/139‑1 (MQ=255)
|
GAGAGAAGATAATGAAACGTTGACGTAAGAAACGCCATCG‑TTTTCCCGGTACCGGTTTGCGCCTGCCCGGCTACGTCACGACCCGCCAGCGTCAGCGGAAGGGCCAGTGCCTGAATGGGCGTACAGTTATGAAACCCTTTTTTTTCAAGGGCTTCTACAACCTTCGGATGCAGGGCGAAGTCGGAAAACTTCTGTTCTGTTAAATGTGTTTTGCTCATAGTGTGGTAGAATATCAGCTTACTATTGCTTTACGAAAGCGTATCCGGTGAAA > NC_000913/3965413‑3965683
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
