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 |
|
A23 F184 I2 R1
|
13 |
42.0 |
1528396 |
89.7% |
1370971 |
142.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,951,536 |
Δ1 bp |
pseudogene (977/984 nt) |
ilvG → |
pseudogene, acetolactate synthase 2 large subunit, valine‑insensitive; acetolactate synthase II, large subunit, cryptic, interrupted |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,951,534 | 0 | A | . | 97.6%
| 177.9
/ ‑1.6
| 43 | pseudogene (975/984 nt) | ilvG | pseudogene, acetolactate synthase 2 large subunit, valine‑insensitive; acetolactate synthase II, large subunit, cryptic, interrupted |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base . (17/24); minor base G (0/1); total (18/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
CGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAAACAACTGTCGGATCGTAAACCTGCGGATTG > NC_000913/3951393‑3951663
|
cGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACGAGCTGCGTCCGGCACATGTGGCAGTAGAAGGTGATTTAAACGCCCTGTTACCAGCATTCAAGCAGCCGTCaa > 2:146048/1‑143 (MQ=255)
ggCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTTGTTTAGGTGCTCTGTCACCAGCGTCACAGCAGCCGTTaat > 1:281322/1‑142 (MQ=255)
gCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTaatc > 1:548131/1‑141 (MQ=255)
cTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑CATCAATGa < 1:599195/143‑1 (MQ=255)
cTGAACACCTTCGCGACACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGa < 1:500603/143‑1 (MQ=255)
cacCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGgc < 1:569735/143‑1 (MQ=255)
acgtgcgcgCCAGACGCCAGTGTTCTCCAGATGGAGATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGgca < 2:727383/138‑1 (MQ=255)
ccTTCGCGCCACACGCCAGTATTATCCATATGGTTATCGACTCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑GATCAATAACTGgcgg > 1:598576/1‑141 (MQ=255)
cTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGgcagc > 1:209941/1‑143 (MQ=255)
ccgcgCCACCCGCCAGTGTGATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCaa < 1:644498/142‑1 (MQ=255)
cacaCGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCAGCGTCAGGCACATGTGGCATCACAAGGGGATTTAAATGCTCTGTTACCAGCATTACACCAGCCGTT‑AAGCAATGACTGGCAGCAACACGgc > 2:516106/1‑143 (MQ=255)
acGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTgcgcg > 1:687279/1‑143 (MQ=255)
tgtTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGc < 1:659247/143‑1 (MQ=255)
tgtTATCACTGTGGATATCGAGCCGGCAGAAATGAACAAGCGGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGc < 2:195244/143‑1 (MQ=255)
tgtTAGCCATATGGAGATCGACCTGGCACAAATGAACAAGCGCCGTCAGGCACATGTGGCATTACAAGATGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGc < 2:611318/143‑1 (MQ=255)
aTCCATAGGTATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGtga < 1:469344/143‑1 (MQ=255)
atatGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACCGCACCCGCT‑ACTCAAGGACTGGCAGCACCACTGCCCGCAGCTGCGTGATGaa > 2:576412/1‑143 (MQ=255)
atatGGATATCGACCCGGCAGAAACGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGaa < 1:663571/143‑1 (MQ=255)
atGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACa < 2:687279/143‑1 (MQ=255)
gATAGCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTCGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTc < 2:209344/143‑1 (MQ=255)
cGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACCAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTAc < 1:537823/143‑1 (MQ=255)
gaggcaaTGAACAAGCTGCGTCAGGCACATGTGGCATTACCAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGa < 2:238978/138‑1 (MQ=255)
aGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCACCACTGCGCGCAGCTGCATGATGAACATTCCTGGCGTTACGAcc > 2:143319/1‑143 (MQ=255)
gagcAAGCTGCGTCAGGTACATGTGGCATTAGAAGGTGATTTAAATGCTCTGGTACCAACATGATAGC‑GTTGGGCAATCAATGACTGCCACCAACACTGCGCGCAGCTGCGTCACTAACCTCGGCAGCGTAACGACCATCCCg > 2:191213/4‑143 (MQ=255)
gAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCg > 1:741952/1‑143 (MQ=255)
aaCAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCgg < 1:464761/143‑1 (MQ=255)
aaGCTGCGGCAGGGTCCTGTGCGATCACGAGGTGATTTAAATGCTCTGGTACCAGCAGTACAGCAGCCG‑TGAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGa < 2:519294/143‑1 (MQ=255)
gTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACCGCGCGCAGCGGCGTGATGACCATTCCTGGCGTTACGACCATCCCGGTGACGCTATc > 2:159428/1‑143 (MQ=255)
aTTAAAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCgttgttgt < 2:31449/143‑1 (MQ=255)
ttACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCgttgtt < 2:431244/140‑1 (MQ=255)
ttACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCgttgtt > 1:431244/1‑140 (MQ=255)
agacggTGATTTAAATGCTCTGTTACCAGCATGACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTaa < 1:575672/139‑1 (MQ=255)
cAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTaaa > 1:70105/1‑143 (MQ=255)
ggTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAgaca > 1:333684/1‑143 (MQ=255)
tGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAaacaac > 2:59303/1‑143 (MQ=255)
tttAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGAGGCTATCTACGCGCCGTTGTTGTTAAAACAACTGt < 1:562402/143‑1 (MQ=255)
tgtAAATGCTCTGTGACCAGCACTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGCTGAACATTCCTCGCGTTACGAACATCCCGGTGCCGCTATCTACGCGCCGTTGTTGTTAAaacaaccaa < 1:686113/141‑4 (MQ=255)
ttAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGGTAAAACAACTGTc > 1:148318/1‑143 (MQ=255)
ttAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGAAGCTGCGTGATGAACATTCCTGGCGGTACGACTATCCCGGTGACGCTAGCTACGCGCCGTTGTTGGTAAAACAACTGTc > 1:147587/1‑143 (MQ=255)
aTGCTCTGTTACCAGCATCACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCCGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAAACAACTGTCGGAt < 1:670637/143‑1 (MQ=255)
gCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAAACAACTGTCGGATCg > 1:495558/1‑143 (MQ=255)
tctGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTATTCTTTTGATAACGCTCGGATCGtg > 2:566430/1‑142 (MQ=255)
ggTTACCAGCATTACAGCAGCCGTT‑AATCAATGCCTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAAACAACTGTCGGATCGTaaa < 1:435558/142‑1 (MQ=255)
gTTACCAGCATTAAAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCCGCTTCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAAACAACTGTCGGATCGTAAAc < 1:431821/143‑1 (MQ=255)
aCCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACGGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAAACAACTGTCGGATCGTAGACCTg < 2:12302/143‑1 (MQ=255)
ttACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGGTGTTGACACCACTCTCGGCTCGTAACCATGCggctca > 2:144466/1‑139 (MQ=255)
|
CGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAAACAACTGTCGGATCGTAAACCTGCGGATTG > NC_000913/3951393‑3951663
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
