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 F148 I1 R1
|
14 |
45.7 |
1660340 |
90.3% |
1499287 |
142.2 |
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 | . | 97.8%
| 192.0
/ ‑1.7
| 47 | 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 . (30/15); minor base G (0/1); total (31/16) |
| Fisher's exact test for biased strand distribution p-value = 3.48e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAAACAACTGTCGGATCGTAAACCTGCGGATTGCGTC > NC_000913/3951393‑3951667
|
cGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTaa > 1:691383/1‑143 (MQ=255)
ggCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGAGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTaat > 1:712217/1‑142 (MQ=255)
tGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGAc > 1:698944/1‑143 (MQ=255)
acacCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTgg > 1:526177/1‑143 (MQ=255)
acCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGgca > 1:28412/1‑143 (MQ=255)
ttCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGCCAGCAATGAACAAGATGCGTCAGGCACATGTGGCATTACAAGGTGATCTAAATGCTCTGTTACCAGCATTACAGCAGCCGCT‑AATCAAAGACTGgcatca > 2:305205/1‑143 (MQ=255)
gcgcgCCCCATGCCAGTGACAGCCACATGGCTATCGCCCCGGCAGAAATGAACAAGCCGCGTCAGGCACACGCGGCAGTACAAGGTGATTTACATGCTCTGTTGCCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCaa < 1:432580/142‑1 (MQ=255)
gcCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCCATGACTGGCAGCAACACt > 1:277160/1‑143 (MQ=255)
acacGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACCTGTGGCATTACAAGGTGCTTTAAATGCTCTGTTCCCAGCATTACAGCCGCCGTT‑ACTCAATGCCTCGCCACAacaccccg > 1:251371/1‑139 (MQ=255)
cacGCGAGTGTTATCCATATGGAGATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGGTTTAAATGCTCTGTTACCAGCAGTACAGCAGCCGTT‑AATCAATGACTGGTTGCAAGACTgcgc < 2:729634/143‑1 (MQ=255)
cAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGc > 1:648842/1‑143 (MQ=255)
gtgtTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTCAAATGCTCTGTTACCAGCCTTACAGCAGCC‑CTCAATCAATGACTGGCAGCAACCCGGCGCGCAGcac > 2:738053/1‑141 (MQ=255)
ttATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGCGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTAGCAGCAACACTGCGCGCAGCTGCgg > 2:332381/1‑142 (MQ=255)
aTCCATATGGATATCGACCCGGCAGAAATGAACCAGCTGCGTCAGGCACATGTGGCGTTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACCGCGCCCAGCCGCGtga > 2:374591/1‑143 (MQ=255)
acatGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGaa < 1:10005/141‑1 (MQ=255)
agACCCGGCAGAAATAAACAAACTGCGCCAGGCACACGTGGCATTACAAGGGGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑CATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGc < 2:589896/142‑1 (MQ=255)
aTGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCGGTT‑AATCAATGACTGGCAGCCACACTGCGCGCAGCTGCGTGATGAACATGCCTGGGGTGACGACCAtgc > 2:39582/1‑141 (MQ=255)
aTGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTCGCGACCATcc > 2:425760/1‑143 (MQ=255)
tGAACAAGCTGTGTCAGCGACATTTGTCATTACATGGTGATTTGAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCTTGATGATCATTCCTGGCGTTACGACCATccc < 2:483191/143‑1 (MQ=255)
gcatccggCGGCAGGCACATGTGGAATGAAGAGGTGATTGAAATGCTCTGTTACCAGCATTACAGCAGCCG‑TGAATCAATGACTGGCAGCAACACTGCGCGCAGCGGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGt < 2:729822/136‑1 (MQ=255)
gcggCGTCAGGCACAGGGGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACg < 1:322474/140‑1 (MQ=255)
gTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTCCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATc > 2:69354/1‑143 (MQ=255)
tCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCCGCCGTT‑AATCAATGACTGGCAGCGACACTGCGCGCAGCTGCGTGATGAACATTCCTGGGGTTACGACCATCCCGGTGACGCCATCt > 2:208036/1‑143 (MQ=255)
tCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGCGACGCTATCt > 1:715232/1‑143 (MQ=255)
aGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTAc > 2:162796/1‑143 (MQ=255)
gCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTAcgc > 2:553304/1‑143 (MQ=255)
acaTGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTTCGTCCATCCCGGTGACGCTATCTACgcgc > 1:349448/1‑143 (MQ=255)
acaTGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACgcgc > 2:163657/1‑143 (MQ=255)
acaTGTGGCATTACAAGGTGATTTAAATGCTCTCTTACAAGAATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTCTCTACgcgc > 1:568217/1‑143 (MQ=255)
tgGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCgttg > 1:705930/1‑143 (MQ=255)
gCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGAACGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCAgttgtt > 1:541064/1‑143 (MQ=255)
cATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAGCATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCgttgttg < 1:291765/143‑1 (MQ=255)
aTTACAAGGTGATTTAAATGCGTTGTTACCAGCTTTACAGCATCTATT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCGGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCgttgttgt < 1:465793/143‑1 (MQ=255)
ttACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCgttgttgtt > 2:622324/1‑143 (MQ=255)
ggTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAaaca > 1:549385/1‑143 (MQ=255)
gTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAaacaa > 1:554498/1‑143 (MQ=255)
aTTTAAATGCTCTGTTACCAGCATGACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCCATCTACGCGCCGTTGTTGTTAAAACAACTg > 1:524516/1‑143 (MQ=255)
acaTGCCCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAAACAACTGTCgg < 1:55888/141‑1 (MQ=255)
aaaTGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGGTACGACCATCCCGGTGACGCTATCTAGGCGCCGTTGTGGTTAAAACAACGGTCgg > 1:4722/1‑143 (MQ=255)
aaTGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAACCAACTGTCGGa > 2:516396/1‑143 (MQ=255)
tGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCGATGACTGGCCGCAACCCTGCGCGCAACTGCGTGATGGACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGCTGTTGTTAAAACAAATGGCGGagc > 2:321550/1‑141 (MQ=255)
tGCTCTGTTACCAGCATTACAGCAGCCGTT‑AATCAGTGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAGCATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAAACAACTGTCGGATc < 2:588812/143‑1 (MQ=255)
ccAGCATTACAGCAGCCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAAACAACTGTCGGAGCGTCAACGTGc > 2:424900/1‑143 (MQ=255)
cagcagACGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAAACAACTGTCGGATCGTAAACCTGCGGATTGcgt < 2:470341/143‑1 (MQ=255)
ggccgcCGTT‑AATCAATGACTGGCGGCAACTCTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGACTTTGTTGTTAAAACAACTGTCGGATCGTAAACCTGCGGATTGcgtc < 2:452770/139‑1 (MQ=255)
agcagcCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAAACAACTGTCGGATCGTAAACCTGCGGATTGcgtc < 1:162796/143‑1 (MQ=255)
agcagcCGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAAACAACTGTCGGATCGTAAACCTGCGGATTGcgtc < 1:98709/143‑1 (MQ=255)
ccGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGtga > 2:726120/1‑44 (MQ=255)
ccGTT‑AATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGtga < 1:726120/44‑1 (MQ=255)
|
CGGCAAACTGAACACCTTCGCGCCACACGCCAGTGTTATCCATATGGATATCGACCCGGCAGAAATGAACAAGCTGCGTCAGGCACATGTGGCATTACAAGGTGATTTAAATGCTCTGTTACCAGCATTACAGCAGCCGTTAAATCAATGACTGGCAGCAACACTGCGCGCAGCTGCGTGATGAACATTCCTGGCGTTACGACCATCCCGGTGACGCTATCTACGCGCCGTTGTTGTTAAAACAACTGTCGGATCGTAAACCTGCGGATTGCGTC > NC_000913/3951393‑3951667
|
| 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
