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 F104 I0 R1
|
40 |
45.6 |
1767846 |
90.1% |
1592829 |
142.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
710,436 |
G→A |
100% |
H71Y (CAC→TAC) |
fur ← |
DNA‑binding transcriptional dual regulator Fur |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 710,436 | 0 | G | A | 98.6%
| 92.7
/ ‑6.6
| 35 | H71Y (CAC→TAC) | fur | DNA‑binding transcriptional dual regulator Fur |
| Reads supporting (aligned to +/- strand): ref base G (1/2); new base A (13/19); total (14/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| 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. |
TTTGCGGCAATTTCACGCTGACGCGCTTCGATGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTGGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAA > NC_000913/710297‑710573
|
tttGCGGCAACTTCACGCTGACGCGCTTCGATGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGTAGATCAGGTGATCGTGGTGATGTTGCTGTGCCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCg < 1:668645/143‑1 (MQ=255)
ggCAATTTCACGCTGACGCGCTTCGATGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCCGCTGCGGCGATCCTGGGGATCTTGCTGCGTCAGTTCAAATACGGATTTACCCCCTACACAATTGTGGCGGGGGa > 2:714304/1‑143 (MQ=255)
gCAATTTCACGCTGACGCGCTTCGATGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGAc > 1:452846/1‑143 (MQ=255)
aTTTCACGCTGACGCGCTTCGATGGAATCATCACTAGAGTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATATTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGAt < 2:771997/143‑1 (MQ=255)
tttCACGCTGACGCGCTTCGATGGAATCATCACTAAATTCGAGAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATa < 1:37555/143‑1 (MQ=255)
ttCACGCGGACGCGCTTCGATGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATAc < 1:778878/143‑1 (MQ=255)
gcgcTTCGATGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGAGAGGTTGCTGGGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCa > 2:715831/1‑143 (MQ=255)
aTGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGtt < 2:507200/143‑1 (MQ=255)
aTGGAATCATCACGAAATTCGACAACCTCGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGtt < 1:304183/143‑1 (MQ=255)
ggAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATGTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCa < 1:665355/143‑1 (MQ=255)
cTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGata < 1:198756/143‑1 (MQ=255)
ccgtGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAATTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGa < 2:232192/140‑1 (MQ=255)
cTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCACCTTCAAAATTGTAGAGGGTGACGATACCAGCGTCGTAAAACTGGTTAAAACCGCGATATGACGTaagcaaac > 2:3350/1‑136 (MQ=255)
ccGCAGTCGAGGCAGATCAGGTGCTCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAAt < 1:749620/143‑1 (MQ=255)
ctgTCGAGCTAGATCATGTGATCGTGGTGATGTTGCTGTGTCTGTTCAACTCAGGCTTTCCCGTCCAGCAAATTGTAGCGGGTGACGATACCAGCGTCGTCACACTCGTACAGTACGCGATATACCGTAGCCAGACCAATttc < 2:668717/141‑1 (MQ=255)
gTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATttctt > 1:424563/1‑143 (MQ=255)
tCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCGCATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGGTATACCGTCGCCAGGCCAATttcttc > 1:798157/1‑143 (MQ=255)
tCGAGCCAGATCAGGTGCTCGTGGTGATGTTGCTGTGTGCGTTCAAATACGGATTTACCGCCTTTAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATttcttc < 1:495454/143‑1 (MQ=255)
ggCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCAccc > 2:110766/1‑143 (MQ=255)
tCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATGGATCAGACg > 1:389706/1‑143 (MQ=255)
tggtgATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGttt < 1:866500/143‑1 (MQ=255)
cTGTGTCAGTTCAAATACGGATTTACCGCCTTGAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCtt < 2:25513/143‑1 (MQ=255)
tgtgTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTc > 1:375298/1‑143 (MQ=255)
tCAGTTCAAAGACGGATTTACCGCCTTCAAAATTGTGGCGGGAGACCATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCa < 2:387299/143‑1 (MQ=255)
ttCAAAGACGGATTTGCCGCCTTCAAAATTGTAGCGGGTGACGTTCCCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGa < 1:254006/143‑1 (MQ=255)
tCAAATACGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGAc > 1:558738/1‑143 (MQ=255)
aCGGATTTACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATg < 1:715831/143‑1 (MQ=255)
aCGGAGTCAGCGCCTTCAAAAGTGTGGGGGGTGACGATACCAGCGTCGTCAACCTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATg < 2:258738/143‑1 (MQ=255)
tACCGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATAGACAGTAGACAGACCAATTTCTTCACCCATATCGATCAGCCGTTTGTATAAATCATACGGACAGACGTGAAAGTTGTcg > 2:808427/1‑142 (MQ=255)
tACCGCCTTCAAAAGTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGGAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTcc < 1:821690/143‑1 (MQ=255)
tACCGCCTACAAAAGTGTAGCGGGTGACGATACCAGCGGCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTcc < 1:491627/143‑1 (MQ=255)
ccGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGAACGCGATATACCGTAGACAGACCACGTTCTGCACCCATATCGATCAGACGTTTGTATCAATCTTCCGCACTTACTTGAGTGTTGTCCgc > 1:504625/1‑142 (MQ=255)
cGCCTTCAAAATTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGc > 1:319350/1‑143 (MQ=255)
cactgtgGCGGGGTACCACACCAGCGGCGTCAAACTCGTTCAGTACGCGATATACCGTACCCCGACCAATTTCTGCACCCATATCGATCAGACGTTTGTATAAATCTCCCGCACTGACGTGATGGTTGTCCGTCTCCTgaaga < 2:432004/140‑1 (MQ=255)
aaTTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCCGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTgacga > 1:223877/1‑143 (MQ=255)
aTTGTAGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTgaagaa < 1:476125/143‑1 (MQ=255)
|
TTTGCGGCAATTTCACGCTGACGCGCTTCGATGGAATCATCACTAAATTCGATAACCTTGCCGCAGTCGAGGCAGATCAGGTGATCGTGGTGATGTTGCTGTGTCAGTTCAAATACGGATTTACCGCCTTCAAAATTGTGGCGGGTGACGATACCAGCGTCGTCAAACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAA > NC_000913/710297‑710573
|
| 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
