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 F55 I0 R1
|
217 |
81.2 |
3243344 |
95.0% |
3081176 |
126.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP006881 |
3,725,237 |
A→G |
100% |
intergenic (‑69/‑460) |
U712_19205 ← / → U712_19210 |
Uncharacterized protein ywcI/Minor extracellular protease vpr |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP006881 | 3,725,237 | 0 | A | G | 95.4%
| 69.5
/ ‑5.7
| 29 | intergenic (‑69/‑460) | U712_19205/U712_19210 | Uncharacterized protein ywcI/Minor extracellular protease vpr |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (22/4); minor base C (2/0); total (24/5) |
| 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. |
TTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑T‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTTTAG > CP006881/3725119‑3725363
|
ttCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCGTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACTGCCGAtt > 8:170490/1‑139 (MQ=255)
ttCATAAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGATTCATAGAAAAACATCCCACCCCGTCTATTTGGCAGGCAGC‑C‑TGTTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGcccagt > 8:400240/1‑135 (MQ=255)
tcatcaAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCTGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAttt > 7:160464/1‑139 (MQ=255)
aTCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCACC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCAAGCaaa > 7:380341/1‑138 (MQ=255)
aTCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCACGCAGC‑CAT‑TTTAGCACCCCGGTTTCTCAGCCGCAGCCCCCCAGAAAAGCCCGCCGCATTCTAATCTCGCaaa > 6:242390/1‑138 (MQ=255)
aaGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGAAGCCCGTTTTCTCAGCCGCAGCCCGCAACAAAAGACGGCCGATTTGTTTTCACGCAAACTAGCGGCTCTAg > 3:175736/1‑138 (MQ=255)
aGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCACCCCGTTTTCTCAGCCGCCCCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCa < 3:337730/139‑1 (MQ=255)
aTACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCCGCCCGTTTTCTCAGCCGCCGCCCGCCAGAAAAGACGGCCGCTTTCTTTTCTCGCAACCTAGCGGCGCTATCaa > 8:357591/1‑138 (MQ=255)
aTACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaa > 4:361695/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaaaa > 8:12548/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCaaaa > 1:277184/1‑138 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAAc > 3:288943/1‑139 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAAc > 8:342772/1‑139 (MQ=255)
aCAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTAGTTTTGGCAGGCAGC‑CAT‑TTTAGCAGCCCGGTTTATCAGCCGCAGCCCCCAAGAAAAGACGGCCGATGTATTTTATCGCAAAATAGCGCCACTAGCaaaa > 4:119252/1‑138 (MQ=255)
accAACCGTTTCATATAAAAACCTCCCTCCGTTTCTTTTTGGCAGCCCGC‑CTT‑TTTAGCCGCCCGTTTCCGCCGCCCCCCCCCTAAATAAAACACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCa < 8:29728/137‑1 (MQ=255)
ccAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCCGGCAGCTT‑T‑TTTAGCAGCCCGTTTTCTCCCCCGCAGCCCGCAACAAACGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCAt < 8:14399/138‑1 (MQ=255)
aaaCGTTTCATACAAAAACTCCCCTCCGCTTCTTTTTGGCAGGCAGCTT‑T‑TTTAGCAGCCCGTTTTCTCAGCGGCAGCCCGAAAGAAACCACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGa < 3:361695/139‑1 (MQ=255)
cATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCCGCCCGCAAGAAAAGACGGCCGATTTGATTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGGCACTaag > 3:275637/1‑136 (MQ=255)
cATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGa > 2:14886/1‑139 (MQ=255)
cGCTTCTTTTTGGCAGGCAGC‑CTT‑TTTAGCAGCCCGTTTTATCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCGCCAACTACCGGCTCGAGCAAAACAACAGACACTATGATAGCCCCGGGAAAGAGaa > 6:400038/1‑139 (MQ=255)
ggcagC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCAAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCATTGTCACAata > 1:285662/1‑139 (MQ=255)
gcagC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATTACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAatac > 7:323104/1‑138 (MQ=255)
gcagC‑CTT‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGAGTTCTTTTCTCGCAAACTAGAGGCTCTAGCAACACTCATGACTCGATTCTAGCCCGTGGAAAGCGAATTCTTTGTCACAatat > 6:102206/1‑139 (MQ=255)
t‑tttAGCAGCCCGTTTTCTCAGCCGCAGCCCGAAAGAAAATAAGTCCGAATTATTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGTAAAGAGAATTATTTGTAAAAAAATGATTGa > 2:62351/1‑138 (MQ=255)
cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATATACCGTGGAAAGAGAATTCTTTGTCACAATAAGAGTGAAAAAAACaa > 6:165106/1‑138 (MQ=255)
cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCaa > 3:375442/1‑138 (MQ=255)
cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAAc > 3:362589/1‑139 (MQ=255)
cccGTTTTCTCAGCCGCAGCCCGCAAGAAAAGACGGCCGATTTCTTTTATCGCAAACTAGCGGCTCTAGCAAAACTCATGACTGTATGTTAGACCGTCGAATGAGAATTGTTTGTCACAATATGAGTTAAAAAACCac > 6:294307/1‑137 (MQ=255)
cAGCCGCTGCCCGCAAGAAAGGACGTCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTTTAg < 8:42063/139‑1 (MQ=255)
|
TTCATCAAAAAGACCATCCACACCCGTAAAGATACAAGCAAACGTTTCATAGAAAAACATCCCTCCGCTTCTTTTTGGCAGGCAGC‑C‑T‑TTTAGCAGCCCGTTTTCTCAGCCGCAGCCCACGGGAAAAGACGGCCGATTTCTTTTCTCGCAAACTAGCGGCTCTAGCAAAACTCATGACTCTATGATAGACCGTGGAAAGAGAATTCTTTGTCACAATATGAGTGAAAAAACCAACTAGTTTTTAG > CP006881/3725119‑3725363
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
