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 |
|
A15 F116 I0 R1
|
44 |
26.4 |
562224 |
96.5% |
542546 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
1,834,119 |
G→T |
67.9% |
intergenic (+68/‑46) |
USA300HOU_1710 → / → USA300HOU_1711 |
hypothetical protein/class V aminotransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 1,834,119 | 0 | G | T | 67.9%
| 17.1
/ 19.5
| 25 | intergenic (+68/‑46) | USA300HOU_1710/USA300HOU_1711 | hypothetical protein/class V aminotransferase |
| Reads supporting (aligned to +/- strand): ref base G (4/4); new base T (10/7); total (14/11) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.80e-01 |
ATTTCAAATGCTGTAAGAAATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCAGAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTATCATCAACCGTTGT‑TATTAACACCTGGCCCAACCCCTGTACCTGATGCCATTATGAGAGAAATTCAAGCACCTATGGTTG > CP000730/1833989‑1834252
|
aTTTCAAAGCCTGTAAGAAATAATGGGTCAATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCTACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCATAAAATTTGCt < 2:126341/141‑1 (MQ=255)
cTGTAAGAAATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTAGAGCAGATAGCATTATCACTTTTTTAGGCTTTTAAATTTTCATAAAATTTGCTAAAATAGTGa > 1:64747/1‑141 (MQ=255)
aGAAATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCATAAAATTTGCTAAAATAGTGAAATCt > 1:117871/1‑141 (MQ=255)
aTAAAACTCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCATAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCa < 1:237582/141‑1 (MQ=255)
aTAAAAATCTATCCCATCATTCAGGCCAAATAAAGTCGTAAAGTGAAGACGTTTGTTAGACAATAAAGCGTTATCACTTTTTTAGGCATTTAAATTTTTATAAAATAGGATGAAATAGTTAAATATTATTTCTTGGAGACa > 2:87068/1‑141 (MQ=255)
aaaTCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCAGAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCAtata < 2:250654/141‑1 (MQ=255)
ccccATCCTTCAGGCCAAATAAAATCGTTAAGGCATAACGTTTGTTCGACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATCATCATAAAATTTGTTTGCTTGGGGAAATCTTATTTATAGGAGGCATATAAATGtat < 1:134478/140‑1 (MQ=255)
ccATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCAGAAAATTTGCTAAAATAGTGAAATCTTATTTATATGAGGCATATAAATGtatta > 2:197960/1‑141 (MQ=255)
catTCAGGGCCAATAAAATTGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCAGAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTatcat < 2:121351/141‑1 (MQ=255)
catTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCAGAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTatcat < 1:279914/141‑1 (MQ=255)
aGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCATAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTATCATCAAcc > 1:224109/1‑141 (MQ=255)
cGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCATAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTATCATCAACCGTTGT‑TATTAacac > 1:267053/1‑141 (MQ=255)
cGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCATAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTATCATCAACCGTTGT‑TATTAacac > 1:55558/1‑141 (MQ=255)
tCGACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCATAAAATTTGCTAAAATAGTGAGATCTTATTTATAGGAGGCATATAAGTGTATTATCATCAACGGGTGT‑TATTAACACCTGGCCCAACCCCTGGACCt > 1:17345/1‑141 (MQ=255)
tCGACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCATAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGCGGCATATAAATGTATTATCATCAACCGTTGT‑TATTAACACCTGGCCCAACCCCTGTACCt > 1:17332/1‑141 (MQ=255)
tCGACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCAGAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTATCATCAACCGTTGT‑TATTAACACCTGGCCCAACCCCTGTACCt > 2:219877/1‑141 (MQ=255)
aCAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCAGAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTATCATCAACCGTTGT‑TATTAACACCTGGCCCAACCCCTGTACCTGAt < 1:244459/141‑1 (MQ=255)
tATCACTTTTTTAGGCTTTTAAATTTTCATAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTATCATCAACCGTTGT‑TATTAACACCTGGCCCAACCCCTGTACCTGATGCCATTATgaga < 2:64747/141‑1 (MQ=255)
tCACTTTTTTAGGCTTTTAAATTTTCATAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTATCATCAACCGTTGT‑TATTAACACCTGGCCCAACCCCTGTCCCTGATGCCATTATgagaga < 2:116162/141‑1 (MQ=255)
ttttttAGGCTTTTAAATTTTCATAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTATCATCAACCGTTGT‑TATTAACACCTGGCCCAACCCCTGTACCTGATGACATTATGAGAGAAAtt > 1:174518/1‑141 (MQ=255)
tttttAGGCTTTTAAATTTTCAGAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTATCATCAACCGTTGT‑TATTAACACCTGGCCCAACCCCTGTACCTGATGCCATTATGAGAGAAATTc > 1:18239/1‑141 (MQ=255)
tttttAGGCTTTTAAATTTTCAGAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTATCATCAACCGTTGT‑TATTAACACCTGGCCCAACCCCTGTACCTGATGCCATTATGAGAGAAATTc > 1:10436/1‑141 (MQ=255)
ttttAGGCTTCTAAATTTTCATAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTATCAT‑AACCTGCGTGTATTAACACCTGGCCCAACCCCTGTACCTGATGCCATTATGAGAGAAATTCa > 1:203379/1‑141 (MQ=255)
gCTTTTAAATTTTCATAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTATCATCAACCGTTGT‑TATTAACACCTGGCCCAACCCCTGTACCTGATGCCATTATGAGAGAAATTCAAGCAcc < 2:13313/141‑1 (MQ=255)
aTTTTCATAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTATCATCAACCGTTGT‑TATTAACACCTGGCCCAACCCCTGTACCTGATGCCATTATGAGAGAAATTCAAGCACCTAtggttg < 2:267053/141‑1 (MQ=255)
|
ATTTCAAATGCTGTAAGAAATAATGTGGACATAAAAATCTATCCCATCATTCAGGCCAAATAAAATCGTTAAGTGATAACGTTTGTTCGACAATATAGCGTTATCACTTTTTTAGGCTTTTAAATTTTCAGAAAATTTGCTAAAATAGTGAAATCTTATTTATAGGAGGCATATAAATGTATTATCATCAACCGTTGT‑TATTAACACCTGGCCCAACCCCTGTACCTGATGCCATTATGAGAGAAATTCAAGCACCTATGGTTG > CP000730/1833989‑1834252
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
