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 |
|
A26 F1 I1 R1
|
14 |
45.0 |
2861610 |
96.8% |
2770038 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
1,886,183 |
A→G |
intergenic (‑13/+656) |
yobF ← / ← yebO |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 1,886,183 | 0 | A | G | 92.2%
| 178.9
/ 1.6
| 51 | intergenic (‑13/+656) | yobF/yebO | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (2/2); new base G (26/21); total (28/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
GAAGCGGTATTCAACGTCAACGTGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGAT > REL606/1886111‑1886255
|
gaAGCGGTATTCAACGTCAACGTGTTTAGTCAGGCCAACTTTACTGANAATGCCACACATAAACAGAACTGTGCCt > 1:123291/1‑76 (MQ=255)
aaGCGGTATTCAACGTCAACGTGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTc > 2:1417537/1‑76 (MQ=255)
aaGCGGTATTCAACGTCAACGTGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTc > 2:1417546/1‑76 (MQ=255)
aGCGGTATTCAACGTCAACGTGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTCg < 2:263437/76‑1 (MQ=255)
ggTATTCAACGTCAACGTGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGttt < 2:10015/76‑1 (MQ=255)
gTATTCAANGGCAACGTGTNTACTCAGGACTTCTTTACTGAANATGCCACACATAAACAGAACTGTGCCTCGTTTa < 2:1194531/76‑1 (MQ=255)
caacgtcaatgtGTTTACTCAGGNCTTCTNTACTGAAAATGCCANACTTAAACAGAACTGTACCTCGTTTAACCCg > 2:187244/1‑76 (MQ=255)
aacgtcaacgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGa < 2:70384/76‑1 (MQ=255)
aacgtcaacgtGTTTACTCAGGACTTCTTTACNGACAATGCNACACATAAACAGAACTGTGNCTCGTTTAACCCGa > 2:1178759/1‑76 (MQ=255)
cgtcaacgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGaaa > 2:5767/1‑76 (MQ=255)
gtcaacgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAAt < 2:90447/76‑1 (MQ=255)
tcaacgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATc < 2:510075/76‑1 (MQ=255)
aacgtGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTg > 2:260550/1‑76 (MQ=255)
tgtTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTAt < 2:590654/76‑1 (MQ=255)
tgtTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTAt < 1:834707/76‑1 (MQ=255)
gtTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATc > 1:1119214/1‑76 (MQ=255)
tttACTCAGGACTTCTTTGCTGAAAATGCCACACATAAACAGAANTGNGCCTCGTTTAACCCNAAATCTGTTATca > 2:1277834/1‑76 (MQ=255)
tttACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAANTGNGCCTCGTTTAACCCNAAATCTGTTATca > 2:1277829/1‑76 (MQ=255)
tttACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATca > 2:138837/1‑76 (MQ=255)
tttACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATca < 2:123291/76‑1 (MQ=255)
ttACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATcac > 2:471672/1‑76 (MQ=255)
aCTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACAt < 1:159704/76‑1 (MQ=255)
cTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTTTGCCTCGTTTAACCCGAAATCTGTTATCACATa < 1:1085268/76‑1 (MQ=255)
cTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATa > 1:1301764/1‑76 (MQ=255)
cAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACa < 1:569026/76‑1 (MQ=255)
gACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACg > 1:327855/1‑76 (MQ=255)
ttcttTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTa < 2:839830/76‑1 (MQ=255)
tcttTACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTaa > 2:706174/1‑76 (MQ=255)
tcttTACTG‑AAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAAt < 1:1107243/76‑1 (MQ=255)
tttACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAAtt > 1:723465/1‑76 (MQ=255)
tACTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTAt > 2:78934/1‑76 (MQ=255)
aCTGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATg > 1:770327/1‑76 (MQ=255)
tGAAAATGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGc < 1:1021397/76‑1 (MQ=255)
gAAAATGCCACACATAAACAGAACTGAACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCa < 1:946141/76‑1 (MQ=255)
aaaaTGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCaa > 1:304980/1‑76 (MQ=255)
aaaTGCCACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAg > 2:785668/1‑76 (MQ=255)
aaTGCCACACGTACACNGCACTGTGCCTCGCTNAACCCGACATCTGTTATCACATACAACGTTAANTATGGCNANc > 1:106120/1‑76 (MQ=255)
tccACACATAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCAt > 2:837552/2‑76 (MQ=255)
cacacaTAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCAttt < 1:1265775/76‑1 (MQ=255)
acacaTAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCAtttt > 1:979041/1‑76 (MQ=255)
caTAAACAGAACTNTGCCTCGTTTAACCCGAAATCTGTTATCACAGACAACGTTAATTATGGCAAGCCATTTTTaa < 2:1295936/76‑1 (MQ=255)
caTAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTaa < 2:342589/76‑1 (MQ=255)
tAAACAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAAc > 2:887804/1‑76 (MQ=255)
aaaCAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACa > 2:779754/1‑76 (MQ=255)
aaCAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACAt > 2:505227/1‑76 (MQ=255)
cAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGt > 2:549125/1‑76 (MQ=255)
cAGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGt < 1:870637/76‑1 (MQ=255)
aGAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGtc < 2:407589/76‑1 (MQ=255)
gAACTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGtct < 2:723465/76‑1 (MQ=255)
aCTGTGCCTAGTTTAACCCGAAANCTGTTNTCACACACAACGTTNATAATGACAAGCCATTATTAAACATGTCTCg > 2:184097/1‑76 (MQ=255)
cTGTGCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGa < 2:420297/76‑1 (MQ=255)
tgtgCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGAt > 1:1033920/1‑76 (MQ=255)
|
GAAGCGGTATTCAACGTCAACGTGTTTACTCAGGACTTCTTTACTGAAAATGCCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGAT > REL606/1886111‑1886255
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
