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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
842,247 |
A→G |
27.9% |
P109P (CCA→CCG) |
rssB → |
response regulator of RpoS |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 842,247 | 0 | A | G | 27.9%
| 76.2
/ 31.0
| 75 | P109P (CCA→CCG) | rssB | response regulator of RpoS |
| Reads supporting (aligned to +/- strand): ref base A (28/26); new base G (2/19); total (30/45) |
| Fisher's exact test for biased strand distribution p-value = 6.45e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
GAAAATATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAGCATGTTTAA > minE/842185‑842309
|
gAAAATATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAg > 1:2603445/1‑64 (MQ=255)
gAAAATATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGt > 1:2764632/1‑65 (MQ=255)
gAAAATATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGt > 1:2681343/1‑65 (MQ=255)
gAAAATATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGt > 1:1300889/1‑65 (MQ=255)
gAAAATATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGt > 1:2434588/1‑65 (MQ=255)
gAAAATATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGt > 1:1373085/1‑65 (MQ=255)
gAAAATATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGt > 1:3280352/1‑65 (MQ=255)
gAAAATATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGt > 1:1943196/1‑65 (MQ=255)
gAAAATATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGt > 1:345369/1‑65 (MQ=255)
gAAAATATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGt > 1:582683/1‑65 (MQ=255)
aaTATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAg < 1:981020/67‑1 (MQ=255)
aaTATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAg < 1:3056463/67‑1 (MQ=255)
aaTATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAg < 1:2605483/67‑1 (MQ=255)
aaTATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAg < 1:2132268/67‑1 (MQ=255)
aaTATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAg < 1:349066/67‑1 (MQ=255)
aaTATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAg < 1:1582528/67‑1 (MQ=255)
tatGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:538269/69‑1 (MQ=255)
tatGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:301774/69‑1 (MQ=255)
tatGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:2810511/69‑1 (MQ=255)
tatGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:1094162/69‑1 (MQ=255)
tatGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:2734064/69‑1 (MQ=255)
tatGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:1011407/69‑1 (MQ=255)
tatGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:973122/69‑1 (MQ=255)
tatGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:3095635/69‑1 (MQ=255)
tatGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:2576148/69‑1 (MQ=255)
tatGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:3118346/69‑1 (MQ=255)
tatGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:1329933/69‑1 (MQ=255)
tatGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:2043232/69‑1 (MQ=255)
tatGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:3387651/69‑1 (MQ=255)
tatGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:3427965/69‑1 (MQ=255)
tatGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:1759341/69‑1 (MQ=255)
atGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:3280661/68‑1 (MQ=255)
atGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:1658326/68‑1 (MQ=255)
atGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:1576959/68‑1 (MQ=255)
atGGCAGATATTGCCAAAGCGTTACGTCTGGGTGTTGAAGATGTTTTGCTGAAACAGGTTAAAGATCt < 1:512019/68‑1 (MQ=255)
tatTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCtt > 1:1390638/1‑69 (MQ=255)
tatTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCtt > 1:1451356/1‑69 (MQ=255)
ccAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAg < 1:2859894/51‑1 (MQ=255)
aaaGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCga < 1:2185119/68‑1 (MQ=255)
aaaGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCga < 1:898052/68‑1 (MQ=255)
tCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTg < 1:2955552/68‑1 (MQ=255)
tCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTg < 1:2690678/68‑1 (MQ=255)
tCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTg < 1:690604/68‑1 (MQ=255)
tCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTg < 1:710652/68‑1 (MQ=255)
tCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTg < 1:3217295/68‑1 (MQ=255)
gATGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATccc > 1:1730674/1‑69 (MQ=255)
gATGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATccc > 1:1734533/1‑69 (MQ=255)
gATGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATccc > 1:1853037/1‑69 (MQ=255)
tGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGTGCTAGATGGTTTTTGCCTGTCTCTATCCCAg > 1:2750095/1‑69 (MQ=255)
tGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGtctc < 1:1044391/61‑1 (MQ=255)
tGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGtctc < 1:165524/61‑1 (MQ=255)
tGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAg < 1:2901585/69‑1 (MQ=255)
tGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAg > 1:966129/1‑69 (MQ=255)
tGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAg > 1:1254708/1‑69 (MQ=255)
tGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAg > 1:827847/1‑69 (MQ=255)
tGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAg < 1:1955829/69‑1 (MQ=255)
tGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAg < 1:1833094/69‑1 (MQ=255)
tGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAg < 1:391266/69‑1 (MQ=255)
tGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAg < 1:1693874/69‑1 (MQ=255)
tGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCACAg < 1:1485652/69‑1 (MQ=255)
tGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCACGAGATGGTTTTTGCCTGTCTCTATCCCAg < 1:3432003/69‑1 (MQ=255)
gTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGtt < 1:225736/48‑1 (MQ=255)
gTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGtt < 1:131603/48‑1 (MQ=255)
gTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAGc > 1:463796/1‑69 (MQ=255)
gTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAGc > 1:453733/1‑69 (MQ=255)
gTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAGc > 1:2881308/1‑69 (MQ=255)
gTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAGc > 1:2589226/1‑69 (MQ=255)
gTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAGc > 1:701274/1‑69 (MQ=255)
gTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAGc > 1:2207180/1‑69 (MQ=255)
gTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAGc > 1:1186764/1‑69 (MQ=255)
gTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAGc > 1:3134436/1‑69 (MQ=255)
ttGCTGAAACCGGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAGCATg > 1:2564578/1‑69 (MQ=255)
ttGCTGAAACCGGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAGCATg > 1:2065715/1‑69 (MQ=255)
ttGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAGCATg > 1:304426/1‑69 (MQ=255)
gAAACCAGTTAAAGATCCGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAGCATGTTTaa < 1:3363705/69‑1 (MQ=255)
|
GAAAATATGGCAGATATTGCCAAAGCGTTACGTCTGGGCGTTGAAGATGTTTTGCTGAAACCAGTTAAAGATCTGAATCGCTTGCGCGAGATGGTTTTTGCCTGTCTCTATCCCAGCATGTTTAA > minE/842185‑842309
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
