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 |
|
A1 F3 I0 R2
|
260 |
44.3 |
3360226 |
90.5% |
3041004 |
64.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
399,522 |
T→A |
25.7% |
D209V (GAT→GTT) |
ddlA ← |
D‑alanine‑D‑alanine ligase A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 399,522 | 0 | T | A | 25.7%
| 121.7
/ 44.0
| 66 | D209V (GAT→GTT) | ddlA | D‑alanine‑D‑alanine ligase A |
| Reads supporting (aligned to +/- strand): ref base T (33/16); new base A (11/6); total (44/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-01 |
CTCACGACCTTTGATCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGCCCTGATTAGC > W3110S.gb/399464‑399589
|
ctcACGACCTTTGATCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGCCGGCAATTg > 1:682670/1‑71 (MQ=255)
ctcACGACCTTTGATCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTg > 1:376563/1‑71 (MQ=255)
ctcACGACCTTTGATCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTg > 1:2910517/1‑71 (MQ=255)
cGACCTTTGATCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTa < 1:3129575/71‑1 (MQ=255)
cGACCTTTGATCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTa < 1:1095637/71‑1 (MQ=255)
cGACCTTTGATCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTa < 1:3102114/71‑1 (MQ=255)
cGACCTTTGATCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTa < 1:2138847/71‑1 (MQ=255)
cGACCTTTGATCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTa < 1:2921525/71‑1 (MQ=255)
aCCTTTGATCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCaa > 1:1438317/1‑62 (MQ=255)
aCCTTTGATCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACt > 1:1365547/1‑71 (MQ=255)
aCCTTTGATCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACt > 1:436447/1‑71 (MQ=255)
aCCTTTGATCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACt > 1:27948/1‑71 (MQ=255)
aTCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGttctt < 1:1664043/70‑1 (MQ=255)
aTCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGttctt < 1:1649021/70‑1 (MQ=255)
aTCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGttctt < 1:2234671/70‑1 (MQ=255)
aTCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGttctt < 1:3166801/70‑1 (MQ=255)
aTCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGttctt < 1:2387059/70‑1 (MQ=255)
aTCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGttctt < 1:1583832/70‑1 (MQ=255)
ccTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACt > 1:1603504/1‑71 (MQ=255)
ccTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACt > 1:2375584/1‑71 (MQ=255)
ccTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACt > 1:2809415/1‑71 (MQ=255)
ccTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACt > 1:2198369/1‑71 (MQ=255)
aTCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGc > 1:2058307/1‑70 (MQ=255)
aTCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCt > 1:1537025/1‑71 (MQ=255)
aTCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCt > 1:309908/1‑71 (MQ=255)
aTCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCt > 1:1926837/1‑71 (MQ=255)
aTCACTTTATGATCGAACTCGAACGCCAGAACGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCt < 1:599618/71‑1 (MQ=255)
aTCACTTTATGATCGAACTCGAACGCCAGAACGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCt < 1:838909/71‑1 (MQ=255)
aTCACTTTATGATCGAACTCGAACGCCAGAACGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCt < 1:2064708/71‑1 (MQ=255)
aTCACTTTATGATCGAACTCGAACGCCAGAACGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCt < 1:113838/71‑1 (MQ=255)
aTCACTTTATGATCGAACTCGAACGCCAGAACGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCt < 1:1760438/71‑1 (MQ=255)
cACTTTATGATCGAACTCGAACGCCAGAACGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCt < 1:1893464/69‑1 (MQ=255)
tATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCAGTGGTTACTTTGCTGACAcc > 1:1927107/1‑70 (MQ=255)
tATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACAcc > 1:1084287/1‑70 (MQ=255)
tATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACAcc > 1:697863/1‑70 (MQ=255)
tATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACAcc > 1:35520/1‑70 (MQ=255)
tATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACAcc > 1:524703/1‑70 (MQ=255)
tATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACAcc > 1:1282736/1‑70 (MQ=255)
tATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACAcc > 1:140402/1‑70 (MQ=255)
cgaacGCCAGAACGACGGCAATTGCGTACTGTTCTTCTCTGGTTACTTTGCTGACACCAACAGAAGAGccc > 1:1913070/1‑71 (MQ=255)
cgaacGCCAGAACGACGGCAATTGCGTACTGTTCTTCACt > 1:114795/1‑40 (MQ=255)
cgaacGCCAGAACGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCa > 1:758132/1‑59 (MQ=255)
cgaacGCCAGAACGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGccc > 1:1597430/1‑71 (MQ=255)
cgaacGCCAGAACGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGccc > 1:2837687/1‑71 (MQ=255)
cgaacGCCAGAACGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGccc > 1:1438686/1‑71 (MQ=255)
cgaacGCCAGAACGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGccc > 1:433678/1‑71 (MQ=255)
cgaacGCCAGAACGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGccc > 1:463330/1‑71 (MQ=255)
cgaacGCCAGAACGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGccc > 1:1910915/1‑71 (MQ=255)
cgaacGCCAGAACGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGccc > 1:213041/1‑71 (MQ=255)
cgaacGCCAGAACGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGccc > 1:1914799/1‑71 (MQ=255)
aGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGc > 1:2041622/1‑43 (MQ=255)
aGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGCCCTGATTAGc > 1:806838/1‑71 (MQ=255)
aGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGCCCTGATTAGc > 1:70632/1‑71 (MQ=255)
aGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGCCCTGATTAGc > 1:1064935/1‑71 (MQ=255)
aGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGCCCTGATTAGc > 1:1055776/1‑71 (MQ=255)
aGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGCCCTGATTAGc > 1:3045562/1‑71 (MQ=255)
aGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGCCCTGATTAGc > 1:2719302/1‑71 (MQ=255)
aGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGCCCTGATTAGc > 1:2614970/1‑71 (MQ=255)
aGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGCCCTGATTAGc > 1:2512951/1‑71 (MQ=255)
aGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGCCCTGATTAGc > 1:2310461/1‑71 (MQ=255)
aGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGCCCTGATTAGc > 1:2113485/1‑71 (MQ=255)
gATCGACTGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCt < 1:1198336/43‑1 (MQ=255)
gATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCt < 1:3068109/43‑1 (MQ=255)
gATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCt < 1:2802274/43‑1 (MQ=255)
gATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCt < 1:1810356/43‑1 (MQ=255)
gATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCt < 1:699589/43‑1 (MQ=255)
tCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTg > 1:3328007/1‑42 (MQ=255)
tCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGa > 1:1594107/1‑43 (MQ=255)
tCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGa > 1:1636043/1‑43 (MQ=255)
tCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGa > 1:3266588/1‑43 (MQ=255)
tCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGa > 1:976471/1‑43 (MQ=255)
|
CTCACGACCTTTGATCCCTTGCTCAACGATCACTTTATGATCGAACTCGAACGCCAGATCGACGGCAATTGCGTACTGTTCTTCACTGGTTACTTTGCTGACACCAACAGAAGAGCCCTGATTAGC > W3110S.gb/399464‑399589
|
| 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
