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 |
|
A58 F1 I1 R1
|
18 |
55.3 |
3756050 |
96.8% |
3635856 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
2,114,852 |
(T)8→7 |
coding (187/366 nt) |
ECB_02002 ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 2,114,845 | 0 | T | . | 98.0%
| 241.1
/ ‑1.6
| 50 | coding (194/366 nt) | ECB_02002 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base . (26/23); total (26/24) |
| Fisher's exact test for biased strand distribution p-value = 4.80e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01 |
TTAAAATATCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTATTTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTGGAATTGTCG > REL606/2114770‑2114916
|
ttAAAATATCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCattat < 1:1653700/76‑1 (MQ=255)
tAAAATATCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCattatt > 2:392442/1‑76 (MQ=255)
naaTATCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttt > 1:1556346/2‑76 (MQ=255)
aaTATCCATCAGTCAATGCGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCCTTAttttt > 2:914935/1‑76 (MQ=255)
atatCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttt > 2:490783/1‑76 (MQ=255)
atCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttttc > 1:1851071/1‑75 (MQ=255)
tCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttttct > 2:1504683/1‑74 (MQ=255)
ccATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttttctc > 1:1366684/1‑73 (MQ=255)
ccATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttttctc < 1:1794994/76‑4 (MQ=255)
aTCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAg > 1:1393803/1‑76 (MQ=255)
aTCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAg > 2:1580385/1‑76 (MQ=255)
tCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGc < 2:1760692/76‑1 (MQ=255)
gTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTga < 1:517483/76‑1 (MQ=255)
tCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTgag < 1:867525/76‑1 (MQ=255)
tCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTgag < 1:161881/76‑1 (MQ=255)
tGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCa > 1:407237/1‑76 (MQ=255)
cTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATcc < 2:325993/76‑1 (MQ=255)
aaaTTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCa > 1:1276012/1‑76 (MQ=255)
aaTTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCaa > 1:460659/1‑76 (MQ=255)
aaTTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCaa > 1:1547120/1‑76 (MQ=255)
tCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGa > 2:945147/1‑76 (MQ=255)
ttACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACAt > 1:268845/1‑76 (MQ=255)
ttACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACAt > 1:1527729/1‑76 (MQ=255)
tACCTTTTTCAGATAAAAATAATTTAACACTCTCATTATTTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACAt < 1:512748/76‑1 (MQ=255)
tACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATa > 2:1542349/1‑76 (MQ=255)
aCCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATaa < 2:906290/76‑1 (MQ=255)
aCCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATaa < 2:1725524/76‑1 (MQ=255)
ccTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAAt < 1:512249/76‑1 (MQ=255)
ttttCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAAtttt > 2:963604/1‑76 (MQ=255)
ttttCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAAtttt > 1:1329321/1‑76 (MQ=255)
ttttCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAAtttt > 1:280836/1‑76 (MQ=255)
tttCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAAttttt < 2:881399/76‑1 (MQ=255)
tttCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAAttttt < 2:1657542/76‑1 (MQ=255)
tttCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAAttttt < 2:1657520/76‑1 (MQ=255)
tttCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAAttttt > 1:1405340/1‑76 (MQ=255)
ttCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTta > 1:545565/1‑76 (MQ=255)
cAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACCTAATTTTtata > 2:1580944/1‑76 (MQ=255)
cAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTtata < 2:1510364/76‑1 (MQ=255)
aGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATaa > 1:749596/1‑76 (MQ=255)
aaaaaTAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGata < 2:1688941/76‑1 (MQ=255)
aataatTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATAttt < 2:1762291/76‑1 (MQ=255)
aataatTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATAttt < 2:1567806/76‑1 (MQ=255)
aataatTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATAttt > 2:1246336/1‑76 (MQ=255)
ataatTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTc < 1:1037043/76‑1 (MQ=255)
taatTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCa < 2:1672975/76‑1 (MQ=255)
aatTTAACAATCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCAc < 1:668416/76‑1 (MQ=255)
atTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACt < 2:1366064/76‑1 (MQ=255)
atTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACt < 2:1366056/76‑1 (MQ=255)
ttAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACttt > 1:955297/1‑76 (MQ=255)
ttAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACttt > 1:63688/1‑76 (MQ=255)
tAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTg > 1:199101/1‑76 (MQ=255)
aaCACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTgg > 2:653233/1‑76 (MQ=255)
aaCACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTgg < 1:374628/76‑1 (MQ=255)
acacTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTGGa > 2:1071687/1‑76 (MQ=255)
acacTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTGGa < 1:854096/76‑1 (MQ=255)
cacTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTGGaa > 2:1361802/1‑76 (MQ=255)
ctctCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTGGANtt < 2:1322213/76‑1 (MQ=255)
ctctCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTGGAAtt > 1:1180288/1‑76 (MQ=255)
cATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTGGAATTGTCg > 2:760157/1‑76 (MQ=255)
|
TTAAAATATCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTATTTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTGGAATTGTCG > REL606/2114770‑2114916
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
