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 |
|
A73 F1 I1 R1
|
21 |
62.0 |
3993596 |
96.1% |
3837845 |
76.0 |
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 | . | 90.2%
| 156.1
/ 14.1
| 41 | coding (194/366 nt) | ECB_02002 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (1/3); new base . (17/20); total (18/23) |
| Fisher's exact test for biased strand distribution p-value = 6.18e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.19e-01 |
AAAATATCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTATTTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTGGAATT > REL606/2114772‑2114912
|
aaaaTATCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAttt < 2:1878232/76‑1 (MQ=255)
aaaaTATCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAttt < 1:430614/76‑1 (MQ=255)
aaaaTATCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAttt < 2:448244/76‑1 (MQ=255)
aaaTATCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttt > 2:1255356/1‑76 (MQ=255)
atatCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttt < 2:474953/76‑1 (MQ=255)
tatCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAttttttt < 2:1088315/76‑1 (MQ=255)
atCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttttc > 2:651302/1‑75 (MQ=255)
atCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttttc > 2:651310/1‑75 (MQ=255)
atCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttttc > 2:558538/1‑75 (MQ=255)
atCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttttc < 1:1780647/76‑2 (MQ=255)
tCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttttct > 2:741362/1‑74 (MQ=255)
tCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttttct > 2:1832014/1‑74 (MQ=255)
tCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttttct > 1:106692/1‑74 (MQ=255)
ccATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttttctc < 2:998293/76‑4 (MQ=255)
ccATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttttctc > 2:182725/1‑73 (MQ=255)
ccATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTAtttttttctc > 1:1478960/1‑73 (MQ=255)
cAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCt < 1:770005/76‑1 (MQ=255)
cAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCt < 1:770019/76‑1 (MQ=255)
cAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTgaga > 1:1389743/1‑76 (MQ=255)
aaTGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGagag < 2:1548964/76‑1 (MQ=255)
tGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCa > 2:381310/1‑76 (MQ=255)
aGCTAGCAAATTCCTTACCTTTTTCAGATGAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAAt < 1:182163/76‑1 (MQ=255)
gCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATc < 1:383188/76‑1 (MQ=255)
cTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATcc > 2:674649/1‑76 (MQ=255)
aGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATcccc > 1:1694356/1‑76 (MQ=255)
gCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCg > 1:1110888/1‑76 (MQ=255)
cAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGc < 2:1687943/76‑1 (MQ=255)
aaaTTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCa < 1:1734316/76‑1 (MQ=255)
aaaTTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCa > 1:693755/1‑76 (MQ=255)
ttCCTTACCTGTTTCAGATAAAAATAATTTAACGTTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATg < 1:127644/76‑1 (MQ=255)
ttCCTTACCTGTTTCAGATAAAAATAATTTAACATTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATg < 1:127620/76‑1 (MQ=255)
tcctttccttTTTCAGATAAAAATAATTTAACACTCTCATTATTTTTTTTCTCAGCTGAGAGCAATCCCCGCAATg < 2:982026/76‑1 (MQ=255)
cTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTATTTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGAc < 1:1456483/76‑1 (MQ=255)
tACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATa > 2:1034144/1‑76 (MQ=255)
tACCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATa < 1:1407164/76‑1 (MQ=255)
aCCTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATaa < 2:1736311/76‑1 (MQ=255)
ccTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAAt < 2:529458/76‑1 (MQ=255)
cTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAAtt > 1:896447/1‑76 (MQ=255)
cTTTTTCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAAtt < 2:551099/76‑1 (MQ=255)
tttCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAAttttt > 2:1444787/1‑76 (MQ=255)
tCAGATAAAAATAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTtat < 1:388867/76‑1 (MQ=255)
aGATAAAAATAATTTAACACTCTCATTATTTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTtata < 2:45416/76‑1 (MQ=255)
aaaaTAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGatat < 1:795857/76‑1 (MQ=255)
aaaTAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATAtt > 2:744447/1‑76 (MQ=255)
aaaTAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATAtt > 2:81580/1‑76 (MQ=255)
aaaTAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATAtt > 2:999238/1‑76 (MQ=255)
aaaTAATTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATAtt < 2:120344/76‑1 (MQ=255)
aataatTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATAttt < 1:720331/76‑1 (MQ=255)
aatTTAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCAc < 1:806616/76‑1 (MQ=255)
tttAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACtt > 2:1543670/1‑76 (MQ=255)
tttAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACtt > 2:1422389/1‑76 (MQ=255)
ttAACACTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACttt > 2:1637078/1‑76 (MQ=255)
aaCACTCTCATTATTTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTg > 2:1069770/1‑76 (MQ=255)
cacTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTACACTTTGGaa > 2:436423/1‑76 (MQ=255)
acTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTGGAAt > 2:1621919/1‑76 (MQ=255)
acTCTCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTGGAAt < 1:364796/76‑1 (MQ=255)
ctctCATTA‑TTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTGGAAtt < 2:1871908/76‑1 (MQ=255)
|
AAAATATCCATCAGTCAATGAGCTAGCAAATTCCTTACCTTTTTCAGATAAAAATAATTTAACACTCTCATTATTTTTTTTCTCAGCTGAGAGCAATCCCCGCAATGACATAATTTTTATAAGATATTTCACTTTGGAATT > REL606/2114772‑2114912
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
