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 |
|
A56 F1 I1 R1
|
16 |
62.6 |
4005459 |
97.2% |
3893306 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,021,983 |
(A)9→8 |
coding (702/1140 nt) |
ECB_02821 ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,021,975 | 0 | A | . | 90.0%
| 155.1
/ 16.3
| 41 | coding (710/1140 nt) | ECB_02821 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (1/3); new base . (21/15); total (23/18) |
| Fisher's exact test for biased strand distribution p-value = 3.10e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTTTCCAAAAAACAAAATAATAATATTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTCAAAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCATCTCTATGTCCTAAATTA > REL606/3021901‑3022037
|
cTTTCCAAAAAACAAAATAATAATATTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTCaa > 1:1930172/1‑76 (MQ=255)
tttCCAAAAAACAAAATAATAATATTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTCaaa < 1:1841064/76‑1 (MQ=255)
ccAAAAAACAAAATAATAATATTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTCaaaaaa > 1:1881017/1‑76 (MQ=255)
aaaaaaCAAAATAATAATATTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTCaaaaaaaa > 2:660746/1‑76 (MQ=255)
aaaaaCAAAATAATAATATTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTCaaaaaaaat > 2:448956/1‑75 (MQ=255)
aaaCAAAATAATAATATTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTCaaaaaaaatca < 1:967181/76‑4 (MQ=255)
aaaCAAAATAATAATATTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTCaaaaaaaatca < 2:569885/76‑4 (MQ=255)
aCAAAATAATAATATTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAAt < 2:355921/76‑1 (MQ=255)
aaaTAATAATATTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGca > 2:506127/1‑76 (MQ=255)
aataataTTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTCAAAAAAAAATCAATGcattc < 2:43102/76‑1 (MQ=255)
aataataTTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCGATGcattca < 1:1996230/76‑1 (MQ=255)
aataataTTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGcattca < 1:787382/76‑1 (MQ=255)
taataTTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGcattcatt > 1:275306/1‑76 (MQ=255)
taataTTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGcattcatt > 2:266468/1‑76 (MQ=255)
taataTTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATC‑CCAAAAAAAATCAATGcattcatt > 2:159598/1‑76 (MQ=255)
aataTTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCattcattc < 1:544298/76‑1 (MQ=255)
atatTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTCAAAAAAAAATCAATGCattcattc < 1:133492/76‑1 (MQ=255)
atatTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCAttcattca > 2:210665/1‑76 (MQ=255)
atatTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCAttcattca > 2:1498894/1‑76 (MQ=255)
atatTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCAttcattca > 2:1358861/1‑76 (MQ=255)
atTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCaaa > 1:687002/1‑76 (MQ=255)
ttGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAaat < 2:1976473/76‑1 (MQ=255)
ttGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAaat < 2:1522436/76‑1 (MQ=255)
tGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTCAAAAAAAAATCAATGCATTCATTCAaat > 2:1624854/1‑76 (MQ=255)
tGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAaata > 2:654442/1‑76 (MQ=255)
gTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAaataa > 1:74593/1‑76 (MQ=255)
tCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAaataat < 1:1579264/76‑1 (MQ=255)
tACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATc > 2:427904/1‑76 (MQ=255)
aCAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCg > 2:1064536/1‑76 (MQ=255)
cAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGa < 1:1717199/76‑1 (MQ=255)
tccatccTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACt < 2:714736/76‑1 (MQ=255)
atccTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTg < 2:1301062/76‑1 (MQ=255)
tccTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGc > 1:1466075/1‑76 (MQ=255)
ccTCTACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCa > 2:475901/1‑76 (MQ=255)
ctACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCAtct > 2:1838111/1‑76 (MQ=255)
tACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCAtctc > 1:290967/1‑76 (MQ=255)
tACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCAtctc > 1:16331/1‑76 (MQ=255)
tACCAAGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCAtctc > 1:1305244/1‑76 (MQ=255)
aaGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCATCTCTATg > 1:1246902/1‑76 (MQ=255)
aaGAAAACAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCATCTCTATg > 2:1341775/1‑76 (MQ=255)
aaCAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCATCTCTATGTCCTa < 2:1191686/76‑1 (MQ=255)
aaCAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCATCTCTATGTCCTa > 1:474617/1‑76 (MQ=255)
aaCAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCATCTCTATGTCCTa > 1:1051061/1‑76 (MQ=255)
aCAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCATCTCTATGTCCTaa < 2:98063/76‑1 (MQ=255)
cAGTTAAATTTGATCTCAAAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCATCTCTATGTCCTaa < 2:214703/76‑1 (MQ=255)
cAGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCATCTCTATGTCCTaaa < 1:1301763/76‑1 (MQ=255)
aGTTAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCATCTCTATGTCCTAAAt < 1:1766592/76‑1 (MQ=255)
ttAAATTTGATCTC‑AAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCATCTCTATGTCCTAAATTa < 2:815497/76‑1 (MQ=255)
|
CTTTCCAAAAAACAAAATAATAATATTGTCGTACAAATCCATCCTCTACCAAGAAAACAGTTAAATTTGATCTCAAAAAAAAATCAATGCATTCATTCAAATAATATCGATACTTTGCATCTCTATGTCCTAAATTA > REL606/3021901‑3022037
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
