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 |
1,337,546 |
A→C |
65.0% |
T237T (ACT→ACG) |
wcaE ← |
predicted glycosyl transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,337,546 | 0 | A | C | 65.0%
| 57.6
/ 41.1
| 60 | T237T (ACT→ACG) | wcaE | predicted glycosyl transferase |
| Reads supporting (aligned to +/- strand): ref base A (8/13); new base C (23/16); total (31/29) |
| Fisher's exact test for biased strand distribution p-value = 1.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.38e-01 |
CACTTAAATCTTGCATTGGTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGCC > minE/1337479‑1337587
|
cACTTAAATCTTGCATTGGTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:1173353/69‑1 (MQ=255)
cACTTAAATCTTGCATTGGTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:1855323/69‑1 (MQ=255)
cACTTAAATCTTGCATTGGTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:2301646/69‑1 (MQ=255)
cACTTAAATCTTGCATTGGTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:2708272/69‑1 (MQ=255)
cACTTAAATCTTGCATTGGTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:2978648/69‑1 (MQ=255)
cACTTAAATCTTGCATTGGTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:3402194/69‑1 (MQ=255)
cACTTAAATCTTGCATTGGTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:358935/69‑1 (MQ=255)
aCTTAAATCTTGCATTGGTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtagt > 1:2480316/1‑69 (MQ=255)
aTTGGTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:1974685/55‑1 (MQ=255)
aTTGGTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGTa < 1:1317102/67‑1 (MQ=255)
aTTGGTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGTa < 1:301901/67‑1 (MQ=255)
aTTGGTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGTa < 1:2270075/67‑1 (MQ=255)
aTTGGTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGTa < 1:2206183/67‑1 (MQ=255)
ggTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:337422/52‑1 (MQ=255)
ggTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:3087435/52‑1 (MQ=255)
ggTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:3431224/52‑1 (MQ=255)
ggTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:2489456/52‑1 (MQ=255)
ggTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:781223/52‑1 (MQ=255)
ggTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:988072/52‑1 (MQ=255)
ggTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:1783024/52‑1 (MQ=255)
ggTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:1545195/52‑1 (MQ=255)
ggTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGgtag < 1:1541234/52‑1 (MQ=255)
ggTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGTAAAt > 1:715351/1‑67 (MQ=255)
tttCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGTAAATGCCAg > 1:1809435/1‑69 (MQ=255)
tttCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGTAAATGCCAg < 1:636257/69‑1 (MQ=255)
ttATATTCAGACTTTGTTATCTAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGTa < 1:1873849/56‑1 (MQ=255)
ttATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGTa < 1:1187356/56‑1 (MQ=255)
ttATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGTa < 1:2623018/56‑1 (MQ=255)
ttATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGTa < 1:373760/56‑1 (MQ=255)
ttATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGTa < 1:2079538/56‑1 (MQ=255)
ttATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGTa < 1:2985403/56‑1 (MQ=255)
ttATATTCAGACTTTGTTATATAAGGCTTTCGTCTTAGAGgtagt > 1:2400741/1‑45 (MQ=255)
ttCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCg > 1:1216276/1‑49 (MQ=255)
ttCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGt > 1:1479999/1‑50 (MQ=255)
ttCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGt > 1:553383/1‑50 (MQ=255)
ttCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGt > 1:1757541/1‑50 (MQ=255)
ttCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGt > 1:1722399/1‑50 (MQ=255)
ttCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGt > 1:1802206/1‑50 (MQ=255)
aaGGCTTTCGTGTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:1141473/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCGAAAAGcc > 1:2147969/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:188069/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:513585/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:2021273/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:600413/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:1236198/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:336036/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:3130657/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:3091607/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:2093553/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:2996410/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:2106011/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:2798806/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:2302362/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:950569/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:2152023/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:2646398/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:1776744/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:2802098/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:172073/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc > 1:167506/1‑62 (MQ=255)
aaGGCTTTCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGc > 1:1912304/1‑61 (MQ=255)
gCTTTCGTCTTTGAGGTAGTACGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc < 1:774992/59‑1 (MQ=255)
gCTTTCGTCTTTGAGGTAGTACGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGcc < 1:590107/59‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:1935311/45‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:755960/45‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:1890696/45‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:922864/45‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:3367583/45‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:511066/45‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:2025393/45‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:366441/45‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:2036689/45‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:1295788/45‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:1335603/45‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:2320661/45‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:3105417/45‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:152936/45‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:2787900/45‑1 (MQ=255)
ttCGTCTTTGAGGTCGTATGTTGGCGTAAATGCCAGGATAATTCa < 1:2356609/45‑1 (MQ=255)
|
CACTTAAATCTTGCATTGGTTTTCCTTATATTCAGACTTTGTTATATAAGGCTTTCGTCTTTGAGGTAGTACGTTGGCGTAAATGCCAGGATAATTCAGCCCAAAAGCC > minE/1337479‑1337587
|
| 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
