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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,863,108 |
T→C |
28.6% |
L73L (TTA→CTA) |
ygbM → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,863,108 | 0 | T | C | 28.6%
| 57.3
/ 30.4
| 42 | L73L (TTA→CTA) | ygbM | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (17/13); new base C (5/7); total (22/20) |
| Fisher's exact test for biased strand distribution p-value = 4.99e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.42e-01 |
GAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATCGACCTGGCACTGGAATATGCAT > W3110S.gb/2863039‑2863174
|
gAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGAt > 1:2470169/1‑70 (MQ=255)
tCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTa < 1:2645587/61‑1 (MQ=255)
tGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTccc > 1:2569732/1‑71 (MQ=255)
tGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGACTATCCGCCCTTccc > 1:3401900/1‑71 (MQ=255)
tGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGACTATCCGCCCTTcc > 1:1007222/1‑70 (MQ=255)
acacTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCg < 1:2265826/70‑1 (MQ=255)
cTGGCGCTGTTCAATACAGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACg > 1:1040378/1‑71 (MQ=255)
gcTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGACTATCCGCCCTTCCCGGACGTGAg < 1:1707176/70‑1 (MQ=255)
ttCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGAt < 1:1819371/43‑1 (MQ=255)
tCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCAGGa > 1:1792732/1‑59 (MQ=255)
cAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAg > 1:815548/1‑71 (MQ=255)
cAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAg > 1:1965022/1‑71 (MQ=255)
cAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGACTATCCGCCCTTCCCGGACGTGAGCACGAAg > 1:1275717/1‑71 (MQ=255)
cAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGACTATCCGCCCTTCCCGGACGTGAGCACGAAg > 1:3618664/1‑71 (MQ=255)
aTACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGca < 1:3219058/71‑1 (MQ=255)
aTACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGca < 1:1870110/71‑1 (MQ=255)
aTACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGca < 1:160756/71‑1 (MQ=255)
tACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTg < 1:1343230/59‑1 (MQ=255)
aCCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGcaca > 1:3831327/1‑71 (MQ=255)
ccGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGAACGTGAGCACGAAGCacac > 1:488144/1‑71 (MQ=255)
ccGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATC‑‑CCCTTCCCGGACGTGAGCACGAAGCACACg > 1:1902305/1‑70 (MQ=255)
cTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCa < 1:214718/71‑1 (MQ=255)
cTCCCGGAGATATTAATGCGGGGGAATGGGGACTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCa < 1:3917810/71‑1 (MQ=255)
gagaTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATc < 1:2196643/71‑1 (MQ=255)
agaTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGTCGTGAGCACg < 1:1651989/53‑1 (MQ=255)
agaTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATCg < 1:705964/71‑1 (MQ=255)
agaTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATCg < 1:1848586/71‑1 (MQ=255)
agaTATTAATGCGGGGGAATGGGGACTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATCg < 1:1583549/71‑1 (MQ=255)
agaTATTAATGCGGGGGAATGGGGACTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATCg < 1:3026955/71‑1 (MQ=255)
agaTATTAATGCGGGGGAATGGGGACTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATCg < 1:3031664/71‑1 (MQ=255)
atTAATGCGGGGGAATGGGGATTATCCGCCCTTccc > 1:2800144/1‑36 (MQ=255)
atTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCa > 1:3975763/1‑47 (MQ=255)
atTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGcaca > 1:1744661/1‑56 (MQ=255)
atTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGcaca > 1:76319/1‑56 (MQ=255)
atTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCacac > 1:2679386/1‑57 (MQ=255)
atTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTCAGCACGAAGCacac > 1:3955027/1‑57 (MQ=255)
atTAATGCGGGGGAATGGGGACTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGa > 1:2014220/1‑62 (MQ=255)
aTGCGGGGGAATGGGGACTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATCGACCTGGc < 1:1813050/70‑1 (MQ=255)
gAATGGGGACTATCCGCCCTTCCCGGACGTGAGCACg < 1:3310190/37‑1 (MQ=255)
tGGGGATTATCCGCCCTTCCCGGACGTGAGCACGa < 1:2828241/35‑1 (MQ=255)
tGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATCGACCTGGc < 1:1414201/59‑1 (MQ=255)
gggATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATCGACCTGGCACTGGAATATGCAt > 1:1023223/1‑71 (MQ=255)
gggATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATCGACCTGGCACTGGAATATGCAt > 1:3300476/1‑71 (MQ=255)
gggATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATCGACCTGGCACTGGAATATGCAt > 1:2851428/1‑71 (MQ=255)
|
GAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATCGACCTGGCACTGGAATATGCAT > W3110S.gb/2863039‑2863174
|
| 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
