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 |
|
A4 F1 I1 R1
|
765 |
39.6 |
1867486 |
94.4% |
1762906 |
108.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,220,789 |
G→A |
R401C (CGT→TGT) |
bglX ← |
beta‑D‑glucoside glucohydrolase, periplasmic |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,220,789 | 0 | G | A | 94.7%
| 108.3
/ ‑2.3
| 38 | R401C (CGT→TGT) | bglX | beta‑D‑glucoside glucohydrolase, periplasmic |
| Reads supporting (aligned to +/- strand): ref base G (1/1); new base A (17/19); total (18/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTCAGTACGGTCACGGATTGATCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACGGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTATGGGTCGTTAAACAACCCC > NC_000913/2220659‑2220922
|
gTCAGTACGGTCACGGATTGATCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCa > 2:134686/1‑139 (MQ=255)
aGTACGGTCACGGATTGATCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCa < 1:309563/139‑1 (MQ=255)
cGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCgcgcgc < 2:529954/139‑1 (MQ=255)
cGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCAcg < 2:833965/139‑1 (MQ=255)
gCTGCGGACCAGCTGCCCATCACTTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCAcgcg < 1:203416/139‑1 (MQ=255)
gCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCAcgcg > 2:513899/1‑139 (MQ=255)
cTGCGGACCAGCTGCCCATCGCGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACgcgc < 2:489033/139‑1 (MQ=255)
cTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGt > 2:655871/1‑139 (MQ=255)
tttACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCgg < 1:108043/137‑1 (MQ=255)
tttACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCgg > 2:108043/1‑137 (MQ=255)
tCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTAt > 1:152730/1‑139 (MQ=255)
cGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATcc > 2:214756/1‑139 (MQ=255)
gCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCa < 1:25150/139‑1 (MQ=255)
cAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCTGGCGGCTTTCGGCATTGGTATCCAcc > 2:641408/1‑139 (MQ=255)
tGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTCCGGTGCAGGCGGCTTTCGGCATTGGTATCCACCggg > 2:132616/1‑139 (MQ=255)
accaccGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGAct > 2:395914/1‑139 (MQ=255)
ccGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCttt > 1:183163/1‑139 (MQ=255)
cGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACGGTTTTTCAGCAACACCAAGCTGTCGCGCGCCACTTCACGCGCTTCTTTACGGTACAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTc > 2:604820/1‑139 (MQ=255)
cGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTcg < 1:428156/67‑1 (MQ=255)
cGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTcg > 2:428156/1‑67 (MQ=255)
cGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTc > 1:192395/1‑139 (MQ=255)
cAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCgg < 1:699104/139‑1 (MQ=255)
cAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCgg > 1:98114/1‑139 (MQ=255)
gtggCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCAcg < 2:930507/74‑1 (MQ=255)
gtggCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCAcg > 1:930507/1‑74 (MQ=255)
gtggCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCa < 2:183163/139‑1 (MQ=255)
ggCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCaaa < 2:182484/139‑1 (MQ=255)
gCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCa > 2:427160/1‑102 (MQ=255)
gCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCa < 1:427160/102‑1 (MQ=255)
gCCGATTTTTTCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAAt > 1:444053/1‑139 (MQ=255)
tttCAGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTC‑GCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTATg < 1:134686/139‑1 (MQ=255)
aGCGGTAACGTTTCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTATGGGt < 1:214756/139‑1 (MQ=255)
tttCGAGACGGATTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTATGGGTCATTAaacaa < 1:604820/139‑1 (MQ=255)
tCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAggcg < 1:614228/68‑1 (MQ=255)
tCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAggcg > 2:614228/1‑68 (MQ=255)
tCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTATGGGTCGTTAAACAAcc < 2:192395/139‑1 (MQ=255)
tCGAGACAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTATGGGTCGTTAAACAAcc < 1:655871/139‑1 (MQ=255)
gagaCAGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTATGGGTCGTTAAACAAcccc < 2:152730/139‑1 (MQ=255)
|
GTCAGTACGGTCACGGATTGATCGGCAACACCGGCTGCGGACCAGCTGCCCATCACGTCACGTTTACTGTCCGCCAGTGGCCCAACCACCGCAATGGTGGCCGATTTTTTCAGCGGTAACGTTTCGAGACGGTTTTTCAGCAACACCAAGCTTTCGCGCGCCACTTCACGCGCTTCTTTACGGTGCAGGCGGCTTTCGGCATTGGTATCCACCGGGTCAGACTCTTTCGGCCCCAAATGGCTGTATGGGTCGTTAAACAACCCC > NC_000913/2220659‑2220922
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
