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 |
|
A11 F142 I1 R1
|
99 |
64.8 |
3148104 |
96.3% |
3031624 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,595,057 |
A→C |
Y142D (TAC→GAC) |
livM ← |
branched‑chain amino acid ABC transporter permease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,595,057 | 0 | A | C | 98.2%
| 206.7
/ ‑3.6
| 57 | Y142D (TAC→GAC) | livM | branched‑chain amino acid ABC transporter permease |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base C (24/32); total (25/32) |
| Fisher's exact test for biased strand distribution p-value = 4.39e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.84e-01 |
TAATCCAGCAATCGGCAGGCAGGTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCACC > NC_000913/3594962‑3595148
|
tAATCCAGCAATCGGCAGGCAGGTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCcccc < 2:1315617/100‑1 (MQ=255)
tAATCCAGCAATCGGCAGGCAGGTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCcccc < 1:255358/100‑1 (MQ=255)
aTCCAGCAATCGGCAGGCAGGTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCccag > 2:1494603/1‑100 (MQ=255)
tCCAGCAATCGGCAGGCAGGTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCccagc > 2:106656/1‑100 (MQ=255)
ccAGCAATCGGCAGGCAGGTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCccagca < 2:1207414/100‑1 (MQ=255)
cAGCAATCGGCAGGCAGGTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCccagcac > 2:1341120/1‑100 (MQ=255)
aGCAATCGGCAGGCAGGTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCccagc < 2:764304/97‑1 (MQ=255)
cAATCGGCAGGCAGGT‑CAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCccagcaccagc < 2:423195/100‑1 (MQ=255)
aaTCGGCAGGCAGGTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCccagcaccagc < 1:127253/100‑1 (MQ=255)
aaTCGGCAGGCAGGTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCccagcaccagc > 1:97833/1‑100 (MQ=255)
tCGGCAGGCAGGTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACcagcag < 2:636273/100‑1 (MQ=255)
ggcaggcaGGTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGAc < 2:423917/100‑1 (MQ=255)
caggTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGaaa > 1:1278090/1‑100 (MQ=255)
aggTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAg < 1:106656/100‑1 (MQ=255)
aggTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAg > 1:1040497/1‑100 (MQ=255)
ccAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACca > 2:883832/1‑100 (MQ=255)
cAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACcaa > 1:320147/1‑100 (MQ=255)
cAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACcaa > 2:1194425/1‑100 (MQ=255)
cccAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGGTGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAAcc < 1:1365029/99‑1 (MQ=255)
ccAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCAc > 1:1563733/1‑100 (MQ=255)
cAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACg < 2:1040490/100‑1 (MQ=255)
aaGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGt < 1:1277168/100‑1 (MQ=255)
gCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTc < 2:1147680/100‑1 (MQ=255)
gCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTc > 1:389233/1‑100 (MQ=255)
ccGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCa > 1:1139432/1‑100 (MQ=255)
ccGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCa > 1:1198246/1‑100 (MQ=255)
acGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCa > 2:385547/2‑100 (MQ=255)
tAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTCAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGcc < 2:1004283/100‑1 (MQ=255)
tAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGcc > 2:1268543/1‑100 (MQ=255)
aTAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCg < 2:1139425/100‑1 (MQ=255)
tAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCga < 1:1164905/100‑1 (MQ=255)
gTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCgaga > 1:172237/1‑100 (MQ=255)
gATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGAcc > 2:74138/1‑100 (MQ=255)
gATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGAcc < 2:4071/100‑1 (MQ=255)
aTTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCg < 1:1092449/100‑1 (MQ=255)
tGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAg < 2:1413250/100‑1 (MQ=255)
agcagcGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGa > 2:425807/1‑100 (MQ=255)
agcagcGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGa > 2:52842/1‑100 (MQ=255)
cagcGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATa < 2:154751/100‑1 (MQ=255)
gcAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGt < 1:1313212/100‑1 (MQ=255)
aaaaGTGTAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAg < 2:325543/100‑1 (MQ=255)
gtgtAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCa < 2:654431/100‑1 (MQ=255)
tgtAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCAt < 1:74138/100‑1 (MQ=255)
gtAAGCGCCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATg < 1:1140888/100‑1 (MQ=255)
aaGCGCTGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATgg < 2:320145/99‑1 (MQ=255)
gcgcCGATGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCa > 2:584837/1‑100 (MQ=255)
tGGCGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGc < 2:1077042/100‑1 (MQ=255)
cGTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAat > 2:1422492/1‑100 (MQ=255)
gTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAata > 1:1393252/1‑100 (MQ=255)
gTAAAAACCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAata > 1:786808/1‑100 (MQ=255)
aaaaaCCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATc < 2:1393242/100‑1 (MQ=255)
aaaaCCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATcc > 1:318742/1‑100 (MQ=255)
aaaCCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCa > 2:21392/1‑100 (MQ=255)
aaCCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCAc < 1:52842/100‑1 (MQ=255)
aCCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCAcc < 2:1278081/100‑1 (MQ=255)
aCCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCAcc < 1:650663/100‑1 (MQ=255)
aCCGCCGTCCCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCAcc < 2:8013/100‑1 (MQ=255)
|
TAATCCAGCAATCGGCAGGCAGGTCCAGAAGCCCAAGCCGTAATAGTGATTGAGCAGCGCAAAAGTGTAAGCGCCGATGGCGTAAAAACCGCCGTACCCCAGCACCAGCAGACCAGAAAGACCAACAACCACGTTCAGCCCGAGACCGAGGATAATGTAGATCATGGTCAGGGTGGCAATATCCACC > NC_000913/3594962‑3595148
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
