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 |
|
A12 F56 I1 R1
|
165 |
53.8 |
2611523 |
96.4% |
2517508 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,308,182 |
A→T |
L145Q (CTG→CAG) |
yojI ← |
microcin J25 efflux ABC transporter permease/ATPase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,308,182 | 0 | A | T | 97.8%
| 156.8
/ ‑3.6
| 46 | L145Q (CTG→CAG) | yojI | microcin J25 efflux ABC transporter permease/ATPase |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base T (27/18); total (28/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.40e-01 |
GTCGCCATATGTTTGTACACCCGCGCCACCAGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACAGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCAGACGCACAAAAGCAATGGTGATATTGCGCACAT > NC_000913/2308086‑2308275
|
gTCGCCATATGTTTGTACACCCGCGCCACCAGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCa > 2:812710/1‑100 (MQ=255)
gCCATATGTTTGTACACCCGCGCCACCAGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGGCCGACTGCAt > 2:1063438/1‑98 (MQ=255)
gCCATATGTTTGTACACCCGCGCCACCAGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATcc > 1:755013/1‑100 (MQ=255)
gCCATATGTTTGTACACCCGCGCCACCAGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATcc < 2:1236774/100‑1 (MQ=255)
ccATATGTTTGTACACCCGCGCCACCAGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCca > 1:964824/1‑100 (MQ=255)
tGTTTGTACACCCGCGCCACCAGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGAt > 1:257504/1‑100 (MQ=255)
gTTTGTACACGCGCGCCACCAGCACAAAACCGCCCCAGATGGTGATCGCCAGCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGAt > 2:1275382/1‑99 (MQ=255)
ttGTACACCCGCGCCACCAGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATAcg < 2:305381/100‑1 (MQ=255)
acacCCGCGCCACCAGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATAcgccgc < 1:29275/100‑1 (MQ=255)
acacCCGCGCCACCAGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATAcgccgc < 1:977974/100‑1 (MQ=255)
cacCCGCGCCACCAGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCt > 1:474699/1‑100 (MQ=255)
cccGCGCCACCAGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTg > 2:1015667/1‑99 (MQ=255)
cgcgCCACCAGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAAc > 1:1006116/1‑100 (MQ=255)
gcgcCACCAGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAAcc < 1:617427/100‑1 (MQ=255)
ccaGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGt < 2:780304/100‑1 (MQ=255)
cacaAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTgaga < 1:533221/100‑1 (MQ=255)
caAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAAt > 1:1009316/1‑100 (MQ=255)
caAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAAt < 1:360146/100‑1 (MQ=255)
aaCCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGAt > 1:597976/1‑100 (MQ=255)
aaCCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGAt < 2:755008/100‑1 (MQ=255)
ccGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATcc > 2:158275/1‑100 (MQ=255)
gCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATcccc < 2:1285223/100‑1 (MQ=255)
ccccAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCt < 1:1287913/100‑1 (MQ=255)
cAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCa < 1:369140/100‑1 (MQ=255)
gATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTcc < 1:439759/100‑1 (MQ=255)
gATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTcc > 2:14789/1‑100 (MQ=255)
gATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTcc > 2:64235/1‑100 (MQ=255)
gATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTcc > 1:212740/1‑100 (MQ=255)
aTCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCg < 1:1021859/100‑1 (MQ=255)
cGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGc < 2:395178/100‑1 (MQ=255)
gCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCa < 1:30984/100‑1 (MQ=255)
gCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCa < 2:96709/100‑1 (MQ=255)
cATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGTACCGAGAGTGAGAATCATCCCCCGCACCACTTCCGGc > 2:736172/1‑97 (MQ=255)
cATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACAGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCa > 2:1095455/1‑98 (MQ=255)
aTCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCAGAc > 1:512563/1‑100 (MQ=255)
aTCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCAGAc > 2:169023/1‑100 (MQ=255)
tCCAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCAGACg > 1:796386/1‑100 (MQ=255)
cAGATAGCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCAGACGca > 2:326396/1‑100 (MQ=255)
gCCGTTACCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCAGACGCACAAAAg > 2:1295955/1‑100 (MQ=255)
aCCAGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCAGACGCACAAAAGCAATgg < 2:10402/100‑1 (MQ=255)
aGCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCAGACGCACAAAAGCAATGGTGa > 1:1127995/1‑100 (MQ=255)
gCAACATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCAGACGCACAAAAGCAATGGTGat > 2:1097558/1‑100 (MQ=255)
aCATTTTGCCCGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCAGACGCACAAAAGCAATGGTGATAtt > 2:819508/1‑100 (MQ=255)
cccGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCAGACGCACCAAAGCAATGGTGATATTGCGCACAt > 1:1198114/1‑100 (MQ=255)
cccGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCAGACGCACAAAAGCAATGGTGATATTGCGCACAt > 2:666930/1‑100 (MQ=255)
cccGACTGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCAGACGCACAAAAGCAATGGTGATATTGCGCACAt > 1:322946/1‑100 (MQ=255)
|
GTCGCCATATGTTTGTACACCCGCGCCACCAGCACAAAACCGCCCCAGATGGTGATCGCCATCCAGATAGCCGTTACCAGCAACATTTTGCCCGACAGCATCCACAGATACGCCGCTGAACCGATAGTGAGAATGATCCCCTGCACCAGTTCCGGCAGACGCACAAAAGCAATGGTGATATTGCGCACAT > NC_000913/2308086‑2308275
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
