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 |
|
A22 F1 I1 R1
|
17 |
44.7 |
2806446 |
96.5% |
2708220 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,327,541 |
G→A |
S110F (TCC→TTC) |
mreC ← |
cell wall structural complex MreBCD transmembrane component MreC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,327,541 | 0 | G | A | 97.8%
| 172.2
/ NA
| 46 | S110F (TCC→TTC) | mreC | cell wall structural complex MreBCD transmembrane component MreC |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (22/23); total (22/24) |
| 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 |
ATCGCTATAAGGATCGTTAACCGTGGAGATAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGGAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCAAGCATCAGCAGTTCACTGTTTTTCA > REL606/3327471‑3327613
|
aTCGCTATAAGGATCGTTAACCGTGGAGATAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAAccc < 1:985966/76‑1 (MQ=255)
cGCTATAAGGATCGTTAACCGTGGAGATAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCcag > 1:983074/1‑76 (MQ=255)
gCTATAAGGATCGTTAACCGTGGAGATAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCcagc < 1:1049643/76‑1 (MQ=255)
cTATAAGGATCGTTAACCGTGGAGATAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCcagca > 2:289828/1‑76 (MQ=255)
cTATAAGGATCGTTAACCGTGGAGATAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCcagca < 1:289828/76‑1 (MQ=255)
tataAGGATCGTTAACCGTGGAGATAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCcagcag < 2:436455/76‑1 (MQ=255)
tataAGGATCGTTAACCGTGGAGATAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCcagcag < 1:932709/76‑1 (MQ=255)
aaGGATCGTTAACCGTGGAGATAACTTGAGTTACCATTTANNGCTCATCCTGNNGTAGCGGGAAACCCAGCAGCTc > 1:1264782/1‑76 (MQ=255)
aGGATCGTTAACCGTGGAGATAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTcg > 2:414898/1‑76 (MQ=255)
aTCGTTAACCGTGGAGATAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCgcgc > 2:567899/1‑76 (MQ=255)
tCGTTAACNGTGGAGATAANCTGAGTCACCATTTTCTGCTCANCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCa < 2:1173447/76‑1 (MQ=255)
tAACCGTGGTGATAACCTGAGTCNCCATTNTCTGCGCATCCTGANGCAGCGAGAAACCCAGCAGCTCGCGCAGAcg > 2:178093/1‑76 (MQ=255)
tAACCGTGGAGATAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCCGAcc > 1:864564/1‑75 (MQ=255)
tAACCGTGGAGATAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGAcg > 1:102476/1‑76 (MQ=255)
tAACCGTGGAGATAACCTGAGTCACCATATTCTGATCTTCCTGACGCNGCGGGAAACCCAGCAGCTCGCGCAGAcg > 1:119390/1‑76 (MQ=255)
aCCGTGGAGATAACCTGAGTCACCATTTTTTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGAcgcg < 2:839951/76‑1 (MQ=255)
gTGGAGATANCCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGt > 1:36786/1‑76 (MQ=255)
tgagaTAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTtc > 2:925991/2‑76 (MQ=255)
gagaTAACCTGAGTCGCCTTTTGCTTCTCATCCTGACGCGGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTtct < 2:1225714/76‑1 (MQ=255)
gagaTAACCTGAGTCGCCATTTTCTGCTCGTCCCGGCGCAGCGGGAATCCCAGGAGCTCGCGCAGACGCGCGTtct < 2:1068982/76‑1 (MQ=255)
agaTAACTTGAGTCACCATTTTNNGCTCATCCTGNNGCAGCGGGGAACCCGGCAGCTCGCGCAGACGCGCGTtctc < 1:1257529/76‑1 (MQ=255)
aTAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCt < 2:465345/76‑1 (MQ=255)
aTAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCt > 2:151092/1‑76 (MQ=255)
tAACCTGACTCTCCATTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTg < 2:540929/76‑1 (MQ=255)
tGATTCACCATTTTCTGCTCATCCTGACGCAGCGGGGAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGt < 2:146113/76‑1 (MQ=255)
tGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCCGACGCGCGGTCTCCTGTTTGt > 2:175733/1‑76 (MQ=255)
tGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGt > 1:1129354/1‑76 (MQ=255)
gTCACCATTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTAtt < 2:980311/76‑1 (MQ=255)
aCCATTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGGTCTCCTGtttgttttgtt > 1:914104/1‑75 (MQ=255)
cgttttCGGATAATCCGGAAGCAGCGGGAAACCAATGATCTCGCGCAGACGAGCGTGCTCATGTTTGTATTGTACa < 2:727199/74‑1 (MQ=255)
cATTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCa < 2:727225/76‑1 (MQ=255)
cATTTTCTGCTCATCCTGACGCAGCAGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTATCCa < 2:1374460/76‑1 (MQ=255)
aTTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCaa < 1:557351/76‑1 (MQ=255)
aTTTTCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCaa > 2:576198/1‑76 (MQ=255)
ttttCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCAAg < 2:504701/76‑1 (MQ=255)
tttCTGCTCATCCTGACGCAGCGGGAAACCCAGNAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCAAGc > 2:1182487/1‑76 (MQ=255)
tttCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTTCTGTTTGTATTGTCCAAga > 2:990498/1‑75 (MQ=255)
tttCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCAAGc > 2:307526/1‑76 (MQ=255)
tttCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCAAGc < 1:907120/76‑1 (MQ=255)
tttCTGCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGGTCTCCTGTTTGTATTGTCCCAGc > 1:311829/1‑76 (MQ=255)
gCTCATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCAAGCATcag > 2:855425/1‑76 (MQ=255)
cATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCAAGCATcagcag < 2:141950/76‑1 (MQ=255)
cATCCTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCAAGCATcagcag < 1:296232/76‑1 (MQ=255)
aTCCTGACGCAGCGGGAAACCNAGCAGNTCGTGCAGACGCGAGTTCTCNTGCGTGTATTGCCCGACCATCTGCAGt > 1:1357094/1‑76 (MQ=255)
ccTGACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCAAGCATCAGCAGTTc < 1:1197687/76‑1 (MQ=255)
gACGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCAAGCATCAGCAGTTCACt < 1:601660/76‑1 (MQ=255)
cGCAGCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCAAGCATCAGCAGTTCACTGt < 2:685587/76‑1 (MQ=255)
gccgCGGGAAACCCGGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCAAGCATCAGCAGTTCACTGtt < 2:46541/73‑1 (MQ=255)
gCGGGAAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCAAGCATCAGCAGTTCACTGttttt > 1:482737/1‑76 (MQ=255)
cGGGAAACCCAGCANCTCGCGCAGACGCACGTTCNCCTGTCTGNATTGTCCAAGCATCAGCAGCTCACTGTTTTTc < 2:1158209/76‑1 (MQ=255)
gggaAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCAAGCATCAGCAGTTCACTGTTTTTCa < 1:552239/76‑1 (MQ=255)
|
ATCGCTATAAGGATCGTTAACCGTGGAGATAACCTGAGTCACCATTTTCTGCTCATCCTGACGCAGCGGGGAACCCAGCAGCTCGCGCAGACGCGCGTTCTCCTGTTTGTATTGTCCAAGCATCAGCAGTTCACTGTTTTTCA > REL606/3327471‑3327613
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
