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 |
|
A20 F1 I1 R1
|
17 |
44.7 |
2849266 |
96.8% |
2758089 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,202,405 |
+A |
coding (155/825 nt) |
iclR ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,202,405 | 1 | . | A | 93.8%
| 173.3
/ 3.8
| 48 | coding (155/825 nt) | iclR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base . (2/1); new base A (24/21); total (26/22) |
| 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 |
CCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTT‑GTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTAATTTCAGGCCA > REL606/4202330‑4202473
|
ccGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCtt < 2:897983/76‑1 (MQ=255)
ccGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCtt < 1:583580/76‑1 (MQ=255)
cGACCTGACGCACGCAACCCTGCTATTGCATNGTGGTTAGCAGGCGNTGGGTNGTGGAATTGGGTAGCCCGGCtta < 2:180974/76‑2 (MQ=255)
aCCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCttagt > 2:1121833/1‑73 (MQ=255)
tGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTgc > 1:914381/1‑76 (MQ=255)
tGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTgc > 1:659383/1‑76 (MQ=255)
aCGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTgcgc < 1:1229670/76‑1 (MQ=255)
cACGAAACCCTGCTGTTGCATTCTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAg > 1:7730/1‑76 (MQ=255)
cGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTT‑GTTGCGCCAGTTc > 1:1027169/1‑76 (MQ=255)
aaaCCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTcc < 1:747485/76‑1 (MQ=255)
aCCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGt < 1:1067833/76‑1 (MQ=255)
cccTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTg < 2:1004671/76‑1 (MQ=255)
ctgctgTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAg > 2:952819/1‑76 (MQ=255)
ctgTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGc > 1:1003720/1‑76 (MQ=255)
ttGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCcac < 1:919154/76‑1 (MQ=255)
atacATTGTGGTTNGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCcac < 1:181090/73‑1 (MQ=255)
tGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCcaca > 2:595418/1‑76 (MQ=255)
gCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCacac < 2:845088/76‑1 (MQ=255)
cATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACt < 1:702334/76‑1 (MQ=255)
aTTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTg < 1:1200194/76‑1 (MQ=255)
aTTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTg < 2:417303/76‑1 (MQ=255)
ttGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGc > 1:231066/1‑76 (MQ=255)
ggTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCAAtt < 1:1107646/76‑1 (MQ=255)
gCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGAtt < 2:1104245/76‑1 (MQ=255)
gCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGAtt < 2:581530/76‑1 (MQ=255)
aGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCg > 1:726723/1‑76 (MQ=255)
aGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCg > 2:430238/1‑76 (MQ=255)
aGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTT‑GTTGCGCGAGTTCCGTGAGTGCCACACTGCCATTGGATTCgg > 2:133085/1‑76 (MQ=255)
gCGGTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGc < 1:1098070/76‑1 (MQ=255)
gTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAAt > 1:1019641/1‑76 (MQ=255)
gTGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAAt < 1:209274/76‑1 (MQ=255)
tGGGTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATc > 2:870677/1‑76 (MQ=255)
ggTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCa > 1:827190/1‑76 (MQ=255)
ggTCGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGAATTCGGCAATCCa < 1:93004/76‑1 (MQ=255)
cGTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTc > 2:977807/1‑76 (MQ=255)
gTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTcc > 2:1064201/1‑76 (MQ=255)
gTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTcc > 1:1259078/1‑76 (MQ=255)
gTGGAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTCCCATTGGATTNGGCAATCCAccct > 1:186058/1‑73 (MQ=255)
tGGAATTGGGTAACCCGGNTTAGTTGCGCCAGTTCCGTGAGTGCCAGACTGCCATTGGATTCGGCAATCCACTCCa > 1:1351843/1‑76 (MQ=255)
ggAATTGGGTAACCCGGCTTAGCTGCGCCAGTTCCGTGAGTGCCACACTGCCATCGGATTCTGCAATCCACTCCAg > 2:206903/1‑76 (MQ=255)
gAATTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGt < 2:765347/76‑1 (MQ=255)
gAATTGGGTAACCCGGCTT‑GTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCNACTCCAGTa < 1:37858/76‑1 (MQ=255)
aaTTGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTa > 2:757765/1‑76 (MQ=255)
ttGGGTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTAAt > 1:1014564/1‑76 (MQ=255)
gggTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTAAttt < 1:972959/76‑1 (MQ=255)
gTAACCCGGCTTAGTTGTGCCNCTTCCNTGAGTGCCACACTGCCATTGNATACGGCAATCTACCCAAGTACTTTCa > 1:1378157/1‑76 (MQ=255)
gTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTAATTTCa > 2:258818/1‑76 (MQ=255)
gTAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTAATTTCa < 1:755100/76‑1 (MQ=255)
tAACCCGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTAATTTCAg > 2:684391/1‑76 (MQ=255)
aaCCCGGCTTAGTTGCGCCAGTTCCGTGAGAGCCACACTGCCATTGGATTCGGCAATCCACTNCAGTAATTTCAgg > 2:1294574/1‑76 (MQ=255)
cccGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTAATTTCAGGcc < 2:827190/76‑1 (MQ=255)
ccGGCTTAGTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTAATTTCAGGCCa < 2:1065492/76‑1 (MQ=255)
|
CCGACCTGACGCACGAAACCCTGCTGTTGCATTGTGGTTAGCAGGCGGTGGGTCGTGGAATTGGGTAACCCGGCTT‑GTTGCGCCAGTTCCGTGAGTGCCACACTGCCATTGGATTCGGCAATCCACTCCAGTAATTTCAGGCCA > REL606/4202330‑4202473
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
