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 |
|
A5 F1 I1 R1
|
19 |
34.1 |
2156969 |
96.4% |
2079318 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,519,066 |
T→G |
N192H (AAT→CAT) |
yjhA ← |
N‑acetylnuraminic acid outer membrane channel protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,519,066 | 0 | T | G | 90.7%
| 160.5
/ ‑0.5
| 44 | N192H (AAT→CAT) | yjhA | N‑acetylnuraminic acid outer membrane channel protein |
| Reads supporting (aligned to +/- strand): ref base T (0/4); new base G (26/13); total (26/18) |
| Fisher's exact test for biased strand distribution p-value = 1.93e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGACGGTCAAGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATTTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATAATCGTTCTGTTTGCTGTATAGCGTCGTTTGCCATG > REL606/4518993‑4519137
|
tGACGGTCAAGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCAtgtt < 1:683758/76‑1 (MQ=255)
tGACGGTCAAGGTAGTCATATTCTATGTATGGCGNAATATCGGGCGTCATANGACATTGTAGAACAAANGCAtgtt > 2:953948/1‑76 (MQ=255)
aCGGTCAAGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTcc < 1:298262/76‑1 (MQ=255)
tCAAGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCg > 1:714366/1‑76 (MQ=255)
cAAGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGc > 1:377952/1‑76 (MQ=255)
aaGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGcc > 1:807970/1‑76 (MQ=255)
aGGTAGTCATATACTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGccc > 1:485787/1‑76 (MQ=255)
cATATTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCtt > 1:842380/1‑76 (MQ=255)
atatTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTa > 2:64475/1‑76 (MQ=255)
atatTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTa > 1:195669/1‑76 (MQ=255)
tatTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCCTTTCTTAt > 1:30707/1‑76 (MQ=255)
atTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATg > 2:121968/1‑76 (MQ=255)
atTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATg < 1:395831/76‑1 (MQ=255)
atTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATg < 1:395834/76‑1 (MQ=255)
tCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGt > 2:528808/1‑76 (MQ=255)
tCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGt > 2:454015/1‑76 (MQ=255)
tatgtatgGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATTTTCCGTCGGCCATTTCTTATGGttt < 2:1075735/76‑1 (MQ=255)
tatgtatgGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGttt > 1:302414/1‑76 (MQ=255)
tatgtatgGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGttt > 2:649232/1‑76 (MQ=255)
atgtatgGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTg < 2:88731/76‑1 (MQ=255)
atgtatgACGTAATATCGGGCGTCATATGGTATTGTAGAACGAATGCNTGTTCCNTCGCCCATTTCTTATGCtttn > 1:905437/1‑75 (MQ=255)
tgtatgGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGc > 1:433926/1‑76 (MQ=255)
tatgGCGTAATATCGGTCGTCATATGGTATTGTAGAACAAATGCATTTTCCGTCGCCCATTTCTTATGGTTTGCAt < 2:727243/76‑1 (MQ=255)
tatgGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCAt > 1:623374/1‑76 (MQ=255)
tgGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAg < 1:1041000/76‑1 (MQ=255)
ggCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATTTTCCGTCGCCCATTTCTTATGCTTTGCATAGc < 1:146192/76‑1 (MQ=255)
gcgcAATATCGGGCGTCATATGGTAGTGTAGAACAAATGCATCTTCCGTCGCCCATTTCTTATGGTTTGCATAGCg < 2:924500/76‑1 (MQ=255)
gTAATATCGGGCGTCATATGGTANTCTAGAANANATGCATCTTCCATCGCCCATTTCTGAAGGTTTGCATAGCGAt > 1:997847/1‑76 (MQ=255)
tAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATa > 2:797532/1‑76 (MQ=255)
tAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATa < 1:643885/76‑1 (MQ=255)
tAATATCGGGCGTCATATGGTATTGTAGAACAAAGGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATa < 1:643881/76‑1 (MQ=255)
aaTATCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATaa < 2:151560/76‑1 (MQ=255)
atatCGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATAAt > 2:801809/1‑76 (MQ=255)
cGGGCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATAATCGtt > 1:525434/1‑76 (MQ=255)
gggCGTCATATGGTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATAATCGtta > 2:1034466/1‑75 (MQ=255)
tCATATGGTATTATAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATAATCGTTCTGttt > 2:158220/1‑76 (MQ=255)
cATATGGTATTGTAGAACTAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATAATCGTTCTGTTTg < 1:827786/76‑1 (MQ=255)
cATATGGTATTGTAGAACAAATGCATTTTCCGTCGCCCATTTCTTATGCTTTGCATAGCGATAATCGTTCTGTTTg < 1:106364/76‑1 (MQ=255)
cATATGGTATTGCAGAACCAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATAATCGTTCTGTTTg < 1:827773/76‑1 (MQ=255)
gTATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATAATCGTTCTGTTTGCTGtat < 2:673412/76‑1 (MQ=255)
tATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATAATCTCTCTGTTTGCTGtata > 1:204808/1‑76 (MQ=255)
tATTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATAATCGTTCTGTTTGCTGtata < 1:125984/76‑1 (MQ=255)
aTTGTAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATAATCGTTCTGTTTGCTGTGTAg > 1:156175/1‑76 (MQ=255)
gTAGAACAAATGCATGTNCCGTCGCCCATTTCTTATGGTTTGCATAGCGATNATCGATGTGAGAGCTGTATAGcgt > 2:893073/1‑76 (MQ=255)
tAGAACAAATGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATAATCGTTCTGTTTGCTGTTTAGcgtc < 1:689844/76‑1 (MQ=255)
cAAATGCATTTTCCGACGCCCATTTCTTATGGTTTGCATAGCGATAATCGTTCTGTTTGCTGTATAGCGTCGttca < 2:139069/76‑3 (MQ=255)
aaTGCATGTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATAATCGTTCTGTTTGCTGTATAGCGTCGTTTGcc > 1:206569/1‑76 (MQ=255)
gCATGTTCCGTCGCCCATTTCTTATGGTTTGCATACCGATAATCGTTCTGTTTGCAGTATAGCGTCGTTTGCCATg > 1:811587/1‑76 (MQ=255)
|
TGACGGTCAAGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACAAATGCATTTTCCGTCGCCCATTTCTTATGGTTTGCATAGCGATAATCGTTCTGTTTGCTGTATAGCGTCGTTTGCCATG > REL606/4518993‑4519137
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
