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 |
|
A14 F56 I20 R2
|
1958 |
92.1 |
3575798 |
91.1% |
3257551 |
126.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
CP006881 |
2,198,177 |
A→G |
intergenic (‑40/+35) |
U712_11010 ← / ← U712_11015 |
Chorismate synthase/Chemotaxis protein methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP006881 | 2,198,177 | 0 | A | G | 96.9%
| 89.4
/ NA
| 32 | intergenic (‑40/+35) | U712_11010/U712_11015 | Chorismate synthase/Chemotaxis protein methyltransferase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (22/9); minor base T (1/0); total (23/9) |
| 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 |
GATATCTTCCTCCGTTATGTAAAGCCCGGCAGGCACACCTTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAAACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGAGCCAGGCCAAATTTCTCCGGATTGAAGATTTGCTCGGTGCTGCCGACAAATAGGACTCCATT > CP006881/2198042‑2198307
|
gATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGTCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGac < 5:174228/138‑1 (MQ=255)
tGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCGTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATAttttt > 3:379362/1‑138 (MQ=255)
cccGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATATCATGACTTGTTCTCCCTTCATACCAATAACGCTTTTAATTAAGACTACTATAACATATTTTTCAGCaaa > 7:357518/1‑138 (MQ=255)
ggcaggtaCACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTTAATTTCTCATGACTTATTGTACCTTGATAGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAagt > 4:168790/1‑139 (MQ=255)
ggcaggtaCACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAagt > 8:243000/1‑139 (MQ=255)
ctCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTCAAATATCTCATGAAGTCTTGTCCCTTCATCGCATTAACGCTTTTTAGTAAGCATACTATAACATATTTTTCAGCAAAAAGTCATTGTATAttt > 5:368623/2‑139 (MQ=255)
aataatGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTATCCCTTCTTCGCATTAAAGCTTTTAATTAAGACTACTATAACATATATTTACGCAAAAAGTCAGTCTATCtttttt > 5:177379/1‑139 (MQ=255)
tGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATATCATTACTTATTCGCCCTTCATAGCATTAACGCTTTTTAGTAAGAATACTATAACATATTTTTAAGCAAAAAGTCAGTCTATATTTTTTGATa > 2:231756/1‑138 (MQ=255)
ttGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATaa > 7:326692/1‑136 (MQ=255)
tGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAg > 4:184406/1‑138 (MQ=255)
gTCAGTTGGGGGCCGTGTGGTTGTCCGGCGGTTTAATATCTCATGGCTTCTTCTCCCGTCATAGCATTTACGCGTTTAAGTTAGACTACTATAACATATTTTTAAGCAAAAAGTCAGTCTATATTTTTTGTTAAAATaa > 6:364503/1‑139 (MQ=255)
gTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATATCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAATACTAAGATAACATATTTTTGAGCAAAAATTCAGTCTATCTTTTTTGTTAAAAGaa > 8:343875/1‑139 (MQ=255)
gTCAGTTGGGGGCCGTGTGATTATACGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGaa > 1:39613/1‑139 (MQ=255)
gTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTa < 3:184406/139‑1 (MQ=255)
tgtgATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCACTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTgggac < 1:69437/139‑4 (MQ=255)
cGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTgggac < 4:172289/129‑4 (MQ=255)
cGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTgggac > 3:172289/1‑126 (MQ=255)
cGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAAt > 8:282002/1‑139 (MQ=255)
gCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAAtt > 1:178772/1‑138 (MQ=255)
tGTTAAATATCTCATGACTTCTACACCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTAAGCAAAAAGTCAGACTAGCTTTTTTGATAAAAGAAAGTATCTGATGGTACAACGCAAAATTtct > 8:405160/1‑139 (MQ=255)
tctcATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAATTTCTCGGGATTg < 4:379362/138‑1 (MQ=255)
cATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAATTTCTCGGGATTg > 2:134173/1‑135 (MQ=255)
cttctCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAATTTCTCGGGATTGAAGATTTGCt < 2:178772/137‑1 (MQ=255)
cttctCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAATTTCTCGGGATTGAAGATTTGCTCg > 8:239346/1‑139 (MQ=255)
cttctCCATTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAATTTCTCGGGATTGAAGATTTGCt < 5:28367/137‑1 (MQ=255)
ttctCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAATTTCTCGGGATTGAAGATTTGCTCgg > 6:313704/1‑139 (MQ=255)
ttCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAATTTCTCGGGATTGAAGATTTGCTCGGTGCTGcc > 7:154119/1‑139 (MQ=255)
cATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAATTTCTCGGGATTGAAGATTTGCTCGGTGCTGCCGACaaaa < 7:282002/139‑2 (MQ=255)
ttAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAATTTCTCGGGATTGAAGATTTGCTCGGTGCTGCCGACAAAAAGAACTCCAtt > 5:153629/1‑139 (MQ=255)
ttAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAATTTCTCGGGATTGAAGATTTGCTCGGTGCTGCCGACAAAAAGAACTCCAtt > 2:29975/1‑139 (MQ=255)
ttAAGTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAATTTCTCGGGATTGAAGATTTGCTCGGTGCTGCCGACAAAAAGAACTCCAtt > 1:433449/1‑139 (MQ=255)
taagtaagTCTATTTTAACATATTTTTCAGAATAAAGTCAGTATTTCTTTTTTGATAAAAGAATGTAGCGGCTGGGTCTAGGCCATATTTCTGGGGATTGAAGATTTGCTCGGTGCTGCCGACAAATAGAACTGCAtt < 5:200524/138‑1 (MQ=255)
taagtaagACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAATTTCTCGGGATTGAAGATTTGCTCGGTGCTGCCGACAAAAAGAACTCCAtt < 8:154119/138‑1 (MQ=255)
taagtaagACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAATTTCTCGGGATTGAAGATTTGCTCGGTGCTGCCGACAAAAAGAACTCCAtt < 1:231756/138‑1 (MQ=255)
tAATTAAGACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGGACTAGGCCAAATTTCTCGGGATTGAAGATTTGCTCGGTGCTGCCGACAAAAAGAACTCCAtt < 8:357518/138‑1 (MQ=255)
|
GATATCTTCCTCCGTTATGTAAAGCCCGGCAGGCACACCTTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAAACTACTATAACATATTTTTCAGCAAAAAGTCAGTCTATCTTTTTTGATAAAAGAATGTATCGGCTGGAGCCAGGCCAAATTTCTCCGGATTGAAGATTTGCTCGGTGCTGCCGACAAATAGGACTCCATT > CP006881/2198042‑2198307
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
