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 |
| JC JC |
REL606 |
4,524,522 |
IS186 (+) +6 bp |
coding (494‑499/549 nt) |
fimA → |
major type 1 subunit fimbrin (pilin) |
|
| |
seq id |
position |
reads (cov) |
reads (cov) |
score |
skew |
freq |
annotation |
gene |
product |
| * |
? |
REL606 |
2772854 = | NA (NA) | 28 (0.860) |
26/144 |
0.3 |
100% |
noncoding (1/1343 nt) |
IS186 |
repeat region |
| ? | REL606 |
= 4524527 |
0 (0.000) | coding (499/549 nt) |
fimA |
major type 1 subunit fimbrin (pilin) |
| * |
? |
REL606 |
= 2774196 | NA (NA) | 32 (0.990) |
28/144 |
0.2 |
96.7% |
noncoding (1343/1343 nt) |
IS186 |
repeat region |
| ? | REL606 |
4524522 = |
1 (0.030) | coding (494/549 nt) |
fimA |
major type 1 subunit fimbrin (pilin) |
GTTATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ < REL606/2772931‑2772854
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gggTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGTTGTTTCTGAA < REL606/4524527‑4524454
GTTATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATG > 2:1069786/1‑76
GTTATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATG > 2:819970/1‑76
TTATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGG > 2:255657/1‑76
TTATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGG < 1:663212/76‑1
TTATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGG < 2:652919/76‑1
TATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGG > 2:924421/1‑76
ATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGn > 1:942482/1‑75
TCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTT > 1:254353/1‑76
TGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAGCCCTTAAGTTAGCGCTTATGGGTTGCG > 1:650043/1‑76
TAATTCATCGGCACGTTAAATCANATCAGGCNTNATACCATAACCGTGAAGTTAGCGCGTCTGGCTTGCGGCCCCG > 1:1001882/1‑76
GGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAA < 1:601354/76‑1
CACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATAGGTTGCGGCCCCGGTTGCAAAATA > 2:802499/1‑76
GTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACG > 2:476162/1‑76
ATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGA < 1:638995/76‑1
ATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAAC < 2:64321/76‑1
CAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGG > 2:316169/1‑76
GCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGAAAAATAACGCGCCTGGAACGGAAT < 2:194052/76‑1
TAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGT > 2:1074505/1‑76
AATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTA > 2:214741/1‑76
ACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGACTGGTATTGGTT > 2:593554/1‑76
CCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGT < 1:472731/76‑1
CCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTT > 1:612679/1‑76
TTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTAT < 2:734588/76‑1
TAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATT < 2:861715/76‑1
aaaTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTC < 1:510603/73‑1
AAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTC > 2:4775/1‑76
GTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAG < 2:802700/76‑1
TTAGTGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGG > 2:376888/1‑76
TTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATTGTATTGGTTCCGTTATTCAGG < 1:462595/76‑1
AGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGT > 1:408673/1‑76
AGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTAGAACGGAATGGTATTGATTCCGTTATTCAGGGT > 2:727289/1‑76
GCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGTT < 1:557234/76‑1
TATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGTTGTTTC > 1:476494/1‑76
ATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGTTGTTTCT < 1:380417/76‑1
TGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGTTGTTTCTG > 2:1036353/1‑76
GGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGCGTTGGTTCCGTTATTCAGGGTTGTTTCTGA < 1:1063841/76‑1
GGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGTTGTTTCTGAA < 1:487127/76‑1
GGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGTTGTTTCTGAA > 2:418067/1‑76
GTTATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ < REL606/2772931‑2772854
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gggTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGTTGTTTCTGAA < REL606/4524527‑4524454
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
| Reads not counted as support for junction |
|---|
| read_name Not counted due to insufficient overlap past the breakpoint. |
| read_name Not counted due to not crossing MOB target site duplication. |
GATK/CNVnator alignment
N/A
