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 |
|
A2 F1 I1 R1
|
14 |
24.7 |
1576304 |
96.5% |
1521133 |
75.8 |
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) | 31 (1.320) |
27/144 |
0.1 |
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) | 23 (0.980) |
22/144 |
0.2 |
100% |
noncoding (1343/1343 nt) |
IS186 |
repeat region |
| ? | REL606 |
4524522 = |
0 (0.000) | coding (494/549 nt) |
fimA |
major type 1 subunit fimbrin (pilin) |
GTTATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ < REL606/2772931‑2772854
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gggTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGTTGTTTCT < REL606/4524527‑4524457
GTTATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATG > 2:622723/1‑76
GTTATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATG > 1:588464/1‑76
GTTATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATG < 1:448086/76‑1
TTATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGG < 2:37974/76‑1
tgTCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGG < 1:15043/74‑1
TATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGG > 2:54546/1‑76
TATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAATTAGCGCTTATGGG > 2:510644/1‑76
TCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTT > 2:732290/1‑76
GTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGC > 2:621325/1‑76
TAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCG > 1:442961/1‑76
CATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGC > 2:321584/1‑76
attGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCA < 1:376045/73‑1
ACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAA > 1:368334/1‑76
GTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACG > 2:567157/1‑76
TTAAATCATATCAGGCGTAATACCCCAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGC > 2:151645/1‑76
AATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCC > 2:405341/1‑76
TCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATCGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTG > 1:508874/1‑76
CATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCGGGTTGCAAAATAACGCGCCTGG > 1:570196/1‑76
aaATCAGGCTGAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGA > 2:101503/3‑76
ATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGA > 1:739938/1‑76
AGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGA > 2:397879/1‑76
AGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGA > 1:418879/1‑76
GTAATACCACAACCCTTAAGTTANCGCTTATNGNTTGCGGCCCCGTTTGCAAAATAACTCCCCTCGAACGGAATGG > 1:724446/1‑76
GTAATACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGG < 1:54771/76‑1
ACCACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTG < 1:408676/76‑1
ACAACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTT > 1:243115/1‑76
AACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCC < 1:273111/76‑1
AACCCTTAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCC > 2:387514/1‑76
TAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACTGAATGGTATTGGTTCCGTTATT < 1:54546/76‑1
TAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGA > 2:300583/1‑56
TAAGTTAGCGCTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGA < 1:300583/56‑1
GTTAGCGCTTATGGGTTGGGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAG < 1:607341/76‑1
CTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGTTGTT > 2:366986/1‑76
CTTATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGTTGTT < 1:261315/76‑1
TATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGTTGTTTC < 1:151706/76‑1
ATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGTTGTTTCT < 1:762979/76‑1
ATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGTTGTTTCT > 1:133121/1‑76
ATGGGTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTAATGGTTCCGTTATTCAGGGTTGTTTCT < 1:695263/76‑1
GTTATCGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ < REL606/2772931‑2772854
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gggTTGCGGCCCCGGTTGCAAAATAACGCGCCTGGAACGGAATGGTATTGGTTCCGTTATTCAGGGTTGTTTCT < REL606/4524527‑4524457
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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
