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 |
|
A69 F1 I1 R1
|
20 |
59.3 |
3764421 |
95.9% |
3610079 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| JC JC |
REL606 |
1,941,961 |
IS186 (–) +8 bp :: Δ2 bp |
coding (1853‑1860/2079 nt) |
flhA ← |
flagellar biosynthesis protein A |
|
| |
seq id |
position |
reads (cov) |
reads (cov) |
score |
skew |
freq |
annotation |
gene |
product |
| * |
? |
REL606 |
1857066 = | NA (NA) | 56 (0.950) |
46/150 |
0.2 |
100% |
noncoding (3/1343 nt) |
IS186 |
repeat region |
| ? | REL606 |
1941961 = |
0 (0.000) | coding (1860/2079 nt) |
flhA |
flagellar biosynthesis protein A |
| * |
? |
REL606 |
= 1941968 | 0 (0.000) | 60 (1.070) |
45/144 |
0.2 |
100% |
coding (1853/2079 nt) |
flhA |
flagellar biosynthesis protein A |
| ? | REL606 |
= 2774196 |
NA (NA) | noncoding (1343/1343 nt) |
IS186 |
repeat region |
CGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ < REL606/1857136‑1857066
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCAATAACATGGACTTC > REL606/1941961‑1942035
CGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTACGCAGTC < 2:1645175/76‑1
GTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCC < 2:1595675/76‑1
TGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCT > 2:1610211/1‑76
GAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTC < 1:1601721/76‑1
AGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCC > 1:72644/1‑76
GTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCC < 1:843309/76‑1
GTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCC < 1:499456/76‑1
TAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCG < 2:1864520/76‑1
AATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGC > 2:1041557/1‑76
AATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGC > 2:1041552/1‑76
AATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGC > 1:332825/1‑76
ATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCC < 1:1365732/76‑1
TCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCT < 2:1517618/76‑1
TCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCA < 1:549622/76‑1
CGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCGGTCCTCCCCCGCCCTGCAG < 2:843145/76‑1
CGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAG < 1:541057/76‑1
GGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGC < 1:463055/76‑1
CACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGC > 2:1501960/1‑76
CACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGC > 1:390370/1‑76
ACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCC > 1:671108/1‑76
GTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTG > 2:1496120/1‑76
GTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTG > 1:77092/1‑76
TTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGT < 1:1141090/76‑1
TTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGT > 2:847459/1‑76
ATCATATCAGGCGTAGTACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTA > 2:252922/1‑76
TCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAA < 2:1577743/76‑1
TCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAA > 1:1720364/1‑76
CATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAAC > 1:756841/1‑76
TATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAA > 2:1848798/1‑76
TATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAA < 1:1661767/76‑1
CAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACG > 2:878631/1‑76
GTAATACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCA < 2:1016968/76‑1
TACCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGG < 1:59382/76‑1
CCACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTG > 2:911251/1‑76
CACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGT > 2:1085831/1‑76
CACAACCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGGGT > 2:1801659/1‑76
CCCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGA > 2:850317/1‑76
CCTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAG < 1:918188/76‑1
CTTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGGATCGAGG > 2:755321/1‑76
TTAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGC > 1:172846/1‑76
TAAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCC < 1:632569/76‑1
AAGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCA > 1:62545/1‑76
AGTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCAA > 2:994722/1‑76
GTTAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCAAT < 1:1504390/76‑1
gTAGCGCTTATGCCGTCCGCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCAATA < 2:1604469/75‑1
TAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCAATAA > 1:1636962/1‑76
TAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCAATAA < 2:679658/76‑1
TAGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCAATAA > 1:1798327/1‑76
AGCGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCAATAAC > 1:1396602/1‑76
CGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTCTCGAGGCCAATAACAT > 1:1573435/1‑76
CGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCAATAACAT < 1:1076046/76‑1
CGCTTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCAATAACAT > 1:695672/1‑76
TTATGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCAATAACATGGA > 2:122197/1‑76
TGCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCAATAACATGGACTT > 1:1819299/1‑76
GCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCAATAACATGGACTTC > 2:1767192/1‑76
GCAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCAATAACATGGACTTC > 1:801384/1‑76
CGTGAGAGTAATTCATCGGCACGTTAAATCATATCAGGCGTAATACCACAACCCTTAAGTTAGCGCTTATG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ < REL606/1857136‑1857066
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CAGTCCTCCCCCGCCCTGCAGCGCCTGTAGTAACAAACGTTCCAGCGGTGTATCGAGGCCAATAACATGGACTTC > REL606/1941961‑1942035
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ 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
