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 |
|
A1 F2 I228 R1
|
214 |
26.5 |
1448192 |
97.1% |
1406194 |
86.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,034,572 |
T→G |
Q74H (CAA→CAC) |
mobB ← |
molybdopterin‑guanine dinucleotide biosynthesis protein MobB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,034,572 | 0 | T | G | 97.1%
| 110.2
/ ‑4.3
| 34 | Q74H (CAA→CAC) | mobB | molybdopterin‑guanine dinucleotide biosynthesis protein MobB |
| Reads supporting (aligned to +/- strand): ref base T (1/0); new base G (11/22); total (12/22) |
| Fisher's exact test for biased strand distribution p-value = 3.53e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
CAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGTTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCA > NZ_CP009273/4034488‑4034651
|
cAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGTTgctg > 1:476813/1‑90 (MQ=255)
cAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTgctg > 2:714286/1‑90 (MQ=255)
cAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTgctg > 1:65564/1‑90 (MQ=255)
tATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGa < 2:464732/90‑1 (MQ=255)
tATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGa < 1:709037/90‑1 (MQ=255)
aTCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGAt > 1:562531/1‑90 (MQ=255)
ttCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGttt > 2:4837/1‑90 (MQ=255)
ttCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGttt > 1:86849/1‑90 (MQ=255)
gagaAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGcc < 2:72440/90‑1 (MQ=255)
gagaAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGcc < 1:36458/90‑1 (MQ=255)
gagaAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGcc < 2:499041/90‑1 (MQ=255)
gTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTgc > 2:716838/1‑90 (MQ=255)
aGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTgcgc < 2:86849/90‑1 (MQ=255)
aGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTgcgc < 1:221407/90‑1 (MQ=255)
aGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTgcgc < 2:255017/90‑1 (MQ=255)
aGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTgcgc < 1:592405/90‑1 (MQ=255)
cAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTc < 2:430706/90‑1 (MQ=255)
aGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCt > 1:694721/1‑79 (MQ=255)
aGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCt < 2:694721/79‑1 (MQ=255)
aGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCa > 2:311101/1‑90 (MQ=255)
tGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGcc < 1:647515/60‑1 (MQ=255)
tGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGcc > 2:647515/1‑60 (MQ=255)
gtgtTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTg < 2:355268/90‑1 (MQ=255)
gtTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGc > 1:459981/1‑90 (MQ=255)
tttCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCt < 2:156396/90‑1 (MQ=255)
tcatcaAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCaa < 1:357590/90‑1 (MQ=255)
tcatcaAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCaa < 1:360993/90‑1 (MQ=255)
catcaAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAAc < 1:396841/90‑1 (MQ=255)
atcaAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACa < 2:257024/90‑1 (MQ=255)
atcaAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACa < 1:410148/90‑1 (MQ=255)
tcaAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACAt > 1:558591/1‑90 (MQ=255)
caAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATc < 2:65564/90‑1 (MQ=255)
caAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATc < 1:75458/90‑1 (MQ=255)
aGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCa < 1:435233/90‑1 (MQ=255)
|
CAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGTTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCA > NZ_CP009273/4034488‑4034651
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GAATCAAATCCAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGTTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATGGTGCGTATGCTTA > NZ_CP009273/4034478‑4034671
|
GAATCAAATCCAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGTTGCTG > SRR3722112.483635/1‑100 (MQ=60)
GAATCAAATCCAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTG > SRR3722112.66353/1‑100 (MQ=60)
GCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGAT > SRR3722112.571065/1‑100 (MQ=60)
GAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTT > SRR3722112.87926/1‑100 (MQ=60)
TATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGC < SRR3722112.720123/100‑1 (MQ=60)
cagatgtgtataagagacagCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGC < SRR3722112.657604/80‑1 (MQ=60)
GAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGC < SRR3722112.36906/100‑1 (MQ=60)
CTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCC > SRR3722112.705570/1‑100 (MQ=60)
AGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGC < SRR3722112.224069/100‑1 (MQ=60)
AGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGC < SRR3722112.601452/100‑1 (MQ=60)
TTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGC > SRR3722112.466479/1‑100 (MQ=60)
GTTTCCGTCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACAT > SRR3722112.567057/1‑100 (MQ=60)
TCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATC < SRR3722112.365613/100‑1 (MQ=60)
TCATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATC < SRR3722112.362153/100‑1 (MQ=60)
CATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCA < SRR3722112.402053/100‑1 (MQ=60)
CATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGGGCCGCGCCAGCCGTGCGCAGCTCCTAGCTATCTTTGCCTGnnnnnnnnnnnnnnnnnnnn > SRR3722112.557706/1‑80 (MQ=60)
ATCAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCAT < SRR3722112.415575/100‑1 (MQ=60)
CAAGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATGG < SRR3722112.76375/100‑1 (MQ=60)
AGGCCCATCGGTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATGGTG < SRR3722112.441205/100‑1 (MQ=60)
GTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATGGTGCGTATGCTTA > SRR3722112.294864/1‑100 (MQ=60)
GTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATGGTGCGTATGCTTA > SRR3722112.449069/1‑100 (MQ=60)
GTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATGGTGCGTATGCTTA > SRR3722112.201171/1‑100 (MQ=60)
|
GAATCAAATCCAGCTTTGAGGTATCCATTCGACTTGCGAGAAACTGTAGATCCAGCTCTTCTTCGTCTGGTGTTTCCGTCATCAAGGCCCATCGTTGCTGGCTGGCAACGATGGTTTGTGCCGCGCCAGCCTTGCGCAGCTCATAGCTATCTTTGCCTGGCTTATCAACATCCATATCATGGTGCGTATGCTTA > NZ_CP009273/4034478‑4034671
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
