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 F107 I1 R1
|
18 |
40.8 |
1464626 |
91.1% |
1334274 |
142.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,600,870 |
Δ2 bp |
coding (393‑394/471 nt) |
bcp → |
peroxiredoxin; thiol peroxidase, thioredoxin‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,600,868 | 0 | A | . | 97.6%
| 175.1
/ ‑2.2
| 42 | coding (391/471 nt) | bcp | peroxiredoxin; thiol peroxidase, thioredoxin‑dependent |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base . (19/22); total (20/22) |
| Fisher's exact test for biased strand distribution p-value = 4.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.70e-01 |
| * | NC_000913 | 2,600,869 | 0 | A | . | 97.6%
| 178.1
/ ‑2.0
| 42 | coding (392/471 nt) | bcp | peroxiredoxin; thiol peroxidase, thioredoxin‑dependent |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base . (19/22); minor base C (1/0); total (20/22) |
| Fisher's exact test for biased strand distribution p-value = 4.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.70e-01 |
AGAGCTGCTTAACTTTACGCTCCTGTCTGATGAGGACCACCAGGTGTGCGAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGCAAAATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCTGATTACTTTGCTCCATTCCGTGCTGGCTGCGCTTGCGGCCAGCATACCTCACTTCTC > NC_000913/2600729‑2601003
||
agagCTGCTTAACTTTACGCTCCTGTCTGATGAGGACCACCAGGTGTGCGAACAATTCGGCGTCTGGGGCGACAAGTCCTTCGTGGGCAAAACCTCCGATGGCATTCCTCTCATCAGCTTCCTGATTGACGCTGATGCCactc > 1:632923/1‑140 (MQ=255)
gctgcgTAACTCTACGCTCCTGTCTGGTGAGGACCACCAGGTGTGCGAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGCaatcgaa < 2:287035/143‑6 (MQ=255)
cTTTACGCTCCTGTCTGATGAGGACCACCAGGTGTGCGAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCttt > 2:47032/1‑143 (MQ=255)
tgaCGCCCCTGTCTGATGAGGACCACCAGGTGTGCGAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAGCCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGa < 2:541755/141‑1 (MQ=255)
tCCTGTCTGATGAGGACCACCAGGTAGGGGAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGAttt > 2:639547/1‑143 (MQ=255)
cTGTCTGATGAGGACCACCAGGTGTGCGAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCa < 1:83562/143‑1 (MQ=255)
cTGTCTGATGAGGACCACCAGGTGTGCGAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCa < 2:652801/143‑1 (MQ=255)
tGTCTGATGAGGACCACCAGGTGTGCGAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATAGCATCAGCTGCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCaa > 2:653083/1‑143 (MQ=255)
gatgaGGACCACCAGGTGTGCGAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGACAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCa < 1:460079/143‑1 (MQ=255)
gatgaGGACCACCAGGTCTGCGAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCa < 2:555682/143‑1 (MQ=255)
atgaGGACCACCAGGTGTGCGAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AACCGAACATGTCTTTGACGATTTCAAACCCAg > 1:551799/1‑143 (MQ=255)
gaGGACCACCAGGTGTGCGAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCa > 1:190304/1‑143 (MQ=255)
gACCACCAGGTGTGCGAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATc > 1:211085/1‑143 (MQ=255)
aGGTGTGCGAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCacga > 1:41533/1‑143 (MQ=255)
gAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGAT‑‑AACAATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACAACGTTGTGc > 1:613055/1‑143 (MQ=255)
aaCAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCt < 1:204517/143‑1 (MQ=255)
accactCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTg < 2:537119/138‑1 (MQ=255)
aCAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGTGCAAAACCTGCGATGGCATTCATCGCATCAGATTCCTGAGTGTCGCGACTGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGGCATTGGGCTg > 2:539119/1‑143 (MQ=255)
actgcggcggCTGGGGTGACGAGTCCTTCATGGGCAAACCCTACGATGGCATACCTCGCAACAGCTTGCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCTGCAATCACCTCGACGTTGTGCTGaa < 2:314700/139‑1 (MQ=255)
cGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTCCGGTGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGCACATGTCTTTGACGATTTCAAACCCAGCAATCACCACGACGTTGTGCTGAACTgg < 1:223345/143‑1 (MQ=255)
ggCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCAGTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGc < 2:347046/143‑1 (MQ=255)
gCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACGACGACGTTGTGCTGAACTGGCt > 1:171439/1‑143 (MQ=255)
gTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTgt > 1:629042/1‑142 (MQ=255)
gTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCGGAAAGAgca > 1:512408/1‑143 (MQ=255)
tGAAAAGTCGTTCATGGGCAAAACCTACGATGGCAGTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAacac < 1:295698/143‑1 (MQ=255)
tGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGCACTGGCTGAAAGAacac < 1:671180/143‑1 (MQ=255)
gtgcccccATGGCCAAACCCTCAGATGGCATTCATCGCAGTAGCTTCCTTAGTGACGCTGATGGC‑‑AATCGCACATGTCTTTGACGATTTCAACACCAGCTATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCTg < 2:537679/136‑1 (MQ=255)
aGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCTg < 1:94384/143‑1 (MQ=255)
tCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑GATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCTGAt > 2:11327/1‑143 (MQ=255)
cTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGGCTGCTTa > 1:205561/1‑143 (MQ=255)
ttCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGCTGTGCTGAACTGGCTGAAAGAAGACGCCTGACTAc > 2:471588/1‑143 (MQ=255)
cAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGACCTGAATTGAAGAACGCGCCTGATTACTTTGCTcc > 1:195542/1‑143 (MQ=255)
tGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCTGATTACTTTGCTCCATTCCGTgctgg < 1:298445/143‑1 (MQ=255)
cATTCATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCTGATTACTTTGCTCCATTCCGTgctggctg > 1:101254/1‑143 (MQ=255)
cATCGCATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCCGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCTGATTACTTTGCTCCATTCCGGGCTGGCTGCGCt > 1:230185/1‑143 (MQ=255)
cATCAGCTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCTGATTACTTTGCTCCATTCCGTGCTGGCTGCGCTTGCgg < 1:109548/143‑1 (MQ=255)
gCTTCCTGATTGACGCTGATGGC‑‑CATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCTGATTACTTTGCTCCATTCCGTGCTGGCTGCGCTTGCGGCCAGc < 2:278895/143‑1 (MQ=255)
cTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCTGATTACTTTGCTCCATTCCGTGCTGGCTGCGCTTGCGGCCAGCa < 2:101254/143‑1 (MQ=255)
cTTCCTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCTGATTACTTTGCTCCATTCCGTGCTGGCTGCGCTTGCGGCCAGCa < 1:47032/143‑1 (MQ=255)
ccTGATTGACGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCCGATTCCTCTGCTCCATGCCGTGCTGGCTGCGCTTGCGGCCACCacac > 2:721751/1‑143 (MQ=255)
tGATTGACGCTGATGGC‑‑GATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCTGATTACTTTGCTCCATTCCGTGCTGGCTGCGCTTGCGGCCAGCATACCt < 1:11327/143‑1 (MQ=255)
aCGCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGCACCCGCCTGATTACTTTGCTCCGTTCCGTGCTGGCAGCGCATGCGGACAGCATACCTCACtta > 1:32924/1‑142 (MQ=255)
gCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCTGATTACTTTGCTCCATTCCGTGCTGGCTGCGCTTGCGGCCAGCATACCTCACTtctc < 1:347777/143‑1 (MQ=255)
gCTGATGGC‑‑AATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCTGATTACTTTGCTCCATTCCGTGCTGGCTGCGCTTGCGGCCAGCATACCTCACTtctc < 1:347208/143‑1 (MQ=255)
||
AGAGCTGCTTAACTTTACGCTCCTGTCTGATGAGGACCACCAGGTGTGCGAACAATTCGGCGTCTGGGGTGAAAAGTCCTTCATGGGCAAAACCTACGATGGCATTCATCGCATCAGCTTCCTGATTGACGCTGATGGCAAAATCGAACATGTCTTTGACGATTTCAAAACCAGCAATCACCACGACGTTGTGCTGAACTGGCTGAAAGAACACGCCTGATTACTTTGCTCCATTCCGTGCTGGCTGCGCTTGCGGCCAGCATACCTCACTTCTC > NC_000913/2600729‑2601003
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
