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 |
|
A25 F17 I0 R1
|
29 |
18.9 |
731312 |
88.2% |
645017 |
142.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
760,485 |
G→A |
100% |
G594S (GGC→AGC) |
sucA → |
subunit of E1(0) component of 2‑oxoglutarate dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 760,485 | 0 | G | A | 99.2%
| 39.5
/ ‑7.1
| 18 | G594S (GGC→AGC) | sucA | subunit of E1(0) component of 2‑oxoglutarate dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (8/9); minor base T (0/1); total (8/10) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GTTGAGATGAAGCGCCTGCAGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGGGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACCTTCTTCCACCGCCACGCGGTGATCCACAACCAGTCTAACGGTTCCACTTA > NC_000913/760350‑760621
|
agaatgaTGTAGCGTGTGTAGGAGCAGGCGAAACGCAGCAGCACGGTGCCGGAAGCAGTTGAAATGCAGGCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGc < 1:269682/138‑1 (MQ=255)
ttGAGATGAAGCGCCTGCAGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGCAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGACCCTGTTCGACTGGAGCGGTGCg > 1:35609/1‑143 (MQ=255)
aGCGCCTGCAGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAGATGCAGTCTCGCGTTGCCACGCTTTATGGCGACCGCCAGGCGACGGCTGCCGGCGTGAAACTGTTCGACAGGAGCGGTGCGGGACAccac > 2:178789/1‑141 (MQ=255)
gcgcCTGCGGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCg < 2:348977/143‑1 (MQ=255)
tGCAGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTAc < 2:151562/143‑1 (MQ=255)
cAGCACGGTGGCGGAAGCAGTTGAAATGCAGGCTCGCGGTGCCAAGATTTATGGCGAGCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCa < 2:194084/143‑1 (MQ=255)
cACGGTGCCGGAAGCAGCTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGCAACTGTTCGACTGGAGCGGTGCGGAAGACCTCGCTTACGCCACGCTGGCTGGTGAGGGCAGTc > 2:225390/1‑143 (MQ=255)
cGGAAGCAGGTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGc < 2:345175/143‑1 (MQ=255)
ggAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGAGCGGAAAACCTCGCTTACGCCACGCTGGTTGAGGAAGGCATTCCGGtgaccc > 2:39973/1‑138 (MQ=255)
ggAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCAACAACAGAGAAACTGCTCCACTGGAGCGGAGCGGAAAACCTCGCTTACGCCCCGCTGGCAGATGAAGGCACACCGGtcggca > 2:238220/1‑138 (MQ=255)
aaaTGCGGTCTCGCGTTGCCAAGATTTATGGCTATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGaa < 2:163752/143‑1 (MQ=255)
gTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACGCCg > 2:351949/1‑143 (MQ=255)
cgTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTcgcg > 1:171885/1‑143 (MQ=255)
cAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGATCGGTGCGGAAAACCTCACTTACGCCACGCTGATTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACct > 1:220404/1‑143 (MQ=255)
gCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCGCGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACCTTCTTCCACCGCCAcgcg < 2:289870/143‑1 (MQ=255)
gggCGGTGGCTGCCGGTGGGACGCGTTTCTGCGGGTGCTGTGCCGAAATCCGGGCTTGCGCCACGCTGGGTGATGGAGGCATTCCGGTTCGCCTGTCGGGTGAGGCCTCCAGGCGCGGTACCTTCTTCCACCGCCActttttc < 2:298386/142‑7 (MQ=255)
tGGCTCCCGGGCAGAAACTGTTCGACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCATGTCGGGTGAAGACTCCGGTCGCGGTACCTTCTTCCACCGCCACGCGGTGATCcac < 1:46918/143‑1 (MQ=255)
gACTGGAGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACCTTCTTCCACCGCCACGCGGTGATCCACAACCAGTCTAACGGTTCCACTTa < 2:171885/143‑1 (MQ=255)
|
GTTGAGATGAAGCGCCTGCAGGAGCTGGCGAAACGCATCAGCACGGTGCCGGAAGCAGTTGAAATGCAGTCTCGCGTTGCCAAGATTTATGGCGATCGCCAGGCGATGGCTGCCGGTGAGAAACTGTTCGACTGGGGCGGTGCGGAAAACCTCGCTTACGCCACGCTGGTTGATGAAGGCATTCCGGTTCGCCTGTCGGGTGAAGACTCCGGTCGCGGTACCTTCTTCCACCGCCACGCGGTGATCCACAACCAGTCTAACGGTTCCACTTA > NC_000913/760350‑760621
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
