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 |
|
A6 F1 I1 R1
|
750 |
51.0 |
2595496 |
93.6% |
2429384 |
106.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,358,163 |
G→A |
A228V (GCG→GTG) |
rhmA ← |
2‑keto‑3‑deoxy‑L‑rhamnonate aldolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,358,163 | 0 | G | A | 97.6%
| 127.6
/ ‑6.1
| 42 | A228V (GCG→GTG) | rhmA | 2‑keto‑3‑deoxy‑L‑rhamnonate aldolase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (19/22); minor base T (0/1); total (19/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATATCAATAACTACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACGCCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACTTCCGGGTGCCCGGCGTTATCCGGGTAGCCCAACG > NC_000913/2358039‑2358298
|
atatCAATAACTACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtgctgc < 1:636436/139‑1 (MQ=255)
tatCAATAACTACCTTTTATGCGTGGCCCATTTTTGCCTTATTTAAACATCGCCAGTCGTTGATCCTGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACAGCAGGCATTGCTgcg < 1:786963/139‑1 (MQ=255)
tatCAATAACTACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTgcg < 2:733824/139‑1 (MQ=255)
tatCAATAACTACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTgcg < 1:63149/139‑1 (MQ=255)
tCAATAACTACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGcc < 1:1169698/139‑1 (MQ=255)
ccTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAg > 2:1289031/1‑139 (MQ=255)
cTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGc < 1:1289031/139‑1 (MQ=255)
ttttATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTgcg < 2:469749/125‑1 (MQ=255)
ttttATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTgcg > 1:469749/1‑125 (MQ=255)
tttATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtgctg > 1:1216173/1‑122 (MQ=255)
tttATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtgctg < 2:1216173/122‑1 (MQ=255)
ttATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCcac < 1:1152416/139‑1 (MQ=255)
aTGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCcac < 2:461232/137‑1 (MQ=255)
aTGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCcac > 1:461232/1‑137 (MQ=255)
gCGTGGCCCATTTTTGCCTGATTTAAACATCACCAGTCGTTGATCCAGGGCCTCGCTGTAGAGCATCGTGTCAACGCCACCAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGcc > 2:208974/1‑139 (MQ=255)
gTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAg > 2:984544/1‑139 (MQ=255)
tGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGa > 1:20331/1‑139 (MQ=255)
tttttGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAGCCAg < 1:695100/139‑1 (MQ=255)
ccTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCtt > 1:100673/1‑139 (MQ=255)
aTTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTAcc < 1:208974/139‑1 (MQ=255)
gCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGACATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCgc < 1:723060/131‑1 (MQ=255)
gCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGACATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCgc > 2:723060/1‑131 (MQ=255)
ggCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGtt > 2:1034488/1‑139 (MQ=255)
ggCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGtt > 2:914716/1‑139 (MQ=255)
tCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCttt < 1:842989/104‑1 (MQ=255)
tCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCaa > 1:983478/1‑139 (MQ=255)
tCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCGGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCttt > 2:842989/1‑104 (MQ=255)
cGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtgctg > 1:370687/1‑64 (MQ=255)
cGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATtgctg < 2:370687/64‑1 (MQ=255)
gCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTg < 2:983478/139‑1 (MQ=255)
cATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGc > 2:404840/1‑139 (MQ=255)
tCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCAc > 2:1162825/1‑139 (MQ=255)
tgtCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACTTc > 1:1153225/1‑139 (MQ=255)
tCAACGCCAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACTTCCg < 1:404840/139‑1 (MQ=255)
ccAACAGCGACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACTTCCGGGTGcc < 1:914716/139‑1 (MQ=255)
gACAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACTTCCGGGTGCCCGGCGTTa < 2:897353/139‑1 (MQ=255)
aCAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCt > 1:1221941/1‑115 (MQ=255)
aCAAAGTTCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCt < 2:1221941/115‑1 (MQ=255)
gTTCGCTCCCCACTCCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACTTCCGGGTGCCCGGCGTTATCCggg < 2:20331/139‑1 (MQ=255)
ttCGCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACTTCCGGGTGCCCGGCGTTATCCGGGt < 2:230147/139‑1 (MQ=255)
gCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCg > 2:317743/1‑67 (MQ=255)
gCTCCCCACACCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCg < 1:317743/67‑1 (MQ=255)
cacaCCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACTTCCGGGTGCCCGGCGTTATCCGGGTAGCCCAacg < 2:1204520/139‑1 (MQ=255)
|
ATATCAATAACTACCTTTTATGCGTGGCCCATTTTTGCCTGATTTAAACATCGCCAGTCGTTGATCCAGGGCATCGCTGTAGAGCATCGTGTCAACGCCAACAGCGACAAAGTTCGCTCCCCACGCCAGGCATTGCTGCGCCATATCAGGAGCCACAGCCAGAAAACCAGCCGCTTTACCCGCAGCACGGATCCGCCGAATACTGGTTTCAATAATTCGCTGCACTTCCGGGTGCCCGGCGTTATCCGGGTAGCCCAACG > NC_000913/2358039‑2358298
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
