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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,015,280 |
G→A |
11.9% |
H263H (CAC→CAT) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,015,280 | 0 | G | A | 11.9%
| 157.6
/ 10.5
| 59 | H263H (CAC→CAT) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base G (24/27); new base A (2/5); total (26/33) |
| Fisher's exact test for biased strand distribution p-value = 4.42e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.82e-01 |
CACCCAGACCAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCGTTTTAAGGTT > minE/1015210‑1015348
|
cACCCAGACCAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCg < 1:2768556/71‑1 (MQ=255)
cACCCAGACCAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCg < 1:3950693/71‑1 (MQ=255)
ccAGACCAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGc > 1:1908612/1‑71 (MQ=255)
cAGACCAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCg < 1:2190500/67‑1 (MQ=255)
aGATTTTGCGCTTCGATCAGCAATTCTTTTTACAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTccc > 1:3387117/1‑71 (MQ=255)
ttttGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTc > 1:1230565/1‑71 (MQ=255)
ttGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTcc < 1:691656/70‑1 (MQ=255)
tGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCg < 1:1863658/70‑1 (MQ=255)
tGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCg < 1:3796645/70‑1 (MQ=255)
cgcTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGtt < 1:3467956/70‑1 (MQ=255)
gcTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCg < 1:3005636/67‑1 (MQ=255)
gcTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTgg > 1:1797452/1‑71 (MQ=255)
cTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCa > 1:2385587/1‑56 (MQ=255)
cTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCa > 1:137271/1‑56 (MQ=255)
cTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCa > 1:395392/1‑56 (MQ=255)
cTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGc < 1:279154/71‑1 (MQ=255)
ttCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTgg > 1:262112/1‑69 (MQ=255)
cGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTg > 1:2446395/1‑49 (MQ=255)
cGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGt > 1:1635787/1‑71 (MQ=255)
cGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGt > 1:1567985/1‑71 (MQ=255)
cGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGt > 1:638593/1‑71 (MQ=255)
gATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGt < 1:1938763/70‑1 (MQ=255)
gATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGt < 1:1912878/70‑1 (MQ=255)
aTCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTgg < 1:479704/65‑1 (MQ=255)
cagcagTTCCTGTTCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTtcat < 1:646300/71‑1 (MQ=255)
cAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTtcat > 1:1757373/1‑71 (MQ=255)
cAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTtca > 1:321642/1‑70 (MQ=255)
gCAGTTCCTGTTCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTtcatcg < 1:3297527/71‑2 (MQ=255)
gCAGTTCCTGTTCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTtca < 1:3419707/68‑1 (MQ=255)
gCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTtcatca < 1:1664489/71‑1 (MQ=255)
cAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTcatcat < 1:290090/71‑1 (MQ=255)
ttCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCAtt > 1:805861/1‑45 (MQ=255)
tCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCtt > 1:3218016/1‑49 (MQ=255)
tCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTtca > 1:1262810/1‑63 (MQ=255)
cTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAg > 1:3740127/1‑68 (MQ=255)
tttttCCAGTTCCACATCGCGGAACGCCTGACCTTGCTCATTCCCTTCCGtt < 1:3130134/52‑1 (MQ=255)
ttttCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTAttt > 1:2936579/1‑71 (MQ=255)
tttCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGTCAGTTCATCATAGTAt < 1:3444093/68‑1 (MQ=255)
gttCCAGCTGGACATCGCGGAACGCCTGACCATGTTc > 1:2890939/2‑37 (MQ=12)
ttCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTc > 1:3805777/1‑45 (MQ=255)
ttCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTc < 1:3471748/70‑1 (MQ=255)
ttCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTtcat > 1:2544471/1‑59 (MQ=255)
ttCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTTCATCGTAATagtg < 1:1632628/69‑4 (MQ=255)
tCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTcg < 1:142764/70‑1 (MQ=255)
tCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTcg < 1:3540392/70‑1 (MQ=255)
ccAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCGGTTg < 1:1109231/48‑1 (MQ=255)
ccAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTg < 1:383607/48‑1 (MQ=255)
ccAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTcg < 1:1381048/69‑1 (MQ=255)
cAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCgg < 1:1792455/71‑1 (MQ=255)
cAGTTCCACATCGCGGAACGCCTGACCGT‑CTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCgg < 1:3403505/70‑1 (MQ=255)
ccACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGc > 1:63942/1‑70 (MQ=255)
caTCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGt < 1:1568943/71‑1 (MQ=255)
tCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGtc < 1:573673/36‑2 (MQ=25)
gAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCg > 1:1320581/1‑71 (MQ=255)
aCGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGaa > 1:1699660/1‑56 (MQ=255)
cGCCTGACCGTTCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCGttt < 1:2229574/71‑1 (MQ=255)
cGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTcgcg < 1:2148689/52‑1 (MQ=255)
cGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCGttt < 1:3311719/71‑1 (MQ=255)
cGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCGttt > 1:3836725/1‑71 (MQ=255)
gCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCGtttt < 1:3181957/71‑1 (MQ=255)
ccTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAg < 1:105375/58‑1 (MQ=255)
ccGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCGTTTTAAGGtt < 1:1105546/71‑1 (MQ=255)
|
CACCCAGACCAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCGTTTTAAGGTT > minE/1015210‑1015348
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
