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 |
|
A4 F1 I2 R1
|
780 |
68.3 |
3343050 |
93.5% |
3125751 |
102.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,761,518 |
G→A |
R92C (CGT→TGT) |
sufD ← |
component of SufBCD Fe‑S cluster assembly scaffold |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,761,518 | 0 | G | A | 98.2%
| 178.5
/ ‑4.0
| 56 | R92C (CGT→TGT) | sufD | component of SufBCD Fe‑S cluster assembly scaffold |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (28/27); minor base C (0/1); total (28/28) |
| 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 |
TGCCAGGCTTTCCGTCAAATGCAGAAACACTTCCGCCTGAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACGCCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTCCAGCGGCGTATATTTCCAGTTTT > NC_000913/1761390‑1761652
|
tgCCAGGCTTTCCGTCAAATGCAGAAACACTTCCGCCTGAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTACGGGCACGTAACAcc > 1:906210/1‑131 (MQ=255)
tgCCAGGCTTTCCGTCAAATGCAGAAACACTTCCGCCTGAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTACGGGCACGTAACAcc < 2:906210/131‑1 (MQ=255)
cGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACg < 1:1145322/139‑1 (MQ=255)
tCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACgct > 1:1570054/1‑139 (MQ=255)
ggTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACgctgct < 1:1387265/139‑1 (MQ=255)
ggTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACgctgct > 1:1481519/1‑139 (MQ=255)
cTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGat < 1:1159687/139‑1 (MQ=255)
gACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCa > 2:790346/1‑74 (MQ=255)
gACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCa < 1:790346/74‑1 (MQ=255)
aCGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATAtc > 1:548311/1‑139 (MQ=255)
aCGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATAtc > 1:415172/1‑139 (MQ=255)
gtcgtTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTccc > 1:420849/1‑139 (MQ=255)
ttAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCaa < 2:415172/139‑1 (MQ=255)
ttAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCaa < 2:1481519/139‑1 (MQ=255)
aaTGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATg < 2:1570054/139‑1 (MQ=255)
tGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACgc < 1:673362/110‑1 (MQ=255)
tGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACgc > 2:673362/1‑110 (MQ=255)
cTTCATATCCGCTGCCTTCAGGTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACaaa < 2:989118/139‑1 (MQ=255)
ttCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACg < 1:1560752/73‑1 (MQ=255)
ttCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACg > 2:1560752/1‑73 (MQ=255)
cATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTg > 1:723150/1‑139 (MQ=255)
tCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGatat > 1:452306/1‑111 (MQ=255)
tCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGatat < 2:452306/111‑1 (MQ=255)
cGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTAtt > 2:873766/1‑139 (MQ=255)
gCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTg < 2:420849/139‑1 (MQ=255)
cTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCa > 1:1418101/1‑61 (MQ=255)
cTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCa < 2:1418101/61‑1 (MQ=255)
cTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACt > 1:1150186/1‑130 (MQ=255)
cTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACt < 2:1150186/130‑1 (MQ=255)
cTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGa > 1:1089758/1‑139 (MQ=255)
gCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATc > 1:832199/1‑139 (MQ=255)
cAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTg < 2:1126520/116‑1 (MQ=255)
cAGTTGCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTg > 1:1126520/1‑116 (MQ=255)
gCATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTCCa < 2:832199/139‑1 (MQ=255)
cATCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTCCAg < 1:873766/139‑1 (MQ=255)
aTCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACg < 1:1069758/49‑1 (MQ=255)
aTCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACg > 2:1069758/1‑49 (MQ=255)
tCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACt > 2:806604/1‑115 (MQ=255)
tCGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACt < 1:806604/115‑1 (MQ=255)
cGCTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCCCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTCCAgcgg < 2:1406322/139‑1 (MQ=255)
cTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCTCGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTCCAgcggcg > 1:1669734/1‑139 (MQ=255)
cTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCAc > 1:1013313/1‑44 (MQ=255)
cTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCAc < 2:1013313/44‑1 (MQ=255)
cTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTCCAgcggcg < 2:548311/139‑1 (MQ=255)
cTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTCCAgc < 2:994681/135‑1 (MQ=255)
cTCAGTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTCCAgc > 1:994681/1‑135 (MQ=255)
gTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCaa > 2:749223/1‑96 (MQ=255)
gTGCGGGCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCaa < 1:749223/96‑1 (MQ=255)
gCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTCCAg > 2:81089/1‑124 (MQ=255)
gCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTCCAg < 1:81089/124‑1 (MQ=255)
gCACGTAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTCCAGCGGCGTATATTTCCa > 2:396043/1‑139 (MQ=255)
tAACCCCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGTTGTGGGGATAtctc < 2:1014738/77‑1 (MQ=255)
tAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATAtctc > 1:1014738/1‑77 (MQ=255)
tAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCg < 1:880759/82‑1 (MQ=255)
tAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCg > 2:880759/1‑82 (MQ=255)
tAACACCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCACTCCCGCCATGCTGACAAACTGGCTATTGATCAGCCCTTCCAGCGGCGTATATTTCCAGtttt > 1:536391/1‑139 (MQ=255)
|
TGCCAGGCTTTCCGTCAAATGCAGAAACACTTCCGCCTGAATAGCGTCGGGTAAACCCTGACGGTCGTCGTTAATGCTCACTTCATATCCGCTGCCTTCAGTTGCATCGCTCAGTGCGGGCACGTAACGCCCATCGACAAACACCAGCCGCACGGAGTCTAACGTTAACGCTAAGGCATCACGCTGCTGTGGGGATATCTCTCCCGCAATGCTGACAAACTGGCTATTGATCAGCCCTTCCAGCGGCGTATATTTCCAGTTTT > NC_000913/1761390‑1761652
|
| 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
