Locus 1321

Sequence ID 2L_DroMel_CAF1
Location 3,479,846 – 3,479,937
Length 91
Max. P 0.730735
window2161 window2162

overview

Window 1

Location 3,479,846 – 3,479,937
Length 91
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 85.58
Mean single sequence MFE -31.40
Consensus MFE -24.08
Energy contribution -23.70
Covariance contribution -0.38
Combinations/Pair 1.14
Mean z-score -1.71
Structure conservation index 0.77
SVM decision value 0.42
SVM RNA-class probability 0.730735
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3479846 91 + 22407834
AAAGGGGGCUUUUUGGGGGGCGGUACACAUGUUAG--ACAGCUGGAAAUACCGGCCGGCUUUUUAGUUAGCCAGUCAGUCAGUGGCCCCAGCA
....((((((..((((..(((((((..((.(((..--..)))))....))))(((..(((....)))..))).)))..)))).)))))).... ( -33.40)
>DroSim_CAF1 7019 89 + 1
AAAGGGGGCUUUUUGGGGGGCGGUACACAUGCUAGAGACAGCUGGAAAUACCGGCCGGCUUUUUAGUUAGCCAGU----CAGUGGCCCCAGCA
....((((((..((((.((.(((((..((.(((......)))))....))))).))((((........))))..)----))).)))))).... ( -35.00)
>DroEre_CAF1 7336 81 + 1
AAA------UUUCUGGGGGGAGGCACGCAUUCUAG--ACAGCUGGAAAUACCGGCCGGCUUUUUAGUUAGCCAGU----CAGUGGCCCCAGCA
...------...(((((((((((....).)))).(--((.(((((.....))))).((((........)))).))----).....)))))).. ( -28.80)
>DroYak_CAF1 7104 80 + 1
-CU------CUUUUGGGGGGAGGCACACAUGCUAG--GCAGCUGGAAAUACCGGCCGGCUUUUUAGUUAGCCAGU----CAGUGGCCCCAGCA
-((------(....))).((.(((.(((..(((.(--((.(((((.....))))).((((....)))).))))))----..)))))))).... ( -28.40)
>consensus
AAA______UUUUUGGGGGGAGGCACACAUGCUAG__ACAGCUGGAAAUACCGGCCGGCUUUUUAGUUAGCCAGU____CAGUGGCCCCAGCA
............((((((((((.......)))).......((((.....((.(((..(((....)))..))).))....))))..)))))).. (-24.08 = -23.70 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 3,479,846 – 3,479,937
Length 91
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 85.58
Mean single sequence MFE -26.55
Consensus MFE -22.25
Energy contribution -22.50
Covariance contribution 0.25
Combinations/Pair 1.05
Mean z-score -1.58
Structure conservation index 0.84
SVM decision value 0.32
SVM RNA-class probability 0.689099
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3479846 91 - 22407834
UGCUGGGGCCACUGACUGACUGGCUAACUAAAAAGCCGGCCGGUAUUUCCAGCUGU--CUAACAUGUGUACCGCCCCCCAAAAAGCCCCCUUU
.(((((((((((((...(((.((((........))))(((.((.....)).)))))--)...)).)))....)))))......)))....... ( -25.90)
>DroSim_CAF1 7019 89 - 1
UGCUGGGGCCACUG----ACUGGCUAACUAAAAAGCCGGCCGGUAUUUCCAGCUGUCUCUAGCAUGUGUACCGCCCCCCAAAAAGCCCCCUUU
....(((((.....----...((((........))))(((.(((((...((((((....)))).)).)))))))).........))))).... ( -29.40)
>DroEre_CAF1 7336 81 - 1
UGCUGGGGCCACUG----ACUGGCUAACUAAAAAGCCGGCCGGUAUUUCCAGCUGU--CUAGAAUGCGUGCCUCCCCCCAGAAA------UUU
..((((((..((((----.((((((........)))))).)))).......((...--.......))........))))))...------... ( -25.30)
>DroYak_CAF1 7104 80 - 1
UGCUGGGGCCACUG----ACUGGCUAACUAAAAAGCCGGCCGGUAUUUCCAGCUGC--CUAGCAUGUGUGCCUCCCCCCAAAAG------AG-
.(((((((..((((----.((((((........)))))).))))..)))))))...--...(((....))).............------..- ( -25.60)
>consensus
UGCUGGGGCCACUG____ACUGGCUAACUAAAAAGCCGGCCGGUAUUUCCAGCUGU__CUAGCAUGUGUACCGCCCCCCAAAAA______UUU
...(((((...........((((((........))))))..(((((...((((((....)))).)).)))))...)))))............. (-22.25 = -22.50 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:37 2006