Locus 1195

Sequence ID 2L_DroMel_CAF1
Location 3,233,945 – 3,234,049
Length 104
Max. P 0.997669
window1937 window1938

overview

Window 7

Location 3,233,945 – 3,234,049
Length 104
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 84.50
Mean single sequence MFE -24.40
Consensus MFE -17.98
Energy contribution -17.78
Covariance contribution -0.20
Combinations/Pair 1.17
Mean z-score -3.70
Structure conservation index 0.74
SVM decision value 2.91
SVM RNA-class probability 0.997669
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3233945 104 + 22407834
GCAGGUAACUCACACUGUUUUUUAACCCACUCCGGUAAAGUGCAUCAAUAAUUUCUCACUUUUAUUACUGCACUUAUCCGGAUCCGUUCGGGUUUCACCUGUCA
(((((((((((.....(((....)))....(((((..(((((((..(((((..........)))))..)))))))..))))).......)))))..)))))).. ( -29.80)
>DroSec_CAF1 68084 90 + 1
ACAGGUAACUUAUACUGUUUUU--------------AAAGUGCAUCAAUAAUUUCUCACUUUUAUUACUGCACUUAUCCGGAUCCGUUCGGGUUUCACCUGUCA
((((((................--------------.(((((((..(((((..........)))))..)))))))(((((((....)))))))...)))))).. ( -23.20)
>DroSim_CAF1 69785 104 + 1
ACAGGUAACUCAUACUGUUUUUAAACCCACUCCGUUAAAGUGCAUCAAUAAUUUCUCACUUUUAUUACUGCACUUAUCCGGAUCCGUUCGUGUUUCACCUGUCA
(((((((((.(..((.(((....)))....((((...(((((((..(((((..........)))))..)))))))...))))...))..).)))..)))))).. ( -22.00)
>DroEre_CAF1 65031 103 + 1
CCGGGUAACUCACACAUUU-UGUAACCCUCUCCGCUAAAGUGCAUCAAUAAUUUCUCACUUUUAUUACUGCACUUAACCAGGUCCAUUCGGGUUUCACCUGUCA
..((((.((..........-.)).)))).........(((((((..(((((..........)))))..)))))))...(((((((.....))....)))))... ( -21.40)
>DroYak_CAF1 63826 101 + 1
CCAGGUAACUCAAACAUUU---UAACCCACUCCGGUAAAGUGCGUCAAUAAUGUUUCACUUUUAUUACUGCACUUAUCCGGUUCCAUUGGGGUUUCACCUGUCA
.(((((.............---.(((((...((((..(((((((..(((((..........)))))..)))))))..))))........)))))..)))))... ( -25.59)
>consensus
ACAGGUAACUCACACUGUUUUUUAACCCACUCCGGUAAAGUGCAUCAAUAAUUUCUCACUUUUAUUACUGCACUUAUCCGGAUCCGUUCGGGUUUCACCUGUCA
.(((((...............................(((((((..(((((..........)))))..)))))))....((((((....)))))).)))))... (-17.98 = -17.78 +  -0.20)

alignment

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secondary structure

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dotplot

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Window 8

Location 3,233,945 – 3,234,049
Length 104
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 84.50
Mean single sequence MFE -27.78
Consensus MFE -19.78
Energy contribution -20.86
Covariance contribution 1.08
Combinations/Pair 1.04
Mean z-score -2.88
Structure conservation index 0.71
SVM decision value 1.87
SVM RNA-class probability 0.980737
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3233945 104 - 22407834
UGACAGGUGAAACCCGAACGGAUCCGGAUAAGUGCAGUAAUAAAAGUGAGAAAUUAUUGAUGCACUUUACCGGAGUGGGUUAAAAAACAGUGUGAGUUACCUGC
...(((((((((((((......(((((..(((((((.((((((..........)))))).)))))))..))))).))))))......(.....)..))))))). ( -33.50)
>DroSec_CAF1 68084 90 - 1
UGACAGGUGAAACCCGAACGGAUCCGGAUAAGUGCAGUAAUAAAAGUGAGAAAUUAUUGAUGCACUUU--------------AAAAACAGUAUAAGUUACCUGU
..((((((((...(((........)))..(((((((.((((((..........)))))).))))))).--------------..............)))))))) ( -22.90)
>DroSim_CAF1 69785 104 - 1
UGACAGGUGAAACACGAACGGAUCCGGAUAAGUGCAGUAAUAAAAGUGAGAAAUUAUUGAUGCACUUUAACGGAGUGGGUUUAAAAACAGUAUGAGUUACCUGU
..((((((((..((....(.(.((((...(((((((.((((((..........)))))).)))))))...)))).).)(((....)))....))..)))))))) ( -28.90)
>DroEre_CAF1 65031 103 - 1
UGACAGGUGAAACCCGAAUGGACCUGGUUAAGUGCAGUAAUAAAAGUGAGAAAUUAUUGAUGCACUUUAGCGGAGAGGGUUACA-AAAUGUGUGAGUUACCCGG
...(((((....((.....)))))))((((((((((.((((((..........)))))).))))).)))))((.(..(.(((((-.....))))).)..))).. ( -24.50)
>DroYak_CAF1 63826 101 - 1
UGACAGGUGAAACCCCAAUGGAACCGGAUAAGUGCAGUAAUAAAAGUGAAACAUUAUUGACGCACUUUACCGGAGUGGGUUA---AAAUGUUUGAGUUACCUGG
...(((((((...((((......((((..((((((..((((((..........))))))..))))))..))))..))))(((---(.....)))).))))))). ( -29.10)
>consensus
UGACAGGUGAAACCCGAACGGAUCCGGAUAAGUGCAGUAAUAAAAGUGAGAAAUUAUUGAUGCACUUUACCGGAGUGGGUUAAAAAACAGUAUGAGUUACCUGG
...(((((((...((....))..(((...(((((((.((((((..........)))))).)))))))...))).......................))))))). (-19.78 = -20.86 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:00 2006