Locus 4750

Sequence ID 2R_DroMel_CAF1
Location 15,614,773 – 15,614,871
Length 98
Max. P 0.889219
window7643 window7644

overview

Window 3

Location 15,614,773 – 15,614,871
Length 98
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 75.35
Mean single sequence MFE -41.58
Consensus MFE -29.21
Energy contribution -30.47
Covariance contribution 1.26
Combinations/Pair 1.41
Mean z-score -1.30
Structure conservation index 0.70
SVM decision value 0.80
SVM RNA-class probability 0.854442
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15614773 98 + 20766785
UUGGGCCCGCAAAUUGGUUUGGCUUCUGCCACCGAGUGGGGGGUUCUUGGCUCAGUCUGGACUGGAGGAU------------GGUGCUGGGGCAGGUGCCCCACCCACCA
.((((.((((...(((((..(((....))))))))))))(((((.((((.(((((((((..(....)..)------------)).)))))).)))).))))).))))... ( -45.20)
>DroSec_CAF1 405431 98 + 1
UUGGGCCCGCAAAUUGUUUUGGCUUUUGCCACCGAGUGGGGGGCUUUUGGCUCAGUCUGGACUGGAGGAU------------GGUGUUGGGGCAGGUGCCCCACCCACCA
..((((((.(...(((...((((....)))).)))...).)))))).....(((((....))))).((.(------------((.((.(((((....)))))))))))). ( -40.50)
>DroSim_CAF1 388399 98 + 1
UUGGGCCCGCAAAUUGGUUUGGCUUCUGCCACCGAGUGGGGGGCUUUUGGCUCAGUCUGGGCUGGAGGAU------------GGUGAUGGGGCAGGUGCCCCACCCACCA
...(((((.(...(((((..(((....))))))))...).)))))((..((((.....))))..))...(------------((((.((((((....))))))..))))) ( -48.40)
>DroEre_CAF1 393256 107 + 1
UUGGGC-CGCAAAUUGGUUUGGC-UCUGCCACCGAGUGGG-GGUUUUUGGCUCGUUCUGGGCCGGGGGAUGGCGAGGGCGAUGGCGAUGGGGCAGGUGCCCCAACCUCCA
((((((-((.....)))).((((-...)))))))).((((-(((..(((.((((((((.(.(((.....)))).))))))).).)))((((((....))))))))))))) ( -45.70)
>DroYak_CAF1 409941 110 + 1
UUGGGCCCGCAAAUUGGUUUGGCUUCUGCCACCGAGUGGGGGGUUUUCGGCUUAGUCUGGGUUGGGGGAUAACGAUGGCGAAGGCGAUGGGGCAGGUGCCCCAACCACCA
.(((((((.(...(((((..(((....))))))))...).))))...............((((((((.((..(.((.((....)).)).).....)).)))))))).))) ( -45.90)
>DroAna_CAF1 380968 89 + 1
UUUAACUCGCAAAUUGGUUUUGCUU-AGCCUGUAAUAGGGAAGUUUGCGUUUUG----GGGCUUGCGU----------------UUUGGGGGCAGAUGUCCCACCCACCG
........(((((.....)))))..-...........((((.((((((.(((..----((((....))----------------))..))))))))).))))........ ( -23.80)
>consensus
UUGGGCCCGCAAAUUGGUUUGGCUUCUGCCACCGAGUGGGGGGUUUUUGGCUCAGUCUGGGCUGGAGGAU____________GGUGAUGGGGCAGGUGCCCCACCCACCA
..((((((.(...((((..((((....))))))))...).))))))(((((((.....))))))).................((((.((((((....))))))..)))). (-29.21 = -30.47 +   1.26)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 4

Location 15,614,773 – 15,614,871
Length 98
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 75.35
Mean single sequence MFE -32.73
Consensus MFE -19.61
Energy contribution -21.34
Covariance contribution 1.73
Combinations/Pair 1.23
Mean z-score -1.75
Structure conservation index 0.60
SVM decision value 0.96
SVM RNA-class probability 0.889219
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15614773 98 - 20766785
UGGUGGGUGGGGCACCUGCCCCAGCACC------------AUCCUCCAGUCCAGACUGAGCCAAGAACCCCCCACUCGGUGGCAGAAGCCAAACCAAUUUGCGGGCCCAA
((((.(.((((((....)))))).))))------------).......((((..((((((..............))))))(((....)))............)))).... ( -33.64)
>DroSec_CAF1 405431 98 - 1
UGGUGGGUGGGGCACCUGCCCCAACACC------------AUCCUCCAGUCCAGACUGAGCCAAAAGCCCCCCACUCGGUGGCAAAAGCCAAAACAAUUUGCGGGCCCAA
(((((..((((((....)))))).))))------------).....((((....))))........((((.((....))((((....))))...........)))).... ( -36.40)
>DroSim_CAF1 388399 98 - 1
UGGUGGGUGGGGCACCUGCCCCAUCACC------------AUCCUCCAGCCCAGACUGAGCCAAAAGCCCCCCACUCGGUGGCAGAAGCCAAACCAAUUUGCGGGCCCAA
((((((.((((((....)))))))))))------------).......((((..((((((..............))))))(((....)))............)))).... ( -38.24)
>DroEre_CAF1 393256 107 - 1
UGGAGGUUGGGGCACCUGCCCCAUCGCCAUCGCCCUCGCCAUCCCCCGGCCCAGAACGAGCCAAAAACC-CCCACUCGGUGGCAGA-GCCAAACCAAUUUGCG-GCCCAA
.((((((((((((....))))))..)))...((....))..)))...((((((((.((((.........-....)))).((((...-))))......)))).)-)))... ( -35.02)
>DroYak_CAF1 409941 110 - 1
UGGUGGUUGGGGCACCUGCCCCAUCGCCUUCGCCAUCGUUAUCCCCCAACCCAGACUAAGCCGAAAACCCCCCACUCGGUGGCAGAAGCCAAACCAAUUUGCGGGCCCAA
.((((((.(((((....)))))))))))...............((((((..........(((((...........)))))(((....)))........))).)))..... ( -33.80)
>DroAna_CAF1 380968 89 - 1
CGGUGGGUGGGACAUCUGCCCCCAAA----------------ACGCAAGCCC----CAAAACGCAAACUUCCCUAUUACAGGCU-AAGCAAAACCAAUUUGCGAGUUAAA
.((.(((..(.....)..)))))...----------------.(((((((..----......))...(((.(((.....)))..-)))..........)))))....... ( -19.30)
>consensus
UGGUGGGUGGGGCACCUGCCCCAUCACC____________AUCCUCCAGCCCAGACUGAGCCAAAAACCCCCCACUCGGUGGCAGAAGCCAAACCAAUUUGCGGGCCCAA
.((((...(((((....)))))..))))....................((((..((((((..............))))))(((....)))............)))).... (-19.61 = -21.34 +   1.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:28 2006