Locus 5237

Sequence ID 3L_DroMel_CAF1
Location 14,454,344 – 14,454,460
Length 116
Max. P 0.777697
window8283 window8284

overview

Window 3

Location 14,454,344 – 14,454,460
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.76
Mean single sequence MFE -27.08
Consensus MFE -19.99
Energy contribution -21.93
Covariance contribution 1.95
Combinations/Pair 1.10
Mean z-score -1.62
Structure conservation index 0.74
SVM decision value 0.55
SVM RNA-class probability 0.777697
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14454344 116 + 23771897
UUGUUCCUGUUGUUCGCG-ACGUUGUUGUAUUUGUAUUUUAUUUAAACAAUUUACAAGAAAGCAACAUUCCAGCUGCCUUAAAAUGGAUAAAAGUUGGCACAAGAACGA-GACG--GUGG
.....(((.((((((...-..((((((...((((((..((........))..))))))..))))))...((((((.((.......)).....)))))).....))))))-.).)--)... ( -26.00)
>DroVir_CAF1 82739 109 + 1
GCUUGGCUGCUGUUUGC---UGUUGUUG----UGUCUUUUAUUUAAACAAUUUACAAGAAAGCAACAUUCCAGCUGCCUUAAAAUGGACAAAAGUUGGCGCAAGAACUA-CGAA--U-AG
.........(((((((.---.(((.(((----((((((.((...........)).))))..........((((((.((.......)).....))))))))))).)))..-))))--)-)) ( -22.60)
>DroPse_CAF1 73924 120 + 1
UUGUUCUUGUUGUUCUUGGCCGUUGUUGCAUUUGUAUUUUAUUUAAACAAUUUACAAGAAAGCAACAUUCCAGCUGCCUUAAAAUGGACAAAAGUUGGCACAAGAGCCAAGACCAGCCAG
.....((.((((.((((((((((((((...((((((..((........))..))))))..))))))...((((((.((.......)).....)))))).....).))))))).)))).)) ( -34.00)
>DroEre_CAF1 66894 116 + 1
UUGUUCCUGUUGUUCGCG-ACGUUGUUGUAUUUGUAUUUUAUUUAAACAAUUUACAAGAAAGCAACAUUCCAGCUGCCUUAAAAUGGACAAAAGUUGGCACAGGAACGA-GACA--GAGG
((((((((((........-..((((((...((((((..((........))..))))))..))))))...((((((.((.......)).....)))))).))))))))))-....--.... ( -31.30)
>DroAna_CAF1 65018 98 + 1
UUGUUCCUGUUC------------------UUUGUAUUUUAUUUAAACAAUUUACAAGAAAGCAACAUUCCAGCUGCCUUAAAAUGGACAAAAGUUGGCACAGCCACCA-AGCC---ACC
.((((.((.(((------------------((.(((..((........))..)))))))))).))))..((((((.((.......)).....))))))...........-....---... ( -14.70)
>DroPer_CAF1 74210 120 + 1
UUGUUCUUGUUGUUCUUGGCCGUUGUUUCAUUUGUAUUUUAUUUAAACAAUUUACAAGAAAGCAACAUUCCAGCUGCCUUAAAAUGGACAAAAGUUGGCACAAGAGCCAAGACCAGCCAG
.....((.((((.(((((((((((((((..((((((..((........))..)))))).)))))))...((((((.((.......)).....)))))).....).))))))).)))).)) ( -33.90)
>consensus
UUGUUCCUGUUGUUCGCG__CGUUGUUG_AUUUGUAUUUUAUUUAAACAAUUUACAAGAAAGCAACAUUCCAGCUGCCUUAAAAUGGACAAAAGUUGGCACAAGAACCA_GACC__CAAG
..((((((((...........((((((...((((((..((........))..))))))..))))))...((((((.((.......)).....)))))).))))))))............. (-19.99 = -21.93 +   1.95)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,454,344 – 14,454,460
Length 116
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.76
Mean single sequence MFE -24.72
Consensus MFE -17.17
Energy contribution -17.95
Covariance contribution 0.78
Combinations/Pair 1.12
Mean z-score -1.24
Structure conservation index 0.69
SVM decision value 0.01
SVM RNA-class probability 0.536347
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14454344 116 - 23771897
CCAC--CGUC-UCGUUCUUGUGCCAACUUUUAUCCAUUUUAAGGCAGCUGGAAUGUUGCUUUCUUGUAAAUUGUUUAAAUAAAAUACAAAUACAACAACGU-CGCGAACAACAGGAACAA
....--(((.-.((((.(((((..................((((((((......)))))))).(((((..((((....))))..))))).))))).)))).-.))).............. ( -21.60)
>DroVir_CAF1 82739 109 - 1
CU-A--UUCG-UAGUUCUUGCGCCAACUUUUGUCCAUUUUAAGGCAGCUGGAAUGUUGCUUUCUUGUAAAUUGUUUAAAUAAAAGACA----CAACAACA---GCAAACAGCAGCCAAGC
..-.--....-.....((((.((.......((((........))))((((.....(((((...((((....(((((.......)))))----..)))).)---)))).)))).)))))). ( -19.90)
>DroPse_CAF1 73924 120 - 1
CUGGCUGGUCUUGGCUCUUGUGCCAACUUUUGUCCAUUUUAAGGCAGCUGGAAUGUUGCUUUCUUGUAAAUUGUUUAAAUAAAAUACAAAUGCAACAACGGCCAAGAACAACAAGAACAA
.((..((.((((((((.((((((.................((((((((......)))))))).(((((..((((....))))..)))))..)).)))).)))))))).)).))....... ( -30.50)
>DroEre_CAF1 66894 116 - 1
CCUC--UGUC-UCGUUCCUGUGCCAACUUUUGUCCAUUUUAAGGCAGCUGGAAUGUUGCUUUCUUGUAAAUUGUUUAAAUAAAAUACAAAUACAACAACGU-CGCGAACAACAGGAACAA
....--....-..((((((((.((.((..((((.......((((((((......)))))))).(((((..((((....))))..))))).....)))).))-.).)....)))))))).. ( -24.20)
>DroAna_CAF1 65018 98 - 1
GGU---GGCU-UGGUGGCUGUGCCAACUUUUGUCCAUUUUAAGGCAGCUGGAAUGUUGCUUUCUUGUAAAUUGUUUAAAUAAAAUACAAA------------------GAACAGGAACAA
(((---(((.-.((((((...))).)))...).)))))...(((((((......)))))))((((((...((((...........)))).------------------..)))))).... ( -22.20)
>DroPer_CAF1 74210 120 - 1
CUGGCUGGUCUUGGCUCUUGUGCCAACUUUUGUCCAUUUUAAGGCAGCUGGAAUGUUGCUUUCUUGUAAAUUGUUUAAAUAAAAUACAAAUGAAACAACGGCCAAGAACAACAAGAACAA
.((..((.((((((((.((((..((...............((((((((......)))))))).(((((..((((....))))..))))).))..)))).)))))))).)).))....... ( -29.90)
>consensus
CUGC__GGUC_UGGUUCUUGUGCCAACUUUUGUCCAUUUUAAGGCAGCUGGAAUGUUGCUUUCUUGUAAAUUGUUUAAAUAAAAUACAAAU_CAACAACG__CGCGAACAACAGGAACAA
.............((((((((...................((((((((......)))))))).(((((..((((....))))..))))).....................)))))))).. (-17.17 = -17.95 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:13 2006