Locus 1757

Sequence ID 2L_DroMel_CAF1
Location 4,805,476 – 4,805,585
Length 109
Max. P 0.929227
window2821 window2822

overview

Window 1

Location 4,805,476 – 4,805,585
Length 109
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 81.00
Mean single sequence MFE -23.33
Consensus MFE -17.08
Energy contribution -18.88
Covariance contribution 1.81
Combinations/Pair 1.12
Mean z-score -2.58
Structure conservation index 0.73
SVM decision value 1.20
SVM RNA-class probability 0.929227
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4805476 109 + 22407834
--UC-----UGUUCGUUGUGACACAAAAGAAUGAAGUGCCCGGGCGCAUUUUAAAUUCGUCACGGAAAACGUGACAAAAAUUUUCCAUAUGCGAAAAAAAAAAGAUCGGAAA-AAAU-
--((-----(((((((((((........(((((((((((......)))))))..))))((((((.....))))))..........)))).)))))...........))))..-....- ( -24.80)
>DroVir_CAF1 11056 112 + 1
CAUUUGUUG---UUGGUGUGACACAAAAGAAUUAAGUGCCCAGGCACAUUUUAAAUUCGUCACGGAAAACGUGACAAAAAUUUU-CAUAUGCGAAAA--AAAAAAAACAAAACAAAAA
..((((((.---(((((((((.......(((((((((((....)))).))...)))))((((((.....))))))........)-))))).)))...--......))))))....... ( -24.50)
>DroSec_CAF1 8229 108 + 1
--UC-----UGUUCGUUGUGACACAAAAGAAUUAAGUGCCCGGGCGCAUUUUAAAUUCGUCACGGAAAACGUGACAAAUAUUUUCCAUAUGCGAAAA--AAAAGAUCGGAAAAAAAU-
--((-----(.(((((((((........(((((((((((......))))))..)))))((((((.....))))))..........)))).)))))..--...)))............- ( -25.10)
>DroEre_CAF1 8403 106 + 1
--GC-----UGUUCGUUGUGACACAAAAGAAUUAAGUGCCCGGGCGCAUUUUAAAUUCGUCACGGAAAACGUGACAAAAAUUUUCCAUAUGCGAAAA--AAA--AUCCGACAAAAAU-
--..-----..(((((((((........(((((((((((......))))))..)))))((((((.....))))))..........)))).)))))..--...--.............- ( -24.20)
>DroWil_CAF1 9392 86 + 1
----------------------ACAAAAGAAUUAAGUGCCCGGGCUUAUUUUAAAUUCGUCACGGAAAACGUGACAAAAAUUUU-CAUAUGCGAAAA--A-----UCUGAGAAAGA--
----------------------......((((((((.((....))....))).)))))((((((.....)))))).....((((-((.((.......--)-----).))))))...-- ( -17.20)
>DroYak_CAF1 8603 97 + 1
--GC-----UGUUCGUUGUGACACAAAAGAAUUAAGUGCCCGGGCGCAUUUUAAAUUCGUCACGGAAAACGUGACAAAAAUUUUCCAUAUGCGAAAA--AA-----------AAAAU-
--..-----..(((((((((........(((((((((((......))))))..)))))((((((.....))))))..........)))).)))))..--..-----------.....- ( -24.20)
>consensus
__UC_____UGUUCGUUGUGACACAAAAGAAUUAAGUGCCCGGGCGCAUUUUAAAUUCGUCACGGAAAACGUGACAAAAAUUUUCCAUAUGCGAAAA__AAA__AUCCGAAAAAAAU_
...........(((((((((........(((((..((((....))))......)))))((((((.....))))))..........)))).)))))....................... (-17.08 = -18.88 +   1.81)

alignment

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secondary structure

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dotplot

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Window 2

Location 4,805,476 – 4,805,585
Length 109
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 81.00
Mean single sequence MFE -21.56
Consensus MFE -16.62
Energy contribution -17.12
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.77
SVM decision value 0.54
SVM RNA-class probability 0.774298
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4805476 109 - 22407834
-AUUU-UUUCCGAUCUUUUUUUUUUCGCAUAUGGAAAAUUUUUGUCACGUUUUCCGUGACGAAUUUAAAAUGCGCCCGGGCACUUCAUUCUUUUGUGUCACAACGAACA-----GA--
-....-....((.............(((((...(((....(((((((((.....))))))))))))...)))))....(((((...........)))))....))....-----..-- ( -21.30)
>DroVir_CAF1 11056 112 - 1
UUUUUGUUUUGUUUUUUUU--UUUUCGCAUAUG-AAAAUUUUUGUCACGUUUUCCGUGACGAAUUUAAAAUGUGCCUGGGCACUUAAUUCUUUUGUGUCACACCAA---CAACAAAUG
..(((((((((........--.....((((((.-......(((((((((.....)))))))))......))))))...(((((...........)))))....)))---.)))))).. ( -26.62)
>DroSec_CAF1 8229 108 - 1
-AUUUUUUUCCGAUCUUUU--UUUUCGCAUAUGGAAAAUAUUUGUCACGUUUUCCGUGACGAAUUUAAAAUGCGCCCGGGCACUUAAUUCUUUUGUGUCACAACGAACA-----GA--
-.........((.......--....(((((.........((((((((((.....)))))))))).....)))))....(((((...........)))))....))....-----..-- ( -21.54)
>DroEre_CAF1 8403 106 - 1
-AUUUUUGUCGGAU--UUU--UUUUCGCAUAUGGAAAAUUUUUGUCACGUUUUCCGUGACGAAUUUAAAAUGCGCCCGGGCACUUAAUUCUUUUGUGUCACAACGAACA-----GC--
-....((((((...--...--....(((((...(((....(((((((((.....))))))))))))...)))))....(((((...........)))))....)).)))-----).-- ( -23.80)
>DroWil_CAF1 9392 86 - 1
--UCUUUCUCAGA-----U--UUUUCGCAUAUG-AAAAUUUUUGUCACGUUUUCCGUGACGAAUUUAAAAUAAGCCCGGGCACUUAAUUCUUUUGU----------------------
--...........-----.--.....(((...(-((....(((((((((.....)))))))))..........((....))......)))...)))---------------------- ( -15.60)
>DroYak_CAF1 8603 97 - 1
-AUUUU-----------UU--UUUUCGCAUAUGGAAAAUUUUUGUCACGUUUUCCGUGACGAAUUUAAAAUGCGCCCGGGCACUUAAUUCUUUUGUGUCACAACGAACA-----GC--
-.....-----------..--....(((((...(((....(((((((((.....))))))))))))...)))))....(((((...........)))))..........-----..-- ( -20.50)
>consensus
_AUUUUUUUCCGAU__UUU__UUUUCGCAUAUGGAAAAUUUUUGUCACGUUUUCCGUGACGAAUUUAAAAUGCGCCCGGGCACUUAAUUCUUUUGUGUCACAACGAACA_____GA__
.........................((((...((((....(((((((((.....)))))))))..........((....))......))))..))))..................... (-16.62 = -17.12 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:24 2006