Locus 3064

Sequence ID 3L_DroMel_CAF1
Location 8,849,139 – 8,849,237
Length 98
Max. P 0.997016
window4779 window4780

overview

Window 9

Location 8,849,139 – 8,849,237
Length 98
Sequences 3
Columns 104
Reading direction forward
Mean pairwise identity 77.23
Mean single sequence MFE -18.99
Consensus MFE -16.68
Energy contribution -17.46
Covariance contribution 0.78
Combinations/Pair 1.05
Mean z-score -2.06
Structure conservation index 0.88
SVM decision value 2.78
SVM RNA-class probability 0.997016
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8849139 98 + 23771897
GUUUGAAAGCGAAGAA--UUCCA---GCAUUCCCAGUGCAGUUUUAACUUGCACUGGCUUCCCUUUUU-CACUUUUCCUCCGCUUUUCCUCAGUUUUUCCAGUU
....(((((((..(((--(....---..))))((((((((((....)).))))))))...........-...........)))))))................. ( -20.90)
>DroSec_CAF1 109220 84 + 1
GUUUGAAAGCUAAGAA--UUCCAGCAGCAUUCCCAUUGCAGGUUUAACUUGCACUGGCUUCCCUUUUU-CACUUUUCCACUCCUUUU-----------------
...((((((((.....--....))).......(((.((((((.....)))))).)))........)))-))................----------------- ( -14.70)
>DroEre_CAF1 113116 98 + 1
GUUUGAAAGCGAAGAACAUUCCA---GCAUUCCCAGUGCAGGUUCAACUUGCACUGGCUUCCCUUUUUCCGCCUUUCCUCCGUUUUGCCUCAGUUUCUCCA---
((..(((((.((((.........---......((((((((((.....)))))))))))))).)))))...)).............................--- ( -21.36)
>consensus
GUUUGAAAGCGAAGAA__UUCCA___GCAUUCCCAGUGCAGGUUUAACUUGCACUGGCUUCCCUUUUU_CACUUUUCCUCCGCUUUUCCUCAGUUU_UCCA___
((..(((((.((((..................((((((((((.....)))))))))))))).)))))...))................................ (-16.68 = -17.46 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 8,849,139 – 8,849,237
Length 98
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 77.23
Mean single sequence MFE -22.17
Consensus MFE -14.73
Energy contribution -15.07
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.68
Structure conservation index 0.66
SVM decision value 0.63
SVM RNA-class probability 0.804551
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8849139 98 - 23771897
AACUGGAAAAACUGAGGAAAAGCGGAGGAAAAGUG-AAAAAGGGAAGCCAGUGCAAGUUAAAACUGCACUGGGAAUGC---UGGAA--UUCUUCGCUUUCAAAC
................((((.((((((((....(.-...).......((((((((.((....))))))))))......---.....--)))))))))))).... ( -25.50)
>DroSec_CAF1 109220 84 - 1
-----------------AAAAGGAGUGGAAAAGUG-AAAAAGGGAAGCCAGUGCAAGUUAAACCUGCAAUGGGAAUGCUGCUGGAA--UUCUUAGCUUUCAAAC
-----------------................((-(((.(((((..(((((...(((....((......))....))))))))..--)))))...)))))... ( -16.60)
>DroEre_CAF1 113116 98 - 1
---UGGAGAAACUGAGGCAAAACGGAGGAAAGGCGGAAAAAGGGAAGCCAGUGCAAGUUGAACCUGCACUGGGAAUGC---UGGAAUGUUCUUCGCUUUCAAAC
---.((((((.....((((...((.........))............((((((((.(.....).))))))))...)))---)......)))))).......... ( -24.40)
>consensus
___UGGA_AAACUGAGGAAAAGCGGAGGAAAAGUG_AAAAAGGGAAGCCAGUGCAAGUUAAACCUGCACUGGGAAUGC___UGGAA__UUCUUCGCUUUCAAAC
...............................................((((((((.(......)))))))))(((.((....(((....)))..)).))).... (-14.73 = -15.07 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:39 2006