Locus 2037

Sequence ID	2L_DroMel_CAF1
Location	5,500,393 – 5,500,491
Length	98
Max. P	0.963657

overview

Window 0

Location	5,500,393 – 5,500,491
Length	98
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.04
Mean single sequence MFE	-29.52
Consensus MFE	-15.53
Energy contribution	-15.58
Covariance contribution	0.06
Combinations/Pair	1.14
Mean z-score	-2.88
Structure conservation index	0.53
SVM decision value	1.56
SVM RNA-class probability	0.963657
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5500393 98 + 22407834
--AUCAGCAGG----GCGAU-GGAAACGA---CAGCAACAUACAAAUUUAUAUGGCCGCAGGGCAUGCUGAAAUUAUGCCAUCAAAUUGGUAUCAACAGCC----CA-----UGCAG---
--....(((((----((..(-(....)).---(((((.((((........))))(((....))).))))).....((((((......)))))).....)))----).-----)))..--- ( -32.40)
>DroVir_CAF1 174621 95 + 1
---------------ACGAU-GGCAACGACAACAGCAACAUACAAAUUUAUAUGGCCGCGGGGCAUGUUGAAAUUAUGCCAUCAAAUUGGUAUCAACAGCC----AG-----UGCAGAGA
---------------..(((-((((.......(((((.((((........))))(((....))).)))))......)))))))..((((((.......)))----))-----)....... ( -25.92)
>DroGri_CAF1 185107 105 + 1
-------AAAC----ACGAUGGGCAACGACAACAGCAACAUACAAAUUUAUAUUGCUGCGGGGCAUGUUGAAAUUAUGCCAUCAAAUUGGUAUCAACAGCC----AACAGAGUGGAGAGA
-------...(----((..(((....)..(..((((((.(((......))).))))))..)(((.((((((.....(((((......))))))))))))))----..))..)))...... ( -30.80)
>DroWil_CAF1 176710 102 + 1
--AACAAUCGC----UCGAU-GGCAACGA---CAGCAACAUACAAAUUUAUAUGGCUGCAGGGCAUGUUGAAAUUAUGCCAUCAAAUUGGUAUCAACAGCAACAACA-----UGGAG---
--........(----((.((-(....(..---((((..((((........))))))))..).((.((((((.....(((((......))))))))))))).....))-----).)))--- ( -24.80)
>DroMoj_CAF1 192205 110 + 1
GCGGCAGAAGCACAAGCGGA-GGCAACGACAACAGCAACAUACAAAUUUAUAUGGCUGCGGGGCAUGUUGAAAUUAUGCCAUCAAAUUGGUAUCAACAGUC----AG-----UGGAGAGA
(((((....((....))(..-(....)..)........((((........)))))))))..(((.((((((.....(((((......))))))))))))))----..-----........ ( -27.00)
>DroAna_CAF1 129515 98 + 1
--GGCAGCAGG----GCGAU-GGCAACGA---CAGCAACAUACAAAUUUGUAUUGCCACAGGGCAUGCUGAAAUUAUGCCAUCAAAUUGGUAUCAACAGCC----CA-----UGCAA---
--....(((((----(((((-((((....---(((((..(((((....)))))((((....)))))))))......)))))))....((.......)))))----).-----)))..--- ( -36.20)
>consensus
____CAGAAGC____GCGAU_GGCAACGA___CAGCAACAUACAAAUUUAUAUGGCCGCAGGGCAUGUUGAAAUUAUGCCAUCAAAUUGGUAUCAACAGCC____AA_____UGCAG___
.....................(((........(((((.((((........))))(((....))).))))).....((((((......)))))).....)))................... (-15.53 = -15.58 +   0.06)

alignment

secondary structure

dotplot

Window 1

Location	5,500,393 – 5,500,491
Length	98
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.04
Mean single sequence MFE	-27.23
Consensus MFE	-16.67
Energy contribution	-16.25
Covariance contribution	-0.42
Combinations/Pair	1.18
Mean z-score	-1.87
Structure conservation index	0.61
SVM decision value	0.66
SVM RNA-class probability	0.815141
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5500393 98 - 22407834
---CUGCA-----UG----GGCUGUUGAUACCAAUUUGAUGGCAUAAUUUCAGCAUGCCCUGCGGCCAUAUAAAUUUGUAUGUUGCUG---UCGUUUCC-AUCGC----CCUGCUGAU--
---..(((-----.(----(((.((((....))))..(((((...(((..(((((.(((....)))((((((....)))))).)))))---..))).))-)))))----)))))....-- ( -31.80)
>DroVir_CAF1 174621 95 - 1
UCUCUGCA-----CU----GGCUGUUGAUACCAAUUUGAUGGCAUAAUUUCAACAUGCCCCGCGGCCAUAUAAAUUUGUAUGUUGCUGUUGUCGUUGCC-AUCGU---------------
..((.(((-----..----...))).)).........(((((((......(((((.(((....)))((((((....))))))....)))))....))))-)))..--------------- ( -22.20)
>DroGri_CAF1 185107 105 - 1
UCUCUCCACUCUGUU----GGCUGUUGAUACCAAUUUGAUGGCAUAAUUUCAACAUGCCCCGCAGCAAUAUAAAUUUGUAUGUUGCUGUUGUCGUUGCCCAUCGU----GUUU-------
......(((..((..----(((...(((((..........(((((.........)))))..(((((((((((......))))))))))))))))..)))))..))----)...------- ( -26.90)
>DroWil_CAF1 176710 102 - 1
---CUCCA-----UGUUGUUGCUGUUGAUACCAAUUUGAUGGCAUAAUUUCAACAUGCCCUGCAGCCAUAUAAAUUUGUAUGUUGCUG---UCGUUGCC-AUCGA----GCGAUUGUU--
---...((-----(((((.((((((..(.......)..))))))......)))))))....(((((((((((....))))))..))))---).(((((.-.....----)))))....-- ( -25.70)
>DroMoj_CAF1 192205 110 - 1
UCUCUCCA-----CU----GACUGUUGAUACCAAUUUGAUGGCAUAAUUUCAACAUGCCCCGCAGCCAUAUAAAUUUGUAUGUUGCUGUUGUCGUUGCC-UCCGCUUGUGCUUCUGCCGC
........-----..----(((((((((..(((......))).......))))))......(((((((((((....))))))..))))).)))((.((.-...((....))....)).)) ( -19.60)
>DroAna_CAF1 129515 98 - 1
---UUGCA-----UG----GGCUGUUGAUACCAAUUUGAUGGCAUAAUUUCAGCAUGCCCUGUGGCAAUACAAAUUUGUAUGUUGCUG---UCGUUGCC-AUCGC----CCUGCUGCC--
---..(((-----.(----(((.((((....))))..(((((((......(((((((((....))))(((((....)))))..)))))---....))))-)))))----)))))....-- ( -37.20)
>consensus
___CUCCA_____UG____GGCUGUUGAUACCAAUUUGAUGGCAUAAUUUCAACAUGCCCCGCAGCCAUAUAAAUUUGUAUGUUGCUG___UCGUUGCC_AUCGC____GCUGCUG____
...................(((((((((..(((......))).......)))))).)))..(((((.(((((....)))))))))).................................. (-16.67 = -16.25 +  -0.42)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:45 2006