Locus 2677

Sequence ID	3L_DroMel_CAF1
Location	7,451,732 – 7,451,823
Length	91
Max. P	0.958821

overview

Window 0

Location	7,451,732 – 7,451,823
Length	91
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	71.94
Mean single sequence MFE	-27.88
Consensus MFE	-13.90
Energy contribution	-14.48
Covariance contribution	0.58
Combinations/Pair	1.15
Mean z-score	-2.08
Structure conservation index	0.50
SVM decision value	1.49
SVM RNA-class probability	0.958821
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7451732 91 + 23771897
---CUCAGU--UCUUGUUGUUGUCAAAAGUCGCACACAAAAA-CUUU---GCAGU-CCAAAGUUUUCAGCGGAAAUUGUGCAGCUGUUUUGUGUGUGGAAU--------
---......--..................(((((((((((((-((((---(....-.))))))...((((............))))))))))))))))...-------- ( -22.20)
>DroVir_CAF1 120902 101 + 1
UGUUGUUGCCAUUGCGGCACUGCCAAAAGUCGCACACAAAAA-CUUU----CAGC-GCAAAGUUUUUAACGGAAAUUGUGCAGCUGUUUUGUGUGC-CGACGACAC-GG
((((((((.......(((...))).......((((((((((.-....----((((-(((.((((((.....)))))).))).))))))))))))))-)))))))).-.. ( -34.50)
>DroGri_CAF1 95871 100 + 1
UGUUGCAGGCAUUGCGGUCCUGCCAAAAGUCGCACACAAAAA-CUUU----GAGA-GCAAAGUUUUUAACGGAAAUUGUGCAGCUGUUUUGUGUG--CGACGACAA-CG
((((((((((......).))))).....((((((((((((((-((((----(...-.))))))))))(((((...........)))))..)))))--)))))))).-.. ( -36.20)
>DroWil_CAF1 131261 104 + 1
---UUGGCG--CCCUGUUGUUGCCGAAAGUCGCACACAAAAAACUUUAUUUCUAUGCAAAAGUUUUCAACGGAAAUUGUGCAGCUGUUUUGUGUGCGAGAAGACACACG
---((((((--(......).))))))...((((((((((((.............((((..((((((.....)))))).))))....))))))))))))........... ( -27.63)
>DroYak_CAF1 99812 91 + 1
---CACGGU--UCUUGUUGUUGUCAAAAGUCGCACACAAAAA-CUUU---GCAGU-UCCAAGUUUCCAACGGAAAUUGUGCAGCUGUUUUGUGUGUAGAAU--------
---....((--(((..(((....))).....(((((((((..-....---(((((-(.(((((((((...))))))).)).))))))))))))))))))))-------- ( -23.10)
>DroAna_CAF1 103720 87 + 1
---CUUUUC--UAUUGUUCUUGACAAAAGUCGCACACAAAAA-CUUU---CCAAU-GCAAAGUUUUCAACGGAAAUUGUGCAGCUGUUUUGUGUGCG------------
---......--..........(((....)))((((((((((.-....---....(-(((.((((((.....)))))).))))....)))))))))).------------ ( -23.62)
>consensus
___CUCAGC__UCUUGUUGUUGCCAAAAGUCGCACACAAAAA_CUUU____CAGU_GCAAAGUUUUCAACGGAAAUUGUGCAGCUGUUUUGUGUGCGCGAC________
...............................((((((((((..........((((.....((((((.....)))))).....))))))))))))))............. (-13.90 = -14.48 +   0.58)

alignment

secondary structure

dotplot

Window 1

Location	7,451,732 – 7,451,823
Length	91
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	71.94
Mean single sequence MFE	-25.77
Consensus MFE	-7.87
Energy contribution	-8.04
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-2.26
Structure conservation index	0.31
SVM decision value	0.67
SVM RNA-class probability	0.817443
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7451732 91 - 23771897
--------AUUCCACACACAAAACAGCUGCACAAUUUCCGCUGAAAACUUUGG-ACUGC---AAAG-UUUUUGUGUGCGACUUUUGACAACAACAAGA--ACUGAG---
--------....(.((((((...((((............))))(((((((((.-....)---))))-)))))))))).)..(((((.......)))))--......--- ( -19.50)
>DroVir_CAF1 120902 101 - 1
CC-GUGUCGUCG-GCACACAAAACAGCUGCACAAUUUCCGUUAAAAACUUUGC-GCUG----AAAG-UUUUUGUGUGCGACUUUUGGCAGUGCCGCAAUGGCAACAACA
..-.((((((((-((((.((((..((.((((((........((((((((((..-....----))))-)))))))))))).))))))...))))))..))))))...... ( -30.50)
>DroGri_CAF1 95871 100 - 1
CG-UUGUCGUCG--CACACAAAACAGCUGCACAAUUUCCGUUAAAAACUUUGC-UCUC----AAAG-UUUUUGUGUGCGACUUUUGGCAGGACCGCAAUGCCUGCAACA
.(-((((.((((--(((((.....(((............)))((((((((((.-...)----))))-))))))))))))))....((((.........)))).))))). ( -32.60)
>DroWil_CAF1 131261 104 - 1
CGUGUGUCUUCUCGCACACAAAACAGCUGCACAAUUUCCGUUGAAAACUUUUGCAUAGAAAUAAAGUUUUUUGUGUGCGACUUUCGGCAACAACAGGG--CGCCAA---
.(.(((((((.((((((((((((.(((((((.((((((....))))..)).))).((....)).)))))))))))))))).....(....)...))))--))))..--- ( -30.00)
>DroYak_CAF1 99812 91 - 1
--------AUUCUACACACAAAACAGCUGCACAAUUUCCGUUGGAAACUUGGA-ACUGC---AAAG-UUUUUGUGUGCGACUUUUGACAACAACAAGA--ACCGUG---
--------......(((((((((....((((....(((((..(....).))))-).)))---)...-.)))))))))((..(((((.......)))))--..))..--- ( -20.90)
>DroAna_CAF1 103720 87 - 1
------------CGCACACAAAACAGCUGCACAAUUUCCGUUGAAAACUUUGC-AUUGG---AAAG-UUUUUGUGUGCGACUUUUGUCAAGAACAAUA--GAAAAG---
------------((((((((...((((............))))((((((((.(-...).---))))-)))))))))))).((.((((.....)))).)--).....--- ( -21.10)
>consensus
________AUCCCGCACACAAAACAGCUGCACAAUUUCCGUUGAAAACUUUGC_ACUG____AAAG_UUUUUGUGUGCGACUUUUGGCAACAACAAGA__ACAGAA___
..................(((((..((.((((((....................................))))))))...)))))....................... ( -7.87 =  -8.04 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:05 2006