Locus 5107

Sequence ID	2R_DroMel_CAF1
Location	16,613,494 – 16,613,594
Length	100
Max. P	0.975222

overview

Window 6

Location	16,613,494 – 16,613,594
Length	100
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	75.39
Mean single sequence MFE	-26.18
Consensus MFE	-9.36
Energy contribution	-10.78
Covariance contribution	1.42
Combinations/Pair	1.24
Mean z-score	-2.53
Structure conservation index	0.36
SVM decision value	1.00
SVM RNA-class probability	0.898258
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16613494 100 + 20766785
UGCCACCUAAGUGCAGCGGUUUUUGCCGAUUUUCCAGUAAAAACAAAUUUAUUUCAUGC--CGUAUAUG----A-AUAUAUCUGUUUUAAUUGGCAAACUUGUGGCG
.(((((.....(((..((((....))))......((((.((((((.((....((((((.--....))))----)-)...)).)))))).))))))).....))))). ( -27.60)
>DroSec_CAF1 13421 101 + 1
UGCCACCUAAGUGCAGCGGUUUUUGCCGAUUUCCCAGGAAAAACAAAUUUAUUUCAUGC--CGUAUAUG----AAAUAUAUCUGUUUUAAUUGGCAAACUUGUGGCG
.(((((.....(((..((((....))))......(((..((((((.((.(((((((((.--....))))----))))).)).))))))..)))))).....))))). ( -30.90)
>DroSim_CAF1 13001 103 + 1
UGCCACCUAAGUGCAGCGGUUUUUGCCGAUUUCCCAGGAAAAACAAAUUUAUUUCAUGCCCCGUAUAUG----AAAUAUAUCUGUUUUAAUUGGCAAACUUGUGGCG
.(((((.....(((..((((....))))......(((..((((((.((.(((((((((.......))))----))))).)).))))))..)))))).....))))). ( -30.60)
>DroEre_CAF1 15754 99 + 1
UGCCACCUAAGUGCAGCGGUUUUU-CCGAUUUCCCAGGAAAAACCAGUUUAUUUCAUUC--CGUAAAUA-----AAUACAUCUGCUUUAAUUGGCAAACUUGUGGCG
.(((((.....(((((((((((((-((.........))))))))).(((((((((....--.).)))))-----)))......))).......))).....))))). ( -28.61)
>DroYak_CAF1 13685 100 + 1
UGCCACCUAAGUGCAGCGGUUUUUGCCGAUUUUCCAGCGAAAAUAAAUGUAUUUCAUUU--CGUAAAUA-----AUCACAUCUGUUUUAAUUUGCAAACUUGCGGCU
.(((....(((((((...((((((((.(......).))))))))...))))))).....--.((((((.-----(..((....))..).))))))........))). ( -21.70)
>DroAna_CAF1 15437 98 + 1
CGCUACCUUGGCAUGGAAAUUGGUGAAUAAUUCACGGCCUAAACAAACUGUUUGCACUC--AGAAAAUAAAUAAAACAUAAUGGCCAAAGUUGGCAAUCU-------
.(((((.(((((..........((((.....)))).((..((((.....))))))....--......................))))).).)))).....------- ( -17.70)
>consensus
UGCCACCUAAGUGCAGCGGUUUUUGCCGAUUUCCCAGGAAAAACAAAUUUAUUUCAUGC__CGUAAAUA____AAAUAUAUCUGUUUUAAUUGGCAAACUUGUGGCG
.(((((..((((....((((....))))......................................................((((......)))).))))))))). ( -9.36 = -10.78 +   1.42)

alignment

secondary structure

dotplot

Window 7

Location	16,613,494 – 16,613,594
Length	100
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	75.39
Mean single sequence MFE	-26.98
Consensus MFE	-10.79
Energy contribution	-11.88
Covariance contribution	1.09
Combinations/Pair	1.33
Mean z-score	-2.73
Structure conservation index	0.40
SVM decision value	1.75
SVM RNA-class probability	0.975222
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16613494 100 - 20766785
CGCCACAAGUUUGCCAAUUAAAACAGAUAUAU-U----CAUAUACG--GCAUGAAAUAAAUUUGUUUUUACUGGAAAAUCGGCAAAAACCGCUGCACUUAGGUGGCA
.(((((..((((.(((...(((((((((.(((-(----(((.....--..))).)))).)))))))))...))).))))((((.......)))).......))))). ( -25.60)
>DroSec_CAF1 13421 101 - 1
CGCCACAAGUUUGCCAAUUAAAACAGAUAUAUUU----CAUAUACG--GCAUGAAAUAAAUUUGUUUUUCCUGGGAAAUCGGCAAAAACCGCUGCACUUAGGUGGCA
.(((((..((((.(((...(((((((((.(((((----(((.....--..)))))))).)))))))))...))).))))((((.......)))).......))))). ( -32.40)
>DroSim_CAF1 13001 103 - 1
CGCCACAAGUUUGCCAAUUAAAACAGAUAUAUUU----CAUAUACGGGGCAUGAAAUAAAUUUGUUUUUCCUGGGAAAUCGGCAAAAACCGCUGCACUUAGGUGGCA
.(((((..((((.(((...(((((((((.(((((----(((.........)))))))).)))))))))...))).))))((((.......)))).......))))). ( -31.90)
>DroEre_CAF1 15754 99 - 1
CGCCACAAGUUUGCCAAUUAAAGCAGAUGUAUU-----UAUUUACG--GAAUGAAAUAAACUGGUUUUUCCUGGGAAAUCGG-AAAAACCGCUGCACUUAGGUGGCA
.(((((..((((((........))))))(((((-----(((((...--.....)))))))..(((((((((.((....))))-)))))))..)))......))))). ( -28.80)
>DroYak_CAF1 13685 100 - 1
AGCCGCAAGUUUGCAAAUUAAAACAGAUGUGAU-----UAUUUACG--AAAUGAAAUACAUUUAUUUUCGCUGGAAAAUCGGCAAAAACCGCUGCACUUAGGUGGCA
.(((((.....((((....((((.(((((((.(-----((((....--.)))))..))))))).)))).((((......)))).........)))).....))))). ( -22.70)
>DroAna_CAF1 15437 98 - 1
-------AGAUUGCCAACUUUGGCCAUUAUGUUUUAUUUAUUUUCU--GAGUGCAAACAGUUUGUUUAGGCCGUGAAUUAUUCACCAAUUUCCAUGCCAAGGUAGCG
-------.....((..((((((((((...(((((((((((.....)--))))).)))))...))........((((.....))))..........)))))))).)). ( -20.50)
>consensus
CGCCACAAGUUUGCCAAUUAAAACAGAUAUAUUU____CAUAUACG__GAAUGAAAUAAAUUUGUUUUUCCUGGGAAAUCGGCAAAAACCGCUGCACUUAGGUGGCA
.(((((..((((.(((...(((((((((...............................)))))))))...))).))))(((......)))..........))))). (-10.79 = -11.88 +   1.09)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:43 2006