Locus 4669

Sequence ID	2R_DroMel_CAF1
Location	15,243,022 – 15,243,125
Length	103
Max. P	0.982235

overview

Window 8

Location	15,243,022 – 15,243,125
Length	103
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	75.93
Mean single sequence MFE	-31.21
Consensus MFE	-24.87
Energy contribution	-24.65
Covariance contribution	-0.22
Combinations/Pair	1.09
Mean z-score	-2.14
Structure conservation index	0.80
SVM decision value	1.91
SVM RNA-class probability	0.982235
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15243022 103 + 20766785
-----GACGACAAA---AAUAAGACAAAAAC-----UCAUAUUCCCAUACCGGGAAUUGAAC-CCGGGCCUCCCGGGUGAGAGCCGGGUAUCCUAACCACUAGACAAUAUGGGAUAC
-----.........---..............-----......(((((((((((...((..((-(((((...)))))))..)).)))).....(((.....)))....)))))))... ( -30.40)
>DroPse_CAF1 110324 100 + 1
-------UG-UUAAAAAAAUGUCAGCA---C-----ACAGCUUCCCAUACCGGGAAUUGAAC-CCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGAGAU
-------..-..........((((((.---.-----...)))(((((((((((...((..((-((((.....))))))..)).)))).....(((.....)))....)))))))))) ( -30.50)
>DroEre_CAF1 66856 112 + 1
-----UACGGCUAACGAAAUAUAAAUAAAGCUAGCUUUGCAUUUCCAUACCGGGAAAUGGACGCCGGGCCACCCGGGUGAGAGCCGGGUAUCCUAACCACUAGAAUAUAUGGGAUAC
-----..(((((.((..........(((((....)))))(((((((......)))))))....(((((...)))))))...))))).((((((((..............)))))))) ( -35.14)
>DroWil_CAF1 167541 100 + 1
--------------AAAAAAAGCAAUUCA-CUUGUCAU-GUUUCCCAUACCGGGAAUUGAAC-CCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGAGAU
--------------.......((((....-.))))...-((((((((((((((...((..((-((((.....))))))..)).)))).....(((.....)))....)))))))))) ( -31.00)
>DroYak_CAF1 69915 116 + 1
ACAUACAUGACUAACAAAAAAUCAACUAAGCUUGCUUUGUCUUCCCAUACCGGGAAUUGAAC-CCGGGCCUCCCGGGUGAGAGCCGGGUAUCCUAACCACUAGACAAUAUGGGAUGC
..............................((.(((((...(((((.....)))))....((-(((((...))))))).))))).))((((((((..............)))))))) ( -31.34)
>DroPer_CAF1 68128 100 + 1
-------UG-UUAAAAAAAUGUCAUCA---C-----ACAGCUUCCCAUACCGGGAAUUGAAC-CCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGAGAU
-------..-.................---.-----.....((((((((((((...((..((-((((.....))))))..)).)))).....(((.....)))....)))))))).. ( -28.90)
>consensus
_______UG_CUAAAAAAAUAUCAACAAA_C_____ACAGCUUCCCAUACCGGGAAUUGAAC_CCGGGCCUCCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGAGAC
..........................................(((((((((((...((..((.(((((...)))))))..)).)))).....(((.....)))....)))))))... (-24.87 = -24.65 +  -0.22)

alignment

secondary structure

dotplot

Window 9

Location	15,243,022 – 15,243,125
Length	103
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	75.93
Mean single sequence MFE	-31.09
Consensus MFE	-23.84
Energy contribution	-23.87
Covariance contribution	0.03
Combinations/Pair	1.12
Mean z-score	-1.09
Structure conservation index	0.77
SVM decision value	0.71
SVM RNA-class probability	0.829239
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15243022 103 - 20766785
GUAUCCCAUAUUGUCUAGUGGUUAGGAUACCCGGCUCUCACCCGGGAGGCCCGG-GUUCAAUUCCCGGUAUGGGAAUAUGA-----GUUUUUGUCUUAUU---UUUGUCGUC-----
...((((((((((......((....((.(((((((((((....)))))..))))-))))....))))))))))))..((((-----(.......))))).---.........----- ( -31.90)
>DroPse_CAF1 110324 100 - 1
AUCUCCCAUAUUGUCUAGUGGUUAGGAUAUCCGGCUCUCACCCGGAAGGCCCGG-GUUCAAUUCCCGGUAUGGGAAGCUGU-----G---UGCUGACAUUUUUUUAA-CA-------
...(((((((.(((((........))))).((((.....((((((.....))))-)).......)))))))))))(((...-----.---.))).............-..------- ( -29.80)
>DroEre_CAF1 66856 112 - 1
GUAUCCCAUAUAUUCUAGUGGUUAGGAUACCCGGCUCUCACCCGGGUGGCCCGGCGUCCAUUUCCCGGUAUGGAAAUGCAAAGCUAGCUUUAUUUAUAUUUCGUUAGCCGUA-----
((((.((((((.....(((((...((.(((((((.......)))))))..)).....))))).....))))))..))))...((((((..............))))))....----- ( -33.84)
>DroWil_CAF1 167541 100 - 1
AUCUCCCAUAUUGUCUAGUGGUUAGGAUAUCCGGCUCUCACCCGGAAGGCCCGG-GUUCAAUUCCCGGUAUGGGAAAC-AUGACAAG-UGAAUUGCUUUUUUU--------------
...(((((((.(((((........))))).((((.....((((((.....))))-)).......)))))))))))...-.....(((-(.....)))).....-------------- ( -27.90)
>DroYak_CAF1 69915 116 - 1
GCAUCCCAUAUUGUCUAGUGGUUAGGAUACCCGGCUCUCACCCGGGAGGCCCGG-GUUCAAUUCCCGGUAUGGGAAGACAAAGCAAGCUUAGUUGAUUUUUUGUUAGUCAUGUAUGU
(((((((((((((......((....((.(((((((((((....)))))..))))-))))....)))))))))))).(((..((((((............)))))).))).))).... ( -35.10)
>DroPer_CAF1 68128 100 - 1
AUCUCCCAUAUUGUCUAGUGGUUAGGAUAUCCGGCUCUCACCCGGAAGGCCCGG-GUUCAAUUCCCGGUAUGGGAAGCUGU-----G---UGAUGACAUUUUUUUAA-CA-------
...(((((((.(((((........))))).((((.....((((((.....))))-)).......)))))))))))....((-----(---(....))))........-..------- ( -28.00)
>consensus
AUAUCCCAUAUUGUCUAGUGGUUAGGAUACCCGGCUCUCACCCGGAAGGCCCGG_GUUCAAUUCCCGGUAUGGGAAGCUAA_____G_UUUGUUGAUAUUUUUUUAG_CA_______
...((((((((((....(..(((.((((.((.(((..((.....))..))).)).)))))))..))))))))))).......................................... (-23.84 = -23.87 +   0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:14 2006