Locus 4193

Sequence ID	X_DroMel_CAF1
Location	11,006,493 – 11,006,587
Length	94
Max. P	0.908626

overview

Window 2

Location	11,006,493 – 11,006,587
Length	94
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	83.93
Mean single sequence MFE	-28.35
Consensus MFE	-20.29
Energy contribution	-20.15
Covariance contribution	-0.14
Combinations/Pair	1.07
Mean z-score	-2.08
Structure conservation index	0.72
SVM decision value	0.16
SVM RNA-class probability	0.614592
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11006493 94 + 22224390
G-UUUUGCAAC------UAGUAAUUGA-UCUUAUGUUGCUUC----UA-UUGCAGACAUGACGCGUUUAGGCGUUUGGGUCCUGGACGGUGAUCCAGGACACACAAA
.-.(((((((.------.((((((...-......))))))..----..-)))))))((.(((((......))))))).((((((((......))))))))....... ( -29.60)
>DroPse_CAF1 17109 102 + 1
GAUAGAAUAAAGAAUUCUACUAUUUCUUUAUUAUUCU-AUUC----UAUUUGCAGACAUGACGCGUUUAGGUGUUUGGGUCCUGGAUGGUGAUCCAGGACACACAAA
((((((((((((((.........))))...)))))))-)))(----((..(((.........)))..)))((((....(((((((((....)))))))))))))... ( -30.10)
>DroSec_CAF1 7607 94 + 1
G-UUUUGCAAU------UAGUAAUUGA-UCUUAUGUUGCUUC----UA-UUGCAGACAUGACGCGCUUGGGCGUUUGGGUCCUGGACGGUGAUCCAGGACACACAAA
.-.((((((((------.((((((...-......))))))..----.)-)))))))((.(((((......))))))).((((((((......))))))))....... ( -31.70)
>DroSim_CAF1 4447 94 + 1
G-UUUUGCAAU------UAGUAAUUGA-UCUUAUGUUGCUUC----UA-UUGCAGACAUGACGCGCUUGGGCGUUUGGGUCCUGGACGGCGAUCCAGGACACACAAA
.-.((((((((------.((((((...-......))))))..----.)-)))))))((.(((((......))))))).((((((((......))))))))....... ( -31.70)
>DroEre_CAF1 6352 94 + 1
G-UAUUAUAAA------UAGUAUUUAA-UCUUAUGUUGAUUC----CA-UUGUAGACAUGACGCGUUUGGGCGUUUGGGUCCUGGAUGGCGAUCCAGGACACACAAA
(-(((((....------))))))....-...((((((.((..----..-..)).))))))((((......))))(((.(((((((((....)))))))))...))). ( -24.80)
>DroYak_CAF1 4463 98 + 1
A-AAUUACAAA------UAGUAUUUAA-UCUUAUGUUGAUUCAUUUCA-UUACAGACAUGACGCGUUUGGGCGUUUGGGUCCUGGACGGCGAUCCAGGACACACAAA
.-.....(((.------..(((.....-...))).)))..((((.((.-.....)).))))(((......)))((((.((((((((......))))))))...)))) ( -22.20)
>consensus
G_UAUUACAAA______UAGUAAUUGA_UCUUAUGUUGAUUC____UA_UUGCAGACAUGACGCGUUUGGGCGUUUGGGUCCUGGACGGCGAUCCAGGACACACAAA
........................................................((.(((((......))))))).((((((((......))))))))....... (-20.29 = -20.15 +  -0.14)

alignment

secondary structure

dotplot

Window 3

Location	11,006,493 – 11,006,587
Length	94
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	83.93
Mean single sequence MFE	-24.42
Consensus MFE	-20.14
Energy contribution	-20.28
Covariance contribution	0.14
Combinations/Pair	1.10
Mean z-score	-2.51
Structure conservation index	0.82
SVM decision value	1.06
SVM RNA-class probability	0.908626
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11006493 94 - 22224390
UUUGUGUGUCCUGGAUCACCGUCCAGGACCCAAACGCCUAAACGCGUCAUGUCUGCAA-UA----GAAGCAACAUAAGA-UCAAUUACUA------GUUGCAAAA-C
.(((((.(((((((((....))))))))).)..((((......)))).......))))-..----...(((((.(((..-....)))...------)))))....-. ( -24.90)
>DroPse_CAF1 17109 102 - 1
UUUGUGUGUCCUGGAUCACCAUCCAGGACCCAAACACCUAAACGCGUCAUGUCUGCAAAUA----GAAU-AGAAUAAUAAAGAAAUAGUAGAAUUCUUUAUUCUAUC
...(((((((((((((....)))))))))....))))(((...(((.......)))...))----).((-(((((((...((((.........))))))))))))). ( -24.00)
>DroSec_CAF1 7607 94 - 1
UUUGUGUGUCCUGGAUCACCGUCCAGGACCCAAACGCCCAAGCGCGUCAUGUCUGCAA-UA----GAAGCAACAUAAGA-UCAAUUACUA------AUUGCAAAA-C
((((((.(((((((((....))))))))).)..((((......)))).((((.(((..-..----...)))))))....-..........------...))))).-. ( -24.50)
>DroSim_CAF1 4447 94 - 1
UUUGUGUGUCCUGGAUCGCCGUCCAGGACCCAAACGCCCAAGCGCGUCAUGUCUGCAA-UA----GAAGCAACAUAAGA-UCAAUUACUA------AUUGCAAAA-C
((((((.(((((((((....))))))))).)..((((......)))).((((.(((..-..----...)))))))....-..........------...))))).-. ( -24.50)
>DroEre_CAF1 6352 94 - 1
UUUGUGUGUCCUGGAUCGCCAUCCAGGACCCAAACGCCCAAACGCGUCAUGUCUACAA-UG----GAAUCAACAUAAGA-UUAAAUACUA------UUUAUAAUA-C
((((((((((((((((....)))))))))(((.((((......))))..((....)).-))----).....))))))).-..........------.........-. ( -23.80)
>DroYak_CAF1 4463 98 - 1
UUUGUGUGUCCUGGAUCGCCGUCCAGGACCCAAACGCCCAAACGCGUCAUGUCUGUAA-UGAAAUGAAUCAACAUAAGA-UUAAAUACUA------UUUGUAAUU-U
((((((((((((((((....))))))))).....(((......)))((((.((.....-.)).))))....))))))).-.....(((..------...)))...-. ( -24.80)
>consensus
UUUGUGUGUCCUGGAUCACCGUCCAGGACCCAAACGCCCAAACGCGUCAUGUCUGCAA_UA____GAAGCAACAUAAGA_UCAAAUACUA______UUUGCAAAA_C
((((((((((((((((....)))))))))....((((......))))........................)))))))............................. (-20.14 = -20.28 +   0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:50 2006