Locus 4347

Sequence ID	3L_DroMel_CAF1
Location	12,769,381 – 12,769,490
Length	109
Max. P	0.983323

overview

Window 8

Location	12,769,381 – 12,769,490
Length	109
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	74.97
Mean single sequence MFE	-36.78
Consensus MFE	-21.21
Energy contribution	-21.80
Covariance contribution	0.59
Combinations/Pair	1.36
Mean z-score	-2.32
Structure conservation index	0.58
SVM decision value	1.94
SVM RNA-class probability	0.983323
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12769381 109 + 23771897
AUUUGUUCAAUUUA---AUCCA--CUAGGCAUCAUGGUUCUGGCCGUGAUUGGCAUCGUCAUCGGACUCAUUUGCCGCCAGGAUAUUGGCGGCAUCAAAACCAAAUGCUGCCGC
..............---.....--...(((((((((((....)))))))).(((((.(((....))).....(((((((((....)))))))))..........)))))))).. ( -37.30)
>DroVir_CAF1 30917 114 + 1
AAAUGUUUCAUAUACGCAUCCAUUGCAGGCAUCAUGGCCGUUGCCAUUGUGGGCAUUAUUGUGGGUUUGAUUUGCCGCAAGGAUGUGGGCGGCAUUAAAACGAAAUGUUGUCGC
..............(((((((.((((.(((((((.(.(((.((((......))))......))).).)))..)))))))))))))))(((((((((.......))))))))).. ( -39.60)
>DroEre_CAF1 10119 109 + 1
AUUUGUUCGAUCUU---ACCCA--CCAGGCAUCAUGGUUUUGGCCGUGAUUGGUAUCGUCAUCGGACUCAUUUGCCGCCAGGAUAUUGGCGGCAUCAAAACCAAAUGCUGCCGC
..............---.....--...((((.((((((((((((((((((.......)))).))).......(((((((((....))))))))))))))))))..)).)))).. ( -39.20)
>DroYak_CAF1 9986 110 + 1
AU-UGUUCGAUUUU---ACCCACACUAGGCAUCAUGGUUUUGGCCGUGAUUGGCAUCGUCAUCGGACUCAUUUGCCGCCAGGAUAUUGGCGGCAUCAAAACCAAAUGCUGCCGC
..-...........---..........((((.((((((((((((((....))))...(((....))).....(((((((((....))))))))).))))))))..)).)))).. ( -40.10)
>DroAna_CAF1 8613 103 + 1
--UUGUUUAAUAUU---UU------CAGGCAUCAUGGUCAUCGCGGUGAUCGGGAUUAUCAUUGGGCUGAUCUGCCGGAAGGACAUUGGAGGGAUCAAGACCAAAUGCUGCCGC
--............---..------..((((.(((((((..(.(((((((.......))))))).).((((((.((....)).(......))))))).)))))..)).)))).. ( -29.00)
>DroPer_CAF1 36873 97 + 1
--------UACAUU---U------GCAGGCAUCAUGGUAUUGGCGGUCAUUGGCAUUGUCAUUGGCCUCAUUUGCCGCAAGGAUGUGGGCGGCAUCAAGACCAAAUGCUGCCGC
--------((((((---(------((.((((..(((((....))(((((.((((...)))).))))).))).)))))))..))))))((((((((.........)))))))).. ( -35.50)
>consensus
AUUUGUUCAAUAUU___AUCCA__CCAGGCAUCAUGGUUUUGGCCGUGAUUGGCAUCGUCAUCGGACUCAUUUGCCGCAAGGAUAUUGGCGGCAUCAAAACCAAAUGCUGCCGC
...........................(((((((((((....)))))))).(((((.(((....))).....((((((..........))))))..........)))))))).. (-21.21 = -21.80 +   0.59)

alignment

secondary structure

dotplot

Window 9

Location	12,769,381 – 12,769,490
Length	109
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	74.97
Mean single sequence MFE	-31.60
Consensus MFE	-19.86
Energy contribution	-21.70
Covariance contribution	1.84
Combinations/Pair	1.17
Mean z-score	-1.71
Structure conservation index	0.63
SVM decision value	1.11
SVM RNA-class probability	0.917099
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12769381 109 - 23771897
GCGGCAGCAUUUGGUUUUGAUGCCGCCAAUAUCCUGGCGGCAAAUGAGUCCGAUGACGAUGCCAAUCACGGCCAGAACCAUGAUGCCUAG--UGGAU---UAAAUUGAACAAAU
..((((.((..((((((((.((((((((......)))))))).....(((....)))...(((......))))))))))))).))))...--.....---.............. ( -37.40)
>DroVir_CAF1 30917 114 - 1
GCGACAACAUUUCGUUUUAAUGCCGCCCACAUCCUUGCGGCAAAUCAAACCCACAAUAAUGCCCACAAUGGCAACGGCCAUGAUGCCUGCAAUGGAUGCGUAUAUGAAACAUUU
.............((((((((((.((....((((((((((((.................((....))(((((....)))))..)))).)))).)))))))))).)))))).... ( -27.20)
>DroEre_CAF1 10119 109 - 1
GCGGCAGCAUUUGGUUUUGAUGCCGCCAAUAUCCUGGCGGCAAAUGAGUCCGAUGACGAUACCAAUCACGGCCAAAACCAUGAUGCCUGG--UGGGU---AAGAUCGAACAAAU
.((.(((((((((((((((.((((((((......)))))))).....(.(((.(((.........))))))))))))))).)))).))).--))...---.............. ( -36.80)
>DroYak_CAF1 9986 110 - 1
GCGGCAGCAUUUGGUUUUGAUGCCGCCAAUAUCCUGGCGGCAAAUGAGUCCGAUGACGAUGCCAAUCACGGCCAAAACCAUGAUGCCUAGUGUGGGU---AAAAUCGAACA-AU
..((((.((..((((((((.((((((((......)))))))).....(((....)))...(((......))))))))))))).))))..((.(((..---....))).)).-.. ( -38.10)
>DroAna_CAF1 8613 103 - 1
GCGGCAGCAUUUGGUCUUGAUCCCUCCAAUGUCCUUCCGGCAGAUCAGCCCAAUGAUAAUCCCGAUCACCGCGAUGACCAUGAUGCCUG------AA---AAUAUUAAACAA--
..((((.((..(((((.............((((.....(((......)))....))))(((.((.....)).)))))))))).))))..------..---............-- ( -21.20)
>DroPer_CAF1 36873 97 - 1
GCGGCAGCAUUUGGUCUUGAUGCCGCCCACAUCCUUGCGGCAAAUGAGGCCAAUGACAAUGCCAAUGACCGCCAAUACCAUGAUGCCUGC------A---AAUGUA--------
((((((((((((((((((..((((((..........))))))...))))))).....)))))...)).))))......(((..((....)------)---.)))..-------- ( -28.90)
>consensus
GCGGCAGCAUUUGGUUUUGAUGCCGCCAAUAUCCUGGCGGCAAAUGAGUCCGAUGACAAUGCCAAUCACGGCCAAAACCAUGAUGCCUGG__UGGAU___AAUAUCGAACAAAU
..((((.((..((((((((.((((((..........))))))..................(((......))))))))))))).))))........................... (-19.86 = -21.70 +   1.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:13 2006