Locus 58

Sequence ID	2L_DroMel_CAF1
Location	226,079 – 226,244
Length	165
Max. P	0.948808

overview

Window 6

Location	226,079 – 226,178
Length	99
Sequences	6
Columns	103
Reading direction	reverse
Mean pairwise identity	79.24
Mean single sequence MFE	-22.78
Consensus MFE	-16.10
Energy contribution	-15.13
Covariance contribution	-0.97
Combinations/Pair	1.43
Mean z-score	-1.10
Structure conservation index	0.71
SVM decision value	0.03
SVM RNA-class probability	0.550655
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 226079 99 - 22407834
GUCAACCAGCUGGCCAACUUGGACAUCAAUAAAUUGGCCAUGUACCUGGUCAGCAUGAACAAUGUACGUUAGUGAUGAGUACCUCC----UCUCUAUAUAAAA
((..(((((.(((((((.(((........))).))))))).....)))))..)).........((((.(((....)))))))....----............. ( -22.00)
>DroPse_CAF1 22664 96 - 1
GUCAGCCAGUUGGCCAAUUUGGAUAUCAAUAAGCUGGCCAUGUACCUCGUCAGCAUGAACAAUGUACGCUAGUGAUGAGUACCACA-------CAUUAUACUA
((((((..(((((((.....))...)))))..))))))...((((.(((((.((((.....))))((....)))))))))))....-------.......... ( -22.90)
>DroEre_CAF1 19460 99 - 1
GUCAACCAGCUGGCCAACUUGGACAUCAAUAAAUUGGCCAUGUACCUGGUCAGCAUGAACAAUGUACGUUAGUGAUGAGUACCUCC----UCUCUAAAUAAAA
((..(((((.(((((((.(((........))).))))))).....)))))..))..............((((.((.(((...))).----)).))))...... ( -23.10)
>DroWil_CAF1 25006 103 - 1
GUCAGUCAAUUGGCCAAUUUGGAUAUCAACAAACUGGCCAUGUAUUUGGUCAGUAUGAACAAUGUACGUAAAAAGCCCAUAUCACAAUCUACUUUAUAGCAAA
(((((....))))).....(((((.....((.((((((((......)))))))).))....(((..(.......)..)))......)))))............ ( -18.40)
>DroAna_CAF1 24790 96 - 1
GUCAAUCAGCUGGCCCAGUUGGACAUCAACAAGCUGGCCAUGUACCUGGUCAGCAUGAACAAUGUACGCGAGUGAUGAGUACCCA-------UAUAUGCCAUA
..........((((.....(((...(((.((.((((((((......)))))))).)).......(((....))).)))....)))-------.....)))).. ( -27.40)
>DroPer_CAF1 22922 96 - 1
GUCAGCCAGUUGGCCAAUUUGGAUAUCAAUAAGCUGGCCAUGUACCUCGUCAGCAUGAACAAUGUACGCUAGUGAUGAGUACCACA-------CAUUAUACUA
((((((..(((((((.....))...)))))..))))))...((((.(((((.((((.....))))((....)))))))))))....-------.......... ( -22.90)
>consensus
GUCAACCAGCUGGCCAAUUUGGACAUCAAUAAACUGGCCAUGUACCUGGUCAGCAUGAACAAUGUACGCUAGUGAUGAGUACCACA______UCUAUAUAAAA
(((.((.(((((((((..(((........)))..)))))).((((....((.....)).....))))))).)))))........................... (-16.10 = -15.13 +  -0.97)

alignment

secondary structure

dotplot

Window 7

Location	226,138 – 226,244
Length	106
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	80.19
Mean single sequence MFE	-42.92
Consensus MFE	-29.44
Energy contribution	-29.62
Covariance contribution	0.17
Combinations/Pair	1.39
Mean z-score	-2.68
Structure conservation index	0.69
SVM decision value	1.39
SVM RNA-class probability	0.948808
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 226138 106 + 22407834
UGGCCAAUUUAUUGAUGUCCAAGUUGGCCAGCUGGUUGACAUCUGUGGUGUUGAGUAUGCUGAGCAUUAGGCUUAUGUCGGCGGCGGUUGGCAUAGCUGGCAUGAC--------------
((((((((((..........))))))))))((((.(((((((..((((((((.((....)).))))))..))..))))))))))).((..((...))..)).....-------------- ( -38.70)
>DroVir_CAF1 22740 103 + 1
UGGCCAGUUUGUUGAUAUCCAAGUUGGCCAAUUGGCUGACAUCGGUUGUGUUGAGGAUGCUCAGCAUAAGGCUGAUAUCGGCGGCUGUGGGCAUGGCUGGCAC-----------------
..(((((((((((.(((.((..((..(((....)))..))(((((((((((((((....)))))))))..))))))......)).))).)))).)))))))..----------------- ( -46.60)
>DroGri_CAF1 21885 103 + 1
UGGCCAGCUUGUUGAUAUCCAAAUUGGCCAAUUGGCUGACAUCUGUUGUGUUGAGGAUGCUCAGCAUCAGGCUUAUGUCGGCAGCGGUGGGCAUUGCAGGCAC-----------------
(((((((.(((........))).)))))))....((((((((..(((((((((((....))))))))..)))..)))))))).(((((....)))))......----------------- ( -39.70)
>DroWil_CAF1 25069 106 + 1
UGGCCAGUUUGUUGAUAUCCAAAUUGGCCAAUUGACUGACAUCGGUUGUGUUGAGGAUGCUUAGCAUUAGGCUAAUAUCGGCAGCAGUUGGCAUGGCUGGUACUCC--------------
(((((((((((........)))))))))))..........((((((..(((..(.(.((((((((.....)))).....)))).)..)..)))..)))))).....-------------- ( -37.70)
>DroAna_CAF1 24846 120 + 1
UGGCCAGCUUGUUGAUGUCCAACUGGGCCAGCUGAUUGACGUCGGUGGUGUUGAGAAUGCUGAGCAUCAGGCUGAUGUCGGCGGCCGAGGGCAUGGCCGGCAUUCCCGAUCCGGUCACAG
(((((.(.(((..((((((...((.((((.(((....(((((((((((((((.((....)).))))))..)))))))))))))))).))(((...)))))))))..))).).)))))... ( -51.40)
>DroPer_CAF1 22978 103 + 1
UGGCCAGCUUAUUGAUAUCCAAAUUGGCCAACUGGCUGACAUCGGUGGUGUUGAGGAUGCUCAACAUUAGGCUGAUAUCGGCGGCGGUGGGCAUCGCCGGCAC-----------------
(((((((....(((.....))).)))))))....(((((.(((((((((((((((....)))))))))..)))))).)))))((((((....)))))).....----------------- ( -43.40)
>consensus
UGGCCAGCUUGUUGAUAUCCAAAUUGGCCAACUGGCUGACAUCGGUGGUGUUGAGGAUGCUCAGCAUUAGGCUGAUAUCGGCGGCGGUGGGCAUGGCUGGCAC_________________
..(((.....((((((((((...(..(((....)))..)......((((((((((....))))))))))))...))))))))((((((....)))))))))................... (-29.44 = -29.62 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:24:34 2006