Locus 655

Sequence ID 3L_DroMel_CAF1
Location 1,949,754 – 1,949,884
Length 130
Max. P 0.723636
window999 window1000

overview

Window 9

Location 1,949,754 – 1,949,855
Length 101
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 78.37
Mean single sequence MFE -35.05
Consensus MFE -23.07
Energy contribution -23.05
Covariance contribution -0.02
Combinations/Pair 1.32
Mean z-score -1.21
Structure conservation index 0.66
SVM decision value 0.02
SVM RNA-class probability 0.543481
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1949754 101 + 23771897
AUCCGUGGUGGUCAUGUGGAUAUCACCAUUUUGGGCGCCAUGGAGGUGUCGGCCACAGGCGAUCUGGCCAACUGGAUGAUUCCUGUAAGUU----AAUC-CAU--UAU-
.(((((((((.(((.((((......))))..))).)))))))))((.((..((.(((((.((((...((....))..)))))))))..)).----.)))-)..--...- ( -38.20)
>DroGri_CAF1 1318 103 + 1
AUUCGUGGCGGUCACGUUGACCUGACCAUUUUGGGCGCCAUGGAAGUGUCGGCCACUGGUGACUUGGCCAACUGGAUGAUACCCGUAAGUG----AAG--AUUAGCAGC
.((((((((((((.....))))...((.....))..)))))))).((((((((((..(....).))))).(((..(((.....))).))).----..)--))..))... ( -34.40)
>DroEre_CAF1 1152 101 + 1
AUUCGUGGCGGCCACGUGGAUUUAACCAUCUUGGGCGCCAUGGAGGUGUCGGCCACAGGCGAUCUGGCCAACUGGAUGAUUCCUGUGAGUA----AAUC-UAU--CGU-
.(((((((((.(((.((((......))))..))).)))))))))((((...((((((((.((((...((....))..)))))))))).)).----....-)))--)..- ( -41.20)
>DroWil_CAF1 1177 106 + 1
AUACGUGGCGGUCACGUUGAUAUAACCAUUCUGGGUGCCAUGGAAGUCUCAGCCACAGGCGAUUUGGCCAACUGGAUGAUACCGGUAUGAAUUGAAAUUACUU--UAU-
...(((((((.(((...((.......))...))).)))))))(((((.((((.....(((......))).(((((......))))).....))))....))))--)..- ( -27.00)
>DroYak_CAF1 1152 101 + 1
AUCCGAGGUGGUCAUGUGGAUAUCACCAUUUUGGGCGCCAUGGAGGUGUCGGCCACCGGCGAUCUGGCCAACUGGAUGAUUCCCGUAAGUA----ACUC-UUG--UGU-
(((((.(((((((..((((......))))....((((((.....)))))))))))))(((......)))...)))))......((((((..----...)-)))--)).- ( -35.30)
>DroAna_CAF1 1175 103 + 1
AUUCGCGGCGGCCAUGUGGACCUCACGAUUCUUGGCGCCAUGGAAGUUUCUGCCACUGGCGACCUGGCCAACUGGAUGAUUCCUGUAAGUG--GGAGCC-CUU--CUU-
......((((.(((((((.....)))).....)))))))..(((((...((.((((((((......))).((.(((....))).)).))))--).))..-)))--)).- ( -34.20)
>consensus
AUUCGUGGCGGUCACGUGGAUAUCACCAUUUUGGGCGCCAUGGAAGUGUCGGCCACAGGCGAUCUGGCCAACUGGAUGAUUCCUGUAAGUA____AAUC_CUU__CAU_
.(((((((((.(((.(((.....))).....))).)))))))))...((((.(((..(((......)))...))).))))............................. (-23.07 = -23.05 +  -0.02)

alignment

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secondary structure

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dotplot

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Window 0

Location 1,949,794 – 1,949,884
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 82.00
Mean single sequence MFE -25.52
Consensus MFE -18.15
Energy contribution -18.84
Covariance contribution 0.70
Combinations/Pair 1.19
Mean z-score -1.81
Structure conservation index 0.71
SVM decision value 0.41
SVM RNA-class probability 0.723636
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1949794 90 - 23771897
AGUUUGCAAGUGAUUAAGCUUAAUGGAUGAUAAUGGAUUAACUUACAGGAAUCAUCCAGUUGGCCAGAUCGCCUGUGGCCGACACCUCCA
.(.(..((.((((((..(((...((((((((..((..........))...))))))))...)))..)))))).))..).).......... ( -26.30)
>DroSec_CAF1 1199 90 - 1
AGUUUGUAAGUAAUUAAACAUAAUGGAUGAUGAUGGAUUUACUUACAGGAAUCAUCCAGUUGGCCAGAUCGCCUGUGGCCGACACCUCCA
.(((((........)))))....((((((((..((..........))...))))))))((((((((.(.....).))))))))....... ( -28.00)
>DroSim_CAF1 1196 90 - 1
AGUUUGUAAGUAAUUCAACAUAAUGGAUGAUGACGGAUUUACUUACAGGAAUCAUCCAGUUGGCCAGAUCGCCUGUGGCCGACACCUCCA
....(((((((((.((..(((........)))...)).)))))))))(((....))).((((((((.(.....).))))))))....... ( -28.00)
>DroEre_CAF1 1192 90 - 1
UGUGUUUGAGUAAUUAAACUUAAUGGGUCACGAUAGAUUUACUCACAGGAAUCAUCCAGUUGGCCAGAUCGCCUGUGGCCGACACCUCCA
...((((((....)))))).....((((...(((.(((((........))))))))..((((((((.(.....).))))))))))))... ( -24.80)
>DroYak_CAF1 1192 90 - 1
UGUUUGUAAGUAACUAAACUCAAUGGGUCACACAAGAGUUACUUACGGGAAUCAUCCAGUUGGCCAGAUCGCCGGUGGCCGACACCUCCA
....(((((((((((..(((.....)))........)))))))))))(((....))).((((((((.........))))))))....... ( -26.50)
>DroPer_CAF1 1199 88 - 1
CAUUUUUGAGUAACAAUGAC--CUGCGGGAACAAUCAUUUGCUUACAGGAAUCAUCCAGUUGGCCAGAUCACCCGUGGCGGAGACCUCCA
....................--(..((((....(((....(((.((.(((....))).)).)))..)))..))))..).(((....))). ( -19.50)
>consensus
AGUUUGUAAGUAAUUAAACUUAAUGGAUGAUGAUGGAUUUACUUACAGGAAUCAUCCAGUUGGCCAGAUCGCCUGUGGCCGACACCUCCA
....(((((((((.........................)))))))))(((....))).((((((((.(.....).))))))))....... (-18.15 = -18.84 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:44 2006