Locus 9067

Sequence ID 3R_DroMel_CAF1
Location 24,222,138 – 24,222,273
Length 135
Max. P 0.773868
window14519 window14520

overview

Window 9

Location 24,222,138 – 24,222,252
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.45
Mean single sequence MFE -31.62
Consensus MFE -13.18
Energy contribution -13.98
Covariance contribution 0.81
Combinations/Pair 1.10
Mean z-score -2.13
Structure conservation index 0.42
SVM decision value 0.20
SVM RNA-class probability 0.630885
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24222138 114 + 27905053
GCCCGUUGAAAUACGCUGAAGCGUUCGGCGCGAGCAUUUAAUUUAUGG--GCCAGCUGUUAAAUGUUGUACUUUGUGUGACAAAUAGCCUGCAAAGUUGCAUAUA----UGCACUUUGAG
((((((.((...((((....))))...((....))......)).))))--))((((((((...(((..(((...)))..)))))))).)))((((((.(((....----))))))))).. ( -35.30)
>DroVir_CAF1 4979 110 + 1
GGU-GUAAUUUUCCGUAGAAAUGUUCAACGCCAGCGUUUAAUUUAUGA--GCCAGCUGUUAAGUGCUGCACUUUGUGUGACAAAUGGC-UACAAAGUUACAU--A----UGCAGCUUUGA
(((-((...((((....))))......)))))((((((((.....)))--))..))).(((((.((((((...((((((((...((..-..))..)))))))--)----))))))))))) ( -27.20)
>DroPse_CAF1 45271 99 + 1
GGCCCGUCCAUUGUGUUGAAACGU-------------UUAAUUUAUGG--GCCAGCUGUUAAAUGUUGCACUUUGUGUGACAAAUAGCCUGCAAAGUUGCAU--A----UGCACUUUGUA
(((((((..(((((((....))).-------------.))))..))))--))).((((((...(((..(((...)))..))))))))).((((((((.((..--.----.)))))))))) ( -34.40)
>DroWil_CAF1 1627 107 + 1
ACCCGUUC-AUUGUGUUGAAAUGUU------GAACAUUUAAUUUAUGGCGACCAGCUGUUAAAUGUUGCACUUUGUGUGACAAAUAGCUUCCAAAGUUGCAU--A----UGCACUUUGCA
...(((.(-((...((((((.((..------...))))))))..))))))...(((((((...(((..(((...)))..))))))))))..((((((.((..--.----.)))))))).. ( -26.30)
>DroAna_CAF1 43112 118 + 1
GCCCGUCCAAAUGCGUUGAAACGUUCGGCGCGACCGUUUAAUUUAUGG--ACCAGCUGUUAAAUGUUGUACUUUGUGUGACAAAUAGCCUGCAAAGUUGCAUAUAUGUAUGCACGCUGCG
....(((((...(((((((.....)))))))((....))......)))--))..((((((...(((..(((...)))..)))))))))..(((..((.(((((....)))))))..))). ( -32.10)
>DroPer_CAF1 45245 99 + 1
GGCCCGUCCAUUGUGUUGAAACGU-------------UUAAUUUAUGG--GCCAGCUGUUAAAUGUUGCACUUUGUGUGACAAAUAGCCUGCAAAGUUGCAU--A----UGCACUUUGUA
(((((((..(((((((....))).-------------.))))..))))--))).((((((...(((..(((...)))..))))))))).((((((((.((..--.----.)))))))))) ( -34.40)
>consensus
GCCCGUUCAAUUGCGUUGAAACGUU______GA_C_UUUAAUUUAUGG__GCCAGCUGUUAAAUGUUGCACUUUGUGUGACAAAUAGCCUGCAAAGUUGCAU__A____UGCACUUUGCA
......................................................((((((...(((..(((...)))..)))))))))...((((((.(((........))))))))).. (-13.18 = -13.98 +   0.81)

alignment

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secondary structure

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dotplot

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Window 0

Location 24,222,178 – 24,222,273
Length 95
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 81.04
Mean single sequence MFE -26.65
Consensus MFE -14.22
Energy contribution -15.05
Covariance contribution 0.83
Combinations/Pair 1.15
Mean z-score -2.55
Structure conservation index 0.53
SVM decision value 0.54
SVM RNA-class probability 0.773868
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24222178 95 + 27905053
AUUUAUGG--GCCAGCUGUUAAAUGUUGUACUUUGUGUGACAAAUAGCCUGCAAAGUUGCAUAUA----UGCACUUUGAGAUUUUUCG-----GGCAC-----UGGUAAUU
........--(((((........(((..(((...)))..)))....((((.((((((.(((....----))))))))).((....)))-----))).)-----)))).... ( -26.20)
>DroVir_CAF1 5018 102 + 1
AUUUAUGA--GCCAGCUGUUAAGUGCUGCACUUUGUGUGACAAAUGGC-UACAAAGUUACAU--A----UGCAGCUUUGAUUUUUAUAUGUUUUACAUAUAUAAGGCAAUU
........--(((....((((((.((((((...((((((((...((..-..))..)))))))--)----))))))))))))...((((((.....))))))...))).... ( -28.70)
>DroEre_CAF1 49592 95 + 1
AUUUAUGG--GCCAGCUGUUAAAUGUUGGACUUUGUGUGACAAAUAGCCUGCAAAGUUGCAUAUA----UGCACUUUGAGAUUUUUCG-----GGCAC-----AGGUAAUU
.....((.--(((.((((((...(((((.((...)).)))))))))))((.((((((.(((....----)))))))))))........-----))).)-----)....... ( -22.70)
>DroWil_CAF1 1660 93 + 1
AUUUAUGGCGACCAGCUGUUAAAUGUUGCACUUUGUGUGACAAAUAGCUUCCAAAGUUGCAU--A----UGCACUUUGCAUUUUU--A-----UGCAA-----AGGUAAUU
.......(((((.(((((((...(((..(((...)))..))))))))))......)))))..--.----(((.((((((((....--)-----)))))-----)))))... ( -29.50)
>DroYak_CAF1 47469 95 + 1
AUUUAUGG--GCCAGCUGUUAAAUGUUGUACUUUGUGUGACAAAUAGCCUGCAAAGUUGCAUAUA----UGCACUUUGAGAUUUUUCG-----GGCAC-----AGGUAAUU
.....((.--(((.((((((...(((..(((...)))..)))))))))((.((((((.(((....----)))))))))))........-----))).)-----)....... ( -24.80)
>DroAna_CAF1 43152 99 + 1
AUUUAUGG--ACCAGCUGUUAAAUGUUGUACUUUGUGUGACAAAUAGCCUGCAAAGUUGCAUAUAUGUAUGCACGCUGCGAUUUGUUG-----GCCAA-----AAGUAAUU
((((.(((--.(((((.((((..(((..(((...)))..)))..)))).((((..((.(((((....)))))))..))))....))))-----)))).-----)))).... ( -28.00)
>consensus
AUUUAUGG__GCCAGCUGUUAAAUGUUGUACUUUGUGUGACAAAUAGCCUGCAAAGUUGCAUAUA____UGCACUUUGAGAUUUUUCG_____GGCAC_____AGGUAAUU
..........(((.((((((...((((((((...))))))))))))))...((((((.(((........)))))))))..........................))).... (-14.22 = -15.05 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:25:56 2006