Locus 4405

Sequence ID 2R_DroMel_CAF1
Location 14,483,273 – 14,483,386
Length 113
Max. P 0.912716
window7041 window7042

overview

Window 1

Location 14,483,273 – 14,483,386
Length 113
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 81.39
Mean single sequence MFE -32.79
Consensus MFE -22.99
Energy contribution -24.27
Covariance contribution 1.28
Combinations/Pair 1.12
Mean z-score -2.65
Structure conservation index 0.70
SVM decision value 1.08
SVM RNA-class probability 0.912716
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14483273 113 + 20766785
AUACCCAUACCCA---CCAUACCCACAUAUCCAGUCCCA-AAUCCAUGGACUCAUAUAGCCGUGGAUGGCAGAGCGAAACGAGUGCAACACGAACUGCUUAAUGGACUGGGCAUGCA
.............---.........(((..(((((((..-.((((((((.((.....))))))))))(((((..((..............))..)))))....)))))))..))).. ( -33.94)
>DroSec_CAF1 115114 112 + 1
-UACCCAUAGCCA---CCAUACCCACAUAUCCAGUCCCA-AAUCCAUGGACUCAUAUAGCCGUGGAUGGCAGAGCGAAACAAGUGCAACACGAACUGCUUAAUGGACUGGGCAUGCA
-............---.........(((..(((((((..-.((((((((.((.....))))))))))(((((..((..............))..)))))....)))))))..))).. ( -33.94)
>DroSim_CAF1 116258 112 + 1
-UACCCAUAGCCA---CCAUACCUACAUAUCCAGUCCCA-AAUCCAGGGACUCAUAUAGCCGUGGAUGGCAGAGCGAAACGAGUGCAACACGAACUGCUUAAUGGACUGGGCAUGCA
-............---.........(((..(((((((..-.(((((.((.((.....)))).)))))(((((..((..............))..)))))....)))))))..))).. ( -32.14)
>DroEre_CAF1 116796 106 + 1
--ACCCAUGCCCAAGCCAAU--------AUCCAGUCCCA-AAUCCAUGGACUCACAUAGCCGUGGAUGGCAGAGCGAAACGAGUGCAACACGAACUGCUUAAUGGACUGGGCAUGCA
--...((((((((..(((.(--------(..((((.(..-.((((((((.((.....)))))))))).(((...((...))..))).....).))))..)).)))..)))))))).. ( -37.10)
>DroYak_CAF1 118426 113 + 1
--ACCCAUACCCAAGCCAAUACC--CAUAUCCAGUCCAAAAAUCCAUGGACUCAUAUAGCCGUGGAUGGCAGAGCGAAACGAGUGCAACACGAACUGCUUAAUGGACUGGGCAUGCA
--.....................--(((..((((((((...((((((((.((.....))))))))))(((((..((..............))..)))))...))))))))..))).. ( -35.64)
>DroAna_CAF1 128205 101 + 1
-AACCUU-----------AAACCAAAAAGCCCAAACGCA-UAUACAUGC---CUGGCACCUAUGCCUGGCAUCGCGAAACGAGUGCAACACGAACUGUUUAAUGGACUGGCCAUGGA
-......-----------...(((...((.(((...(((-(.....(((---(.((((....)))).))))(((.....)))))))((((.....))))...))).)).....))). ( -24.00)
>consensus
_UACCCAUACCCA___CCAUACC_ACAUAUCCAGUCCCA_AAUCCAUGGACUCAUAUAGCCGUGGAUGGCAGAGCGAAACGAGUGCAACACGAACUGCUUAAUGGACUGGGCAUGCA
..............................(((((((....((((((((.((.....))))))))))(((((..((..............))..)))))....)))))))....... (-22.99 = -24.27 +   1.28)

alignment

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secondary structure

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dotplot

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Window 2

Location 14,483,273 – 14,483,386
Length 113
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 81.39
Mean single sequence MFE -37.27
Consensus MFE -23.92
Energy contribution -25.70
Covariance contribution 1.78
Combinations/Pair 1.10
Mean z-score -1.56
Structure conservation index 0.64
SVM decision value 0.04
SVM RNA-class probability 0.554489
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14483273 113 - 20766785
UGCAUGCCCAGUCCAUUAAGCAGUUCGUGUUGCACUCGUUUCGCUCUGCCAUCCACGGCUAUAUGAGUCCAUGGAUU-UGGGACUGGAUAUGUGGGUAUGG---UGGGUAUGGGUAU
...(((((((..((((((.((((...(((..((....))..))).)))).(((((((..(((.(.(((((.......-..))))).))))))))))).)))---)))...))))))) ( -38.00)
>DroSec_CAF1 115114 112 - 1
UGCAUGCCCAGUCCAUUAAGCAGUUCGUGUUGCACUUGUUUCGCUCUGCCAUCCACGGCUAUAUGAGUCCAUGGAUU-UGGGACUGGAUAUGUGGGUAUGG---UGGCUAUGGGUA-
....((((((..((((((.((((...(((..((....))..))).)))).(((((((..(((.(.(((((.......-..))))).))))))))))).)))---)))...))))))- ( -37.20)
>DroSim_CAF1 116258 112 - 1
UGCAUGCCCAGUCCAUUAAGCAGUUCGUGUUGCACUCGUUUCGCUCUGCCAUCCACGGCUAUAUGAGUCCCUGGAUU-UGGGACUGGAUAUGUAGGUAUGG---UGGCUAUGGGUA-
....((((((..(((....((((...(((..((....))..))).))))...(((.(.(((((((((((((......-.))))))...))))))).).)))---)))...))))))- ( -38.30)
>DroEre_CAF1 116796 106 - 1
UGCAUGCCCAGUCCAUUAAGCAGUUCGUGUUGCACUCGUUUCGCUCUGCCAUCCACGGCUAUGUGAGUCCAUGGAUU-UGGGACUGGAU--------AUUGGCUUGGGCAUGGGU--
..(((((((((.(((.((..(((((((((..((....))..)))......(((((.((((.....)).)).))))).-..))))))..)--------).))).)))))))))...-- ( -39.60)
>DroYak_CAF1 118426 113 - 1
UGCAUGCCCAGUCCAUUAAGCAGUUCGUGUUGCACUCGUUUCGCUCUGCCAUCCACGGCUAUAUGAGUCCAUGGAUUUUUGGACUGGAUAUG--GGUAUUGGCUUGGGUAUGGGU--
..(((((((((.(((....((((......))))((((((.((.....(((......)))......((((((........)))))).)).)))--)))..))).)))))))))...-- ( -39.80)
>DroAna_CAF1 128205 101 - 1
UCCAUGGCCAGUCCAUUAAACAGUUCGUGUUGCACUCGUUUCGCGAUGCCAGGCAUAGGUGCCAG---GCAUGUAUA-UGCGUUUGGGCUUUUUGGUUU-----------AAGGUU-
.((..((((((((((...(((...(((((..((....))..)))))((((.((((....)))).)---)))......-...))))))))....))))).-----------..))..- ( -30.70)
>consensus
UGCAUGCCCAGUCCAUUAAGCAGUUCGUGUUGCACUCGUUUCGCUCUGCCAUCCACGGCUAUAUGAGUCCAUGGAUU_UGGGACUGGAUAUGU_GGUAUGG___UGGGUAUGGGUA_
..((((.(((((((.....((((...(((..((....))..))).)))).(((((.((((.....)).)).)))))....))))))).))))......................... (-23.92 = -25.70 +   1.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:49 2006