Locus 9112

Sequence ID 3R_DroMel_CAF1
Location 24,321,123 – 24,321,238
Length 115
Max. P 0.967076
window14581 window14582

overview

Window 1

Location 24,321,123 – 24,321,238
Length 115
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 73.58
Mean single sequence MFE -33.39
Consensus MFE -15.51
Energy contribution -16.74
Covariance contribution 1.23
Combinations/Pair 1.29
Mean z-score -2.30
Structure conservation index 0.46
SVM decision value 1.60
SVM RNA-class probability 0.967076
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24321123 115 + 27905053
UCCAGAUAAGAUCCAUUGUGGAUCUGGUCAUAAACAUACACGAUUUGGCUUCUAGAGUGGCGAACGAAGCCAGGGGAUUUGUGUCGCAGUAAGUAAUUGCUUUGUUUGUGGAAUG
(((.(((.((((((.....)))))).)))(((((((.(((((((((((((((.............)))))))))....)))))).(((((.....)))))..))))))))))... ( -37.52)
>DroVir_CAF1 123112 100 + 1
UGAGCAUCAAGGACAUAGUGAAUCUGGUCAUAAACGUACACGAAUUGGCCGCAAAAGUCGUGGCCGAAGCAAAAGGCUUUGUGUCGCAGUGAGUACAA-AU--------------
((.((.(((..(((.(((.....)))))).....((.(((((((((((((((.......)))))))).((.....)))))))))))...))))).)).-..-------------- ( -27.10)
>DroPse_CAF1 151795 98 + 1
UCCAGAUGAAUUCCGUAGUGGAGCUCAUCAUAAAUAUUCACGAUUUGGCUGGGAGAAUUGCCAUCGAAGCCAAGGAAUUUGUCACGCAGUAAGUGAC---------------A--
(((.(((((.((((.....)))).)))))...............((((((..((.........))..)))))))))...((((((.......)))))---------------)-- ( -29.00)
>DroSec_CAF1 143450 112 + 1
UUCAGAUAAGAUCCAUUGUGGAUCUGGUCAUAAACAUACACGAUUUGGCUUCUAGAGUGGCGAACGAAGCCAGGGCGUUUGUGUCGCAGUGAGUAAUUGCUUUAUUUGUGGA---
....(((.((((((.....)))))).)))....(((((.(((.(((((((((.............))))))))).))).)))))(((((.((((....))))...)))))..--- ( -35.92)
>DroEre_CAF1 152740 113 + 1
UCCAGAUACGAUCCAUUGUGGAUCUGGUCAUAAACAUACAUGAUUUGGCUUCUAGAGUGGCCAACGAAGCCAGGGGAUUUGUAUCCCAGUAAGUAGAAGCCUUAUUUGUGGAA--
(((.(((..(((((.....)))))..)))........(((.(((..((((((((...((((.......)))).(((((....)))))......))))))))..))))))))).-- ( -38.60)
>DroYak_CAF1 148934 113 + 1
UCCAGAUACGAUCCAUUGUGGAUCUGGUCAUAAACAUACACGAUUUGGCUUCUAGAGUGGCCAACGAAGCUAGGGGAUUUGUGUCCCAGUGAGUAAAUGAUUUAUUUGUGAAA--
((((((((.(((((.....))))).((((((..((.(((.((..((((((........)))))))).......(((((....))))).))).))..)))))))))))).))..-- ( -32.20)
>consensus
UCCAGAUAAGAUCCAUUGUGGAUCUGGUCAUAAACAUACACGAUUUGGCUUCUAGAGUGGCCAACGAAGCCAGGGGAUUUGUGUCGCAGUAAGUAAAUGCUUUAUUUGUGGAA__
....(((.((((((.....)))))).)))........(((((((((((((((.............)))))))))....))))))............................... (-15.51 = -16.74 +   1.23)

alignment

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secondary structure

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dotplot

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Window 2

Location 24,321,123 – 24,321,238
Length 115
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 73.58
Mean single sequence MFE -26.77
Consensus MFE -12.03
Energy contribution -13.04
Covariance contribution 1.00
Combinations/Pair 1.18
Mean z-score -2.21
Structure conservation index 0.45
SVM decision value 1.28
SVM RNA-class probability 0.939397
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24321123 115 - 27905053
CAUUCCACAAACAAAGCAAUUACUUACUGCGACACAAAUCCCCUGGCUUCGUUCGCCACUCUAGAAGCCAAAUCGUGUAUGUUUAUGACCAGAUCCACAAUGGAUCUUAUCUGGA
...((((.(((((..(((.........))).((((........(((((((.............)))))))....)))).)))))..((..((((((.....))))))..)))))) ( -27.02)
>DroVir_CAF1 123112 100 - 1
--------------AU-UUGUACUCACUGCGACACAAAGCCUUUUGCUUCGGCCACGACUUUUGCGGCCAAUUCGUGUACGUUUAUGACCAGAUUCACUAUGUCCUUGAUGCUCA
--------------((-(((...(((..(((((((.((((.....)))).((((.(((...))).)))).....)))).)))...))).)))))..................... ( -20.60)
>DroPse_CAF1 151795 98 - 1
--U---------------GUCACUUACUGCGUGACAAAUUCCUUGGCUUCGAUGGCAAUUCUCCCAGCCAAAUCGUGAAUAUUUAUGAUGAGCUCCACUACGGAAUUCAUCUGGA
--(---------------(((((.......))))))...(((((((((..((.((....))))..))))))...............((((((.(((.....))).)))))).))) ( -25.30)
>DroSec_CAF1 143450 112 - 1
---UCCACAAAUAAAGCAAUUACUCACUGCGACACAAACGCCCUGGCUUCGUUCGCCACUCUAGAAGCCAAAUCGUGUAUGUUUAUGACCAGAUCCACAAUGGAUCUUAUCUGAA
---............(((.........)))((((...(((...(((((((.............)))))))...)))...))))...((..((((((.....))))))..)).... ( -24.82)
>DroEre_CAF1 152740 113 - 1
--UUCCACAAAUAAGGCUUCUACUUACUGGGAUACAAAUCCCCUGGCUUCGUUGGCCACUCUAGAAGCCAAAUCAUGUAUGUUUAUGACCAGAUCCACAAUGGAUCGUAUCUGGA
--.((((.......((((((((......(((((....))))).(((((.....)))))...))))))))...(((((......)))))...(((((.....))))).....)))) ( -37.40)
>DroYak_CAF1 148934 113 - 1
--UUUCACAAAUAAAUCAUUUACUCACUGGGACACAAAUCCCCUAGCUUCGUUGGCCACUCUAGAAGCCAAAUCGUGUAUGUUUAUGACCAGAUCCACAAUGGAUCGUAUCUGGA
--.............((((..((.(((.((((......))))...(((((...(....)....)))))......)))...))..))))((((((((.....))).....))))). ( -25.50)
>consensus
__UUCCACAAAUAAAGCAUUUACUCACUGCGACACAAAUCCCCUGGCUUCGUUCGCCACUCUAGAAGCCAAAUCGUGUAUGUUUAUGACCAGAUCCACAAUGGAUCUUAUCUGGA
...........................................(((((((.............)))))))..(((((......)))))...(((((.....)))))......... (-12.03 = -13.04 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:26:50 2006