Locus 8025

Sequence ID 3R_DroMel_CAF1
Location 21,548,614 – 21,548,747
Length 133
Max. P 0.827702
window12916 window12917

overview

Window 6

Location 21,548,614 – 21,548,713
Length 99
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 79.17
Mean single sequence MFE -27.01
Consensus MFE -16.23
Energy contribution -18.26
Covariance contribution 2.03
Combinations/Pair 1.04
Mean z-score -1.97
Structure conservation index 0.60
SVM decision value 0.70
SVM RNA-class probability 0.827702
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21548614 99 - 27905053
UUCGCCUUUCA-UUUGGGGUCCUUUUGCGGUCCGCCACAAGAACAU-AGACCGCAGAAA---CACCCACUUGGCCACUUUUAUAUACAUAGACAUGUGUAAGCC
...(((.....-....((((..((((((((((..............-.)))))))))).---.))))....)))........(((((((....))))))).... ( -27.58)
>DroPse_CAF1 40130 88 - 1
UCUGCCCCUCG-UAU---ACCCCAUUGCGGUCCACCACAAAAG-------ACACAGAAAGGCGGCCCAGGAGGCCG---AGACAUCCAU--ACAUAUGUAAUCC
((((((..(((-((.---.......)))((....)).......-------.....))..)))((((.....)))).---)))......(--((....))).... ( -17.10)
>DroSec_CAF1 46221 99 - 1
UCUGCCUUUCA-UUUGGUAUCCUUUUGCGGUCCGCCACAAGAACAU-GGACCGCAGAAA---CACCCACUUGGCCACUUUUAUAUACAUGGACAUGUGUAAGCC
...(((.....-...(((....((((((((((((...........)-))))))))))).---.))).....)))........(((((((....))))))).... ( -27.12)
>DroSim_CAF1 40522 99 - 1
UCUGCCCUUCA-UUUGGGAUCCUUUUGCGGUCCGCCACAAGAACAU-GGACCGCAGAAA---CACCCACUUGGCCACUUUUAUAUACAUGGACAUGUGUAAGCC
...((...(((-..((((....((((((((((((...........)-))))))))))).---..))))..))).........(((((((....))))))).)). ( -30.40)
>DroEre_CAF1 36350 101 - 1
UCUGCCUUUGGAUUUGGGAUCCUUUUGCGGUCUGCCACAAGAAGACAAGACCGCAGAAA---CACCCACUUGGCCACAUUCAUAUACAUAGACAUGUGUAAGCC
...(((...((...((((....(((((((((((..............))))))))))).---..)))))).)))........(((((((....))))))).... ( -28.84)
>DroYak_CAF1 39650 102 - 1
GCGGUCCUUCG-UUUGGGGUCCUUUUGCGGUCCACCACAAGGACAU-AGACCGCAGAAACAACACCCACUUGGCCACUUUUAUAUACAUAGACAUGUGUAAGCC
((((.((....-..((((((..((((((((((..((....))....-.))))))))))...)).))))...)))).......(((((((....))))))).)). ( -31.00)
>consensus
UCUGCCCUUCA_UUUGGGAUCCUUUUGCGGUCCGCCACAAGAACAU_AGACCGCAGAAA___CACCCACUUGGCCACUUUUAUAUACAUAGACAUGUGUAAGCC
...(((........((((....((((((((((................))))))))))......))))...)))........(((((((....))))))).... (-16.23 = -18.26 +   2.03)

alignment

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secondary structure

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dotplot

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Window 7

Location 21,548,648 – 21,548,747
Length 99
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 81.17
Mean single sequence MFE -21.41
Consensus MFE -11.66
Energy contribution -13.32
Covariance contribution 1.67
Combinations/Pair 1.00
Mean z-score -2.05
Structure conservation index 0.54
SVM decision value -0.01
SVM RNA-class probability 0.526956
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21548648 99 - 27905053
CAAAUUCUCGCUUAUUAAUUUC-----CCCCGAAAACUUUUCGCCUUUCA-UUUGGGGUCCUUUUGCGGUCCGCCACAAGAACAU-AGACCGCAGAAA---CACCCACU
(((((....((.......((((-----....)))).......)).....)-))))((((..((((((((((..............-.)))))))))).---.))))... ( -22.60)
>DroSec_CAF1 46255 99 - 1
CAAAUUCUCGCUUAUUGAUUUC-----CCCCGAAAACUUUCUGCCUUUCA-UUUGGUAUCCUUUUGCGGUCCGCCACAAGAACAU-GGACCGCAGAAA---CACCCACU
(((((....((..(..(.((((-----....)))).)..)..)).....)-))))......((((((((((((...........)-))))))))))).---........ ( -20.70)
>DroSim_CAF1 40556 99 - 1
CAAAUUCUCGCUUAUUAAUUUC-----CCCCGAAAACUUUCUGCCCUUCA-UUUGGGAUCCUUUUGCGGUCCGCCACAAGAACAU-GGACCGCAGAAA---CACCCACU
.........((.......((((-----....)))).......))......-..((((....((((((((((((...........)-))))))))))).---..)))).. ( -23.44)
>DroEre_CAF1 36384 102 - 1
CAAAUUCUCGCUUAUUAAUUUC----CCCCCAAAAACUUUCUGCCUUUGGAUUUGGGAUCCUUUUGCGGUCUGCCACAAGAAGACAAGACCGCAGAAA---CACCCACU
......................----...(((((..(.....)..)))))...((((....(((((((((((..............))))))))))).---..)))).. ( -24.04)
>DroYak_CAF1 39684 107 - 1
CAAAUUCUCGCUUAUUAAUUUCGGCCCCCCCAAAAACUUGCGGUCCUUCG-UUUGGGGUCCUUUUGCGGUCCACCACAAGGACAU-AGACCGCAGAAACAACACCCACU
......................((...((((((......((((....)))-)))))))...((((((((((..((....))....-.)))))))))).......))... ( -26.20)
>DroPer_CAF1 40474 91 - 1
CAAAUUCUCGCUUAUUAAUUUC-----CCC--AAAAGUUUCUGCCCCUCG-UAU---ACCCCAUUGCGGUCCACCACAAAAG-------ACACAGAAAGGCGGCCCAGG
.......((((((....((((.-----...--..))))(((((.....((-((.---.......))))(((..........)-------)).)))))))))))...... ( -11.50)
>consensus
CAAAUUCUCGCUUAUUAAUUUC_____CCCCGAAAACUUUCUGCCCUUCA_UUUGGGAUCCUUUUGCGGUCCGCCACAAGAACAU_AGACCGCAGAAA___CACCCACU
.....................................................((((....((((((((((................))))))))))......)))).. (-11.66 = -13.32 +   1.67)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:00:40 2006