Locus 497

Sequence ID 2L_DroMel_CAF1
Location 1,486,915 – 1,487,015
Length 100
Max. P 0.868350
window792 window793

overview

Window 2

Location 1,486,915 – 1,487,015
Length 100
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 83.45
Mean single sequence MFE -20.53
Consensus MFE -18.73
Energy contribution -18.12
Covariance contribution -0.61
Combinations/Pair 1.19
Mean z-score -1.76
Structure conservation index 0.91
SVM decision value 0.86
SVM RNA-class probability 0.868350
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1486915 100 + 22407834
UUUCCCUUUUUACC--CCAGCACUGACUGCCGUUUUUGUUGGUUUUUAGCCAGCUUUGUCAUUAACAAAUGGCAAAUUAAAUUGCGCUUAAAUUUGCCUGUC
..............--.(((((.(((.(((.((((..((((((.....))))))(((((((((....)))))))))..)))).))).)))....)).))).. ( -19.10)
>DroSec_CAF1 104731 86 + 1
UUUCCCU----------------UGACUGCCGUUUUUGUUGGUUUUUAGCCAGCUUUGUCAUUAACAAAUGGCAAAUUAAAUUGCGCUUAAAUUUGCCUGUC
.......----------------.(((.((.((((..((((((.....))))))(((((((((....)))))))))..)))).))((........))..))) ( -18.80)
>DroSim_CAF1 107025 86 + 1
UUUCCCU----------------UGACUGCCGUUUUUGUUGGUUUUUAGCCAGCUUUGUCAUUAACAAAUGGCAAAUUAAAUUGCGCUUAAAUUUGCCUGUC
.......----------------.(((.((.((((..((((((.....))))))(((((((((....)))))))))..)))).))((........))..))) ( -18.80)
>DroEre_CAF1 110563 99 + 1
UCUCCCUUUUUGCC--CCGUCGGUGGCUGCAGUUUUUGUUGGUUUUUAGCCAGCUUUGUCAUUAACAAAUGGCAAAUUAAAUUGCGCUUAAAU-UGCCUGUC
...........(((--((...)).))).(((((((..((((((.....))))))(((((((((....)))))))))..)))))))((......-.))..... ( -26.10)
>DroYak_CAF1 107604 102 + 1
UUUCCCUUUUUGCCCCCCAUCAGUGACUGCUGUUUUUGUUGGUUUUCAGCCAGCUUUGUCAUUAACAAAUGGCAAAUUAAAUUGCGCUUAAAUUUGCCUGUC
.....................((((((.((((.....((((.....))))))))...)))))).......((((((((.((......)).)))))))).... ( -20.20)
>DroAna_CAF1 106058 95 + 1
UUUU---UUUAG----UAAGCUAUGGCUGCUGUUUCUGCUAGUUUUUCGCCGGCUUUGUCAUUAACAAAUGGCAAAUUAAAUUGUGCUUAAAUUUGCUUGCC
....---....(----(((((...(((.((.((((..((..((.....))..))(((((((((....)))))))))..)))).))))).......)))))). ( -20.20)
>consensus
UUUCCCUUUUUG____CCA_C__UGACUGCCGUUUUUGUUGGUUUUUAGCCAGCUUUGUCAUUAACAAAUGGCAAAUUAAAUUGCGCUUAAAUUUGCCUGUC
........................(((.((.((((..((((((.....))))))(((((((((....)))))))))..)))).))((........))..))) (-18.73 = -18.12 +  -0.61)

alignment

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secondary structure

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dotplot

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Window 3

Location 1,486,915 – 1,487,015
Length 100
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 83.45
Mean single sequence MFE -18.65
Consensus MFE -15.12
Energy contribution -15.65
Covariance contribution 0.53
Combinations/Pair 1.09
Mean z-score -1.43
Structure conservation index 0.81
SVM decision value 0.01
SVM RNA-class probability 0.539265
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1486915 100 - 22407834
GACAGGCAAAUUUAAGCGCAAUUUAAUUUGCCAUUUGUUAAUGACAAAGCUGGCUAAAAACCAACAAAAACGGCAGUCAGUGCUGG--GGUAAAAAGGGAAA
((((((((((((.((......)).))))))))...)))).((..((..(((((((.....((.........)).)))))))..)).--.))........... ( -18.90)
>DroSec_CAF1 104731 86 - 1
GACAGGCAAAUUUAAGCGCAAUUUAAUUUGCCAUUUGUUAAUGACAAAGCUGGCUAAAAACCAACAAAAACGGCAGUCA----------------AGGGAAA
(((.((((((((.((......)).)))))))).((((((...))))))((((..................)))).))).----------------....... ( -18.37)
>DroSim_CAF1 107025 86 - 1
GACAGGCAAAUUUAAGCGCAAUUUAAUUUGCCAUUUGUUAAUGACAAAGCUGGCUAAAAACCAACAAAAACGGCAGUCA----------------AGGGAAA
(((.((((((((.((......)).)))))))).((((((...))))))((((..................)))).))).----------------....... ( -18.37)
>DroEre_CAF1 110563 99 - 1
GACAGGCA-AUUUAAGCGCAAUUUAAUUUGCCAUUUGUUAAUGACAAAGCUGGCUAAAAACCAACAAAAACUGCAGCCACCGACGG--GGCAAAAAGGGAGA
....((((-(.(((((.....))))).))))).((((((...))))))(((((((...................)))))((....)--)))........... ( -17.51)
>DroYak_CAF1 107604 102 - 1
GACAGGCAAAUUUAAGCGCAAUUUAAUUUGCCAUUUGUUAAUGACAAAGCUGGCUGAAAACCAACAAAAACAGCAGUCACUGAUGGGGGGCAAAAAGGGAAA
.....((........)).........((((((.((..(((.((((...((((..................)))).)))).)))..)).))))))........ ( -21.57)
>DroAna_CAF1 106058 95 - 1
GGCAAGCAAAUUUAAGCACAAUUUAAUUUGCCAUUUGUUAAUGACAAAGCCGGCGAAAAACUAGCAGAAACAGCAGCCAUAGCUUA----CUAAA---AAAA
(((..((........)).........((((((.((((((...))))))...))))))......((.......)).)))........----.....---.... ( -17.20)
>consensus
GACAGGCAAAUUUAAGCGCAAUUUAAUUUGCCAUUUGUUAAUGACAAAGCUGGCUAAAAACCAACAAAAACGGCAGUCA__G_UGG____CAAAAAGGGAAA
(((.((((((((.((......)).)))))))).((((((...))))))((((..................)))).)))........................ (-15.12 = -15.65 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:33 2006