Locus 6998

Sequence ID 2L_DroMel_CAF1
Location 19,471,328 – 19,471,422
Length 94
Max. P 0.870078
window11160 window11161

overview

Window 0

Location 19,471,328 – 19,471,422
Length 94
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 83.34
Mean single sequence MFE -18.77
Consensus MFE -13.21
Energy contribution -13.60
Covariance contribution 0.39
Combinations/Pair 1.05
Mean z-score -1.67
Structure conservation index 0.70
SVM decision value -0.00
SVM RNA-class probability 0.532704
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19471328 94 + 22407834
ACGGUAAUGAAUGUAUUCGGUAACAAUUCAUUAAGCAAAUAGAAAUGUGCGCUAAACGCAUUAAGAGAUUAGCACACAU----------CCAGC------AGGAGAACAA
....((((((((((........)).))))))))............((((.(((((.(.(.....).).))))).))))(----------((...------.)))...... ( -17.70)
>DroVir_CAF1 32270 87 + 1
-UAGAAAUGAAUGUAUUCGGUAACAAUUCAUUAAGCAAAUAGAAAUGUGCGCUAAACGCAUUAAGAGAUUAGCACACAU----------ACAC------------AAUAA
-....(((((((((........)).)))))))............(((((.(((((.(.(.....).).))))).)))))----------....------------..... ( -15.40)
>DroGri_CAF1 29512 87 + 1
-UGGAAAUGAAUGUAUUCGGUAACAAUUCAUUAAGCAAAUAGAAAUGUGCGCUAAACGCAUUAAGAGAUUAGCACACAU----------CAAC------------AACAA
-....(((((((((........)).)))))))............(((((.(((((.(.(.....).).))))).)))))----------....------------..... ( -14.80)
>DroSec_CAF1 27030 94 + 1
ACGGUAAUGAAUGUAUUUGGUAACAAUUCAUUAAGCAAAUAGAAAUGUGCGCUAAACGCAUUAAGAGAUUAGCACACAU----------CCAGC------AGGAGAACAA
....((((((((((........)).))))))))............((((.(((((.(.(.....).).))))).))))(----------((...------.)))...... ( -17.70)
>DroAna_CAF1 25680 92 + 1
AUCGCACUGAAUGUAUUCGGUAACAAUUCAUUAAGCAAAUAGAAAUGUGCGCUAAACGCAUUAAGAGAUUAGCACACAU----------CGACC------AGGAAA--CA
.(((.((((((....)))))).......................(((((.(((((.(.(.....).).))))).)))))----------)))..------.(....--). ( -17.30)
>DroPer_CAF1 34034 108 + 1
UCGGU-GCGAAUGUAUUCGGUAACAAUUCAUUAAGCAAAUAGAAAUGUGCGCUAAACGCAUUAAGAGAUUAGCACACAUACGAGUACAUCCAGCGAUACCGGGGGAAC-A
(((((-(((.(((((((((.......((((((.....))).)))(((((.(((((.(.(.....).).))))).))))).)))))))))....)).))))))......-. ( -29.70)
>consensus
ACGGUAAUGAAUGUAUUCGGUAACAAUUCAUUAAGCAAAUAGAAAUGUGCGCUAAACGCAUUAAGAGAUUAGCACACAU__________CCACC______AGGAGAACAA
.....(((((((((........)).)))))))............(((((.(((((.(.(.....).).))))).)))))............................... (-13.21 = -13.60 +   0.39)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,471,328 – 19,471,422
Length 94
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 83.34
Mean single sequence MFE -22.58
Consensus MFE -17.50
Energy contribution -18.12
Covariance contribution 0.61
Combinations/Pair 1.09
Mean z-score -2.58
Structure conservation index 0.78
SVM decision value 0.87
SVM RNA-class probability 0.870078
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19471328 94 - 22407834
UUGUUCUCCU------GCUGG----------AUGUGUGCUAAUCUCUUAAUGCGUUUAGCGCACAUUUCUAUUUGCUUAAUGAAUUGUUACCGAAUACAUUCAUUACCGU
..........------...((----------(((((((((((.(.(.....).).)))))))))))...........((((((((.((........)))))))))))).. ( -22.20)
>DroVir_CAF1 32270 87 - 1
UUAUU------------GUGU----------AUGUGUGCUAAUCUCUUAAUGCGUUUAGCGCACAUUUCUAUUUGCUUAAUGAAUUGUUACCGAAUACAUUCAUUUCUA-
.....------------....----------(((((((((((.(.(.....).).)))))))))))............(((((((.((........)))))))))....- ( -18.30)
>DroGri_CAF1 29512 87 - 1
UUGUU------------GUUG----------AUGUGUGCUAAUCUCUUAAUGCGUUUAGCGCACAUUUCUAUUUGCUUAAUGAAUUGUUACCGAAUACAUUCAUUUCCA-
.....------------...(----------(((((((((((.(.(.....).).))))))))))))...........(((((((.((........)))))))))....- ( -19.60)
>DroSec_CAF1 27030 94 - 1
UUGUUCUCCU------GCUGG----------AUGUGUGCUAAUCUCUUAAUGCGUUUAGCGCACAUUUCUAUUUGCUUAAUGAAUUGUUACCAAAUACAUUCAUUACCGU
..........------...((----------(((((((((((.(.(.....).).)))))))))))...........((((((((.((........)))))))))))).. ( -22.20)
>DroAna_CAF1 25680 92 - 1
UG--UUUCCU------GGUCG----------AUGUGUGCUAAUCUCUUAAUGCGUUUAGCGCACAUUUCUAUUUGCUUAAUGAAUUGUUACCGAAUACAUUCAGUGCGAU
..--.....(------((..(----------(((((((((((.(.(.....).).)))))))))))).))).((((....(((((.((........)))))))..)))). ( -23.30)
>DroPer_CAF1 34034 108 - 1
U-GUUCCCCCGGUAUCGCUGGAUGUACUCGUAUGUGUGCUAAUCUCUUAAUGCGUUUAGCGCACAUUUCUAUUUGCUUAAUGAAUUGUUACCGAAUACAUUCGC-ACCGA
.-.......((((...((.(((((((.(((.(((((((((((.(.(.....).).)))))))))))(((.(((.....)))))).......))).)))))))))-)))). ( -29.90)
>consensus
UUGUUCUCCU______GCUGG__________AUGUGUGCUAAUCUCUUAAUGCGUUUAGCGCACAUUUCUAUUUGCUUAAUGAAUUGUUACCGAAUACAUUCAUUACCAU
...............................(((((((((((.(.(.....).).)))))))))))...........((((((((.((........)))))))))).... (-17.50 = -18.12 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:52 2006