Locus 970

Sequence ID 2R_DroMel_CAF1
Location 4,116,509 – 4,116,603
Length 94
Max. P 0.869111
window1726 window1727

overview

Window 6

Location 4,116,509 – 4,116,603
Length 94
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 82.09
Mean single sequence MFE -25.92
Consensus MFE -15.88
Energy contribution -16.24
Covariance contribution 0.36
Combinations/Pair 1.12
Mean z-score -1.94
Structure conservation index 0.61
SVM decision value 0.28
SVM RNA-class probability 0.664932
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4116509 94 + 20766785
-AUGUUCGCCAA--------------GUGACACCAUUUGAGGCCCACAGGCCUUACAAUGGUAUUAAAUGUUGUAUUAACGGGCUUUC-CCAUGAAUCUUUUAUUUGCAC
-......((.((--------------((((.(((((((((((((....))))))).))))))..................(((....)-)).........)))))))).. ( -25.00)
>DroSim_CAF1 29601 95 + 1
UGUGUUCGCCAA--------------GUGACACCAUUUGAGGCCACCAGGCCCGACAAUGGUAUUAAAUGGUGCAUUAACGGGCUUUC-CCAUGAAUCUUUUAUUUGCAC
.((((.(((((.--------------.(((.((((((((.((((....)))))))..))))).)))..))))).......(((....)-))...............)))) ( -27.40)
>DroEre_CAF1 7090 92 + 1
-GUGUUCGACAA--------------GUGACACCAUUUGGGGCG--CAGGCCUUACAAUGGUAUUAAAUGUUGUAUUAACGGGCUUUC-CCAUGAAUCUUUUAUUUGCAC
-((((.(((((.--------------.(((.((((((((((((.--...)))))).)))))).)))..))))).......(((....)-))...............)))) ( -25.30)
>DroYak_CAF1 13621 93 + 1
UGUGUUACACAA--------------GUGACACCAUUUGAGGCC--CAAGCCUUACAAUGGUAUUAAAUGGUGUAUUAACGGGCUUUC-CCAUGAAUCUUUUAUUUGCAC
.(((((((((..--------------.(((.((((((((((((.--...)))))).)))))).)))....))))).....(((....)-))...............)))) ( -26.20)
>DroAna_CAF1 12102 109 + 1
-AGGUUGUACAAAGAACAUACAUGCCCUGACACCGUUUCAGGCCAAAAAGCCUUACAAGGGUAUUAAACGGUGUAUUAAUGGGCUUUCCCCAUGAAUCUUUUAUUUGCGA
-..((.(((.(((((........((((..(((((((((.((((......))))(((....)))..)))))))))......)))).(((.....)))))))))))..)).. ( -25.70)
>consensus
_GUGUUCGACAA______________GUGACACCAUUUGAGGCC__CAGGCCUUACAAUGGUAUUAAAUGGUGUAUUAACGGGCUUUC_CCAUGAAUCUUUUAUUUGCAC
...........................(((.((((((((((((......)))))).)))))).))).....((((.(((.((..((.......))..)).)))..)))). (-15.88 = -16.24 +   0.36)

alignment

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secondary structure

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dotplot

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Window 7

Location 4,116,509 – 4,116,603
Length 94
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 82.09
Mean single sequence MFE -26.76
Consensus MFE -16.82
Energy contribution -16.98
Covariance contribution 0.16
Combinations/Pair 1.14
Mean z-score -2.24
Structure conservation index 0.63
SVM decision value 0.86
SVM RNA-class probability 0.869111
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4116509 94 - 20766785
GUGCAAAUAAAAGAUUCAUGG-GAAAGCCCGUUAAUACAACAUUUAAUACCAUUGUAAGGCCUGUGGGCCUCAAAUGGUGUCAC--------------UUGGCGAACAU-
.(((.........(((.((((-(....))))).)))....((....((((((((...(((((....)))))..))))))))...--------------.))))).....- ( -27.00)
>DroSim_CAF1 29601 95 - 1
GUGCAAAUAAAAGAUUCAUGG-GAAAGCCCGUUAAUGCACCAUUUAAUACCAUUGUCGGGCCUGGUGGCCUCAAAUGGUGUCAC--------------UUGGCGAACACA
(((..........(((.((((-(....))))).))).(.(((....((((((((...(((((....)))))..))))))))...--------------.))).)..))). ( -30.30)
>DroEre_CAF1 7090 92 - 1
GUGCAAAUAAAAGAUUCAUGG-GAAAGCCCGUUAAUACAACAUUUAAUACCAUUGUAAGGCCUG--CGCCCCAAAUGGUGUCAC--------------UUGUCGAACAC-
(((..........(((.((((-(....))))).))).(.(((....((((((((....(((...--.)))...))))))))...--------------.))).)..)))- ( -20.10)
>DroYak_CAF1 13621 93 - 1
GUGCAAAUAAAAGAUUCAUGG-GAAAGCCCGUUAAUACACCAUUUAAUACCAUUGUAAGGCUUG--GGCCUCAAAUGGUGUCAC--------------UUGUGUAACACA
(((..............((((-(....)))))...(((((......((((((((...((((...--.))))..))))))))...--------------..))))).))). ( -26.30)
>DroAna_CAF1 12102 109 - 1
UCGCAAAUAAAAGAUUCAUGGGGAAAGCCCAUUAAUACACCGUUUAAUACCCUUGUAAGGCUUUUUGGCCUGAAACGGUGUCAGGGCAUGUAUGUUCUUUGUACAACCU-
....................(((...((((......(((((((((..(((....)))(((((....))))).)))))))))..)))).((((((.....)))))).)))- ( -30.10)
>consensus
GUGCAAAUAAAAGAUUCAUGG_GAAAGCCCGUUAAUACACCAUUUAAUACCAUUGUAAGGCCUG__GGCCUCAAAUGGUGUCAC______________UUGUCGAACAC_
.............(((.((((.(....))))).)))..........((((((((...(((((....)))))..))))))))............................. (-16.82 = -16.98 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:03 2006