Locus 2257

Sequence ID 2L_DroMel_CAF1
Location 6,137,913 – 6,138,031
Length 118
Max. P 0.857954
window3619 window3620

overview

Window 9

Location 6,137,913 – 6,138,003
Length 90
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 69.42
Mean single sequence MFE -24.58
Consensus MFE -9.18
Energy contribution -10.18
Covariance contribution 1.00
Combinations/Pair 1.21
Mean z-score -1.95
Structure conservation index 0.37
SVM decision value 0.82
SVM RNA-class probability 0.857954
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6137913 90 - 22407834
UGCCAUUUUGGU--GAAGAGGCGUUUGCGGGAACUUUAAGGAUGAUGUUUCUAUAAAUGCACUCCCCCAAAUUGCUUCUAUCUCGAUUAC----------------------------UU
.((...(((((.--(..((((((((((..(((((.(((....))).)))))..))))))).))).))))))..))...............----------------------------.. ( -22.40)
>DroSec_CAF1 6454 90 - 1
UUCCAUUUUGGG--GAAGAGGCUUUUGCGGGAACUUUAAGGAUGAUGUUCCUAUAAAUGCACUCCACCAAAUUGCUUCUAUCUCGCUUAC----------------------------UU
.........(((--(.((((((.((((..(((.(((((((((......)))).)))).)...)))..))))..)))))).))))......----------------------------.. ( -22.50)
>DroSim_CAF1 6615 77 - 1
UGCCAUUUUGGG--GAAG-------------AACUUUAAGGAUGAUGUUCCUAUAAAUGCACUCUCCCAAAUUGCUUAUAUCUCGCUUAC----------------------------UU
.((...((((((--..((-------------..(((((((((......)))).)))).)..))..))))))..))...............----------------------------.. ( -16.80)
>DroEre_CAF1 6813 99 - 1
UGCCAUCUUGGGGGGGAAAGGUGUUUGUGGGAACUUUAAGGAUUCUGUUCCUAUAAAUGCACUCCCCCAAAU-GUUUCUUCCUAGCAUUC--------------------AAACAACUUU
........((((((((....((((((((((((((............)))))))))))))).))))))))(((-(((.......)))))).--------------------.......... ( -34.20)
>DroYak_CAF1 6714 117 - 1
UGCCAUCCUGGG--GGAAAGACGUUUGUGGGAUCUUUAAGGAUGAUGUUCUUAUGAAUGCACUCCCCCAAAU-GUUUCUCUUUUGCAUGCCGAAAAUGAAUGUUAUCUCAAAACAACAUU
........((((--(((..(.((((..(((((...(((....)))...)))))..)))))..)))))))(((-(((((..(((((.....)))))..)))((((.......))))))))) ( -27.00)
>consensus
UGCCAUUUUGGG__GAAGAGGCGUUUGCGGGAACUUUAAGGAUGAUGUUCCUAUAAAUGCACUCCCCCAAAUUGCUUCUAUCUCGCUUAC____________________________UU
..((.....))...((((....(((((.((((.(((((((((......)))).)))).)...)))).)))))..)))).......................................... ( -9.18 = -10.18 +   1.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 6,137,925 – 6,138,031
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.74
Mean single sequence MFE -28.72
Consensus MFE -12.38
Energy contribution -13.14
Covariance contribution 0.76
Combinations/Pair 1.20
Mean z-score -2.09
Structure conservation index 0.43
SVM decision value 0.43
SVM RNA-class probability 0.733779
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6137925 106 - 22407834
------------UCACUGACUUCUUUCGGGCAGUAAAAUUUGCCAUUUUGGU--GAAGAGGCGUUUGCGGGAACUUUAAGGAUGAUGUUUCUAUAAAUGCACUCCCCCAAAUUGCUUCUA
------------(((((((......)).(((((......))))).....)))--))(((((((((((.((((.(((((.(((.......))).)))).)...)))).)))).))))))). ( -29.10)
>DroSec_CAF1 6466 103 - 1
------------UCACUGACU---UUUCGGCAGUAAAAUUUUCCAUUUUGGG--GAAGAGGCUUUUGCGGGAACUUUAAGGAUGAUGUUCCUAUAAAUGCACUCCACCAAAUUGCUUCUA
------------.........---....((((((....((..((.....)).--.))(((((.((((..(((((.(((....))).)))))..)))).)).)))......)))))).... ( -25.60)
>DroSim_CAF1 6627 93 - 1
------------UCACUGACUUCUUUUCGGCAGUAAAAUUUGCCAUUUUGGG--GAAG-------------AACUUUAAGGAUGAUGUUCCUAUAAAUGCACUCUCCCAAAUUGCUUAUA
------------................(((((......)))))..((((((--..((-------------..(((((((((......)))).)))).)..))..))))))......... ( -21.90)
>DroEre_CAF1 6833 119 - 1
GUGUCUUUGGUUUCACUGACUUAUUUUCAGCAGUAAAAUUUGCCAUCUUGGGGGGGAAAGGUGUUUGUGGGAACUUUAAGGAUUCUGUUCCUAUAAAUGCACUCCCCCAAAU-GUUUCUU
..(((..((....))..))).........((((......))))(((.(((((((((....((((((((((((((............)))))))))))))).)))))))))))-)...... ( -39.20)
>DroYak_CAF1 6754 105 - 1
------------UCACUGACUUCUUUUGAGCAGUAAAAUUUGCCAUCCUGGG--GGAAAGACGUUUGUGGGAUCUUUAAGGAUGAUGUUCUUAUGAAUGCACUCCCCCAAAU-GUUUCUC
------------..((((.(((.....))))))).........(((..((((--(((..(.((((..(((((...(((....)))...)))))..)))))..))))))).))-)...... ( -27.80)
>consensus
____________UCACUGACUUCUUUUCGGCAGUAAAAUUUGCCAUUUUGGG__GAAGAGGCGUUUGCGGGAACUUUAAGGAUGAUGUUCCUAUAAAUGCACUCCCCCAAAUUGCUUCUA
..............((((.((.......))))))........((.....))...((((....(((((.((((.(((((((((......)))).)))).)...)))).)))))..)))).. (-12.38 = -13.14 +   0.76)

alignment

Postscript

secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:16 2006