Locus 8235

Sequence ID X_DroMel_CAF1
Location 20,447,543 – 20,447,636
Length 93
Max. P 0.997177
window13526 window13527

overview

Window 6

Location 20,447,543 – 20,447,636
Length 93
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 74.29
Mean single sequence MFE -34.28
Consensus MFE -17.33
Energy contribution -17.75
Covariance contribution 0.42
Combinations/Pair 1.29
Mean z-score -1.88
Structure conservation index 0.51
SVM decision value 0.68
SVM RNA-class probability 0.819828
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20447543 93 + 22224390
G----CUUUUUAAGCCAAAGCGA---------------UGGCGCCAAAGCUUUCGCCAUUUUAAAUAAAAAUGCGCA-GCUUCCGCGGCGCUGCGA-UAGAUGGCGCCAAACGG-
(----((((.......)))))..---------------((((((((...((.((((.(((((.....)))))((((.-((....)).)))).))))-.)).)))))))).....- ( -34.90)
>DroVir_CAF1 37566 102 + 1
G----UUUUUUAAGCCCAG-C------GCCAAGCGCCAUGGCGCCAAAGCUUUCGCCAUUUUAAAUAAAAAUGCUUGUGCUUAACGCUGAUUGCCGCCAGAUGGCGCUG--UCGA
.----...........(((-(------((((.(((.((.((((...((((....((.(((((.....)))))))....))))..))))...)).)))....))))))))--.... ( -29.90)
>DroPse_CAF1 38700 110 + 1
GCUCGCUUUUUAAGCCAAAGCGAUGAGAGAAAGCGCCAUGGCGCCAAAGCUUUCGCCAUUUUAAAUAAAAAUUC-CA-GCUUGCUUGCCGCCGCCACCAGAUGGCGCCG--CCG-
(((((((((.......))))))).(((((...((((....)))).....)))))))..................-..-((......))((.(((((.....))))).))--...- ( -29.40)
>DroGri_CAF1 35946 102 + 1
G----CUUUUUAAGCCAAG-C------GGCGAGAGCCAUGGCGCCAAAGCUUUCGCCAUUUUAAAUAAAAAUGCUUGUGCUUGAUGGCGACUGCCGCCAGAUGGCGUGA--CCAU
(----((..((((((((((-(------(((((((((..((....))..)))))))))(((((.....)))))))))).)))))).)))......((((....))))...--.... ( -42.10)
>DroMoj_CAF1 50391 108 + 1
G----UUUUUUAAGCCAAA-CGGCAACGGCGAGCGCCAUGGCGCCAAAGCUUUCGCCAUUUUAAAUAAAAAUGCUUAUGCUUGCCGGCCAUUGCCGCCAGAUGGCGCUG--CGCA
.----........(((...-.)))....((((((((((((((((..((((....((.(((((.....)))))))....)))))).(((....)))))))..))))))).--))). ( -40.00)
>DroPer_CAF1 39164 110 + 1
GCUCGCUUUUUAAGCCAAAGCGAUGAGAGAAAGCGCCAUGGCGCCAAAGCUUUCGCCAUUUUAAAUAAAAAUUC-CA-GCUUGCUUGCCGCCGCCACCAGAUGGCGCCG--CCG-
(((((((((.......))))))).(((((...((((....)))).....)))))))..................-..-((......))((.(((((.....))))).))--...- ( -29.40)
>consensus
G____CUUUUUAAGCCAAA_CGA____GGCAAGCGCCAUGGCGCCAAAGCUUUCGCCAUUUUAAAUAAAAAUGCUCA_GCUUGCUGGCCACUGCCACCAGAUGGCGCCG__CCG_
.......................................(((((((((((......((((((.....)))))).....))))..((((....)))).....)))))))....... (-17.33 = -17.75 +   0.42)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,447,543 – 20,447,636
Length 93
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 74.29
Mean single sequence MFE -40.40
Consensus MFE -20.75
Energy contribution -22.45
Covariance contribution 1.70
Combinations/Pair 1.17
Mean z-score -2.95
Structure conservation index 0.51
SVM decision value 2.81
SVM RNA-class probability 0.997177
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20447543 93 - 22224390
-CCGUUUGGCGCCAUCUA-UCGCAGCGCCGCGGAAGC-UGCGCAUUUUUAUUUAAAAUGGCGAAAGCUUUGGCGCCA---------------UCGCUUUGGCUUAAAAAG----C
-.....((((((((.((.-((((.((((.((....))-.))))(((((.....))))).)))).))...))))))))---------------..(((((.......))))----) ( -39.60)
>DroVir_CAF1 37566 102 - 1
UCGA--CAGCGCCAUCUGGCGGCAAUCAGCGUUAAGCACAAGCAUUUUUAUUUAAAAUGGCGAAAGCUUUGGCGCCAUGGCGCUUGGC------G-CUGGGCUUAAAAAA----C
....--((((((((...((((.((....((((((((......((((((.....))))))((....))))))))))..)).))))))))------)-)))...........----. ( -38.40)
>DroPse_CAF1 38700 110 - 1
-CGG--CGGCGCCAUCUGGUGGCGGCGGCAAGCAAGC-UG-GAAUUUUUAUUUAAAAUGGCGAAAGCUUUGGCGCCAUGGCGCUUUCUCUCAUCGCUUUGGCUUAAAAAGCGAGC
-.((--.(((((((..(((((.(((((((......))-))-.................(((....)))))).)))))))))))).)).....(((((((.......))))))).. ( -40.70)
>DroGri_CAF1 35946 102 - 1
AUGG--UCACGCCAUCUGGCGGCAGUCGCCAUCAAGCACAAGCAUUUUUAUUUAAAAUGGCGAAAGCUUUGGCGCCAUGGCUCUCGCC------G-CUUGGCUUAAAAAG----C
((((--(.(((((.......))).)).))))).((((.((((((((((.....)))))(((((.((((.((....)).)))).)))))------)-))))))))......----. ( -38.60)
>DroMoj_CAF1 50391 108 - 1
UGCG--CAGCGCCAUCUGGCGGCAAUGGCCGGCAAGCAUAAGCAUUUUUAUUUAAAAUGGCGAAAGCUUUGGCGCCAUGGCGCUCGCCGUUGCCG-UUUGGCUUAAAAAA----C
....--....((((...((((((((((((.(((..((.....((((((.....))))))((....))....))((....))))).))))))))))-))))))........----. ( -44.40)
>DroPer_CAF1 39164 110 - 1
-CGG--CGGCGCCAUCUGGUGGCGGCGGCAAGCAAGC-UG-GAAUUUUUAUUUAAAAUGGCGAAAGCUUUGGCGCCAUGGCGCUUUCUCUCAUCGCUUUGGCUUAAAAAGCGAGC
-.((--.(((((((..(((((.(((((((......))-))-.................(((....)))))).)))))))))))).)).....(((((((.......))))))).. ( -40.70)
>consensus
_CGG__CGGCGCCAUCUGGCGGCAGCGGCCAGCAAGC_UAAGCAUUUUUAUUUAAAAUGGCGAAAGCUUUGGCGCCAUGGCGCUUGCC____UCG_UUUGGCUUAAAAAG____C
.......(((((((..(((((.(((.................((((((.....))))))((....)).))).))))))))))))............................... (-20.75 = -22.45 +   1.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:01 2006