Locus 278

Sequence ID 2R_DroMel_CAF1
Location 1,678,865 – 1,678,963
Length 98
Max. P 0.988294
window588 window589

overview

Window 8

Location 1,678,865 – 1,678,963
Length 98
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.46
Mean single sequence MFE -32.32
Consensus MFE -31.17
Energy contribution -31.17
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.53
Structure conservation index 0.96
SVM decision value 2.11
SVM RNA-class probability 0.988294
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1678865 98 + 20766785
---------------------ACAUUUAAAAAUAUAA-GCCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCUGUUUUU
---------------------..............((-((.((((..((((((.......))))))....((((((.....)))))).((((........)))).....)))).)))).. ( -32.90)
>DroPse_CAF1 94442 90 + 1
---------------------------AAAAAUUUAUUUUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAU---UU
---------------------------..............((((..((((((.......))))))....((((((.....)))))).((((........)))).....))))..---.. ( -31.50)
>DroSec_CAF1 63791 101 + 1
------------------GUUACAUUUAAAAAAGUAA-UUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCUGCUUUU
------------------...........(((((((.-...((((..((((((.......))))))....((((((.....)))))).((((........)))).....))))))))))) ( -33.50)
>DroSim_CAF1 60960 101 + 1
------------------GUUACAUUUAAAAAAGUAA-UUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCUGUUUUC
------------------(((((..........))))-)..((((..((((((.......))))))....((((((.....)))))).((((........)))).....))))....... ( -31.40)
>DroEre_CAF1 69597 119 + 1
CAAAAAGCCCUAUGCAAUAUUACAUCUAAAAAAAUAU-GUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCUGUGCUG
.....(((((((((.......((((..........))-)).......)))))))))......((((.(((((((((.....)))))).((((........)))).....))).))))... ( -33.14)
>DroPer_CAF1 88354 90 + 1
---------------------------AAAAAUGUACUUUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAU---UU
---------------------------..............((((..((((((.......))))))....((((((.....)))))).((((........)))).....))))..---.. ( -31.50)
>consensus
_____________________ACAUUUAAAAAAGUAA_UUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCUGUUUUU
.........................................((((..((((((.......))))))....((((((.....)))))).((((........)))).....))))....... (-31.17 = -31.17 +   0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 1,678,865 – 1,678,963
Length 98
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.46
Mean single sequence MFE -33.75
Consensus MFE -32.83
Energy contribution -32.83
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.97
SVM decision value 1.32
SVM RNA-class probability 0.941890
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1678865 98 - 20766785
AAAAACAGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGGC-UUAUAUUUUUAAAUGU---------------------
.......(((((((..((((........))))....((((((.......))))))(((((.......))))))))))))...-................--------------------- ( -32.90)
>DroPse_CAF1 94442 90 - 1
AA---AUGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGAAAAUAAAUUUUU---------------------------
..---.((((((((..((((........))))....((((((.......))))))(((((.......))))))))))))).............--------------------------- ( -33.00)
>DroSec_CAF1 63791 101 - 1
AAAAGCAGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGAA-UUACUUUUUUAAAUGUAAC------------------
.......(((((((..((((........))))....((((((.......))))))(((((.......))))))))))))...-((((..........)))).------------------ ( -33.10)
>DroSim_CAF1 60960 101 - 1
GAAAACAGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGAA-UUACUUUUUUAAAUGUAAC------------------
.......(((((((..((((........))))....((((((.......))))))(((((.......))))))))))))...-((((..........)))).------------------ ( -33.10)
>DroEre_CAF1 69597 119 - 1
CAGCACAGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGAC-AUAUUUUUUUAGAUGUAAUAUUGCAUAGGGCUUUUUG
.(((...(((((((..((((........))))....((((((.......))))))(((((.......))))))))))))...-............(((((....)))))...)))..... ( -37.40)
>DroPer_CAF1 88354 90 - 1
AA---AUGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGAAAGUACAUUUUU---------------------------
..---.((((((((..((((........))))....((((((.......))))))(((((.......))))))))))))).............--------------------------- ( -33.00)
>consensus
AAAAACAGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGAA_UUACAUUUUUAAAUGU_____________________
.......(((((((..((((........))))....((((((.......))))))(((((.......))))))))))))......................................... (-32.83 = -32.83 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:24 2006