Locus 457

Sequence ID 3R_DroMel_CAF1
Location 1,733,537 – 1,733,739
Length 202
Max. P 0.993247
window739 window740

overview

Window 9

Location 1,733,537 – 1,733,643
Length 106
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 80.50
Mean single sequence MFE -27.10
Consensus MFE -15.60
Energy contribution -16.13
Covariance contribution 0.53
Combinations/Pair 1.06
Mean z-score -2.30
Structure conservation index 0.58
SVM decision value 0.66
SVM RNA-class probability 0.814213
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1733537 106 + 27905053
--CGCCCCGCUCUCCCUAUAUAAACGAAAGAAGCUGUGAAACUUAUGCAAAUUGCAUUUCAGUGUCUGCGCAAAAG----CUCGACACAAAACACAGCGUGGCGAGAGGAGC
--.((.((.(((.(((........(....)..((((((......((((.....))))....(((((.((......)----)..)))))....))))))).)).))).)).)) ( -34.90)
>DroPse_CAF1 36482 108 + 1
--UCUCUCGCUUGCUGUAUAUAAACGAAAGAAGCUGUGAAACUUAUGCAAAUUGCAUUUCAGUGUCUGCGCAAAAGCCAACUCGACACAAAACACAGCGUAGCA-GAAGAG-
--...(((..((((((........(....)..((((((......((((.....))))....(((((((.((....))))....)))))....)))))).)))))-)..)))- ( -30.80)
>DroEre_CAF1 41729 96 + 1
--CGUCCCGCUCGCCCUAUAUAAACGAAAGAAGCUGUGAAACUUAUGCAAAUUGCAUUUCAGUGUCUGCGCAAAAG----CUCGGCACAAAACCCA----------AGGAGC
--......((((............(....)......((((....((((.....))))))))(((((.((......)----)..)))))........----------..)))) ( -18.90)
>DroWil_CAF1 37760 100 + 1
------------UCUCUAUAUAAACGAAAGAAGCUGUGAAACUUAUGCAAAUUGCAUUUCAGUGUCUGCGCAAAAGCCAACUCGACACAAAACACAGGACAGAGGCAGCAGC
------------(((((.......(....)...(((((......((((.....))))....(((((((.((....))))....)))))....)))))...)))))....... ( -22.40)
>DroAna_CAF1 38322 92 + 1
-----------UUCCCUAUACAAACGA-AGAAGCUGUGAAACUUAUGCAAAUUGCAUUUCAGUGUCUGCGCAAAAG----CUCGACACACAACACAGCG----GAGAGAAGC
-----------((((.....(....).-....((((((......((((.....))))....(((((.((......)----)..)))))....)))))))----)))...... ( -23.30)
>DroPer_CAF1 37023 110 + 1
UUUCUCUCUCUUGCUGUAUAUAAACGAAAGAAGCUGUGAAACUUAUGCAAAUUGCAUUUCAGUGUCUGCGCAAAAGCCAACUCGACACAAAACACAGCGUAGCA-GAAGAG-
.....((((..(((((........(....)..((((((......((((.....))))....(((((((.((....))))....)))))....)))))).)))))-..))))- ( -32.30)
>consensus
____UC_CGCUUGCCCUAUAUAAACGAAAGAAGCUGUGAAACUUAUGCAAAUUGCAUUUCAGUGUCUGCGCAAAAG____CUCGACACAAAACACAGCGUAGCG_GAGGAGC
........................(....)..((((((......((((.....))))....(((((.................)))))....)))))).............. (-15.60 = -16.13 +   0.53) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 1,733,643 – 1,733,739
Length 96
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 68.16
Mean single sequence MFE -28.12
Consensus MFE -11.48
Energy contribution -11.56
Covariance contribution 0.08
Combinations/Pair 1.33
Mean z-score -2.46
Structure conservation index 0.41
SVM decision value 2.38
SVM RNA-class probability 0.993247
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1733643 96 + 27905053
ACACUGA-GCACAAGGAGCACAAGGAGCUCAAGGAGCGCAAGGAGGCAGUGGCAUCAGCGCCUAAAAGUAUGCAAUGCUAACGCGCCUUGCUCCAAA
.......-......(((((.......((((...)))).....(((((...(((......)))..............((....))))))))))))... ( -29.30)
>DroGri_CAF1 44011 81 + 1
--ACAGACACACAUACA---------ACACAGUAACAGCGGUGGGGCAG-----GCAGCGGCUAAAAGUAUGCAAUGCUUACGAGCUGCGUUGCAAA
--...............---------.....(((((.(((((.(((((.-----(((...((.....)).)))..)))))....))))))))))... ( -21.80)
>DroSec_CAF1 42805 85 + 1
----------ACAAGGAGCACAAGGAGCUCAAGGAG--CAAGGAGGCAGCGGCAUCAGCGCCUAAAAGUAUGCAAUGCUAACGCGCCUUGCUCCAAA
----------.....((((.......))))..((((--(((((((((.((.......)))))).............((....)).)))))))))... ( -34.00)
>DroEre_CAF1 41825 78 + 1
-------------------CCAAGCGGCGCAAGCGGCGCAAGGAGGCAGCGGUAUCAGCGCCUAAGAGUAUGCAAUGCUAACGCGCCUUGCUCCAAA
-------------------....((.((....)).))((((((((((.((.......)))))).............((....)).))))))...... ( -30.30)
>DroYak_CAF1 42793 77 + 1
-------------------ACAAGA-GCUCAGGCAGCGCGAGAAGGCAGCGGCAUCAGCGCCUAAAAGUAUGCAAUGCUAACGCGCCUUGCUCCAAA
-------------------....((-((..((((.((((....((((.((.......))))))....))..))...((....)))))).)))).... ( -25.20)
>consensus
__________ACA___A__ACAAGG_GCUCAAGCAGCGCAAGGAGGCAGCGGCAUCAGCGCCUAAAAGUAUGCAAUGCUAACGCGCCUUGCUCCAAA
...................................(.((((((((((.((.......))))))...(((((...)))))......)))))).).... (-11.48 = -11.56 +   0.08) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:38 2006