Locus 713

Sequence ID 2R_DroMel_CAF1
Location 3,502,967 – 3,503,061
Length 94
Max. P 0.876352
window1248 window1249

overview

Window 8

Location 3,502,967 – 3,503,061
Length 94
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 78.92
Mean single sequence MFE -30.75
Consensus MFE -24.54
Energy contribution -24.27
Covariance contribution -0.27
Combinations/Pair 1.27
Mean z-score -1.47
Structure conservation index 0.80
SVM decision value 0.80
SVM RNA-class probability 0.853502
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3502967 94 + 20766785
CGACACUGGCCACUACCGCCUCGGCCACGGCCAAGUUCUACAAAAAGGGCACCAUCGGCAACCAGGUGCCGUGGCACUGAU--------------------CUUGUU--CUUAAUU
.((((...(((((.........(((....)))...............((((((...(....)..)))))))))))..)).)--------------------).....--....... ( -29.40)
>DroPse_CAF1 6782 111 + 1
CUACUCUGGCCGCCACCGCAUCGGCCACAGCGAAGUACUACAAGAAGGGCACCAUUGGAAACCAGGUGCCGUGGCACUGAUAGAUGAUGCAGAUGAUG---CAUGUU--GUAGUUU
((((...((......))(((((((((((.........((......))((((((...(....)..))))))))))).(((.((.....))))).)))))---).....--))))... ( -35.50)
>DroEre_CAF1 7669 94 + 1
CGACACUGGCCACUACCGCCUCGGCCACGGCCAAGUUCUACAAAAAAGGCACCAUUGGAAACCAGGUGCCGUGGCACUGAU--------------------CUUGUU--CUUAAUU
.((((...(((((.........(((....)))...............((((((...(....)..)))))))))))..)).)--------------------).....--....... ( -30.10)
>DroYak_CAF1 7621 94 + 1
CCACUCUAGCUACUACAGCCUCGGCCACGGCCAAGUUCUACAAGAAGGGCACCAUCGGCAACCAGGUGCCGUGGCACUGAU--------------------CUUGUU--CUUAAUU
........(((.....)))...(((....)))(((....((((((..((..(((.(((((......))))))))..))..)--------------------))))).--))).... ( -26.70)
>DroAna_CAF1 7440 102 + 1
CCACGCUGGCCACCACUGCCUCGGCCACGGCCAAGUUCUACAAAAAGGGCACUAUUGGCAACCAAGUGCCUUGGCACUGAUG--------------UGCAACCUGUUAUUUUAAUU
........((((.((.((((..(((....))).............((((((((...(....)..)))))))))))).)).))--------------.))................. ( -30.00)
>DroPer_CAF1 6795 102 + 1
CUACUCUGGCCGCCACCGCCUCGGCCACAGCGAAGUACUACAAGAAGGGUACCAUUGGAAACCAGGUGCCGUGGCAUUGAUAGAUG---------AUG---CAUGUU--GUAGUUU
...((.((((((.........)))))).))......(((((((.(..((((((...(....)..))))))...(((((.......)---------)))---).).))--))))).. ( -32.80)
>consensus
CCACUCUGGCCACCACCGCCUCGGCCACGGCCAAGUUCUACAAAAAGGGCACCAUUGGAAACCAGGUGCCGUGGCACUGAU____________________CUUGUU__CUUAAUU
........(((((.........(((....)))...............((((((...(....)..)))))))))))......................................... (-24.54 = -24.27 +  -0.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 3,502,967 – 3,503,061
Length 94
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 78.92
Mean single sequence MFE -35.93
Consensus MFE -23.51
Energy contribution -24.35
Covariance contribution 0.84
Combinations/Pair 1.10
Mean z-score -1.87
Structure conservation index 0.65
SVM decision value 0.89
SVM RNA-class probability 0.876352
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3502967 94 - 20766785
AAUUAAG--AACAAG--------------------AUCAGUGCCACGGCACCUGGUUGCCGAUGGUGCCCUUUUUGUAGAACUUGGCCGUGGCCGAGGCGGUAGUGGCCAGUGUCG
.......--.(((((--------------------(...(..((((((((......))))).)))..)...)))))).((..(((((((..((((...))))..)))))))..)). ( -37.90)
>DroPse_CAF1 6782 111 - 1
AAACUAC--AACAUG---CAUCAUCUGCAUCAUCUAUCAGUGCCACGGCACCUGGUUUCCAAUGGUGCCCUUCUUGUAGUACUUCGCUGUGGCCGAUGCGGUGGCGGCCAGAGUAG
..(((((--((.(((---((.....)))))................(((((((((...)))..))))))....)))))))((((.(((((.((((...)))).)))))..)))).. ( -37.20)
>DroEre_CAF1 7669 94 - 1
AAUUAAG--AACAAG--------------------AUCAGUGCCACGGCACCUGGUUUCCAAUGGUGCCUUUUUUGUAGAACUUGGCCGUGGCCGAGGCGGUAGUGGCCAGUGUCG
.......--.....(--------------------(.((.(((((((((((((((...)))..))))))............((((((....))))))......)))).)).)))). ( -34.60)
>DroYak_CAF1 7621 94 - 1
AAUUAAG--AACAAG--------------------AUCAGUGCCACGGCACCUGGUUGCCGAUGGUGCCCUUCUUGUAGAACUUGGCCGUGGCCGAGGCUGUAGUAGCUAGAGUGG
.......--.(((((--------------------(...(..((((((((......))))).)))..)...))))))....((((((....))))))(((.(((...))).))).. ( -36.80)
>DroAna_CAF1 7440 102 - 1
AAUUAAAAUAACAGGUUGCA--------------CAUCAGUGCCAAGGCACUUGGUUGCCAAUAGUGCCCUUUUUGUAGAACUUGGCCGUGGCCGAGGCAGUGGUGGCCAGCGUGG
...........((.((((..--------------(((((.((((..(((((((((...)))..)))))).............(((((....))))))))).)))))..)))).)). ( -40.60)
>DroPer_CAF1 6795 102 - 1
AAACUAC--AACAUG---CAU---------CAUCUAUCAAUGCCACGGCACCUGGUUUCCAAUGGUACCCUUCUUGUAGUACUUCGCUGUGGCCGAGGCGGUGGCGGCCAGAGUAG
..(((((--((...(---(((---------.........))))...((.((((((...)))..))).))....)))))))((((.(((((.((((...)))).)))))..)))).. ( -28.50)
>consensus
AAUUAAG__AACAAG____________________AUCAGUGCCACGGCACCUGGUUGCCAAUGGUGCCCUUCUUGUAGAACUUGGCCGUGGCCGAGGCGGUAGUGGCCAGAGUAG
.........................................((((((((((((((...)))..))))))............((((((....))))))......)))))........ (-23.51 = -24.35 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:15 2006