Locus 9501

Sequence ID 3R_DroMel_CAF1
Location 25,115,489 – 25,115,586
Length 97
Max. P 0.978245
window15208 window15209

overview

Window 8

Location 25,115,489 – 25,115,586
Length 97
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 80.41
Mean single sequence MFE -34.73
Consensus MFE -24.95
Energy contribution -24.81
Covariance contribution -0.14
Combinations/Pair 1.06
Mean z-score -3.99
Structure conservation index 0.72
SVM decision value 1.70
SVM RNA-class probability 0.972635
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25115489 97 + 27905053
CUCGCAUCCUUGGGCUCAAGUGGUCAACGCUGGGA-AAGACAAUCGCAGACAGUCUAAU-UUGUGCGCGGGCCACUUGAGUCUGGGAA--UGGAA--AAGAAA-
.((.(((.((..(((((((((((((..(((((.((-.......)).)).((((......-)))))))..)))))))))))))..)).)--)))).--......- ( -40.50)
>DroPse_CAF1 49750 86 + 1
--------------CUCAAGUGGUCAGCGCUGGGAAAAGACAAUCAGAGACAGUCUAAU-UUGUGCGCGGGCCACUUGAGCCAUAGAA--AGAAAGAAAGGAC-
--------------(((((((((((.((((..(((..((((...........))))..)-))..)))).)))))))))))........--.............- ( -29.50)
>DroEre_CAF1 46914 98 + 1
CUCGCAUCCUUGGGCUCAAGUGGUCAACGCUGGGA-AAGACAAUCACAGACAGUCUAAU-UUGUGCGCGGGCCACUUGAGUCUGGGAA--UGGAAA-AAGAAA-
.((.(((.((..(((((((((((((..((((..(.-.((((...........))))..)-..).)))..)))))))))))))..)).)--))))..-......- ( -40.40)
>DroYak_CAF1 45943 98 + 1
CUGGCAUCCUUGGGCUCAAGUGGUCAACGCUGGGA-AAGACAAUCGCAGACAGUCUAAU-UUGUGCGCGGGCCACUUGAGUCUGGGAA--UGGAAG-AAGAAA-
((..(((.((..(((((((((((((..(((((.((-.......)).)).((((......-)))))))..)))))))))))))..)).)--))..))-......- ( -40.70)
>DroAna_CAF1 49156 87 + 1
--------------UUCAAGUGGUCAGCGCUGGGA-AAGACAAUCAGAGACAGUCUAAUUUUGUGCGCGGGCCACUUGAGUCCGGGGAAAAAUAA--AAGAAAU
--------------(((((((((((.((((..(((-(((((...........))))..))))..)))).)))))))))))((....)).......--....... ( -27.80)
>DroPer_CAF1 49733 86 + 1
--------------CUCAAGUGGUCAGCGCUGGGAAAAGACAAUCAGAGACAGUCUAAU-UUGUGCGCGGGCCACUUGAGCCAUAGAA--AGAAAGAAAGGAC-
--------------(((((((((((.((((..(((..((((...........))))..)-))..)))).)))))))))))........--.............- ( -29.50)
>consensus
______________CUCAAGUGGUCAACGCUGGGA_AAGACAAUCACAGACAGUCUAAU_UUGUGCGCGGGCCACUUGAGUCUGGGAA__AGGAAG_AAGAAA_
..............(((((((((((..(((.......((((...........))))........)))..)))))))))))........................ (-24.95 = -24.81 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 25,115,489 – 25,115,586
Length 97
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 80.41
Mean single sequence MFE -27.76
Consensus MFE -25.23
Energy contribution -25.14
Covariance contribution -0.08
Combinations/Pair 1.05
Mean z-score -2.97
Structure conservation index 0.91
SVM decision value 1.81
SVM RNA-class probability 0.978245
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25115489 97 - 27905053
-UUUCUU--UUCCA--UUCCCAGACUCAAGUGGCCCGCGCACAA-AUUAGACUGUCUGCGAUUGUCUU-UCCCAGCGUUGACCACUUGAGCCCAAGGAUGCGAG
-......--.((((--(((...(.(((((((((.(.((((....-...((((.(((...))).)))).-.....)))).).))))))))).)...))))).)). ( -30.42)
>DroPse_CAF1 49750 86 - 1
-GUCCUUUCUUUCU--UUCUAUGGCUCAAGUGGCCCGCGCACAA-AUUAGACUGUCUCUGAUUGUCUUUUCCCAGCGCUGACCACUUGAG--------------
-.............--........(((((((((.(.((((....-...((((.(((...))).)))).......)))).).)))))))))-------------- ( -26.64)
>DroEre_CAF1 46914 98 - 1
-UUUCUU-UUUCCA--UUCCCAGACUCAAGUGGCCCGCGCACAA-AUUAGACUGUCUGUGAUUGUCUU-UCCCAGCGUUGACCACUUGAGCCCAAGGAUGCGAG
-......-..((((--(((...(.(((((((((.(.((((....-...((((.(((...))).)))).-.....)))).).))))))))).)...))))).)). ( -30.42)
>DroYak_CAF1 45943 98 - 1
-UUUCUU-CUUCCA--UUCCCAGACUCAAGUGGCCCGCGCACAA-AUUAGACUGUCUGCGAUUGUCUU-UCCCAGCGUUGACCACUUGAGCCCAAGGAUGCCAG
-......-....((--(((...(.(((((((((.(.((((....-...((((.(((...))).)))).-.....)))).).))))))))).)...))))).... ( -28.72)
>DroAna_CAF1 49156 87 - 1
AUUUCUU--UUAUUUUUCCCCGGACUCAAGUGGCCCGCGCACAAAAUUAGACUGUCUCUGAUUGUCUU-UCCCAGCGCUGACCACUUGAA--------------
.......--................((((((((.(.((((........((((.(((...))).)))).-.....)))).).)))))))).-------------- ( -23.74)
>DroPer_CAF1 49733 86 - 1
-GUCCUUUCUUUCU--UUCUAUGGCUCAAGUGGCCCGCGCACAA-AUUAGACUGUCUCUGAUUGUCUUUUCCCAGCGCUGACCACUUGAG--------------
-.............--........(((((((((.(.((((....-...((((.(((...))).)))).......)))).).)))))))))-------------- ( -26.64)
>consensus
_UUUCUU_CUUCCA__UUCCCAGACUCAAGUGGCCCGCGCACAA_AUUAGACUGUCUCUGAUUGUCUU_UCCCAGCGCUGACCACUUGAG______________
........................(((((((((.(.((((........((((.(((...))).)))).......)))).).))))))))).............. (-25.23 = -25.14 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:36:01 2006