Locus 8456

Sequence ID 3R_DroMel_CAF1
Location 22,556,637 – 22,556,735
Length 98
Max. P 0.976857
window13607 window13608

overview

Window 7

Location 22,556,637 – 22,556,735
Length 98
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 77.09
Mean single sequence MFE -19.69
Consensus MFE -13.73
Energy contribution -13.78
Covariance contribution 0.06
Combinations/Pair 1.12
Mean z-score -0.99
Structure conservation index 0.70
SVM decision value 0.00
SVM RNA-class probability 0.534222
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22556637 98 + 27905053
UUCAUUUUGU---------UUUUUGUU--UGAAGCCCCACAAUUUGAUAUACACAAAUCGAUUUACUUGCGCAUGCAAAUAACUUUAUUUGCUUAGUGGGUGUUUGGA--A
..........---------......((--(.(((((((((...(((((........))))).............(((((((....)))))))...))))).)))).))--) ( -21.00)
>DroVir_CAF1 8499 89 + 1
--------------------CAUUGUUUCUGGAGCGCCACAAUUUGAUACACACAAAUCGAUUUGGUUGCGCAUGUAAAUAACUUUAUUUGCUUAGUGGAAGGAAAAU--A
--------------------..((.(((((...((((..(((.(((((........))))).)))...))))..(((((((....))))))).....))))).))...--. ( -20.10)
>DroEre_CAF1 4826 91 + 1
UUCAUU-UGU---------UUUUUGUU--UGAAGCGCCACAAUUUGAUAUACACAAAUCGAUUUACUUGCGCAUGCAAAUAACUUUAUUUGCUUAGUGGGC------A--A
......-.((---------(((.....--.)))))(((.....(((((........)))))........(((..(((((((....)))))))...))))))------.--. ( -17.80)
>DroWil_CAF1 29031 103 + 1
UAUAUUUUUU------UUUGGGUGGGU--UCGAGUCCCACAAUUUGAUAUACACAAAUCGAUUUACUUGCGCAUGCAAAUAACUUUAUUUGUUUAGUGGGUGGCACACAAA
..........------((((.(((((.--......)))))...(((((........))))).(((((..(....(((((((....)))))))...)..)))))....)))) ( -21.80)
>DroAna_CAF1 6031 91 + 1
----UUCUGU---------UUUUUGUU--UGAAGCCCCACAAUUUGAUAUACACAAAUCGAUUUACUUGCGCAUGCAAAUAACUUUAUUUGCUUAGUGGGUGGAUG-----
----....((---------(((.....--.)))))....(.(((((.......))))).)(((((((..(....(((((((....)))))))...)..))))))).----- ( -18.40)
>DroPer_CAF1 9469 107 + 1
UUCGUUUCGCGUUUUUUUUGUACUGUU--UGAAGCCCCACAAUUUGAUAUACACAAAUCGAUUUACUUGCGCAUGCAAAUAACUUUAUUUGCUUAGUGGGUGGCACAA--A
........(((((((............--.)))))(((((...(((((........))))).............(((((((....)))))))...)))))..))....--. ( -19.02)
>consensus
UUCAUUUUGU_________UUUUUGUU__UGAAGCCCCACAAUUUGAUAUACACAAAUCGAUUUACUUGCGCAUGCAAAUAACUUUAUUUGCUUAGUGGGUGGAACAA__A
...................................(((((...(((((........))))).............(((((((....)))))))...)))))........... (-13.73 = -13.78 +   0.06)

alignment

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secondary structure

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dotplot

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Window 8

Location 22,556,637 – 22,556,735
Length 98
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 77.09
Mean single sequence MFE -22.68
Consensus MFE -19.56
Energy contribution -20.42
Covariance contribution 0.86
Combinations/Pair 1.05
Mean z-score -3.03
Structure conservation index 0.86
SVM decision value 1.78
SVM RNA-class probability 0.976857
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22556637 98 - 27905053
U--UCCAAACACCCACUAAGCAAAUAAAGUUAUUUGCAUGCGCAAGUAAAUCGAUUUGUGUAUAUCAAAUUGUGGGGCUUCA--AACAAAAA---------ACAAAAUGAA
.--........(((((...(((((((....)))))))((((((((((......))))))))))........)))))......--........---------.......... ( -24.80)
>DroVir_CAF1 8499 89 - 1
U--AUUUUCCUUCCACUAAGCAAAUAAAGUUAUUUACAUGCGCAACCAAAUCGAUUUGUGUGUAUCAAAUUGUGGCGCUCCAGAAACAAUG--------------------
.--..((((..........(((..((((....))))..)))((..(((...(((((((.......)))))))))).))....)))).....-------------------- ( -11.90)
>DroEre_CAF1 4826 91 - 1
U--U------GCCCACUAAGCAAAUAAAGUUAUUUGCAUGCGCAAGUAAAUCGAUUUGUGUAUAUCAAAUUGUGGCGCUUCA--AACAAAAA---------ACA-AAUGAA
.--.------((((((...(((((((....)))))))((((((((((......))))))))))........)))).))....--........---------...-...... ( -23.80)
>DroWil_CAF1 29031 103 - 1
UUUGUGUGCCACCCACUAAACAAAUAAAGUUAUUUGCAUGCGCAAGUAAAUCGAUUUGUGUAUAUCAAAUUGUGGGACUCGA--ACCCACCCAAA------AAAAAAUAUA
((((.((.((((........((((((....)))))).((((((((((......))))))))))........)))).)).)))--)..........------.......... ( -22.00)
>DroAna_CAF1 6031 91 - 1
-----CAUCCACCCACUAAGCAAAUAAAGUUAUUUGCAUGCGCAAGUAAAUCGAUUUGUGUAUAUCAAAUUGUGGGGCUUCA--AACAAAAA---------ACAGAA----
-----......(((((...(((((((....)))))))((((((((((......))))))))))........)))))......--........---------......---- ( -24.80)
>DroPer_CAF1 9469 107 - 1
U--UUGUGCCACCCACUAAGCAAAUAAAGUUAUUUGCAUGCGCAAGUAAAUCGAUUUGUGUAUAUCAAAUUGUGGGGCUUCA--AACAGUACAAAAAAAACGCGAAACGAA
(--(((((...(((((...(((((((....)))))))((((((((((......))))))))))........)))))(((...--...)))..........))))))..... ( -28.80)
>consensus
U__UUCUGCCACCCACUAAGCAAAUAAAGUUAUUUGCAUGCGCAAGUAAAUCGAUUUGUGUAUAUCAAAUUGUGGGGCUUCA__AACAAAAA_________ACAAAAUGAA
...........(((((...(((((((....)))))))((((((((((......))))))))))........)))))................................... (-19.56 = -20.42 +   0.86)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:11:49 2006