Locus 3874

Sequence ID 3R_DroMel_CAF1
Location 10,532,485 – 10,532,585
Length 100
Max. P 0.966561
window6207 window6208

overview

Window 7

Location 10,532,485 – 10,532,585
Length 100
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 86.71
Mean single sequence MFE -13.74
Consensus MFE -13.52
Energy contribution -13.52
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.64
Structure conservation index 0.98
SVM decision value 1.60
SVM RNA-class probability 0.966561
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10532485 100 + 27905053
CUUCGACCAAGCGCUGUAAUAAAUUCGCGCUUUAAA--AAAUAAAGAAAAACAGUAAAAAAUAAAAUGACAAAGA-GGUGGGGGAAAU--AUGAGGAAAAACAAG
((((.(((((((((............))))))....--.............((.............)).......-))).))))....--............... ( -13.82)
>DroEre_CAF1 7454 91 + 1
CUUCGACCAAGCGCUGUAAUAAAUUCGCGCUUUAAAAAA---------AAAGAGUAAA-AAUAAAAUGACAAAA--GGUGGGGGAAAU--AUGAGGAAAAACAAG
((((.(((((((((............)))))).......---------.....((...-.........))....--))).))))....--............... ( -13.80)
>DroYak_CAF1 6567 93 + 1
CUUCGACCAAGCGCUGUAAUAAAUUCGCGCUUUAAGA-----------AAAGAGUAAA-AAUAAAAUGACAAAAAGGGUGGGGGAAAUAUAUGAGGAAAAACAAG
((((.(((((((((............)))))).....-----------.....((...-.........))......))).))))..................... ( -13.60)
>consensus
CUUCGACCAAGCGCUGUAAUAAAUUCGCGCUUUAAAA_A_________AAAGAGUAAA_AAUAAAAUGACAAAAA_GGUGGGGGAAAU__AUGAGGAAAAACAAG
((((.(((((((((............)))))).....................((.............))......))).))))..................... (-13.52 = -13.52 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 10,532,485 – 10,532,585
Length 100
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 86.71
Mean single sequence MFE -9.47
Consensus MFE -9.10
Energy contribution -9.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -0.67
Structure conservation index 0.96
SVM decision value -0.02
SVM RNA-class probability 0.521043
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10532485 100 - 27905053
CUUGUUUUUCCUCAU--AUUUCCCCCACC-UCUUUGUCAUUUUAUUUUUUACUGUUUUUCUUUAUUU--UUUAAAGCGCGAAUUUAUUACAGCGCUUGGUCGAAG
...............--..(((..(((..-..............................((((...--..))))((((............)))).)))..))). (  -9.60)
>DroEre_CAF1 7454 91 - 1
CUUGUUUUUCCUCAU--AUUUCCCCCACC--UUUUGUCAUUUUAUU-UUUACUCUUU---------UUUUUUAAAGCGCGAAUUUAUUACAGCGCUUGGUCGAAG
...............--..(((..((..(--....)..........-..........---------.......((((((............))))))))..))). (  -9.40)
>DroYak_CAF1 6567 93 - 1
CUUGUUUUUCCUCAUAUAUUUCCCCCACCCUUUUUGUCAUUUUAUU-UUUACUCUUU-----------UCUUAAAGCGCGAAUUUAUUACAGCGCUUGGUCGAAG
...................(((..((...(.....)..........-..........-----------.....((((((............))))))))..))). (  -9.40)
>consensus
CUUGUUUUUCCUCAU__AUUUCCCCCACC_UUUUUGUCAUUUUAUU_UUUACUCUUU_________U_UUUUAAAGCGCGAAUUUAUUACAGCGCUUGGUCGAAG
...................(((..((((.......))....................................((((((............))))))))..))). ( -9.10 =  -9.10 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:15 2006