Locus 3982

Sequence ID 2R_DroMel_CAF1
Location 13,144,673 – 13,144,813
Length 140
Max. P 0.875665
window6428 window6429

overview

Window 8

Location 13,144,673 – 13,144,783
Length 110
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 80.19
Mean single sequence MFE -19.57
Consensus MFE -9.47
Energy contribution -10.00
Covariance contribution 0.53
Combinations/Pair 1.07
Mean z-score -2.60
Structure conservation index 0.48
SVM decision value 0.58
SVM RNA-class probability 0.788115
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13144673 110 + 20766785
GUU-GCUGUUUUUGGUAAUAAACGAAGCGUUAAACAAAAUGCACUACAACAGCAGCAACAACCAACCAACCACCACCAACAACAACAACAUAGAAAACAAACAUUUUG------UGU
(((-((((((.(((((.....))...(((((......)))))....))).)))))))))............................((((((((........)))))------))) ( -23.00)
>DroSec_CAF1 38468 109 + 1
GUU-GCUGUUUUUGGUAAUAAACGAAGCGUUAAACAAAAUGCACUACAACAGCAGCAACAACU-ACCAACUACCACCACCACCAACAACAUAGAAGACACACAUUUUG------UGU
(((-((((((.(((((.....))...(((((......)))))....))).)))))))))....-.......................((((((((........)))))------))) ( -23.80)
>DroSim_CAF1 40272 96 + 1
GUU-GCUGUUUUUGGUAAUAAACGAAGCGUUAAACAAAAUGCACUACAACAGCAGCAACAACU-ACCAACUACCA-------------CAUAGAAAACACACAUUUUG------UGU
(((-((((((.(((((.....))...(((((......)))))....))).)))))))))....-..........(-------------(((((((........)))))------))) ( -23.00)
>DroEre_CAF1 39062 89 + 1
GUU-GCUGUUUUUGGUAAUAAACGAAGCGUUAAACAAAAUGCACUACAACUGCA----------ACCAACUACCACC---------GACAUAGAAAAC--ACAUUUUG------UGU
(((-((.(((((((........))))(((((......))))).....))).)))----------))...........---------.((((((((...--...)))))------))) ( -16.70)
>DroYak_CAF1 39368 90 + 1
GUU-GCUGUUUUUGGUAAUAAACGAAGCGUUAAACAAAAUGCACUACAACUGCA----------ACCAAGUACCACC---------AACAUAGAAAACA-ACAUUUUG------UGU
(((-((.(((((((........))))(((((......))))).....))).)))----------))...........---------.((((((((....-...)))))------))) ( -16.10)
>DroAna_CAF1 38627 96 + 1
GCUGGCUGUUUUUGGUAAUAAACGAAGCGUUAAACAAAUUGCAUUACAGCAACA----------AGCCAACACCACC---------AACGUAGAAAAC--ACAUUUUGUACAAGUAU
(((.(((((.((((........))))(((..........)))...)))))....----------)))..........---------...(((.((((.--...)))).)))...... ( -14.80)
>consensus
GUU_GCUGUUUUUGGUAAUAAACGAAGCGUUAAACAAAAUGCACUACAACAGCA__________ACCAACUACCACC_________AACAUAGAAAACA_ACAUUUUG______UGU
....((((((((((........))))(((((......))))).....))))))................................................................ ( -9.47 = -10.00 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 13,144,712 – 13,144,813
Length 101
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 82.94
Mean single sequence MFE -14.23
Consensus MFE -8.46
Energy contribution -8.86
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.49
Structure conservation index 0.59
SVM decision value 0.89
SVM RNA-class probability 0.875665
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13144712 101 + 20766785
GCACUACAACAGCAGCAACAACCAACCAACCACCACCAACAACAACAACAUAGAAAACAAACAUUUUGUGUCUUUCUGAUUUGUUGUUUACCAUAUGCAAA
(((.......((((((((..............................(((((((........)))))))((.....)).)))))))).......)))... ( -12.04)
>DroSec_CAF1 38507 100 + 1
GCACUACAACAGCAGCAACAACU-ACCAACUACCACCACCACCAACAACAUAGAAGACACACAUUUUGUGUCUUUCUGAUUUGUUGUUUACCAUAUGCAAA
(((..........((......))-...................((((((((((((((((((.....)))))).)))))...))))))).......)))... ( -17.60)
>DroSim_CAF1 40311 87 + 1
GCACUACAACAGCAGCAACAACU-ACCAACUACCA-------------CAUAGAAAACACACAUUUUGUGUCUUUCUGAUUUGUUGUUUACCAUAUGCAAA
(((.......((((((((.....-...........-------------..(((((((((((.....))))).))))))..)))))))).......)))... ( -14.19)
>DroEre_CAF1 39101 80 + 1
GCACUACAACUGCA----------ACCAACUACCACC---------GACAUAGAAAAC--ACAUUUUGUGUCUUUCUGAUUUGUUGUUUACCAUAUGCAAA
(((........(((----------((...........---------(((((((((...--...)))))))))..........)))))........)))... ( -14.19)
>DroYak_CAF1 39407 81 + 1
GCACUACAACUGCA----------ACCAAGUACCACC---------AACAUAGAAAACA-ACAUUUUGUGUCUUUCUGAUUUGUUGUUUACCAUAUGCAAA
(((........(((----------((.((((......---------.((((((((....-...)))))))).......)))))))))........)))... ( -13.13)
>consensus
GCACUACAACAGCAGCAACAAC__ACCAACUACCACC_________AACAUAGAAAACA_ACAUUUUGUGUCUUUCUGAUUUGUUGUUUACCAUAUGCAAA
(((....(((((((..................................(((((((........)))))))((.....))..))))))).......)))... ( -8.46 =  -8.86 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:55 2006