Locus 416

Sequence ID 3R_DroMel_CAF1
Location 1,544,191 – 1,544,290
Length 99
Max. P 0.834513
window682 window683

overview

Window 2

Location 1,544,191 – 1,544,290
Length 99
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 78.97
Mean single sequence MFE -23.87
Consensus MFE -12.18
Energy contribution -12.96
Covariance contribution 0.78
Combinations/Pair 1.29
Mean z-score -2.33
Structure conservation index 0.51
SVM decision value 0.73
SVM RNA-class probability 0.834513
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1544191 99 + 27905053
UAAAGCGGGUUGGGAGCUAUUGAUUACAGAAAAGGUUC---CAUGCCACA----UUGUAAAAUGGCAACGGAGUACGGAAAUCUGCAUGAAAAUGCGAACAAAAGC
....((.(((..((((((.((.........)).)))))---)..)))...----(((((...((....))...))))).....(((((....))))).......)) ( -22.30)
>DroPse_CAF1 45380 91 + 1
UAACCCAUGUUCUGUGCUAUUGAUUACAAAAAAGGUUC---CACGCCA-----------AAAUGGCAACUG-GAAUGGAAAUCUGCAUGAAAAUGCAGACAAAAGC
...............(((.(((............((((---((.(((.-----------....)))...))-)))).....(((((((....)))))))))).))) ( -24.80)
>DroEre_CAF1 45103 97 + 1
--AGCCGAGUUCGGGGCUAUUGAUUACAGAAAAGGUUC---CAUGCCACA----UUGUAAAAUGGCAACGGAGAACGGAAAUCUGCAUGAAAAUGCGAACAAAAGU
--..(((..((((..((((((..((((((....(((..---...)))...----))))))))))))..))))...))).....(((((....)))))......... ( -25.90)
>DroWil_CAF1 46505 102 + 1
UGUUCCAUGUCCCAGGCUAUUGAUUACAAAAAAGGUUCAUCCACGUUAAA----AUGGCAACUGGCAAAUGAAAAUGAAAAUCUGCAUGAAAAUGCAGACAAAAGC
.....(((...((((((((((....((......((.....))..))...)----)))))..))))...)))..........(((((((....)))))))....... ( -21.80)
>DroAna_CAF1 43583 103 + 1
UAACCCAUGUUCGGAGCUAUUGAUUACAGAAAAGGUUC---CAUGCCGCUUCAGUCGGGAAAUGGCAACUGAAAUUGAAAAUCUGCAUGAAAAUGCAAACAAAAGC
.....((..(((((((((.((.........)).)))))---).(((((.(((......))).)))))...)))..))......(((((....)))))......... ( -23.60)
>DroPer_CAF1 46904 91 + 1
UAACCCAUGUUCUGUGCUAUUGAUUACAAAAAAGGUUC---CACGCCA-----------AAAUGGCAACUG-GAAUGGAAAUCUGCAUGAAAAUGCAGACAAAAGC
...............(((.(((............((((---((.(((.-----------....)))...))-)))).....(((((((....)))))))))).))) ( -24.80)
>consensus
UAACCCAUGUUCGGAGCUAUUGAUUACAAAAAAGGUUC___CACGCCACA____UUG__AAAUGGCAACUGAGAAUGGAAAUCUGCAUGAAAAUGCAAACAAAAGC
........(((....((((((............(((........))).............)))))).................(((((....))))))))...... (-12.18 = -12.96 +   0.78) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 1,544,191 – 1,544,290
Length 99
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 78.97
Mean single sequence MFE -22.74
Consensus MFE -12.13
Energy contribution -12.80
Covariance contribution 0.67
Combinations/Pair 1.16
Mean z-score -1.82
Structure conservation index 0.53
SVM decision value 0.01
SVM RNA-class probability 0.539053
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1544191 99 - 27905053
GCUUUUGUUCGCAUUUUCAUGCAGAUUUCCGUACUCCGUUGCCAUUUUACAA----UGUGGCAUG---GAACCUUUUCUGUAAUCAAUAGCUCCCAACCCGCUUUA
((..(((...((.......((((((.....((..(((((.(((((.......----.))))))))---))))....)))))).......))...)))...)).... ( -20.24)
>DroPse_CAF1 45380 91 - 1
GCUUUUGUCUGCAUUUUCAUGCAGAUUUCCAUUC-CAGUUGCCAUUU-----------UGGCGUG---GAACCUUUUUUGUAAUCAAUAGCACAGAACAUGGGUUA
......((((((((....)))))))).(((((.(-(((........)-----------))).)))---))((((.((((((..........))))))...)))).. ( -24.00)
>DroEre_CAF1 45103 97 - 1
ACUUUUGUUCGCAUUUUCAUGCAGAUUUCCGUUCUCCGUUGCCAUUUUACAA----UGUGGCAUG---GAACCUUUUCUGUAAUCAAUAGCCCCGAACUCGGCU--
...................((((((.....(((((....((((((.......----.)))))).)---))))....))))))......((((........))))-- ( -22.70)
>DroWil_CAF1 46505 102 - 1
GCUUUUGUCUGCAUUUUCAUGCAGAUUUUCAUUUUCAUUUGCCAGUUGCCAU----UUUAACGUGGAUGAACCUUUUUUGUAAUCAAUAGCCUGGGACAUGGAACA
......((((((((....))))))))((((((.((((((..(..((((....----..)))))..))))))(((...((((.....))))...)))..)))))).. ( -21.50)
>DroAna_CAF1 43583 103 - 1
GCUUUUGUUUGCAUUUUCAUGCAGAUUUUCAAUUUCAGUUGCCAUUUCCCGACUGAAGCGGCAUG---GAACCUUUUCUGUAAUCAAUAGCUCCGAACAUGGGUUA
(((.(((.(((((.((((((((.(.....)..(((((((((........)))))))))..)))))---))).......))))).))).)))(((......)))... ( -24.00)
>DroPer_CAF1 46904 91 - 1
GCUUUUGUCUGCAUUUUCAUGCAGAUUUCCAUUC-CAGUUGCCAUUU-----------UGGCGUG---GAACCUUUUUUGUAAUCAAUAGCACAGAACAUGGGUUA
......((((((((....)))))))).(((((.(-(((........)-----------))).)))---))((((.((((((..........))))))...)))).. ( -24.00)
>consensus
GCUUUUGUCUGCAUUUUCAUGCAGAUUUCCAUUCUCAGUUGCCAUUU__CAA____UGUGGCAUG___GAACCUUUUCUGUAAUCAAUAGCACCGAACAUGGGUUA
(((.((((((((((....)))))))..............((((((............)))))).....................))).)))............... (-12.13 = -12.80 +   0.67) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:41 2006