Locus 4148

Sequence ID 3L_DroMel_CAF1
Location 12,118,581 – 12,118,684
Length 103
Max. P 0.642135
window6443 window6444

overview

Window 3

Location 12,118,581 – 12,118,684
Length 103
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 77.27
Mean single sequence MFE -30.57
Consensus MFE -20.06
Energy contribution -19.45
Covariance contribution -0.61
Combinations/Pair 1.29
Mean z-score -1.13
Structure conservation index 0.66
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12118581 103 + 23771897
GGAUGCAGAGAAUGCUCCACUCGUUGCUGUGGUUCACGCACAGCUGCUGGAUCUCAUCCUGCGAUUUCUCCGUAAGGCGGGCGCUGCAAAAAUG------GAAGGUUA-----A
(((((.(((......((((...((.(((((((....).)))))).))))))))))))))...(((((.(((((...((((...))))....)))------))))))).-----. ( -29.80)
>DroPse_CAF1 1089 106 + 1
AAAUGCACAGAAUGCUCCAUACAUUGCUGUGGUUCACGCACAGCUGCUGAAUCUCCUCCUGCGAUUUGUCCGUAAGCCGGGCACUGCAAUUUA--------UAGAUUCAUAUUA
....(((...((((.......))))(((((((....).)))))))))(((((((.....((((...((((((.....)))))).)))).....--------.)))))))..... ( -27.70)
>DroEre_CAF1 1083 109 + 1
GGAUGCAGAGAAUGCUCCACUCGUUGCUGUGGUUCACGCACAGCUGCUGGAUCUCAUCCUGCGACUUGUCCGUAAGGCGGGCGCUGCAAAAACAAAAACGGAAGGUUA-----A
(((.(((.....))))))..((((((((((((....).))))))(((.((((...)))).(((.((((.((....))))))))).)))........))))).......-----. ( -35.30)
>DroMoj_CAF1 1085 96 + 1
GAAUACACAAAAUGCUCCACACGUUGCUAUGAUUCACGCACAGCUGCUGAAUCUCAUCCUGCGACUUGUCCGUCAAACGUGCGCUGUGGA-------------GAACA-----A
..............(((((((((((((...((((((.(((....))))))))).......)))))..(..((.....))..)).))))))-------------)....-----. ( -27.60)
>DroAna_CAF1 1084 101 + 1
AAAUGCACAGGAUGCUCCACACGUUGCUGUGGUUCACGCACAACUGCUGGAUCUCAUCCUGGGACUUGUCGGUCAGACGGGCCCUGCAGAAUUC--------AGGGAA-----A
...(((((((((((.((((((.((((.((((.....)))))))))).))))...)))))))((.((((((.....)))))).))))))......--------......-----. ( -37.50)
>DroPer_CAF1 1089 106 + 1
AAAUGCACAGAAUGCUCCAGACAUUGCUGUGGUUCACGCACAGCUGCUGAAUCUCCUCCUGCGAUUUGUCCGUAAGCCGGGCACUGCAAUUUA--------UAGAUUGAUAUUA
....(((.....)))..(((.((..(((((((....).)))))))))))(((((.....((((...((((((.....)))))).)))).....--------.)))))....... ( -25.50)
>consensus
AAAUGCACAGAAUGCUCCACACGUUGCUGUGGUUCACGCACAGCUGCUGAAUCUCAUCCUGCGACUUGUCCGUAAGACGGGCGCUGCAAAAUA_________AGAUUA_____A
...((((...............(((((...((((((.(((....))))))))).......))))).((((((.....)))))).)))).......................... (-20.06 = -19.45 +  -0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 12,118,581 – 12,118,684
Length 103
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 77.27
Mean single sequence MFE -31.20
Consensus MFE -22.44
Energy contribution -21.62
Covariance contribution -0.83
Combinations/Pair 1.33
Mean z-score -1.05
Structure conservation index 0.72
SVM decision value 0.23
SVM RNA-class probability 0.642135
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12118581 103 - 23771897
U-----UAACCUUC------CAUUUUUGCAGCGCCCGCCUUACGGAGAAAUCGCAGGAUGAGAUCCAGCAGCUGUGCGUGAACCACAGCAACGAGUGGAGCAUUCUCUGCAUCC
.-----......((------(((((.(((.(((((((.....))).)....))).((((...)))).)))((((((.(....)))))))...)))))))(((.....))).... ( -30.70)
>DroPse_CAF1 1089 106 - 1
UAAUAUGAAUCUA--------UAAAUUGCAGUGCCCGGCUUACGGACAAAUCGCAGGAGGAGAUUCAGCAGCUGUGCGUGAACCACAGCAAUGUAUGGAGCAUUCUGUGCAUUU
.....(((((((.--------....((((..((.(((.....))).))....))))....)))))))...((((((.(....)))))))(((((((((......))))))))). ( -35.70)
>DroEre_CAF1 1083 109 - 1
U-----UAACCUUCCGUUUUUGUUUUUGCAGCGCCCGCCUUACGGACAAGUCGCAGGAUGAGAUCCAGCAGCUGUGCGUGAACCACAGCAACGAGUGGAGCAUUCUCUGCAUCC
.-----........((((........(((.(((((((.....)))....).))).((((...)))).)))((((((.(....))))))))))).(..(((....)))..).... ( -29.70)
>DroMoj_CAF1 1085 96 - 1
U-----UGUUC-------------UCCACAGCGCACGUUUGACGGACAAGUCGCAGGAUGAGAUUCAGCAGCUGUGCGUGAAUCAUAGCAACGUGUGGAGCAUUUUGUGUAUUC
.-----(((((-------------..(((...((.((((((((......))))...)))).(((((((((....))).))))))...))...)))..)))))............ ( -26.00)
>DroAna_CAF1 1084 101 - 1
U-----UUCCCU--------GAAUUCUGCAGGGCCCGUCUGACCGACAAGUCCCAGGAUGAGAUCCAGCAGUUGUGCGUGAACCACAGCAACGUGUGGAGCAUCCUGUGCAUUU
.-----......--------......((((((((..(((.....)))..))))(((((((...((((.(((((((..(((...))).))))).)))))).)))))))))))... ( -35.20)
>DroPer_CAF1 1089 106 - 1
UAAUAUCAAUCUA--------UAAAUUGCAGUGCCCGGCUUACGGACAAAUCGCAGGAGGAGAUUCAGCAGCUGUGCGUGAACCACAGCAAUGUCUGGAGCAUUCUGUGCAUUU
.............--------.....(((..((.(((.....))).))....((((((.(...(((((((((((((.(....)))))))..)).))))).).)))))))))... ( -29.90)
>consensus
U_____UAACCU_________AAUUUUGCAGCGCCCGCCUUACGGACAAAUCGCAGGAUGAGAUCCAGCAGCUGUGCGUGAACCACAGCAACGUGUGGAGCAUUCUGUGCAUUC
..........................(((((((.(((.....)))......)))((((((...((((...((((((.(....)))))))......)))).)))))).))))... (-22.44 = -21.62 +  -0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:33 2006