Locus 1091

Sequence ID X_DroMel_CAF1
Location 3,209,989 – 3,210,144
Length 155
Max. P 0.976168
window1767 window1768 window1769

overview

Window 7

Location 3,209,989 – 3,210,104
Length 115
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 65.27
Mean single sequence MFE -22.46
Consensus MFE -11.91
Energy contribution -13.60
Covariance contribution 1.69
Combinations/Pair 1.24
Mean z-score -1.91
Structure conservation index 0.53
SVM decision value 1.76
SVM RNA-class probability 0.976168
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3209989 115 + 22224390
AAAUGUAUGCGAAGUGUUAGUCUGGUU-UUAUUUU---UUUUUGUUUUUUGCAUACCUUUUUGUUUAUUGUGUUUGAGAGCAAACACAAGCGUUAGCAAAUAAAAACGUAAAAAUAGCG
....((((((((((.............-.......---........)))))))))).(((((((((.(((((((((....)))))))))((....)))))))))))............. ( -23.99)
>DroSec_CAF1 19373 92 + 1
--------GCGAAGUGUU--------------UUU---UUGUUUUUUUUUUCAUACCUUUUUGUUUAUUGUGUUUGAGAGCAAACACAAGCGUCAGCAAAUA--AACGUAAAAAUAGCG
--------((....((((--------------(((---.(((((.(((...................(((((((((....)))))))))((....))))).)--)))).))))))))). ( -17.90)
>DroEre_CAF1 21227 107 + 1
AAAUGUAUGCAAAGUGUUUGUUUUUUUU----------UUUUCUUUUUUUGCAUGCCUAUUUGUUUAUUGUGUUUGAGAGCAAACACAAGCGUCAGCAAAUA--AACGUAAAAAUAGCG
....((((((((((..............----------........))))))))))((((((((((((((((((((....)))))))..((....)).))))--)))....)))))).. ( -24.95)
>DroAna_CAF1 32330 99 + 1
AAAUGUAUGCAGAGUAUUUUUUUUUUGCAUACUUCUUAUAGUG--UUUUUUCUCAUUUGUUUGUUUAGUUUGUUUGAGAGCAAACAUUA----CGACAAAAA--AAA------------
....((((((((((........))))))))))...(..(((((--(((.((((((...................)))))).))))))))----..)......--...------------ ( -23.01)
>consensus
AAAUGUAUGCAAAGUGUUUGUUUUUUU_____UUU___UUGUUUUUUUUUGCAUACCUUUUUGUUUAUUGUGUUUGAGAGCAAACACAAGCGUCAGCAAAUA__AACGUAAAAAUAGCG
....((((((((((................................))))))))))...((((((..(((((((((....))))))))).....))))))................... (-11.91 = -13.60 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 3,209,989 – 3,210,104
Length 115
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 65.27
Mean single sequence MFE -16.69
Consensus MFE -6.28
Energy contribution -7.03
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.24
Structure conservation index 0.38
SVM decision value 0.05
SVM RNA-class probability 0.561102
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3209989 115 - 22224390
CGCUAUUUUUACGUUUUUAUUUGCUAACGCUUGUGUUUGCUCUCAAACACAAUAAACAAAAAGGUAUGCAAAAAACAAAAA---AAAAUAA-AACCAGACUAACACUUCGCAUACAUUU
............((((......((....))(((((((((....))))))))).))))......((((((............---.......-.................)))))).... ( -17.52)
>DroSec_CAF1 19373 92 - 1
CGCUAUUUUUACGUU--UAUUUGCUGACGCUUGUGUUUGCUCUCAAACACAAUAAACAAAAAGGUAUGAAAAAAAAAACAA---AAA--------------AACACUUCGC--------
...(((((((..(((--((((.((....))..(((((((....))))))))))))))..)))))))...............---...--------------..........-------- ( -13.40)
>DroEre_CAF1 21227 107 - 1
CGCUAUUUUUACGUU--UAUUUGCUGACGCUUGUGUUUGCUCUCAAACACAAUAAACAAAUAGGCAUGCAAAAAAAGAAAA----------AAAAAAAACAAACACUUUGCAUACAUUU
............(((--((((((.......(((((((((....)))))))))....)))))))))(((((((.........----------...............)))))))...... ( -19.46)
>DroAna_CAF1 32330 99 - 1
------------UUU--UUUUUGUCG----UAAUGUUUGCUCUCAAACAAACUAAACAAACAAAUGAGAAAAAA--CACUAUAAGAAGUAUGCAAAAAAAAAAUACUCUGCAUACAUUU
------------..(--(((((.(((----(..((((((.................)))))).)))).))))))--...........(((((((..............))))))).... ( -16.37)
>consensus
CGCUAUUUUUACGUU__UAUUUGCUGACGCUUGUGUUUGCUCUCAAACACAAUAAACAAAAAGGUAUGAAAAAAAAAAAAA___AAA_____AAAAAAACAAACACUUCGCAUACAUUU
..............................(((((((((....)))))))))................................................................... ( -6.28 =  -7.03 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 3,210,024 – 3,210,144
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.72
Mean single sequence MFE -24.20
Consensus MFE -18.09
Energy contribution -18.40
Covariance contribution 0.31
Combinations/Pair 1.04
Mean z-score -2.38
Structure conservation index 0.75
SVM decision value 0.35
SVM RNA-class probability 0.700879
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3210024 120 - 22224390
ACUAAUUAUGAAGCAAUUCCAUUGCAAUGCCAGCGAUCUUCGCUAUUUUUACGUUUUUAUUUGCUAACGCUUGUGUUUGCUCUCAAACACAAUAAACAAAAAGGUAUGCAAAAAACAAAA
.........(((....)))..(((((.((((((((.....))))........((((......((....))(((((((((....))))))))).)))).....)))))))))......... ( -28.60)
>DroSec_CAF1 19387 118 - 1
ACUAAUUAUGAAGCAAUUCCAUUGCAAUCCCCGCGAUCUUCGCUAUUUUUACGUU--UAUUUGCUGACGCUUGUGUUUGCUCUCAAACACAAUAAACAAAAAGGUAUGAAAAAAAAAACA
.....(((((..(((((...))))).....(((((.....))).........(((--((((.((....))..(((((((....)))))))))))))).....)))))))........... ( -21.40)
>DroEre_CAF1 21256 118 - 1
ACUAAUUAUCAAGCAAUUUCAUUGCAGUCCCAGUGAUCUUCGCUAUUUUUACGUU--UAUUUGCUGACGCUUGUGUUUGCUCUCAAACACAAUAAACAAAUAGGCAUGCAAAAAAAGAAA
.....................(((((.....((((.....))))........(((--((((((.......(((((((((....)))))))))....))))))))).)))))......... ( -23.50)
>DroYak_CAF1 24135 118 - 1
ACUAAUUAUGAAGCAAUUCCAUUGCAAUCCCAGCGGUCUUCGCUAUUUUUACGUU--UAUUUGCCGACGCUUGUGUUUGCUCUCAAACACAAUAAACAAAAAGGCAUGCAAAAAAAAAAA
.........(((....)))..(((((...((((((.....))))........(((--((((.((....))..(((((((....)))))))))))))).....))..)))))......... ( -23.30)
>consensus
ACUAAUUAUGAAGCAAUUCCAUUGCAAUCCCAGCGAUCUUCGCUAUUUUUACGUU__UAUUUGCUGACGCUUGUGUUUGCUCUCAAACACAAUAAACAAAAAGGCAUGCAAAAAAAAAAA
.....................(((((...((((((.....))))........(((.......((....))(((((((((....)))))))))..))).....))..)))))......... (-18.09 = -18.40 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:20 2006