Locus 907

Sequence ID X_DroMel_CAF1
Location 2,526,571 – 2,526,703
Length 132
Max. P 0.720662
window1481 window1482

overview

Window 1

Location 2,526,571 – 2,526,672
Length 101
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 74.85
Mean single sequence MFE -18.20
Consensus MFE -12.10
Energy contribution -12.10
Covariance contribution -0.00
Combinations/Pair 1.07
Mean z-score -1.60
Structure conservation index 0.66
SVM decision value 0.40
SVM RNA-class probability 0.720662
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2526571 101 - 22224390
AUAACACA--UAAAAUGCUAAGCGAAAGCUCAGUUUAGCUAAAAAUAAAUACUUAGUACGGUUUUAACCAUCAACAAAAUUGGCUC------AAAACUCAUCAU---------UUAUA
........--..(((((...(((....))).(((((((((((.......(((...))).(((....)))..........)))))).------.)))))...)))---------))... ( -14.40)
>DroSec_CAF1 1843 101 - 1
----GUCA--AAAAGUGCUAAGCUAAAGCUCAGUUCAGCUGAAAAUAAAUACUUAGUACGGUU-UAACCAUCAACAUAAUUGGCUU------AAAACUCAGCACAGCUG----UUAUU
----((((--(...((((((((.......((((.....)))).........))))))))((..-...))..........)))))..------......((((...))))----..... ( -20.89)
>DroEre_CAF1 2227 100 - 1
----G------UAAAUGCUAAGCGCAAGCUCAGAUCAGCUGAAAAUAAAUACUUAGUACGGUU-UAACCAUCAAUA-AAUUAGCUC------AAAACUAAGCGCAACUCUUAUUUAUA
----(------((((((((.(((....))).))....((....................((..-...)).......-.....(((.------.......)))))......))))))). ( -15.00)
>DroYak_CAF1 2251 112 - 1
----GACGAUAGAAAUGCUAAGCGAAAGCUCAGAUCAGCUGAAAAUAAAUACUUAGUACGGUU-UAACCAUCAAGA-AAUUAGCUCCAAAACAAAGCUAAACGCAGGCGUCAGUUGUA
----((((...((..((((((((....))((((.....))))..........)))))).((..-...)).))....-..((((((.........)))))).......))))....... ( -22.50)
>consensus
____GACA__AAAAAUGCUAAGCGAAAGCUCAGAUCAGCUGAAAAUAAAUACUUAGUACGGUU_UAACCAUCAACA_AAUUAGCUC______AAAACUAAGCACAGCUG____UUAUA
................(((((((....))((((.....)))).................(((....)))..........))))).................................. (-12.10 = -12.10 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 2,526,596 – 2,526,703
Length 107
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 81.24
Mean single sequence MFE -18.31
Consensus MFE -12.18
Energy contribution -12.43
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.56
Structure conservation index 0.66
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2526596 107 - 22224390
CAGUUCGGUAAUCGCUUAACUCAUAAACUCAAUAACACA--UAAAAUGCUAAGCGAAAGCUCAGUUUAGCUAAAAAUAAAUACUUAGUACGGUUUUAACCAUCAACAAA
......((((((((.........................--......(((.(((....))).)))...(((((..........))))).)))))...)))......... ( -14.90)
>DroSec_CAF1 1873 101 - 1
CAAUUCGGUAAUCGCUUUACUCAUAAAACG-----GUCA--AAAAGUGCUAAGCUAAAGCUCAGUUCAGCUGAAAAUAAAUACUUAGUACGGUU-UAACCAUCAACAUA
......(((((.....)))))........(-----((.(--((..((((((((.......((((.....)))).........))))))))..))-).)))......... ( -20.29)
>DroEre_CAF1 2261 96 - 1
CAAUUCGGUAUUUGUGCAACUCAUAAAGCU-----G------UAAAUGCUAAGCGCAAGCUCAGAUCAGCUGAAAAUAAAUACUUAGUACGGUU-UAACCAUCAAUA-A
..(((.(((((((((...........((((-----(------......((.(((....))).))..)))))....))))))))).)))..((..-...)).......-. ( -20.86)
>DroYak_CAF1 2291 102 - 1
CAAUUCGGUAAUUGCUCAACUCAUAAGGCU-----GACGAUAGAAAUGCUAAGCGAAAGCUCAGAUCAGCUGAAAAUAAAUACUUAGUACGGUU-UAACCAUCAAGA-A
......(((.((((.(((.((.....)).)-----)))))).....((((((((....))((((.....))))..........)))))).....-..))).......-. ( -17.20)
>consensus
CAAUUCGGUAAUCGCUCAACUCAUAAAGCU_____GACA__AAAAAUGCUAAGCGAAAGCUCAGAUCAGCUGAAAAUAAAUACUUAGUACGGUU_UAACCAUCAACA_A
......(((.....................................((((((((....))((((.....))))..........)))))).(((....))))))...... (-12.18 = -12.43 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:57 2006