Locus 3615

Sequence ID 3L_DroMel_CAF1
Location 10,649,447 – 10,649,579
Length 132
Max. P 0.998431
window5634 window5635

overview

Window 4

Location 10,649,447 – 10,649,539
Length 92
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 72.94
Mean single sequence MFE -20.06
Consensus MFE -8.16
Energy contribution -8.24
Covariance contribution 0.08
Combinations/Pair 1.36
Mean z-score -2.68
Structure conservation index 0.41
SVM decision value 3.10
SVM RNA-class probability 0.998431
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10649447 92 - 23771897
UAAACAAUACAUAGCGUACAC-----------------CGCAAGUACGU----GUAUUGAAAUUAAUCACUAACAAUUUUCAGU-------ACUAUUAGAACUGUGGUGCUAAUUGAUAA
....((((((...((((((..-----------------.....))))))----))))))..............(((((...(((-------(((((.......))))))))))))).... ( -21.30)
>DroSec_CAF1 11820 92 - 1
UAAACAAUACAUAAUGUACAA-----------------CGCAAGUACGU----GCAUUGAAAUUAAUCACUAACAAUUUUCAUU-------ACUAUUAGAACUGUGCUGCUAAUUGAUAA
...........((((((((.(-----------------(....))..))----))))))..............(((((..((.(-------((..........))).))..))))).... ( -14.80)
>DroSim_CAF1 11175 99 - 1
UAAACAAUACAUAAUGUACAA-----------------CGCAAGUACGU----GCAUUGAAAUUAAUCACUAACAAUUUUCAGUUUUCAGUUUCAUUAGAACUGUGCUGCUAAUUGAUAA
...........((((((((.(-----------------(....))..))----))))))..............(((((..((((...((((((.....)))))).))))..))))).... ( -23.60)
>DroEre_CAF1 12240 109 - 1
UAAACAAUACAUAAUGUACAUACAGUACAGACACACACAUGUAGUGCGU----GUUUUGCAAUUAAUCACUAAACAUUUUUACU-------ACUAUCAAUGCUAUAGUGCUAAUUGAUAA
..............(((((.....)))))(((((.(((.....))).))----)))...((((((..(((((..((((..((..-------..))..))))...))))).)))))).... ( -20.20)
>DroYak_CAF1 12114 108 - 1
UAAACAAUACCUAAUGUACAUAU-----GUAUACAUACGUCAAGUGCAUAUCUGUAUUGCAUUUAAUCACUAAACAUUUUCAGU-------ACUAUUAGUGCAAUAGUGCUAAUUGAUAA
....((((((...((((((..((-----(((....)))))...))))))....))))))......................(((-------((((((.....)))))))))......... ( -20.40)
>consensus
UAAACAAUACAUAAUGUACAA_________________CGCAAGUACGU____GUAUUGAAAUUAAUCACUAACAAUUUUCAGU_______ACUAUUAGAACUGUGGUGCUAAUUGAUAA
....((((((...((((((........................))))))....))))))....................(((((.......(((((.......)))))....)))))... ( -8.16 =  -8.24 +   0.08)

alignment

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secondary structure

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dotplot

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Window 5

Location 10,649,480 – 10,649,579
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 81.44
Mean single sequence MFE -19.76
Consensus MFE -14.90
Energy contribution -14.54
Covariance contribution -0.36
Combinations/Pair 1.21
Mean z-score -1.77
Structure conservation index 0.75
SVM decision value 0.57
SVM RNA-class probability 0.784330
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10649480 99 - 23771897
UUUGCAAACUGUUUACAGCAGCGCUUUAUCUAUCGUAAAGUAAACAAUACAUAGCGUACAC-----------------CGCAAGUACGU----GUAUUGAAAUUAAUCACUAACAAUUUU
...((...(((....)))..))(((((((.....)))))))...((((((...((((((..-----------------.....))))))----))))))..................... ( -19.10)
>DroSec_CAF1 11853 99 - 1
UUUGCAAACUGUUUACAGCAGCGCUUUAUCUUUCGUAAGGUAAACAAUACAUAAUGUACAA-----------------CGCAAGUACGU----GCAUUGAAAUUAAUCACUAACAAUUUU
...((...((((.....)))).))((((((((....)))))))).......((((((((.(-----------------(....))..))----))))))..................... ( -18.10)
>DroSim_CAF1 11215 99 - 1
UUUGCAAACUGUUUACAGCAGCGCUUUAUCUUUCGUAAGGUAAACAAUACAUAAUGUACAA-----------------CGCAAGUACGU----GCAUUGAAAUUAAUCACUAACAAUUUU
...((...((((.....)))).))((((((((....)))))))).......((((((((.(-----------------(....))..))----))))))..................... ( -18.10)
>DroEre_CAF1 12273 116 - 1
UUUGCAAACUGUUUACAGCAGCGCUUUAUCUUUCGUAAAGUAAACAAUACAUAAUGUACAUACAGUACAGACACACACAUGUAGUGCGU----GUUUUGCAAUUAAUCACUAAACAUUUU
.((((((.((((.....)))).(((((((.....))))))).............(((((.....)))))(((((.(((.....))).))----))))))))).................. ( -24.10)
>DroYak_CAF1 12147 115 - 1
UUUGCAAACUGUUUACAGCAGCGCUUUAUCUUUCGUAAAGUAAACAAUACCUAAUGUACAUAU-----GUAUACAUACGUCAAGUGCAUAUCUGUAUUGCAUUUAAUCACUAAACAUUUU
...((...(((....)))..))(((((((.....)))))))...((((((...((((((..((-----(((....)))))...))))))....))))))..................... ( -19.40)
>consensus
UUUGCAAACUGUUUACAGCAGCGCUUUAUCUUUCGUAAAGUAAACAAUACAUAAUGUACAA_________________CGCAAGUACGU____GUAUUGAAAUUAAUCACUAACAAUUUU
...((...(((....)))..))(((((((.....)))))))...((((((...((((((........................))))))....))))))..................... (-14.90 = -14.54 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:18 2006