Locus 6459

Sequence ID 3R_DroMel_CAF1
Location 16,949,772 – 16,949,867
Length 95
Max. P 0.803791
window10520 window10521

overview

Window 0

Location 16,949,772 – 16,949,867
Length 95
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 83.55
Mean single sequence MFE -29.25
Consensus MFE -19.00
Energy contribution -20.37
Covariance contribution 1.36
Combinations/Pair 1.11
Mean z-score -3.18
Structure conservation index 0.65
SVM decision value 0.63
SVM RNA-class probability 0.803791
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16949772 95 + 27905053
CGCACAGCUCUUGUUGAUUGUU-UGAGUCAUCGAUACGCUCACGUAUUGAUGCAUUGAUAAGCG--AACUGAUCGCUUAUUCACAUACUCAUACUCAU-
....((((....))))...((.-(((((((((((((((....))))))))))....((((((((--(.....))))))))).....))))).))....- ( -29.80)
>DroSec_CAF1 2964 97 + 1
CGCACAGCUCUUGUUGGCUGUU-UGAGUCAUCGAUACGCUCACGUAUUGAUGCAUUGAUAAGCGAGAAGUGAUCGCUUAUUCACAUACUCAUACUCAU-
.((.((((....)))))).((.-(((((((((((((((....))))))))))....(((((((((.......))))))))).....))))).))....- ( -33.10)
>DroSim_CAF1 3004 97 + 1
CGCACAGCUCUUGUUGGCUGUU-UGAGUCAUCGAUACGCUCACGUAUUGAUGCAUUGAUAAGCGAGAAGUGAUCGCUUAUUCACAUACUCAUACUCAU-
.((.((((....)))))).((.-(((((((((((((((....))))))))))....(((((((((.......))))))))).....))))).))....- ( -33.10)
>DroEre_CAF1 2960 94 + 1
CGCACAGCU-UUGUUGACUGUU-UGAGUCAUCGAUACGCUCACGUAUUGAUGCAUUGAUAAGCG--AAGUGAUCGCUUAUUCACUAAAGCCGACUUAU-
....(.(((-(((.(((.....-...(.((((((((((....)))))))))))....(((((((--(.....))))))))))).)))))).)......- ( -28.50)
>DroYak_CAF1 2954 95 + 1
CGCACAGCUCUUGUUGACUGUU-UGAGUCAUCGGUACGCUCACGUAUUGAUGCAUUGAUAAGCG--AAGUGAUCGCUUAUUCACUGAAGCCGACUCAU-
...((((.((.....)))))).-(((((((((((((((....))))))))).((.(((((((((--(.....))))))).))).)).....)))))).- ( -31.80)
>DroAna_CAF1 2356 83 + 1
CGCACGGCUCUUGUUUACCAUUCUGAGUCAUCAGUA--------------UGCAUUGAUAAGCG--ACCUGAUGGCUGAUUCACAUAAUCCCAGUCAGC
.((..(((.((((((...(((.((((....)))).)--------------))....)))))).)--.))...((((((.............)))))))) ( -19.22)
>consensus
CGCACAGCUCUUGUUGACUGUU_UGAGUCAUCGAUACGCUCACGUAUUGAUGCAUUGAUAAGCG__AAGUGAUCGCUUAUUCACAUAAUCAUACUCAU_
....((((....)))).......(((((((((((((((....))))))))))....((((((((.........))))))))...........))))).. (-19.00 = -20.37 +   1.36)

alignment

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secondary structure

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dotplot

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Window 1

Location 16,949,772 – 16,949,867
Length 95
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 83.55
Mean single sequence MFE -27.90
Consensus MFE -18.84
Energy contribution -20.12
Covariance contribution 1.28
Combinations/Pair 1.11
Mean z-score -2.51
Structure conservation index 0.68
SVM decision value 0.33
SVM RNA-class probability 0.691526
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16949772 95 - 27905053
-AUGAGUAUGAGUAUGUGAAUAAGCGAUCAGUU--CGCUUAUCAAUGCAUCAAUACGUGAGCGUAUCGAUGACUCA-AACAAUCAACAAGAGCUGUGCG
-....((.(((((...(((.(((((((.....)--)))))))))...((((.(((((....))))).)))))))))-.))................... ( -26.90)
>DroSec_CAF1 2964 97 - 1
-AUGAGUAUGAGUAUGUGAAUAAGCGAUCACUUCUCGCUUAUCAAUGCAUCAAUACGUGAGCGUAUCGAUGACUCA-AACAGCCAACAAGAGCUGUGCG
-.(((((....((((.(((.(((((((.......))))))))))))))(((.(((((....))))).))).)))))-.(((((........)))))... ( -29.90)
>DroSim_CAF1 3004 97 - 1
-AUGAGUAUGAGUAUGUGAAUAAGCGAUCACUUCUCGCUUAUCAAUGCAUCAAUACGUGAGCGUAUCGAUGACUCA-AACAGCCAACAAGAGCUGUGCG
-.(((((....((((.(((.(((((((.......))))))))))))))(((.(((((....))))).))).)))))-.(((((........)))))... ( -29.90)
>DroEre_CAF1 2960 94 - 1
-AUAAGUCGGCUUUAGUGAAUAAGCGAUCACUU--CGCUUAUCAAUGCAUCAAUACGUGAGCGUAUCGAUGACUCA-AACAGUCAACAA-AGCUGUGCG
-....(((((((((..(((((((((((.....)--))))))).....((((.(((((....))))).)))).....-.....)))..))-))))).)). ( -30.20)
>DroYak_CAF1 2954 95 - 1
-AUGAGUCGGCUUCAGUGAAUAAGCGAUCACUU--CGCUUAUCAAUGCAUCAAUACGUGAGCGUACCGAUGACUCA-AACAGUCAACAAGAGCUGUGCG
-.((((((.((.....(((.(((((((.....)--)))))))))..))(((..((((....))))..)))))))))-.(((((........)))))... ( -29.60)
>DroAna_CAF1 2356 83 - 1
GCUGACUGGGAUUAUGUGAAUCAGCCAUCAGGU--CGCUUAUCAAUGCA--------------UACUGAUGACUCAGAAUGGUAAACAAGAGCCGUGCG
((...(((((.....((......))((((((..--.((........)).--------------..)))))).))))).(((((........))))))). ( -20.90)
>consensus
_AUGAGUAGGAGUAUGUGAAUAAGCGAUCACUU__CGCUUAUCAAUGCAUCAAUACGUGAGCGUAUCGAUGACUCA_AACAGUCAACAAGAGCUGUGCG
..(((((.........(((.((((((.........)))))))))...((((.(((((....))))).)))))))))..(((((........)))))... (-18.84 = -20.12 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:00 2006