Locus 5588

Sequence ID 3L_DroMel_CAF1
Location 15,323,123 – 15,323,216
Length 93
Max. P 0.815846
window8835 window8836

overview

Window 5

Location 15,323,123 – 15,323,216
Length 93
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 81.15
Mean single sequence MFE -32.97
Consensus MFE -13.11
Energy contribution -14.08
Covariance contribution 0.97
Combinations/Pair 1.15
Mean z-score -3.07
Structure conservation index 0.40
SVM decision value 0.22
SVM RNA-class probability 0.637778
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15323123 93 + 23771897
U-------UUCCGCUUCGUGUUUGUUGCCAUUGUCCUGGAAAGUUUAGCGGCUUUAGC-CGCCUUGAUAAAACGACAGCCGCAACAAAA--ACAAG------CUGGAGA
(-------((((((((.((.((((((((..(((((((....))....(((((....))-)))...........)))))..)))))))).--)))))------).))))) ( -35.10)
>DroPse_CAF1 56836 100 + 1
UCAGUUAAUUCUGGUUGCUUUUUGUAGUC----UAGUGGAAAGUUUGGCGACUUUGGCUCCCCUUGAUACCGCUAUGGCCACAGCCCAAGGACA--CAACAGCCCG---
............(((((....((((.(((----((((((((((((....))))))((....))......)))))..(((....)))...)))))--))))))))..--- ( -23.00)
>DroSec_CAF1 55150 93 + 1
U-------UUCCGCUUCGUGUUUGUUGCCAUUGUCCUGGAAAGUUUAGCGGCUUUAGC-CGCCUUGAUAAAACGACAGCCGCAACAAAA--ACAAG------CUGGGAA
.-------((((((((.((.((((((((..(((((((....))....(((((....))-)))...........)))))..)))))))).--)))))------).)))). ( -34.60)
>DroSim_CAF1 55743 92 + 1
U-------UUCCGCUUCGUGUUUGUUGCCAUUGUCCUGGAAAGUUUAGCGGCU-UAGC-CGCCUUGAUAAAACGACAGCCGCAACAAAA--ACAAG------CUGGGAA
.-------((((((((.((.((((((((..(((((((....))....(((((.-..))-)))...........)))))..)))))))).--)))))------).)))). ( -32.80)
>DroEre_CAF1 55485 93 + 1
U-------UUCCGCUUCGUGUUUGUUGCCGUUGUCCUGGAAAGUUUAGCGGCUUUAGC-CGCCUUGAUAAAACGACAGCCGCAACAAAA--ACAAG------CUGGAAA
.-------((((((((.((.((((((((.((((((((....))....(((((....))-)))...........)))))).)))))))).--)))))------).)))). ( -39.20)
>DroYak_CAF1 57062 93 + 1
U-------UUCCGCUUCGUGUUUGUUGCCGUUGUCCUGGAAAGUUUAGCGGCUUUAGC-CGGCUUGAUAAAACGACAGCCGCAACAAAA--ACAAG------CUGGCAA
.-------..((((((.((.((((((((.((((((((....))((.((((((....))-).))).))......)))))).)))))))).--)))))------).))... ( -33.10)
>consensus
U_______UUCCGCUUCGUGUUUGUUGCCAUUGUCCUGGAAAGUUUAGCGGCUUUAGC_CGCCUUGAUAAAACGACAGCCGCAACAAAA__ACAAG______CUGGAAA
.................((.((((((((..(((((............(((((....)).)))...........)))))..))))))))...))................ (-13.11 = -14.08 +   0.97)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,323,123 – 15,323,216
Length 93
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 81.15
Mean single sequence MFE -32.19
Consensus MFE -15.76
Energy contribution -16.77
Covariance contribution 1.00
Combinations/Pair 1.21
Mean z-score -2.91
Structure conservation index 0.49
SVM decision value 0.66
SVM RNA-class probability 0.815846
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15323123 93 - 23771897
UCUCCAG------CUUGU--UUUUGUUGCGGCUGUCGUUUUAUCAAGGCG-GCUAAAGCCGCUAAACUUUCCAGGACAAUGGCAACAAACACGAAGCGGAA-------A
..(((.(------(((((--.((((((((.(.((((.(........((((-((....)))))).........).)))).).)))))))).)).))))))).-------. ( -35.13)
>DroPse_CAF1 56836 100 - 1
---CGGGCUGUUG--UGUCCUUGGGCUGUGGCCAUAGCGGUAUCAAGGGGAGCCAAAGUCGCCAAACUUUCCACUA----GACUACAAAAAGCAACCAGAAUUAACUGA
---...(((.(((--((((..((((((((....)))))(((..(..((....))...)..))).......)))...----))).))))..)))...(((......))). ( -22.80)
>DroSec_CAF1 55150 93 - 1
UUCCCAG------CUUGU--UUUUGUUGCGGCUGUCGUUUUAUCAAGGCG-GCUAAAGCCGCUAAACUUUCCAGGACAAUGGCAACAAACACGAAGCGGAA-------A
((((..(------(((((--.((((((((.(.((((.(........((((-((....)))))).........).)))).).)))))))).)).))))))))-------. ( -34.53)
>DroSim_CAF1 55743 92 - 1
UUCCCAG------CUUGU--UUUUGUUGCGGCUGUCGUUUUAUCAAGGCG-GCUA-AGCCGCUAAACUUUCCAGGACAAUGGCAACAAACACGAAGCGGAA-------A
((((..(------(((((--.((((((((.(.((((.(........((((-((..-.)))))).........).)))).).)))))))).)).))))))))-------. ( -32.73)
>DroEre_CAF1 55485 93 - 1
UUUCCAG------CUUGU--UUUUGUUGCGGCUGUCGUUUUAUCAAGGCG-GCUAAAGCCGCUAAACUUUCCAGGACAACGGCAACAAACACGAAGCGGAA-------A
.((((.(------(((((--.((((((((.(.((((.(........((((-((....)))))).........).)))).).)))))))).)).))))))))-------. ( -37.13)
>DroYak_CAF1 57062 93 - 1
UUGCCAG------CUUGU--UUUUGUUGCGGCUGUCGUUUUAUCAAGCCG-GCUAAAGCCGCUAAACUUUCCAGGACAACGGCAACAAACACGAAGCGGAA-------A
...((.(------(((((--.((((((((.(.((((.........(((.(-((....))))))...((....)))))).).)))))))).)).))))))..-------. ( -30.80)
>consensus
UUCCCAG______CUUGU__UUUUGUUGCGGCUGUCGUUUUAUCAAGGCG_GCUAAAGCCGCUAAACUUUCCAGGACAAUGGCAACAAACACGAAGCGGAA_______A
..............((((...((((((((.(.(((((......)..((((.((....))))))...........)))).).)))))))).))))............... (-15.76 = -16.77 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:05 2006