Locus 6599

Sequence ID 3R_DroMel_CAF1
Location 17,364,756 – 17,364,855
Length 99
Max. P 0.778068
window10745

overview

Window 5

Location 17,364,756 – 17,364,855
Length 99
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 79.78
Mean single sequence MFE -18.69
Consensus MFE -13.18
Energy contribution -13.29
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -1.54
Structure conservation index 0.70
SVM decision value 0.55
SVM RNA-class probability 0.778068
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17364756 99 - 27905053
CAGACUUGUUGAAAUAAA-AAAUUCCAGGGGAAAAGGUUAAAAACAUCAAGACUAAAAGGCGCAGGCAUUAUGAUGGGUCUUGAGUUUUAAUUGAGUGUG
((.((((...........-...((((...))))..((((((((...((((((((.....((....)).........)))))))).)))))))))))).)) ( -21.04)
>DroVir_CAF1 26299 94 - 1
CCAUG-CGGCAGCUGGGAAAAAAA----AAGAAAAGGUUAA-AACAUCAAGACUAAAAGGCGCAUGCAUUAUGAAGGGUCUUGAGUUUUAAUUGAGUGUG
(((.(-(....)))))........----.......((((((-(((.((((((((.....((....)).........)))))))))))))))))....... ( -22.54)
>DroPse_CAF1 19259 97 - 1
AAAAA-AACCAAAAAACG-AAAAAAGUGUCGAAAAGGUUGU-AACAUCAAGACUAAAAGGCGCAGGCAUUAUGAUGGGUCUUGAGUUUUAAUUGAGUGUG
.....-..........((-(........)))....(((((.-(((.((((((((.....((....)).........))))))))))).)))))....... ( -15.34)
>DroGri_CAF1 19164 93 - 1
CCAAG-CGGCAACACACA-AAAAA----ACGAAAAGGUUAA-AACAUCAAGACUAAAAGGCGCAUGCAUUAUGAAGGGUCUUGAGUUUUAAUUGAGUGUG
.....-......(((((.-.....----.(.....)(((((-(((.((((((((.....((....)).........))))))))))))))))...))))) ( -21.34)
>DroMoj_CAF1 20855 89 - 1
CCAAA-CAGCAGCU-----AAAAA----AGGGAAAGGUUAA-AACAUCAAGACUAAAAGGCGCAUGCAUUAUGAAGGGUCUUGAGUUUUAAUUGAGUGUG
.....-..(((.((-----.....----.......((((((-(((.((((((((.....((....)).........))))))))))))))))).))))). ( -17.66)
>DroPer_CAF1 11806 90 - 1
AAAAA-AACCAAA--------AAAAGUGUCGAAAAGGUUGU-AACAUCAAGACUAAAAGGCGCAGGCAUUAUGAUGGGUCUUGAGUUUUAAUUGAGUGUG
.....-.......--------..............(((((.-(((.((((((((.....((....)).........))))))))))).)))))....... ( -14.24)
>consensus
CAAAA_CAGCAAAA_A_A_AAAAA____ACGAAAAGGUUAA_AACAUCAAGACUAAAAGGCGCAGGCAUUAUGAAGGGUCUUGAGUUUUAAUUGAGUGUG
...................................((((((.(((.((((((((.....((....)).........)))))))))))))))))....... (-13.18 = -13.29 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:33 2006