Locus 8317

Sequence ID 3R_DroMel_CAF1
Location 22,212,134 – 22,212,229
Length 95
Max. P 0.944826
window13408 window13409

overview

Window 8

Location 22,212,134 – 22,212,229
Length 95
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 77.78
Mean single sequence MFE -23.41
Consensus MFE -10.14
Energy contribution -11.26
Covariance contribution 1.11
Combinations/Pair 1.25
Mean z-score -2.44
Structure conservation index 0.43
SVM decision value 0.70
SVM RNA-class probability 0.826496
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22212134 95 + 27905053
AGAACAAUUUUUGCCAGCAUGCAGCGAAAACAUU------UUCCUUUGCCAUUUUCUGGAAUUUUAAAUACCUUUC----CUGGCUGGCAAUGCUGUUGAAAAUU
....((((..((((((((..((((.((((....)------)))..))))........((((............)))----)..))))))))....))))...... ( -22.40)
>DroPse_CAF1 74401 104 + 1
-GAACAUUUUUUUUGAGCAUGCAGCGAAAACAUUUGCUUUUUCUUUUGCAAUUUAUUAGAAUUUUAAAUAUGUUCGUUCUCUCGCCGAAAAUGUUGAUGAAAAUU
-.(((((((((..((((...(.((((((...(((((....((((..((.....))..))))...)))))...))))))).))))..))))))))).......... ( -18.10)
>DroSec_CAF1 47543 95 + 1
AGAACAAUUUUUGCCAGCAUGCAGCGAAAAUAUU------UUCCUUUGCCAUUUUCUGGAAUUUUAAAUACCUUCG----CUGGCUGGCAAUGCUGUUGAAAGUU
....((((..((((((((...(((((((..((((------(.......(((.....)))......)))))..))))----)))))))))))....))))...... ( -30.12)
>DroYak_CAF1 53859 95 + 1
ACAACAAUUUUGGCCAGCAUGCAGCGAAAACAUU------UUCCUUUGCCAUUUUCUGGAAUUUUAAAUACCUUCG----CUGGCUGGCAAUGUUGUUGAAAAUU
.(((((((....((((((...(((((((...(((------(.......(((.....)))......))))...))))----)))))))))...)))))))...... ( -31.42)
>DroAna_CAF1 80534 85 + 1
-GAACAAUUUUUACCAGCAUGCAC---------U------GGCCUUAGCCAUUUAUUAGAAUUUUAAAUAUGUUCG----CUGGCUGGGAAUGUUUAUGAAAAUU
-(((((.(((((((((((......---------(------(((....)))).......((((.........)))))----)))).)))))))))))......... ( -20.30)
>DroPer_CAF1 67294 104 + 1
-GAACAUUUUUUUUGAGCAUGCAGCGAAAACAUUUGCUUUUUCUUUUGCAAUUUAUUAGAAUUUUAAAUAUGUUCGUUCUCUCGCCGAAAAUGUUGAUGAAAAUU
-.(((((((((..((((...(.((((((...(((((....((((..((.....))..))))...)))))...))))))).))))..))))))))).......... ( -18.10)
>consensus
_GAACAAUUUUUGCCAGCAUGCAGCGAAAACAUU______UUCCUUUGCCAUUUACUAGAAUUUUAAAUACCUUCG____CUGGCUGGCAAUGUUGAUGAAAAUU
....((((..((((((((......((((............((((.............))))...........)))).......))))))))....))))...... (-10.14 = -11.26 +   1.11)

alignment

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secondary structure

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dotplot

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Window 9

Location 22,212,134 – 22,212,229
Length 95
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 77.78
Mean single sequence MFE -22.01
Consensus MFE -10.94
Energy contribution -11.64
Covariance contribution 0.70
Combinations/Pair 1.29
Mean z-score -2.55
Structure conservation index 0.50
SVM decision value 1.35
SVM RNA-class probability 0.944826
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22212134 95 - 27905053
AAUUUUCAACAGCAUUGCCAGCCAG----GAAAGGUAUUUAAAAUUCCAGAAAAUGGCAAAGGAA------AAUGUUUUCGCUGCAUGCUGGCAAAAAUUGUUCU
.......(((((..((((((((..(----(((............))))........(((..((((------.....))))..)))..))))))))...))))).. ( -22.30)
>DroPse_CAF1 74401 104 - 1
AAUUUUCAUCAACAUUUUCGGCGAGAGAACGAACAUAUUUAAAAUUCUAAUAAAUUGCAAAAGAAAAAGCAAAUGUUUUCGCUGCAUGCUCAAAAAAAAUGUUC-
..........(((((((((((((((((...(((...........))).......((((..........))))...)))))))))...........)))))))).- ( -13.80)
>DroSec_CAF1 47543 95 - 1
AACUUUCAACAGCAUUGCCAGCCAG----CGAAGGUAUUUAAAAUUCCAGAAAAUGGCAAAGGAA------AAUAUUUUCGCUGCAUGCUGGCAAAAAUUGUUCU
.......(((((..(((((((((((----(((((((((((......(((.....))).......)------)))))))))))))...))))))))...))))).. ( -33.02)
>DroYak_CAF1 53859 95 - 1
AAUUUUCAACAACAUUGCCAGCCAG----CGAAGGUAUUUAAAAUUCCAGAAAAUGGCAAAGGAA------AAUGUUUUCGCUGCAUGCUGGCCAAAAUUGUUGU
......((((((..(((((((((((----((((..(((((......(((.....))).......)------))))..)))))))...))))).)))..)))))). ( -31.92)
>DroAna_CAF1 80534 85 - 1
AAUUUUCAUAAACAUUCCCAGCCAG----CGAACAUAUUUAAAAUUCUAAUAAAUGGCUAAGGCC------A---------GUGCAUGCUGGUAAAAAUUGUUC-
..........((((......(((((----((..(((..(((......)))....((((....)))------)---------)))..)))))))......)))).- ( -17.20)
>DroPer_CAF1 67294 104 - 1
AAUUUUCAUCAACAUUUUCGGCGAGAGAACGAACAUAUUUAAAAUUCUAAUAAAUUGCAAAAGAAAAAGCAAAUGUUUUCGCUGCAUGCUCAAAAAAAAUGUUC-
..........(((((((((((((((((...(((...........))).......((((..........))))...)))))))))...........)))))))).- ( -13.80)
>consensus
AAUUUUCAACAACAUUGCCAGCCAG____CGAACAUAUUUAAAAUUCCAAAAAAUGGCAAAGGAA______AAUGUUUUCGCUGCAUGCUGGCAAAAAUUGUUC_
..........((((((((((((.......((((..((((.....((((.............))))......))))..))))......))))))))....)))).. (-10.94 = -11.64 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:41 2006