Locus 5326

Sequence ID 2L_DroMel_CAF1
Location 15,067,832 – 15,067,951
Length 119
Max. P 0.811185
window8461 window8462

overview

Window 1

Location 15,067,832 – 15,067,951
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.78
Mean single sequence MFE -36.40
Consensus MFE -19.68
Energy contribution -20.52
Covariance contribution 0.84
Combinations/Pair 1.30
Mean z-score -2.28
Structure conservation index 0.54
SVM decision value 0.35
SVM RNA-class probability 0.699621
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15067832 119 + 22407834
AGU-CCCAGGUUGAUAUGCACAAUGCACCAUUCAUCCGAAAUCGCAAGGAUGCGUUGAUGGCAUAUCGCUUUUUACUCGAGCUUAAGACUGCAAAUAUUAUAAGUCUUAGCUCGGAUGGU
.((-((.((((.(((((((.(((((((...(((....))).((....)).)))))))...))))))))))).......(((((.((((((............)))))))))))))))... ( -39.00)
>DroGri_CAF1 11989 119 + 1
AGCCAACA-GUAGACAUGCGUUCCAAUGACUUUAUCAAGACUCGCAUGGAGGCGGCAAUUGCAUUUCGAGUGCUGCUCGAUUUGAAGGCGGCCAACAUUGUUAGUCUUAGCGCUGAUGCU
.......(-(((..((.(((((.....((.....))((((((.(((((..(((.((.....((..(((((.....)))))..))...)).)))..)).))).))))))))))))).)))) ( -37.30)
>DroSec_CAF1 12569 119 + 1
AGU-CCCAGGUUGAUAUGCACAAUGCACCAUUCAUUCGCAAUCGCAAAGAUGCGUUGAUGGCAUAUCGCUUUUUACUUGAGCUUAAGACUGCAAAUAUAAUAAGUCUUAGCUCGGAUGGU
.((-((.((((.(((((((.(((((((....((.((.((....)).)))))))))))...))))))))))).......(((((.((((((............)))))))))))))))... ( -36.70)
>DroSim_CAF1 9686 119 + 1
AGU-CCCAGGUUGAUAUGCACAAUGCACCAUUCAUUCGCAAUCGCAAGGAUGCGUUGAUGGCAUAUCGCUUUUUACUUGAGCUUAAGACUGCAAAUAUUAUAAGUCUUAGCUCGGAUGGU
.((-((.((((.(((((((.(((((((((..................)).)))))))...))))))))))).......(((((.((((((............)))))))))))))))... ( -37.57)
>DroEre_CAF1 12486 119 + 1
AGU-CCCAGGUUGAUAUGCACAAUGCACCCUUCAUCCGGAACCGCCAAGAUGCGGUGAUGGCAUAUCGCUUUAUACUUGAGCUUAAGACUGCAAAUGUUAUAAGUCUUAGCCCGGACGGU
.((-((..(((.(((((((.((...((((...((((.((.....))..)))).)))).)))))))))((((.......)))).(((((((............)))))))))).))))... ( -37.30)
>DroYak_CAF1 12120 119 + 1
AGU-GCCAGGUGGACAUGCACAAUGCACCUUUUAUCCGUAAUCGCAAAGAUGCGAUAAUGGCAUAUCGCUUUUUACUUGAGCUCAAGACUGCAAAUAUUAUAAGUCUUAGUCCGGACGGU
...-(((...(((((.(((.....))).....(((((((.((((((....)))))).)))).)))..((((.......))))..((((((............)))))).)))))...))) ( -30.50)
>consensus
AGU_CCCAGGUUGAUAUGCACAAUGCACCAUUCAUCCGCAAUCGCAAAGAUGCGUUGAUGGCAUAUCGCUUUUUACUUGAGCUUAAGACUGCAAAUAUUAUAAGUCUUAGCUCGGAUGGU
.....((.(((.(((((((.(((((((.......................)))))))...)))))))((((.......)))).(((((((............)))))))))).))..... (-19.68 = -20.52 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 15,067,832 – 15,067,951
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.78
Mean single sequence MFE -34.38
Consensus MFE -21.95
Energy contribution -22.84
Covariance contribution 0.89
Combinations/Pair 1.28
Mean z-score -2.07
Structure conservation index 0.64
SVM decision value 0.65
SVM RNA-class probability 0.811185
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15067832 119 - 22407834
ACCAUCCGAGCUAAGACUUAUAAUAUUUGCAGUCUUAAGCUCGAGUAAAAAGCGAUAUGCCAUCAACGCAUCCUUGCGAUUUCGGAUGAAUGGUGCAUUGUGCAUAUCAACCUGGG-ACU
.(((..((((((((((((((.......)).)))))).))))))..........((((((((((((...(((((..........)))))..)))))......)))))))....))).-... ( -35.50)
>DroGri_CAF1 11989 119 - 1
AGCAUCAGCGCUAAGACUAACAAUGUUGGCCGCCUUCAAAUCGAGCAGCACUCGAAAUGCAAUUGCCGCCUCCAUGCGAGUCUUGAUAAAGUCAUUGGAACGCAUGUCUAC-UGUUGGCU
(((......))).((.((((((.....(((.((...((..(((((.....)))))..)).....)).)))..((((((..((.((((...))))..))..)))))).....-)))))))) ( -29.40)
>DroSec_CAF1 12569 119 - 1
ACCAUCCGAGCUAAGACUUAUUAUAUUUGCAGUCUUAAGCUCAAGUAAAAAGCGAUAUGCCAUCAACGCAUCUUUGCGAUUGCGAAUGAAUGGUGCAUUGUGCAUAUCAACCUGGG-ACU
....((((((((((((((((.......)).)))))).)))))...........(((((((...(((.((((((((((....))))).....))))).))).)))))))......))-).. ( -35.70)
>DroSim_CAF1 9686 119 - 1
ACCAUCCGAGCUAAGACUUAUAAUAUUUGCAGUCUUAAGCUCAAGUAAAAAGCGAUAUGCCAUCAACGCAUCCUUGCGAUUGCGAAUGAAUGGUGCAUUGUGCAUAUCAACCUGGG-ACU
....((((((((((((((((.......)).)))))).)))))...........(((((((...(((.(((((.((((....))))......))))).))).)))))))......))-).. ( -33.90)
>DroEre_CAF1 12486 119 - 1
ACCGUCCGGGCUAAGACUUAUAACAUUUGCAGUCUUAAGCUCAAGUAUAAAGCGAUAUGCCAUCACCGCAUCUUGGCGGUUCCGGAUGAAGGGUGCAUUGUGCAUAUCAACCUGGG-ACU
...(((((((((((((((((.......)).)))))).)))))...........(((((((((.((((.(((((.((.....)))))))...))))...)).)))))))......))-)). ( -40.30)
>DroYak_CAF1 12120 119 - 1
ACCGUCCGGACUAAGACUUAUAAUAUUUGCAGUCUUGAGCUCAAGUAAAAAGCGAUAUGCCAUUAUCGCAUCUUUGCGAUUACGGAUAAAAGGUGCAUUGUGCAUGUCCACCUGGC-ACU
...(((((((((((((((((.......)).)))))).)).))..(((((..((((((......))))))...))))).....)))))....(((((...(((......)))...))-))) ( -31.50)
>consensus
ACCAUCCGAGCUAAGACUUAUAAUAUUUGCAGUCUUAAGCUCAAGUAAAAAGCGAUAUGCCAUCAACGCAUCCUUGCGAUUCCGGAUGAAUGGUGCAUUGUGCAUAUCAACCUGGG_ACU
.(((...(((((((((((............)))))).)))))...........(((((((...(((.(((((...................))))).))).)))))))....)))..... (-21.95 = -22.84 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:27 2006