Locus 793

Sequence ID 3L_DroMel_CAF1
Location 2,368,069 – 2,368,223
Length 154
Max. P 0.999917
window1218 window1219 window1220 window1221

overview

Window 8

Location 2,368,069 – 2,368,159
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 90.31
Mean single sequence MFE -21.58
Consensus MFE -19.36
Energy contribution -19.72
Covariance contribution 0.36
Combinations/Pair 1.12
Mean z-score -1.48
Structure conservation index 0.90
SVM decision value 0.91
SVM RNA-class probability 0.880611
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2368069 90 + 23771897
CUGAUGGGCUCCAAAAACGCCUCAAAGACAUAUCUUUGAGCUGCCUCAGACGAAACAAAAUUUCACACCAAUGUGGCAGAAAGUAUCUGC
((((.((((.........))((((((((....))))))))...))))))..............((((....))))(((((.....))))) ( -20.50)
>DroSec_CAF1 116752 90 + 1
CUGUUGGGCUCCAAAAACGCCUCAAAGAGAUAUCUUUGAGCGGCCUCAGACGAAACGAAAUUUCACACCAAUGUGGCAGAAAGUAUCUGC
(((..((((........(((.(((((((....)))))))))))))))))..............((((....))))(((((.....))))) ( -23.50)
>DroSim_CAF1 117812 90 + 1
CUGUUGGGCUCCAAAAACGCCUCAAAGAGAUAUCUUUGAGCGGCCUCAGACGAAACGAAAUUUCACACCAAUGUGGCAGAAAGUAUCUGC
(((..((((........(((.(((((((....)))))))))))))))))..............((((....))))(((((.....))))) ( -23.50)
>DroEre_CAF1 124063 83 + 1
CUAAUGGGCUCCAAAAAUGCCUCAAAGAGAUAUCUUUGAGCGGCCUCAGACAAAAUU--AUUUCACACCAAUGUGGCAGAA-----UUGG
....((((((........((.(((((((....))))))))))))).)).........--........(((((........)-----)))) ( -17.50)
>DroYak_CAF1 121207 88 + 1
CUGAUGGGCUCCAAAAACGCCUCAAAGAGAUAUCUUUGAGCGGCUUCAGACAUAACG--AUUUCACACCAAUGUGGCAGAAAGUAUCUGC
(((((((...)))....(((.(((((((....))))))))))...))))........--....((((....))))(((((.....))))) ( -22.90)
>consensus
CUGAUGGGCUCCAAAAACGCCUCAAAGAGAUAUCUUUGAGCGGCCUCAGACGAAACGAAAUUUCACACCAAUGUGGCAGAAAGUAUCUGC
(((..((((........(((.(((((((....)))))))))))))))))..............((((....))))(((((.....))))) (-19.36 = -19.72 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 2,368,069 – 2,368,159
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 90.31
Mean single sequence MFE -25.52
Consensus MFE -21.86
Energy contribution -22.50
Covariance contribution 0.64
Combinations/Pair 1.10
Mean z-score -1.67
Structure conservation index 0.86
SVM decision value 1.12
SVM RNA-class probability 0.918375
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2368069 90 - 23771897
GCAGAUACUUUCUGCCACAUUGGUGUGAAAUUUUGUUUCGUCUGAGGCAGCUCAAAGAUAUGUCUUUGAGGCGUUUUUGGAGCCCAUCAG
(((((.....)))))((((....)))).......((((((...((.((..((((((((....)))))))))).))..))))))....... ( -25.70)
>DroSec_CAF1 116752 90 - 1
GCAGAUACUUUCUGCCACAUUGGUGUGAAAUUUCGUUUCGUCUGAGGCCGCUCAAAGAUAUCUCUUUGAGGCGUUUUUGGAGCCCAACAG
(((((.....)))))....((((.(((((((...))))).((..((..((((((((((....))))))).)))..))..))))))))... ( -28.00)
>DroSim_CAF1 117812 90 - 1
GCAGAUACUUUCUGCCACAUUGGUGUGAAAUUUCGUUUCGUCUGAGGCCGCUCAAAGAUAUCUCUUUGAGGCGUUUUUGGAGCCCAACAG
(((((.....)))))....((((.(((((((...))))).((..((..((((((((((....))))))).)))..))..))))))))... ( -28.00)
>DroEre_CAF1 124063 83 - 1
CCAA-----UUCUGCCACAUUGGUGUGAAAU--AAUUUUGUCUGAGGCCGCUCAAAGAUAUCUCUUUGAGGCAUUUUUGGAGCCCAUUAG
((((-----...((((.....(((.(.(.((--(....))).).).)))..(((((((....)))))))))))...)))).......... ( -20.40)
>DroYak_CAF1 121207 88 - 1
GCAGAUACUUUCUGCCACAUUGGUGUGAAAU--CGUUAUGUCUGAAGCCGCUCAAAGAUAUCUCUUUGAGGCGUUUUUGGAGCCCAUCAG
(((((.....)))))((((....))))....--.......((..(((.((((((((((....))))))).))).)))..))......... ( -25.50)
>consensus
GCAGAUACUUUCUGCCACAUUGGUGUGAAAUUUCGUUUCGUCUGAGGCCGCUCAAAGAUAUCUCUUUGAGGCGUUUUUGGAGCCCAUCAG
(((((.....))))).....(((.(((((((...))))).((..(((.((((((((((....))))))).))).)))..))))))).... (-21.86 = -22.50 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 2,368,133 – 2,368,223
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 94.00
Mean single sequence MFE -28.54
Consensus MFE -26.76
Energy contribution -27.00
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -1.93
Structure conservation index 0.94
SVM decision value 3.05
SVM RNA-class probability 0.998279
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2368133 90 + 23771897
ACACCAAUGUGGCAGAAAGUAUCUGCUGAAUUGGUGGAUGCCCGCGACUACCUGACAGUGUCCCAUCCAUCAAUCGGUGGAAAAAGAUUG
.((((.....((((((.....))))))((.((((((((((..(((............)))...))))))))))))))))........... ( -29.40)
>DroSec_CAF1 116816 90 + 1
ACACCAAUGUGGCAGAAAGUAUCUGCUGGAUUGGUGGCUGCCCCCGACUACCUGACAGUGUCCCAUCCAUCAAUCGGUGGAAAAAGAUUG
.(((((((.(((((((.....))))))).))))))).........(((.((......)))))...((((((....))))))......... ( -29.40)
>DroSim_CAF1 117876 90 + 1
ACACCAAUGUGGCAGAAAGUAUCUGCUGGAUUGGUGGCUGCCCCCGACUACCUGACAGUGUCCCAUCCAUCAAUCGGUGGAAAAAGAUUG
.(((((((.(((((((.....))))))).))))))).........(((.((......)))))...((((((....))))))......... ( -29.40)
>DroEre_CAF1 124125 85 + 1
ACACCAAUGUGGCAGAA-----UUGGUGGAUUGGUGGAUACCCCCGACUACCUGACAGUGUCCCAUCCAUCAAUCGGUGGAAAGAGAUUG
.(((((((........)-----))))))..((((.((....))))))........((((.((...((((((....))))))..)).)))) ( -25.30)
>DroYak_CAF1 121269 90 + 1
ACACCAAUGUGGCAGAAAGUAUCUGCUGGAUUGGUGAAUGCCCCCGACUACCUGACAGUGUCCCAUCCAUCAAUCGGUGGAAAAAGAUUG
.(((((((.(((((((.....))))))).))))))).........(((.((......)))))...((((((....))))))......... ( -29.20)
>consensus
ACACCAAUGUGGCAGAAAGUAUCUGCUGGAUUGGUGGAUGCCCCCGACUACCUGACAGUGUCCCAUCCAUCAAUCGGUGGAAAAAGAUUG
.(((((((.(((((((.....))))))).))))))).........(((.((......)))))...((((((....))))))......... (-26.76 = -27.00 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 2,368,133 – 2,368,223
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 94.00
Mean single sequence MFE -30.54
Consensus MFE -28.78
Energy contribution -29.58
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.52
Structure conservation index 0.94
SVM decision value 4.54
SVM RNA-class probability 0.999917
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2368133 90 - 23771897
CAAUCUUUUUCCACCGAUUGAUGGAUGGGACACUGUCAGGUAGUCGCGGGCAUCCACCAAUUCAGCAGAUACUUUCUGCCACAUUGGUGU
..........((..((((((...(((((....)))))...))))))..))....(((((((...(((((.....)))))...))))))). ( -29.50)
>DroSec_CAF1 116816 90 - 1
CAAUCUUUUUCCACCGAUUGAUGGAUGGGACACUGUCAGGUAGUCGGGGGCAGCCACCAAUCCAGCAGAUACUUUCUGCCACAUUGGUGU
.........(((.(((((((...(((((....)))))...))))))))))....(((((((...(((((.....)))))...))))))). ( -32.90)
>DroSim_CAF1 117876 90 - 1
CAAUCUUUUUCCACCGAUUGAUGGAUGGGACACUGUCAGGUAGUCGGGGGCAGCCACCAAUCCAGCAGAUACUUUCUGCCACAUUGGUGU
.........(((.(((((((...(((((....)))))...))))))))))....(((((((...(((((.....)))))...))))))). ( -32.90)
>DroEre_CAF1 124125 85 - 1
CAAUCUCUUUCCACCGAUUGAUGGAUGGGACACUGUCAGGUAGUCGGGGGUAUCCACCAAUCCACCAA-----UUCUGCCACAUUGGUGU
.........(((.(((((((...(((((....)))))...))))))))))............((((((-----(........))))))). ( -24.70)
>DroYak_CAF1 121269 90 - 1
CAAUCUUUUUCCACCGAUUGAUGGAUGGGACACUGUCAGGUAGUCGGGGGCAUUCACCAAUCCAGCAGAUACUUUCUGCCACAUUGGUGU
.........(((.(((((((...(((((....)))))...))))))))))....(((((((...(((((.....)))))...))))))). ( -32.70)
>consensus
CAAUCUUUUUCCACCGAUUGAUGGAUGGGACACUGUCAGGUAGUCGGGGGCAUCCACCAAUCCAGCAGAUACUUUCUGCCACAUUGGUGU
.........(((.(((((((...(((((....)))))...))))))))))....(((((((...(((((.....)))))...))))))). (-28.78 = -29.58 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:20 2006