Locus 1450

Sequence ID X_DroMel_CAF1
Location 4,372,064 – 4,372,222
Length 158
Max. P 0.999228
window2311 window2312 window2313 window2314 window2315 window2316

overview

Window 1

Location 4,372,064 – 4,372,164
Length 100
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 80.66
Mean single sequence MFE -35.68
Consensus MFE -28.49
Energy contribution -28.48
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.51
Structure conservation index 0.80
SVM decision value 2.29
SVM RNA-class probability 0.991894
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4372064 100 + 22224390
GGC---CUAAGGACUGAGAAGGGGUGGUCCUUAGCCACCCCAGACACAGGGCGUGUAUAUAUAUAUACGUAACGUACAGCGUACAGCGUUUACAGCCCUAUGU-------
...---..............((((((((.....))))))))..(((.(((((((((((....)))))).....(((.((((.....))))))).))))).)))------- ( -37.00)
>DroSec_CAF1 157416 89 + 1
GGC---CUGUGGACUGAGAAGGGGUGGUCCUUAGCCACCCCAGACACAGGGCGUGUAUAU----AUACGUAUCG-------UACAGCGUUUACAGCCCUAUGU-------
((.---((((((((......((((((((.....))))))))....((...((((((....----))))))...)-------).....)))))))).)).....------- ( -34.40)
>DroSim_CAF1 144928 89 + 1
GGC---CUGUGGACUGAGAAGGGGUGGUCCUUAGCCACCCCAGACACAGGGCGUGUAUAU----AUACGUAUCG-------UACAGCGUUUACAGCCCUAUGU-------
((.---((((((((......((((((((.....))))))))....((...((((((....----))))))...)-------).....)))))))).)).....------- ( -34.40)
>DroEre_CAF1 168115 95 + 1
-ACGGGGGGCGGACUGCGAAGGGGUGGUCUUUAGCCACCCCAGACACAGGGCGUGUAUAUACAUA-------CG-------UACAGCGUUUACAGCCCUAUGUGAAGAGG
-(((.(((((.((.(((...((((((((.....)))))))).......(..(((((......)))-------))-------..).))).))...))))).)))....... ( -36.90)
>consensus
GGC___CUGUGGACUGAGAAGGGGUGGUCCUUAGCCACCCCAGACACAGGGCGUGUAUAU____AUACGUAUCG_______UACAGCGUUUACAGCCCUAUGU_______
....................((((((((.....))))))))..(((.(((((.((((.................................))))))))).)))....... (-28.49 = -28.48 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 4,372,064 – 4,372,164
Length 100
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 80.66
Mean single sequence MFE -34.98
Consensus MFE -29.36
Energy contribution -29.36
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.19
Structure conservation index 0.84
SVM decision value 3.45
SVM RNA-class probability 0.999228
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4372064 100 - 22224390
-------ACAUAGGGCUGUAAACGCUGUACGCUGUACGUUACGUAUAUAUAUAUACACGCCCUGUGUCUGGGGUGGCUAAGGACCACCCCUUCUCAGUCCUUAG---GCC
-------(((((((((((((...((.....))((((((...))))))......)))).)))))))))..((((((((....).)))))))......(((....)---)). ( -36.70)
>DroSec_CAF1 157416 89 - 1
-------ACAUAGGGCUGUAAACGCUGUA-------CGAUACGUAU----AUAUACACGCCCUGUGUCUGGGGUGGCUAAGGACCACCCCUUCUCAGUCCACAG---GCC
-------(((((((((((((.....((((-------((...)))))----)..)))).)))))))))..((((((((....).)))))))......(((....)---)). ( -34.70)
>DroSim_CAF1 144928 89 - 1
-------ACAUAGGGCUGUAAACGCUGUA-------CGAUACGUAU----AUAUACACGCCCUGUGUCUGGGGUGGCUAAGGACCACCCCUUCUCAGUCCACAG---GCC
-------(((((((((((((.....((((-------((...)))))----)..)))).)))))))))..((((((((....).)))))))......(((....)---)). ( -34.70)
>DroEre_CAF1 168115 95 - 1
CCUCUUCACAUAGGGCUGUAAACGCUGUA-------CG-------UAUGUAUAUACACGCCCUGUGUCUGGGGUGGCUAAAGACCACCCCUUCGCAGUCCGCCCCCCGU-
.......(((((((((((((.....((((-------(.-------...))))))))).)))))))))..((((((((....).)))))))...((.....)).......- ( -33.80)
>consensus
_______ACAUAGGGCUGUAAACGCUGUA_______CGAUACGUAU____AUAUACACGCCCUGUGUCUGGGGUGGCUAAGGACCACCCCUUCUCAGUCCACAG___GCC
.......(((((((((((((.................................)))).)))))))))..((((((((....).))))))).................... (-29.36 = -29.36 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 4,372,100 – 4,372,199
Length 99
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 81.79
Mean single sequence MFE -28.18
Consensus MFE -20.49
Energy contribution -20.11
Covariance contribution -0.38
Combinations/Pair 1.10
Mean z-score -2.33
Structure conservation index 0.73
SVM decision value 1.59
SVM RNA-class probability 0.966114
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4372100 99 + 22224390
CCAGACACAGGGCGUGUAUAUAUAUAUACGUAACGUACAGCGUACAGCGUUUACAGCCCUAUGU-------GUGCCGAGGGUUGCUAUAUAAGCCCAUGCACACAC-
........(((((((((((....)))))).....(((.((((.....))))))).))))).(((-------((((...(((((........)))))..))))))).- ( -36.10)
>DroSec_CAF1 157452 88 + 1
CCAGACACAGGGCGUGUAUAU----AUACGUAUCG-------UACAGCGUUUACAGCCCUAUGU-------GUGCAGAGGGUUGCUAUAUAAGCCCAUAUACACAU-
.((.(((.(((((.((((...----..((((....-------....)))).))))))))).)))-------.))....(((((........)))))..........- ( -27.20)
>DroSim_CAF1 144964 88 + 1
CCAGACACAGGGCGUGUAUAU----AUACGUAUCG-------UACAGCGUUUACAGCCCUAUGU-------GUGCAGAGGGUUGCUAUAUAAGCCCAUAUACACAU-
.((.(((.(((((.((((...----..((((....-------....)))).))))))))).)))-------.))....(((((........)))))..........- ( -27.20)
>DroEre_CAF1 168153 93 + 1
CCAGACACAGGGCGUGUAUAUACAUA-------CG-------UACAGCGUUUACAGCCCUAUGUGAAGAGGGUGCAGAGGGUUGCUAUAUAAACCUACACACACACA
....(((.(((((.((((.......(-------((-------.....))).))))))))).))).......(((..(.(((((........))))).).)))..... ( -22.20)
>consensus
CCAGACACAGGGCGUGUAUAU____AUACGUAUCG_______UACAGCGUUUACAGCCCUAUGU_______GUGCAGAGGGUUGCUAUAUAAGCCCAUACACACAC_
....(((.(((((.((((.................................))))))))).))).......(((....(((((........))))).....)))... (-20.49 = -20.11 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 4,372,100 – 4,372,199
Length 99
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 81.79
Mean single sequence MFE -29.18
Consensus MFE -19.74
Energy contribution -20.11
Covariance contribution 0.37
Combinations/Pair 1.05
Mean z-score -2.32
Structure conservation index 0.68
SVM decision value 1.36
SVM RNA-class probability 0.945941
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4372100 99 - 22224390
-GUGUGUGCAUGGGCUUAUAUAGCAACCCUCGGCAC-------ACAUAGGGCUGUAAACGCUGUACGCUGUACGUUACGUAUAUAUAUAUACACGCCCUGUGUCUGG
-..((((((..(((............)))...))))-------))(((((((((((...((.....))((((((...))))))......)))).)))))))...... ( -32.60)
>DroSec_CAF1 157452 88 - 1
-AUGUGUAUAUGGGCUUAUAUAGCAACCCUCUGCAC-------ACAUAGGGCUGUAAACGCUGUA-------CGAUACGUAU----AUAUACACGCCCUGUGUCUGG
-..(((((...(((............)))..)))))-------(((((((((((((.....((((-------((...)))))----)..)))).))))))))).... ( -28.30)
>DroSim_CAF1 144964 88 - 1
-AUGUGUAUAUGGGCUUAUAUAGCAACCCUCUGCAC-------ACAUAGGGCUGUAAACGCUGUA-------CGAUACGUAU----AUAUACACGCCCUGUGUCUGG
-..(((((...(((............)))..)))))-------(((((((((((((.....((((-------((...)))))----)..)))).))))))))).... ( -28.30)
>DroEre_CAF1 168153 93 - 1
UGUGUGUGUGUAGGUUUAUAUAGCAACCCUCUGCACCCUCUUCACAUAGGGCUGUAAACGCUGUA-------CG-------UAUGUAUAUACACGCCCUGUGUCUGG
.(((((((((((.((...((((((.......((((((((........)))).))))...))))))-------..-------.)).)))))))))))........... ( -27.50)
>consensus
_AUGUGUAUAUGGGCUUAUAUAGCAACCCUCUGCAC_______ACAUAGGGCUGUAAACGCUGUA_______CGAUACGUAU____AUAUACACGCCCUGUGUCUGG
...(((((...(((............)))..))))).......(((((((((((((.................................)))).))))))))).... (-19.74 = -20.11 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 4,372,131 – 4,372,222
Length 91
Sequences 3
Columns 91
Reading direction forward
Mean pairwise identity 87.22
Mean single sequence MFE -24.81
Consensus MFE -21.27
Energy contribution -20.50
Covariance contribution -0.77
Combinations/Pair 1.18
Mean z-score -2.50
Structure conservation index 0.86
SVM decision value 1.17
SVM RNA-class probability 0.925448
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4372131 91 + 22224390
AACGUACAGCGUACAGCGUUUACAGCCCUAUGUGUGCCGAGGGUUGCUAUAUAAGCCCAUGCACACACACACAUAUAUACAUAGGUGUGUA
...(((.((((.....)))))))........((((((...(((((........)))))..))))))((((((.(((....))).)))))). ( -28.90)
>DroSec_CAF1 157479 84 + 1
AUCG-------UACAGCGUUUACAGCCCUAUGUGUGCAGAGGGUUGCUAUAUAAGCCCAUAUACACAUAUACAUACAUAUAUGGGUGUGUA
....-------...........(((((((.((....)).)))))))...((((.(((((((((..............))))))))).)))) ( -22.84)
>DroSim_CAF1 144991 84 + 1
AUCG-------UACAGCGUUUACAGCCCUAUGUGUGCAGAGGGUUGCUAUAUAAGCCCAUAUACACAUAUACACACAUAUAUAGGUGUGUA
....-------....((.......))..((((((((....(((((........)))))...))))))))(((((((........))))))) ( -22.70)
>consensus
AUCG_______UACAGCGUUUACAGCCCUAUGUGUGCAGAGGGUUGCUAUAUAAGCCCAUAUACACAUAUACAUACAUAUAUAGGUGUGUA
....................((((..((((((((((....(((((........)))))(((......))).....))))))))))..)))) (-21.27 = -20.50 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 4,372,131 – 4,372,222
Length 91
Sequences 3
Columns 91
Reading direction reverse
Mean pairwise identity 87.22
Mean single sequence MFE -24.37
Consensus MFE -21.84
Energy contribution -20.63
Covariance contribution -1.21
Combinations/Pair 1.23
Mean z-score -2.30
Structure conservation index 0.90
SVM decision value 1.27
SVM RNA-class probability 0.938512
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4372131 91 - 22224390
UACACACCUAUGUAUAUAUGUGUGUGUGUGCAUGGGCUUAUAUAGCAACCCUCGGCACACAUAGGGCUGUAAACGCUGUACGCUGUACGUU
(((((.(((((((((((((....)))))))))))))....((((((......((((.(......))))).....)))))).).)))).... ( -26.20)
>DroSec_CAF1 157479 84 - 1
UACACACCCAUAUAUGUAUGUAUAUGUGUAUAUGGGCUUAUAUAGCAACCCUCUGCACACAUAGGGCUGUAAACGCUGUA-------CGAU
......((((((((..(((....)))..)))))))).(..((((((..((((.((....)).))))..(....)))))))-------..). ( -23.80)
>DroSim_CAF1 144991 84 - 1
UACACACCUAUAUAUGUGUGUAUAUGUGUAUAUGGGCUUAUAUAGCAACCCUCUGCACACAUAGGGCUGUAAACGCUGUA-------CGAU
.(((((........)))))(((((.((((.((((((((.....)))..((((.((....)).))))))))).))))))))-------)... ( -23.10)
>consensus
UACACACCUAUAUAUGUAUGUAUAUGUGUAUAUGGGCUUAUAUAGCAACCCUCUGCACACAUAGGGCUGUAAACGCUGUA_______CGAU
......(((((((((((((....)))))))))))))....((((((..((((.((....)).))))..(....)))))))........... (-21.84 = -20.63 +  -1.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:45 2006