Locus 546

Sequence ID 3R_DroMel_CAF1
Location 2,042,456 – 2,042,608
Length 152
Max. P 0.996324
window869 window870 window871

overview

Window 9

Location 2,042,456 – 2,042,571
Length 115
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 78.89
Mean single sequence MFE -28.91
Consensus MFE -16.05
Energy contribution -16.86
Covariance contribution 0.81
Combinations/Pair 1.17
Mean z-score -1.74
Structure conservation index 0.56
SVM decision value 0.08
SVM RNA-class probability 0.572735
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2042456 115 - 27905053
UUUGUUUGCUGUUUAAACAAUUGUUACUCACCCGUUUUCUGUGACCUUGAAUCGGUCGCCAAGGUCGAUACGGGUGUUCAGGUACAGAUGGUUCAUCACAAUAGACAUCUUGACC
..((((((.(((...(((..((((.((((((((((......((((((((..........))))))))..)))))))....)))))))...)))....))).))))))........ ( -30.80)
>DroPse_CAF1 163287 103 - 1
---------C---CACCCAACACCCACUUACCAGUUCUCCGUGACCUUUACUCGGUCGCCCAAGUCCAAGCGAGUGUUCAGGUACAGGUGAUUCAUAACAAUGGACAUCUUGAUC
---------.---.(((.(((((.(.(((....(..((..((((((.......))))))...))..)))).).)))))..)))..(((((.(((((....))))))))))..... ( -22.80)
>DroSec_CAF1 185642 115 - 1
GUUAUGUGCUGUUUAAACAAUUGUUACUCACCCGUUUUCUGUGACCUUGACUCUGUCGCCAAGGUCAAUACGGGUGUUCAGGUACAGAUGGUUCAUUACAAUAGACAUCUUGACC
((((((((((.....(((....)))...(((((((......((((((((.(......).))))))))..)))))))....))))))((((...............)))).)))). ( -32.66)
>DroSim_CAF1 190546 115 - 1
GUUAUGUGAUGUUUAAACAAUUGUUACUCACCCGUUUUCUGUGACCUUGACUCUGUCGCCAAGGUCAAUACGGGUGUUCAGGUACAGAUGGUUCAUUACAAUAGACAUCUUGACC
((((...((((((((..((.((((.((((((((((......((((((((.(......).))))))))..)))))))....))))))).))((.....))..)))))))).)))). ( -36.50)
>DroEre_CAF1 185573 111 - 1
-UUAC---AUGGUCAAACCUUUGCUACUCACCCGUUUUCUGUGACCUUCACUCGGUCGCCAAGGUCAAUUCGGGUGUUCAAGUACAGAUGGUUCAUUACAAUAGACAUCUUGAUC
-....---..(((((((((((((.((((((((((...(((((((((.......))))))..)))......))))))....)))))))).)))).........((....))))))) ( -27.90)
>DroPer_CAF1 164898 103 - 1
---------C---CACCCAACACCCACUUACCAGUUCUCCGUGACCUUUACUCGGUCGCCCAAGUCCAAGCGAGUGUUCAGGUACAGGUGAUUCAUAACAAUGGACAUCUUGAUC
---------.---.(((.(((((.(.(((....(..((..((((((.......))))))...))..)))).).)))))..)))..(((((.(((((....))))))))))..... ( -22.80)
>consensus
_UUAU____UGUUCAAACAAUUGCUACUCACCCGUUUUCUGUGACCUUGACUCGGUCGCCAAGGUCAAUACGGGUGUUCAGGUACAGAUGGUUCAUUACAAUAGACAUCUUGACC
............................(((((((...((((((((.......))))))...)).....)))))))....(((..(((((...............)))))..))) (-16.05 = -16.86 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 2,042,496 – 2,042,608
Length 112
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 74.16
Mean single sequence MFE -23.20
Consensus MFE -16.50
Energy contribution -18.10
Covariance contribution 1.60
Combinations/Pair 1.00
Mean z-score -2.31
Structure conservation index 0.71
SVM decision value 2.68
SVM RNA-class probability 0.996324
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2042496 112 + 27905053
ACCCGUAUCGACCUUGGCGACCGAUUCAAGGUCACAGAAAACGGGUGAGUAACAAUUGUUUAAACAGCAAACAAAUAAUUGAGAAAAUAUUAAAACAAAAUCGGAAAAUA--U-U
((((((.((((((((((........))))))))...))..))))))......(((((((((...........))))))))).............................--.-. ( -22.50)
>DroSec_CAF1 185682 112 + 1
ACCCGUAUUGACCUUGGCGACAGAGUCAAGGUCACAGAAAACGGGUGAGUAACAAUUGUUUAAACAGCACAUAACUAAUUGCGAAAAUAUGAAAACUAAAUCAGAAAAUA--U-U
((((((..((((((((((......))))))))))......))))))......((((((((............))).))))).............................--.-. ( -25.20)
>DroSim_CAF1 190586 112 + 1
ACCCGUAUUGACCUUGGCGACAGAGUCAAGGUCACAGAAAACGGGUGAGUAACAAUUGUUUAAACAUCACAUAACUAAUUGCGAAAAUAUGAAAACUAAAUCAGAAAAUA--U-U
((((((..((((((((((......))))))))))......))))))......((((((((............))).))))).............................--.-. ( -25.20)
>DroEre_CAF1 185613 102 + 1
ACCCGAAUUGACCUUGGCGACCGAGUGAAGGUCACAGAAAACGGGUGAGUAGCAAAGGUUUGACCAU---GUAA-AAACUGUUAAGUUAUGA------AAUUA-AAAAUA--UUU
(((((...(((((((.((......)).))))))).......)))))..(((((...(((((......---....-))))).....)))))..------.....-......--... ( -23.30)
>DroAna_CAF1 163503 98 + 1
ACACGGCUUGACCUCGGCGACCGUGUCAAGGUCACGGAGAACUGGUAAGUAAAAACUGAACCAAUAUGUCAUAA-----------------AAAACUAAAACAUAAAAUAUAUUU
........(((((((.(.((((.......)))).).)))...((((.(((....)))..))))....))))...-----------------........................ ( -19.80)
>consensus
ACCCGUAUUGACCUUGGCGACCGAGUCAAGGUCACAGAAAACGGGUGAGUAACAAUUGUUUAAACAUCACAUAA_UAAUUGCGAAAAUAUGAAAACUAAAUCAGAAAAUA__U_U
((((((..((((((((((......))))))))))......))))))..................................................................... (-16.50 = -18.10 +   1.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 2,042,496 – 2,042,608
Length 112
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 74.16
Mean single sequence MFE -22.12
Consensus MFE -15.04
Energy contribution -15.92
Covariance contribution 0.88
Combinations/Pair 1.13
Mean z-score -1.52
Structure conservation index 0.68
SVM decision value 0.73
SVM RNA-class probability 0.834683
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2042496 112 - 27905053
A-A--UAUUUUCCGAUUUUGUUUUAAUAUUUUCUCAAUUAUUUGUUUGCUGUUUAAACAAUUGUUACUCACCCGUUUUCUGUGACCUUGAAUCGGUCGCCAAGGUCGAUACGGGU
.-.--........(((.((((((.((((......(((....))).....)))).))))))..)))....((((((......((((((((..........))))))))..)))))) ( -23.10)
>DroSec_CAF1 185682 112 - 1
A-A--UAUUUUCUGAUUUAGUUUUCAUAUUUUCGCAAUUAGUUAUGUGCUGUUUAAACAAUUGUUACUCACCCGUUUUCUGUGACCUUGACUCUGUCGCCAAGGUCAAUACGGGU
.-.--..............((((..(((....((((........)))).)))..))))...........((((((......((((((((.(......).))))))))..)))))) ( -23.10)
>DroSim_CAF1 190586 112 - 1
A-A--UAUUUUCUGAUUUAGUUUUCAUAUUUUCGCAAUUAGUUAUGUGAUGUUUAAACAAUUGUUACUCACCCGUUUUCUGUGACCUUGACUCUGUCGCCAAGGUCAAUACGGGU
.-.--..............((((..(((...(((((........))))))))..))))...........((((((......((((((((.(......).))))))))..)))))) ( -25.30)
>DroEre_CAF1 185613 102 - 1
AAA--UAUUUU-UAAUU------UCAUAACUUAACAGUUU-UUAC---AUGGUCAAACCUUUGCUACUCACCCGUUUUCUGUGACCUUCACUCGGUCGCCAAGGUCAAUUCGGGU
...--......-.....------.................-....---..((.....))..........(((((...(((((((((.......))))))..)))......))))) ( -16.20)
>DroAna_CAF1 163503 98 - 1
AAAUAUAUUUUAUGUUUUAGUUUU-----------------UUAUGACAUAUUGGUUCAGUUUUUACUUACCAGUUCUCCGUGACCUUGACACGGUCGCCGAGGUCAAGCCGUGU
........................-----------------...((((..((((((..(((....))).)))))).(((.((((((.......)))))).)))))))........ ( -22.90)
>consensus
A_A__UAUUUUCUGAUUUAGUUUUCAUAUUUUCGCAAUUA_UUAUGUGAUGUUUAAACAAUUGUUACUCACCCGUUUUCUGUGACCUUGACUCGGUCGCCAAGGUCAAUACGGGU
.....................................................................((((((......((((((((.(......).))))))))..)))))) (-15.04 = -15.92 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:44 2006