Locus 4177

Sequence ID 3R_DroMel_CAF1
Location 11,334,257 – 11,334,405
Length 148
Max. P 0.779628
window6708 window6709

overview

Window 8

Location 11,334,257 – 11,334,372
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.72
Mean single sequence MFE -28.02
Consensus MFE -14.06
Energy contribution -14.50
Covariance contribution 0.44
Combinations/Pair 1.19
Mean z-score -1.84
Structure conservation index 0.50
SVM decision value 0.20
SVM RNA-class probability 0.632544
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11334257 115 - 27905053
UUUGAUUCAUAUUCCUGGGAAUAUCGAAUUUUCCAGGUAUUGCUAUGACCUUAAGUA----UAUUUACUGAAACA-CACUAAUAACUUUUUAGCUCUCCGGUUACUGGUACGAGGCUGCU
.....(((.....((((((((........))))))))...((((((((((...((((----....))))......-..((((.......))))......))))).))))).)))...... ( -22.50)
>DroSec_CAF1 73490 114 - 1
UUUGAAUCAUUUCCCUGGGAAUAUCGAAUUUUCCCGGGGUUGCUAUAACUUAAAGUA----UAUUUACUGAAACA-UACUAUU-ACCUUGUAGCUCUCCGGUUACUGGUACGAGGCUGCU
............(((((((((.........)))))))))..(((.........((((----(.(((....))).)-))))..(-(((..((((((....)))))).))))...))).... ( -29.30)
>DroSim_CAF1 71734 114 - 1
UUUGAUUCCUUUCCCUGGGAAUAUCGAAUUUUCCCGGGGUUGCUAUAACCUAAAGUA----UAUUUACUGAAACA-UACUAUU-CCUUUUUAGCUCUCCGGUUACUGGUACGAGGCUGCU
.......((((.(((((((((.........))))))))).((((((((((...((((----....))))......-..(((..-......)))......))))).))))).))))..... ( -28.00)
>DroEre_CAF1 68991 109 - 1
UUUGGUACAU-UGCCUGGGAACUACUAUUUUUCCAGGGGUA-CUUUGACUUUAAAUA----UAUUUAUUCAAAUAACCCACC-----ACUUAGCUGUCAGGUUACUGGUACGAGGCGGCU
..((((....-...(((((((........)))))))((((.-.(((((...((((..----..)))).)))))..)))))))-----)...(((((((..((.......))..))))))) ( -28.00)
>DroYak_CAF1 70805 114 - 1
UUUGAUUAAUUUCCCUGGGAACUACUAGUUUUCCAGGGGUAGCUUUGAUUUAAAAUAGAAAUAUACAUCGAAAUA-CACUAC-----ACUUAGCUUUCAGGCUACUGGUACGAGGCUGCC
............(((((((((........)))))))))(((((((((.......(((....)))...........-...(((-----...(((((....)))))...)))))))))))). ( -32.30)
>consensus
UUUGAUUCAUUUCCCUGGGAAUAUCGAAUUUUCCAGGGGUUGCUAUGACUUAAAGUA____UAUUUACUGAAACA_CACUACU__C_UUUUAGCUCUCCGGUUACUGGUACGAGGCUGCU
...........((((((((((........))))))))))..(((...(((..(((((....)))))........................(((((....)))))..)))....))).... (-14.06 = -14.50 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 11,334,297 – 11,334,405
Length 108
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.48
Mean single sequence MFE -25.16
Consensus MFE -14.41
Energy contribution -15.17
Covariance contribution 0.76
Combinations/Pair 1.16
Mean z-score -1.84
Structure conservation index 0.57
SVM decision value 0.55
SVM RNA-class probability 0.779628
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11334297 108 - 27905053
UCAACUUUAACCUAACGCAAGUGAGCGA-------AGAAAUUUGAUUCAUAUUCCUGGGAAUAUCGAAUUUUCCAGGUAUUGCUAUGACCUUAAGUA----UAUUUACUGAAACA-CACU
................((((((((((((-------(....)))).)))))...((((((((........))))))))..))))..........((((----....))))......-.... ( -23.00)
>DroSec_CAF1 73529 108 - 1
UCAACUUAAACCUGACGCGAGUGAGUUA-------AGAAGUUUGAAUCAUUUCCCUGGGAAUAUCGAAUUUUCCCGGGGUUGCUAUAACUUAAAGUA----UAUUUACUGAAACA-UACU
....(((((..((.((....)).)))))-------))(((((.....((...(((((((((.........))))))))).))....)))))..((((----....))))......-.... ( -27.50)
>DroSim_CAF1 71773 108 - 1
UCCACUUAAACCUAACGCGAGUGAGUGA-------AGAAGUUUGAUUCCUUUCCCUGGGAAUAUCGAAUUUUCCCGGGGUUGCUAUAACCUAAAGUA----UAUUUACUGAAACA-UACU
..((((((..((....).)..)))))).-------...(((.((.(((....(((((((((.........)))))))))..............((((----....))))))).))-.))) ( -26.60)
>DroEre_CAF1 69026 114 - 1
UUAACUUUAACCUGACGCGAGUGAGUAAAACCAGUACAAGUUUGGUACAU-UGCCUGGGAACUACUAUUUUUCCAGGGGUA-CUUUGACUUUAAAUA----UAUUUAUUCAAAUAACCCA
..............((....))(((((((........(((((.(((((..-..((((((((........)))))))).)))-))..)))))......----..))))))).......... ( -25.19)
>DroYak_CAF1 70840 113 - 1
UGAACUUUAACCUGACGCGAGUGAGUAA------UACAAAUUUGAUUAAUUUCCCUGGGAACUACUAGUUUUCCAGGGGUAGCUUUGAUUUAAAAUAGAAAUAUACAUCGAAAUA-CACU
...........((.((....)).))...------..................(((((((((........)))))))))(((..((((((.....(((....)))..)))))).))-)... ( -23.50)
>consensus
UCAACUUUAACCUGACGCGAGUGAGUAA_______AGAAGUUUGAUUCAUUUCCCUGGGAAUAUCGAAUUUUCCAGGGGUUGCUAUGACUUAAAGUA____UAUUUACUGAAACA_CACU
...........((.((....)).))............(((((.........((((((((((........)))))))))).......)))))............................. (-14.41 = -15.17 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:27 2006