Locus 4392

Sequence ID 2L_DroMel_CAF1
Location 12,639,479 – 12,639,622
Length 143
Max. P 0.925374
window6921 window6922

overview

Window 1

Location 12,639,479 – 12,639,595
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.60
Mean single sequence MFE -38.17
Consensus MFE -30.33
Energy contribution -30.50
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.10
Structure conservation index 0.79
SVM decision value 0.92
SVM RNA-class probability 0.882161
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12639479 116 + 22407834
UGA----GGUGAUCGGGGGAAAUGAAGCACGCCUAGCAGGCUGAAAAUUGCCGCAGGACACGCGUCGCGCUCGUUUGCGCAACUAAACUGAAAUUAGUUGGUAAAUGAUGCGACUCCACC
...----.......((.(((......((...(((.((.(((........))))))))....))((((((.((((((((.(((((((.......)))))))))))))))))))))))).)) ( -42.00)
>DroPse_CAF1 24287 91 + 1
---------------------------CAGGCUUUG--GGCUGAAAACUGCCGCAGGACACGCGUCGCGCUCGUUUGCGCAACUAAACUGAAAUUAGUUGGUAAAUGAUGCGACUCCACC
---------------------------..((.((((--(((........))).))))......((((((.((((((((.(((((((.......))))))))))))))))))))).))... ( -32.10)
>DroEre_CAF1 20666 114 + 1
UA------GGCGGCCGGGGAAAAGGAGCACGCCUAGCAGGCUGAAAAUUGCCGCAGGACACGCGUCGCGCUCGUUUGCGCAACUAAGCUGAAAUUAGUUGGUAAAUGAUGCGACUCCACC
((------((((.((........))....))))))((.(((........))))).(((.....((((((.((((((((.(((((((.......))))))))))))))))))))))))... ( -45.80)
>DroYak_CAF1 21225 114 + 1
AA------GGGGGCCGGGGAAAAGGAGCACGCCUAGCAGGCUGAAAAUUGCCGCAGGACACGCGUCGCGCUCGUUUGCGCAACUAAACUGAAAUUAGUUGGUAAAUGAUGCGACUCCACC
..------.......(((((......((...(((.((.(((........))))))))....))((((((.((((((((.(((((((.......)))))))))))))))))))))))).)) ( -41.90)
>DroAna_CAF1 15122 119 + 1
UGGAGUUGGGAAAA-AGGGGAAAGCAGUACGCCUAGCAGGCUGAAAAUUGCCACAGGACACGCGUCGCGCUCGUUUGGGCAACUAAACUGAAAUUAGUUGGUAAAUGAUGCGACUCCACC
((((((((((....-..(......)......)))))).(((........)))...........((((((.((((((.(.(((((((.......))))))).))))))))))))))))).. ( -35.10)
>DroPer_CAF1 24242 91 + 1
---------------------------CAGGCUUUG--GGCUGAAAACUGCCGCAGGACACGCGUCGCGCUCGUUUGCGCAACUAAACUGAAAUUAGUUGGUAAAUGAUGCGACUCCACC
---------------------------..((.((((--(((........))).))))......((((((.((((((((.(((((((.......))))))))))))))))))))).))... ( -32.10)
>consensus
U_______GG___C_GGGGAAAAG_AGCACGCCUAGCAGGCUGAAAAUUGCCGCAGGACACGCGUCGCGCUCGUUUGCGCAACUAAACUGAAAUUAGUUGGUAAAUGAUGCGACUCCACC
......................................(((........)))...(((.....((((((.((((((((.(((((((.......))))))))))))))))))))))))... (-30.33 = -30.50 +   0.17)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 2

Location 12,639,515 – 12,639,622
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 90.56
Mean single sequence MFE -29.65
Consensus MFE -25.95
Energy contribution -26.28
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.98
Structure conservation index 0.88
SVM decision value 1.17
SVM RNA-class probability 0.925374
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12639515 107 + 22407834
CUGAAAAUUGCCGCAGGACACGCGUCGCGCUCGUUUGCGCAACUAAACUGAAAUUAGUUGGUAAAUGAUGCGACUCCACCCU------------CUGAUAAA-AAACAGAUAAAAAAUGA
(((....(((.((.(((....(.((((((.((((((((.(((((((.......))))))))))))))))))))).)...)))------------.)).))).-...)))........... ( -28.80)
>DroPse_CAF1 24298 119 + 1
CUGAAAACUGCCGCAGGACACGCGUCGCGCUCGUUUGCGCAACUAAACUGAAAUUAGUUGGUAAAUGAUGCGACUCCACCCCCCGUCCAGAGCCAUGAUAAA-ACACAGAUAAAAAAUGA
(((....(((.((..((....(.((((((.((((((((.(((((((.......))))))))))))))))))))).)...))..))..))).....((.....-.)))))........... ( -29.60)
>DroEre_CAF1 20700 107 + 1
CUGAAAAUUGCCGCAGGACACGCGUCGCGCUCGUUUGCGCAACUAAGCUGAAAUUAGUUGGUAAAUGAUGCGACUCCACCCU------------CUGAUAAA-AAACAGAUAAAAAAUGA
(((....(((.((.(((....(.((((((.((((((((.(((((((.......))))))))))))))))))))).)...)))------------.)).))).-...)))........... ( -29.60)
>DroYak_CAF1 21259 108 + 1
CUGAAAAUUGCCGCAGGACACGCGUCGCGCUCGUUUGCGCAACUAAACUGAAAUUAGUUGGUAAAUGAUGCGACUCCACCCU------------CUGAUAAAAAAACAGAUAAAAAAUGA
(((....(((.((.(((....(.((((((.((((((((.(((((((.......))))))))))))))))))))).)...)))------------.)).))).....)))........... ( -28.20)
>DroAna_CAF1 15161 117 + 1
CUGAAAAUUGCCACAGGACACGCGUCGCGCUCGUUUGGGCAACUAAACUGAAAUUAGUUGGUAAAUGAUGCGACUCCACCCCC--UCCUGGGCGCUGAUAAA-AAACAGAUAAAAAAUGA
.........(((.(((((...(.((((((.((((((.(.(((((((.......))))))).))))))))))))).).......--)))))))).(((.....-...)))........... ( -32.10)
>DroPer_CAF1 24253 119 + 1
CUGAAAACUGCCGCAGGACACGCGUCGCGCUCGUUUGCGCAACUAAACUGAAAUUAGUUGGUAAAUGAUGCGACUCCACCCCCCGUCCAGAGCCAUGAUAAA-ACACAGAUAAAAAAUGA
(((....(((.((..((....(.((((((.((((((((.(((((((.......))))))))))))))))))))).)...))..))..))).....((.....-.)))))........... ( -29.60)
>consensus
CUGAAAAUUGCCGCAGGACACGCGUCGCGCUCGUUUGCGCAACUAAACUGAAAUUAGUUGGUAAAUGAUGCGACUCCACCCC____________CUGAUAAA_AAACAGAUAAAAAAUGA
(((.........((.......))((((((.((((((((.(((((((.......)))))))))))))))))))))................................)))........... (-25.95 = -26.28 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:47 2006