Locus 1785

Sequence ID 2L_DroMel_CAF1
Location 4,880,337 – 4,880,457
Length 120
Max. P 0.784700
window2876 window2877

overview

Window 6

Location 4,880,337 – 4,880,457
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 98.89
Mean single sequence MFE -37.78
Consensus MFE -36.35
Energy contribution -36.68
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -0.94
Structure conservation index 0.96
SVM decision value 0.57
SVM RNA-class probability 0.784700
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4880337 120 + 22407834
AACGCCCUGCCACAAUAGCCACAUCUAAAUGGUUUCUCACCUGUAUGUAUGCGAGUGUGCUGUUUUAGUGUAUUCGAUUGAGUGAAGGACUUGCCGCAGUAGGAGCACGUGUAGGGGCGU
.(((((((..(((...(((((........))))).....(((.(((.....((((((..(((...)))..)))))).....))).))).(((((....))))).....)))..))))))) ( -37.80)
>DroGri_CAF1 42368 120 + 1
AACGCCCUGUCACAAUAGCCACAUCUAAAUGGUUUCUCACCUGUAUGUAUGCGAGUGUGCUGUUUUAGUGUAUUCGAUUGAGUGAAGGACUUGCCGCAGUAGGAGCACGUGUAGGGGCGU
.(((((((..(((...(((((........))))).....(((.(((.....((((((..(((...)))..)))))).....))).))).(((((....))))).....)))..))))))) ( -36.80)
>DroWil_CAF1 49535 120 + 1
AACGCCCUGCCACAAUAUCCACAUCUAAAUGGUUUCUCACCUGUAUGUAUGCGAGUGUGCUGUUUUAGUGUAUUCGAUUGAGUGAAGGACUUGCCGCAGUAGGAGCACGUGUAGGGGCGU
.(((((((..(((....(((((........((((..((((..(((....)))(((((..(((...)))..)))))......))))..)))).......)).)))....)))..))))))) ( -37.36)
>DroMoj_CAF1 47704 120 + 1
AACGCCCUGCCACAAAAGCCACAUCUAAAUGGUUUCUCACCUGUAUGUAUGCGAGUGUGCUGUUUUAGUGUAUUCGAUUGAGUGAAGGACUUGCCGCAGUAGGAGCACGUGUAGGGGCGU
.(((((((..(((..((((((........))))))....(((.(((.....((((((..(((...)))..)))))).....))).))).(((((....))))).....)))..))))))) ( -38.80)
>DroAna_CAF1 35290 120 + 1
AACGCCCUGCCACAAUAGCCACAUCUAAAUGGUUUCUCACCUGUAUGUAUGCGAGUGUGCUGUUUUAGUGUAUUCGAUUGAGUGAAGGACUUGCCGCAGUAGGAGCACGUGUAGGGGCGU
.(((((((..(((...(((((........))))).....(((.(((.....((((((..(((...)))..)))))).....))).))).(((((....))))).....)))..))))))) ( -37.80)
>DroPer_CAF1 38489 120 + 1
AACGCCCUGCCACAAUAGCCACAUCUAAAUGGUUUCUCACCUGUAUGUAUGCGAGUGUGCUGUUUUAGUGUAUUCGAUUGAGUGAAGGACUUGCCGCAGUACGAGCACGUGUAGGGGCGU
.(((((((..((((((((((((.((.....(((.....))).(((....)))))))).))))))...((((..(((((((.(..(.....)..)..)))).))))))))))..))))))) ( -38.10)
>consensus
AACGCCCUGCCACAAUAGCCACAUCUAAAUGGUUUCUCACCUGUAUGUAUGCGAGUGUGCUGUUUUAGUGUAUUCGAUUGAGUGAAGGACUUGCCGCAGUAGGAGCACGUGUAGGGGCGU
.(((((((..(((...(((((........))))).....(((.(((.....((((((..(((...)))..)))))).....))).))).(((((....))))).....)))..))))))) (-36.35 = -36.68 +   0.33)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 7

Location 4,880,337 – 4,880,457
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 98.89
Mean single sequence MFE -30.52
Consensus MFE -28.83
Energy contribution -28.83
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -0.87
Structure conservation index 0.94
SVM decision value 0.12
SVM RNA-class probability 0.591986
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4880337 120 - 22407834
ACGCCCCUACACGUGCUCCUACUGCGGCAAGUCCUUCACUCAAUCGAAUACACUAAAACAGCACACUCGCAUACAUACAGGUGAGAAACCAUUUAGAUGUGGCUAUUGUGGCAGGGCGUU
((((((...((((((((((......))..(((..(((........)))...))).....)))))....((.(((((..(((((......)))))..)))))))....)))...)))))). ( -30.50)
>DroGri_CAF1 42368 120 - 1
ACGCCCCUACACGUGCUCCUACUGCGGCAAGUCCUUCACUCAAUCGAAUACACUAAAACAGCACACUCGCAUACAUACAGGUGAGAAACCAUUUAGAUGUGGCUAUUGUGACAGGGCGUU
((((((...((((((((((......))..(((..(((........)))...))).....)))))....((.(((((..(((((......)))))..)))))))....)))...)))))). ( -29.40)
>DroWil_CAF1 49535 120 - 1
ACGCCCCUACACGUGCUCCUACUGCGGCAAGUCCUUCACUCAAUCGAAUACACUAAAACAGCACACUCGCAUACAUACAGGUGAGAAACCAUUUAGAUGUGGAUAUUGUGGCAGGGCGUU
((((((......(((....)))(((.(((((((((((........))).((((((((...((......)).........(((.....))).))))).))))))).)))).))))))))). ( -31.10)
>DroMoj_CAF1 47704 120 - 1
ACGCCCCUACACGUGCUCCUACUGCGGCAAGUCCUUCACUCAAUCGAAUACACUAAAACAGCACACUCGCAUACAUACAGGUGAGAAACCAUUUAGAUGUGGCUUUUGUGGCAGGGCGUU
((((((...((((((((((......))..(((..(((........)))...))).....)))))....((.(((((..(((((......)))))..)))))))....)))...)))))). ( -30.50)
>DroAna_CAF1 35290 120 - 1
ACGCCCCUACACGUGCUCCUACUGCGGCAAGUCCUUCACUCAAUCGAAUACACUAAAACAGCACACUCGCAUACAUACAGGUGAGAAACCAUUUAGAUGUGGCUAUUGUGGCAGGGCGUU
((((((...((((((((((......))..(((..(((........)))...))).....)))))....((.(((((..(((((......)))))..)))))))....)))...)))))). ( -30.50)
>DroPer_CAF1 38489 120 - 1
ACGCCCCUACACGUGCUCGUACUGCGGCAAGUCCUUCACUCAAUCGAAUACACUAAAACAGCACACUCGCAUACAUACAGGUGAGAAACCAUUUAGAUGUGGCUAUUGUGGCAGGGCGUU
((((((...((((((((((.....))...(((..(((........)))...))).....)))))....((.(((((..(((((......)))))..)))))))....)))...)))))). ( -31.10)
>consensus
ACGCCCCUACACGUGCUCCUACUGCGGCAAGUCCUUCACUCAAUCGAAUACACUAAAACAGCACACUCGCAUACAUACAGGUGAGAAACCAUUUAGAUGUGGCUAUUGUGGCAGGGCGUU
((((((...((((((((...(((......)))..(((........)))...........))))).(((((..........)))))...((((......)))).....)))...)))))). (-28.83 = -28.83 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:15 2006