Locus 5205

Sequence ID 2L_DroMel_CAF1
Location 14,718,588 – 14,718,729
Length 141
Max. P 0.938853
window8285 window8286 window8287

overview

Window 5

Location 14,718,588 – 14,718,703
Length 115
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 91.77
Mean single sequence MFE -27.19
Consensus MFE -22.06
Energy contribution -22.06
Covariance contribution 0.00
Combinations/Pair 1.09
Mean z-score -1.79
Structure conservation index 0.81
SVM decision value 1.00
SVM RNA-class probability 0.897339
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14718588 115 + 22407834
UAUAAAAGAAUAAUCUGCACCAUUACACCGUCAUGAUAGGAAUAAUCUUUCCUGACAAAGCCCCUAAUGCAUUUCCCCUUCUAGGUCCAUGGUCAAUGCAGCCACUUUAGGUGGC-
...............((((((((...(((....((.((((((......)))))).))..((.......)).............)))..)))))....)))(((((.....)))))- ( -24.20)
>DroSec_CAF1 75486 115 + 1
UAUAAAAGAAUAAUCUGAACCAUUACACCGUCAUGACAGCAAUAAGGUUUCCUGACAAAGCCCCUAAUGCAUUUCCCCUUUUAGGUCCAUGGUCAAUGCAGCCACUUUAGGUGGC-
...............(((.((((...(((((((.((.(((......))))).))))...((.......)).............)))..))))))).....(((((.....)))))- ( -22.70)
>DroSim_CAF1 75528 115 + 1
UAUAAAAGAAUAAUCUGCACCAUUACACCGUCAUGACAGGAAUAAGCUUUCCUGACAAAGCCCCUAAUGCAUUUCCCCUUUUAGGUCCAUGGUCAAUGCAGCCACUUUAGGUGGC-
...............((((((((...(((....((.((((((......)))))).))..((.......)).............)))..)))))....)))(((((.....)))))- ( -25.60)
>DroEre_CAF1 75196 115 + 1
UAUAAAAGAAUAAUCUGUGCUAUUACAGCGCCAUCUCAGGAAUAUGCUUUCCUGACAAAGCCUCUAAUGCAUUUCCCCCUCCACAUCCAUGGUCAAUGCAGCCACUUUAGGUGGC-
......(((.......(((((.....)))))....(((((((......))))))).......)))..((((((..((.............))..))))))(((((.....)))))- ( -28.72)
>DroYak_CAF1 74673 116 + 1
UAUAAAAGAAUAAUCUGUGCCAUUACACCGCCAUGGCAGGAAUAAGCUUUCCUGCCAAAGCCUCUAAUGCAUUUCCCCUUCUAGGUCCAUGGUCAAUGCAGCCACUUUAGGUGGCU
......(((.......(((......))).((..(((((((((......)))))))))..)).)))..((((((..((.............))..))))))(((((.....))))). ( -34.72)
>consensus
UAUAAAAGAAUAAUCUGCACCAUUACACCGUCAUGACAGGAAUAAGCUUUCCUGACAAAGCCCCUAAUGCAUUUCCCCUUCUAGGUCCAUGGUCAAUGCAGCCACUUUAGGUGGC_
.............................((..((.((((((......)))))).))..))......((((((..((.............))..))))))(((((.....))))). (-22.06 = -22.06 +   0.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,718,628 – 14,718,729
Length 101
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 92.82
Mean single sequence MFE -29.51
Consensus MFE -21.90
Energy contribution -21.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.18
Structure conservation index 0.74
SVM decision value 0.46
SVM RNA-class probability 0.746350
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14718628 101 + 22407834
AAUAAUCUUUCCUGACAAAGCCCCUAAUGCAUUUCCCCUUCUAGGUCCAUGGUCAAUGCAGCCACUUUAGGUGGC-----UGAGAAGACCAACCGGCAAUGACAGC
...........(((.((..(((((((...............))))....(((((....(((((((.....)))))-----))....)))))...)))..)).))). ( -29.36)
>DroSec_CAF1 75526 101 + 1
AAUAAGGUUUCCUGACAAAGCCCCUAAUGCAUUUCCCCUUUUAGGUCCAUGGUCAAUGCAGCCACUUUAGGUGGC-----UGAGAAGACCAACCGGCAAUGACAGC
...........(((.((..((((((((.............)))))....(((((....(((((((.....)))))-----))....)))))...)))..)).))). ( -31.02)
>DroSim_CAF1 75568 101 + 1
AAUAAGCUUUCCUGACAAAGCCCCUAAUGCAUUUCCCCUUUUAGGUCCAUGGUCAAUGCAGCCACUUUAGGUGGC-----UGAGAAGACCAACCGGCAAUGACAGC
...........(((.((..((((((((.............)))))....(((((....(((((((.....)))))-----))....)))))...)))..)).))). ( -31.02)
>DroEre_CAF1 75236 101 + 1
AAUAUGCUUUCCUGACAAAGCCUCUAAUGCAUUUCCCCCUCCACAUCCAUGGUCAAUGCAGCCACUUUAGGUGGC-----AGAGGAGACCAACCGGCAAUGACAGC
.....(((.((.........(((((..((((((..((.............))..))))))(((((.....)))))-----))))).(.((....)))...)).))) ( -25.92)
>DroYak_CAF1 74713 106 + 1
AAUAAGCUUUCCUGCCAAAGCCUCUAAUGCAUUUCCCCUUCUAGGUCCAUGGUCAAUGCAGCCACUUUAGGUGGCUGAGAAGAGAAGACCAACCGGCAAUGACAGC
.....(((.((.((((...((.......)).............(((...(((((....(((((((.....))))))).........))))))))))))..)).))) ( -30.22)
>consensus
AAUAAGCUUUCCUGACAAAGCCCCUAAUGCAUUUCCCCUUCUAGGUCCAUGGUCAAUGCAGCCACUUUAGGUGGC_____UGAGAAGACCAACCGGCAAUGACAGC
...........(((.((..(((.....((((((..((.............))..))))))(((((.....)))))...................)))..)).))). (-21.90 = -21.90 +   0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,718,628 – 14,718,729
Length 101
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 92.82
Mean single sequence MFE -34.19
Consensus MFE -28.32
Energy contribution -28.32
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.83
SVM decision value 1.27
SVM RNA-class probability 0.938853
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14718628 101 - 22407834
GCUGUCAUUGCCGGUUGGUCUUCUCA-----GCCACCUAAAGUGGCUGCAUUGACCAUGGACCUAGAAGGGGAAAUGCAUUAGGGGCUUUGUCAGGAAAGAUUAUU
.(((.((..(((...(((((....((-----(((((.....)))))))....)))))....(((((...(.......).))))))))..)).)))........... ( -33.80)
>DroSec_CAF1 75526 101 - 1
GCUGUCAUUGCCGGUUGGUCUUCUCA-----GCCACCUAAAGUGGCUGCAUUGACCAUGGACCUAAAAGGGGAAAUGCAUUAGGGGCUUUGUCAGGAAACCUUAUU
.(((.((..(((...(((((....((-----(((((.....)))))))....)))))....(((((.............))))))))..)).)))........... ( -34.42)
>DroSim_CAF1 75568 101 - 1
GCUGUCAUUGCCGGUUGGUCUUCUCA-----GCCACCUAAAGUGGCUGCAUUGACCAUGGACCUAAAAGGGGAAAUGCAUUAGGGGCUUUGUCAGGAAAGCUUAUU
.(((.((..(((...(((((....((-----(((((.....)))))))....)))))....(((((.............))))))))..)).)))........... ( -34.42)
>DroEre_CAF1 75236 101 - 1
GCUGUCAUUGCCGGUUGGUCUCCUCU-----GCCACCUAAAGUGGCUGCAUUGACCAUGGAUGUGGAGGGGGAAAUGCAUUAGAGGCUUUGUCAGGAAAGCAUAUU
.(((.((..(((.((...((((((((-----(((((.....))))).(((((.......)))))))))))))....))......)))..)).)))........... ( -33.00)
>DroYak_CAF1 74713 106 - 1
GCUGUCAUUGCCGGUUGGUCUUCUCUUCUCAGCCACCUAAAGUGGCUGCAUUGACCAUGGACCUAGAAGGGGAAAUGCAUUAGAGGCUUUGGCAGGAAAGCUUAUU
.((((((..(((.....((.((((((((((((((((.....)))))))(((.....))).....)))))))))...))......)))..))))))........... ( -35.30)
>consensus
GCUGUCAUUGCCGGUUGGUCUUCUCA_____GCCACCUAAAGUGGCUGCAUUGACCAUGGACCUAGAAGGGGAAAUGCAUUAGGGGCUUUGUCAGGAAAGCUUAUU
.(((.((..(((...................(((((.....)))))((((((..((.............))..)))))).....)))..)).)))........... (-28.32 = -28.32 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:36 2006