Locus 4087

Sequence ID 2R_DroMel_CAF1
Location 13,462,511 – 13,462,616
Length 105
Max. P 0.992874
window6580 window6581

overview

Window 0

Location 13,462,511 – 13,462,616
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.42
Mean single sequence MFE -24.91
Consensus MFE -18.70
Energy contribution -19.10
Covariance contribution 0.40
Combinations/Pair 1.11
Mean z-score -2.59
Structure conservation index 0.75
SVM decision value 2.36
SVM RNA-class probability 0.992874
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13462511 105 + 20766785
CUUUACAAGUACUUAGCCU------UUAAAAAAAUAAGUUCUCC---------UCGAUUCACAGCACCUUUUCUCUCAGUGCUGGCUUGGCCUUCUUUGGGCCAAGUUAUCUCUUCUUGA
.....((((.(((((....------.........))))).....---------..(((...((((((...........))))))(((((((((.....))))))))).)))....)))). ( -26.62)
>DroSec_CAF1 11303 104 + 1
-UGUACAAGUACUUACACU------UAAAUUAAAUAAAUCCUCG---------UCGAUUCACAGCACCUUUUCUCUCAGUGCUGGCUUGGCCUUCUUUGGGCCAAGUUAUCUCUUCUUGA
-....((((..........------...................---------........((((((...........))))))(((((((((.....)))))))))........)))). ( -25.80)
>DroSim_CAF1 11461 104 + 1
-UGUACAAGUACUUACCCU------UUAAUUAAAUAAGUCCUCG---------UCGAUUCACAGCACCUUUUCUCUCAGUGCUGGCUUGGCCUUCUUUGGGCCAAGUUAUCUCUUCUUGA
-....((((..........------...................---------........((((((...........))))))(((((((((.....)))))))))........)))). ( -25.80)
>DroEre_CAF1 11698 97 + 1
----------ACUUACCCUUCACGUUUAAUCGAAUAAGUCAG------------CGAUUUACAACGCCUUUUCGCUCAGUGAUG-CUUGGCCUCCUUUGGGCCAAGUUAUCUCUUCUUGA
----------............((......))..((((..((------------(((..............))))).((.((((-((((((((.....)))))))).)))).)).)))). ( -22.34)
>DroYak_CAF1 12156 107 + 1
-UU------UACUUACCCU------UUAAUAGAAUAAGUCAUCAGGUUGUGGACCGGUUUACAACGCCUUUUCUCUCAGUGCUGGCCUGGCCUUCUUUGGGCCAAGUUAUCUCUUCUUGA
-..------.(((((..((------.....))..)))))..((((((((((((....))))))))............((.(.((((.((((((.....)))))).)))).).))..)))) ( -24.00)
>consensus
_UGUACAAGUACUUACCCU______UUAAUAAAAUAAGUCCUCG_________UCGAUUCACAGCACCUUUUCUCUCAGUGCUGGCUUGGCCUUCUUUGGGCCAAGUUAUCUCUUCUUGA
.......................................................(((...((((((...........))))))(((((((((.....))))))))).)))......... (-18.70 = -19.10 +   0.40)

alignment

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secondary structure

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dotplot

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Window 1

Location 13,462,511 – 13,462,616
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.42
Mean single sequence MFE -26.46
Consensus MFE -20.00
Energy contribution -20.52
Covariance contribution 0.52
Combinations/Pair 1.16
Mean z-score -2.07
Structure conservation index 0.76
SVM decision value 1.42
SVM RNA-class probability 0.952280
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13462511 105 - 20766785
UCAAGAAGAGAUAACUUGGCCCAAAGAAGGCCAAGCCAGCACUGAGAGAAAAGGUGCUGUGAAUCGA---------GGAGAACUUAUUUUUUUAA------AGGCUAAGUACUUGUAAAG
....(((((((((((((((((.......))))))).(((((((.........)))))))........---------.......)))))))))).(------((........)))...... ( -26.00)
>DroSec_CAF1 11303 104 - 1
UCAAGAAGAGAUAACUUGGCCCAAAGAAGGCCAAGCCAGCACUGAGAGAAAAGGUGCUGUGAAUCGA---------CGAGGAUUUAUUUAAUUUA------AGUGUAAGUACUUGUACA-
.........(((..(((((((.......))))))).(((((((.........)))))))...))).(---------((((.((((((........------...)))))).)))))...- ( -28.00)
>DroSim_CAF1 11461 104 - 1
UCAAGAAGAGAUAACUUGGCCCAAAGAAGGCCAAGCCAGCACUGAGAGAAAAGGUGCUGUGAAUCGA---------CGAGGACUUAUUUAAUUAA------AGGGUAAGUACUUGUACA-
.........(((..(((((((.......))))))).(((((((.........)))))))...))).(---------((((.((((((((......------.)))))))).)))))...- ( -31.70)
>DroEre_CAF1 11698 97 - 1
UCAAGAAGAGAUAACUUGGCCCAAAGGAGGCCAAG-CAUCACUGAGCGAAAAGGCGUUGUAAAUCG------------CUGACUUAUUCGAUUAAACGUGAAGGGUAAGU----------
......((.(((..((((((((....).)))))))-.))).)).(((((....((...))...)))------------)).((((((((.............))))))))---------- ( -22.92)
>DroYak_CAF1 12156 107 - 1
UCAAGAAGAGAUAACUUGGCCCAAAGAAGGCCAGGCCAGCACUGAGAGAAAAGGCGUUGUAAACCGGUCCACAACCUGAUGACUUAUUCUAUUAA------AGGGUAAGUA------AA-
(((.......(((((((((((.......))))))(((...............)))))))).....(((.....))))))..(((((((((.....------))))))))).------..- ( -23.66)
>consensus
UCAAGAAGAGAUAACUUGGCCCAAAGAAGGCCAAGCCAGCACUGAGAGAAAAGGUGCUGUGAAUCGA_________CGAGGACUUAUUUAAUUAA______AGGGUAAGUACUUGUAAA_
.........(((..(((((((.......))))))).(((((((.........)))))))...)))................((((((((.............)))))))).......... (-20.00 = -20.52 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:26 2006