Locus 4994

Sequence ID 2R_DroMel_CAF1
Location 16,265,825 – 16,265,917
Length 92
Max. P 0.983465
window7998 window7999

overview

Window 8

Location 16,265,825 – 16,265,917
Length 92
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 69.40
Mean single sequence MFE -22.08
Consensus MFE -11.99
Energy contribution -12.18
Covariance contribution 0.20
Combinations/Pair 1.31
Mean z-score -1.52
Structure conservation index 0.54
SVM decision value 0.51
SVM RNA-class probability 0.765197
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16265825 92 + 20766785
-----UGGCCCUGCUGUUUUUUCUGGCUCUUUUUGCCAGCUUAGAAACAGGUGGGUUCUAUUGUUGCUUAAACAAAAGCUUAAGUCAUAUAUUGUAC
-----.(((((..((((((((.(((((.......)))))...))))))))..)))))....(((.((((((........)))))).)))........ ( -26.20)
>DroSec_CAF1 41028 81 + 1
-----UGGCCCUGCUGCUCUUUCUGGCUCUAUUUGCCAGCUUAGAAACAGGUGGGUUCUAUUGUUG------CAAAAGCUUAAGUCAUAUAU-----
-----((((((..((..(((..(((((.......)))))...)))....))..))..........(------(....))....)))).....----- ( -19.70)
>DroSim_CAF1 41535 81 + 1
-----UGGCCCUGCUGCUCUUUCUGGCUCUAUUUGCCAGCUUAGAAACAGGUGGGUUCUAUUGUUA------CGAAAGCUUAAGUCAUAUAU-----
-----((((((..((..(((..(((((.......)))))...)))....))..))...........------(....).....)))).....----- ( -19.70)
>DroEre_CAF1 46295 80 + 1
-----UAUCGCUGCUGCUGUUUCUGGCGCUUUUUGCCAGCUUGGAAACAGGUGGGUUCUUUUCCCA---GCACAAAAGCUUAUU---------CUAA
-----....(((..((((.....(((((.....)))))(((((....)))))(((.......))))---)))....))).....---------.... ( -23.50)
>DroYak_CAF1 54442 81 + 1
-----UAGCCCUGCUACUCUUUCUGGCUCUAUUUGCCAGCUUGGAAACAGGUGGGUUCUUCUCUCA---GCACAAAAGCUUAUU--------UGUAA
-----.(((((............((((.......))))(((((....))))))))))........(---((......)))....--------..... ( -20.50)
>DroPer_CAF1 54654 84 + 1
AAGCUUAACACUGCUGCUGUUGCUGGGUCUUUUCGCCAGUCUAGAGGCAGGUGUGUGCUCUCCUCU------GAAAA--UUCUGCCAGGUGG-----
.(((...((((((((.(((..((((((......).))))).))).)))).))))..)))..(((((------(....--......)))).))----- ( -22.90)
>consensus
_____UAGCCCUGCUGCUCUUUCUGGCUCUAUUUGCCAGCUUAGAAACAGGUGGGUUCUAUUCUCA______CAAAAGCUUAAGUCAUAUAU_____
......(((((.(((..(((..(((((.......)))))...)))....))))))))........................................ (-11.99 = -12.18 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 16,265,825 – 16,265,917
Length 92
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 69.40
Mean single sequence MFE -20.57
Consensus MFE -14.22
Energy contribution -14.33
Covariance contribution 0.11
Combinations/Pair 1.36
Mean z-score -1.83
Structure conservation index 0.69
SVM decision value 1.94
SVM RNA-class probability 0.983465
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16265825 92 - 20766785
GUACAAUAUAUGACUUAAGCUUUUGUUUAAGCAACAAUAGAACCCACCUGUUUCUAAGCUGGCAAAAAGAGCCAGAAAAAACAGCAGGGCCA-----
..........((.(((((((....))))))))).........(((..((((((.....(((((.......)))))...))))))..)))...----- ( -24.60)
>DroSec_CAF1 41028 81 - 1
-----AUAUAUGACUUAAGCUUUUG------CAACAAUAGAACCCACCUGUUUCUAAGCUGGCAAAUAGAGCCAGAAAGAGCAGCAGGGCCA-----
-----.............((....)------)..............((((((.((...(((((.......)))))....)).))))))....----- ( -20.40)
>DroSim_CAF1 41535 81 - 1
-----AUAUAUGACUUAAGCUUUCG------UAACAAUAGAACCCACCUGUUUCUAAGCUGGCAAAUAGAGCCAGAAAGAGCAGCAGGGCCA-----
-----...(((((.........)))------)).............((((((.((...(((((.......)))))....)).))))))....----- ( -19.60)
>DroEre_CAF1 46295 80 - 1
UUAG---------AAUAAGCUUUUGUGC---UGGGAAAAGAACCCACCUGUUUCCAAGCUGGCAAAAAGCGCCAGAAACAGCAGCAGCGAUA-----
....---------.....(((....(((---(((((((((.......)).)))))...(((((.......)))))...)))))..)))....----- ( -21.70)
>DroYak_CAF1 54442 81 - 1
UUACA--------AAUAAGCUUUUGUGC---UGAGAGAAGAACCCACCUGUUUCCAAGCUGGCAAAUAGAGCCAGAAAGAGUAGCAGGGCUA-----
.((((--------((......)))))).---...............((((((......(((((.......))))).......))))))....----- ( -19.72)
>DroPer_CAF1 54654 84 - 1
-----CCACCUGGCAGAA--UUUUC------AGAGGAGAGCACACACCUGCCUCUAGACUGGCGAAAAGACCCAGCAACAGCAGCAGUGUUAAGCUU
-----.(..((((.....--...))------))..).((((((((..((((.....(.((((.(......))))))....))))..))))...)))) ( -17.40)
>consensus
_____AUAUAUGACAUAAGCUUUUG______UAACAAUAGAACCCACCUGUUUCUAAGCUGGCAAAAAGAGCCAGAAAGAGCAGCAGGGCCA_____
..........................................(((..((((((.....(((((.......)))))...))))))..)))........ (-14.22 = -14.33 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:03 2006