Locus 1370

Sequence ID 3L_DroMel_CAF1
Location 3,986,193 – 3,986,284
Length 91
Max. P 0.938619
window2130 window2131

overview

Window 0

Location 3,986,193 – 3,986,284
Length 91
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 90.25
Mean single sequence MFE -20.49
Consensus MFE -16.88
Energy contribution -16.93
Covariance contribution 0.06
Combinations/Pair 1.13
Mean z-score -2.44
Structure conservation index 0.82
SVM decision value 0.81
SVM RNA-class probability 0.855322
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3986193 91 + 23771897
CGCAUUUAAAAUACGAAAAAUUUAAGCCCCGC-UGUGCGAACUAUAAGCUGACGUCACGUUCCCGUUC--ACAGCUCCCAAUGGCUUAAAAUUU
....................((((((((..((-(((..((((....(((((....)).)))...))))--))))).......)))))))).... ( -17.10)
>DroPse_CAF1 60727 94 + 1
CGCAUUCAAAAUGCGAAAAAUUUAAGCCCCAAAAAUGUGAACUAUAAGCUGACGUCACGCUCUCGUUCGCACAGCUCCCAAUGGCUUAAAAUUU
(((((.....))))).....((((((((.......(((((((....(((((....)).)))...)))))))...........)))))))).... ( -22.87)
>DroWil_CAF1 73808 90 + 1
CACAUUUAAAAUAC--AAAAUUUAAGCCCUAAAAAUGUGAACCAUAAGCUGACGUCACGUUCUUGUUC--ACAGCUCCCAAUGGCUUAAAAUUU
..............--....((((((((.......(((((((.(..(((((....)).)))..)))))--))).........)))))))).... ( -18.79)
>DroYak_CAF1 62321 91 + 1
CGCAUUUAAAAUGCGAAAAAUUUAAGCCCCGC-AGUGCGAACUAUAAGCUGACGUCACGUUCCCGUUC--ACAGCUCCCAAUGGCUUAUAAUUU
(((((.....)))))..(((((((((((.(((-...))).......(((((.....(((....)))..--.)))))......)))))).))))) ( -19.80)
>DroAna_CAF1 62156 91 + 1
CGCAUUUAAAAUGCGAAAAAUUUAAGCCCCGC-AUUGCGAACUAUAAGCUGACGUCACGUUCCCGUUC--ACAGCUCCCAAUGGCUUAAAAUUU
(((((.....))))).....((((((((.(((-...))).......(((((.....(((....)))..--.)))))......)))))))).... ( -21.50)
>DroPer_CAF1 61048 94 + 1
CGCAUUCAAAAUGCGAAAAAUUUAAGCCCCAAAAAUGUGAACUAUAAGCUGACGUCACGCUCUCGUUCGCACAGCUCCCAAUGGCUUAAAAUUU
(((((.....))))).....((((((((.......(((((((....(((((....)).)))...)))))))...........)))))))).... ( -22.87)
>consensus
CGCAUUUAAAAUGCGAAAAAUUUAAGCCCCAA_AAUGCGAACUAUAAGCUGACGUCACGUUCCCGUUC__ACAGCUCCCAAUGGCUUAAAAUUU
(((((.....))))).....((((((((.((......)).......(((((.....(((....))).....)))))......)))))))).... (-16.88 = -16.93 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 3,986,193 – 3,986,284
Length 91
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 90.25
Mean single sequence MFE -26.88
Consensus MFE -23.33
Energy contribution -23.00
Covariance contribution -0.33
Combinations/Pair 1.14
Mean z-score -2.15
Structure conservation index 0.87
SVM decision value 1.27
SVM RNA-class probability 0.938619
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3986193 91 - 23771897
AAAUUUUAAGCCAUUGGGAGCUGU--GAACGGGAACGUGACGUCAGCUUAUAGUUCGCACA-GCGGGGCUUAAAUUUUUCGUAUUUUAAAUGCG
....((((((((((((.(((((((--(.(((....)))..)).)))))).))))((((...-)))))))))))).....(((((.....))))) ( -27.50)
>DroPse_CAF1 60727 94 - 1
AAAUUUUAAGCCAUUGGGAGCUGUGCGAACGAGAGCGUGACGUCAGCUUAUAGUUCACAUUUUUGGGGCUUAAAUUUUUCGCAUUUUGAAUGCG
....((((((((.(..(((...(((.((((..((((.((....))))))...)))).))))))..))))))))).....(((((.....))))) ( -26.90)
>DroWil_CAF1 73808 90 - 1
AAAUUUUAAGCCAUUGGGAGCUGU--GAACAAGAACGUGACGUCAGCUUAUGGUUCACAUUUUUAGGGCUUAAAUUUU--GUAUUUUAAAUGUG
(((.((((((((.(((((((.(((--((((...((..((....))..))...)))))))))))))))))))))).)))--.............. ( -22.50)
>DroYak_CAF1 62321 91 - 1
AAAUUAUAAGCCAUUGGGAGCUGU--GAACGGGAACGUGACGUCAGCUUAUAGUUCGCACU-GCGGGGCUUAAAUUUUUCGCAUUUUAAAUGCG
......((((((((((.(((((((--(.(((....)))..)).)))))).))))((((...-)))))))))).......(((((.....))))) ( -28.00)
>DroAna_CAF1 62156 91 - 1
AAAUUUUAAGCCAUUGGGAGCUGU--GAACGGGAACGUGACGUCAGCUUAUAGUUCGCAAU-GCGGGGCUUAAAUUUUUCGCAUUUUAAAUGCG
....((((((((((((.(((((((--(.(((....)))..)).)))))).))))((((...-)))))))))))).....(((((.....))))) ( -29.50)
>DroPer_CAF1 61048 94 - 1
AAAUUUUAAGCCAUUGGGAGCUGUGCGAACGAGAGCGUGACGUCAGCUUAUAGUUCACAUUUUUGGGGCUUAAAUUUUUCGCAUUUUGAAUGCG
....((((((((.(..(((...(((.((((..((((.((....))))))...)))).))))))..))))))))).....(((((.....))))) ( -26.90)
>consensus
AAAUUUUAAGCCAUUGGGAGCUGU__GAACGAGAACGUGACGUCAGCUUAUAGUUCACAUU_GCGGGGCUUAAAUUUUUCGCAUUUUAAAUGCG
....((((((((((((.((((((.....(((....))).....)))))).))))(((......))))))))))).....(((((.....))))) (-23.33 = -23.00 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:49 2006