Locus 7891

Sequence ID	X_DroMel_CAF1
Location	19,666,218 – 19,666,371
Length	153
Max. P	0.998692

overview

Window 6

Location	19,666,218 – 19,666,331
Length	113
Sequences	4
Columns	115
Reading direction	reverse
Mean pairwise identity	89.14
Mean single sequence MFE	-19.88
Consensus MFE	-15.00
Energy contribution	-14.88
Covariance contribution	-0.12
Combinations/Pair	1.22
Mean z-score	-2.21
Structure conservation index	0.75
SVM decision value	0.85
SVM RNA-class probability	0.865467
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19666218 113 - 22224390
UAAAGCAUAUUAACCUAAAAAGGGGAAGCCCUGCAUAAACACCUAAUAUACAUACAUAAUUACACA--CAUAGGCCAACAUACCUAUGUUGAUCUAUCCAAAUGAUUUGCUGUUU
...((((.((((........((((....))))..................................--.((((..((((((....))))))..)))).....)))).)))).... ( -21.80)
>DroSec_CAF1 39707 112 - 1
UAAAGCAUAUUAACCUAAAAAGGGGAAGCCCUGCAUAAACACCUAAUAUACAUACAUAAAUACACA--CAUGGGUCA-UAUACCUAUGUUGAUCUAUCCAAAUGAUUUGCUGUUU
...((((.((((........((((....))))..............................((.(--(((((((..-...))))))))))...........)))).)))).... ( -21.70)
>DroEre_CAF1 51804 103 - 1
UAAAGCAUAUAAACCUAAAAAGGGGAAGCCCUGCAUAAACACCUAAUAUACAUAAAUA----CACA--CAUAUG------UAUAUGUGUUGAUCUAUCCAAAUGAUUUGCUGUUU
..(((((.............((((....))))(((..(((((...(((((((((....----....--..))))------))))))))))((((.........)))))))))))) ( -20.10)
>DroYak_CAF1 53689 105 - 1
UAAAGCAUAUAAACCUAAAAAGGGGAAGCCCUGCAUAAACACCUAAUAUACAUAAAUA----CACACACAUAGG------UACAUGUGUUGAUCUAUCCAAAUGAUUUGCUGUUU
...((((......(((....)))(((((..(.(((((...(((((.............----........))))------)...))))).)..)).)))........)))).... ( -15.90)
>consensus
UAAAGCAUAUAAACCUAAAAAGGGGAAGCCCUGCAUAAACACCUAAUAUACAUAAAUA____CACA__CAUAGG______UACAUAUGUUGAUCUAUCCAAAUGAUUUGCUGUUU
...((((.((((........((((....))))....................................((((((........))))))..............)))).)))).... (-15.00 = -14.88 +  -0.12)

alignment

secondary structure

dotplot

Window 7

Location	19,666,253 – 19,666,371
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	88.83
Mean single sequence MFE	-27.54
Consensus MFE	-23.80
Energy contribution	-23.80
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.77
Structure conservation index	0.86
SVM decision value	1.25
SVM RNA-class probability	0.936535
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19666253 118 + 22224390
UGUUGGCCUAUG--UGUGUAAUUAUGUAUGUAUAUUAGGUGUUUAUGCAGGGCUUCCCCUUUUUAGGUUAAUAUGCUUUAUAAGGCAUUUCCUUUUGCUAGCGCAGCGCAUUUCAUGCGC
((((((((((..--(((((((.(((.((.......)).))).)))))))(((....)))....)))))))))).(((....((((.....)))).....)))...((((((...)))))) ( -30.80)
>DroSec_CAF1 39742 117 + 1
UA-UGACCCAUG--UGUGUAUUUAUGUAUGUAUAUUAGGUGUUUAUGCAGGGCUUCCCCUUUUUAGGUUAAUAUGCUUUAUAAGGCAUUUCCUUUUGCUAGCGCAGCGCAUUUCAUGCGC
..-......(((--((..(((....)))..)))))...(((((...((((((....))).....(((.....((((((....))))))..)))..))).))))).((((((...)))))) ( -28.20)
>DroSim_CAF1 31476 98 + 1
----------------------UAUAUAUGUAUAUUAGGUGUUUAUGCAGGGCUUCCCCUUUUUAGGUUAAUAUGCUUUAUAAGGCAUUUCCUUUUGCUAGCGCAGCGCAUUUCAUGCGC
----------------------................(((((...((((((....))).....(((.....((((((....))))))..)))..))).))))).((((((...)))))) ( -23.80)
>DroEre_CAF1 51839 108 + 1
------CAUAUG--UGUG----UAUUUAUGUAUAUUAGGUGUUUAUGCAGGGCUUCCCCUUUUUAGGUUUAUAUGCUUUAUAAGGCAUUUCCUUUUGCUAGCGCAGCGCAUUUCAUGCGC
------.(((((--..((----....))..)))))...(((((...((((((....))).....(((.....((((((....))))))..)))..))).))))).((((((...)))))) ( -26.80)
>DroYak_CAF1 53724 110 + 1
------CCUAUGUGUGUG----UAUUUAUGUAUAUUAGGUGUUUAUGCAGGGCUUCCCCUUUUUAGGUUUAUAUGCUUUAUAAGGCAUUUCCUUUUGCUAGCGCAGCGCAUUUCAUGCGC
------.(((((((..((----....))..)))).)))(((((...((((((....))).....(((.....((((((....))))))..)))..))).))))).((((((...)))))) ( -28.10)
>consensus
______CCUAUG__UGUG____UAUGUAUGUAUAUUAGGUGUUUAUGCAGGGCUUCCCCUUUUUAGGUUAAUAUGCUUUAUAAGGCAUUUCCUUUUGCUAGCGCAGCGCAUUUCAUGCGC
......................................(((((...((((((....))).....(((.....((((((....))))))..)))..))).))))).((((((...)))))) (-23.80 = -23.80 +   0.00)

alignment

secondary structure

dotplot

Window 8

Location	19,666,253 – 19,666,371
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	88.83
Mean single sequence MFE	-22.32
Consensus MFE	-21.90
Energy contribution	-21.90
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.08
Structure conservation index	0.98
SVM decision value	3.19
SVM RNA-class probability	0.998692
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19666253 118 - 22224390
GCGCAUGAAAUGCGCUGCGCUAGCAAAAGGAAAUGCCUUAUAAAGCAUAUUAACCUAAAAAGGGGAAGCCCUGCAUAAACACCUAAUAUACAUACAUAAUUACACA--CAUAGGCCAACA
((((((...))))))((((((.....((((.....))))....)))..............((((....)))))))......((((.....................--..))))...... ( -22.40)
>DroSec_CAF1 39742 117 - 1
GCGCAUGAAAUGCGCUGCGCUAGCAAAAGGAAAUGCCUUAUAAAGCAUAUUAACCUAAAAAGGGGAAGCCCUGCAUAAACACCUAAUAUACAUACAUAAAUACACA--CAUGGGUCA-UA
((((((...))))))((((((.....((((.....))))....)))..............((((....))))))).....(((((.....................--..)))))..-.. ( -23.30)
>DroSim_CAF1 31476 98 - 1
GCGCAUGAAAUGCGCUGCGCUAGCAAAAGGAAAUGCCUUAUAAAGCAUAUUAACCUAAAAAGGGGAAGCCCUGCAUAAACACCUAAUAUACAUAUAUA----------------------
((((((...))))))((((((.....((((.....))))....)))..............((((....))))))).......................---------------------- ( -21.90)
>DroEre_CAF1 51839 108 - 1
GCGCAUGAAAUGCGCUGCGCUAGCAAAAGGAAAUGCCUUAUAAAGCAUAUAAACCUAAAAAGGGGAAGCCCUGCAUAAACACCUAAUAUACAUAAAUA----CACA--CAUAUG------
((((((...))))))((((((.....((((.....))))....)))..............((((....))))))).......................----....--......------ ( -21.90)
>DroYak_CAF1 53724 110 - 1
GCGCAUGAAAUGCGCUGCGCUAGCAAAAGGAAAUGCCUUAUAAAGCAUAUAAACCUAAAAAGGGGAAGCCCUGCAUAAACACCUAAUAUACAUAAAUA----CACACACAUAGG------
((((((...))))))((((((.....((((.....))))....)))..............((((....)))))))......((((.............----........))))------ ( -22.10)
>consensus
GCGCAUGAAAUGCGCUGCGCUAGCAAAAGGAAAUGCCUUAUAAAGCAUAUUAACCUAAAAAGGGGAAGCCCUGCAUAAACACCUAAUAUACAUAAAUA____CACA__CAUAGG______
((((((...))))))((((((.....((((.....))))....)))..............((((....)))))))............................................. (-21.90 = -21.90 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:08 2006