Locus 3134

Sequence ID	3R_DroMel_CAF1
Location	8,264,631 – 8,264,741
Length	110
Max. P	0.990297

overview

Window 7

Location	8,264,631 – 8,264,741
Length	110
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	76.94
Mean single sequence MFE	-36.96
Consensus MFE	-17.32
Energy contribution	-19.85
Covariance contribution	2.53
Combinations/Pair	1.13
Mean z-score	-2.58
Structure conservation index	0.47
SVM decision value	1.46
SVM RNA-class probability	0.956298
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8264631 110 + 27905053
UUAAUGUUCAAAAUGCUCUGCUCCAGUCGCCAGUUUUGGCAGAUGUGCAUGGCAUCCGCCAGAAAGCUGGACACGAUCA-GCAUCCUGGCCAGAGUUGAAAGCAGC---------AUCUU
...((((((.....((((((........((((((((((((.(((((.....))))).))))))).(((((......)))-))...))))))))))).....).)))---------))... ( -35.90)
>DroSec_CAF1 4517 110 + 1
UUAAUGUUCAGAAUGCUCUGCUCCAGUCGCCAGUUUUGGCAGAUAUACAUGGCAUCCGCCAGAAAGCUGGACACGACCA-GCAUCCUGGACAGAAUUAAAAGCAGC---------ACAUU
....(((((((.((((((((.((((((.(((......))).........((((....))))....)))))))).))...-)))).)))))))..............---------..... ( -33.00)
>DroSim_CAF1 4720 110 + 1
UUAAUGUUCAGAAUGCUCUGCUCCAGUCGCCAGUUUUGGCAGAUGUAAAUGGCAUCCGCCAGAAAGCUGGACACGACCA-GCAUCCUGGACAGAGUUAAAAGCAGC---------ACAUU
....((((......((((((.(((((.......(((((((.(((((.....))))).))))))).(((((......)))-))...)))))))))))....))))..---------..... ( -40.70)
>DroEre_CAF1 2904 110 + 1
UUCAUGUUCAGGAUGCUCUGCUCCAGUCGCCAGUAUUGGCAGAUGUGCAGAGCAUCCGCCAGAAAGCUGGACACGAUAA-GCAUCCUGGCAAAAGUUGCAAGCAGG---------AUCUU
.((.(((((((((((((((((....((((((......))).)))..)))))))))))((......)))))))).)).((-(.(((((((((.....)))...))))---------))))) ( -46.30)
>DroYak_CAF1 4105 110 + 1
UUCAUGUUCAGGAUGCUCUGCUCCAGUCGCCAAUACUGGCAGAUGUGCAGGGCAUCCGCCAGAAAGCUGGACACGAUAA-GCAUCCUGGCAAAAGUUGCAAGCAGG---------AUCUU
.((.(((((((((((((((((....(((((((....)))).)))..)))))))))))((......)))))))).)).((-(.(((((((((.....)))...))))---------))))) ( -46.00)
>DroAna_CAF1 6908 119 + 1
GUCAAAUUCAGCUCCAUCGCCUUGAAGCGACAGUUCUUGAUGCAGUCCAUUCCAUCCGCCACAAAAUUGGACACGAUCAUGCAGCGCG-CCACAGCCAAAAAGAUAGACUUAAGAAGUUU
(((.......(((.((((((......)))).......((((...(((((..................)))))...)))))).)))((.-.....))..........)))........... ( -19.87)
>consensus
UUAAUGUUCAGAAUGCUCUGCUCCAGUCGCCAGUUUUGGCAGAUGUGCAUGGCAUCCGCCAGAAAGCUGGACACGAUCA_GCAUCCUGGCCAGAGUUAAAAGCAGC_________AUCUU
.......((((.((((((((.((((((......(((((((.(((((.....))))).))))))).)))))))).))....)))).))))............................... (-17.32 = -19.85 +   2.53)

alignment

secondary structure

dotplot

Window 8

Location	8,264,631 – 8,264,741
Length	110
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	76.94
Mean single sequence MFE	-40.47
Consensus MFE	-21.77
Energy contribution	-22.92
Covariance contribution	1.14
Combinations/Pair	1.17
Mean z-score	-2.88
Structure conservation index	0.54
SVM decision value	2.21
SVM RNA-class probability	0.990297
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8264631 110 - 27905053
AAGAU---------GCUGCUUUCAACUCUGGCCAGGAUGC-UGAUCGUGUCCAGCUUUCUGGCGGAUGCCAUGCACAUCUGCCAAAACUGGCGACUGGAGCAGAGCAUUUUGAACAUUAA
(((((---------(((((((.((....(.(((((((.((-((........))))..))(((((((((.......)))))))))...))))).).))))))..))))))))......... ( -38.00)
>DroSec_CAF1 4517 110 - 1
AAUGU---------GCUGCUUUUAAUUCUGUCCAGGAUGC-UGGUCGUGUCCAGCUUUCUGGCGGAUGCCAUGUAUAUCUGCCAAAACUGGCGACUGGAGCAGAGCAUUCUGAACAUUAA
(((((---------.(((((......((((.((((((.((-(((......))))).))))))))))..(((.((.....(((((....))))))))))))))).)))))........... ( -39.50)
>DroSim_CAF1 4720 110 - 1
AAUGU---------GCUGCUUUUAACUCUGUCCAGGAUGC-UGGUCGUGUCCAGCUUUCUGGCGGAUGCCAUUUACAUCUGCCAAAACUGGCGACUGGAGCAGAGCAUUCUGAACAUUAA
(((((---------.(((((((....((.(.((((((.((-(((......)))))..))(((((((((.......)))))))))...)))))))..))))))).)))))........... ( -40.30)
>DroEre_CAF1 2904 110 - 1
AAGAU---------CCUGCUUGCAACUUUUGCCAGGAUGC-UUAUCGUGUCCAGCUUUCUGGCGGAUGCUCUGCACAUCUGCCAAUACUGGCGACUGGAGCAGAGCAUCCUGAACAUGAA
(((((---------((((...(((.....))))))))).)-)).((((((.(((((....)))(((((((((((.((..(((((....)))))..))..))))))))))))).)))))). ( -49.30)
>DroYak_CAF1 4105 110 - 1
AAGAU---------CCUGCUUGCAACUUUUGCCAGGAUGC-UUAUCGUGUCCAGCUUUCUGGCGGAUGCCCUGCACAUCUGCCAGUAUUGGCGACUGGAGCAGAGCAUCCUGAACAUGAA
(((((---------((((...(((.....))))))))).)-)).((((((.(((((....)))((((((.((((.((..((((......))))..))..)))).)))))))).)))))). ( -43.90)
>DroAna_CAF1 6908 119 - 1
AAACUUCUUAAGUCUAUCUUUUUGGCUGUGG-CGCGCUGCAUGAUCGUGUCCAAUUUUGUGGCGGAUGGAAUGGACUGCAUCAAGAACUGUCGCUUCAAGGCGAUGGAGCUGAAUUUGAC
...........(((......((..((((..(-....)..).((((.(((((((.(((..(.....)..)))))))).))))))....((((((((....)))))))))))..))...))) ( -31.80)
>consensus
AAGAU_________GCUGCUUUCAACUCUGGCCAGGAUGC_UGAUCGUGUCCAGCUUUCUGGCGGAUGCCAUGCACAUCUGCCAAAACUGGCGACUGGAGCAGAGCAUUCUGAACAUGAA
...............((((((.............((((((......)))))).(((...(((((((((.......))))))))).....))).....))))))................. (-21.77 = -22.92 +   1.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:52 2006