Locus 6300

Sequence ID	2L_DroMel_CAF1
Location	17,545,042 – 17,545,154
Length	112
Max. P	0.576207

overview

Window 2

Location	17,545,042 – 17,545,154
Length	112
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	83.11
Mean single sequence MFE	-26.61
Consensus MFE	-17.82
Energy contribution	-18.02
Covariance contribution	0.19
Combinations/Pair	1.04
Mean z-score	-1.72
Structure conservation index	0.67
SVM decision value	-0.04
SVM RNA-class probability	0.512606
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17545042 112 + 22407834
CUUGCCAUGGCGGAAACUUGCCAGGCAAUUUCCGCUUUAAGUACCAUUAAAUUCGUAUUCGUUUUAAUGAGCUCUCAACAUGAUGCCCCCUUCGGCGGAACGUCUCUAUAUU
.(((((.(((((....)..))))))))).(((((((..(((...(((((((..((....)).))))))).((((.......)).))...))).)))))))............ ( -30.40)
>DroPse_CAF1 65143 102 + 1
CUUGCCAUGGCGGAAACUUGCCAGGCAAUUUCCGCUUUAAGUACCAUUAAAUUCGUAUUCGUUUUAAUGAGCUCUCAACAUGAUGCU----UCGA----GCCCCCCC--AUU
.(((((.(((((....)..))))))))).....((((.(((((.(((((((..((....)).))))))).....((.....))))))----).))----))......--... ( -26.10)
>DroSec_CAF1 62034 111 + 1
CUCGUCGUGGCGGAAACUUGCCAGGCAAUUUCCGCUUUAAGUACCAUUAAAUUCGUAUUU-UUUUAAUGAGCUCUCAACAUGAUGCCCCCUUCGGCGCAACGUCUCUAUAUU
...(((((((((((((.((((...)))))))))))....(((..(((((((.........-.))))))).))).....))))))(((......)))................ ( -26.10)
>DroMoj_CAF1 69204 112 + 1
CUUGGCAUGGCGGAAACUUCCCAGGCAAUUUCCGCUUUAAGUACCAUUAAAUUCGUAUUCGUUUUAAUGAGCUCUCAACAUGAUGCUGCUCGAACCGCAGCGACCGCCUGUG
....(((.(((((..((((...((((.......)))).))))..(((((((..((....)).)))))))..............((((((.......)))))).)))))))). ( -29.20)
>DroAna_CAF1 70653 112 + 1
CUUGGCAUGGCGGAAACUUGCCAGGCAAUUUCCGCUUUAAGUACCAUUAAAUUCGUAUUCAUUUUAAUGAGCUCUCAACAUGAUGCCCCUUUUAUCCCGGGUUCUGUUUCCC
...(((((((((((((.((((...))))))))))))...(((..(((((((...........))))))).))).........)))))...........(((........))) ( -25.90)
>DroPer_CAF1 65411 102 + 1
CUUACCACGGCGGAAACUUGCCAGGCAAUUUCCGCUUUAAGUACCAUUAAAUUCGUAUUCGUUUUAAUGAGCUCUCAACAUGAUGCU----UCGA----GCCCCCCC--AUU
..(((...((((((((.((((...))))))))))))....))).(((((((..((....)).))))))).((((.............----..))----))......--... ( -21.96)
>consensus
CUUGCCAUGGCGGAAACUUGCCAGGCAAUUUCCGCUUUAAGUACCAUUAAAUUCGUAUUCGUUUUAAUGAGCUCUCAACAUGAUGCCCC_UUCGACGCAGCGUCCCC_UAUU
.....(((((((((((.((((...)))))))))))....(((..(((((((...........))))))).))).....)))).............................. (-17.82 = -18.02 +   0.19)

alignment

secondary structure

dotplot

Window 3

Location	17,545,042 – 17,545,154
Length	112
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	83.11
Mean single sequence MFE	-31.08
Consensus MFE	-21.74
Energy contribution	-21.77
Covariance contribution	0.03
Combinations/Pair	1.04
Mean z-score	-1.75
Structure conservation index	0.70
SVM decision value	0.09
SVM RNA-class probability	0.576207
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17545042 112 - 22407834
AAUAUAGAGACGUUCCGCCGAAGGGGGCAUCAUGUUGAGAGCUCAUUAAAACGAAUACGAAUUUAAUGGUACUUAAAGCGGAAAUUGCCUGGCAAGUUUCCGCCAUGGCAAG
............(((((((....)..........(((((.((.(((((((.((....))..))))))))).))))).)))))).(((((((((........)))).))))). ( -31.30)
>DroPse_CAF1 65143 102 - 1
AAU--GGGGGGGC----UCGA----AGCAUCAUGUUGAGAGCUCAUUAAAACGAAUACGAAUUUAAUGGUACUUAAAGCGGAAAUUGCCUGGCAAGUUUCCGCCAUGGCAAG
..(--(((.((((----((..----(((.....)))..))))))((((((.((....))..))))))....)))).........(((((((((........)))).))))). ( -27.50)
>DroSec_CAF1 62034 111 - 1
AAUAUAGAGACGUUGCGCCGAAGGGGGCAUCAUGUUGAGAGCUCAUUAAAA-AAAUACGAAUUUAAUGGUACUUAAAGCGGAAAUUGCCUGGCAAGUUUCCGCCACGACGAG
..........((((((.((....)).))......(((((.((.(((((((.-.........))))))))).))))).(((((((((((...)).)))))))))...)))).. ( -31.60)
>DroMoj_CAF1 69204 112 - 1
CACAGGCGGUCGCUGCGGUUCGAGCAGCAUCAUGUUGAGAGCUCAUUAAAACGAAUACGAAUUUAAUGGUACUUAAAGCGGAAAUUGCCUGGGAAGUUUCCGCCAUGCCAAG
....((((((.(((((.......))))))))((((((((.((.(((((((.((....))..))))))))).))))).(((((((((.(....).)))))))))))))))... ( -37.30)
>DroAna_CAF1 70653 112 - 1
GGGAAACAGAACCCGGGAUAAAAGGGGCAUCAUGUUGAGAGCUCAUUAAAAUGAAUACGAAUUUAAUGGUACUUAAAGCGGAAAUUGCCUGGCAAGUUUCCGCCAUGCCAAG
(((........)))...........(((((....(((((.((.(((((((...........))))))))).))))).(((((((((((...)).))))))))).)))))... ( -30.60)
>DroPer_CAF1 65411 102 - 1
AAU--GGGGGGGC----UCGA----AGCAUCAUGUUGAGAGCUCAUUAAAACGAAUACGAAUUUAAUGGUACUUAAAGCGGAAAUUGCCUGGCAAGUUUCCGCCGUGGUAAG
...--....((((----((..----(((.....)))..)))))).(((..(((..(((.(......).)))......(((((((((((...)).))))))))))))..))). ( -28.20)
>consensus
AAUA_AGAGACGCUGCGCCGAA_GGAGCAUCAUGUUGAGAGCUCAUUAAAACGAAUACGAAUUUAAUGGUACUUAAAGCGGAAAUUGCCUGGCAAGUUUCCGCCAUGGCAAG
..............................(((((((((.((.(((((((...........))))))))).))))).(((((((((........)))))))))))))..... (-21.74 = -21.77 +   0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:37 2006