Locus 3387

Sequence ID	X_DroMel_CAF1
Location	9,045,719 – 9,045,880
Length	161
Max. P	0.976082

overview

Window 6

Location	9,045,719 – 9,045,820
Length	101
Sequences	4
Columns	108
Reading direction	reverse
Mean pairwise identity	69.50
Mean single sequence MFE	-30.50
Consensus MFE	-12.15
Energy contribution	-16.40
Covariance contribution	4.25
Combinations/Pair	1.11
Mean z-score	-2.41
Structure conservation index	0.40
SVM decision value	0.59
SVM RNA-class probability	0.791152
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9045719 101 - 22224390
UCCUCUUCGU---GGGGUGGCACCAUUUAUUUUUG----GGGUUCUGAAACUUUUGGUGGAAAAACAGCAGAUACAGAAACGUAUAGAAAACCGGGUGGUGCCAAUAU
.((((.....---))))((((((((((......((----(..(((((.....((((.((......)).))))(((......))))))))..))))))))))))).... ( -32.10)
>DroSim_CAF1 3599 99 - 1
UCCUCUUCGU---GGGGUGGCACCAUUUAUUUUG------GGGUCUGAAACUGUUGGAGGAAAAACAGCAGAAACAGAAGCGUAUAAAAAACCGGGUGGUGCCAAUAU
.((((.....---))))(((((((((((.(((((------...((((...((((((.........))))))...))))......)))))....))))))))))).... ( -31.30)
>DroYak_CAF1 3598 93 - 1
UUCUCCUCGGAGGGGGGUGGCCCCAUUUAUUUUG------GGG-CUGAAACUGUUGGAGGGAAA--------AACAUAGGCGUAUAAAAAACCGGGUGGUGCCAAUGU
(((.((((.((.((...((((((((.......))------)))-)))...)).)).))))))).--------.((((.(((.........(((....)))))).)))) ( -34.10)
>DroAna_CAF1 4984 92 - 1
CGCUCUUCGG---GGGGUGGCCCCAUUUUUUAUUGUUCCAGCCGCCGAAAAUUUCAAU----AAAUAGA--AAACAAAA----CUAAAAAAUGGGGUGGUGCCAC---
..(((....)---))(((((((((((((((((...(((........)))..((((...----.....))--))......----.)))))))))))))..))))..--- ( -24.50)
>consensus
UCCUCUUCGG___GGGGUGGCACCAUUUAUUUUG______GGGUCUGAAACUGUUGGAGGAAAAACAGC__AAACAGAAGCGUAUAAAAAACCGGGUGGUGCCAAUAU
.((((........))))(((((((((((..(((..........((((...((((((.........))))))...))))..........)))..))))))))))).... (-12.15 = -16.40 +   4.25)

alignment

secondary structure

dotplot

Window 7

Location	9,045,787 – 9,045,880
Length	93
Sequences	3
Columns	96
Reading direction	forward
Mean pairwise identity	76.90
Mean single sequence MFE	-27.43
Consensus MFE	-21.29
Energy contribution	-21.40
Covariance contribution	0.11
Combinations/Pair	1.05
Mean z-score	-1.86
Structure conservation index	0.78
SVM decision value	1.76
SVM RNA-class probability	0.976082
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9045787 93 + 22224390
CCAAAAAUAAAUGGUGCCACCCC---ACGAAGAGGAAAGAUUAGAAACCGGCGAAGGUUACGAUCGGGGGGGCCCGUUUCGCUUCUUUUUUUUUUA
........((((((.(((.((((---.(.....)....((((.(.((((......)))).))))))))).)))))))))................. ( -25.60)
>DroSim_CAF1 3667 76 + 1
--CAAAAUAAAUGGUGCCACCCC---ACGAAGAGGAAAGAUUAGGAACCGGCGAAGGUUACGAUCAGGGGGGCCCGUUUCG---------------
--......((((((.(((.((((---.(.....)....((((...((((......))))..)))).)))))))))))))..--------------- ( -26.30)
>DroYak_CAF1 3657 88 + 1
--CAAAAUAAAUGGGGCCACCCCCCUCCGAGGAGAAGAGAUUAGGAAACGGCGAAGGUCACGAUCAAGGGGGCCCGUUUCG------UUUUUUUCC
--.((((((((((((....((((((((....)))....((((.(....)(((....)))..))))..)))))))))))).)------))))..... ( -30.40)
>consensus
__CAAAAUAAAUGGUGCCACCCC___ACGAAGAGGAAAGAUUAGGAACCGGCGAAGGUUACGAUCAGGGGGGCCCGUUUCG______UUUUUUU__
........((((((.(((.((((....((..............(....)(((....))).))....)))))))))))))................. (-21.29 = -21.40 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:09 2006