Locus 7590

Sequence ID	3R_DroMel_CAF1
Location	20,348,807 – 20,348,977
Length	170
Max. P	0.940155

overview

Window 7

Location	20,348,807 – 20,348,897
Length	90
Sequences	6
Columns	90
Reading direction	reverse
Mean pairwise identity	89.93
Mean single sequence MFE	-40.72
Consensus MFE	-34.17
Energy contribution	-34.00
Covariance contribution	-0.17
Combinations/Pair	1.19
Mean z-score	-2.62
Structure conservation index	0.84
SVM decision value	1.31
SVM RNA-class probability	0.940155
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20348807 90 - 27905053
CUCCAGCUGCAGCUGCAGCUCCUCCCAGCAACGUCAGCAGAGCAGGGCCAAGGUUUUGCGAUGGGGCUGGGAACGAACAGGAGGUAUUGA
((((((((((....))))))..(((((((..((((.(((((((.........)))))))))))..))))))).......))))....... ( -43.50)
>DroPse_CAF1 176714 90 - 1
CUCCAGCUGCAGCUGCAGCUCCUCCCAGCAACGCCAGCAGAGUCGGGCCAAGGUUCUGCGGUGGGGUUGGGAGCGAACAGGAGGUGUCGA
((((.(((((....)))))((((((((((..((((.(((((..(.......)..)))))))))..)))))))).))...))))....... ( -49.40)
>DroEre_CAF1 163163 90 - 1
CUCCAGCUGCAGCUGCAGCUCCUCCCAGCAACGCCAGCAGAGCAGGGCCAAGGUUUUGCGAUGGGGCUGGGAACGAACAGGCGGUACUGA
....((((((....))))))..(((((((....(((.....(((((((....)))))))..))).))))))).....(((......))). ( -36.90)
>DroYak_CAF1 165882 90 - 1
CUCCAGCUGCAGCUGCAGCUCCUCCCAGCAACGCCAGCAAAGCAGGGCCAAGGUUUUGCGAUGGGGCUGGGAACGAACAGGCGGUAUUGA
(.((((((((....))))))..(((((((....(((.....(((((((....)))))))..))).))))))).......)).)....... ( -36.00)
>DroAna_CAF1 164030 90 - 1
UUCCAGCUGCAGUUGCAGCUCCGCCCAGCAACGCCAACAGAGUCGGGCCAAAGUGCUGAGAUGGGGCUGGGAAAAAACAGGAGGUGUUGA
((((((((.((....((((.(.((((.((............)).))))....).))))...)).))))))))...((((.....)))).. ( -29.10)
>DroPer_CAF1 183396 90 - 1
CUCCAGCUGCAGCUGCAGCUCCUCCCAGCAACGCCAGCAGAGUCGGGCCAAGGUUCUGCGGUGGGGUUGGGAGCGAACAGGAGGUGUCGA
((((.(((((....)))))((((((((((..((((.(((((..(.......)..)))))))))..)))))))).))...))))....... ( -49.40)
>consensus
CUCCAGCUGCAGCUGCAGCUCCUCCCAGCAACGCCAGCAGAGCAGGGCCAAGGUUCUGCGAUGGGGCUGGGAACGAACAGGAGGUAUUGA
((((((((((....))))))..(((((((..((...(((((((.........)))))))..))..))))))).......))))....... (-34.17 = -34.00 +  -0.17)

alignment

secondary structure

dotplot

Window 8

Location	20,348,872 – 20,348,977
Length	105
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	86.16
Mean single sequence MFE	-46.92
Consensus MFE	-35.85
Energy contribution	-35.60
Covariance contribution	-0.25
Combinations/Pair	1.23
Mean z-score	-2.50
Structure conservation index	0.76
SVM decision value	0.28
SVM RNA-class probability	0.666120
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20348872 105 + 27905053
GGAGGAGCUGCAGCUGCAGCUGGAGCAGUGACUCACCGUGGUGGCUGUGGAGUUCCGGCGACUGAAGUCAUUGACCAACUCGGUGCUGGAGUGGCCUAGGCCAAA
((.(((((((((((..(.((.((((......))).).)).)..)))))..))))))(((.(((..((.((((((.....))))))))..))).)))....))... ( -42.40)
>DroPse_CAF1 176779 105 + 1
GGAGGAGCUGCAGCUGCAGCUGGAGCAAUGACUCACCAAAGUGGCCGUGGAGUUGCGGCGACUGAAGUCGUUGCUCAGCCCGGUGCUGGAGUGGCCCAGGCCCAG
...((((((((....)))))).(((((((((((......(((.(((((......))))).)))..))))))))))).(((.((.(((.....))))).))))).. ( -51.90)
>DroEre_CAF1 163228 105 + 1
GGAGGAGCUGCAGCUGCAGCUGGAGCAGUGACUCACCGUGGUGGCUGUGGAGUUGCGGCGACUGAAGUCAUUGACCAGCUCGGUGCUGGAGUGUCCUAGGCCAAA
(((((((((.((((...((((((..((((((((((.(((.(..(((....)))..).)))..)).)))))))).))))))....)))).))).))))...))... ( -47.90)
>DroYak_CAF1 165947 105 + 1
GGAGGAGCUGCAGCUGCAGCUGGAGCAGUGACUCACCGUGGUGGCUGUGGAGUUGCGGCGACUGAAGUCAUUGACCAGCUCCGUGCUGGAGUGUCCUAGGCCAAA
(((((((((.((((((.((((((..((((((((((.(((.(..(((....)))..).)))..)).)))))))).)))))).)).)))).))).))))...))... ( -49.20)
>DroAna_CAF1 164095 105 + 1
GGCGGAGCUGCAACUGCAGCUGGAACAGUGACUCACCGUUGUCGCCGCCGAAUUCCGUCGACUAAAGUCAUUGCCCAGUCCAGUAUUGGAGUGCCCUAAACCAUA
(((((((((((....)))))(((....(((((........)))))..)))...))))))(((....)))......((.(((......))).))............ ( -34.40)
>DroPer_CAF1 183461 105 + 1
GGAGGAGCUGCAGCUGCAGCUGGAGCAAUGACUCAUCAAAGUCGCCGUGGAGUUGCGGCGACUGAAGUCGUUGCUCAGCCCGGUGCUGGAGUGGCCCAGGCCCAG
...((((((((....)))))).(((((((((((......(((((((((......)))))))))..))))))))))).(((.((.(((.....))))).))))).. ( -55.70)
>consensus
GGAGGAGCUGCAGCUGCAGCUGGAGCAGUGACUCACCGUGGUGGCCGUGGAGUUGCGGCGACUGAAGUCAUUGACCAGCCCGGUGCUGGAGUGGCCUAGGCCAAA
((.((.(((.((((.((.(((((..((((((((.....((((.(((((......))))).)))).)))))))).)))))...)))))).)))..))....))... (-35.85 = -35.60 +  -0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:36 2006