Locus 6586

Sequence ID	2R_DroMel_CAF1
Location	20,595,246 – 20,595,348
Length	102
Max. P	0.766378

overview

Window 2

Location	20,595,246 – 20,595,348
Length	102
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	79.68
Mean single sequence MFE	-44.63
Consensus MFE	-32.29
Energy contribution	-32.27
Covariance contribution	-0.03
Combinations/Pair	1.37
Mean z-score	-1.12
Structure conservation index	0.72
SVM decision value	0.08
SVM RNA-class probability	0.573180
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20595246 102 + 20766785
UGCUGCAGUGCCUCCGUCAGUUCUGUGUUAGUCCAUGAGCGUGGAGGACCGCCGCGUGGGGCUGAGUGCUGUCCCUUUGGUCGCGGCACUGCAAAAAA------GGAU---
...((((((.((((((...((((.(((......))))))).))))))...((((((.(((((........)))))......)))))))))))).....------....--- ( -42.50)
>DroVir_CAF1 92935 107 + 1
UGCUGCAGUGCCUCCGUUAGCUCCGUGUUGGUCCACGAGCGCGGCGGACCGCCGCGUGGCGCCGAAUGCUGUCCCUUGGGGCGUGGCACUGCAAGGAGAGAAA-GAGA---
...(((((((((.(....(((......((((((((((.(.((((....))))).))))).)))))..)))((((....))))).)))))))))..........-....--- ( -47.30)
>DroPse_CAF1 48895 105 + 1
UGCUGCAGGGCCUCCGUCAGCUCUGUGUUGGUCCACGAGCGAGGUGGUCCGCCCCGUGGUGCCGAGUGCUGUCCCUUGGGUCGUGGCACUGCAACAAA------GAAGGGA
....((.(((((.((.((.((((.(((......))))))))))).)))))))(((.((.(((..(((((..(((....))..)..)))))))).))..------...))). ( -41.60)
>DroGri_CAF1 97354 105 + 1
UGCUGCAGUGCCUCCGUCAGCUCGGUGUUUGUCCAGGAACGGGGCGGUCCGCCUCGUGGCGCCGAAUGCUGUCCCUUCGGUCGUGGCACUGCAAAGAC--AGA-GAGG---
...(((((((((.(((.((((((((((((.........((((((((...))))))))))))))))..))))......)))....))))))))).....--...-....--- ( -46.70)
>DroWil_CAF1 91116 102 + 1
UGUUGCAGUGCCUCCGUUAGCUCUGUGUUGGUCCAUGAACGCGGUGGACCACCUCGUGGUGCUGAAUGCUGACCCUUGGGGCGUGGCACUGCAAAAAA------AAAA---
..((((((((((....(((((.(..((.((((((((.......))))))))...))..).)))))((((...((....))))))))))))))))....------....--- ( -44.40)
>DroAna_CAF1 53317 108 + 1
UGCUGGAGCGCUUCCGUCAGCUCUGUGUUCGUCCAGGAGCGGGGGGGACCCCCUCGAGGCGCAGAGUGCUGUCCCUUGGGUCGGGGCACUGCAAGAGAAGAAAGGAAA---
.((....))..((((.((..((((......(.((..(((.((((....)))))))..)))((((.((.(((.((....)).))).)).)))).))))..))..)))).--- ( -45.30)
>consensus
UGCUGCAGUGCCUCCGUCAGCUCUGUGUUGGUCCACGAGCGCGGCGGACCGCCUCGUGGCGCCGAAUGCUGUCCCUUGGGUCGUGGCACUGCAAAAAA______GAAA___
...(((((((((.(...((((......(((((.(....((((((((...)))))))).).)))))..)))).((....))..).))))))))).................. (-32.29 = -32.27 +  -0.03)

alignment

secondary structure

dotplot

Window 3

Location	20,595,246 – 20,595,348
Length	102
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	79.68
Mean single sequence MFE	-39.50
Consensus MFE	-27.75
Energy contribution	-28.12
Covariance contribution	0.36
Combinations/Pair	1.22
Mean z-score	-1.51
Structure conservation index	0.70
SVM decision value	0.52
SVM RNA-class probability	0.766378
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20595246 102 - 20766785
---AUCC------UUUUUUGCAGUGCCGCGACCAAAGGGACAGCACUCAGCCCCACGCGGCGGUCCUCCACGCUCAUGGACUAACACAGAACUGACGGAGGCACUGCAGCA
---....------....((((((((((..((((...(((......))).(((......))))))).....((.(((.(..((.....))..))))))..)))))))))).. ( -33.20)
>DroVir_CAF1 92935 107 - 1
---UCUC-UUUCUCUCCUUGCAGUGCCACGCCCCAAGGGACAGCAUUCGGCGCCACGCGGCGGUCCGCCGCGCUCGUGGACCAACACGGAGCUAACGGAGGCACUGCAGCA
---....-.........((((((((((.(((((....)((......))))))((..((((((...))))))(((((((......))).))))....)).)))))))))).. ( -45.50)
>DroPse_CAF1 48895 105 - 1
UCCCUUC------UUUGUUGCAGUGCCACGACCCAAGGGACAGCACUCGGCACCACGGGGCGGACCACCUCGCUCGUGGACCAACACAGAGCUGACGGAGGCCCUGCAGCA
.......------..((((((((.(((.........((..(.((.((((......)))))))..)).(((((((((((......))).)))).)).)).))).)))))))) ( -42.40)
>DroGri_CAF1 97354 105 - 1
---CCUC-UCU--GUCUUUGCAGUGCCACGACCGAAGGGACAGCAUUCGGCGCCACGAGGCGGACCGCCCCGUUCCUGGACAAACACCGAGCUGACGGAGGCACUGCAGCA
---....-...--....((((((((((.((.((....)).((((..((((.((((.(..((((......))))..)))).....).)))))))).))..)))))))))).. ( -42.90)
>DroWil_CAF1 91116 102 - 1
---UUUU------UUUUUUGCAGUGCCACGCCCCAAGGGUCAGCAUUCAGCACCACGAGGUGGUCCACCGCGUUCAUGGACCAACACAGAGCUAACGGAGGCACUGCAACA
---....------....((((((((((..((((...))))........((((((....)))((((((.........))))))........)))......)))))))))).. ( -36.30)
>DroAna_CAF1 53317 108 - 1
---UUUCCUUUCUUCUCUUGCAGUGCCCCGACCCAAGGGACAGCACUCUGCGCCUCGAGGGGGUCCCCCCCGCUCCUGGACGAACACAGAGCUGACGGAAGCGCUCCAGCA
---...............(((((((((((.......)))...)))))..((((.((..(((((...)))))((((.((........)))))).....)).))))....))) ( -36.70)
>consensus
___UUUC______UUUUUUGCAGUGCCACGACCCAAGGGACAGCACUCGGCGCCACGAGGCGGUCCACCCCGCUCAUGGACCAACACAGAGCUGACGGAGGCACUGCAGCA
.................((((((((((....((....))...((.....)).((..(.((((...)))).)((((.((........))))))....)).)))))))))).. (-27.75 = -28.12 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:26 2006