Locus 7045

Sequence ID	3L_DroMel_CAF1
Location	19,090,241 – 19,090,364
Length	123
Max. P	0.879531

overview

Window 5

Location	19,090,241 – 19,090,332
Length	91
Sequences	6
Columns	92
Reading direction	forward
Mean pairwise identity	83.70
Mean single sequence MFE	-37.27
Consensus MFE	-27.14
Energy contribution	-28.67
Covariance contribution	1.53
Combinations/Pair	1.04
Mean z-score	-2.23
Structure conservation index	0.73
SVM decision value	0.36
SVM RNA-class probability	0.703237
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19090241 91 + 23771897
UUGUCUACGUGGCAAAACUUCCGCUGCGGUU-UUGGCUGCUGCGGUGGUUUUGGCCGCUUCGGUGGCUGCGGCAACCGGAAGCAGCAAACAC
.......((..((.........))..))(((-...((((((.((((.((..(((((((....)))))))..)).))))..)))))).))).. ( -41.30)
>DroPse_CAF1 11378 74 + 1
UUGUCUACGUGGCAGGACUUCCGCUGCUGUUGUCGGCUGCUGCG------------------GUGGCUGCGGCAACCGGAAACGCCAAACAC
.........((((.((....))......(((..(((.(((((((------------------(...)))))))).)))..)))))))..... ( -27.90)
>DroSim_CAF1 7713 91 + 1
UUGUCUACGUGGCAAAACUUCCGCUGCGGUU-UUGGCUGCUGCGGUGGUUUUGGCCGCUUCGGUGGCUGCGGCAACCGGAAGCAGCAAACAC
.......((..((.........))..))(((-...((((((.((((.((..(((((((....)))))))..)).))))..)))))).))).. ( -41.30)
>DroEre_CAF1 8390 91 + 1
UUGUCUACGUGGCAAAACUUCCGCUGCGGUU-UUGGCUGCUGCGGUGGUUUUGGCCGCUUCGGUGGCUGCGGCAGCCGGAAGCACCAAACAC
(((((.....)))))..((((((((((.((.-..(((..(((.((((((....)))))).)))..))))).)))).)))))).......... ( -41.70)
>DroYak_CAF1 7617 91 + 1
UUGUCUACGUGGCAAAACUUCCGCUGCGGUU-UUGGCUGCUGCGGUGGUUUUGGCCGCUUCGGUGGCUGCGGCAGCCGGAAGUACCAAACAC
(((((.....))))).(((((((((((.((.-..(((..(((.((((((....)))))).)))..))))).)))).)))))))......... ( -43.50)
>DroPer_CAF1 6775 74 + 1
UUGUCUACGUGGCAGGACUUCCGCUGCUGUUGUCGGCUGCUGCG------------------GUGGCUGCGGCAACCGGAAACGCCAAACAC
.........((((.((....))......(((..(((.(((((((------------------(...)))))))).)))..)))))))..... ( -27.90)
>consensus
UUGUCUACGUGGCAAAACUUCCGCUGCGGUU_UUGGCUGCUGCGGUGGUUUUGGCCGCUUCGGUGGCUGCGGCAACCGGAAGCACCAAACAC
(((((.....)))))..((((((.(((.((....(((..(((.((((((....)))))).)))..))))).)))..)))))).......... (-27.14 = -28.67 +   1.53)

alignment

secondary structure

dotplot

Window 6

Location	19,090,272 – 19,090,364
Length	92
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	80.46
Mean single sequence MFE	-40.27
Consensus MFE	-30.53
Energy contribution	-30.53
Covariance contribution	0.00
Combinations/Pair	1.19
Mean z-score	-1.91
Structure conservation index	0.76
SVM decision value	0.91
SVM RNA-class probability	0.879531
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19090272 92 + 23771897
--UUGGCUGCUGCGGUGGUUUUGGCCGCUUCGGU---------GGCUGCGGCAACCGGAAGCAGCAAACACUUUCCGGUCACGCAGUCACAAGGACUCUCC--GC---
--...((((((.((((.((..(((((((....))---------)))))..)).))))..))))))..........(((....(.((((.....))))).))--).--- ( -38.30)
>DroSim_CAF1 7744 92 + 1
--UUGGCUGCUGCGGUGGUUUUGGCCGCUUCGGU---------GGCUGCGGCAACCGGAAGCAGCAAACACUUUCCGGUCACGCAGUCACAAGGACUCUCC--GC---
--...((((((.((((.((..(((((((....))---------)))))..)).))))..))))))..........(((....(.((((.....))))).))--).--- ( -38.30)
>DroEre_CAF1 8421 92 + 1
--UUGGCUGCUGCGGUGGUUUUGGCCGCUUCGGU---------GGCUGCGGCAGCCGGAAGCACCAAACACUUUCCGGUCACGCAGUCACAAGGACUCUCC--GC---
--.((((((((((.((......((((((....))---------)))))).)))((((((((..........))))))))...)))))))...((.....))--..--- ( -37.80)
>DroYak_CAF1 7648 92 + 1
--UUGGCUGCUGCGGUGGUUUUGGCCGCUUCGGU---------GGCUGCGGCAGCCGGAAGUACCAAACACUUUCCGGUCACGCAGUCGCAAGGACUCUCC--GC---
--...((.((((((((.((...((((((....))---------)))))).)).(((((((((.......)).)))))))..)))))).))..((.....))--..--- ( -40.40)
>DroAna_CAF1 8782 103 + 1
GGUUGGCUGCUGCGGUGGAUUUGCCGGCUUUGGUGGCUUUGGCGGCUGCGGCAACCGGAAGUGCCAAACACUUUCCGGUCACGCAGUCACGAGGUUGCCCU--CC---
(((((((..((.....))....)))))))..((..((((((..(((((((...((((((((((.....))).)))))))..))))))).))))))..))..--..--- ( -48.80)
>DroPer_CAF1 6806 80 + 1
-GUCGGCUGCUGCG------------------GU---------GGCUGCGGCAACCGGAAACGCCAAACACUUUCCGGUCACGCAGUCACGAGGUUUCCCUCAGCUGU
-..(((((......------------------((---------(((((((...((((((((..........))))))))..)))))))))((((....))))))))). ( -38.00)
>consensus
__UUGGCUGCUGCGGUGGUUUUGGCCGCUUCGGU_________GGCUGCGGCAACCGGAAGCACCAAACACUUUCCGGUCACGCAGUCACAAGGACUCUCC__GC___
..(((...((((.(((((......))))).)))).........(((((((...((((((((..........))))))))..))))))).)))................ (-30.53 = -30.53 +   0.00)

alignment

secondary structure

dotplot

Window 7

Location	19,090,272 – 19,090,364
Length	92
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	80.46
Mean single sequence MFE	-35.45
Consensus MFE	-23.56
Energy contribution	-23.43
Covariance contribution	-0.12
Combinations/Pair	1.23
Mean z-score	-1.26
Structure conservation index	0.66
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19090272 92 - 23771897
---GC--GGAGAGUCCUUGUGACUGCGUGACCGGAAAGUGUUUGCUGCUUCCGGUUGCCGCAGCC---------ACCGAAGCGGCCAAAACCACCGCAGCAGCCAA--
---((--((.(..((...(((.(((((..((((((((((....)))..)))))))..).)))).)---------)).))..)((......)).)))).........-- ( -35.30)
>DroSim_CAF1 7744 92 - 1
---GC--GGAGAGUCCUUGUGACUGCGUGACCGGAAAGUGUUUGCUGCUUCCGGUUGCCGCAGCC---------ACCGAAGCGGCCAAAACCACCGCAGCAGCCAA--
---((--((.(..((...(((.(((((..((((((((((....)))..)))))))..).)))).)---------)).))..)((......)).)))).........-- ( -35.30)
>DroEre_CAF1 8421 92 - 1
---GC--GGAGAGUCCUUGUGACUGCGUGACCGGAAAGUGUUUGGUGCUUCCGGCUGCCGCAGCC---------ACCGAAGCGGCCAAAACCACCGCAGCAGCCAA--
---((--((.(..((...(((.((((((..((((((.((.......))))))))..).))))).)---------)).))..)((......)).)))).........-- ( -31.10)
>DroYak_CAF1 7648 92 - 1
---GC--GGAGAGUCCUUGCGACUGCGUGACCGGAAAGUGUUUGGUACUUCCGGCUGCCGCAGCC---------ACCGAAGCGGCCAAAACCACCGCAGCAGCCAA--
---..--((.....))..((..(((((((.((((((.(((.....)))))))))..(((((....---------......)))))......)).)))))..))...-- ( -31.00)
>DroAna_CAF1 8782 103 - 1
---GG--AGGGCAACCUCGUGACUGCGUGACCGGAAAGUGUUUGGCACUUCCGGUUGCCGCAGCCGCCAAAGCCACCAAAGCCGGCAAAUCCACCGCAGCAGCCAACC
---.(--(((....))))(((.(((((..(((((((.(((.....))))))))))..).)))).)))....(((.........))).........((....))..... ( -41.30)
>DroPer_CAF1 6806 80 - 1
ACAGCUGAGGGAAACCUCGUGACUGCGUGACCGGAAAGUGUUUGGCGUUUCCGGUUGCCGCAGCC---------AC------------------CGCAGCAGCCGAC-
...(((((((....))))(((.(((((..((((((((.((.....))))))))))..).)))).)---------))------------------...))).......- ( -38.70)
>consensus
___GC__GGAGAGUCCUUGUGACUGCGUGACCGGAAAGUGUUUGGUGCUUCCGGUUGCCGCAGCC_________ACCGAAGCGGCCAAAACCACCGCAGCAGCCAA__
........(((....)))((..((((((((((((((.(((.....)))))))))))).))))).................((((.........)))).))........ (-23.56 = -23.43 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:20 2006