Locus 3491

Sequence ID	2L_DroMel_CAF1
Location	10,193,567 – 10,193,669
Length	102
Max. P	0.915478

overview

Window 4

Location	10,193,567 – 10,193,669
Length	102
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	71.75
Mean single sequence MFE	-39.65
Consensus MFE	-21.84
Energy contribution	-22.32
Covariance contribution	0.48
Combinations/Pair	1.42
Mean z-score	-1.61
Structure conservation index	0.55
SVM decision value	0.63
SVM RNA-class probability	0.805346
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10193567 102 + 22407834
UUCCCUUCGCUGCUGCACCAGCUUAUUGUGGCCCAGUUCUUGGACAGUGGAU------GGCGAGAUAUCUUCCGCCGAUUCCUCGGCAUUUUGCAGCAAUGGCGU---UGA---
....(..((((((((((...((.....)).(((..(((....))).(.((((------((((.((.....)))))))..))).))))....))))))...)))).---.).--- ( -31.50)
>DroGri_CAF1 165298 108 + 1
CUCGCGACGCUGCUGGACGAGCUUGUGGUGACCCAGCUCGUGGGCAAACGAU---GCCUGUGACUUAUCCUCCGUCGAUUCACCAUUGCUCUGCAGCAGCGGUGUAAUCGG---
...(((.((((((((.(.((((..(((((((..(.(((((..((((.....)---)))..)))..........)).)..))))))).))))).)))))))).)))......--- ( -44.50)
>DroSec_CAF1 107225 102 + 1
UUCCCUUCGCUGCUGCACCAGCUUGUUGUGGCCCAGUUCCUGGACAGUGGAU------GGCGAGAUAUCCUCCGCCGAUUCCUCGGCAUUUUGCAGCAGUGGCGU---GGA---
.((((.((((((((((((((..(..((((...((((...))))))))..).)------)).(((.....))).(((((....)))))....))))))))))).).---)))--- ( -41.10)
>DroEre_CAF1 108858 102 + 1
UUCCCUACGCUGCUGCACUAGCUUGUUGUGGCCCACUUCCAGGGCAGCGGAU------GGGGAUAUGUCUCCCGCGGAUUCCUCGGCAUUUUGCAGCAGUGGAGU---GGA---
.(((((.((((((((((......(((((.(((((.......)))).((((..------.((((....))))))))......).)))))...)))))))))).)).---)))--- ( -42.40)
>DroWil_CAF1 196547 114 + 1
UUCACGACGCUGUUGCACCAACUUCGAGUGGCCCAGCUCGUGAGUAAUAAAUGAUGACGGUGACUUGUCCUCCACCUGCUCACCAUUGUUCUGCAACAAGGGUGUUAUGGGUUC
((((..(((((((((((..(((...((((......))))(((((((......((..(.(....))..)).......)))))))....))).))))))...)))))..))))... ( -32.22)
>DroYak_CAF1 109090 102 + 1
UUCCCUACGCUGCUGCACCAGCUUGAUGUGGCCCACCUCCUGGGCAGCGGAU------GGGGAUAUAUCUCCCGCCGAUUCCUCGGCACUUUGCAGCAGUGGUGU---GGA---
....((((((..((((..............(((((.....))))).(((((.------.((((......))))(((((....)))))..))))).))))..))))---)).--- ( -46.20)
>consensus
UUCCCUACGCUGCUGCACCAGCUUGUUGUGGCCCAGCUCCUGGGCAGUGGAU______GGCGACAUAUCCUCCGCCGAUUCCUCGGCAUUUUGCAGCAGUGGUGU___GGA___
.......((((((((((...(((.......(((((.....))))).............(((((...(((.......)))))))))))....))))))))))............. (-21.84 = -22.32 +   0.48)

alignment

secondary structure

dotplot

Window 5

Location	10,193,567 – 10,193,669
Length	102
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	71.75
Mean single sequence MFE	-37.37
Consensus MFE	-22.62
Energy contribution	-22.02
Covariance contribution	-0.60
Combinations/Pair	1.50
Mean z-score	-1.63
Structure conservation index	0.61
SVM decision value	1.10
SVM RNA-class probability	0.915478
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10193567 102 - 22407834
---UCA---ACGCCAUUGCUGCAAAAUGCCGAGGAAUCGGCGGAAGAUAUCUCGCC------AUCCACUGUCCAAGAACUGGGCCACAAUAAGCUGGUGCAGCAGCGAAGGGAA
---...---...((.(((((((....((((((....))))))...........((.------..((((((((((.....))))).......)).))).)).))))))).))... ( -32.21)
>DroGri_CAF1 165298 108 - 1
---CCGAUUACACCGCUGCUGCAGAGCAAUGGUGAAUCGACGGAGGAUAAGUCACAGGC---AUCGUUUGCCCACGAGCUGGGUCACCACAAGCUCGUCCAGCAGCGUCGCGAG
---....(..(..((((((((..((((..((((((..((((.........)))...(((---.((((......))))))))..))))))...))))...))))))))..)..). ( -40.00)
>DroSec_CAF1 107225 102 - 1
---UCC---ACGCCACUGCUGCAAAAUGCCGAGGAAUCGGCGGAGGAUAUCUCGCC------AUCCACUGUCCAGGAACUGGGCCACAACAAGCUGGUGCAGCAGCGAAGGGAA
---(((---.(..(.((((((((....(((((....)))))(((((........))------.)))...((((((...)))))).............)))))))).)..)))). ( -38.30)
>DroEre_CAF1 108858 102 - 1
---UCC---ACUCCACUGCUGCAAAAUGCCGAGGAAUCCGCGGGAGACAUAUCCCC------AUCCGCUGCCCUGGAAGUGGGCCACAACAAGCUAGUGCAGCAGCGUAGGGAA
---(((---.((.(.((((((((....((...(((....(.((((......)))))------.)))...((((.......))))........))...)))))))).).))))). ( -37.10)
>DroWil_CAF1 196547 114 - 1
GAACCCAUAACACCCUUGUUGCAGAACAAUGGUGAGCAGGUGGAGGACAAGUCACCGUCAUCAUUUAUUACUCACGAGCUGGGCCACUCGAAGUUGGUGCAACAGCGUCGUGAA
..........((((.(((((....))))).))))....((((..((........))..)))).........((((((((((.((((........))))....)))).)))))). ( -33.70)
>DroYak_CAF1 109090 102 - 1
---UCC---ACACCACUGCUGCAAAGUGCCGAGGAAUCGGCGGGAGAUAUAUCCCC------AUCCGCUGCCCAGGAGGUGGGCCACAUCAAGCUGGUGCAGCAGCGUAGGGAA
---...---...((.((((.((.....(((((....)))))((((......)))).------....(((((((((..((((.....))))...)))).))))).)))))))).. ( -42.90)
>consensus
___UCC___ACACCACUGCUGCAAAAUGCCGAGGAAUCGGCGGAAGAUAUAUCACC______AUCCACUGCCCAGGAACUGGGCCACAACAAGCUGGUGCAGCAGCGUAGGGAA
.............(.((((((((...((((((....))))))...........................(((((.....))))).............)))))))).)....... (-22.62 = -22.02 +  -0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:44 2006