Locus 3815

Sequence ID	2R_DroMel_CAF1
Location	12,591,526 – 12,591,626
Length	100
Max. P	0.991630

overview

Window 3

Location	12,591,526 – 12,591,626
Length	100
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	75.46
Mean single sequence MFE	-32.48
Consensus MFE	-17.90
Energy contribution	-17.99
Covariance contribution	0.09
Combinations/Pair	1.15
Mean z-score	-2.64
Structure conservation index	0.55
SVM decision value	2.26
SVM RNA-class probability	0.991356
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12591526 100 + 20766785
ACUGCUGCUGUUGCAUAAGUGUGCCAAAAAAGGUGGCCGCC------GUUGGAGUUGCAACUGCGAAACAGCACCGCCAGCAACAUUUGGCGGUCCCAGCAACAUG
..(((((((((((((...(((.((((.......))))))).------((((......)))))))..))))))((((((((......))))))))...))))..... ( -36.40)
>DroVir_CAF1 22598 92 + 1
--UG-UACAGUUGCAUAAGUGCGCCAAAAAAGGUAGCUGUAAAUGCAGUUGCAGUUGCAGUUGC-----------CGCAUCAACAUUGGCCGAUCUCAGCAACAUU
--..-....(((((.....((.(((((....(((((((((((.(((....))).))))))))))-----------)(......).)))))))......)))))... ( -32.50)
>DroPse_CAF1 17141 94 + 1
--UGAAUAAGUUGCAUAAGUGCGCCAAAAAAGGUAACCGCC------AUCGGAGUUGCAUGUGAC----AACGGCAGCAGCAACAUUUGGCGAGCUCAGCAACAUU
--.......(((((...(((.(((((((....((..(((..------..))).(((((.(((...----.)))))))).))....))))))).)))..)))))... ( -30.90)
>DroSec_CAF1 16506 100 + 1
ACUGCUGAUGUUGCAUAAGUGUGCCAAAAAAGGUGGCCGCC------GUUGGAGUUGCAACUGACAAAAAGCACCACCAGCAACAUUUGGCGACCCCAGCAACAUG
..(((((..(((((.(((((((((((.......))))....------(((((.(.(((............))).).))))).))))))))))))..)))))..... ( -33.00)
>DroYak_CAF1 16574 100 + 1
ACUGCCGCUGUUGCAUAAGUGCGCCAAAAAAGGUAGCCGCA------GUUGGAGUUGCAACGCCGAAACUGCACCACCAGCAACAUUUGGCGAUCCCAGCAACAUG
(((((.(((...(((....)))(((......)))))).)))------))....(((((..(((((((..(((.......)))...)))))))......)))))... ( -31.20)
>DroPer_CAF1 17210 94 + 1
--UGAAUAAGUUGCAUAAGUGCGCCAAAAAAGGUAACCGCC------AUCGGAGUUGCAUGUGAC----AACGGCAGCAGCAACAUUUGGCGAGCUCAGCAACAUU
--.......(((((...(((.(((((((....((..(((..------..))).(((((.(((...----.)))))))).))....))))))).)))..)))))... ( -30.90)
>consensus
__UGCUGAAGUUGCAUAAGUGCGCCAAAAAAGGUAGCCGCC______GUUGGAGUUGCAACUGAC____AGCACCACCAGCAACAUUUGGCGAUCCCAGCAACAUG
.........(((((.......(((((((........(((..........))).(((((.....................))))).)))))))......)))))... (-17.90 = -17.99 +   0.09)

alignment

secondary structure

dotplot

Window 4

Location	12,591,526 – 12,591,626
Length	100
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	75.46
Mean single sequence MFE	-34.05
Consensus MFE	-17.75
Energy contribution	-17.98
Covariance contribution	0.22
Combinations/Pair	1.14
Mean z-score	-2.70
Structure conservation index	0.52
SVM decision value	2.28
SVM RNA-class probability	0.991630
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12591526 100 - 20766785
CAUGUUGCUGGGACCGCCAAAUGUUGCUGGCGGUGCUGUUUCGCAGUUGCAACUCCAAC------GGCGGCCACCUUUUUUGGCACACUUAUGCAACAGCAGCAGU
..(((((((((.(((((((........))))))).)(((..(((.((((......))))------.)))((((.......))))........))).)))))))).. ( -38.80)
>DroVir_CAF1 22598 92 - 1
AAUGUUGCUGAGAUCGGCCAAUGUUGAUGCG-----------GCAACUGCAACUGCAACUGCAUUUACAGCUACCUUUUUUGGCGCACUUAUGCAACUGUA-CA--
...(((((((..((((((....)))))).))-----------)))))......((((..(((((.....((((.......))))......)))))..))))-..-- ( -25.50)
>DroPse_CAF1 17141 94 - 1
AAUGUUGCUGAGCUCGCCAAAUGUUGCUGCUGCCGUU----GUCACAUGCAACUCCGAU------GGCGGUUACCUUUUUUGGCGCACUUAUGCAACUUAUUCA--
...(((((((((..(((((((.......(((((((((----(.............))))------)))))).......)))))))..)))).))))).......-- ( -34.06)
>DroSec_CAF1 16506 100 - 1
CAUGUUGCUGGGGUCGCCAAAUGUUGCUGGUGGUGCUUUUUGUCAGUUGCAACUCCAAC------GGCGGCCACCUUUUUUGGCACACUUAUGCAACAUCAGCAGU
.(((((((((((((.((((((.......((((((......((((.((((......))))------))))))))))...)))))))).)))).)))))))....... ( -32.90)
>DroYak_CAF1 16574 100 - 1
CAUGUUGCUGGGAUCGCCAAAUGUUGCUGGUGGUGCAGUUUCGGCGUUGCAACUCCAAC------UGCGGCUACCUUUUUUGGCGCACUUAUGCAACAGCGGCAGU
..((((((((.....((((((.......((((((((((((..((.((....)).)))))------))).))))))...))))))(((....)))..)))))))).. ( -39.00)
>DroPer_CAF1 17210 94 - 1
AAUGUUGCUGAGCUCGCCAAAUGUUGCUGCUGCCGUU----GUCACAUGCAACUCCGAU------GGCGGUUACCUUUUUUGGCGCACUUAUGCAACUUAUUCA--
...(((((((((..(((((((.......(((((((((----(.............))))------)))))).......)))))))..)))).))))).......-- ( -34.06)
>consensus
AAUGUUGCUGAGAUCGCCAAAUGUUGCUGCUGGUGCU____GGCAGUUGCAACUCCAAC______GGCGGCUACCUUUUUUGGCGCACUUAUGCAACAGCAGCA__
...(((((((((..(((((((.((.((((......................................)))).))....)))))))..)))).)))))......... (-17.75 = -17.98 +   0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:40 2006