Locus 4767

Sequence ID X_DroMel_CAF1
Location 12,392,778 – 12,392,892
Length 114
Max. P 0.988276
window7806 window7807

overview

Window 6

Location 12,392,778 – 12,392,877
Length 99
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 64.81
Mean single sequence MFE -26.40
Consensus MFE -12.62
Energy contribution -12.66
Covariance contribution 0.04
Combinations/Pair 1.25
Mean z-score -2.22
Structure conservation index 0.48
SVM decision value 1.88
SVM RNA-class probability 0.981113
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12392778 99 - 22224390
ACGACGCCACCCGCCGCAUAAUUUGGCGCACUAAAUUUAUGUGCGCAAUU-GUGCUGAGUUGUGUGGGGAAGGCCCC-----CCCCCCAAAAAAAAAAACACCAG----------
.....(((..((.((((((((((..((((((.........))))((....-))))..))))))))))))..)))...-----.......................---------- ( -32.60)
>DroGri_CAF1 5633 91 - 1
----------CUUCCGUAUUAUUUGGCGCACUAAAUUUAUGUGCGCAAUU-GUGCUGAGUUGUGUG--AAACAUCCCCACAUGCACUCAUACACACAC-ACACAG----------
----------...............((((((.........))))))...(-(((.((.((((((((--(..(((......)))...))))))).)).)-))))).---------- ( -23.20)
>DroSec_CAF1 6529 100 - 1
ACGACGCCACCCGCCGCAUAAUUUGGCGCACUAAAUUUAUGUGCGCAAUUAGUGCUGAGUUGUGUGGGGAAGGCACC-----CCCCCCAAAAAAAAAAAAAANNN----------
.....(((..((.((((((((((..((((((.........))))((.....))))..))))))))))))..)))...-----.......................---------- ( -33.20)
>DroMoj_CAF1 10045 82 - 1
----------CUUGCGUAUUAUUUGGCGCAUUAAAUUUAUGUGCGCAAUU-GUGCUGAGUUGUGUG--AAACAGCC-CAC--CCACCCACACAGCCAC-----------------
----------.....((((...(((((((((.......)))))).)))..-))))((.((((((((--........-...--.....)))))))))).----------------- ( -21.99)
>DroAna_CAF1 7431 92 - 1
---ACUCCGCCCGCCGCAUUACUUGCCGCACUAAAUUUAUGUUCGCAAUU-GUGCUGAGUUGUGUG--CAACGCCCC-----------G------AACACACCAGCAGGAUAUUU
---..(((((..((.(((.....))).))..........((((((((...-.)))...((((....--)))).....-----------)------)))).....)).)))..... ( -21.00)
>consensus
___AC_CC_CCCGCCGCAUUAUUUGGCGCACUAAAUUUAUGUGCGCAAUU_GUGCUGAGUUGUGUG__AAACGCCCC_____CCACCCAAAAAAAAACAAAACAG__________
...............((((...(((.(((((.........))))))))...))))......((((.....))))......................................... (-12.62 = -12.66 +   0.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 12,392,801 – 12,392,892
Length 91
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 74.36
Mean single sequence MFE -28.74
Consensus MFE -17.82
Energy contribution -17.52
Covariance contribution -0.30
Combinations/Pair 1.21
Mean z-score -2.29
Structure conservation index 0.62
SVM decision value 2.11
SVM RNA-class probability 0.988276
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12392801 91 - 22224390
UGUGC--CAUUCACUU--------------CACGACGCCACCCGCCGCAUAAUUUGGCGCACUAAAUUUAUGUGCGCAAUU-GUGCUGAGUUGUGUGGGGAAGGCCCC---
...((--(.(((.((.--------------((((((((.....)).(((((((...((((((.........)))))).)))-))))...)))))).)).))))))...--- ( -34.20)
>DroGri_CAF1 5657 83 - 1
UAUGC--GUUUUACUUGU-----------------------CUUCCGUAUUAUUUGGCGCACUAAAUUUAUGUGCGCAAUU-GUGCUGAGUUGUGUG--AAACAUCCCCAC
.....--(((((((....-----------------------.(((.((((......((((((.........))))))....-)))).)))....)))--))))........ ( -21.80)
>DroSec_CAF1 6552 104 - 1
UGUGC--CAUUCACUUCACCUUUUC--CUUCACGACGCCACCCGCCGCAUAAUUUGGCGCACUAAAUUUAUGUGCGCAAUUAGUGCUGAGUUGUGUGGGGAAGGCACC---
.((((--(.............((((--((.((((((((.....)).((((......((((((.........)))))).....))))...)))))).))))))))))).--- ( -35.21)
>DroEre_CAF1 6729 98 - 1
UGUGC--CAUUCACUCGACUUUUUU--GUUC---ACGCCACCCGCCGCAUAAUUUGGCGCACUAAAUUUAUGUGCGCAAUU-GUGCUGAGUUGUGCG--AAACGCCCC---
...((--..(((.(.((((((....--....---..((.....)).(((((((...((((((.........)))))).)))-)))).)))))).).)--))..))...--- ( -26.90)
>DroWil_CAF1 37534 80 - 1
UAUGC--GUUUCACUUG-----------------------CCUUGCGUAUUAUUUGGCGCAUUAAAUUUAUGUGCGCAAUU-GUGCUGAGUUGUGUG--UAACGUGUC---
.((((--(((.(((.(.-----------------------.((((.((((...(((((((((.......)))))).)))..-))))))))..).)))--.))))))).--- ( -22.50)
>DroYak_CAF1 11349 102 - 1
UGUGCCCCAUUCACUUGACUUUUUUGUGUUC---ACGCCACCCGCCGCAUAAUUUGGCGCACUAAAUUUAUGUGCGCAAUU-GUGCCGAGUUGUGUG--AAACGCCCC---
.(((.......)))...........((((((---((((.((.((..(((((((...((((((.........)))))).)))-)))))).)).)))))--.)))))...--- ( -31.80)
>consensus
UGUGC__CAUUCACUUGA____________C___ACGCCACCCGCCGCAUAAUUUGGCGCACUAAAUUUAUGUGCGCAAUU_GUGCUGAGUUGUGUG__AAACGCCCC___
.............................................(((((((((((((((((.........))))((.....))))))))))))))).............. (-17.82 = -17.52 +  -0.30)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:43 2006