Locus 828

Sequence ID	2L_DroMel_CAF1
Location	2,371,012 – 2,371,147
Length	135
Max. P	0.631431

overview

Window 4

Location	2,371,012 – 2,371,107
Length	95
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	80.73
Mean single sequence MFE	-24.83
Consensus MFE	-15.78
Energy contribution	-16.53
Covariance contribution	0.75
Combinations/Pair	1.13
Mean z-score	-1.44
Structure conservation index	0.64
SVM decision value	-0.03
SVM RNA-class probability	0.519097
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2371012 95 + 22407834
-----CUACUUCUGUUUAGUGGGCUUAUAGAUACUAUUACCCUCCAUGAGGAACACUCCACGCUGCUCGGCCAACGUGUACAGCUCCUUGGCCUGCUCCA
-----............((..((((...((..........((((...))))..........((((..((.....))....))))..)).))))..))... ( -20.80)
>DroSec_CAF1 77827 95 + 1
-----CUACUUCUGGGUAGUGCGCUCUUUGGUAUUAUUACCCUCCAUGAGGAACACUCCACGCUGCUCGGCCAAGGUGUACAGCUCCUUGGCCUGCUCCA
-----........((((((((........((((....))))........(((....))).))))))))((((((((.(.....).))))))))....... ( -33.50)
>DroSim_CAF1 77253 95 + 1
-----CUACUUCUGUUUAGUGCGCUCUAUGGUAUUAUUACCCUCCAUGAGGAACACUCCACGCUGCUCGGCCAAGGUGUACAGCUCCUUGGCCUGCUCCA
-----........((..((((..(..(((((............)))))..)..))))..))(..((..((((((((.(.....).)))))))).))..). ( -29.70)
>DroEre_CAF1 83161 100 + 1
UUCUUCUACUUCUGCUUAGUAUGCUUGCUGAUGUUAUUACCCUCCAUGAGGAACACGCCGCGCUGCUCGGCCACGGCGUACAGCUCCUUGGCCUGCUCCA
.................((((.(((.((((..........((((...))))...((((((.(((....)))..)))))).)))).....))).))))... ( -27.70)
>DroYak_CAF1 81908 97 + 1
UU---CUACUUUUGCUUAGUUGGCUUUUGGAUGUCAUUACCCUCCAUGAGGAACACUCCCCGCUGCUCGGCCAAGGCGUACAGCUCCUUGGCCUGCUCCA
..---........(((.....)))...((((.........((((...)))).............((..((((((((.(.....).)))))))).)))))) ( -26.40)
>DroAna_CAF1 85050 87 + 1
-----GUAUUUCCGCGAAUUGUAAU--------UUCUUACCUUCCAUCAGGAACACCCCCCUCUGCUCCGCCAGCGCAUACAACUCCUUGGCCUGCUCCA
-----(((...(((.((.(((((..--------........((((....))))...........(((.....)))...))))).))..)))..))).... ( -10.90)
>consensus
_____CUACUUCUGCUUAGUGCGCUUUUUGAUAUUAUUACCCUCCAUGAGGAACACUCCACGCUGCUCGGCCAAGGCGUACAGCUCCUUGGCCUGCUCCA
........................................((((...)))).............((..((((((((.(.....).)))))))).)).... (-15.78 = -16.53 +   0.75)

alignment

secondary structure

dotplot

Window 5

Location	2,371,028 – 2,371,147
Length	119
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	79.39
Mean single sequence MFE	-42.77
Consensus MFE	-24.99
Energy contribution	-24.18
Covariance contribution	-0.80
Combinations/Pair	1.33
Mean z-score	-1.73
Structure conservation index	0.58
SVM decision value	0.20
SVM RNA-class probability	0.631431
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2371028 119 - 22407834
GGUAAAAACGUGCUCUGUGAGACUCCCAUGUGCUUGAGCGUGGAGCAGGCCAAGGAGCUGUACACGUUGGCCGAGCAGCGUGGAGUGUUCCUCAUGGAGGGUAAUAGUAUCUAUAAGCC
((((......(.((((((((((((((.(((((((((((((((..((((.(....)..)))).))))))...)))))).))))))))....))))))))).)......))))........ ( -40.90)
>DroPse_CAF1 139008 116 - 1
GGAAAGCAUGUGCUCUGCGAGACACCUAUGUGUCUGGGUUUGGAACAGGCCAAGGAGCUGUGUGUCUUGGCAGAGCAGCGUGGGGUUUUCCUGAUGGAAGGUAAGACU---UGGGAGCG
......((((((((((((((((((((...((..((.((((((...)))))).))..)).).))))))).)))))))).))))((((((((((......))).))))))---)....... ( -45.40)
>DroEre_CAF1 83182 119 - 1
GGUAAAAAUGUGCUCUGUGAGACUCCCAUGUGCUUGGGCUUGGAGCAGGCCAAGGAGCUGUACGCCGUGGCCGAGCAGCGCGGCGUGUUCCUCAUGGAGGGUAAUAACAUCAGCAAGCA
..........((((.(((...(((((((((......((((((...)))))).((((((...((((((((.(......)))))))))))))))))))).))))....)))..)))).... ( -44.50)
>DroYak_CAF1 81926 119 - 1
GGUAAAAAUGUGCUCUGUGAGACUCCCAUGUGCUUGGGUUUGGAGCAGGCCAAGGAGCUGUACGCCUUGGCCGAGCAGCGGGGAGUGUUCCUCAUGGAGGGUAAUGACAUCCAAAAGCC
(((.........(((((((((((((((...(((((..((.....)).((((((((.(.....).)))))))))))))...))))))....)))))))))((.........))....))) ( -45.10)
>DroAna_CAF1 85066 111 - 1
GGGAAGCAUGUGCUCUGCGAGACGCCCAUGUGCCUAAGUCUGGAGCAGGCCAAGGAGUUGUAUGCGCUGGCGGAGCAGAGGGGGGUGUUCCUGAUGGAAGGUAAGAA--------AUUA
(((((((.(.((((((((.((.(((.((....(((..(((((...)))))..)))...))...))))).)))))))).).....)).)))))...............--------.... ( -35.30)
>DroPer_CAF1 149901 116 - 1
GGAAAGCAUGUGCUCUGCGAGACACCUAUGUGUCUGGGUUUGGAACAGGCCAAGGAGCUGUGUGUCUUGGCAGAGCAGCGUGGGGUUUUCCUGAUGGAAGGUAAGACU---UGGGAGCG
......((((((((((((((((((((...((..((.((((((...)))))).))..)).).))))))).)))))))).))))((((((((((......))).))))))---)....... ( -45.40)
>consensus
GGUAAAAAUGUGCUCUGCGAGACUCCCAUGUGCCUGGGUUUGGAGCAGGCCAAGGAGCUGUACGCCUUGGCCGAGCAGCGUGGGGUGUUCCUCAUGGAAGGUAAGAAU___UGGAAGCA
...........(((((((.......((.((.(((((.........))))))).)).(((((..((....))...)))))))))))).((((....)))).................... (-24.99 = -24.18 +  -0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:32 2006