Locus 10345

Sequence ID	3R_DroMel_CAF1
Location	27,859,725 – 27,859,885
Length	160
Max. P	0.998006

overview

Window 2

Location	27,859,725 – 27,859,845
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.50
Mean single sequence MFE	-31.70
Consensus MFE	-24.76
Energy contribution	-25.80
Covariance contribution	1.04
Combinations/Pair	1.03
Mean z-score	-1.64
Structure conservation index	0.78
SVM decision value	0.06
SVM RNA-class probability	0.561599
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27859725 120 - 27905053
CCAAAAAGGACCAGAGGACAAAGCCGAAAUGCCUGAGGCACCCACUGCUGCAGCUUGGCAUAAUAUUAAUUUAAAUUAGUCAAAAUGCCAGGCCUUUGGAAGGUCUUUUAGUAGAGAAGC
((.....))((.(((((((....(((((.(((....((((.....)))))))(((((((((...((((((....))))))....))))))))).)))))...))))))).))........ ( -32.60)
>DroSec_CAF1 168963 120 - 1
CCAAAAAGGACCAGAGGACAAAGCCGAAAUGCCUGAGGCACCCACUGCUGCAGCUUGGCAUAAUAUUAAUUUAAAUUAGUCAAAAUGGCAGGCCUCUGGAAGGUCUUUCAGUAGAGAAGC
((.....)).(((((((.(...(((((..(((....((((.....)))))))..)))))...................(((.....))).).)))))))....((((......))))... ( -31.20)
>DroSim_CAF1 171166 120 - 1
CCAAAAAGGACCAGAGGACAAAGCCGAAAUGCCUGAGGCACCCACUGCUGCAGCUUGGCAUAAUAUUAAUUUAAAUUAGUCAAAAUGGCAGGCCUCUGGAAGGUCUUUCAGUAGAGAAGC
((.....)).(((((((.(...(((((..(((....((((.....)))))))..)))))...................(((.....))).).)))))))....((((......))))... ( -31.20)
>DroEre_CAF1 199075 120 - 1
CCAAAAAGGACCAGAGGACAAAGCCGAAAUGCCAGAGGCAGCCACUGCUGCAGCUUGGCAUAAUAUUAAUUUAAAUUAGACAAAAUGCCAGGCCUCUAGAAGGACUUUCAGUAGGAGAGU
((.....((......((......))......))(((((((((....))))).(((((((((....(((((....))))).....)))))))))))))....))((((((.....)))))) ( -35.30)
>DroYak_CAF1 172729 120 - 1
CCAAAAAGGACCAGAGGACAAAGCCGAAAUGCCUGAGGCAGCCUCUGCUGCAGCUUCGCAUAAUAUUAAUUUAAAUUAGACAAAAUGCCAGGCCUCUAGAAGGUCUUUCAGUAGAAAAGC
.....(((((((...((......)).....(((((..(((((....)))))......((((....(((((....))))).....)))))))))........)))))))............ ( -28.20)
>consensus
CCAAAAAGGACCAGAGGACAAAGCCGAAAUGCCUGAGGCACCCACUGCUGCAGCUUGGCAUAAUAUUAAUUUAAAUUAGUCAAAAUGCCAGGCCUCUGGAAGGUCUUUCAGUAGAGAAGC
.....(((((((((((.....(((.(...((((...))))....).)))...(((((((((...((((((....))))))....)))))))))))))....)))))))............ (-24.76 = -25.80 +   1.04)

alignment

secondary structure

dotplot

Window 3

Location	27,859,765 – 27,859,885
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.83
Mean single sequence MFE	-36.90
Consensus MFE	-33.76
Energy contribution	-33.80
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-2.18
Structure conservation index	0.91
SVM decision value	2.98
SVM RNA-class probability	0.998006
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27859765 120 + 27905053
ACUAAUUUAAAUUAAUAUUAUGCCAAGCUGCAGCAGUGGGUGCCUCAGGCAUUUCGGCUUUGUCCUCUGGUCCUUUUUGGGCCCAGACAGCUCAUUUGCCAUUGUUCGCCAGCCACGCAA
....................(((...((((((((((((((((((...)))))...((((..(((....(((((.....)))))..)))))))......)))))))).).))))...))). ( -36.40)
>DroSec_CAF1 169003 120 + 1
ACUAAUUUAAAUUAAUAUUAUGCCAAGCUGCAGCAGUGGGUGCCUCAGGCAUUUCGGCUUUGUCCUCUGGUCCUUUUUGGGCCCAGACAGCUCAUUUGCCAUUGUUCGCCAGCCACGCAA
....................(((...((((((((((((((((((...)))))...((((..(((....(((((.....)))))..)))))))......)))))))).).))))...))). ( -36.40)
>DroSim_CAF1 171206 120 + 1
ACUAAUUUAAAUUAAUAUUAUGCCAAGCUGCAGCAGUGGGUGCCUCAGGCAUUUCGGCUUUGUCCUCUGGUCCUUUUUGGGCCCAGACAGCUCAUUUGCCAUUGUUCGCCAGCCACGCAA
....................(((...((((((((((((((((((...)))))...((((..(((....(((((.....)))))..)))))))......)))))))).).))))...))). ( -36.40)
>DroEre_CAF1 199115 120 + 1
UCUAAUUUAAAUUAAUAUUAUGCCAAGCUGCAGCAGUGGCUGCCUCUGGCAUUUCGGCUUUGUCCUCUGGUCCUUUUUGGGCCCAGACAGCUCAUUGGCCAUUGUUCGCCAGCCACGCAA
....................(((...((((((((((((((((((...))).....((((..(((....(((((.....)))))..)))))))....)))))))))).).))))...))). ( -39.00)
>DroYak_CAF1 172769 120 + 1
UCUAAUUUAAAUUAAUAUUAUGCGAAGCUGCAGCAGAGGCUGCCUCAGGCAUUUCGGCUUUGUCCUCUGGUCCUUUUUGGGCCCAGACAGCUCAUUGGCCAUUGUUCGCUAGCCACGUAA
....................((((..(((((((((((((.((((...))))))))((((..((..(((((.(((....))).)))))..)).....))))..)))).)).)))..)))). ( -36.30)
>consensus
ACUAAUUUAAAUUAAUAUUAUGCCAAGCUGCAGCAGUGGGUGCCUCAGGCAUUUCGGCUUUGUCCUCUGGUCCUUUUUGGGCCCAGACAGCUCAUUUGCCAUUGUUCGCCAGCCACGCAA
....................(((...(((((((((((((.((((...))))....((((..(((....(((((.....)))))..)))))))......)))))))).)).)))...))). (-33.76 = -33.80 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:54:31 2006