Locus 8471

Sequence ID	3R_DroMel_CAF1
Location	22,602,405 – 22,602,504
Length	99
Max. P	0.991625

overview

Window 7

Location	22,602,405 – 22,602,504
Length	99
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	78.26
Mean single sequence MFE	-44.22
Consensus MFE	-28.07
Energy contribution	-30.27
Covariance contribution	2.20
Combinations/Pair	1.11
Mean z-score	-3.74
Structure conservation index	0.63
SVM decision value	2.28
SVM RNA-class probability	0.991625
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22602405 99 + 27905053
UCCCG------CUCCGGCCGGCCAUAUGUUUCACUAAUGGUCGCGCACAUUGCGGCCAUUAGGAUAUGGCGCCCAGCAGGUGGGUCCUUCUA--CCCCGCGGGUAUC
.((((------(...(((..((((((....((.((((((((((((.....))))))))))))))))))))))).....((((((....))))--))..))))).... ( -46.70)
>DroSec_CAF1 50564 99 + 1
UCCCG------CUCCGGCCGGCCAUAUGUUUCACUAAUGGUCGCGCACAUUGCGGCCAUUAGGAUAUGGCGCCCAGCAGGUGGGUCCUUCCA--CCCCGCGGGUAUC
.((((------(...(((..((((((....((.((((((((((((.....))))))))))))))))))))))).....((((((....))))--))..))))).... ( -49.00)
>DroEre_CAF1 55144 99 + 1
UCCCG------CUCCGACCGGCCAUAUGUUUCACUAAUGGUCGCGCACAUUGCGGCCAUUAGGAUAUGGCACCCAGCAGGUGGGUCCUUCCA--CCCCGCGGGUAUC
.((((------(........((((((....((.((((((((((((.....))))))))))))))))))))........((((((....))))--))..))))).... ( -45.70)
>DroWil_CAF1 126721 101 + 1
UCUUGGGUCUGCUU----UGGCCAUAUGUUUCACUAAUGGUCGCGCACAGUGCGGCCAUUAGA-GAGGGCUCGCUGCAGGUGGUUCGACCAAAAACCCGAUGGCAA-
..((((((((((..----(((((......(((.(((((((((((((...))))))))))))).-)))))).))..)))).(((.....)))...))))))......- ( -41.40)
>DroYak_CAF1 52953 99 + 1
UCCCG------UUUCGAGCGGCCAUAUGUUUCACUAAUGGUCGCGCACAUUGCGGCCAUUAGGAUAUGGCGCCCAGCAGGUGGGUCCUUCCA--CCCCGCGGGUAUC
...((------(.....)))((((((....((.((((((((((((.....))))))))))))))))))))((((.((.((((((....))))--))..))))))... ( -46.10)
>DroAna_CAF1 51744 80 + 1
GUCCG-U--CUCUCUGGCAGGCCAUAUGUUUCACUAAUGGUCGCGCACAUUGCGGCCAUUAGGGUAUGGCUCCCAGCAGGUGG------------------------
..((.-.--((..((((..((((((((......((((((((((((.....)))))))))))).)))))))).)))).))..))------------------------ ( -36.40)
>consensus
UCCCG______CUCCGGCCGGCCAUAUGUUUCACUAAUGGUCGCGCACAUUGCGGCCAUUAGGAUAUGGCGCCCAGCAGGUGGGUCCUUCCA__CCCCGCGGGUAUC
.((((...............(((((((......((((((((((((.....)))))))))))).)))))))(((((.....)))))..............)))).... (-28.07 = -30.27 +   2.20)

alignment

secondary structure

dotplot

Window 8

Location	22,602,405 – 22,602,504
Length	99
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	78.26
Mean single sequence MFE	-41.23
Consensus MFE	-24.15
Energy contribution	-26.59
Covariance contribution	2.45
Combinations/Pair	1.16
Mean z-score	-2.83
Structure conservation index	0.59
SVM decision value	1.89
SVM RNA-class probability	0.981674
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22602405 99 - 27905053
GAUACCCGCGGGG--UAGAAGGACCCACCUGCUGGGCGCCAUAUCCUAAUGGCCGCAAUGUGCGCGACCAUUAGUGAAACAUAUGGCCGGCCGGAG------CGGGA
....(((((.(((--(......)))).....((((.((((((((((((((((((((.....))).).))))))).))....))))).)).)))).)------)))). ( -46.20)
>DroSec_CAF1 50564 99 - 1
GAUACCCGCGGGG--UGGAAGGACCCACCUGCUGGGCGCCAUAUCCUAAUGGCCGCAAUGUGCGCGACCAUUAGUGAAACAUAUGGCCGGCCGGAG------CGGGA
....(((((.(((--(((......)))))).((((.((((((((((((((((((((.....))).).))))))).))....))))).)).)))).)------)))). ( -50.20)
>DroEre_CAF1 55144 99 - 1
GAUACCCGCGGGG--UGGAAGGACCCACCUGCUGGGUGCCAUAUCCUAAUGGCCGCAAUGUGCGCGACCAUUAGUGAAACAUAUGGCCGGUCGGAG------CGGGA
....(((((.(((--(((......)))))).((((.((((((((((((((((((((.....))).).))))))).))....))))).)).)))).)------)))). ( -45.70)
>DroWil_CAF1 126721 101 - 1
-UUGCCAUCGGGUUUUUGGUCGAACCACCUGCAGCGAGCCCUC-UCUAAUGGCCGCACUGUGCGCGACCAUUAGUGAAACAUAUGGCCA----AAGCAGACCCAAGA
-........(((((((((((((........((.....))..((-.(((((((((((.....))).).))))))).))......))))))----))...))))).... ( -31.60)
>DroYak_CAF1 52953 99 - 1
GAUACCCGCGGGG--UGGAAGGACCCACCUGCUGGGCGCCAUAUCCUAAUGGCCGCAAUGUGCGCGACCAUUAGUGAAACAUAUGGCCGCUCGAAA------CGGGA
....((((((((.--(((......))))))))((((((((((((((((((((((((.....))).).))))))).))....))))).))))))...------.))). ( -45.00)
>DroAna_CAF1 51744 80 - 1
------------------------CCACCUGCUGGGAGCCAUACCCUAAUGGCCGCAAUGUGCGCGACCAUUAGUGAAACAUAUGGCCUGCCAGAGAG--A-CGGAC
------------------------((..((.((((.((((((((.(((((((((((.....))).).))))))).).....))))).)).))))..))--.-.)).. ( -28.70)
>consensus
GAUACCCGCGGGG__UGGAAGGACCCACCUGCUGGGCGCCAUAUCCUAAUGGCCGCAAUGUGCGCGACCAUUAGUGAAACAUAUGGCCGGCCGGAG______CGGGA
....((((((((...............)))))(((.((((((((((((((((((((.....))).).))))))).))....))))).)).)))..........))). (-24.15 = -26.59 +   2.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:12:07 2006