Locus 2981

Sequence ID	2L_DroMel_CAF1
Location	8,521,874 – 8,521,986
Length	112
Max. P	0.657752

overview

Window 8

Location	8,521,874 – 8,521,986
Length	112
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	87.36
Mean single sequence MFE	-31.68
Consensus MFE	-25.74
Energy contribution	-26.93
Covariance contribution	1.19
Combinations/Pair	1.07
Mean z-score	-1.49
Structure conservation index	0.81
SVM decision value	0.16
SVM RNA-class probability	0.612288
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8521874 112 + 22407834
UUUACAAUA------CAAUAUCAGCUGACCACAUUUGAGUUUGCUGUACAAA-AUACCGUUAGCGGUGCACUCAACAGCUGAGCGGCGCUCAAGCUAACCCGCCGAUAAUGCAGACAAC-
.........------.....(((((((.......((((((.((((((((...-.....))..)))))).))))))))))))).(((((............)))))..............- ( -27.01)
>DroSec_CAF1 31102 118 + 1
UUUGCAAUGCCUUUACAAUAUCAGCUGACUACAUUUGAGUUUGGUGUACAAA-AUACCGUUAGCGGUGCACUCAACAGCUGAGCGGCGCUCAAGCCAAGCCGCCGAUAAUGCAGACAAC-
((((((..............(((((((.......(((((((((.....))).-.(((((....))))).)))))))))))))(((((((....))...)))))......))))))....- ( -36.11)
>DroSim_CAF1 30405 112 + 1
UUUGCAAUG------CAAUAUCAGCUGACUACAUUUGAGUUUGGUGUAAAAA-AUACCGUUAGCGGUGCACUCAACAGCUGAGCAGCGCUCAAGCCAAGCCGCCGAUAAUGCAGACAAC-
.(((...((------((.((((.((((((.((......))..(((((.....-)))))))))))((((..((.....(((((((...)))).)))..)).)))))))).))))..))).- ( -31.50)
>DroEre_CAF1 30674 109 + 1
UUUACAAUG------GGGUAUCAGCUGACUGCGUUUGAGUUUGGCGUACAAAUAUACCGUUACCGCUGCACUCAACAGCUGAGCGGCGC-----CCAAGCCGCCGAUAAUGCAGACAACC
.......((------..((((((((((.......((((((.(((((.((.........))...))))).)))))))))))))(((((..-----....)))))......)))...))... ( -32.11)
>consensus
UUUACAAUG______CAAUAUCAGCUGACUACAUUUGAGUUUGGUGUACAAA_AUACCGUUAGCGGUGCACUCAACAGCUGAGCGGCGCUCAAGCCAAGCCGCCGAUAAUGCAGACAAC_
((((((..............(((((((..((((((.......))))))......(((((....))))).......)))))))(((((...........)))))......))))))..... (-25.74 = -26.93 +   1.19)

alignment

secondary structure

dotplot

Window 9

Location	8,521,874 – 8,521,986
Length	112
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	87.36
Mean single sequence MFE	-36.15
Consensus MFE	-28.46
Energy contribution	-29.15
Covariance contribution	0.69
Combinations/Pair	1.10
Mean z-score	-1.58
Structure conservation index	0.79
SVM decision value	0.26
SVM RNA-class probability	0.657752
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8521874 112 - 22407834
-GUUGUCUGCAUUAUCGGCGGGUUAGCUUGAGCGCCGCUCAGCUGUUGAGUGCACCGCUAACGGUAU-UUUGUACAGCAAACUCAAAUGUGGUCAGCUGAUAUUG------UAUUGUAAA
-......((((.((((((((((((....(((((...)))))(((((.((((..((((....))))))-))...))))).)))))...((....))))))))).))------))....... ( -33.50)
>DroSec_CAF1 31102 118 - 1
-GUUGUCUGCAUUAUCGGCGGCUUGGCUUGAGCGCCGCUCAGCUGUUGAGUGCACCGCUAACGGUAU-UUUGUACACCAAACUCAAAUGUAGUCAGCUGAUAUUGUAAAGGCAUUGCAAA
-((((.(((((((.(((((((((((((......))))...)))))))))((((((((....))))..-...))))..........))))))).)))).....((((((.....)))))). ( -38.20)
>DroSim_CAF1 30405 112 - 1
-GUUGUCUGCAUUAUCGGCGGCUUGGCUUGAGCGCUGCUCAGCUGUUGAGUGCACCGCUAACGGUAU-UUUUUACACCAAACUCAAAUGUAGUCAGCUGAUAUUG------CAUUGCAAA
-.((((.((((.(((((((((((....(((((.((.((((((...))))))))((((....))))..-.............)))))....)))).))))))).))------))..)))). ( -36.30)
>DroEre_CAF1 30674 109 - 1
GGUUGUCUGCAUUAUCGGCGGCUUGG-----GCGCCGCUCAGCUGUUGAGUGCAGCGGUAACGGUAUAUUUGUACGCCAAACUCAAACGCAGUCAGCUGAUACCC------CAUUGUAAA
(((((.((((.(((((((((((....-----..))))))..(((((.....)))))))))).((..((....))..))..........)))).))))).......------......... ( -36.60)
>consensus
_GUUGUCUGCAUUAUCGGCGGCUUGGCUUGAGCGCCGCUCAGCUGUUGAGUGCACCGCUAACGGUAU_UUUGUACACCAAACUCAAAUGUAGUCAGCUGAUAUUG______CAUUGCAAA
.((((.(((((((.(((((((((.(((.........))).)))))))))((((((((....))))......))))..........))))))).))))....................... (-28.46 = -29.15 +   0.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:16 2006