Locus 1476

Sequence ID	X_DroMel_CAF1
Location	4,412,630 – 4,412,820
Length	190
Max. P	0.941264

overview

Window 1

Location	4,412,630 – 4,412,746
Length	116
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	85.49
Mean single sequence MFE	-22.44
Consensus MFE	-12.68
Energy contribution	-13.18
Covariance contribution	0.50
Combinations/Pair	1.18
Mean z-score	-2.46
Structure conservation index	0.57
SVM decision value	-0.01
SVM RNA-class probability	0.529189
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4412630 116 - 22224390
ACAUAUGUACA----UAUAGCAUAUACAUACAUAUAACACUCAUUUCGCGGCAAUCAUUCGGUACCUAACAGCUGUGAUCCGCGAUCCCAGAUCAAGUCACUAAUUAUAUGCCUCGAUUU
..(((((((..----((((...))))..)))))))..........(((.((((.....(..((..((.....(((.((((...)))).)))....))..))..).....)))).)))... ( -21.40)
>DroSec_CAF1 15078 116 - 1
ACAUAUGUACAUGCAUAUAGCAUAUA----CAUAUAACACUCAUUUCGCGGCAAUCAUUCGGUACCUAACAGCUGUGAUCCGCGAUCCCAGAUCAAGUCACUAAUUAUAUGCCUCGAUUU
..(((((((.((((.....)))).))----)))))..........(((.((((.....(..((..((.....(((.((((...)))).)))....))..))..).....)))).)))... ( -27.00)
>DroSim_CAF1 16090 116 - 1
ACAUAUGUACAUGCAUAUAGCAUAUA----CAUAUAACACUCAUUUCGCGGCAAUCAUUCGGUACCUAACAGCUGUGAUCCGCGAUCCCAGAUCAAGUCACUAAUUAUAUGCCUCGAUUU
..(((((((.((((.....)))).))----)))))..........(((.((((.....(..((..((.....(((.((((...)))).)))....))..))..).....)))).)))... ( -27.00)
>DroEre_CAF1 16093 98 - 1
ACAUAUGUACAUAUAUAUAGCAU--------AUAUAACACUCAUUUCGCGGCAAUCAUUCGCUACCUAACAGCUGUGA--------------UCAAAUCACUAAUUAUAUGCCUCGAUUU
..((((((...........))))--------))............(((.((((.......(((.......))).((((--------------(...)))))........)))).)))... ( -16.60)
>DroYak_CAF1 15826 107 - 1
ACAUAUGUAUAUACAUA-----U--------AUAUAACACUCAUUUUGCGGCAAUUAUUUGGUACAUAACAGCUGUGAUCCCCGAUCCCAGAUCAAGUCACUAAUUAUAUGCCUCGAUUU
...((((((((....))-----)--------))))).........(((.((((..((.(((((((.......(((.((((...)))).))).....)).))))).))..)))).)))... ( -20.20)
>consensus
ACAUAUGUACAUACAUAUAGCAUAUA____CAUAUAACACUCAUUUCGCGGCAAUCAUUCGGUACCUAACAGCUGUGAUCCGCGAUCCCAGAUCAAGUCACUAAUUAUAUGCCUCGAUUU
..((((((....))))))...........................(((.((((......((((........))))(((((..........)))))..............)))).)))... (-12.68 = -13.18 +   0.50)

alignment

secondary structure

dotplot

Window 2

Location	4,412,710 – 4,412,820
Length	110
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	85.02
Mean single sequence MFE	-32.28
Consensus MFE	-21.56
Energy contribution	-21.48
Covariance contribution	-0.08
Combinations/Pair	1.14
Mean z-score	-2.79
Structure conservation index	0.67
SVM decision value	1.32
SVM RNA-class probability	0.941264
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4412710 110 - 22224390
------GAAACCUAAGCCAAAGGGGCCAACAAAGCUCACUCGGGGGCAAACUCGUUUAUGUCCGCUUGGGUUCAAGUGAGACAUAUGUACA----UAUAGCAUAUACAUACAUAUAACAC
------(((.((((((((..((((((.......)))).))..)(((((..........)))))))))))))))..(((....(((((((..----((((...))))..)))))))..))) ( -27.40)
>DroSec_CAF1 15158 110 - 1
------GCAACCCAAGCCAAAGGGGCCAACAAAGCUCUAACGGGGGCAAACUCGUUUAUGUCCGCUUGGGUUCAAGUGAGACAUAUGUACAUGCAUAUAGCAUAUA----CAUAUAACAC
------(.(((((((((....(((((.......)))))((((((......)))))).......))))))))))..(((....(((((((.((((.....)))).))----)))))..))) ( -36.30)
>DroSim_CAF1 16170 110 - 1
------GCAACCCAAGCCAAAGGGGCCAACAAAGCUCUAUCGGGGGCAAACUCGUUUAUGUUCGCUUGGGUUCAAGUGAGACAUAUGUACAUGCAUAUAGCAUAUA----CAUAUAACAC
------(.(((((((((....(((((.......)))))..((((......)))).........))))))))))..(((....(((((((.((((.....)))).))----)))))..))) ( -34.10)
>DroEre_CAF1 16159 112 - 1
AAUAGGAAACCCUAAGCCAAAGGGGCCAACAAAGCUCUCUCGGGGGCAAACUCGUUUAUGUCCGCUUGGGUUCAAGUGAGACAUAUGUACAUAUAUAUAGCAU--------AUAUAACAC
....((...((((.......)))).))......(((((....)))))......((.((((((((((((....)))))).))))))...)).(((((((...))--------))))).... ( -31.40)
>DroYak_CAF1 15906 105 - 1
--UACGGAACCCUAAGCCGAAGGGGCCAACAAAGCUUUCUCGGGGACAAACUCGUUUAUGUCCGCUUGGGUUCAAGUGAGACAUAUGUAUAUACAUA-----U--------AUAUAACAC
--....((((((.(((((((..((((.......))))..))).(((((..........)))))))))))))))..((.....((((((....)))))-----)--------.....)).. ( -32.20)
>consensus
______GAAACCUAAGCCAAAGGGGCCAACAAAGCUCUCUCGGGGGCAAACUCGUUUAUGUCCGCUUGGGUUCAAGUGAGACAUAUGUACAUACAUAUAGCAUAUA____CAUAUAACAC
...............(((.....))).......(((((....)))))......((.((((((((((((....)))))).))))))...)).............................. (-21.56 = -21.48 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:26 2006