Locus 7310

Sequence ID	3L_DroMel_CAF1
Location	19,576,252 – 19,576,356
Length	104
Max. P	0.754743

overview

Window 8

Location	19,576,252 – 19,576,356
Length	104
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	80.00
Mean single sequence MFE	-34.77
Consensus MFE	-25.11
Energy contribution	-25.40
Covariance contribution	0.29
Combinations/Pair	1.39
Mean z-score	-1.47
Structure conservation index	0.72
SVM decision value	0.49
SVM RNA-class probability	0.754743
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19576252 104 + 23771897
UCUUCUGUUGGAGGCUUUGGCAAGCUCGAUGACUCGACUUUGCCUGAUUUCAGUGGCGGCUCCAGAGUCUGGUUUUGUAUAAGUUCUUCAGCAGCCGCCGAUUC
.......((((((.....((((((.((((....)))).))))))...))))))((((((((((((...))))..........((......)))))))))).... ( -31.90)
>DroSec_CAF1 19609 104 + 1
UCUUCUGUUGGAGGCUUUGGCAAACUCGAUGACUCGACUUUGCCUGAUUUCAGUGGCGGCUCCAGAGUCUGGUUUUGUACAAGUUCUUCAGCAGCCGCCGAUUC
.......((((((.....((((((.((((....)))).))))))...))))))(((((((((.((((..((........))..))))...).)))))))).... ( -33.80)
>DroSim_CAF1 20571 104 + 1
UCUUCUGUUGGAGGCUUUGGCAAACUCGAUGACUCGACUUUGCCUGAUUUCAGUGGCGGCUCCAGAGUCUGGUUUUGUACAAGUUCUUCAGCAGCCGCCGAUUC
.......((((((.....((((((.((((....)))).))))))...))))))(((((((((.((((..((........))..))))...).)))))))).... ( -33.80)
>DroEre_CAF1 22054 104 + 1
CCUUGUGUUGGAGGCUUUGGCGAACUCGAUGACUCUACUUUGCCUGAUUUCAGUGGCGGCUCUAGAGUCUGGUUCUGUGCAAGUUCUUCAGCGGCCGCCGAUUC
......(((((.((((((((.(((((....(((((((..(((((..........)))))...)))))))..((.....)).))))).)))).)))).))))).. ( -32.30)
>DroYak_CAF1 20035 104 + 1
CCUUCUGUUGAAGGCUUUGGCGAACUCGAUGACUCGACUUUGCCUGAUUUCAGUGGCGGCUCUAGAGUCUGGUUUUGUGCAAUUUCUUCAGCGGCCGUCGAUUC
(((((....)))))....((((((.((((....)))).)))))).....((..((((.(((..((((..((........))..))))..))).))))..))... ( -34.50)
>DroMoj_CAF1 23612 95 + 1
UUUGCUGUCGC-UGCUGUCGUUUGCUCGACACGUCCACUA--------GGCAACGGUGGCUCCAGCGUUUGACGCUGGGCCAUCUCCUCAGCGCUGGCGGCCUC
...(((((((.-((((((((......))))..(((.....--------)))...((((((.((((((.....)))))))))))).....)))).)))))))... ( -42.30)
>consensus
UCUUCUGUUGGAGGCUUUGGCAAACUCGAUGACUCGACUUUGCCUGAUUUCAGUGGCGGCUCCAGAGUCUGGUUUUGUACAAGUUCUUCAGCAGCCGCCGAUUC
(((((....)))))....((((((.((((....)))).)))))).....((.(((((.(((..((((..((........))..))))..))).))))).))... (-25.11 = -25.40 +   0.29)

alignment

secondary structure

dotplot

Window 9

Location	19,576,252 – 19,576,356
Length	104
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	80.00
Mean single sequence MFE	-31.54
Consensus MFE	-18.87
Energy contribution	-20.43
Covariance contribution	1.56
Combinations/Pair	1.20
Mean z-score	-1.82
Structure conservation index	0.60
SVM decision value	0.32
SVM RNA-class probability	0.687396
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19576252 104 - 23771897
GAAUCGGCGGCUGCUGAAGAACUUAUACAAAACCAGACUCUGGAGCCGCCACUGAAAUCAGGCAAAGUCGAGUCAUCGAGCUUGCCAAAGCCUCCAACAGAAGA
...(((((((((.(....).............((((...)))))))))))..........(((((..((((....))))..))))).............))... ( -29.40)
>DroSec_CAF1 19609 104 - 1
GAAUCGGCGGCUGCUGAAGAACUUGUACAAAACCAGACUCUGGAGCCGCCACUGAAAUCAGGCAAAGUCGAGUCAUCGAGUUUGCCAAAGCCUCCAACAGAAGA
.....((((((.(((..(((..(((........)))..)))..))).)))..........((((((.((((....)))).))))))...)))............ ( -33.90)
>DroSim_CAF1 20571 104 - 1
GAAUCGGCGGCUGCUGAAGAACUUGUACAAAACCAGACUCUGGAGCCGCCACUGAAAUCAGGCAAAGUCGAGUCAUCGAGUUUGCCAAAGCCUCCAACAGAAGA
.....((((((.(((..(((..(((........)))..)))..))).)))..........((((((.((((....)))).))))))...)))............ ( -33.90)
>DroEre_CAF1 22054 104 - 1
GAAUCGGCGGCCGCUGAAGAACUUGCACAGAACCAGACUCUAGAGCCGCCACUGAAAUCAGGCAAAGUAGAGUCAUCGAGUUCGCCAAAGCCUCCAACACAAGG
.....((.(((...((..(((((((..........(((((((..(((.............)))....)))))))..)))))))..))..))).))......... ( -25.92)
>DroYak_CAF1 20035 104 - 1
GAAUCGACGGCCGCUGAAGAAAUUGCACAAAACCAGACUCUAGAGCCGCCACUGAAAUCAGGCAAAGUCGAGUCAUCGAGUUCGCCAAAGCCUUCAACAGAAGG
...(((..(((.(((..(((..(((........)))..)))..))).)))..))).....(((.((.((((....)))).)).)))....(((((....))))) ( -27.90)
>DroMoj_CAF1 23612 95 - 1
GAGGCCGCCAGCGCUGAGGAGAUGGCCCAGCGUCAAACGCUGGAGCCACCGUUGCC--------UAGUGGACGUGUCGAGCAAACGACAGCA-GCGACAGCAAA
......((...((((((((.(.((((((((((.....)))))).)))).)....))--------)........(((((......))))).))-)))...))... ( -38.20)
>consensus
GAAUCGGCGGCCGCUGAAGAACUUGCACAAAACCAGACUCUGGAGCCGCCACUGAAAUCAGGCAAAGUCGAGUCAUCGAGUUUGCCAAAGCCUCCAACAGAAGA
...((((.(((.(((..(((..(((........)))..)))..))).))).)))).....(((.((.((((....)))).)).))).................. (-18.87 = -20.43 +   1.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:42 2006