Locus 8403

Sequence ID 3L_DroMel_CAF1
Location 22,092,123 – 22,092,216
Length 93
Max. P 0.974552
window13741 window13742

overview

Window 1

Location 22,092,123 – 22,092,216
Length 93
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 78.40
Mean single sequence MFE -25.00
Consensus MFE -16.41
Energy contribution -18.54
Covariance contribution 2.13
Combinations/Pair 1.09
Mean z-score -2.15
Structure conservation index 0.66
SVM decision value 1.37
SVM RNA-class probability 0.947202
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22092123 93 + 23771897
AGCCGGUGCAGCAGUGCAAAGUUUAAUUGAAUCGCGGGGAGCGGGGAAGGGGAAGCUUACCAUGCUGCAAAAGGAUGGUCAGGGGGGAGGAAU
..((..(((((((.((..((((((..((...((((.....))))....))..))))))..)))))))))...))................... ( -24.90)
>DroSec_CAF1 77690 79 + 1
AGCCGGUGCAGCAGUGCAAAGUUUAAUUGAAUCGCGG-------------GGAAGCUUGACAUGCUGCAAAAGGCUUGAAAGGUGGGUGGG-U
((((..(((((((.((..((((((..(((.....)))-------------..))))))..)))))))))...))))...............-. ( -25.50)
>DroSim_CAF1 82611 86 + 1
AGCCGGUGCAGCAGUGCAAAGUUUAAUUGAAUCGCGGGGAGCGG------GGAAGCUUGACAUGCUGCAAAAGGCUUGAAAGGGGGGUGGG-G
((((..(((((((.((..((((((.......((((.....))))------..))))))..)))))))))...))))...............-. ( -28.20)
>DroYak_CAF1 92423 76 + 1
AGCCGGUGCAGCAGUGCAAAGUUUAAUUGAAUCGCGGGGAGCGG------GGAAGUUUGCCAUGUGG------ACUGGAAAGG--GGU--G-G
..(((((.((.((..(((((.(((.......((((.....))))------.))).)))))..)))).------))))).....--...--.-. ( -21.40)
>consensus
AGCCGGUGCAGCAGUGCAAAGUUUAAUUGAAUCGCGGGGAGCGG______GGAAGCUUGACAUGCUGCAAAAGGCUGGAAAGGGGGGUGGG_G
((((..(((((((.((..((((((.......((((.....))))........))))))..)))))))))...))))................. (-16.41 = -18.54 +   2.13)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 2

Location 22,092,123 – 22,092,216
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 78.40
Mean single sequence MFE -16.25
Consensus MFE -10.74
Energy contribution -12.43
Covariance contribution 1.69
Combinations/Pair 1.15
Mean z-score -2.28
Structure conservation index 0.66
SVM decision value 1.73
SVM RNA-class probability 0.974552
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22092123 93 - 23771897
AUUCCUCCCCCCUGACCAUCCUUUUGCAGCAUGGUAAGCUUCCCCUUCCCCGCUCCCCGCGAUUCAAUUAAACUUUGCACUGCUGCACCGGCU
...................((...(((((((.((..(((............)))..))((((............))))..)))))))..)).. ( -18.90)
>DroSec_CAF1 77690 79 - 1
A-CCCACCCACCUUUCAAGCCUUUUGCAGCAUGUCAAGCUUCC-------------CCGCGAUUCAAUUAAACUUUGCACUGCUGCACCGGCU
.-...............((((...((((((((((.(((.....-------------................))).))).)))))))..)))) ( -17.80)
>DroSim_CAF1 82611 86 - 1
C-CCCACCCCCCUUUCAAGCCUUUUGCAGCAUGUCAAGCUUCC------CCGCUCCCCGCGAUUCAAUUAAACUUUGCACUGCUGCACCGGCU
.-...............((((...(((((((.((..(((....------..)))....((((............)))))))))))))..)))) ( -20.50)
>DroYak_CAF1 92423 76 - 1
C-C--ACC--CCUUUCCAGU------CCACAUGGCAAACUUCC------CCGCUCCCCGCGAUUCAAUUAAACUUUGCACUGCUGCACCGGCU
.-.--...--.......(((------(.....((((.......------.(((.....)))...(((.......)))...)))).....)))) (  -7.80)
>consensus
A_CCCACCCCCCUUUCAAGCCUUUUGCAGCAUGGCAAGCUUCC______CCGCUCCCCGCGAUUCAAUUAAACUUUGCACUGCUGCACCGGCU
.................((((...(((((((((.((((............(((.....)))............)))))).)))))))..)))) (-10.74 = -12.43 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:14:28 2006