Locus 7843

Sequence ID 3L_DroMel_CAF1
Location 20,993,491 – 20,993,616
Length 125
Max. P 0.841909
window12769 window12770

overview

Window 9

Location 20,993,491 – 20,993,595
Length 104
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.71
Mean single sequence MFE -26.88
Consensus MFE -16.82
Energy contribution -18.02
Covariance contribution 1.20
Combinations/Pair 1.32
Mean z-score -1.67
Structure conservation index 0.63
SVM decision value 0.50
SVM RNA-class probability 0.760522
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20993491 104 + 23771897
------ACGCUGACCGCCAAAAUCGCUGAUUCAC--UUAUUCAGCAUAAGGUCUGGUGUAAAGGGGGUUUAC-CUUUUGAAUCAUCCUUU-------GUUGGCACUUAAAAUGCAAUUCU
------.........(((((....(((((.....--....))))).(((((..((((.(((((((......)-)))))).))))..))))-------))))))................. ( -27.80)
>DroSec_CAF1 11146 103 + 1
------ACGCUGACCGCCAAAAUCGCUGAAUCAC--UGAUUCAGCAUAAGGCUUGUUGUA-AGGGGGUUUAC-CUUUUGAAUAAUCCUUU-------GUUGGCACUUAAAAUGCAACUCU
------.........(((((....((((((((..--.))))))))..((((.(((((.((-(((((.....)-))))))))))).)))).-------.)))))................. ( -30.20)
>DroSim_CAF1 18554 104 + 1
------ACGCUGACCGCCAAAAUCGCUGAAUCAC--UGAUUCAGCAUAAGGCGUGCUGUAAAGGGGGUUUAC-CUUUUGAAUCAUCCUUU-------GUUGGCACUUAAAAUGCAACUCU
------..((.....(((......((((((((..--.))))))))....)))(((((..((((((((((((.-....)))))).))))))-------...))))).......))...... ( -31.20)
>DroEre_CAF1 19656 103 + 1
------ACGCUGACCGCCAAAAUCGCUGAAUCAC--UGAUUUAGCAUAAUGCCAGUUGUAAAG-GGGCUUAC-CUUUUGAAUCAUCCUUU-------GUUGGCACUUAAAAUGCAGCACU
------..((((............((((((((..--.))))))))....((((((...(((((-((.....)-))))))...((.....)-------))))))).........))))... ( -26.70)
>DroYak_CAF1 17328 103 + 1
------ACGCUGACCGUCAAAAUCGCUGAAUCAC--UGAUUUUGCAUAAAGACAGCUGUAAAG-CGGUUCAC-CUUUUGAAUCAUCCUUU-------GUUGGCACUUAAAAUGCAACACU
------..((..((.(.((((((((.((...)).--)))))))))..((((...(((....))-)((((((.-....))))))...))))-------))..))................. ( -22.50)
>DroAna_CAF1 9234 111 + 1
GCAGGAAUUUUGACCGCCAAAAUGGCUGAAUCAUCGUGUUUUCGCUUAAC---------AGAAGGGUUAUGCUUUUUUGAAUCACCUUUUUAGGGGGGGUAGUACUUUAAAUGCAACAUU
(((.(((..(((.((.((((((.((.(((......(((....)))....(---------(((((((.....))))))))..))))).)))).)).))..)))...)))...)))...... ( -22.90)
>consensus
______ACGCUGACCGCCAAAAUCGCUGAAUCAC__UGAUUCAGCAUAAGGCCUGCUGUAAAGGGGGUUUAC_CUUUUGAAUCAUCCUUU_______GUUGGCACUUAAAAUGCAACACU
...............(((((....((((((((.....))))))))..............((((((((((((......)))))).))))))........)))))................. (-16.82 = -18.02 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 20,993,523 – 20,993,616
Length 93
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 88.05
Mean single sequence MFE -22.63
Consensus MFE -16.03
Energy contribution -16.19
Covariance contribution 0.16
Combinations/Pair 1.17
Mean z-score -2.37
Structure conservation index 0.71
SVM decision value 0.75
SVM RNA-class probability 0.841909
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20993523 93 - 23771897
AAUUCACUUGAAGUGCUUACGAGAAUUGCAUUUUAAGUGCCAACAAAGGAUGAUUCAAAAGGUAAACCCCCUUUACACCAGACCUUAUGCUGA
....((((((((((((...........)))))))))))).((.((((((.((.....(((((.......)))))....))..)))).)).)). ( -20.80)
>DroSec_CAF1 11178 92 - 1
AAAUCACUUGAAGUGCUUACGAGAGUUGCAUUUUAAGUGCCAACAAAGGAUUAUUCAAAAGGUAAACCCCCU-UACAACAAGCCUUAUGCUGA
....((((((((((((..((....)).)))))))))))).((.((((((.........((((.......)))-)........)))).)).)). ( -23.43)
>DroSim_CAF1 18586 93 - 1
AAAUCACUUGAAGUGCUUACGAGAGUUGCAUUUUAAGUGCCAACAAAGGAUGAUUCAAAAGGUAAACCCCCUUUACAGCACGCCUUAUGCUGA
....((((((((((((..((....)).))))))))))))((......))........(((((.......))))).(((((.......))))). ( -26.30)
>DroEre_CAF1 19688 92 - 1
AAAUCACUUAAGCUGCGUACAAGUGCUGCAUUUUAAGUGCCAACAAAGGAUGAUUCAAAAGGUAAGCCC-CUUUACAACUGGCAUUAUGCUAA
.....(((((((.((((((....))).))).)))))))((((......((....)).(((((......)-)))).....)))).......... ( -19.50)
>DroYak_CAF1 17360 92 - 1
AAAUCACUUGAAGUGCUUACAAGUGUUGCAUUUUAAGUGCCAACAAAGGAUGAUUCAAAAGGUGAACCG-CUUUACAGCUGUCUUUAUGCAAA
....((((((((((((..((....)).))))))))))))......((((((.........((....))(-((....))).))))))....... ( -23.10)
>consensus
AAAUCACUUGAAGUGCUUACGAGAGUUGCAUUUUAAGUGCCAACAAAGGAUGAUUCAAAAGGUAAACCCCCUUUACAACAGGCCUUAUGCUGA
....((((((((((((...........)))))))))))).......((.((((........(((((.....)))))........)))).)).. (-16.03 = -16.19 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:27 2006