Locus 7082

Sequence ID 3L_DroMel_CAF1
Location 19,143,509 – 19,143,679
Length 170
Max. P 0.999921
window11487 window11488 window11489

overview

Window 7

Location 19,143,509 – 19,143,601
Length 92
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.22
Mean single sequence MFE -24.14
Consensus MFE -10.70
Energy contribution -10.66
Covariance contribution -0.04
Combinations/Pair 1.08
Mean z-score -3.60
Structure conservation index 0.44
SVM decision value 4.57
SVM RNA-class probability 0.999921
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19143509 92 + 23771897
AAAGA-----GAAAUCGGUGGCACUAUAUCGC-CUAUAUA----CAUACAUAUAUACGAAUACA------------------GUAUGUGUGUGUGAAGCAAUCACACCAAAUAAAUCAUU
...((-----....))((((((........))-)......----(((((((((((((.......------------------)))))))))))))..........)))............ ( -25.10)
>DroSec_CAF1 6419 74 + 1
AAAGA-----GAAAUCGGUGGCACUAUACCGUGCCAUGUG----UGUACA-------------------------------------UGUGUGUGAAGCAAUCACACCAAAUAAAUCAUU
...((-----....)).(((((((......)))))))(((----..((..-------------------------------------((.((((((.....))))))))..))...))). ( -21.10)
>DroSim_CAF1 5988 92 + 1
AAAGA-----GAAAUCGGUGGCACUAUACCGC-CUAUAUA----CAUACAUAUAUACGAAUAUA------------------CUAUGUGUGUGUGAAGCAAUCACACCAAAUAAAUCAUU
...((-----....))((((((........))-((.((((----((((((((((((....))))------------------.)))))))))))).))......))))............ ( -22.10)
>DroEre_CAF1 6861 111 + 1
AAAGCGCAAUGGAAUCGGUGGCAGUAUAUCGC-CUAUAU--------ACAAAUAUACGAAUAUACUUGUAGUACACACAUACAUAUGUGUGUGUGAAGCAAUCACACCAAAUAAAUCAUU
................(((((((((((((((.-.(((((--------....))))))).)))))).)))....(((((((((....))))))))).........))))............ ( -27.80)
>DroYak_CAF1 6888 96 + 1
AAAGA-----GGAAUCGGCGGCAGUAUAUCGC-CUAUAUAUGUACAUACAUAUAUACGAAUAUA------------------GUAUGUGUGUGUGAAGUAAUCACACCAAAUAAAUCAUU
.....-----((....(((((.......))))-)..........(((((((((((((.......------------------)))))))))))))...........))............ ( -24.60)
>consensus
AAAGA_____GAAAUCGGUGGCACUAUAUCGC_CUAUAUA____CAUACAUAUAUACGAAUAUA__________________GUAUGUGUGUGUGAAGCAAUCACACCAAAUAAAUCAUU
...............(((((......)))))........................................................((.((((((.....))))))))........... (-10.70 = -10.66 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,143,509 – 19,143,601
Length 92
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 74.22
Mean single sequence MFE -22.86
Consensus MFE -10.27
Energy contribution -11.48
Covariance contribution 1.21
Combinations/Pair 1.16
Mean z-score -2.53
Structure conservation index 0.45
SVM decision value 2.59
SVM RNA-class probability 0.995546
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19143509 92 - 23771897
AAUGAUUUAUUUGGUGUGAUUGCUUCACACACACAUAC------------------UGUAUUCGUAUAUAUGUAUG----UAUAUAG-GCGAUAUAGUGCCACCGAUUUC-----UCUUU
...........((((((((.....)))))).))..(((------------------(((((((.(((((((....)----)))))).-).)))))))))...........-----..... ( -21.30)
>DroSec_CAF1 6419 74 - 1
AAUGAUUUAUUUGGUGUGAUUGCUUCACACACA-------------------------------------UGUACA----CACAUGGCACGGUAUAGUGCCACCGAUUUC-----UCUUU
.......(((.((((((((.....)))))).))-------------------------------------.)))..----....((((((......))))))........-----..... ( -19.50)
>DroSim_CAF1 5988 92 - 1
AAUGAUUUAUUUGGUGUGAUUGCUUCACACACACAUAG------------------UAUAUUCGUAUAUAUGUAUG----UAUAUAG-GCGGUAUAGUGCCACCGAUUUC-----UCUUU
......((((.((((((((.....)))))).)).))))------------------(((((.(((((....)))))----.)))))(-(.(((.....))).))......-----..... ( -20.60)
>DroEre_CAF1 6861 111 - 1
AAUGAUUUAUUUGGUGUGAUUGCUUCACACACACAUAUGUAUGUGUGUACUACAAGUAUAUUCGUAUAUUUGU--------AUAUAG-GCGAUAUACUGCCACCGAUUCCAUUGCGCUUU
............((((..((.(..((..((((((((....))))))))..((((((((((....)))))))))--------)....(-(((......))))...))..).))..)))).. ( -30.20)
>DroYak_CAF1 6888 96 - 1
AAUGAUUUAUUUGGUGUGAUUACUUCACACACACAUAC------------------UAUAUUCGUAUAUAUGUAUGUACAUAUAUAG-GCGAUAUACUGCCGCCGAUUCC-----UCUUU
.(((.........((((((.....))))))..((((((------------------(((((....))))).)))))).))).....(-(((.........))))......-----..... ( -22.70)
>consensus
AAUGAUUUAUUUGGUGUGAUUGCUUCACACACACAUAC__________________UAUAUUCGUAUAUAUGUAUG____UAUAUAG_GCGAUAUAGUGCCACCGAUUUC_____UCUUU
..........(((((((((.....)))).................................((((...((((((......))))))..)))).........))))).............. (-10.27 = -11.48 +   1.21)

alignment

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secondary structure

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dotplot

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Window 9

Location 19,143,563 – 19,143,679
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.97
Mean single sequence MFE -22.07
Consensus MFE -19.91
Energy contribution -20.11
Covariance contribution 0.20
Combinations/Pair 1.08
Mean z-score -1.15
Structure conservation index 0.90
SVM decision value 0.04
SVM RNA-class probability 0.554181
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19143563 116 - 23771897
UCUCGCCACUGCAUCCAUCUCUUUCUCUUCGCAUACGACCAUCUUC--CUCUCUGCGACUCCGAAAUGGCAAAUGCAUUGAAUGAUUUAUUUGGUGUGAUUGCUUCACACACACAUAC--
......((.(((((((((.((.......(((((...((........--.))..)))))....)).))))...))))).)).......(((.((((((((.....)))))).)).))).-- ( -21.70)
>DroSec_CAF1 6460 109 - 1
UCUCGCCACUGCAUCCGCCUCUUUCUCUUUGCAUACGACCAUCUC----UCUCUGCGACUCCGAAAUGGCAAAUGCAUUGAAUGAUUUAUUUGGUGUGAUUGCUUCACACACA-------
......((.(((((..(((..((((...(((((...((.......----))..)))))....)))).)))..))))).)).............((((((.....))))))...------- ( -23.70)
>DroSim_CAF1 6042 118 - 1
UCUCGCCACUGCAUCCGCCUCUUUCUCUUUGCAUACGACCAUCUCUCUCUCUCUGCGACUCCGAAAUGGCAAAUGCAUUGAAUGAUUUAUUUGGUGUGAUUGCUUCACACACACAUAG--
......((.(((((..(((..((((...(((((....................)))))....)))).)))..))))).)).......(((.((((((((.....)))))).)).))).-- ( -24.15)
>DroEre_CAF1 6932 116 - 1
UCUCGCCCCUGCAUCCGUCUCUUUCCCUUUGCAUACGACCAUCUC----UCUCUGCGACUCCGAAAUGGCAAAUGCAUUGAAUGAUUUAUUUGGUGUGAUUGCUUCACACACACAUAUGU
.........(((((..(((..((((...(((((...((.......----))..)))))....)))).)))..)))))..........(((.((((((((.....)))))).)).)))... ( -20.30)
>DroYak_CAF1 6946 114 - 1
UCUCGCCCCUGCAUCCGUCCCUUUCUCUUUGCAUACGACCGUCUC----UCUCUGCGACUCCGAAAUGGCAAAUGCAUUGAAUGAUUUAUUUGGUGUGAUUACUUCACACACACAUAC--
.........(((((..(.((.((((...(((((...((.......----))..)))))....)))).)))..)))))..........(((.((((((((.....)))))).)).))).-- ( -20.50)
>consensus
UCUCGCCACUGCAUCCGUCUCUUUCUCUUUGCAUACGACCAUCUC____UCUCUGCGACUCCGAAAUGGCAAAUGCAUUGAAUGAUUUAUUUGGUGUGAUUGCUUCACACACACAUAC__
......((.(((((..(((..((((...(((((....................)))))....)))).)))..))))).)).............((((((.....)))))).......... (-19.91 = -20.11 +   0.20)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:21 2006