Locus 7077

Sequence ID	X_DroMel_CAF1
Location	17,741,572 – 17,741,680
Length	108
Max. P	0.995467

overview

Window 7

Location	17,741,572 – 17,741,680
Length	108
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	90.11
Mean single sequence MFE	-34.34
Consensus MFE	-28.36
Energy contribution	-28.44
Covariance contribution	0.08
Combinations/Pair	1.14
Mean z-score	-2.55
Structure conservation index	0.83
SVM decision value	2.58
SVM RNA-class probability	0.995467
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17741572 108 + 22224390
CCUUUCCAUGUGUGACCAUUGCAGCUGCACCGCAAUCUAAGGCCCAGCCCGCGCUGUGGUCACACUGAC-AAAUAA--AAAAAAACAAGACGUCGUCAUUCGCGUUGGAAU
...((((..(((((((((((((.((((..((.........))..))))..)))..))))))))))....-......--..........((((.((.....)))))))))). ( -34.50)
>DroSec_CAF1 1496 108 + 1
UCUUUCCAUGUGUGACCAUUGCAGCUGCACCGCGAUUUAAGGCCCAGCCCGUGCUGUGGUCACACUGAC-AAAUAA--AAAAAAACAAGACGUCGUCAUUCGCGUUGGAAU
...((((..((((((((((.(((((((..((.........))..))))...))).))))))))))....-......--..........((((.((.....)))))))))). ( -35.90)
>DroSim_CAF1 1481 108 + 1
UCUUUCCAUGUGUGACCAUUGCAGCUGCACCGCGAUUUAAGGCCCAACCCGUGCUGUGGUCACACUGAC-AAAUAA--AAAAAAACAAGACGUCGUCAUUCGCGUUGGAAU
...((((..((((((((((.(((((......)).......((......)).))).))))))))))....-......--..........((((.((.....)))))))))). ( -31.60)
>DroEre_CAF1 1497 108 + 1
UCUUUUCAAGUGUGACCAUGGCAGCUGCACCUCGGUUUAUGGCCUGGCCCCCGCUGUGGUCACACUGAC-AAAUAA--AAAAAAACAAGACGUCGUCAUUCGCGUUGGAAU
...((((.(((((((((((((((((((.....)))))...(((...)))...))))))))))))))...-......--..........((((.((.....)))))))))). ( -33.80)
>DroYak_CAF1 1734 111 + 1
UCUUCCGCAGUGUGACCAUUGCAGCUGCACUUCGGCUUAAGGCCUAGCCCCCACUGUGGUCACACUGACCGAAUAAAAAAAAAAACAAGACGUCGUCAUUCGCGUUGGAAU
..((((.(((((((((((((((....)))....((((........))))......)))))))))))).....................((((.((.....)))))))))). ( -35.90)
>consensus
UCUUUCCAUGUGUGACCAUUGCAGCUGCACCGCGAUUUAAGGCCCAGCCCGCGCUGUGGUCACACUGAC_AAAUAA__AAAAAAACAAGACGUCGUCAUUCGCGUUGGAAU
...((((..((((((((((.((.((((..((.........))..))))....)).)))))))))).......................((((.((.....)))))))))). (-28.36 = -28.44 +   0.08)

alignment

secondary structure

dotplot

Window 8

Location	17,741,572 – 17,741,680
Length	108
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	90.11
Mean single sequence MFE	-36.95
Consensus MFE	-29.52
Energy contribution	-30.44
Covariance contribution	0.92
Combinations/Pair	1.10
Mean z-score	-2.03
Structure conservation index	0.80
SVM decision value	1.29
SVM RNA-class probability	0.938294
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17741572 108 - 22224390
AUUCCAACGCGAAUGACGACGUCUUGUUUUUUU--UUAUUU-GUCAGUGUGACCACAGCGCGGGCUGGGCCUUAGAUUGCGGUGCAGCUGCAAUGGUCACACAUGGAAAGG
.(((((.......((((((..............--....))-))))(((((((((..((...(((((.(((.........))).)))))))..))))))))).)))))... ( -38.27)
>DroSec_CAF1 1496 108 - 1
AUUCCAACGCGAAUGACGACGUCUUGUUUUUUU--UUAUUU-GUCAGUGUGACCACAGCACGGGCUGGGCCUUAAAUCGCGGUGCAGCUGCAAUGGUCACACAUGGAAAGA
.(((((.......((((((..............--....))-))))(((((((((..(((...((((.(((.........))).)))))))..))))))))).)))))... ( -38.27)
>DroSim_CAF1 1481 108 - 1
AUUCCAACGCGAAUGACGACGUCUUGUUUUUUU--UUAUUU-GUCAGUGUGACCACAGCACGGGUUGGGCCUUAAAUCGCGGUGCAGCUGCAAUGGUCACACAUGGAAAGA
.(((((.......((((((..............--....))-))))(((((((((..(((...((((.(((.........))).)))))))..))))))))).)))))... ( -35.87)
>DroEre_CAF1 1497 108 - 1
AUUCCAACGCGAAUGACGACGUCUUGUUUUUUU--UUAUUU-GUCAGUGUGACCACAGCGGGGGCCAGGCCAUAAACCGAGGUGCAGCUGCCAUGGUCACACUUGAAAAGA
....(((.(((........))).))).......--......-.((((((((((((((((..(.(((.((.......))..))).).))))...))))))))).)))..... ( -32.30)
>DroYak_CAF1 1734 111 - 1
AUUCCAACGCGAAUGACGACGUCUUGUUUUUUUUUUUAUUCGGUCAGUGUGACCACAGUGGGGGCUAGGCCUUAAGCCGAAGUGCAGCUGCAAUGGUCACACUGCGGAAGA
.((((....(((((((.((.............)).)))))))(.(((((((((((((((..(.(((.(((.....)))..))).).))))...)))))))))))))))).. ( -40.02)
>consensus
AUUCCAACGCGAAUGACGACGUCUUGUUUUUUU__UUAUUU_GUCAGUGUGACCACAGCGCGGGCUGGGCCUUAAAUCGCGGUGCAGCUGCAAUGGUCACACAUGGAAAGA
.((((((((((.....)).)))........................(((((((((..((...(((((.(((.........))).)))))))..))))))))).)))))... (-29.52 = -30.44 +   0.92)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:35 2006