Locus 7103

Sequence ID	2L_DroMel_CAF1
Location	19,903,468 – 19,903,590
Length	122
Max. P	0.887864

overview

Window 1

Location	19,903,468 – 19,903,563
Length	95
Sequences	6
Columns	101
Reading direction	reverse
Mean pairwise identity	80.33
Mean single sequence MFE	-28.43
Consensus MFE	-16.88
Energy contribution	-17.38
Covariance contribution	0.50
Combinations/Pair	1.30
Mean z-score	-2.45
Structure conservation index	0.59
SVM decision value	0.95
SVM RNA-class probability	0.887864
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19903468 95 - 22407834
CACGCCUCU-----UGUCCCCGGUAAAUAUUUAUUGGCAGUCUGCAAUCACAGUCCGCAAUUUGCGCGGACUGCGGUAUCAGUAUCUGCAAGAUACUUUU-
......(((-----((...(((((((....)))))))(((.(((..(((.((((((((.......)))))))).)))..)))...)))))))).......- ( -30.10)
>DroVir_CAF1 132148 93 - 1
CACGCGGCUCUCUCAGGCCGUAGAACACAUUUACAGCUUGUCUGG--------GGCGUGAUUUGCAUGAGUUGCGGUCACAGUAUCUGUCAGAUACAUUUU
......(((((..(((((.(((((.....))))).)))))...))--------)))((((((.(((.....))))))))).(((((.....)))))..... ( -30.60)
>DroSec_CAF1 79923 95 - 1
CACGCCUCU-----UGUCCCCGGUAAAUAUUUAUUGGCAGUCUGCAAUCACAGUCCGCAAUUUGCGCGGACUGCGGUAUCAGUAUCUGCAAGAUACUUUU-
......(((-----((...(((((((....)))))))(((.(((..(((.((((((((.......)))))))).)))..)))...)))))))).......- ( -30.10)
>DroSim_CAF1 91140 95 - 1
CACGCCUCU-----UGUCCCCGGUAAAUAUUUAUUGGCAGUCUGCAAUCACAGUCCGCAAUUUGCGCGGACUGCGGUAUCAGUAUCUGCAAGAUACUUUU-
......(((-----((...(((((((....)))))))(((.(((..(((.((((((((.......)))))))).)))..)))...)))))))).......- ( -30.10)
>DroEre_CAF1 86701 89 - 1
CACGCCUCU-----GGUCCCAAGUAAAUAUUUAUUGGCAGUCUGCAAUCACAG------AUUUGCGCGGACUGCGGUAUCAGUAUCUGUAAGAUACUUUU-
........(-----(((.((.(((((....))))).(((((((((((((...)------)))...))))))))))).))))(((((.....)))))....- ( -24.70)
>DroYak_CAF1 85016 89 - 1
CACGCCUCU-----GGUUCCCGGUAAAUAUUUAUUGGCAGUCUGCAAUCACAG------AUUUGCGUGGACUGCGGUAUCAGUAUCUGUAAGAUACUUUU-
........(-----(((.((((((((....))))))(((((((((((......------..))))..))))))))).))))(((((.....)))))....- ( -25.00)
>consensus
CACGCCUCU_____UGUCCCCGGUAAAUAUUUAUUGGCAGUCUGCAAUCACAGUCCGCAAUUUGCGCGGACUGCGGUAUCAGUAUCUGCAAGAUACUUUU_
...(((..............((((((....))))))(((((((((....................))))))))))))....(((((.....)))))..... (-16.88 = -17.38 +   0.50)

alignment

secondary structure

dotplot

Window 2

Location	19,903,497 – 19,903,590
Length	93
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	76.22
Mean single sequence MFE	-24.43
Consensus MFE	-14.59
Energy contribution	-15.12
Covariance contribution	0.53
Combinations/Pair	1.31
Mean z-score	-1.61
Structure conservation index	0.60
SVM decision value	0.52
SVM RNA-class probability	0.769423
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19903497 93 + 22407834
GUCCGCGCAAAUUGCGGACUGUGAUUGCAGACUGCCAAUAAAUAUUUACCGGGGACAAGAGGCGUGGGCAA-CGACCAUUAAAA---UCAUAAAAGA
((((((((.....((((.((((....)))).))))...............(....).....))))))))..-............---.......... ( -26.30)
>DroGri_CAF1 119107 84 + 1
ACUCAUGCAAAUCACGCC--------UCAGACAAGCUGUAACUGCGCU---UGGCCU-ACCGCGUGGGCGGUUUGCCAUAAAA-AAGCCAUAAAGAA
......(((((((.....--------.....(((((.((....)))))---))((((-((...))))))))))))).......-............. ( -22.70)
>DroSec_CAF1 79952 93 + 1
GUCCGCGCAAAUUGCGGACUGUGAUUGCAGACUGCCAAUAAAUAUUUACCGGGGACAAGAGGCGUGGGCGA-CGGCCAUUAAAA---UCAUAAAAGA
((((((((.....((((.((((....)))).))))...............(....).....))))))))..-............---.......... ( -26.30)
>DroSim_CAF1 91169 93 + 1
GUCCGCGCAAAUUGCGGACUGUGAUUGCAGACUGCCAAUAAAUAUUUACCGGGGACAAGAGGCGUGGGCGA-CGGCCAUUAAAA---UCAUAAAAGA
((((((((.....((((.((((....)))).))))...............(....).....))))))))..-............---.......... ( -26.30)
>DroEre_CAF1 86730 87 + 1
GUCCGCGCAAAU------CUGUGAUUGCAGACUGCCAAUAAAUAUUUACUUGGGACCAGAGGCGUGGGCGA-AGGCCAUUAAAA---CCAUAAAAGA
((((((((...(------((((....)))))((((((((((....))).))))...)))..))))))))..-............---.......... ( -23.40)
>DroYak_CAF1 85045 87 + 1
GUCCACGCAAAU------CUGUGAUUGCAGACUGCCAAUAAAUAUUUACCGGGAACCAGAGGCGUGGGCGA-CGGCCAUUAAAA---CCAUAAAAGA
((((((((...(------((((....)))))(((((..(((....)))...))...)))..))))))))..-............---.......... ( -21.60)
>consensus
GUCCGCGCAAAUUGCGGACUGUGAUUGCAGACUGCCAAUAAAUAUUUACCGGGGACAAGAGGCGUGGGCGA_CGGCCAUUAAAA___CCAUAAAAGA
((((((((..........((((....))))....................(....).....))))))))............................ (-14.59 = -15.12 +   0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:34 2006