Locus 6865

Sequence ID	2L_DroMel_CAF1
Location	19,203,531 – 19,203,638
Length	107
Max. P	0.832561

overview

Window 4

Location	19,203,531 – 19,203,638
Length	107
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	80.45
Mean single sequence MFE	-33.02
Consensus MFE	-18.74
Energy contribution	-19.13
Covariance contribution	0.39
Combinations/Pair	1.14
Mean z-score	-1.92
Structure conservation index	0.57
SVM decision value	0.16
SVM RNA-class probability	0.609994
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19203531 107 + 22407834
UUUGCC---AU-CUCU---G-UCACUUACAGCUUCACCAUUAUGGCCUAUUGUUGGGCCUCCAUGCCAGCUGAGCGACCUUCGUUCAGCCAGCUGCAGAUCUGCCUAUCGGAGUU
......---..-((((---(-........((((....(((...((((((....))))))...)))...((((((((.....)))))))).))))(((....)))....))))).. ( -33.60)
>DroVir_CAF1 36411 109 + 1
CCUUC--CUUUGCUCU---G-GUACUUGCAGUUUCACUAUUAUGGCCUACUGCUGGGCCUCCAUGCCCGCCGAGCGACCCUCGUUCAGUCAGCUUCAGAUCUGCCUAUCGGAGUU
.....--....(((((---(-(((...((((..((........((((((....)))))).....((..((.(((((.....))))).))..))....)).)))).))))))))). ( -34.50)
>DroPse_CAF1 27917 107 + 1
CUUUGU---UU-UCUC---A-UCACCUGCAGCUUUACGAUCAUGGCCUAUUGCUGGGCCUCGAUGCCGGCCGAGCGACCCUCGUUCAGCCAACUGCAGAUCUGCCUCUCGGAGUU
......---..-....---.-....((((((.......(((..((((((....))))))..)))...(((.(((((.....))))).)))..)))))).((((.....))))... ( -34.70)
>DroMoj_CAF1 42297 111 + 1
CUUUCGUUUUUGCUCU---G-AUAAUUACAGCUUCACUAUUAUGGCCUACUGCUGGGCCUCCAUGCCCGCCGAGCGUCCCUCGUUCAGCCAGCUUCAGAUUUGCCUAUCGGAGUU
...........(((((---(-(((..................((((.....((.((((......)))))).(((((.....))))).))))((.........)).))))))))). ( -30.70)
>DroAna_CAF1 72620 111 + 1
UUUUCC---AU-AUUUUUUGUCCACUUUUAGGUUCACCAUCAUGGCCUACUGCUGGGCCUCCAUGCCGAGCGAGCGGCCCUCGUUCAGCCAGCUGCAGAUCUGCCUAUCGGAGUU
......---..-.......(((((.(..(((((.((......)))))))..).)))))((((..((.(((((((.....))))))).)).....(((....))).....)))).. ( -29.90)
>DroPer_CAF1 30803 107 + 1
CUUUGU---UU-UCUC---A-UCACCUGCAGCUUUACGAUCAUGGCCUAUUGCUGGGCCUCGAUGCCGGCCGAGCGACCCUCGUUCAGCCAACUGCAGAUCUGCCUCUCGGAGUU
......---..-....---.-....((((((.......(((..((((((....))))))..)))...(((.(((((.....))))).)))..)))))).((((.....))))... ( -34.70)
>consensus
CUUUCC___UU_CUCU___G_UCACUUGCAGCUUCACCAUCAUGGCCUACUGCUGGGCCUCCAUGCCGGCCGAGCGACCCUCGUUCAGCCAGCUGCAGAUCUGCCUAUCGGAGUU
.............................((((((........((((((....)))))).....((..((.(((((.....))))).))..))................)))))) (-18.74 = -19.13 +   0.39)

alignment

secondary structure

dotplot

Window 5

Location	19,203,531 – 19,203,638
Length	107
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	80.45
Mean single sequence MFE	-35.98
Consensus MFE	-24.70
Energy contribution	-25.15
Covariance contribution	0.45
Combinations/Pair	1.26
Mean z-score	-1.88
Structure conservation index	0.69
SVM decision value	0.72
SVM RNA-class probability	0.832561
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19203531 107 - 22407834
AACUCCGAUAGGCAGAUCUGCAGCUGGCUGAACGAAGGUCGCUCAGCUGGCAUGGAGGCCCAACAAUAGGCCAUAAUGGUGAAGCUGUAAGUGA-C---AGAG-AU---GGCAAA
..(((((....(((....))).((..(((((.((.....)).)))))..)).)))))(((.........(((.....)))....((((.....)-)---))..-..---)))... ( -37.00)
>DroVir_CAF1 36411 109 - 1
AACUCCGAUAGGCAGAUCUGAAGCUGACUGAACGAGGGUCGCUCGGCGGGCAUGGAGGCCCAGCAGUAGGCCAUAAUAGUGAAACUGCAAGUAC-C---AGAGCAAAG--GAAGG
...(((........(((((....(.....).....)))))((((((.((((......)))).(((((....(((....)))..))))).....)-)---.))))...)--))... ( -30.20)
>DroPse_CAF1 27917 107 - 1
AACUCCGAGAGGCAGAUCUGCAGUUGGCUGAACGAGGGUCGCUCGGCCGGCAUCGAGGCCCAGCAAUAGGCCAUGAUCGUAAAGCUGCAGGUGA-U---GAGA-AA---ACAAAG
..((((....)).))((((((((((((((((.((.....)).)))))).((((((.((((.(....).)))).)))).))..))))))))))..-.---....-..---...... ( -41.70)
>DroMoj_CAF1 42297 111 - 1
AACUCCGAUAGGCAAAUCUGAAGCUGGCUGAACGAGGGACGCUCGGCGGGCAUGGAGGCCCAGCAGUAGGCCAUAAUAGUGAAGCUGUAAUUAU-C---AGAGCAAAAACGAAAG
..(((.(((((((....(((..(((.(((((.((.....)).))))).))).(((....))).)))...)))...((((.....))))...)))-)---.)))......(....) ( -32.40)
>DroAna_CAF1 72620 111 - 1
AACUCCGAUAGGCAGAUCUGCAGCUGGCUGAACGAGGGCCGCUCGCUCGGCAUGGAGGCCCAGCAGUAGGCCAUGAUGGUGAACCUAAAAGUGGACAAAAAAU-AU---GGAAAA
...((((...(((....((((.....(((((.((((.....)))).))))).(((....)))))))...))).....((....))..................-.)---)))... ( -32.90)
>DroPer_CAF1 30803 107 - 1
AACUCCGAGAGGCAGAUCUGCAGUUGGCUGAACGAGGGUCGCUCGGCCGGCAUCGAGGCCCAGCAAUAGGCCAUGAUCGUAAAGCUGCAGGUGA-U---GAGA-AA---ACAAAG
..((((....)).))((((((((((((((((.((.....)).)))))).((((((.((((.(....).)))).)))).))..))))))))))..-.---....-..---...... ( -41.70)
>consensus
AACUCCGAUAGGCAGAUCUGCAGCUGGCUGAACGAGGGUCGCUCGGCCGGCAUGGAGGCCCAGCAAUAGGCCAUAAUAGUGAAGCUGCAAGUGA_C___AAAG_AA___AGAAAG
...........((((.......(((((((((.((.....)).))))))))).....((((........))))............))))........................... (-24.70 = -25.15 +   0.45)

alignment

secondary structure

dotplot

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