Locus 7458

Sequence ID	2L_DroMel_CAF1
Location	20,698,379 – 20,698,481
Length	102
Max. P	0.817596

overview

Window 9

Location	20,698,379 – 20,698,481
Length	102
Sequences	4
Columns	113
Reading direction	forward
Mean pairwise identity	85.07
Mean single sequence MFE	-35.83
Consensus MFE	-23.38
Energy contribution	-23.94
Covariance contribution	0.56
Combinations/Pair	1.04
Mean z-score	-2.22
Structure conservation index	0.65
SVM decision value	0.67
SVM RNA-class probability	0.817596
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20698379 102 + 22407834
UGCCGGGUCGCUUUGGGCCAUGUUGAAAUGCAAUUGGCUACGCCCAAGAGAUGUUGCCAUGUUGAACGG--------GGCGUAUGAGCAAUCAAGGCAAAUCGGAAAG---AA
..((((...(((((((((((.((((.....))))))))(((((((..((.(((....))).)).....)--------)))))).......)))))))...))))....---.. ( -34.60)
>DroSec_CAF1 21361 104 + 1
UGCCCGGUCGCUUUGGGCCAUGUUGAAAUGCAAUUGGCUACGCCCAAGAGAUGUUGCCAUGUUGAACGGG------CGGCGUAUGAGCAAUCAAGGCAAAUCGGAAAG---AA
...(((((.(((((((((((.((((.....)))))))))..((.((....((((((((.((.....))))------)))))).)).))...))))))..)))))....---.. ( -34.70)
>DroYak_CAF1 21578 110 + 1
UACUCAGUCGCUUUGGGCCAUGUUGAAAUGCAAUUGGCUACGCCCCAGAGAUGUUGUCAUGUUGAACGGGGCAACGGGGCGUAUGAGCAAUCAAGGCGAAUCGAAAAG---AA
...((..(((((((((((((.((((.....))))))))((((((((......((((((.((.....)).)))))))))))))).......)))))))))...))....---.. ( -40.00)
>DroAna_CAF1 23676 111 + 1
UAU--AUUCGCUUUGGGCCAUGUUGAAAUGCAAUUGGCUACGCCCAGGAGAUGUUGCCAUGUUCAACGGGGCAACGGGGCGUAUGAGCAAUCAAAUCAAAUGAAAGAGUUAAA
...--.((((.(((((((((.((((.....))))))))(((((((......(((((((.((.....)).))))))))))))))(((....)))..)))))))))......... ( -34.00)
>consensus
UACCCAGUCGCUUUGGGCCAUGUUGAAAUGCAAUUGGCUACGCCCAAGAGAUGUUGCCAUGUUGAACGGG______GGGCGUAUGAGCAAUCAAGGCAAAUCGAAAAG___AA
.........(((((((((((.((((.....))))))))(((((((......((((.........))))........))))))).......)))))))................ (-23.38 = -23.94 +   0.56)

alignment

secondary structure

dotplot

Window 0

Location	20,698,379 – 20,698,481
Length	102
Sequences	4
Columns	113
Reading direction	reverse
Mean pairwise identity	85.07
Mean single sequence MFE	-28.03
Consensus MFE	-18.83
Energy contribution	-19.32
Covariance contribution	0.50
Combinations/Pair	1.11
Mean z-score	-1.63
Structure conservation index	0.67
SVM decision value	0.10
SVM RNA-class probability	0.585554
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20698379 102 - 22407834
UU---CUUUCCGAUUUGCCUUGAUUGCUCAUACGCC--------CCGUUCAACAUGGCAACAUCUCUUGGGCGUAGCCAAUUGCAUUUCAACAUGGCCCAAAGCGACCCGGCA
..---....(((..((((.(((........((((((--------(........(((....))).....)))))))((((.(((.....)))..)))).))).))))..))).. ( -27.62)
>DroSec_CAF1 21361 104 - 1
UU---CUUUCCGAUUUGCCUUGAUUGCUCAUACGCCG------CCCGUUCAACAUGGCAACAUCUCUUGGGCGUAGCCAAUUGCAUUUCAACAUGGCCCAAAGCGACCGGGCA
..---..........(((((.(.(((((.....((((------((((......(((....)))....)))))((((....))))..........)))....)))))).))))) ( -28.60)
>DroYak_CAF1 21578 110 - 1
UU---CUUUUCGAUUCGCCUUGAUUGCUCAUACGCCCCGUUGCCCCGUUCAACAUGACAACAUCUCUGGGGCGUAGCCAAUUGCAUUUCAACAUGGCCCAAAGCGACUGAGUA
..---...((((..((((.(((........((((((((((((.......))))(((....)))....))))))))((((.(((.....)))..)))).))).)))).)))).. ( -29.30)
>DroAna_CAF1 23676 111 - 1
UUUAACUCUUUCAUUUGAUUUGAUUGCUCAUACGCCCCGUUGCCCCGUUGAACAUGGCAACAUCUCCUGGGCGUAGCCAAUUGCAUUUCAACAUGGCCCAAAGCGAAU--AUA
............(((((.((((........(((((((.((((((..(.....)..)))))).......)))))))((((.(((.....)))..)))).)))).)))))--... ( -26.60)
>consensus
UU___CUUUCCGAUUUGCCUUGAUUGCUCAUACGCCC______CCCGUUCAACAUGGCAACAUCUCUUGGGCGUAGCCAAUUGCAUUUCAACAUGGCCCAAAGCGACCGGGCA
..................((((.(((((..(((((((.........(.....)(((....))).....)))))))((((.(((.....)))..))))....))))).)))).. (-18.83 = -19.32 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:22 2006