Locus 1520

Sequence ID	3L_DroMel_CAF1
Location	4,401,751 – 4,401,895
Length	144
Max. P	0.999121

overview

Window 6

Location	4,401,751 – 4,401,871
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	97.33
Mean single sequence MFE	-37.67
Consensus MFE	-36.18
Energy contribution	-36.52
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.97
Structure conservation index	0.96
SVM decision value	3.38
SVM RNA-class probability	0.999121
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4401751 120 - 23771897
GAUCACCAACCUUGGAUGCUCAAUCAAUAGAUUCUCAAAUGGUGAUGUUUCCAUAUUGAUUGGCCCAAUCGAGGUGAAGCAUGGUGGCGGUGUUACGUACCAGGACUCCUCCAUCAGCAC
..(((((....((((..((.(((((((((((..((((.....))).)..))..)))))))))))))))....))))).((.((((((.((.(((.(......)))).)).)))))))).. ( -38.10)
>DroVir_CAF1 82136 120 - 1
GAUCACCAACCUUGGAUGCUCAAUCAAUAGAUUCUCAAAGGGUGAUGCUUCCAUAUUGAUUGGCCCAAUCGAGGUGAAGCAUGGUGGCGGUGUUACGUACCAGGACUCCUCCAUCAGCAC
..(((((....((((..((.((((((((((.....)...(((.......))).)))))))))))))))....))))).((.((((((.((.(((.(......)))).)).)))))))).. ( -37.80)
>DroPse_CAF1 57859 120 - 1
GAUCACCAACCUUGGAUGCUCAAUCAAUAGAUUCUCAAAUGGUGAAGUUUCCAUAUUGAUUGGCCCAAUCGAGGUGAAGCAUGGUGGCGGUGUUACGUACCAGGACUCCUCCAUCAGCAC
..(((((....((((..((.(((((((((((..((((.....)).))..))..)))))))))))))))....))))).((.((((((.((.(((.(......)))).)).)))))))).. ( -38.10)
>DroGri_CAF1 67835 120 - 1
AAUCACCAACCUUGGAUGCUCAAUCAAUAGAUUCUCAAAGGGUGAUGUUUCCAUAUUGAUUGGCCCAAUCGAGGUGAAGCAUGGUGGCGGUGUUACGUACCAGGACUCCUCCAUCAUAAC
..(((((....((((..((.(((((((((((..((((.....))).)..))..)))))))))))))))....)))))...(((((((.((.(((.(......)))).)).)))))))... ( -36.10)
>DroMoj_CAF1 71941 120 - 1
AAUCACCAACCUUGGAUGCUCAAUCAAUAGAUUCUCAAAGGGUGAUGCUUCCAUAUUGAUUGGCCCAAUCGAGGUGAAGCAUGGUGGCGGUGUUACGUACCAGGACUCCUCCAUCAGCAG
..(((((....((((..((.((((((((((.....)...(((.......))).)))))))))))))))....))))).((.((((((.((.(((.(......)))).)).)))))))).. ( -37.80)
>DroPer_CAF1 57774 120 - 1
GAUCACCAACCUUGGAUGCUCAAUCAAUAGAUUCUCAAAUGGUGAAGUUUCCAUAUUGAUUGGCCCAAUCGAGGUGAAGCAUGGUGGCGGUGUUACGUACCAGGACUCCUCCAUCAGCAC
..(((((....((((..((.(((((((((((..((((.....)).))..))..)))))))))))))))....))))).((.((((((.((.(((.(......)))).)).)))))))).. ( -38.10)
>consensus
GAUCACCAACCUUGGAUGCUCAAUCAAUAGAUUCUCAAAGGGUGAUGUUUCCAUAUUGAUUGGCCCAAUCGAGGUGAAGCAUGGUGGCGGUGUUACGUACCAGGACUCCUCCAUCAGCAC
..(((((....((((..((.(((((((((((..((((.....))).)..))..)))))))))))))))....))))).((.((((((.((.(((.(......)))).)).)))))))).. (-36.18 = -36.52 +   0.33)

alignment

secondary structure

dotplot

Window 7

Location	4,401,791 – 4,401,895
Length	104
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	82.57
Mean single sequence MFE	-24.82
Consensus MFE	-23.17
Energy contribution	-23.17
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.75
Structure conservation index	0.93
SVM decision value	0.98
SVM RNA-class probability	0.893259
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4401791 104 + 23771897
GCUUCACCUCGAUUGGGCCAAUCAAUAUGGAAACAUCACCAUUUGAGAAUCUAUUGAUUGAGCAUCCAAGGUUGGUGAUCUUUAUAGUACACAUUACAAGU-------------CUC---
...(((((....(((((((((((((((((....))(((.....))).....))))))))).))..))))....))))).......................-------------...--- ( -25.00)
>DroVir_CAF1 82176 101 + 1
GCUUCACCUCGAUUGGGCCAAUCAAUAUGGAAGCAUCACCCUUUGAGAAUCUAUUGAUUGAGCAUCCAAGGUUGGUGAUCUUUGUUGUACCCC----ACC--------------CCAAA-
............(((((.....(((((.(((..(((((.((((.((...((........))...)).)))).))))).))).)))))......----..)--------------)))).- ( -23.62)
>DroPse_CAF1 57899 102 + 1
GCUUCACCUCGAUUGGGCCAAUCAAUAUGGAAACUUCACCAUUUGAGAAUCUAUUGAUUGAGCAUCCAAGGUUGGUGAUCUUUAUAGUACACAUUU---GU-------------CCC--U
...(((((....(((((((((((((((.(....)((((.....))))....))))))))).))..))))....)))))..................---..-------------...--. ( -24.10)
>DroGri_CAF1 67875 104 + 1
GCUUCACCUCGAUUGGGCCAAUCAAUAUGGAAACAUCACCCUUUGAGAAUCUAUUGAUUGAGCAUCCAAGGUUGGUGAUUUUUGUUGUACUUA---CAACU-------------CUUCAA
...(((((....(((((((((((((((((....))(((.....))).....))))))))).))..))))....))))).....(((((....)---)))).-------------...... ( -28.50)
>DroMoj_CAF1 71981 114 + 1
GCUUCACCUCGAUUGGGCCAAUCAAUAUGGAAGCAUCACCCUUUGAGAAUCUAUUGAUUGAGCAUCCAAGGUUGGUGAUUUUC--UCUACCUC---CAAAACAAAAACAAAAAACCAAA-
...(((((....((((((((((((..(((((..(.(((.....))))..))))))))))).))..))))....))))).....--........---.......................- ( -23.60)
>DroPer_CAF1 57814 102 + 1
GCUUCACCUCGAUUGGGCCAAUCAAUAUGGAAACUUCACCAUUUGAGAAUCUAUUGAUUGAGCAUCCAAGGUUGGUGAUCUUUAUAGUACACAUUU---GU-------------CCC--U
...(((((....(((((((((((((((.(....)((((.....))))....))))))))).))..))))....)))))..................---..-------------...--. ( -24.10)
>consensus
GCUUCACCUCGAUUGGGCCAAUCAAUAUGGAAACAUCACCAUUUGAGAAUCUAUUGAUUGAGCAUCCAAGGUUGGUGAUCUUUAUAGUACACA____AAGU_____________CCC___
...(((((....(((((((((((((((.(....).(((.....))).....))))))))).))..))))....))))).......................................... (-23.17 = -23.17 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:45 2006