Locus 752

Sequence ID X_DroMel_CAF1
Location 2,060,914 – 2,061,058
Length 144
Max. P 0.720914
window1219 window1220

overview

Window 9

Location 2,060,914 – 2,061,029
Length 115
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 80.72
Mean single sequence MFE -45.28
Consensus MFE -25.72
Energy contribution -27.17
Covariance contribution 1.45
Combinations/Pair 1.14
Mean z-score -2.07
Structure conservation index 0.57
SVM decision value 0.29
SVM RNA-class probability 0.670327
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2060914 115 + 22224390
--CUCCAGGCUGGAUGUACGACCUGACGGACUCGUAUGCGCCGGCCUUCCUGAUGGCCGGACUCAUGAUCGCCAUCAGCGGACUGGUGAUGUUCGCCAUUCCGCCGCUGCAGCGCCU
--....(((((((..((((((((....))..))))))...)))))))...(((((((.((.(....).)))))))))(((((.(((((.....))))).)))))(((....)))... ( -48.50)
>DroVir_CAF1 3140 112 + 1
-----CAGGCUGGAUGUACGACAUAACCGGCUCCUAUUCGCCGGCGUUCCUCAUGGCUGGCCUGAUGAUCGCCAUCAGUGGGCUGGUCAUGUUUGCCAUUCCGCCGCUGCAGCGCUA
-----..(((.(((((...(((((.((((((((......((((((..........))))))((((((.....)))))).)))))))).)))))...))))).)))((....)).... ( -46.60)
>DroPse_CAF1 3345 115 + 1
--CUCUAGGCGGGAUGUACGACCUGACGAACUCGUACUCUCCGGCCUUCCUCAUGGCUGGCCUGAUGAUCGCCAUCAGUGGUCUGGUCAUGUUUGCCAUUCCGCCGCUGCAACGCUA
--.....(((((((((.((((((.(((.............((((((........))))))(((((((.....)))))).)))).))))..))....)))))))))((......)).. ( -43.60)
>DroGri_CAF1 2618 117 + 1
AAUUGCAGGUUGUUUGUACGACAUAACGAAAUCAUAUUCGCCGGCCUUCCUCUUGGCGGGCGUGAUGAUUGCCGUCAGUGGACUGGUCAUGUUUGUCAUUCCCCCGCUGCAGCGUUA
........(((((....))))).((((..((((((...((((.(((........))).))))..))))))((.(.((((((...((..(((.....)))..))))))))).)))))) ( -40.10)
>DroMoj_CAF1 3328 117 + 1
CGCCGUAGGCUGGAUGUACGACAUCACGCAAUCCUAUUCGCCGGCCUUCCUCAUGGCCGGCAUCAUGAUCGCCAUCAGCGGCCUGGUCAUGUUCGCCAUUCCGCCGCUGCAGCGCUA
(((....(((.((((...((......))..)))).....(((((((........))))))).........)))..(((((((.((((.......))))....)))))))..)))... ( -45.10)
>DroAna_CAF1 1965 115 + 1
--UCAUAGGUUGGUUGUUCGACCUGACGGGGUCGUAUGAUCCGGCCUUCCUGAUGGCCGGACUGAUGAUCGCCAUCAGUGGCCUCGUGAUGUUCGUCAUUCCGCCGCUCCAGCGUUU
--...((((((((....))))))))((((((((.......((((((........))))))(((((((.....)))))))))))))))(((....))).......(((....)))... ( -47.80)
>consensus
__CUCCAGGCUGGAUGUACGACAUGACGGACUCGUAUUCGCCGGCCUUCCUCAUGGCCGGCCUGAUGAUCGCCAUCAGUGGACUGGUCAUGUUCGCCAUUCCGCCGCUGCAGCGCUA
.......(((.(((((...(((.................(((((((........)))))))...(((((((((......)).).)))))))))...))))).)))((....)).... (-25.72 = -27.17 +   1.45)

alignment

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secondary structure

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dotplot

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Window 0

Location 2,060,949 – 2,061,058
Length 109
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 77.47
Mean single sequence MFE -42.67
Consensus MFE -23.42
Energy contribution -24.12
Covariance contribution 0.69
Combinations/Pair 1.24
Mean z-score -1.82
Structure conservation index 0.55
SVM decision value 0.40
SVM RNA-class probability 0.720914
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2060949 109 + 22224390
GCGCCGGCCUUCCUGAUGGCCGGACUCAUGAUCGCCAUCAGCGGACUGGUGAUGUUCGCCAUUCCGCCGCUGCAGCGCCUGCAGGUUCGCAAGUCGGA--GCGAAAGCCCC---
(((.((((....((((((((.((.(....).)))))))))).(((.(((((.....))))).)))))))((((((...))))))...))).....((.--((....)))).--- ( -48.60)
>DroVir_CAF1 3172 109 + 1
UCGCCGGCGUUCCUCAUGGCUGGCCUGAUGAUCGCCAUCAGUGGGCUGGUCAUGUUUGCCAUUCCGCCGCUGCAGCGCUAUCAGGAGCACAAGGCCGA--GCAGAAGUACA---
..((((((((((((.(((((.(((((((((.....)))))).((..(((.((....)))))..)))))((....))))))).)))))).....)))).--)).........--- ( -44.20)
>DroPse_CAF1 3380 114 + 1
UCUCCGGCCUUCCUCAUGGCUGGCCUGAUGAUCGCCAUCAGUGGUCUGGUCAUGUUUGCCAUUCCGCCGCUGCAACGCUAUCAGGCAGAUAAGGCCGACAACGCAAACCACAAA
.....((((..((....))..))))(((((.....)))))(((((.((((..((((.(((..((.(((...((...)).....))).))...))).)))))).)).)))))... ( -38.70)
>DroGri_CAF1 2655 109 + 1
UCGCCGGCCUUCCUCUUGGCGGGCGUGAUGAUUGCCGUCAGUGGACUGGUCAUGUUUGUCAUUCCCCCGCUGCAGCGUUAUCUGGCCAAUAAGGCUAA--ACAGAAACCAA---
.((((.(((........))).)))).((((((.((.(.((((((...((..(((.....)))..))))))))).))))))))(((((.....))))).--...........--- ( -38.70)
>DroMoj_CAF1 3365 109 + 1
UCGCCGGCCUUCCUCAUGGCCGGCAUCAUGAUCGCCAUCAGCGGCCUGGUCAUGUUCGCCAUUCCGCCGCUGCAGCGCUACCAGGAGCACAAGGCUAA--GCAGAUGUUCA---
..(((((((........)))))))(((.((...(((..(((((((.((((.......))))....)))))))..(.(((......))).)..)))...--.))))).....--- ( -42.60)
>DroAna_CAF1 2000 109 + 1
GAUCCGGCCUUCCUGAUGGCCGGACUGAUGAUCGCCAUCAGUGGCCUCGUGAUGUUCGUCAUUCCGCCGCUCCAGCGUUUCCAGGCCCGUAAAUCGGA--GCAGAAACAUC---
...((((((........))))))(((((((.....)))))))(((...(((((....)))))...)))((....))(((((...(((((.....))).--)).)))))...--- ( -43.20)
>consensus
UCGCCGGCCUUCCUCAUGGCCGGCCUGAUGAUCGCCAUCAGUGGACUGGUCAUGUUCGCCAUUCCGCCGCUGCAGCGCUAUCAGGCCCACAAGGCCGA__GCAGAAACCCA___
..(((((((........))))))).........(((....((((..((((.......))))..))))(((....)))......)))............................ (-23.42 = -24.12 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:57 2006