Locus 6308

Sequence ID 2L_DroMel_CAF1
Location 17,570,784 – 17,570,877
Length 93
Max. P 0.973213
window10079 window10080

overview

Window 9

Location 17,570,784 – 17,570,877
Length 93
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 78.81
Mean single sequence MFE -29.57
Consensus MFE -22.44
Energy contribution -22.00
Covariance contribution -0.44
Combinations/Pair 1.17
Mean z-score -1.22
Structure conservation index 0.76
SVM decision value 0.43
SVM RNA-class probability 0.735008
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17570784 93 + 22407834
--UGUGUCCGUUGGCCGUGAGCGCAGCCAUGUUUUUUCCAGCAAGGCAAAUGGCGCAGGCGCCAUUGC--UUACACUGGCAGAAAUUUUAUAAAGUG-----------
--....((.((..(..((((((...(((.((((......)))).))).(((((((....)))))))))--)))).)..)).))..............----------- ( -31.80)
>DroSec_CAF1 87148 93 + 1
--UGUGUCCGUUGGCCGUGAGCGCAGCCAUGUUUUUUCCAGCAAGGCAAAUGGCGCAGGCGCCAUUGC--AUACACUGGCAGAAAUUUAAUAAAGUU-----------
--.........((((.((....)).)))).((((((.((((....((((.(((((....)))))))))--.....)))).))))))...........----------- ( -28.00)
>DroSim_CAF1 86248 93 + 1
--UGUGUCCGUUGGCCGUGAGCGCAGCCAUGUUUUUUCCAGCAAGGCAAAUGGCGCAGGCGCCAUUGC--AUACACUGGCAGAAAUUUUAAGAAGUG-----------
--.........((((.((....)).)))).((((((.((((....((((.(((((....)))))))))--.....)))).))))))...........----------- ( -28.00)
>DroEre_CAF1 85812 102 + 1
---GUGUCUGUUGGCCGUGAGCGCAGCCAUGUUUUUUCCAGCGAGACAAAUGGCGCAGGCGCCAU-GC--GUACACUGGCAGAAAUUUGAUGAAUCGAUAUUAGGAAA
---..(((.(((.((((((.((((.....((((((.......)))))).((((((....))))))-))--)).))).)))...)))..)))................. ( -29.10)
>DroYak_CAF1 87489 103 + 1
--AGUGCCUGUUGGCCGUGAGCGCAGCCAUGUUUUUUCCAGCGAGACAAAUGGCGCAGGCGCCAUUGC--AAACACUGAGAGAAAUUUGGGGAAUCGGAA-AAGGAAA
--....(((.((((((....).))..(((.((((((..(((.(.....(((((((....)))))))..--...).)))..)))))).))).....)))..-.)))... ( -31.50)
>DroAna_CAF1 92675 89 + 1
AGAGUGUC--CUGGCCGUGAGCGCAGCCAUGUUUUUUCCAGCGAAAUAAAUGGCGCAGGCGCCAUCACACAGACACUGCAAGAUAAACUAU-----------------
..((((((--.((...((((((((.(((((....((((....))))...)))))....))))..)))).))))))))..............----------------- ( -29.00)
>consensus
__UGUGUCCGUUGGCCGUGAGCGCAGCCAUGUUUUUUCCAGCAAGACAAAUGGCGCAGGCGCCAUUGC__AUACACUGGCAGAAAUUUUAUGAAGUG___________
...((((......((.(((.((((.((((((((((.......))))))..))))....))))))).))....))))................................ (-22.44 = -22.00 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,570,784 – 17,570,877
Length 93
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 78.81
Mean single sequence MFE -31.05
Consensus MFE -27.82
Energy contribution -27.35
Covariance contribution -0.47
Combinations/Pair 1.28
Mean z-score -2.64
Structure conservation index 0.90
SVM decision value 1.71
SVM RNA-class probability 0.973213
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17570784 93 - 22407834
-----------CACUUUAUAAAAUUUCUGCCAGUGUAA--GCAAUGGCGCCUGCGCCAUUUGCCUUGCUGGAAAAAACAUGGCUGCGCUCACGGCCAACGGACACA--
-----------..............((((((((((...--(((((((((....))))).))))..))))))........((((((......)))))).))))....-- ( -31.40)
>DroSec_CAF1 87148 93 - 1
-----------AACUUUAUUAAAUUUCUGCCAGUGUAU--GCAAUGGCGCCUGCGCCAUUUGCCUUGCUGGAAAAAACAUGGCUGCGCUCACGGCCAACGGACACA--
-----------..............((((((((((...--(((((((((....))))).))))..))))))........((((((......)))))).))))....-- ( -31.40)
>DroSim_CAF1 86248 93 - 1
-----------CACUUCUUAAAAUUUCUGCCAGUGUAU--GCAAUGGCGCCUGCGCCAUUUGCCUUGCUGGAAAAAACAUGGCUGCGCUCACGGCCAACGGACACA--
-----------..............((((((((((...--(((((((((....))))).))))..))))))........((((((......)))))).))))....-- ( -31.40)
>DroEre_CAF1 85812 102 - 1
UUUCCUAAUAUCGAUUCAUCAAAUUUCUGCCAGUGUAC--GC-AUGGCGCCUGCGCCAUUUGUCUCGCUGGAAAAAACAUGGCUGCGCUCACGGCCAACAGACAC---
.........................((((((((((.((--(.-((((((....)))))).)))..))))))........((((((......)))))).))))...--- ( -33.30)
>DroYak_CAF1 87489 103 - 1
UUUCCUU-UUCCGAUUCCCCAAAUUUCUCUCAGUGUUU--GCAAUGGCGCCUGCGCCAUUUGUCUCGCUGGAAAAAACAUGGCUGCGCUCACGGCCAACAGGCACU--
.......-..........((...(((.((.(((((...--(((((((((....))))).))))..))))))).)))...((((((......))))))...))....-- ( -29.10)
>DroAna_CAF1 92675 89 - 1
-----------------AUAGUUUAUCUUGCAGUGUCUGUGUGAUGGCGCCUGCGCCAUUUAUUUCGCUGGAAAAAACAUGGCUGCGCUCACGGCCAG--GACACUCU
-----------------..............((((((((((.(((((((....))))))).....)))...........((((((......)))))))--)))))).. ( -29.70)
>consensus
___________CACUUCAUAAAAUUUCUGCCAGUGUAU__GCAAUGGCGCCUGCGCCAUUUGCCUCGCUGGAAAAAACAUGGCUGCGCUCACGGCCAACGGACACA__
.........................((((((((((.....(((((((((....))))).))))..))))))........((((((......)))))).))))...... (-27.82 = -27.35 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:53 2006