Locus 420

Sequence ID 3R_DroMel_CAF1
Location 1,547,651 – 1,547,763
Length 112
Max. P 0.831018
window688 window689

overview

Window 8

Location 1,547,651 – 1,547,763
Length 112
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 80.95
Mean single sequence MFE -23.07
Consensus MFE -15.66
Energy contribution -15.69
Covariance contribution 0.03
Combinations/Pair 1.06
Mean z-score -2.03
Structure conservation index 0.68
SVM decision value 0.71
SVM RNA-class probability 0.831018
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1547651 112 + 27905053
---CGCUCUCUGCU--CUG--GCUGCUUUAUCCAUGUCACUCAAUUAUGGCAACAAUUGGUAAAUCCACUUCAAUCCCCAUUCGCCAACCAAGUGACAAACCAUGUCCUGGCCUGAUCC
---.((.....))(--(.(--((((...(((...(((((((......((....)).((((..(((..............)))..))))...)))))))....)))...))))).))... ( -21.04)
>DroVir_CAF1 59494 106 + 1
---GGCCGCUUGGC--CUU----UCUCUUAUCCAUGUCACUCAAUUAUGGCAACAAUUGGUAAAUCCACUUCAAUCUCAAUUCGCCAACCAAGUGACAAACCAGCA-G---AGCAAUCC
---((((....)))--)..----.((((......(((((((......((....)).((((..(((..............)))..))))...))))))).......)-)---))...... ( -22.96)
>DroEre_CAF1 48641 103 + 1
-----------GCU--CUU--ACUGCGUUAUCCAUGUCACUCAAUUAUGGCAACAAUUGGUAAAUCCACUUCAAUCCCAAUUCGCCAACC-AGUGACAAACCAUGUCCUGGCCUGAUCC
-----------((.--...--...)).........((((........((((...((((((................)))))).)))).((-((.((((.....))))))))..)))).. ( -19.99)
>DroWil_CAF1 50162 113 + 1
UCUGGCUU-UAGCC--CUGGCUCUGUGUUAUCCAUGUCACUCAAUUAUGGCAACAAUUGGUAAAUCCACUUCAAUCCCAAUUCGCCAACCAAGUGACAAACCAACUCG---CUCGCUCU
...(((..-..)))--..(((...(((.......(((((((......((((...((((((................)))))).))))....)))))))........))---)..))).. ( -23.65)
>DroYak_CAF1 44989 112 + 1
---CGCUCUGCGCU--CUU--GCUGCGUUAUCCAUGUCACUCAAUUAUGGCAACAAUUGGUAAAUCCACUUAAAUCCCAAUUCGCCAACCAAGUGACAAACCAUGUCCUGGCCUGAUCC
---.(((..((((.--...--...))))......(((((((......((((...((((((................)))))).))))....)))))))...........)))....... ( -22.49)
>DroAna_CAF1 47135 114 + 1
---GGCGUCCCGCUCGCUC--CCCGCGCUAUCCAUGUCACUCAAUUAUGGCAACAAUUGGUAAAUCCACUUCAAUCCCAAUUCGCCAACCAAGUGACAAACCAAGUCCUGGCCGCCUCA
---((((.((.((((((..--...))).......(((((((......((((...((((((................)))))).))))....))))))).....)))...)).))))... ( -28.29)
>consensus
___GGCUC_CCGCU__CUU__GCUGCGUUAUCCAUGUCACUCAAUUAUGGCAACAAUUGGUAAAUCCACUUCAAUCCCAAUUCGCCAACCAAGUGACAAACCAUGUCCUGGCCUGAUCC
..................................(((((((......((((...((((((................)))))).))))....)))))))..................... (-15.66 = -15.69 +   0.03) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 1,547,651 – 1,547,763
Length 112
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 80.95
Mean single sequence MFE -32.88
Consensus MFE -21.83
Energy contribution -22.17
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.50
Structure conservation index 0.66
SVM decision value 0.15
SVM RNA-class probability 0.608317
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1547651 112 - 27905053
GGAUCAGGCCAGGACAUGGUUUGUCACUUGGUUGGCGAAUGGGGAUUGAAGUGGAUUUACCAAUUGUUGCCAUAAUUGAGUGACAUGGAUAAAGCAGC--CAG--AGCAGAGAGCG---
((...((((((.....))))))((((((..((((((((.((((((((......))))).)))....))))))..))..)))))).............)--)..--.((.....)).--- ( -31.20)
>DroVir_CAF1 59494 106 - 1
GGAUUGCU---C-UGCUGGUUUGUCACUUGGUUGGCGAAUUGAGAUUGAAGUGGAUUUACCAAUUGUUGCCAUAAUUGAGUGACAUGGAUAAGAGA----AAG--GCCAAGCGGCC---
......((---(-(.......(((((((..((((((((.....(((((............))))).))))))..))..)))))))......)))).----..(--(((....))))--- ( -33.22)
>DroEre_CAF1 48641 103 - 1
GGAUCAGGCCAGGACAUGGUUUGUCACU-GGUUGGCGAAUUGGGAUUGAAGUGGAUUUACCAAUUGUUGCCAUAAUUGAGUGACAUGGAUAACGCAGU--AAG--AGC-----------
...((.((((((((((.....)))).))-)))).(((((((((................))))))((..(((....)).)..))........)))...--..)--)..----------- ( -26.69)
>DroWil_CAF1 50162 113 - 1
AGAGCGAG---CGAGUUGGUUUGUCACUUGGUUGGCGAAUUGGGAUUGAAGUGGAUUUACCAAUUGUUGCCAUAAUUGAGUGACAUGGAUAACACAGAGCCAG--GGCUA-AAGCCAGA
.(.((.((---(...(((((((((((((..(((((((((((((................)))))..))))))..))..)))))).((.....))..)))))))--.))).-..)))... ( -34.89)
>DroYak_CAF1 44989 112 - 1
GGAUCAGGCCAGGACAUGGUUUGUCACUUGGUUGGCGAAUUGGGAUUUAAGUGGAUUUACCAAUUGUUGCCAUAAUUGAGUGACAUGGAUAACGCAGC--AAG--AGCGCAGAGCG---
..(((((((((.....))))))((((((..((((((((((((((((((....)))))..)))))..))))))..))..))))))...)))...((.((--...--.))))......--- ( -33.60)
>DroAna_CAF1 47135 114 - 1
UGAGGCGGCCAGGACUUGGUUUGUCACUUGGUUGGCGAAUUGGGAUUGAAGUGGAUUUACCAAUUGUUGCCAUAAUUGAGUGACAUGGAUAGCGCGGG--GAGCGAGCGGGACGCC---
...((((.((....((.....(((((((..(((((((((((((................)))))..))))))..))..))))))).....))(((.(.--...)..))))).))))--- ( -37.69)
>consensus
GGAUCAGGCCAGGACAUGGUUUGUCACUUGGUUGGCGAAUUGGGAUUGAAGUGGAUUUACCAAUUGUUGCCAUAAUUGAGUGACAUGGAUAACGCAGC__AAG__AGCAA_AAGCC___
.....................(((((((..(((((((((((((((((......))))..)))))..))))))..))..))))))).................................. (-21.83 = -22.17 +   0.33) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:47 2006