Locus 2717

Sequence ID 2L_DroMel_CAF1
Location 7,626,623 – 7,626,728
Length 105
Max. P 0.974004
window4324 window4325

overview

Window 4

Location 7,626,623 – 7,626,728
Length 105
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 94.17
Mean single sequence MFE -30.35
Consensus MFE -26.98
Energy contribution -27.23
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.41
Structure conservation index 0.89
SVM decision value 1.58
SVM RNA-class probability 0.965170
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7626623 105 + 22407834
UGGGCGCCUGGGAGCAGCAGCUUACUGACUAGACAGCUUCGAGUCCAAAAAGCGAUUUUAAUUCAACACAAACAAACAAGCAUCAAUAGCAGAGCCCAGGCAGCC---
..((((((((((..(.((.((((...((((.((.....)).))))....))))((.......))........................)).)..))))))).)))--- ( -30.80)
>DroSec_CAF1 126373 98 + 1
UGGGCGCCUGGGAGC---AGCUUACUGACUAGACAGCUUCGAGUCCAAAAAGCGAUUUUAAUUCAACACAA----ACAAGCAUCAAUAGCAGAGCCCAGGCAGCC---
..((((((((((..(---.((((...((((.((.....)).))))....))))..................----....((.......)).)..))))))).)))--- ( -29.80)
>DroSim_CAF1 132279 98 + 1
UGGGCGCCUGGGAGC---AGCUUACUGACUAGACAGCUUCGAGUCCAAAAAGCGAUUUUAAUUCAACACAA----ACAAGCAUCAAUAGCAGAGCCCAGGCAGCC---
..((((((((((..(---.((((...((((.((.....)).))))....))))..................----....((.......)).)..))))))).)))--- ( -29.80)
>DroYak_CAF1 129699 101 + 1
UGGGCGCCUGGGAGC---AGCUUACUGACUAGACAGCUUCGAGUCCAAAAAGCGAUUUUAAUUCAACACAA----ACAGGCAUCAAUAGCAGAGCCCAGGCAACCCAG
((((.(((((((..(---.((((...((((.((.....)).))))....))))..................----....((.......)).)..)))))))..)))). ( -31.00)
>consensus
UGGGCGCCUGGGAGC___AGCUUACUGACUAGACAGCUUCGAGUCCAAAAAGCGAUUUUAAUUCAACACAA____ACAAGCAUCAAUAGCAGAGCCCAGGCAGCC___
..((((((((((..(....((((...((((.((.....)).))))....))))..........................((.......)).)..))))))).)))... (-26.98 = -27.23 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 7,626,623 – 7,626,728
Length 105
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 94.17
Mean single sequence MFE -35.35
Consensus MFE -32.01
Energy contribution -31.82
Covariance contribution -0.19
Combinations/Pair 1.04
Mean z-score -2.41
Structure conservation index 0.91
SVM decision value 1.72
SVM RNA-class probability 0.974004
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7626623 105 - 22407834
---GGCUGCCUGGGCUCUGCUAUUGAUGCUUGUUUGUUUGUGUUGAAUUAAAAUCGCUUUUUGGACUCGAAGCUGUCUAGUCAGUAAGCUGCUGCUCCCAGGCGCCCA
---(((.(((((((..(.((..(..((((..........))))..).........((((....((((.((.....)).))))...)))).)).)..)))))))))).. ( -33.70)
>DroSec_CAF1 126373 98 - 1
---GGCUGCCUGGGCUCUGCUAUUGAUGCUUGU----UUGUGUUGAAUUAAAAUCGCUUUUUGGACUCGAAGCUGUCUAGUCAGUAAGCU---GCUCCCAGGCGCCCA
---(((.(((((((..(.(((.(..((((....----..))))..).........(((..((((((........))))))..))).))).---)..)))))))))).. ( -35.30)
>DroSim_CAF1 132279 98 - 1
---GGCUGCCUGGGCUCUGCUAUUGAUGCUUGU----UUGUGUUGAAUUAAAAUCGCUUUUUGGACUCGAAGCUGUCUAGUCAGUAAGCU---GCUCCCAGGCGCCCA
---(((.(((((((..(.(((.(..((((....----..))))..).........(((..((((((........))))))..))).))).---)..)))))))))).. ( -35.30)
>DroYak_CAF1 129699 101 - 1
CUGGGUUGCCUGGGCUCUGCUAUUGAUGCCUGU----UUGUGUUGAAUUAAAAUCGCUUUUUGGACUCGAAGCUGUCUAGUCAGUAAGCU---GCUCCCAGGCGCCCA
..((((.(((((((..(.(((((((((((...(----(((........))))...))....(((((........))))))))))).))).---)..))))))))))). ( -37.10)
>consensus
___GGCUGCCUGGGCUCUGCUAUUGAUGCUUGU____UUGUGUUGAAUUAAAAUCGCUUUUUGGACUCGAAGCUGUCUAGUCAGUAAGCU___GCUCCCAGGCGCCCA
...(((.(((((((....((..(..((((..........))))..).........((((....((((.((.....)).))))...))))....)).)))))))))).. (-32.01 = -31.82 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:32 2006