Locus 4010

Sequence ID 2R_DroMel_CAF1
Location 13,250,364 – 13,250,457
Length 93
Max. P 0.753654
window6471 window6472

overview

Window 1

Location 13,250,364 – 13,250,457
Length 93
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 79.48
Mean single sequence MFE -35.72
Consensus MFE -20.20
Energy contribution -21.32
Covariance contribution 1.11
Combinations/Pair 1.25
Mean z-score -2.01
Structure conservation index 0.57
SVM decision value 0.48
SVM RNA-class probability 0.753654
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13250364 93 + 20766785
GCUGUCCACGCUGAAACUGUUGCUGCCGUUCUCGUUGAUCAGCGAGAGCGUCUGCAGGGGCAACACUUCGCCGGUGG---GUGGCUGUUCCGCGCU
((..(((((((.(((..((((.((((((((((((((....))))))))))...)))).))))....)))))..))))---)..))........... ( -38.90)
>DroVir_CAF1 2139 90 + 1
GCUAUCCAUGCUGAAGCUGUUGCUGCCAUUCUCAUUGAUCAGCGAGAGCGUCUGCAGAGGCAGCAUGUC---GGUGG---GUUGCGGCUCGACAAC
(((..(..(((.((.(((.((((((....((.....)).)))))).))).)).)))..)..))).((((---(((.(---....).)).))))).. ( -33.70)
>DroPse_CAF1 3748 96 + 1
GCUGUCAAUACUGAAGCUGUUGCUGCCGUUCUCAUUAAUCAGCGAGAGCGUCUGCAUUGGCAGCAUAUCGGAGGGUGGUGGUGGCUGCUCCGCAUU
((..(((....)))(((.((..(..(((..(((........((....))(.((((....)))))......)))..)))..)..)).)))..))... ( -36.00)
>DroGri_CAF1 1670 90 + 1
GCUUUCGAUGCUAAAGCUAUUGCUGCCAUUUUCAUUGAUCAGCGAAAGCGUUUGCAUUGGCAGCAUGUC---GGUGG---GUUGCGUAUCCGCAAC
(((.(((((((....(((.((((((.((.......))..)))))).)))....))))))).))).....---.((((---((.....))))))... ( -32.00)
>DroMoj_CAF1 1890 90 + 1
ACUAUCGAUGCUAAAGCUGUUGCUGCCAUUCUCGUUGAUCAGCGAGAGCGUCUGCAUGGGCAGCAGAUC---GGUGG---AUUGCGGCUCUGCAAC
.((((((((((....))..((((((((..(((((((....)))))))((....))...)))))))))))---)))))---.(((((....))))). ( -37.70)
>DroPer_CAF1 3284 96 + 1
GCUGUCAAUACUGAAGCUGUUGCUGCCGUUCUCAUUAAUCAGCGAGAGCGUCUGCAUUGGCAGCAUAUCGGAGGGUGGUGGUGGCUGCUCCGCAUU
((..(((....)))(((.((..(..(((..(((........((....))(.((((....)))))......)))..)))..)..)).)))..))... ( -36.00)
>consensus
GCUGUCAAUGCUGAAGCUGUUGCUGCCAUUCUCAUUGAUCAGCGAGAGCGUCUGCAUUGGCAGCAUAUC___GGUGG___GUGGCGGCUCCGCAAC
(((.(((((((.((.(((.((((((..(((......))))))))).))).)).))))))).)))................((((.....))))... (-20.20 = -21.32 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 13,250,364 – 13,250,457
Length 93
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 79.48
Mean single sequence MFE -26.80
Consensus MFE -21.59
Energy contribution -20.32
Covariance contribution -1.27
Combinations/Pair 1.39
Mean z-score -0.95
Structure conservation index 0.81
SVM decision value -0.03
SVM RNA-class probability 0.519616
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13250364 93 - 20766785
AGCGCGGAACAGCCAC---CCACCGGCGAAGUGUUGCCCCUGCAGACGCUCUCGCUGAUCAACGAGAACGGCAGCAACAGUUUCAGCGUGGACAGC
.(((((((((.(((..---.....)))....(((((((...((....))(((((........)))))..)))))))...))))).))))....... ( -31.50)
>DroVir_CAF1 2139 90 - 1
GUUGUCGAGCCGCAAC---CCACC---GACAUGCUGCCUCUGCAGACGCUCUCGCUGAUCAAUGAGAAUGGCAGCAACAGCUUCAGCAUGGAUAGC
(((((......)))))---(((..---....(((((((...((....))(((((........)))))..)))))))...((....)).)))..... ( -24.40)
>DroPse_CAF1 3748 96 - 1
AAUGCGGAGCAGCCACCACCACCCUCCGAUAUGCUGCCAAUGCAGACGCUCUCGCUGAUUAAUGAGAACGGCAGCAACAGCUUCAGUAUUGACAGC
....(((((..............)))))....((((.((((((...((.(((((........))))).))(.(((....))).).)))))).)))) ( -25.34)
>DroGri_CAF1 1670 90 - 1
GUUGCGGAUACGCAAC---CCACC---GACAUGCUGCCAAUGCAAACGCUUUCGCUGAUCAAUGAAAAUGGCAGCAAUAGCUUUAGCAUCGAAAGC
((((((....))))))---....(---((..((((((((..((....))(((((........))))).))))))))...((....)).)))..... ( -28.00)
>DroMoj_CAF1 1890 90 - 1
GUUGCAGAGCCGCAAU---CCACC---GAUCUGCUGCCCAUGCAGACGCUCUCGCUGAUCAACGAGAAUGGCAGCAACAGCUUUAGCAUCGAUAGU
(((((......)))))---....(---(((.(((((((...((....))(((((........)))))..)))))))...((....))))))..... ( -26.20)
>DroPer_CAF1 3284 96 - 1
AAUGCGGAGCAGCCACCACCACCCUCCGAUAUGCUGCCAAUGCAGACGCUCUCGCUGAUUAAUGAGAACGGCAGCAACAGCUUCAGUAUUGACAGC
....(((((..............)))))....((((.((((((...((.(((((........))))).))(.(((....))).).)))))).)))) ( -25.34)
>consensus
AUUGCGGAGCAGCAAC___CCACC___GAUAUGCUGCCAAUGCAGACGCUCUCGCUGAUCAAUGAGAACGGCAGCAACAGCUUCAGCAUCGACAGC
..((((((((............(....)...(((((((...((....))(((((........)))))..)))))))...))))).)))........ (-21.59 = -20.32 +  -1.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:37 2006