Locus 953

Sequence ID 2L_DroMel_CAF1
Location 2,730,700 – 2,730,790
Length 90
Max. P 0.657658
window1530 window1531

overview

Window 0

Location 2,730,700 – 2,730,790
Length 90
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 83.51
Mean single sequence MFE -27.34
Consensus MFE -16.30
Energy contribution -16.42
Covariance contribution 0.11
Combinations/Pair 1.19
Mean z-score -2.66
Structure conservation index 0.60
SVM decision value 0.09
SVM RNA-class probability 0.580381
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2730700 90 + 22407834
U-C----UGUGUCCCGCUUUUCGGGGCCUUCGCCUCGCUUUCUGGGUCUU----AUUCUAAU----UGUAAUGAAAUCAUACAGAAAAUAGACCGCAGACACA--------
.-.----.(((((..((....((((((....)))))).......(((((.----.((((...----.(((.((....)))))))))...))))))).))))).-------- ( -27.10)
>DroPse_CAF1 185046 95 + 1
UGC----UCUGCUCUGUUUUUCGGGGCC--------AGUUUCUGGGUCUGGUCUGUGUUUAU----UGUAAUGAAAUCAUACAGAAAAUAGAGCACGCACACACUGCCGCA
.((----..((((((((((.(((((.((--------((...)))).)))))(((((((..((----(.......))).))))))))))))))))).(((.....))).)). ( -30.00)
>DroSec_CAF1 149506 90 + 1
U-C----UGUGUCCCGCUUUUCGGGGCCUUCGCCUCGCUUUCUAGGUCUU----AUUCUAAU----UGUAAUGAAAUCAUACAGAAAAUAGACCGCAGACACA--------
.-.----.(((((..((....((((((....)))))).......(((((.----.((((...----.(((.((....)))))))))...))))))).))))).-------- ( -27.30)
>DroSim_CAF1 153589 90 + 1
U-C----UGUGUCCCGCUUUUCGGGGCCUUCGCCUCGCUUUCUGGGUCUU----AUUCUAAU----UGUAAUGAAAUCAUACAGAAAAUAGACCGCAGACACA--------
.-.----.(((((..((....((((((....)))))).......(((((.----.((((...----.(((.((....)))))))))...))))))).))))).-------- ( -27.10)
>DroEre_CAF1 167827 89 + 1
U------UGUGUCCCGCUUUUCGGGGCCUUCGCCUCGCUUUCUGGGUCUU----AUUCUAAU----UGUAAUGAAAUCAUACAGAAAAUAGACCGCAGCCACA--------
.------((((..........((((((....))))))....((((((((.----.((((...----.(((.((....)))))))))...))))).))).))))-------- ( -22.80)
>DroYak_CAF1 158564 98 + 1
U-CGGUGUGUGUCCCGCUUUUCGGGGCCUUCGCCUCGCUUUCUGGGUCUU----AUUCUAAUUAUUUGUAAUGAAAUCAUACAGAAAAUAGACCGCAGACACA--------
.-.((((...((((((.....))))))...))))......(((((((((.----......(((.((((((.((....)))))))).)))))))).))))....-------- ( -29.71)
>consensus
U_C____UGUGUCCCGCUUUUCGGGGCCUUCGCCUCGCUUUCUGGGUCUU____AUUCUAAU____UGUAAUGAAAUCAUACAGAAAAUAGACCGCAGACACA________
..........((((((.....)))))).............(((((((((.................((((.((....))))))......))))).))))............ (-16.30 = -16.42 +   0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location 2,730,700 – 2,730,790
Length 90
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 83.51
Mean single sequence MFE -28.25
Consensus MFE -18.40
Energy contribution -19.07
Covariance contribution 0.67
Combinations/Pair 1.16
Mean z-score -2.54
Structure conservation index 0.65
SVM decision value 0.26
SVM RNA-class probability 0.657658
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2730700 90 - 22407834
--------UGUGUCUGCGGUCUAUUUUCUGUAUGAUUUCAUUACA----AUUAGAAU----AAGACCCAGAAAGCGAGGCGAAGGCCCCGAAAAGCGGGACACA----G-A
--------(((((((((((((((((((.((((((....)).))))----...)))))----.))))).......((.(((....))).))....)).)))))))----.-. ( -30.20)
>DroPse_CAF1 185046 95 - 1
UGCGGCAGUGUGUGCGUGCUCUAUUUUCUGUAUGAUUUCAUUACA----AUAAACACAGACCAGACCCAGAAACU--------GGCCCCGAAAAACAGAGCAGA----GCA
.((.(((.....))).((((((.(((((((((((....)).))))----...........((((.........))--------))....)))))..))))))..----)). ( -20.10)
>DroSec_CAF1 149506 90 - 1
--------UGUGUCUGCGGUCUAUUUUCUGUAUGAUUUCAUUACA----AUUAGAAU----AAGACCUAGAAAGCGAGGCGAAGGCCCCGAAAAGCGGGACACA----G-A
--------(((((((((((((((((((.((((((....)).))))----...)))))----.))))).......((.(((....))).))....)).)))))))----.-. ( -30.60)
>DroSim_CAF1 153589 90 - 1
--------UGUGUCUGCGGUCUAUUUUCUGUAUGAUUUCAUUACA----AUUAGAAU----AAGACCCAGAAAGCGAGGCGAAGGCCCCGAAAAGCGGGACACA----G-A
--------(((((((((((((((((((.((((((....)).))))----...)))))----.))))).......((.(((....))).))....)).)))))))----.-. ( -30.20)
>DroEre_CAF1 167827 89 - 1
--------UGUGGCUGCGGUCUAUUUUCUGUAUGAUUUCAUUACA----AUUAGAAU----AAGACCCAGAAAGCGAGGCGAAGGCCCCGAAAAGCGGGACACA------A
--------((((.((((((((((((((.((((((....)).))))----...)))))----.))))).......((.(((....))).))....))))..))))------. ( -28.60)
>DroYak_CAF1 158564 98 - 1
--------UGUGUCUGCGGUCUAUUUUCUGUAUGAUUUCAUUACAAAUAAUUAGAAU----AAGACCCAGAAAGCGAGGCGAAGGCCCCGAAAAGCGGGACACACACCG-A
--------((((((((((((((...(((((....((((......))))...))))).----.))))).......((.(((....))).))....)).))))))).....-. ( -29.80)
>consensus
________UGUGUCUGCGGUCUAUUUUCUGUAUGAUUUCAUUACA____AUUAGAAU____AAGACCCAGAAAGCGAGGCGAAGGCCCCGAAAAGCGGGACACA____G_A
........((((((((((((((......((((((....)).)))).................))))).......((.(((....))).))....)).)))))))....... (-18.40 = -19.07 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:32 2006