Locus 1103

Sequence ID 3R_DroMel_CAF1
Location 3,341,327 – 3,341,423
Length 96
Max. P 0.921731
window1804 window1805

overview

Window 4

Location 3,341,327 – 3,341,423
Length 96
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 76.22
Mean single sequence MFE -34.48
Consensus MFE -16.62
Energy contribution -15.57
Covariance contribution -1.05
Combinations/Pair 1.43
Mean z-score -2.29
Structure conservation index 0.48
SVM decision value 1.14
SVM RNA-class probability 0.921731
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3341327 96 + 27905053
C-U---GAUUUCCAGCCCGAG----AAUCUAAGGCUGGCGUUGCGCUUUACUCAGGGUCCGCUCGGCAACUGA-GCA-UUUAAAGUAAGCGCCGGCUAAGUUUAGU
.-.---((((..(.....)..----))))...((((((((((..(((((((((((...((....))...))))-)..-..)))))).))))))))))......... ( -33.20)
>DroVir_CAF1 40208 97 + 1
U-U---AAACGCCGGCUUUGG----GGCCUCAGGCUUGAGUUGCGUUUUACUCAGGGGUUGCGCGUCAACUGAAGCA-UUUGAAGUAGGCGCCGGCUAGGUUUAGU
(-(---((((((((((.((..----.((.(((.((((.((((((((...(((....)))...))).))))).)))).-..))).)).)).))))))...)))))). ( -36.00)
>DroPse_CAF1 26617 101 + 1
U-U---AUAUUCCAGCUCUGGGAGUAGCCUAAGGCUUUCGUUGCGUUUUGUUCAGGGGCUGGUCGGCAACUGA-ACAAUUUCAAGUAAGCGCCGGCUAAGUUUAGU
.-.---...(((((....))))).(((((...(((.((..((.....((((((((..(((....)))..))))-)))).....))..)).))))))))........ ( -32.00)
>DroGri_CAF1 42294 98 + 1
UUU---UGAAGCUGGCUUUGA----UGCCUUAGGCUUGAGUUGCGUUUUACUCAGGGGUUGCGCGUCUACUGAAACA-UUUGAAGUAGGCGCCGGCUAAGUUUAGU
...---..((((((((.....----.))).....(((((((........)))))))(((((.(((((((((......-.....)))))))))))))).)))))... ( -33.80)
>DroAna_CAF1 25129 97 + 1
A-UAAGAAUUUCCAGCCUG------AAUUUAAGGCUGGCGUUGCGCUUUACUCAGGGUCCGCUCGGAAACUGA-GCA-UUUAAAGUAAGCGCCGGCUAAGUUUAGU
.-..............(((------(((((..((((((((((..(((((((((((..(((....)))..))))-)..-..)))))).)))))))))))))))))). ( -39.90)
>DroPer_CAF1 26629 101 + 1
G-U---AUAUUCCAGCUCUGGGAGUAGCCUAAGGCUUUCGUUGCGUUUUGUUCAGGGGCUGGUCGGCAACUGA-ACAAUUUCAAGUAAGCGCCGGCUAAGUUUAGU
.-.---...(((((....))))).(((((...(((.((..((.....((((((((..(((....)))..))))-)))).....))..)).))))))))........ ( -32.00)
>consensus
U_U___AAAUUCCAGCUCUGG____AGCCUAAGGCUUGCGUUGCGUUUUACUCAGGGGCUGCUCGGCAACUGA_ACA_UUUAAAGUAAGCGCCGGCUAAGUUUAGU
.............((((........((((...))))......((((((...((((..(((....)))..)))).((........)))))))).))))......... (-16.62 = -15.57 +  -1.05)

alignment

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secondary structure

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dotplot

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Window 5

Location 3,341,327 – 3,341,423
Length 96
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 76.22
Mean single sequence MFE -27.45
Consensus MFE -12.52
Energy contribution -12.05
Covariance contribution -0.47
Combinations/Pair 1.31
Mean z-score -2.22
Structure conservation index 0.46
SVM decision value 0.81
SVM RNA-class probability 0.856423
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3341327 96 - 27905053
ACUAAACUUAGCCGGCGCUUACUUUAAA-UGC-UCAGUUGCCGAGCGGACCCUGAGUAAAGCGCAACGCCAGCCUUAGAUU----CUCGGGCUGGAAAUC---A-G
..............((((((........-(((-((((...((....))...)))))))))))))....(((((((.((...----)).))))))).....---.-. ( -31.50)
>DroVir_CAF1 40208 97 - 1
ACUAAACCUAGCCGGCGCCUACUUCAAA-UGCUUCAGUUGACGCGCAACCCCUGAGUAAAACGCAACUCAAGCCUGAGGCC----CCAAAGCCGGCGUUU---A-A
..(((((...((((((.....(((((..-.((((.(((((.((....((......))....))))))).)))).)))))..----.....))))))))))---)-. ( -28.30)
>DroPse_CAF1 26617 101 - 1
ACUAAACUUAGCCGGCGCUUACUUGAAAUUGU-UCAGUUGCCGACCAGCCCCUGAACAAAACGCAACGAAAGCCUUAGGCUACUCCCAGAGCUGGAAUAU---A-A
........(((((...((((.((((...((((-((((..((......))..))))))))....))).).))))....)))))...(((....))).....---.-. ( -25.40)
>DroGri_CAF1 42294 98 - 1
ACUAAACUUAGCCGGCGCCUACUUCAAA-UGUUUCAGUAGACGCGCAACCCCUGAGUAAAACGCAACUCAAGCCUAAGGCA----UCAAAGCCAGCUUCA---AAA
.....((((((...(((((((((.....-......)))))..)))).....))))))............((((....(((.----.....))).))))..---... ( -20.40)
>DroAna_CAF1 25129 97 - 1
ACUAAACUUAGCCGGCGCUUACUUUAAA-UGC-UCAGUUUCCGAGCGGACCCUGAGUAAAGCGCAACGCCAGCCUUAAAUU------CAGGCUGGAAAUUCUUA-U
..............((((((........-(((-((((..(((....)))..)))))))))))))....(((((((......------.))))))).........-. ( -33.70)
>DroPer_CAF1 26629 101 - 1
ACUAAACUUAGCCGGCGCUUACUUGAAAUUGU-UCAGUUGCCGACCAGCCCCUGAACAAAACGCAACGAAAGCCUUAGGCUACUCCCAGAGCUGGAAUAU---A-C
........(((((...((((.((((...((((-((((..((......))..))))))))....))).).))))....)))))...(((....))).....---.-. ( -25.40)
>consensus
ACUAAACUUAGCCGGCGCUUACUUCAAA_UGC_UCAGUUGCCGAGCAGCCCCUGAGUAAAACGCAACGCAAGCCUUAGGCU____CCAAAGCUGGAAUUU___A_A
...........(((((.............(((.((((..((......))..)))))))....((.......)).................)))))........... (-12.52 = -12.05 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:57 2006