Locus 2108

Sequence ID 3R_DroMel_CAF1
Location 6,018,699 – 6,018,808
Length 109
Max. P 0.569666
window3446 window3447

overview

Window 6

Location 6,018,699 – 6,018,808
Length 109
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 84.14
Mean single sequence MFE -36.13
Consensus MFE -25.56
Energy contribution -26.32
Covariance contribution 0.76
Combinations/Pair 1.22
Mean z-score -1.91
Structure conservation index 0.71
SVM decision value -0.02
SVM RNA-class probability 0.525030
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6018699 109 + 27905053
U-AAGUGAAUCAGCACUUUGCU-----UGCGACCUUUGGGACACAUUAACGCAAUUUUCCCGCACUUAGCUGGGACCGCAGAGGCAAAAGGCUUGGCCUGCUGAUUUGUUUAGGU
(-(((..(((((((.(((((((-----((((.....((.....))....)))))...((((((.....)).))))..)))))).....((((...)))))))))))..))))... ( -38.60)
>DroSec_CAF1 30493 109 + 1
U-AAGUGAAUCAGCACUUCGCU-----UGGGACCUUUGGGACCCAUUAACGCAAUUUUCCCGCACUUAGCUGGGACCGCAGAGGAAAAAGGUUUGGCUUGCUGAUUUGUUUAGGU
(-(((..((((((((((..(((-----(....((((((((.((((((((.((.........))..)))).)))).)).))))))....))))..))..))))))))..))))... ( -35.90)
>DroSim_CAF1 30627 109 + 1
U-AAGUGAAUCAGCACUUCGCU-----UGGGACCUCUGGGACCCAUUAACGCAAUUUUCCCGCACUUAGCUGGGACCGCAGAGGAAAAAGGUUUGGCCUGCUGAUUUGUUUAGGU
(-(((..((((((((((..(((-----(....((((((((.((((((((.((.........))..)))).)))).)).))))))....))))..))..))))))))..))))... ( -38.50)
>DroEre_CAF1 30722 109 + 1
U-AAGUGAAUCAGCACUUCGUU-----UGGGACCUCUGGGACCCAUUAACGCAAUUUUCCCGCACUUAGCUGGGACCGCAGAGGAAAAAGGUUGGCUUUGCUGAUUUGUUUAGGU
(-(((..(((((((.(((((((-----((((.((....)).))))..)))((.....((((((.....)).))))..)).))))...((((....)))))))))))..))))... ( -36.00)
>DroYak_CAF1 32451 109 + 1
U-AAGUGAAUCAGCACUUCGCC-----GUGGACCUCUGGGACCCAUUAACGCAAUUUUCCCGCACUUAGCUGGGACCGCAGAGGAAAAAGGUUGGGCCUGCUGAUUUGUUUAGGU
(-(((..((((((((((..(((-----.....((((((((.((((((((.((.........))..)))).)))).)).)))))).....)))..))..))))))))..))))... ( -40.50)
>DroAna_CAF1 27522 100 + 1
UUUUGUGAAUCAGAAUUUCGUAUGCCCUGGGUCUCGGGGGAUCCAUUAACGCAAUUUUCCCGCACUUGGCUAGGACCACAG---------------CCUGCCGAUUUGUAAAGGU
(((((..((((((((((.(((......(((((((....)))))))...))).)))))).........(((.(((.......---------------))))))))))..))))).. ( -27.30)
>consensus
U_AAGUGAAUCAGCACUUCGCU_____UGGGACCUCUGGGACCCAUUAACGCAAUUUUCCCGCACUUAGCUGGGACCGCAGAGGAAAAAGGUUUGGCCUGCUGAUUUGUUUAGGU
..(((..((((((((....(((..........((((((((.((((((((.((.........))..)))).)))).)).))))))..........))).))))))))..))).... (-25.56 = -26.32 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 6,018,699 – 6,018,808
Length 109
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 84.14
Mean single sequence MFE -31.67
Consensus MFE -24.39
Energy contribution -24.37
Covariance contribution -0.02
Combinations/Pair 1.23
Mean z-score -1.71
Structure conservation index 0.77
SVM decision value 0.07
SVM RNA-class probability 0.569666
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6018699 109 - 27905053
ACCUAAACAAAUCAGCAGGCCAAGCCUUUUGCCUCUGCGGUCCCAGCUAAGUGCGGGAAAAUUGCGUUAAUGUGUCCCAAAGGUCGCA-----AGCAAAGUGCUGAUUCACUU-A
.........(((((((((((...)))((((((...((((..(...((.....))((((..((((...))))...))))...)..))))-----.)))))))))))))).....-. ( -33.40)
>DroSec_CAF1 30493 109 - 1
ACCUAAACAAAUCAGCAAGCCAAACCUUUUUCCUCUGCGGUCCCAGCUAAGUGCGGGAAAAUUGCGUUAAUGGGUCCCAAAGGUCCCA-----AGCGAAGUGCUGAUUCACUU-A
.........((((((((.((................(((.((((.((.....))))))....))).....((((.((....)).))))-----.))....)))))))).....-. ( -31.00)
>DroSim_CAF1 30627 109 - 1
ACCUAAACAAAUCAGCAGGCCAAACCUUUUUCCUCUGCGGUCCCAGCUAAGUGCGGGAAAAUUGCGUUAAUGGGUCCCAGAGGUCCCA-----AGCGAAGUGCUGAUUCACUU-A
.........((((((((((.....)).....((((((.((.((((..(((.(((((.....)))))))).)))).)))))))).....-----.......)))))))).....-. ( -34.70)
>DroEre_CAF1 30722 109 - 1
ACCUAAACAAAUCAGCAAAGCCAACCUUUUUCCUCUGCGGUCCCAGCUAAGUGCGGGAAAAUUGCGUUAAUGGGUCCCAGAGGUCCCA-----AACGAAGUGCUGAUUCACUU-A
.........((((((((..............((((((.((.((((..(((.(((((.....)))))))).)))).)))))))).....-----.......)))))))).....-. ( -34.47)
>DroYak_CAF1 32451 109 - 1
ACCUAAACAAAUCAGCAGGCCCAACCUUUUUCCUCUGCGGUCCCAGCUAAGUGCGGGAAAAUUGCGUUAAUGGGUCCCAGAGGUCCAC-----GGCGAAGUGCUGAUUCACUU-A
.........((((((((.(((..........((((((.((.((((..(((.(((((.....)))))))).)))).)))))))).....-----)))....)))))))).....-. ( -35.86)
>DroAna_CAF1 27522 100 - 1
ACCUUUACAAAUCGGCAGG---------------CUGUGGUCCUAGCCAAGUGCGGGAAAAUUGCGUUAAUGGAUCCCCCGAGACCCAGGGCAUACGAAAUUCUGAUUCACAAAA
.........((((((..((---------------(((......)))))..((((((((..((((...))))...))))((........))))))........))))))....... ( -20.60)
>consensus
ACCUAAACAAAUCAGCAGGCCAAACCUUUUUCCUCUGCGGUCCCAGCUAAGUGCGGGAAAAUUGCGUUAAUGGGUCCCAGAGGUCCCA_____AGCGAAGUGCUGAUUCACUU_A
.........((((((((...................(((.((((.((.....))))))....)))(((..((((.((....)).)))).....)))....))))))))....... (-24.39 = -24.37 +  -0.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:37 2006