Locus 9011

Sequence ID 3R_DroMel_CAF1
Location 24,156,548 – 24,156,647
Length 99
Max. P 0.948888
window14436 window14437

overview

Window 6

Location 24,156,548 – 24,156,647
Length 99
Sequences 3
Columns 104
Reading direction forward
Mean pairwise identity 81.61
Mean single sequence MFE -35.53
Consensus MFE -25.39
Energy contribution -25.17
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -2.42
Structure conservation index 0.71
SVM decision value 1.39
SVM RNA-class probability 0.948888
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24156548 99 + 27905053
AAAGAGAGUGAG----GGAGAGAGGGAGCGUGCGAGAGAGUGCGGUUUCUUAUCACUCUCUGCGAAUACGUAGCCCUACGUUACGUAGCGC-CCGCUACGUUAG
..(((((((((.----.....(((..(.((..(......)..)).)..))).)))))))))......(((((....))))).(((((((..-..)))))))... ( -38.60)
>DroEre_CAF1 10033 92 + 1
AAAGAGAUAGAGAG----A--------GCGCUUGAGAGAGUGCGGUUCCUUAUCACUCUCUGCGAAUACGUAGCCCUACGUUACGUAGCGCACAGCAACGUUAC
........((((((----.--------((((((....))))))(((.....))).))))))(((..((((((((.....)))))))).)))............. ( -31.70)
>DroYak_CAF1 13994 103 + 1
AAAGAGAGAGAGCGCGAGAGAUAGCACGCGCGAGAGAGAGUGCGGUUUCUUAUCACUCUCUGC-AAUACGUAGCCCUACGUUACGUAGCGCACCGCAACGUUAG
..((((((.((....(((((((.((((.(.(....).).)))).))))))).)).))))))((-..((((((((.....))))))))..))............. ( -36.30)
>consensus
AAAGAGAGAGAG_G___GAGA_AG___GCGCGAGAGAGAGUGCGGUUUCUUAUCACUCUCUGCGAAUACGUAGCCCUACGUUACGUAGCGCACCGCAACGUUAG
...........................((((...((((((((...........)))))))).....((((((((.....))))))))))))............. (-25.39 = -25.17 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 24,156,548 – 24,156,647
Length 99
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 81.61
Mean single sequence MFE -29.77
Consensus MFE -21.78
Energy contribution -21.67
Covariance contribution -0.11
Combinations/Pair 1.05
Mean z-score -1.55
Structure conservation index 0.73
SVM decision value 0.04
SVM RNA-class probability 0.554859
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24156548 99 - 27905053
CUAACGUAGCGG-GCGCUACGUAACGUAGGGCUACGUAUUCGCAGAGAGUGAUAAGAAACCGCACUCUCUCGCACGCUCCCUCUCUCC----CUCACUCUCUUU
...(((((((..-..)))))))...(.((((...(((...((.((((((((....(....).)))))))))).)))..))))).....----............ ( -29.40)
>DroEre_CAF1 10033 92 - 1
GUAACGUUGCUGUGCGCUACGUAACGUAGGGCUACGUAUUCGCAGAGAGUGAUAAGGAACCGCACUCUCUCAAGCGC--------U----CUCUCUAUCUCUUU
...((((.(((.((((........)))).))).))))...(((((((((((....(....).))))))))...))).--------.----.............. ( -27.70)
>DroYak_CAF1 13994 103 - 1
CUAACGUUGCGGUGCGCUACGUAACGUAGGGCUACGUAUU-GCAGAGAGUGAUAAGAAACCGCACUCUCUCUCGCGCGUGCUAUCUCUCGCGCUCUCUCUCUUU
((.((((((((........)))))))).))((........-))((((((((....(....).))))))))...(((((.(......).)))))........... ( -32.20)
>consensus
CUAACGUUGCGGUGCGCUACGUAACGUAGGGCUACGUAUUCGCAGAGAGUGAUAAGAAACCGCACUCUCUCACGCGC___CU_UCUC___C_CUCUCUCUCUUU
........(((..((.(((((...))))).)).........(.((((((((....(....).))))))))).)))............................. (-21.78 = -21.67 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:24:43 2006