Locus 1568

Sequence ID 3R_DroMel_CAF1
Location 4,499,747 – 4,499,852
Length 105
Max. P 0.963295
window2587 window2588

overview

Window 7

Location 4,499,747 – 4,499,852
Length 105
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 84.68
Mean single sequence MFE -24.78
Consensus MFE -17.66
Energy contribution -18.85
Covariance contribution 1.19
Combinations/Pair 1.11
Mean z-score -1.66
Structure conservation index 0.71
SVM decision value 0.26
SVM RNA-class probability 0.657214
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4499747 105 + 27905053
AAA-AAAAAUCGGAGCUUAAAACUAACAAGUUGGCAGUACCCUUCCAAUUAUAAAGGGUUAUCGAUAACUCUGCUGUAGCUAUCGGUGCUGCCAGCUGAUUAUAGU
...-.................((((...(((((((((((((.......(((((.(((((((....)))))))..))))).....))))))))))))).....)))) ( -31.60)
>DroSec_CAF1 9378 105 + 1
AAU-AAAUAAAUGAGCUUAAAACUGACAAGUUGGCAGUUCCCUUCCAAUUAGAAAAGGCUAUCGAUAACUCUGCUAUUGCUAUCGGUGCUGCCAGCUGAUUAUAGU
...-.....(((.((((...((((....))))((((((..((((..........))))..(((((((.....((....))))))))))))))))))).)))..... ( -24.10)
>DroSim_CAF1 9499 105 + 1
AAU-AAAUAUCAGAGCUUAAAACUGAUAAGUUGGCAGUUCCCUUCCAAUUAGAAAAGGUUAUCGAUAACUCUGCUAUUGCUAUCGGUGCAGCCAGCUGAUUAUAGU
...-...((((((.........))))))(((((((.....((((..........)))).((((((((.....((....))))))))))..)))))))......... ( -23.60)
>DroEre_CAF1 9607 102 + 1
---UAUAGCACUGAGCUUAAAACUGACAAGCUGGCAGUUACCUUCCAAUUAGAAAA-ACUAUCGAUAACUAUGCUAUCGCCAUCGCUGGUGCCAGCUGAUAAUCGU
---...(((.....)))...........(((((((((((...(((......))).)-)))...((((.......))))((((....)))))))))))......... ( -19.80)
>consensus
AAU_AAAUAACUGAGCUUAAAACUGACAAGUUGGCAGUUCCCUUCCAAUUAGAAAAGGCUAUCGAUAACUCUGCUAUUGCUAUCGGUGCUGCCAGCUGAUUAUAGU
.....................((((...((((((((((..((((..........))))..(((((((.....((....))))))))))))))))))).....)))) (-17.66 = -18.85 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 4,499,747 – 4,499,852
Length 105
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 84.68
Mean single sequence MFE -28.43
Consensus MFE -21.79
Energy contribution -22.47
Covariance contribution 0.69
Combinations/Pair 1.11
Mean z-score -2.42
Structure conservation index 0.77
SVM decision value 1.55
SVM RNA-class probability 0.963295
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4499747 105 - 27905053
ACUAUAAUCAGCUGGCAGCACCGAUAGCUACAGCAGAGUUAUCGAUAACCCUUUAUAAUUGGAAGGGUACUGCCAACUUGUUAGUUUUAAGCUCCGAUUUUU-UUU
.....(((((((((((((...((((((((.......))))))))...(((((((.......))))))).)))))((((....))))...))))..))))...-... ( -30.40)
>DroSec_CAF1 9378 105 - 1
ACUAUAAUCAGCUGGCAGCACCGAUAGCAAUAGCAGAGUUAUCGAUAGCCUUUUCUAAUUGGAAGGGAACUGCCAACUUGUCAGUUUUAAGCUCAUUUAUUU-AUU
.....(((.(((((((((...(((((((.........)))))))....(((((((.....)))))))..)))))((((....))))...)))).))).....-... ( -26.30)
>DroSim_CAF1 9499 105 - 1
ACUAUAAUCAGCUGGCUGCACCGAUAGCAAUAGCAGAGUUAUCGAUAACCUUUUCUAAUUGGAAGGGAACUGCCAACUUAUCAGUUUUAAGCUCUGAUAUUU-AUU
.........((.((((.....(((((((.........)))))))....(((((((.....)))))))....)))).))((((((.........))))))...-... ( -25.20)
>DroEre_CAF1 9607 102 - 1
ACGAUUAUCAGCUGGCACCAGCGAUGGCGAUAGCAUAGUUAUCGAUAGU-UUUUCUAAUUGGAAGGUAACUGCCAGCUUGUCAGUUUUAAGCUCAGUGCUAUA---
.((.(((((.((((....)))))))))))((((((((((((((..((((-(.....)))))...)))))))...((((((.......))))))..))))))).--- ( -31.80)
>consensus
ACUAUAAUCAGCUGGCAGCACCGAUAGCAAUAGCAGAGUUAUCGAUAACCUUUUCUAAUUGGAAGGGAACUGCCAACUUGUCAGUUUUAAGCUCAGAUAUUU_AUU
.........(((((((((...(((((((.........)))))))....(((((((.....)))))))..)))))((((....))))...))))............. (-21.79 = -22.47 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:43 2006