Locus 3851

Sequence ID 3R_DroMel_CAF1
Location 10,501,140 – 10,501,310
Length 170
Max. P 0.932738
window6170 window6171

overview

Window 0

Location 10,501,140 – 10,501,230
Length 90
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 85.08
Mean single sequence MFE -31.75
Consensus MFE -25.12
Energy contribution -26.62
Covariance contribution 1.50
Combinations/Pair 1.09
Mean z-score -1.73
Structure conservation index 0.79
SVM decision value 0.49
SVM RNA-class probability 0.757696
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10501140 90 + 27905053
CUGAGGGGGG-GAAGUGCUGAGAAAGCCCGCAGGCUUGAAACUGAUUUUGAAU------------------UUUAUAUCUCCUCUGCAUUUGUCACUUGUCAACGCUC-G-
.(((.(((((-.((((((.(((.(((((....)))))......(((.......------------------.....)))..))).)))))).)).))).)))......-.- ( -23.00)
>DroSec_CAF1 149868 108 + 1
CUGAGGGGGG-GAAGUGCAGAGAAAGCCCGCAGGCUUGAAACUGAUUUGGAAUUGGGCUCACAUAUUUAGUUUUAUAUCUUCGCUGCAUUUGUCACUUGUCAACCCCC-A-
....(((((.-.((((((((.(((((((....))))(((((((((..((((.......)).))...)))))))))....))).))))))))(.(....).)..)))))-.- ( -34.70)
>DroSim_CAF1 47807 108 + 1
CUGAGGGGGG-GAAGUGCAGAGAAAGCCCGCAGGCUUGAAACUGAUUUUGAAUUGGGCUCACACAUUUAGUUUUAUAUCUUCGCUGCAUUUGUCACUUGUCAACCCCC-A-
....(((((.-.((((((((.(((((((....))))(((((((((...(((.......))).....)))))))))....))).))))))))(.(....).)..)))))-.- ( -33.50)
>DroYak_CAF1 47802 111 + 1
CCGAGGGGGGAAAAAUGCAGAGAAAGCCCGCAGGCUUGAAACUGAUUUUGAAUUGGGCUCACACAUUUAAUUUUAUAUCUUCUCUGCAUUUGUCACUUGUCAACCCCCAAA
....(((((...((((((((((((((((....)))))((..(..((.....))..)..))....................)))))))))))(.(....).)..)))))... ( -35.80)
>consensus
CUGAGGGGGG_GAAGUGCAGAGAAAGCCCGCAGGCUUGAAACUGAUUUUGAAUUGGGCUCACACAUUUAGUUUUAUAUCUUCGCUGCAUUUGUCACUUGUCAACCCCC_A_
....(((((...((((((((((((((((....)))))......(((...((((((((........))))))))...))).)))))))))))(.(....).)..)))))... (-25.12 = -26.62 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 10,501,201 – 10,501,310
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.74
Mean single sequence MFE -30.68
Consensus MFE -15.65
Energy contribution -15.61
Covariance contribution -0.04
Combinations/Pair 1.16
Mean z-score -2.33
Structure conservation index 0.51
SVM decision value 1.22
SVM RNA-class probability 0.932738
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10501201 109 + 27905053
CCUCUGCAU---------UUGUCACUUGUCAACGCUC-G-AGGGGGAGAAUAGCAGCCAAAGGAGGGGUUAAUAAAUAAAUAUGUGCCCGUCCUGUCGCCCUAACUCUCAAUCUUCUCUC
((((.((..---------(((.(....).))).))..-)-)))(((((..(((..((...((((.((((..(((......)))..)))).))))...)).))).)))))........... ( -29.80)
>DroSec_CAF1 149947 101 + 1
UCGCUGCAU---------UUGUCACUUGUCAACCCCC-A-AGGGGGAAAAUAGCAGCCAAAGGAGGGGUUAAUAAAUAAAUAUGUGUCCG--------UCCUAACUCUCAAUCUCCUCUC
..(((((..---------(((.(....).)))((((.-.-..))))......)))))...((((.(((...(((......)))...))).--------)))).................. ( -27.40)
>DroSim_CAF1 47886 90 + 1
UCGCUGCAU---------UUGUCACUUGUCAACCCCC-A-AGGGGGAAAAUAGCAGCCCAAGGAGGGGUUAAUAAAUAA-------------------CCCUAACUCUCAAUCUCCUCUC
..(((((..---------(((.(....).)))((((.-.-..))))......)))))...(((((((((((.....)))-------------------)))...........)))))... ( -28.80)
>DroEre_CAF1 48193 116 + 1
UCUCUGCAUUCUCUGCUUUUGUCACUUGUCAACCCCCCA-AGUGGGAAAAUAGCAGCGUUAGGAGGGGUUAAUAAAUAAAUAUGUGCCCGUCCUGUCGCCCUAACUCCCAAUCUGCG---
.....(((.....(((((((.(((((((.........))-))))).)))..))))(((.(((((.((((..(((......)))..)))).))))).)))..............))).--- ( -33.90)
>DroYak_CAF1 47882 111 + 1
UCUCUGCAU---------UUGUCACUUGUCAACCCCCAAAAGGGGGAAAAUAGCAGCGAUGGGCGGGGUUAAUAAAUAAAUAUGUGCCCGUCCUGUCGCCCUUACUCUCAAUCUCCUAAC
....(((..---------(((.(....).)))(((((....)))))......)))((((((((((((....(((......)))...))))))).)))))..................... ( -33.50)
>consensus
UCUCUGCAU_________UUGUCACUUGUCAACCCCC_A_AGGGGGAAAAUAGCAGCCAAAGGAGGGGUUAAUAAAUAAAUAUGUGCCCGUCCUGUCGCCCUAACUCUCAAUCUCCUCUC
...((((...........(((.(....).)))(((((....)))))......))))....((..((((..............................))))..)).............. (-15.65 = -15.61 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:39 2006