Locus 2999

Sequence ID 2R_DroMel_CAF1
Location 10,341,121 – 10,341,219
Length 98
Max. P 0.995031
window4951 window4952

overview

Window 1

Location 10,341,121 – 10,341,219
Length 98
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 92.68
Mean single sequence MFE -24.86
Consensus MFE -22.34
Energy contribution -22.34
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.93
Structure conservation index 0.90
SVM decision value 2.53
SVM RNA-class probability 0.995031
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10341121 98 + 20766785
-----CCACCACGAACUCCA-UCCAGAUUACCUGGUAGCCACACAGGAAUGCAACCGAAUCGAAAACAGAAUCGA-----AGCGCAGCCGGUGGCGUUAAUUAAAUACA
-----........(((....-.((((.....))))..(((((...((..(((...(((.((.......)).))).-----.)))...)).))))))))........... ( -22.80)
>DroSec_CAF1 60204 98 + 1
-----CCACCACGAACUCCA-UCCAGAUUACCUGGAAGCCACACAGGAAUGCAACCGAAUCGAAAACAGAAUCGA-----AGCGCAGCCGGUGGCGUUAAUUAAAUACA
-----........(((....-(((((.....))))).(((((...((..(((...(((.((.......)).))).-----.)))...)).))))))))........... ( -25.10)
>DroSim_CAF1 55850 98 + 1
-----CCACCACGAACUCCA-UCCAGAUUACCUGGAAGCCACACAGGAAUGCAACCGAAUCGAAAACAGAAUCGA-----AGCGCAGCCGGUGGCGUUAAUUAAAUACA
-----........(((....-(((((.....))))).(((((...((..(((...(((.((.......)).))).-----.)))...)).))))))))........... ( -25.10)
>DroEre_CAF1 56095 103 + 1
-----CCACCUCGAACUCCA-ACCAGAUUACCUGGAAGCCACACAGGAAUGCAGCUGAAUCGAAAGCAGAAUCGAAGCGAAGCGCAGCCGGUGGCGUUAAUUAAAUACA
-----........(((....-.((((.....))))..(((((...((..(((.(((...((((........)))).....)))))).)).))))))))........... ( -26.70)
>DroYak_CAF1 56778 104 + 1
ACCAGCCACCUCGAACUCCAAACCAGAUUACCUGGAAGCCACACAGGAAUGCAACGGAAUCGAAAACAGAAUCGA-----AGCGCAGCCGGUGGCGUUAAUUAAAUACA
....((((((......(((...((((.....))))...((.....))........))).((((........))))-----.........)))))).............. ( -24.60)
>consensus
_____CCACCACGAACUCCA_UCCAGAUUACCUGGAAGCCACACAGGAAUGCAACCGAAUCGAAAACAGAAUCGA_____AGCGCAGCCGGUGGCGUUAAUUAAAUACA
.............(((......((((.....))))..(((((...((..(((.......((((........))))......)))...)).))))))))........... (-22.34 = -22.34 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 10,341,121 – 10,341,219
Length 98
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 92.68
Mean single sequence MFE -31.46
Consensus MFE -27.18
Energy contribution -27.50
Covariance contribution 0.32
Combinations/Pair 1.08
Mean z-score -1.48
Structure conservation index 0.86
SVM decision value 0.83
SVM RNA-class probability 0.862656
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10341121 98 - 20766785
UGUAUUUAAUUAACGCCACCGGCUGCGCU-----UCGAUUCUGUUUUCGAUUCGGUUGCAUUCCUGUGUGGCUACCAGGUAAUCUGGA-UGGAGUUCGUGGUGG-----
.............((((((..(((.((..-----((((........))))..)(((..(((....)))..))).((((.....)))).-.).)))..)))))).----- ( -31.50)
>DroSec_CAF1 60204 98 - 1
UGUAUUUAAUUAACGCCACCGGCUGCGCU-----UCGAUUCUGUUUUCGAUUCGGUUGCAUUCCUGUGUGGCUUCCAGGUAAUCUGGA-UGGAGUUCGUGGUGG-----
.............((((((..(((.((..-----((((........))))..)(((..(((....)))..)))(((((.....)))))-.).)))..)))))).----- ( -32.00)
>DroSim_CAF1 55850 98 - 1
UGUAUUUAAUUAACGCCACCGGCUGCGCU-----UCGAUUCUGUUUUCGAUUCGGUUGCAUUCCUGUGUGGCUUCCAGGUAAUCUGGA-UGGAGUUCGUGGUGG-----
.............((((((..(((.((..-----((((........))))..)(((..(((....)))..)))(((((.....)))))-.).)))..)))))).----- ( -32.00)
>DroEre_CAF1 56095 103 - 1
UGUAUUUAAUUAACGCCACCGGCUGCGCUUCGCUUCGAUUCUGCUUUCGAUUCAGCUGCAUUCCUGUGUGGCUUCCAGGUAAUCUGGU-UGGAGUUCGAGGUGG-----
...............(((((...((.((((((..((((........))))..)(((..(((....)))..))).((((.....)))).-.))))).)).)))))----- ( -29.40)
>DroYak_CAF1 56778 104 - 1
UGUAUUUAAUUAACGCCACCGGCUGCGCU-----UCGAUUCUGUUUUCGAUUCCGUUGCAUUCCUGUGUGGCUUCCAGGUAAUCUGGUUUGGAGUUCGAGGUGGCUGGU
.................((((((..((((-----((((...........(((((((..(((....)))..))..((((.....))))...))))))))))))))))))) ( -32.40)
>consensus
UGUAUUUAAUUAACGCCACCGGCUGCGCU_____UCGAUUCUGUUUUCGAUUCGGUUGCAUUCCUGUGUGGCUUCCAGGUAAUCUGGA_UGGAGUUCGUGGUGG_____
.............((((((..(((.(........((((........))))...(((..(((....)))..))).((((.....))))...).)))..))))))...... (-27.18 = -27.50 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:55 2006