Locus 2166

Sequence ID 2L_DroMel_CAF1
Location 5,844,570 – 5,844,692
Length 122
Max. P 0.633387
window3497 window3498

overview

Window 7

Location 5,844,570 – 5,844,668
Length 98
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 73.92
Mean single sequence MFE -15.77
Consensus MFE -11.02
Energy contribution -11.38
Covariance contribution 0.36
Combinations/Pair 1.08
Mean z-score -0.95
Structure conservation index 0.70
SVM decision value 0.21
SVM RNA-class probability 0.633387
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5844570 98 - 22407834
CGCUUUGUUGCUAAUUACGCGAGUGCAGUUGGCAAUAUCAUAACAUACCCCCCCUCCC-ACAACC-AUGCCCCCUUCUCCUACGUUUCCAUCUUUGAUUA
.....(((((((((((((....)))..)))))))))).....................-......-.................................. ( -13.00)
>DroSec_CAF1 34649 90 - 1
CGCUUUGUUGCUAAUUACGCGAGUGCAGUUGGCAAUAUCAUAU---ACCC-----CCC-UCAACC-CUGAUCCCUUCUCCACCGUUUACAUCUUUGAUUA
.....(((((((((((((....)))..))))))))))......---....-----...-......-.................................. ( -13.00)
>DroSim_CAF1 34649 92 - 1
CGCUUUGUUGCUAAUUACGCGAGUGCAGUUGGCAAUAUCAUAUCU-CCCC-----CCC-UCAACC-CUGCUCCCUUCUCCACCGUUUGCAUCUUUGAUUA
.....(((((((((((((....)))..))))))))))........-....-----...-((((..-.(((.................)))...))))... ( -15.63)
>DroEre_CAF1 58645 100 - 1
CGCUUUGUUGCUAAUUACGCGAGUGCAGUUGGCAAUAUCAUAACAUUCACCCCCUCCCCCCAGUCACUCCUCCCUGCUCCUCCGCCUGCAUCUUUGAUUA
.....(((((((((((((....)))..))))))))))........................(((((.........((......)).........))))). ( -15.57)
>DroYak_CAF1 59293 87 - 1
CGCUUUGUUGCUAAUUACGCGAGUGCAGUUGGCAAUAUCAUAACAUUCAGCACCU-------------CCUCCCUGCUCCUCCGUUUGCAUCUUUGAUUA
.((..(((((((((((((....)))..))))))))))...........((((...-------------......)))).........))........... ( -16.30)
>DroPer_CAF1 112996 82 - 1
CGCUUUGUUGCUAAUUACGCAAGUGCAGUCG-CAGGACC---------------UCUC-GCG-UCCUGCCGCGCCACUCUUCAAAUUGCCGCUUUGAUUA
.((......))....(((....))).(((((-(((((((---------------....-).)-)))))).(((.((..........)).)))...)))). ( -21.10)
>consensus
CGCUUUGUUGCUAAUUACGCGAGUGCAGUUGGCAAUAUCAUAACA_ACCC____UCCC_UCAACC_CUCCUCCCUUCUCCUCCGUUUGCAUCUUUGAUUA
.....(((((((((((((....)))..))))))))))............................................................... (-11.02 = -11.38 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 5,844,596 – 5,844,692
Length 96
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 74.35
Mean single sequence MFE -14.10
Consensus MFE -9.66
Energy contribution -9.92
Covariance contribution 0.25
Combinations/Pair 1.13
Mean z-score -0.95
Structure conservation index 0.69
SVM decision value 0.03
SVM RNA-class probability 0.550149
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5844596 96 - 22407834
---CUU---UGCUAUUUUUAAUAUGCACAACGCUUUGUUGCUAAUUACGCGAGUGCAGUUGGCAAUA--U----CAUAACAUACCCCCCCUCCC-ACAACC-AUGCCCCC
---...---.((............((.....))..(((((((((((((....)))..))))))))))--.----....................-......-..)).... ( -14.30)
>DroSec_CAF1 34675 88 - 1
---CUU---UGCUAUUUUUAAUAUGCACAACGCUUUGUUGCUAAUUACGCGAGUGCAGUUGGCAAUA--U----CAUAU---ACCC-----CCC-UCAACC-CUGAUCCC
---...---((((((.....))).)))........(((((((((((((....)))..))))))))))--.----.....---....-----...-......-........ ( -14.10)
>DroSim_CAF1 34675 90 - 1
---CUU---UGCUAUUUUUAAUAUGCACAACGCUUUGUUGCUAAUUACGCGAGUGCAGUUGGCAAUA--U----CAUAUCU-CCCC-----CCC-UCAACC-CUGCUCCC
---...---.((............((.....))..(((((((((((((....)))..))))))))))--.----.......-....-----...-......-..)).... ( -14.70)
>DroEre_CAF1 58671 98 - 1
---CUU---UGCGAUUUUUAAUAUGCACAACGCUUUGUUGCUAAUUACGCGAGUGCAGUUGGCAAUA--U----CAUAACAUUCACCCCCUCCCCCCAGUCACUCCUCCC
---...---...((((........((.....))..(((((((((((((....)))..))))))))))--.----.......................))))......... ( -15.20)
>DroWil_CAF1 83176 96 - 1
GAUUUUUGCUACUAUUUUUAAUAUGCACUACGUUUCGUUGCUAAUUACGCGAAUGCAGUUGCCUUUGCUCCUCUAAUGUCU-CCCU-----C--------UCUCUCUCUC
(((...............((((..(((..(((...))))))..)))).(((((.((....)).))))).........))).-....-----.--------.......... (  -9.10)
>DroYak_CAF1 59319 85 - 1
---CUU---UGCUAUUUUUAAUAUGCACAACGCUUUGUUGCUAAUUACGCGAGUGCAGUUGGCAAUA--U----CAUAACAUUCAGCACCU-------------CCUCCC
---...---((((...........((.....))..(((((((((((((....)))..))))))))))--.----..........))))...-------------...... ( -17.20)
>consensus
___CUU___UGCUAUUUUUAAUAUGCACAACGCUUUGUUGCUAAUUACGCGAGUGCAGUUGGCAAUA__U____CAUAACA_ACCC_____CCC__CAACC_CUGCUCCC
........................((.....))..(((((((((((((....)))..))))))))))........................................... ( -9.66 =  -9.92 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:15 2006