Locus 5173

Sequence ID	2L_DroMel_CAF1
Location	14,653,991 – 14,654,123
Length	132
Max. P	0.853564

overview

Window 6

Location	14,653,991 – 14,654,086
Length	95
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	93.36
Mean single sequence MFE	-28.14
Consensus MFE	-23.33
Energy contribution	-23.59
Covariance contribution	0.25
Combinations/Pair	1.11
Mean z-score	-2.31
Structure conservation index	0.83
SVM decision value	0.80
SVM RNA-class probability	0.853564
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14653991 95 - 22407834
CCAUGUUUUCUUACAGAUCAUCGUUGUGCAACUCUCAUAAAUAACGAUGAUUGCUGUUGAUUGGGAAUGUAACCAGCGGCAAGUGUU-GGGGAAAU
....(((((((((((((((((((((((.............))))))))))))(((((((.(((......))).)))))))...)).)-)))))))) ( -28.62)
>DroSec_CAF1 8793 95 - 1
CCAUGUUUUCUUACAGAUCAUCGUUGUGCAACUCUCAUAAAUAACGAUGAUUGCUGUUGAUUGGGAAUGUAACCAGCGGCAAGUGUU-GGGGAAAU
....(((((((((((((((((((((((.............))))))))))))(((((((.(((......))).)))))))...)).)-)))))))) ( -28.62)
>DroSim_CAF1 10090 95 - 1
CCAUGUUUUCUUACAGAUCAUCGUUGUGCAACUCUCAUAAAUAACGAUGAUUGCUGUUGAUUGGGAAUGUAACCAGCGGCAAGUGUU-GGGGAAAU
....(((((((((((((((((((((((.............))))))))))))(((((((.(((......))).)))))))...)).)-)))))))) ( -28.62)
>DroEre_CAF1 8610 95 - 1
CCAUGUUUUCUUACAGAUCAUCGUUGUGCAACUCUCAUAAAUAACGAUGAUUGCUGUUGAUUGGGAAUGUAACCAGCGGCAAGUGUU-GGGGAAAU
....(((((((((((((((((((((((.............))))))))))))(((((((.(((......))).)))))))...)).)-)))))))) ( -28.62)
>DroYak_CAF1 9078 95 - 1
CCAUGUUUUCUUACAGAUCAUCGUUGUGCAACUCUCAUAAAUAACGAUGAUUGCUGUUGAUUGGGAAUGUAACCAGCGGCAAGUGUU-GGGGAAAU
....(((((((((((((((((((((((.............))))))))))))(((((((.(((......))).)))))))...)).)-)))))))) ( -28.62)
>DroAna_CAF1 8469 91 - 1
UCGGCUCUUUUUACUGAUCGUCGUUGUGCAACUCUCAUAAAUAACGAUGAUUGCUGUUGAUUGGUAAGGUAACCAGA-----GUGACGGGGGAAAU
....((((..(((((((((((((((((.............))))))))))))........(((((......))))))-----))))..)))).... ( -25.72)
>consensus
CCAUGUUUUCUUACAGAUCAUCGUUGUGCAACUCUCAUAAAUAACGAUGAUUGCUGUUGAUUGGGAAUGUAACCAGCGGCAAGUGUU_GGGGAAAU
.....((..(.(((.((((((((((((.............))))))))))))(((((((.(((......))).)))))))..)))...)..))... (-23.33 = -23.59 +   0.25)

alignment

secondary structure

dotplot

Window 7

Location	14,654,011 – 14,654,123
Length	112
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	78.68
Mean single sequence MFE	-24.72
Consensus MFE	-13.06
Energy contribution	-13.08
Covariance contribution	0.03
Combinations/Pair	1.29
Mean z-score	-1.96
Structure conservation index	0.53
SVM decision value	0.28
SVM RNA-class probability	0.668009
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14654011 112 + 22407834
UGGUUACAUUCCCAAUCAACAGCAAUCAUCGUUAUUUAUGAGAGUUGCACAA--CGAUGAUCUGUAAGAAAACAUGGAAAAAAAUCGCAGACCCAAAAUAAAGGGGACCAAAAG---
(((((...((((...((.((((..(((((((((....((....)).....))--)))))))))))..))......))))............(((........))))))))....--- ( -24.50)
>DroPse_CAF1 12243 104 + 1
GGGUUACAUUACCAAUCAACAGCAAUCAUCGUUAUUUAUGAGA-UUGCACAACACGAUGAUCGGUCUGAGAGGCCCGAAA-AAC-----GAC--GAAAAAAUGGU--CCU--GGGGU
......((..((((.......((((((.((((.....))))))-))))......((.(..((((.((....)).))))..-).)-----)..--.......))))--..)--).... ( -24.50)
>DroEre_CAF1 8630 111 + 1
UGGUUACAUUCCCAAUCAACAGCAAUCAUCGUUAUUUAUGAGAGUUGCACAA--CGAUGAUCUGUAAGAAAACAUGGAAA-AAAUGCAAGACCCAAAAUAAAGGGUACCAGAAG---
((((....((((...((.((((..(((((((((....((....)).....))--)))))))))))..))......)))).-.........((((........))))))))....--- ( -23.40)
>DroYak_CAF1 9098 111 + 1
UGGUUACAUUCCCAAUCAACAGCAAUCAUCGUUAUUUAUGAGAGUUGCACAA--CGAUGAUCUGUAAGAAAACAUGGAAA-AAAUGCAAGACCCAAAAUAAAGGGGACCAGAAG---
(((((...((((...((.((((..(((((((((....((....)).....))--)))))))))))..))......)))).-..........(((........))))))))....--- ( -24.50)
>DroAna_CAF1 8485 109 + 1
UGGUUACCUUACCAAUCAACAGCAAUCAUCGUUAUUUAUGAGAGUUGCACAA--CGACGAUCAGUAAAAAGAGCCGAAAAAAUAAGCAAAACCCAGGAACAUGGGGCCCA---G---
.((((...((((..(((..(.(((((..((((.....))))..)))))....--.)..)))..))))....))))................((((......)))).....---.--- ( -20.20)
>DroPer_CAF1 15640 103 + 1
GGGUUACAUUACCAAUCAACAGCAAUCAUCGUUAUUUAUGAGA-UUGCACAACACGAUGAUCGGUCUGAGAGGCCCGAAA-AAC-----GAC--GAAAAAAUGGUAACCC--AG---
(((((((..............((((((.((((.....))))))-))))......((.(..((((.((....)).))))..-).)-----)..--.........)))))))--..--- ( -31.20)
>consensus
UGGUUACAUUACCAAUCAACAGCAAUCAUCGUUAUUUAUGAGAGUUGCACAA__CGAUGAUCUGUAAGAAAACACGGAAA_AAAUGCAAGACCCAAAAAAAAGGGGACCA__AG___
(((((.....(((........(((((..((((.....))))..)))))............((((..........))))........................))))))))....... (-13.06 = -13.08 +   0.03)

alignment

secondary structure

dotplot

Window 8

Location	14,654,011 – 14,654,123
Length	112
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	78.68
Mean single sequence MFE	-28.80
Consensus MFE	-12.85
Energy contribution	-12.65
Covariance contribution	-0.19
Combinations/Pair	1.25
Mean z-score	-2.51
Structure conservation index	0.45
SVM decision value	0.66
SVM RNA-class probability	0.815511
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14654011 112 - 22407834
---CUUUUGGUCCCCUUUAUUUUGGGUCUGCGAUUUUUUUCCAUGUUUUCUUACAGAUCAUCG--UUGUGCAACUCUCAUAAAUAACGAUGAUUGCUGUUGAUUGGGAAUGUAACCA
---....((((.(((........)))...........((((((.....((..(((((((((((--((((.............)))))))))))..)))).)).))))))....)))) ( -27.02)
>DroPse_CAF1 12243 104 - 1
ACCCC--AGG--ACCAUUUUUUC--GUC-----GUU-UUUCGGGCCUCUCAGACCGAUCAUCGUGUUGUGCAA-UCUCAUAAAUAACGAUGAUUGCUGUUGAUUGGUAAUGUAACCC
.((..--(((--((.((......--)).-----)))-))..))(((..((((..((((((((((.(((((...-...)))))...))))))))))...))))..))).......... ( -26.20)
>DroEre_CAF1 8630 111 - 1
---CUUCUGGUACCCUUUAUUUUGGGUCUUGCAUUU-UUUCCAUGUUUUCUUACAGAUCAUCG--UUGUGCAACUCUCAUAAAUAACGAUGAUUGCUGUUGAUUGGGAAUGUAACCA
---.....(((((((........))))..(((((..-.(((((.....((..(((((((((((--((((.............)))))))))))..)))).)).))))))))))))). ( -30.42)
>DroYak_CAF1 9098 111 - 1
---CUUCUGGUCCCCUUUAUUUUGGGUCUUGCAUUU-UUUCCAUGUUUUCUUACAGAUCAUCG--UUGUGCAACUCUCAUAAAUAACGAUGAUUGCUGUUGAUUGGGAAUGUAACCA
---.....(((.(((........)))...(((((..-.(((((.....((..(((((((((((--((((.............)))))))))))..)))).)).))))))))))))). ( -28.72)
>DroAna_CAF1 8485 109 - 1
---C---UGGGCCCCAUGUUCCUGGGUUUUGCUUAUUUUUUCGGCUCUUUUUACUGAUCGUCG--UUGUGCAACUCUCAUAAAUAACGAUGAUUGCUGUUGAUUGGUAAGGUAACCA
---.---.((..((((......))))(((((((.(((....((((..........((((((((--((((.............))))))))))))))))..))).)))))))...)). ( -27.02)
>DroPer_CAF1 15640 103 - 1
---CU--GGGUUACCAUUUUUUC--GUC-----GUU-UUUCGGGCCUCUCAGACCGAUCAUCGUGUUGUGCAA-UCUCAUAAAUAACGAUGAUUGCUGUUGAUUGGUAAUGUAACCC
---..--(((((((.........--.((-----(..-...)))(((..((((..((((((((((.(((((...-...)))))...))))))))))...))))..)))...))))))) ( -33.40)
>consensus
___CU__UGGUCCCCAUUAUUUUGGGUCUUGCAUUU_UUUCCAGCUUUUCUUACAGAUCAUCG__UUGUGCAACUCUCAUAAAUAACGAUGAUUGCUGUUGAUUGGGAAUGUAACCA
............(((.......((((.............))))............((((((((..(((((.......)))))....))))))))..........))).......... (-12.85 = -12.65 +  -0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:51 2006