Locus 4607

Sequence ID	2L_DroMel_CAF1
Location	13,187,723 – 13,187,871
Length	148
Max. P	0.759984

overview

Window 9

Location	13,187,723 – 13,187,832
Length	109
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	83.65
Mean single sequence MFE	-30.48
Consensus MFE	-22.27
Energy contribution	-23.17
Covariance contribution	0.89
Combinations/Pair	1.16
Mean z-score	-1.57
Structure conservation index	0.73
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13187723 109 - 22407834
ACCAGAUGCCC--CAGGCACAGAACCAUAGCAAUGGCAGUACCAAUCAGACUCCACUGGACUCGUACGAGAGUAUCGAUCAUCAAAUCGAUGCGCUCAAGUGUCAGUAUGG
......((((.--..)))).....(((((....(((((((((...((((......))))....))))(((.((((((((......)))))))).)))...))))).))))) ( -32.10)
>DroPse_CAF1 9838 88 - 1
---GACUGCCCGCCACGCA--------------------UCCCAGCCAGACGCCUCUGGACUCUUACGAGAGCAUUGAUGACCAGAUCGAUGCGUUGAAGUGCCAUUAUGG
---......(((....(((--------------------(..((((((((....))))..(((....))).((((((((......))))))))))))..)))).....))) ( -22.90)
>DroSec_CAF1 8147 109 - 1
ACCAACUGCCC--CAGGCACAGAACAAUAGCAAUGGCAGUCCCAACCAGACUCCACUGGACUCGUACGAGAGUAUCGACCAUCAAAUCGAUGCGCUCAAGUGUCAGUAUGG
....((((((.--...((...........))...)))))).(((.((((......))))(((..((((((.(((((((........))))))).)))..)))..))).))) ( -31.10)
>DroSim_CAF1 8128 109 - 1
ACCAACUGCCC--CAGGCACAGAACAAUAGCAAUGGCAGUCCCAACCAGACUCCACUGGACUCGUACGAGAGUAUCGACCAUCAAAUCGAUGCGCUCAAGUGUCAGUAUGG
....((((((.--...((...........))...)))))).(((.((((......))))(((..((((((.(((((((........))))))).)))..)))..))).))) ( -31.10)
>DroEre_CAF1 8293 109 - 1
ACCAGCUGCCC--CAGGCACAGAACAAUAGCAAUGGCAGUUCCAGCCAGACUCCACUGGACUCAUACGAGAGUAUCGACCAUCAAAUCGAUGCGCUCAAGUGUCAGUAUGG
...(((((((.--...((...........))...)))))))(((.((((......))))(((.(((((((.(((((((........))))))).)))..)))).))).))) ( -32.50)
>DroYak_CAF1 8231 109 - 1
ACCAACUGCCC--CAUGCACAGAAUAACAGCAAUGGCAGUUCCAGCCAGACGCCACUGGACUCAUACGAGAGUAUCGACCACCAAAUCGAUGCGCUCAAGUGUCAGUAUGG
...(((((((.--..(((...........)))..)))))))(((.((((......))))(((.(((((((.(((((((........))))))).)))..)))).))).))) ( -33.20)
>consensus
ACCAACUGCCC__CAGGCACAGAACAAUAGCAAUGGCAGUCCCAACCAGACUCCACUGGACUCGUACGAGAGUAUCGACCAUCAAAUCGAUGCGCUCAAGUGUCAGUAUGG
....((((((......((...........))...)))))).(((.((((......))))(((..((((((.(((((((........))))))).)))..)))..))).))) (-22.27 = -23.17 +   0.89)

alignment

secondary structure

dotplot

Window 0

Location	13,187,763 – 13,187,871
Length	108
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	82.52
Mean single sequence MFE	-32.99
Consensus MFE	-25.16
Energy contribution	-26.38
Covariance contribution	1.23
Combinations/Pair	1.19
Mean z-score	-1.89
Structure conservation index	0.76
SVM decision value	0.50
SVM RNA-class probability	0.759984
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13187763 108 - 22407834
UGACUGCCUGGCUGGCGAAUACCAGCACAAGCCUACGCCACCAGAUGCCC--CAGGCACAGAACCAUAGCAAUGGCAGUACCAAUCAGACUCCACUGGACUCGUACGAGA
..(((((((((((((......))))).)).((((..((........))..--.))))................)))))).....((((......)))).(((....))). ( -29.70)
>DroSec_CAF1 8187 108 - 1
UGACUGCCUGGCUGGCGAAUACCAGCACUAGUCUGCGCCACCAACUGCCC--CAGGCACAGAACAAUAGCAAUGGCAGUCCCAACCAGACUCCACUGGACUCGUACGAGA
.(((((((..(((((......))))).(((.((((.(((...........--..))).))))....)))....)))))))....((((......)))).(((....))). ( -38.72)
>DroSim_CAF1 8168 108 - 1
UGACUGCCUGGCUGGCGAAUACCAGCACUAGCCUGCGUCACCAACUGCCC--CAGGCACAGAACAAUAGCAAUGGCAGUCCCAACCAGACUCCACUGGACUCGUACGAGA
.(((((((..(((((......)))))....(((((.(.((.....)).).--)))))................)))))))....((((......)))).(((....))). ( -37.10)
>DroEre_CAF1 8333 108 - 1
UGACUGCCUGGCUGGCGAAUACCAGCACUAGCCUGCGCCACCAGCUGCCC--CAGGCACAGAACAAUAGCAAUGGCAGUUCCAGCCAGACUCCACUGGACUCAUACGAGA
.(((((((..(((((......)))))....(((((.((........))..--)))))................)))))))....((((......)))).(((....))). ( -34.50)
>DroYak_CAF1 8271 108 - 1
UAACUGCGUGGCUGGCUAAUACCAGCACAAGCCUGCGCCACCAACUGCCC--CAUGCACAGAAUAACAGCAAUGGCAGUUCCAGCCAGACGCCACUGGACUCAUACGAGA
.....((((((((.(((......)))...)))).))))....(((((((.--..(((...........)))..)))))))....((((......)))).(((....))). ( -32.50)
>DroPer_CAF1 9999 87 - 1
UGACCGCCUGGCUGGCCAACUCGAGCACCAGCCUCCGUC---GACUGCCCGCCACGCA--------------------UCCCAGCCAGACGCCUCUGGACUCUUACGAGA
.....((.((((.(((....((((((....)).....))---))..))).)))).)).--------------------......(((((....))))).(((....))). ( -25.40)
>consensus
UGACUGCCUGGCUGGCGAAUACCAGCACUAGCCUGCGCCACCAACUGCCC__CAGGCACAGAACAAUAGCAAUGGCAGUCCCAACCAGACUCCACUGGACUCGUACGAGA
.(((((((..(((((......)))))....(((((.((........))....)))))................)))))))....((((......)))).(((....))). (-25.16 = -26.38 +   1.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:22 2006