Locus 2423

Sequence ID	2L_DroMel_CAF1
Location	6,613,109 – 6,613,226
Length	117
Max. P	0.803242

overview

Window 9

Location	6,613,109 – 6,613,226
Length	117
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	93.03
Mean single sequence MFE	-56.20
Consensus MFE	-48.12
Energy contribution	-49.25
Covariance contribution	1.12
Combinations/Pair	1.08
Mean z-score	-1.65
Structure conservation index	0.86
SVM decision value	0.37
SVM RNA-class probability	0.709476
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6613109 117 + 22407834
AUCGGAUGAAAUCACGGCCAGCACGGGCGGCGGAGAUGUGG---AGACGCCCGGACUGGGCGCAUCCUGCCACGAGGUGGCCGCCGCAUCGGCCAGUGCCGGCAAGAAGCCCUGCUUCAG
..(((((...))).))(((.((((.((((((((.((((((.---...)((((.....)))))))))))))).(((.((((...)))).)))))).)))).)))..(((((...))))).. ( -56.40)
>DroSec_CAF1 40400 120 + 1
ACCGGAUGAAAUCACAGCCAGCGCGGGCGGCGGCGAUGUGGAGGAGACGCCCGGACUAGGCGCAUCCUGCCACGAGGUGGCCUCCGCAUCGGCCAGUGCCGGCAAGAAGCCCUGCUUCAG
.((((.......(((.(((.((....)))))(((((((((((((...((((((.....((((.....)))).)).)))).)))))))))).))).)))))))...(((((...))))).. ( -54.81)
>DroSim_CAF1 41585 120 + 1
ACCGGAUGAAAUCACAGCCAGCGCGGGCGGCGGCGAUGUGGAGGAGACGCCCGGACUAGGCGCAUCCUGCCACGAGGUGGCCUCCGCAUCGGCCAGUGCCGGCAAGAAGCCCUGCUUCAG
.((((.......(((.(((.((....)))))(((((((((((((...((((((.....((((.....)))).)).)))).)))))))))).))).)))))))...(((((...))))).. ( -54.81)
>DroYak_CAF1 42196 114 + 1
ACCGGAUGAAAUCACGGCCAGCACGGGCGG---CGAUGCGG---AGGCACCCGGACUAGGCGCAUCCUGCCACGAGGUGGCCUCCGCAUCGGCCAGUGCCGGCAAGAAGCCCUGCUUCAG
..(((((...))).))(((.((((.(((..---((((((((---(((((((((.....((((.....)))).)).))).))))))))))))))).)))).)))..(((((...))))).. ( -58.80)
>consensus
ACCGGAUGAAAUCACAGCCAGCACGGGCGGCGGCGAUGUGG___AGACGCCCGGACUAGGCGCAUCCUGCCACGAGGUGGCCUCCGCAUCGGCCAGUGCCGGCAAGAAGCCCUGCUUCAG
................(((.((((.(((.....(((((((((((...((((((.....((((.....)))).)).)))).)))))))))))))).)))).)))..(((((...))))).. (-48.12 = -49.25 +   1.12)

alignment

secondary structure

dotplot

Window 0

Location	6,613,109 – 6,613,226
Length	117
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	93.03
Mean single sequence MFE	-58.33
Consensus MFE	-47.13
Energy contribution	-47.89
Covariance contribution	0.75
Combinations/Pair	1.15
Mean z-score	-2.06
Structure conservation index	0.81
SVM decision value	0.62
SVM RNA-class probability	0.803242
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6613109 117 - 22407834
CUGAAGCAGGGCUUCUUGCCGGCACUGGCCGAUGCGGCGGCCACCUCGUGGCAGGAUGCGCCCAGUCCGGGCGUCU---CCACAUCUCCGCCGCCCGUGCUGGCCGUGAUUUCAUCCGAU
..(((((...)))))..((((((((.((.....(((((((((((...))))).(((.((((((.....)))))).)---)).......))))))))))))))))((.(((...))))).. ( -57.10)
>DroSec_CAF1 40400 120 - 1
CUGAAGCAGGGCUUCUUGCCGGCACUGGCCGAUGCGGAGGCCACCUCGUGGCAGGAUGCGCCUAGUCCGGGCGUCUCCUCCACAUCGCCGCCGCCCGCGCUGGCUGUGAUUUCAUCCGGU
.(((((((.((((...(((.(((..((((.((((.(((.(((((...))))).(((.((((((.....)))))).)))))).))))))))..))).)))..)))).)).)))))...... ( -56.00)
>DroSim_CAF1 41585 120 - 1
CUGAAGCAGGGCUUCUUGCCGGCACUGGCCGAUGCGGAGGCCACCUCGUGGCAGGAUGCGCCUAGUCCGGGCGUCUCCUCCACAUCGCCGCCGCCCGCGCUGGCUGUGAUUUCAUCCGGU
.(((((((.((((...(((.(((..((((.((((.(((.(((((...))))).(((.((((((.....)))))).)))))).))))))))..))).)))..)))).)).)))))...... ( -56.00)
>DroYak_CAF1 42196 114 - 1
CUGAAGCAGGGCUUCUUGCCGGCACUGGCCGAUGCGGAGGCCACCUCGUGGCAGGAUGCGCCUAGUCCGGGUGCCU---CCGCAUCG---CCGCCCGUGCUGGCCGUGAUUUCAUCCGGU
..(((((...)))))..((((((((.(((((((((((((((.(((.((.((((((.....))).))))))))))))---))))))))---..))).))))))))((.(((...))))).. ( -64.20)
>consensus
CUGAAGCAGGGCUUCUUGCCGGCACUGGCCGAUGCGGAGGCCACCUCGUGGCAGGAUGCGCCUAGUCCGGGCGUCU___CCACAUCGCCGCCGCCCGCGCUGGCCGUGAUUUCAUCCGGU
..(((((...)))))..((((((((.(((((..((((.(((......((((.((((.((((((.....)))))).))))))))......)))..))))..)))))))).......))))) (-47.13 = -47.89 +   0.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:42 2006