Locus 652

Sequence ID	2R_DroMel_CAF1
Location	3,243,889 – 3,243,988
Length	99
Max. P	0.995750

overview

Window 6

Location	3,243,889 – 3,243,988
Length	99
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	76.46
Mean single sequence MFE	-28.81
Consensus MFE	-14.76
Energy contribution	-16.65
Covariance contribution	1.89
Combinations/Pair	1.16
Mean z-score	-3.18
Structure conservation index	0.51
SVM decision value	2.61
SVM RNA-class probability	0.995750
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3243889 99 + 20766785
ACUGGGUGCUGGCCGAUAACUGGCUUUGCAGUUAUUCCUCGUAUUGCAUUCGGC-UUGAGCUAUCACUGCCAAGCCACCUACACCACCUACACCACCCAC-------
..((((((.((((((.....))))..((((((..........))))))...(((-(((.((.......))))))))..............)).)))))).------- ( -32.10)
>DroSec_CAF1 13084 106 + 1
ACUUGGUGCUGGCCGAUAACUGGCUUUGCAGUUAUUCCUCGUAUUGCAUUCGGC-UUGAGCUAUCACUGCCAAGCCAACUACACCACCUACACCACCCACCAUCCAU
...(((((..((........((((((.(((((.((..((((....((.....))-.))))..)).))))).)))))).........))..)))))............ ( -30.03)
>DroSim_CAF1 18098 106 + 1
ACUGGGUGCUGGCCGAUAACUGGCUUUGCAGUUAUUCCUCGUAUUGCAUUCGGC-UUGAGCUAUCACUGCCAAGCCAACUACACCACCUACACCACCAUCCAUCCAU
..((((((.(((..((((((((......))))))))...............(((-(((.((.......))))))))................))).))))))..... ( -30.90)
>DroEre_CAF1 12779 93 + 1
ACUGGGUUCUGGCCGAUAACUGGCUUUGCAGUUAUUCCUUGUAUUGCAUUCAGC-UUGAGCUAUCACUGCCAAGCCACCCACACCACCC------------A-CCAA
..(((((...((........((((((.(((((.((..((((....((.....))-.))))..)).))))).))))))......))))))------------)-.... ( -24.74)
>DroYak_CAF1 13096 100 + 1
CGUGGGUUCUGGCCGAUAACUGGCUUUGCAGUUAUUCCUCGAAUUGCAUUCGGG-CUGAGCUAUCACAGCCAUACCACCUACACAACCCAC-----CCACCA-CCAA
.(((((((.((((((.....))))..(((((((........)))))))....((-(((........)))))..........)).)))))))-----......-.... ( -30.40)
>DroAna_CAF1 10764 99 + 1
GCCGGCUUCUGGCCGAUAACUGGCUCUCCAGCCAUUCCCCGGAUUGCAAUGCACUAUGAGCAAUCACGGCUAACA-AAACAUUCCCCCUUCCCAAGCCUU-------
...(((((.((((((.....(((((....))))).......((((((............)))))).))))))...-.................)))))..------- ( -24.70)
>consensus
ACUGGGUGCUGGCCGAUAACUGGCUUUGCAGUUAUUCCUCGUAUUGCAUUCGGC_UUGAGCUAUCACUGCCAAGCCAACUACACCACCUACACCACCCAC_A_CCA_
...(((((.((((((.....))))..((((((..........))))))...(((.(((.((.......)))))))).....)).))))).................. (-14.76 = -16.65 +   1.89)

alignment

secondary structure

dotplot

Window 7

Location	3,243,889 – 3,243,988
Length	99
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	76.46
Mean single sequence MFE	-35.58
Consensus MFE	-19.36
Energy contribution	-20.17
Covariance contribution	0.81
Combinations/Pair	1.27
Mean z-score	-2.36
Structure conservation index	0.54
SVM decision value	1.60
SVM RNA-class probability	0.966648
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3243889 99 - 20766785
-------GUGGGUGGUGUAGGUGGUGUAGGUGGCUUGGCAGUGAUAGCUCAA-GCCGAAUGCAAUACGAGGAAUAACUGCAAAGCCAGUUAUCGGCCAGCACCCAGU
-------.((((((.(....(((.((((..(((((((((.......)).)))-))))..)))).)))..((.(((((((......)))))))...))).)))))).. ( -38.50)
>DroSec_CAF1 13084 106 - 1
AUGGAUGGUGGGUGGUGUAGGUGGUGUAGUUGGCUUGGCAGUGAUAGCUCAA-GCCGAAUGCAAUACGAGGAAUAACUGCAAAGCCAGUUAUCGGCCAGCACCAAGU
.(((.((.(((.(((((..(((..(((((((((((((((.......)).)))-)))(....)............)))))))..)))...))))).))).)))))... ( -38.50)
>DroSim_CAF1 18098 106 - 1
AUGGAUGGAUGGUGGUGUAGGUGGUGUAGUUGGCUUGGCAGUGAUAGCUCAA-GCCGAAUGCAAUACGAGGAAUAACUGCAAAGCCAGUUAUCGGCCAGCACCCAGU
.....(((.((.((((....(((.((((.((((((((((.......)).)))-))))).)))).)))...((.((((((......)))))))).)))).)).))).. ( -37.30)
>DroEre_CAF1 12779 93 - 1
UUGG-U------------GGGUGGUGUGGGUGGCUUGGCAGUGAUAGCUCAA-GCUGAAUGCAAUACAAGGAAUAACUGCAAAGCCAGUUAUCGGCCAGAACCCAGU
....-(------------(((((((((((.((((((.(((((..((((....-))))..((.....)).......))))).)))))).))))..)))...))))).. ( -30.80)
>DroYak_CAF1 13096 100 - 1
UUGG-UGGUGG-----GUGGGUUGUGUAGGUGGUAUGGCUGUGAUAGCUCAG-CCCGAAUGCAAUUCGAGGAAUAACUGCAAAGCCAGUUAUCGGCCAGAACCCACG
....-..((((-----((.(((((.((((.((((..(((((.(....).)))-))....((((((((...))))...))))..)))).)))))))))...)))))). ( -36.90)
>DroAna_CAF1 10764 99 - 1
-------AAGGCUUGGGAAGGGGGAAUGUUU-UGUUAGCCGUGAUUGCUCAUAGUGCAUUGCAAUCCGGGGAAUGGCUGGAGAGCCAGUUAUCGGCCAGAAGCCGGC
-------..(((((.((.....(.(((((.(-(((.(((.......))).)))).))))).)...((((....(((((....)))))....))))))..)))))... ( -31.50)
>consensus
_UGG_U_GUGGGUGGUGUAGGUGGUGUAGGUGGCUUGGCAGUGAUAGCUCAA_GCCGAAUGCAAUACGAGGAAUAACUGCAAAGCCAGUUAUCGGCCAGAACCCAGU
...................(((.(.((((.((((((.(((((.((..(((...((.....)).....)))..)).))))).)))))).))))).))).......... (-19.36 = -20.17 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:44 2006