Locus 8153

Sequence ID	3R_DroMel_CAF1
Location	21,917,425 – 21,917,561
Length	136
Max. P	0.950368

overview

Window 9

Location	21,917,425 – 21,917,531
Length	106
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	80.64
Mean single sequence MFE	-26.77
Consensus MFE	-17.83
Energy contribution	-18.19
Covariance contribution	0.36
Combinations/Pair	1.13
Mean z-score	-2.32
Structure conservation index	0.67
SVM decision value	0.99
SVM RNA-class probability	0.896098
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21917425 106 + 27905053
CGCAAAUUUUUAUUGCACUUUUUCCCGGAGCGUCUUGUCUUC-UCCUCUGCUGACU-------UGACUUGUGCGAAUUGUCUGGUUG-CAGACUAGAUAACUCCCUCUGAAAUCC
.((((.......)))).........(((((.(..((((((..-...(((((.((((-------.(((...........))).)))))-))))..))))))..).)))))...... ( -26.40)
>DroPse_CAF1 35486 97 + 1
CGCAAAUUUUUAUUGCACUU-UUCCUGGAGCGUCUUGUCUU----------UGGCU-------UGACUUGUGCGAAUUGUCUAGUCCCCCGACUAGAUAUCUCUCUCUCACUCCC
.((((.......))))....-.....((((.(((..((...----------..)).-------.)))......((..(((((((((....)))))))))..)).......)))). ( -25.40)
>DroEre_CAF1 33403 105 + 1
CGCAAAUUUUUAUUGCACUU-UUCCCGGAGCGUCUUGUCUUC-UCCUCCGCUGACU-------UGACUUGUGCGAAUUGUCUGGUCG-CAGACUAGAUAACUCCCUAUGAAAACC
.((((.......))))..((-(((..((((.(((..(((..(-......)..))).-------.))).........((((((((((.-..))))))))))))))....))))).. ( -26.00)
>DroYak_CAF1 32833 106 + 1
CGCAAAUUUUUAUUGCACUUUUUCCCGGAGCGUCUUGUCUUC-UCCUCGGCUGACU-------UGACUUGUGCGAAUUGUCUGGUCG-CAGACUAGAUAACUCCCUACGAGCACC
.((((.......))))..........((.(((((..(((..(-(....))..))).-------.)))(((((.((.((((((((((.-..)))))))))).)).).)))))).)) ( -27.70)
>DroAna_CAF1 33087 114 + 1
CGCAAAUUUUUAUUGCACUUUUUCCUGGAGCGUCUUGUCUUCGUCUUCUCCUGACUUGUGUCUUGAGUUGUGCGAAUUGUCUAGUCU-GAGACUACAUAGAUAGCCCUCCAGUUU
.((((.......))))........((((((.((..(((((((((...(((..(((....)))..)))....))))).(((.(((((.-..))))).))))))))).))))))... ( -29.70)
>DroPer_CAF1 35551 97 + 1
CGCAAAUUUUUAUUGCACUU-UUCCUGGAGCGUCUUGUCUU----------UGGCU-------UGACUUGUGCGAAUUGUCUAGUCCCCCGACUAGAUAUCUCUCUCUCACUCCC
.((((.......))))....-.....((((.(((..((...----------..)).-------.)))......((..(((((((((....)))))))))..)).......)))). ( -25.40)
>consensus
CGCAAAUUUUUAUUGCACUU_UUCCCGGAGCGUCUUGUCUUC_UCCUC_GCUGACU_______UGACUUGUGCGAAUUGUCUAGUCG_CAGACUAGAUAACUCCCUCUCAAAACC
.((((.......)))).............(((.(..(((.........................)))..))))((.((((((((((....)))))))))).))............ (-17.83 = -18.19 +   0.36)

alignment

secondary structure

dotplot

Window 0

Location	21,917,465 – 21,917,561
Length	96
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	70.65
Mean single sequence MFE	-19.32
Consensus MFE	-13.34
Energy contribution	-13.23
Covariance contribution	-0.11
Combinations/Pair	1.17
Mean z-score	-1.46
Structure conservation index	0.69
SVM decision value	1.40
SVM RNA-class probability	0.950368
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21917465 96 + 27905053
UCUCCUCUGCUGACUUGACUUGUGCGAAUUGUCUGGUUG-CAGACUAGAUAACUCCCUCUGAAAUCCAGCAG--UC-CUCCCCC---CUCUGGUUUUCUC----CUU
(((..(((((.((((.(((...........))).)))))-))))..)))...........((((.((((.((--..-.......---)))))).))))..----... ( -21.70)
>DroSec_CAF1 32067 97 + 1
UCUCCUCUGCUGACUUGACUUGUGCGAAUUGUCUGGUCG-CAGACUAGAUAACUCCCUCGGAUAUCCAACAG--UACCACUCCC---CCCUGGGUUUCUC----CUU
(((..(((((.((((.(((...........))).)))))-))))..)))..........(((.(((((....--..........---...)))))...))----).. ( -22.13)
>DroSim_CAF1 41267 100 + 1
UCUCCUCUGCUGACUUGACUUGUGCGAAUUGUCUGGUCG-CAGACUAGAUAACUCCCUCAGAAAUCCAGCAG--UACCACUCCCCCCCCCUGGUUUUCUC----CUU
......((((((..((...(((.(.((.((((((((((.-..)))))))))).)).).))).))..))))))--.((((...........))))......----... ( -22.90)
>DroEre_CAF1 33442 87 + 1
UCUCCUCCGCUGACUUGACUUGUGCGAAUUGUCUGGUCG-CAGACUAGAUAACUCCCUAUGAAAACCU-------CCC-----------CCCUUUUUC-CCCCGCUU
.......................(((..((((((((((.-..))))))))))........(((((...-------...-----------....)))))-...))).. ( -13.50)
>DroYak_CAF1 32873 99 + 1
UCUCCUCGGCUGACUUGACUUGUGCGAAUUGUCUGGUCG-CAGACUAGAUAACUCCCUACGAGCACCC-------CCCACUCCCCACCCUCCAUUUUCUUCUUGAUU
.......((......((.((((((.((.((((((((((.-..)))))))))).)).).)))))))...-------.))............................. ( -18.10)
>DroPer_CAF1 35590 86 + 1
U---------UGGCUUGACUUGUGCGAAUUGUCUAGUCCCCCGACUAGAUAUCUCUCUCUCACUCCCAUUCGAUUUCUG--------CUCUGCUCUGCUC----GGA
.---------(((..(((...(.(.((..(((((((((....)))))))))..)).).))))...)))(((((.....(--------(........))))----))) ( -17.60)
>consensus
UCUCCUCUGCUGACUUGACUUGUGCGAAUUGUCUGGUCG_CAGACUAGAUAACUCCCUCUGAAAUCCA_CAG__UCCCACUCCC___CCCUGGUUUUCUC____CUU
.........................((.((((((((((....)))))))))).)).................................................... (-13.34 = -13.23 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:46 2006