Locus 6943

Sequence ID	2L_DroMel_CAF1
Location	19,312,632 – 19,312,752
Length	120
Max. P	0.940692

overview

Window 8

Location	19,312,632 – 19,312,752
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.91
Mean single sequence MFE	-31.66
Consensus MFE	-24.86
Energy contribution	-25.70
Covariance contribution	0.84
Combinations/Pair	1.04
Mean z-score	-1.75
Structure conservation index	0.79
SVM decision value	0.05
SVM RNA-class probability	0.557187
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19312632 120 + 22407834
UCCCCCGCGCUCGAAUAUCAAAUUAAGUGCCCAAUGCUAUGACAGUUUUAAUGUCUUUAGCACCAUAAAAGCCGUGCAGCCAUAAAAGAGGUGCUCACACACCGCAGAGCAGGGGAAAAU
(((((.(((((..(........)..)))))....(((((.((((.......))))..)))))........((..(((...(......).((((......)))))))..)).))))).... ( -33.10)
>DroSec_CAF1 5513 120 + 1
UCCCCCGCGCUCGAAUAUCAAAUUAAGUGCCCAAUGCUAUGACAGUUUUAAUGUCUUUAGCACCAUAAAAGCCGUGCAGCCAUAAAAGAGGUGCUCACACACCGCGGAGCAGGGGAAAAU
(((((.(((((..(........)..)))))....(((((.((((.......))))..)))))........((..(((...(......).((((......)))))))..)).))))).... ( -32.40)
>DroSim_CAF1 5996 120 + 1
UCCCCCGCGCUCGAAUAUCAAAUUAAGUGCCCAAUGCUAUGACAGUUUUAAUGUCUUUAGCACCAUAAAAGCCGUGCAGCCAUAAAAGAGGUGCUCACACACCGCGGAGCAGGGGAAAAU
(((((.(((((..(........)..)))))....(((((.((((.......))))..)))))........((..(((...(......).((((......)))))))..)).))))).... ( -32.40)
>DroEre_CAF1 4909 118 + 1
UCCCCC--GCUCGAAUAUCAAAUUAAGUGCCCAAUGCUAUGACAGUUUUAAUGUGUUUAGCACCAUAAAAGCCGUGCGGCCAUAAAAGAGGUGCUCACACACCGCAGAGCAUGGAAAAAU
(((...--(((((.....)........(((.....(((.....))).....(((((..((((((......(((....)))(......).)))))).)))))..)))))))..)))..... ( -26.20)
>DroYak_CAF1 5511 118 + 1
UCCCCC--GCUCGAAUAUCAAAUUAAGUGCCCAAUGCUAUGACAGUUUUAAUGUCUUUAGCACCAUAAAAGCCGGGCAGCCAUAAAAGUGGUGCUCACACACCGCAGAGCACAGGAAAAU
(((...--((((...............(((((..(((((.((((.......))))..))))).(......)..))))).........((((((......)))))).))))...))).... ( -34.20)
>consensus
UCCCCCGCGCUCGAAUAUCAAAUUAAGUGCCCAAUGCUAUGACAGUUUUAAUGUCUUUAGCACCAUAAAAGCCGUGCAGCCAUAAAAGAGGUGCUCACACACCGCAGAGCAGGGGAAAAU
(((((...(((((.....).......(((.....(((((.((((.......))))..)))))...........(.(((.((........))))).).)))......)))).))))).... (-24.86 = -25.70 +   0.84)

alignment

secondary structure

dotplot

Window 9

Location	19,312,632 – 19,312,752
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.91
Mean single sequence MFE	-38.00
Consensus MFE	-32.76
Energy contribution	-32.68
Covariance contribution	-0.08
Combinations/Pair	1.09
Mean z-score	-1.75
Structure conservation index	0.86
SVM decision value	1.31
SVM RNA-class probability	0.940692
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19312632 120 - 22407834
AUUUUCCCCUGCUCUGCGGUGUGUGAGCACCUCUUUUAUGGCUGCACGGCUUUUAUGGUGCUAAAGACAUUAAAACUGUCAUAGCAUUGGGCACUUAAUUUGAUAUUCGAGCGCGGGGGA
....((((((((..(((...((((.((((((........((((....)))).....))))))...((((.......))))...))))...))).....((((.....)))).)))))))) ( -37.72)
>DroSec_CAF1 5513 120 - 1
AUUUUCCCCUGCUCCGCGGUGUGUGAGCACCUCUUUUAUGGCUGCACGGCUUUUAUGGUGCUAAAGACAUUAAAACUGUCAUAGCAUUGGGCACUUAAUUUGAUAUUCGAGCGCGGGGGA
....((((((((.((.((((((...((((((........((((....)))).....))))))...((((.......))))...)))))))).......((((.....)))).)))))))) ( -39.32)
>DroSim_CAF1 5996 120 - 1
AUUUUCCCCUGCUCCGCGGUGUGUGAGCACCUCUUUUAUGGCUGCACGGCUUUUAUGGUGCUAAAGACAUUAAAACUGUCAUAGCAUUGGGCACUUAAUUUGAUAUUCGAGCGCGGGGGA
....((((((((.((.((((((...((((((........((((....)))).....))))))...((((.......))))...)))))))).......((((.....)))).)))))))) ( -39.32)
>DroEre_CAF1 4909 118 - 1
AUUUUUCCAUGCUCUGCGGUGUGUGAGCACCUCUUUUAUGGCCGCACGGCUUUUAUGGUGCUAAACACAUUAAAACUGUCAUAGCAUUGGGCACUUAAUUUGAUAUUCGAGC--GGGGGA
...(..((.(((((...(((((((.((((((........((((....)))).....))))))..))))))).....(((((....(((((....))))).)))))...))))--)))..) ( -35.62)
>DroYak_CAF1 5511 118 - 1
AUUUUCCUGUGCUCUGCGGUGUGUGAGCACCACUUUUAUGGCUGCCCGGCUUUUAUGGUGCUAAAGACAUUAAAACUGUCAUAGCAUUGGGCACUUAAUUUGAUAUUCGAGC--GGGGGA
....((((.(((((...(((((....))))).......(((.(((((((((.....)))((((..((((.......)))).))))..)))))).)))...........))))--).)))) ( -38.00)
>consensus
AUUUUCCCCUGCUCUGCGGUGUGUGAGCACCUCUUUUAUGGCUGCACGGCUUUUAUGGUGCUAAAGACAUUAAAACUGUCAUAGCAUUGGGCACUUAAUUUGAUAUUCGAGCGCGGGGGA
..((((((.(((((.(((((((((.((((((........((((....)))).....))))))....))))....)))))....((.....))................))))).)))))) (-32.76 = -32.68 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:29 2006