Locus 273

Sequence ID	2R_DroMel_CAF1
Location	1,670,048 – 1,670,147
Length	99
Max. P	0.998986

overview

Window 9

Location	1,670,048 – 1,670,147
Length	99
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	72.29
Mean single sequence MFE	-34.08
Consensus MFE	-30.59
Energy contribution	-30.40
Covariance contribution	-0.19
Combinations/Pair	1.05
Mean z-score	-2.09
Structure conservation index	0.90
SVM decision value	3.31
SVM RNA-class probability	0.998986
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1670048 99 + 20766785
ACUAAUAUAAAAAUAUAACACGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCCUCUUG---------------------
.....................((((..((((((.......))))))....((((((.....)))))).((((........)))).....))))......--------------------- ( -30.60)
>DroPse_CAF1 86549 118 + 1
-CCGAC-GAAAAAGAUAUUUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAAUGUAGCCAGGGCUGGCCAAUAGAUC
-.((..-((((......))))((....((((((.......))))))....((((((.....)))))).)).....))..((.(((((((.(((......)))..)))))))))....... ( -39.10)
>DroSec_CAF1 55515 86 + 1
-------------NNNNNNNNGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAUGAGUCUCAUGCUUUAUCGACUGAGCUAGCCGGGCCACUUA---------------------
-------------........((((..((((((.......))))))....((((((.....)))))).((((........)))).....))))......--------------------- ( -28.00)
>DroPer_CAF1 80509 118 + 1
-CCAAC-GAAAAAGAUAUUUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAAUAUAGCCAGGGUUGGCCAAUAGAUC
-(((((-((((......))))((((..((((((.......))))))....((((((.....)))))).((((........)))).....))))............))))).......... ( -38.60)
>consensus
_CCAAC_GAAAAAGAUAUUUCGCCCAACGUGGGGCUCGAACCCACGACCCUGAGAUUAAGAGUCUCAUGCUCUACCGACUGAGCUAGCCGGGCAACUUA_____________________
.....................((((..((((((.......))))))....((((((.....)))))).((((........)))).....))))........................... (-30.59 = -30.40 +  -0.19)

alignment

secondary structure

dotplot

Window 0

Location	1,670,048 – 1,670,147
Length	99
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	72.29
Mean single sequence MFE	-35.88
Consensus MFE	-30.25
Energy contribution	-30.75
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-1.24
Structure conservation index	0.84
SVM decision value	1.28
SVM RNA-class probability	0.939409
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1670048 99 - 20766785
---------------------CAAGAGGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGUGUUAUAUUUUUAUAUUAGU
---------------------.((.(.(((((((..((((........))))....((((((.......))))))(((((.......)))))))))))).).))................ ( -33.80)
>DroPse_CAF1 86549 118 - 1
GAUCUAUUGGCCAGCCCUGGCUACAUUGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGAAAUAUCUUUUUC-GUCGG-
(((....((((((....))))))..(((((((((..((((........))))....((((((.......))))))(((((.......))))))))))))))............-)))..- ( -42.80)
>DroSec_CAF1 55515 86 - 1
---------------------UAAGUGGCCCGGCUAGCUCAGUCGAUAAAGCAUGAGACUCAUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCNNNNNNNN-------------
---------------------......(((((((..(((..........)))....(((((.........)))))(((((.......))))))))))))........------------- ( -25.20)
>DroPer_CAF1 80509 118 - 1
GAUCUAUUGGCCAACCCUGGCUAUAUUGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGAAAUAUCUUUUUC-GUUGG-
.......((((((....))))))....(((((((..((((........))))....((((((.......))))))(((((.......))))))))))))((((......))))-.....- ( -41.70)
>consensus
_____________________UAAAUGGCCCGGCUAGCUCAGUCGGUAGAGCAUGAGACUCUUAAUCUCAGGGUCGUGGGUUCGAGCCCCACGUUGGGCGAAAUAUCUUUUUC_GUUGG_
...........................(((((((..((((........))))....((((((.......))))))(((((.......))))))))))))..................... (-30.25 = -30.75 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:16 2006