Locus 795

Sequence ID	2R_DroMel_CAF1
Location	3,778,331 – 3,778,435
Length	104
Max. P	0.767551

overview

Window 2

Location	3,778,331 – 3,778,435
Length	104
Sequences	6
Columns	116
Reading direction	forward
Mean pairwise identity	75.29
Mean single sequence MFE	-37.35
Consensus MFE	-24.95
Energy contribution	-26.48
Covariance contribution	1.53
Combinations/Pair	1.29
Mean z-score	-1.28
Structure conservation index	0.67
SVM decision value	0.52
SVM RNA-class probability	0.767551
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3778331 104 + 20766785
------------ACAAACUAUGCAUAUUGCUUACCCGUGCUCAAGUCAUGCUCCCCGACCAGCGCCAAUAGGCGACUGGCCACUGGUUGGCGAGCGGUACAGUGGGCAGCGGUCAU
------------.........((.....))....(((((((((.....(((((.((((((((.((((...(....)))))..)))))))).)))))......)))))).))).... ( -40.40)
>DroSec_CAF1 34471 104 + 1
------------AUAAACUGUGCAAAUUGCUUACCCGUGCUCAAGUCAUGCUCCCCGACCAACGCCAAUAGGCGACUGGCCACUGGUUGGCGAGCGGUACAGUGGGCAGCGGUCAU
------------.........((.....))....(((((((((.....(((((.(((((((..((((...(....)))))...))))))).)))))......)))))).))).... ( -37.50)
>DroSim_CAF1 56945 104 + 1
------------ACAAACUAUGCAUAUUGCUUACCCGUGCUCAAGUCAUGCUGACCGACCAGCGCCAAUAGGCGACUGGCCACUGGUUGGUGAGCGGUACAGUGGGCAGCGGUCAU
------------.........((.....))....(((((((((.....((((.(((((((((.((((...(....)))))..))))))))).))))......)))))).))).... ( -41.10)
>DroEre_CAF1 36299 116 + 1
AUUCCAAAUACAACACACUGUGCAAAUUGCUCACCCGUGCUCAAGUCAUGCUCCCCGACCAGCGCCAAUAGGCGACUGGCCACUGGUUGGCGAGCGGUACAGUGGGCAGCGGUCAU
...............((((((((...(((((.(((.(((..((.(((..(((........)))(((....))))))))..))).))).)))))...))))))))(((....))).. ( -42.10)
>DroAna_CAF1 33158 111 + 1
--UCCUAUUAU--UAAGGUCU-UUAAGGACUUACCCGUACUGAGAUCAUGUUCUCCCACCAAGGCCAAUAAGCGACUGGCCACCGGCUGCCGGGCAGUACAGUGAGCUGCAGUCAU
--.........--...(((((-(...((......)).....((((......)))).....)))))).......((((((((((..(((((...)))))...))).))..))))).. ( -29.90)
>DroPer_CAF1 27815 95 + 1
------------AUGGAC---------CACUCACCCGUGCUGAGAUCGUGCUCUCCCACGAGCGCCAGCAGACGACUGGCCACCGGCUGACGGACCGUGCAGUGGGCAGCUGUCAC
------------((((..---------.......))))((((.....((((((......)))))))))).((((.(((.((((((((.....).)))....)))).))).)))).. ( -33.10)
>consensus
____________ACAAACUAUGCAAAUUGCUUACCCGUGCUCAAGUCAUGCUCCCCGACCAGCGCCAAUAGGCGACUGGCCACUGGUUGGCGAGCGGUACAGUGGGCAGCGGUCAU
...........................(((((((..(((((........((((.((((((((.((((.........))))..)))))))).))))))))).)))))))........ (-24.95 = -26.48 +   1.53)

alignment

secondary structure

dotplot

Window 3

Location	3,778,331 – 3,778,435
Length	104
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	75.29
Mean single sequence MFE	-38.80
Consensus MFE	-27.94
Energy contribution	-27.78
Covariance contribution	-0.16
Combinations/Pair	1.37
Mean z-score	-1.00
Structure conservation index	0.72
SVM decision value	0.36
SVM RNA-class probability	0.704355
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3778331 104 - 20766785
AUGACCGCUGCCCACUGUACCGCUCGCCAACCAGUGGCCAGUCGCCUAUUGGCGCUGGUCGGGGAGCAUGACUUGAGCACGGGUAAGCAAUAUGCAUAGUUUGU------------
....(((.(((.((..((...((((.((.(((((((.(((((.....)))))))))))).)).))))...)).)).))))))....((.....)).........------------ ( -40.00)
>DroSec_CAF1 34471 104 - 1
AUGACCGCUGCCCACUGUACCGCUCGCCAACCAGUGGCCAGUCGCCUAUUGGCGUUGGUCGGGGAGCAUGACUUGAGCACGGGUAAGCAAUUUGCACAGUUUAU------------
....(((.(((.((..((...((((.((.(....)((((((.((((....)))))))))))).))))...)).)).))))))((((((..........))))))------------ ( -35.90)
>DroSim_CAF1 56945 104 - 1
AUGACCGCUGCCCACUGUACCGCUCACCAACCAGUGGCCAGUCGCCUAUUGGCGCUGGUCGGUCAGCAUGACUUGAGCACGGGUAAGCAAUAUGCAUAGUUUGU------------
....(((.(((.((..((...(((.(((.(((((((.(((((.....)))))))))))).))).)))...)).)).))))))....((.....)).........------------ ( -36.40)
>DroEre_CAF1 36299 116 - 1
AUGACCGCUGCCCACUGUACCGCUCGCCAACCAGUGGCCAGUCGCCUAUUGGCGCUGGUCGGGGAGCAUGACUUGAGCACGGGUGAGCAAUUUGCACAGUGUGUUGUAUUUGGAAU
(..(((((((.....((((..(((((((..((..(((((((.((((....))))))))))).)).((.........))...)))))))....))))))))).))..)......... ( -43.80)
>DroAna_CAF1 33158 111 - 1
AUGACUGCAGCUCACUGUACUGCCCGGCAGCCGGUGGCCAGUCGCUUAUUGGCCUUGGUGGGAGAACAUGAUCUCAGUACGGGUAAGUCCUUAA-AGACCUUA--AUAAUAGGA--
..((((((((....))))..((((((((.(((((.(((((((.....))))))))))))..((((......)))).)).)))))))))).....-...(((..--.....))).-- ( -36.80)
>DroPer_CAF1 27815 95 - 1
GUGACAGCUGCCCACUGCACGGUCCGUCAGCCGGUGGCCAGUCGUCUGCUGGCGCUCGUGGGAGAGCACGAUCUCAGCACGGGUGAGUG---------GUCCAU------------
(((.(((.......))))))((.(((((.(((((..(.(....).)..)))))(((((((.((((......))))..))))))))).))---------).))..------------ ( -39.90)
>consensus
AUGACCGCUGCCCACUGUACCGCUCGCCAACCAGUGGCCAGUCGCCUAUUGGCGCUGGUCGGGGAGCAUGACUUGAGCACGGGUAAGCAAUUUGCACAGUUUAU____________
......(((((((........((((.((.(((((((.(((((.....)))))))))))).)).)))).((.......)).)))).)))............................ (-27.94 = -27.78 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:34 2006