Locus 4561

Sequence ID	2L_DroMel_CAF1
Location	13,068,487 – 13,068,641
Length	154
Max. P	0.642467

overview

Window 5

Location	13,068,487 – 13,068,580
Length	93
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	82.37
Mean single sequence MFE	-26.02
Consensus MFE	-19.69
Energy contribution	-19.63
Covariance contribution	-0.05
Combinations/Pair	1.14
Mean z-score	-1.56
Structure conservation index	0.76
SVM decision value	0.23
SVM RNA-class probability	0.642467
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13068487 93 - 22407834
ACUAAGUUGGGCACUGAAGUGCUCUGCGCUUAUGUCUCAUUAGAGAUACUUUGCCGGCGAAUCAUCGUCGUUGGCGUGGAUGCUUUGCUACUU-------
..(((((.((((((....))))))...)))))((((((....))))))....((((((((.......))))))))((((........))))..------- ( -31.70)
>DroPse_CAF1 65828 75 - 1
ACUUAGUUGAGCAUUGAAGUGCUCUGUGCUUAUGUCUCAUUAGAGAUACUUUACCAGCGAAUCAUCG------UCGUAGUC-------------------
....(((.((((((....))))))...)))..((((((....))))))..((((..((((....)))------).))))..------------------- ( -17.70)
>DroSim_CAF1 45752 93 - 1
ACUAAGUUGGGCACUGAAGUGCUCUGCGCUUAUGUCUCAUUAGAGAUACUUUGCCGGCGAAUCAUCGUCGUUGGCGUGGAUGCUUUGCUACUU-------
..(((((.((((((....))))))...)))))((((((....))))))....((((((((.......))))))))((((........))))..------- ( -31.70)
>DroEre_CAF1 49945 93 - 1
ACUAAGUUGGGCACUGAAGUGCUCUGCGCUUAUGUCUCAUUAGAGAUACUUUGCCGGCGAAUCAUCGUCGUUGUCGUGGAUGCUUUGCUACUU-------
.....((.((((((....)))))).))((...((((((....))))))....)).((((((.((((..((....))..)))).))))))....------- ( -29.00)
>DroYak_CAF1 49714 100 - 1
ACUAAGUUGGGCACUGAAGUGCUCUGCGCUUAUGUCUCAUUAGAGAUACUUUGCCGGCGAAUCAUCGUCGUUGUCGUGGAUGCUUUGCUACUUUGCUACU
.....((.((((((....)))))).))((...((((((....))))))....)).((((((.((((..((....))..)))).))))))........... ( -29.00)
>DroPer_CAF1 62601 81 - 1
ACUUAGUUGAGCAUUGAAGUGCUCUGUGCUUAUGUCUCAUUAGAGAUACUUUACCAGCGAAUCAUCAUCGUAGUCGUAGUC-------------------
....(((.((((((....))))))...)))..((((((....))))))........((((..(......)...))))....------------------- ( -17.00)
>consensus
ACUAAGUUGGGCACUGAAGUGCUCUGCGCUUAUGUCUCAUUAGAGAUACUUUGCCGGCGAAUCAUCGUCGUUGUCGUGGAUGCUUUGCUACUU_______
........((((((....))))))..(((...((((((....))))))......((((((....)))))).....)))...................... (-19.69 = -19.63 +  -0.05)

alignment

secondary structure

dotplot

Window 6

Location	13,068,550 – 13,068,641
Length	91
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	79.58
Mean single sequence MFE	-26.57
Consensus MFE	-15.86
Energy contribution	-16.12
Covariance contribution	0.25
Combinations/Pair	1.21
Mean z-score	-1.51
Structure conservation index	0.60
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13068550 91 - 22407834
GUAUUAAGAAUAGAG-AGAAGGAGAGUGCCCUC----------------AGAAUCCGAGAAUC--UGAGAGAGAUGUCCAACUAAGUUGGGCACUGAAGUGCUCUGCGCU
...............-....(.((((..(.(((----------------(((.((...)).))--))))..((.((((((((...))))))))))...)..)))).)... ( -28.30)
>DroSec_CAF1 50061 91 - 1
GUAUUAAGAAUAGAA-AGCAGGGGAGUGCCCCC----------------AGAAGCCGAGAAUC--UGAGAGAGAUGUCCAACUAAGUUGGGCACUGAAGUGCUCUGCGCU
...............-(((.((((.....))))----------------....((.(((...(--(.....((.((((((((...))))))))))..))..))).))))) ( -26.80)
>DroSim_CAF1 45815 91 - 1
GUAUUAAGAAUAGAG-AGAAGGAGAGUGCCCCC----------------AGAAUCUGAGAAUC--UGAGAGAGAUGUCCAACUAAGUUGGGCACUGAAGUGCUCUGCGCU
...............-....(.((((..(...(----------------((..(((.((...)--).)))....((((((((...)))))))))))..)..)))).)... ( -24.40)
>DroEre_CAF1 50008 96 - 1
GUAUUAAGAUUAGAG-A---GGAGAGUGCCCCCGGAAU--------CCGAGAAUCCGAGAAUC--CGAGAGAGAUGUCCAACUAAGUUGGGCACUGAAGUGCUCUGCGCU
.............((-.---(.((((..(...((((.(--------(((......)).)).))--))....((.((((((((...))))))))))...)..)))).).)) ( -29.20)
>DroYak_CAF1 49784 104 - 1
GUAUUAAGAAUUGAG-A---GGAGAGUGCCCCCUGAACUCGAGAACUCGAGAAUCCGAGAAUC--CGAGAGAGAUGUCCAACUAAGUUGGGCACUGAAGUGCUCUGCGCU
.............((-.---(.((((..(........((((.((.((((......))))..))--))))..((.((((((((...))))))))))...)..)))).).)) ( -31.20)
>DroPer_CAF1 62652 83 - 1
GUAUCAAAAAAAGAGCAGUAGGGGC-------------------------GAAG--GAGGUUCGGCGAGAGAGAUGUCCAACUUAGUUGAGCAUUGAAGUGCUCUGUGCU
((((.......((((((.(...(.(-------------------------(((.--....)))).)......((((..((((...))))..))))..).)))))))))). ( -19.51)
>consensus
GUAUUAAGAAUAGAG_AG_AGGAGAGUGCCCCC________________AGAAUCCGAGAAUC__CGAGAGAGAUGUCCAACUAAGUUGGGCACUGAAGUGCUCUGCGCU
....................(.(((((((....................................(....)((.((((((((...))))))))))...))))))).)... (-15.86 = -16.12 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:03 2006