Locus 1451

Sequence ID	2R_DroMel_CAF1
Location	5,543,066 – 5,543,251
Length	185
Max. P	0.825979

overview

Window 9

Location	5,543,066 – 5,543,181
Length	115
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	77.27
Mean single sequence MFE	-29.34
Consensus MFE	-18.97
Energy contribution	-18.42
Covariance contribution	-0.55
Combinations/Pair	1.28
Mean z-score	-1.58
Structure conservation index	0.65
SVM decision value	0.70
SVM RNA-class probability	0.825979
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5543066 115 - 20766785
UUCAUUGCCAUUAUGUUUGCCAUUAGUUUGGUGAGUUUAUUUGGCUACCACAUCUACCUUGUGCUGGUGAAUCGCACGACAUUGGGUAAGUACCUAAAGCCUGACUUA--UAAAUCA
.(((..((((.((..((..(((......)))..))..))..)))).........(((((.(((.(.(((.....))).)))).))))).............)))....--....... ( -23.90)
>DroVir_CAF1 29635 114 - 1
UUUAUAUCGAUCAUGUUUGCCAUUAGCUUGGUGAGCUUGUUCGGCUACCACAUCUACCUGGUGCUCGUCAAUCGCACCACAUUGGGUAAGCGA-GAAACUCUCACUUUA-UAUACC-
.......(((.((.(((..(((......)))..))).)).)))((((((.((......((((((.........))))))...))))).)))((-(.....)))......-......- ( -32.60)
>DroPse_CAF1 5638 115 - 1
UUCAUAUCCAUCAUGUUUGCCAUUAGUUUGGUGAGCCUGUUUGGCUAUCACAUCUAUUUGGUUCUGGUCAAUCGCACCACUUUAGGUGAGUAG--AGAACCGGGCGUGAUUAAACUA
.........(((((((..((((.(((..((((.((((.....))))))))...)))..)))).(((((...((.((((......))))....)--)..))))))))))))....... ( -32.80)
>DroYak_CAF1 4373 115 - 1
UUUAUUGCUAUUAUGUUUGCCAUUAGUUUGGUGAGUUUGUUUGGCUACCACAUCUACCUUGUGCUAGUGAAUCGCACGACAUUGGGUAAGUACUUAAAGCCGGACUUA--UAAUUUA
.........((((((((..(((......)))..))...((((((((.......((((((.(((...(((.....)))..))).)))).)).......)))))))).))--))))... ( -27.14)
>DroMoj_CAF1 5705 106 - 1
UUCAUAUCGAUCAUGUUUGCCAUUAGCUUGGUGAGCUUAUUUGGAUACCACAUCUAUCUGGUGCUCGUCAACCGCACCACACUGGGUAAU------AUCUGUGA---AA-UAUACC-
((((((((((....(((..(((......)))..)))....)))).((((.((......((((((.........))))))...))))))..------...)))))---).-......- ( -26.80)
>DroPer_CAF1 5677 115 - 1
UUUAUAUCCAUCAUGUUUGCCAUUAGUUUGGUGAGCCUGUUUGGCUAUCACAUCUAUUUGGUUCUGGUCAAUCGCACCACUUUAGGUGAGUAG--AGAACCGGGCGUGAUUAAACUA
.........(((((((..((((.(((..((((.((((.....))))))))...)))..)))).(((((...((.((((......))))....)--)..))))))))))))....... ( -32.80)
>consensus
UUCAUAUCCAUCAUGUUUGCCAUUAGUUUGGUGAGCUUGUUUGGCUACCACAUCUACCUGGUGCUGGUCAAUCGCACCACAUUGGGUAAGUAC__AAAACCGGACUUAA_UAAACCA
.............((((((((..(((..((((.((((.....))))))))...)))..((((((.........)))))).....))))))))......................... (-18.97 = -18.42 +  -0.55)

alignment

secondary structure

dotplot

Window 0

Location	5,543,141 – 5,543,251
Length	110
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	80.42
Mean single sequence MFE	-32.97
Consensus MFE	-20.20
Energy contribution	-20.57
Covariance contribution	0.36
Combinations/Pair	1.27
Mean z-score	-1.72
Structure conservation index	0.61
SVM decision value	0.21
SVM RNA-class probability	0.637542
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5543141 110 - 20766785
UA---AUGGUUACUCGGCACAGGGACAGCUAAAUGCCAGUGGAAUGGGUCGUUUUCACAUCUUGUUCCUGUUCUUCAUUGCCAUUAUGUUUGCCAUUAGUUUGGUGAGUUUAU
((---(((((.....((.(((((((((((.....))..((((((........))))))....))))))))).)).....)))))))..((..(((......)))..))..... ( -33.90)
>DroVir_CAF1 29709 113 - 1
UGGUCUUGGUGUCUUGGAACAGGGCCAGCCAACCGGCAACGGCAUGGGACGCUUUCACAUACUCUUUCUGUUCUUUAUAUCGAUCAUGUUUGCCAUUAGCUUGGUGAGCUUGU
(((((..(((((...(((((((((((.(((....)))...)))((((((....))).)))......))))))))..)))))))))).(((..(((......)))..))).... ( -34.40)
>DroPse_CAF1 5713 110 - 1
UA---AUGGUUACUCGGAACAGGGCCAAUUGAACGGCAGUGGCGUGGGCCGUUUUCACAUCUUGUUCCUGUUCUUCAUAUCCAUCAUGUUUGCCAUUAGUUUGGUGAGCCUGU
..---((((......((((((((..(((..(((((((..........))))))).......)))..))))))))......))))((.(((..(((......)))..))).)). ( -35.90)
>DroWil_CAF1 12129 104 - 1
------UGACUACUUGGAACAGGGUCAACUGAAUGGC---GGCGUGGGUCGAUUUCAUAUAUUAUUCCUAUUCUUUAUUGCCAUUAUGUUUGCCAUUAGCUUGGUCAGUCUAU
------.(((((((.((.....(((.(((..((((((---((.(((((..(((.......)))...))))).)).....))))))..))).))).....)).))).))))... ( -25.20)
>DroAna_CAF1 5056 110 - 1
UA---AUGGUUACUCGGCACAGGGCCAGUUGAACGGCGGCGGAAUGGGUCGAUUCCACAUCUUGUUCCUGUUCUUUAUUGCCAUUAUGUUUGCCAUAAGUUUGGUGAGUUUGU
((---(((((.(((.(((.....)))))).((((((..(((..(((((......)).)))..)))..))))))......)))))))..((..(((......)))..))..... ( -32.50)
>DroPer_CAF1 5752 110 - 1
UA---AUGGUUACUCGGAACAGGGCCAAUUGAACGGCAGUGGCGUGGGCCGUUUUCACAUCUUGUUCCUGUUCUUUAUAUCCAUCAUGUUUGCCAUUAGUUUGGUGAGCCUGU
..---((((......((((((((..(((..(((((((..........))))))).......)))..))))))))......))))((.(((..(((......)))..))).)). ( -35.90)
>consensus
UA___AUGGUUACUCGGAACAGGGCCAACUGAACGGCAGUGGCAUGGGUCGUUUUCACAUCUUGUUCCUGUUCUUUAUAGCCAUCAUGUUUGCCAUUAGUUUGGUGAGCCUGU
......(((......(((((((((((........)))..((((....))))...............))))))))......))).((.(((..(((......)))..))).)). (-20.20 = -20.57 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:13 2006