Locus 2084

Sequence ID	2L_DroMel_CAF1
Location	5,608,428 – 5,608,534
Length	106
Max. P	0.967489

overview

Window 9

Location	5,608,428 – 5,608,534
Length	106
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	82.41
Mean single sequence MFE	-29.07
Consensus MFE	-20.82
Energy contribution	-21.38
Covariance contribution	0.56
Combinations/Pair	1.18
Mean z-score	-2.48
Structure conservation index	0.72
SVM decision value	1.61
SVM RNA-class probability	0.967489
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5608428 106 + 22407834
AG---GGGUGGCCCAACUGUACCGUGAGAAACGGAAAUAAAAGCUAUCAGCAAACUGAACCAGCAUGAG-AAGCAGCUCAAAGGUAAGUAGGGUCAGACCCUAAAAUAUU
((---((.((((((.(((.((((...................(((.((((....))))...))).((((-......))))..))))))).))))))..))))........ ( -32.90)
>DroSec_CAF1 52325 105 + 1
GGCGGGGGUGGUCCAACUGUACCGUGAGAAACGGAAAUAAAAGCUAUCAGCAAACUGAACCAGCAUGAAAAAGCAGCUCAAAGG-----AGGGUCAGACCCUAAAAUAUU
...(((..((..((..((...((((.....)))).......((((.((((....))))....((.(....).))))))...)).-----.))..))..)))......... ( -29.40)
>DroSim_CAF1 54113 105 + 1
GGCGAUGGUGGCCCAACUGUACCGUGAGAAACGGAAAUAAAAGCUAUCAGCAAACUGAGCCAGCAUGAAAAAGCAGCUCAAAGG-----AGGGUCAGACCCUAAAAUAUU
.((..(((((((.........((((.....))))........)))))))))....(((((..((.(....).)).)))))....-----((((.....))))........ ( -26.93)
>DroEre_CAF1 52638 88 + 1
-G---GGCUGGCCCAGCUGUACCGUGAGAAACGGAAAUAAAUGCCAUCAGCAAGCUGAACCAGCAUGAA-AGGCGGCUCAAAGUU----AGGG-------------UAUA
-.---.(((((..(((((...((((.....)))).......(((.....))))))))..))))).....-.....((((......----.)))-------------)... ( -26.40)
>DroYak_CAF1 52730 102 + 1
GG---GGUUGGCCCAGCUGUACCGUGAGAAACGGAAAUAAAAGCUAUCAGCAAACUGAACCGGCAUGGA-AAGCAGCUCAAACUU----UGGGUUAGAGCCUAAAAUAUU
.(---((....)))((((((.((((.....))))........(((.((((....))))...))).....-..)))))).....((----(((((....)))))))..... ( -29.70)
>consensus
GG___GGGUGGCCCAACUGUACCGUGAGAAACGGAAAUAAAAGCUAUCAGCAAACUGAACCAGCAUGAA_AAGCAGCUCAAAGGU____AGGGUCAGACCCUAAAAUAUU
.....(((((((((.......((((.....))))........(((.((((....))))....((........))))).............))))))..)))......... (-20.82 = -21.38 +   0.56)

alignment

secondary structure

dotplot

Window 0

Location	5,608,428 – 5,608,534
Length	106
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	82.41
Mean single sequence MFE	-25.60
Consensus MFE	-17.20
Energy contribution	-18.44
Covariance contribution	1.24
Combinations/Pair	1.17
Mean z-score	-1.63
Structure conservation index	0.67
SVM decision value	-0.00
SVM RNA-class probability	0.532908
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5608428 106 - 22407834
AAUAUUUUAGGGUCUGACCCUACUUACCUUUGAGCUGCUU-CUCAUGCUGGUUCAGUUUGCUGAUAGCUUUUAUUUCCGUUUCUCACGGUACAGUUGGGCCACCC---CU
........((((..((.(((.(((((((..((((..((..-.....((((..((((....))))))))..........))..)))).)))).))).))).)).))---)) ( -28.13)
>DroSec_CAF1 52325 105 - 1
AAUAUUUUAGGGUCUGACCCU-----CCUUUGAGCUGCUUUUUCAUGCUGGUUCAGUUUGCUGAUAGCUUUUAUUUCCGUUUCUCACGGUACAGUUGGACCACCCCCGCC
..........((((..((...-----((..((((..((........((((..((((....))))))))..........))..)))).))....))..))))......... ( -24.07)
>DroSim_CAF1 54113 105 - 1
AAUAUUUUAGGGUCUGACCCU-----CCUUUGAGCUGCUUUUUCAUGCUGGCUCAGUUUGCUGAUAGCUUUUAUUUCCGUUUCUCACGGUACAGUUGGGCCACCAUCGCC
..........((((..((...-----...(((((((((........)).)))))))...((.....))........((((.....))))....))..))))......... ( -24.90)
>DroEre_CAF1 52638 88 - 1
UAUA-------------CCCU----AACUUUGAGCCGCCU-UUCAUGCUGGUUCAGCUUGCUGAUGGCAUUUAUUUCCGUUUCUCACGGUACAGCUGGGCCAGCC---C-
....-------------....----.....((((......-)))).(((((((((((((((.....))).......((((.....))))...)))))))))))).---.- ( -26.50)
>DroYak_CAF1 52730 102 - 1
AAUAUUUUAGGCUCUAACCCA----AAGUUUGAGCUGCUU-UCCAUGCCGGUUCAGUUUGCUGAUAGCUUUUAUUUCCGUUUCUCACGGUACAGCUGGGCCAACC---CC
.........(((((.(((...----..))).)))))((..-.....)).(((((((((.((.....))........((((.....))))...)))))))))....---.. ( -24.40)
>consensus
AAUAUUUUAGGGUCUGACCCU____ACCUUUGAGCUGCUU_UUCAUGCUGGUUCAGUUUGCUGAUAGCUUUUAUUUCCGUUUCUCACGGUACAGUUGGGCCACCC___CC
..........((((((((...........(((((((((........)).)))))))...((.....))........((((.....))))....))))))))......... (-17.20 = -18.44 +   1.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:12 2006