Locus 1583

Sequence ID	3R_DroMel_CAF1
Location	4,536,916 – 4,537,017
Length	101
Max. P	0.996454

overview

Window 3

Location	4,536,916 – 4,537,017
Length	101
Sequences	5
Columns	116
Reading direction	forward
Mean pairwise identity	72.67
Mean single sequence MFE	-12.84
Consensus MFE	-3.56
Energy contribution	-4.20
Covariance contribution	0.64
Combinations/Pair	1.09
Mean z-score	-1.68
Structure conservation index	0.28
SVM decision value	0.10
SVM RNA-class probability	0.585050
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4536916 101 + 27905053
AUUCCACUCAUCAAGAUACGGACAUGC----------A--UAUGCAUAUACUUACACUCU---CGUAAAUAUUUGCAAUUAAAUAUGCCAAAAAUUCACCGAAAAUAUACAAAUAC
..(((..((.....))...)))...((----------(--((((((.(((.((((.....---.)))).))).))))......)))))............................ ( -11.80)
>DroSim_CAF1 26824 109 + 1
AUUCCACUCAUCGAGAUACGCACAUGCUUACAUAC--A--UCUGCAUAUACUUACACUCU---CGUAAAUAUUUGCAAUUAAAUAUGCCAAAAAUUCACCGAAAAUAUACAAAUAC
..........(((......((....))...((((.--.--..((((.(((.((((.....---.)))).))).))))......))))............))).............. ( -11.10)
>DroEre_CAF1 36476 108 + 1
AUUCCACUCAUCGGGAUACUCACAUACAUACAUAC--G--UAUGCAUAUAGUUACACUCU---CGUAAAUAUUUGCAAUUAAAUAUGCCAA-AAUUCACAGAAAAUAUACAAAUAC
............((.(((.........((((....--)--)))(((.(((.((((.....---.)))).))).))).......))).))..-........................ ( -12.30)
>DroAna_CAF1 32121 93 + 1
AUUCCAUUCUGUG-----------UGUGUGUACGC--C--UCUGCAUCUACUUCCACUGU---CGUAAAUAUUUGCAAUUAAAUAUGCCAAAUAUUUACCAGA-A--UACA--UAC
.....((((((.(-----------((.(((((...--.--..))))).))).........---.(((((((((((((........)).)))))))))))))))-)--)...--... ( -20.10)
>DroPer_CAF1 36585 114 + 1
GUUCCACUCAUAUAUACAUACAUAUGGAUACGUAUCUAUCUACAUAUAUACUUACCCGCUCGUCGUAAAUAUUUGCAAUUAAAUAUGCCAAAAAUACACCCGCAA--UACAAACAC
(((......((((((..(((.(((((....))))).)))....))))))........((..((.(((.......(((........)))......)))))..))..--....))).. (  -8.92)
>consensus
AUUCCACUCAUCGAGAUACGCACAUGCAUACAUAC__A__UAUGCAUAUACUUACACUCU___CGUAAAUAUUUGCAAUUAAAUAUGCCAAAAAUUCACCGAAAAUAUACAAAUAC
..........................................((((.(((.((((.........)))).))).))))....................................... ( -3.56 =  -4.20 +   0.64)

alignment

secondary structure

dotplot

Window 4

Location	4,536,916 – 4,537,017
Length	101
Sequences	5
Columns	116
Reading direction	reverse
Mean pairwise identity	72.67
Mean single sequence MFE	-26.22
Consensus MFE	-7.22
Energy contribution	-9.38
Covariance contribution	2.16
Combinations/Pair	1.17
Mean z-score	-2.56
Structure conservation index	0.28
SVM decision value	2.70
SVM RNA-class probability	0.996454
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4536916 101 - 27905053
GUAUUUGUAUAUUUUCGGUGAAUUUUUGGCAUAUUUAAUUGCAAAUAUUUACG---AGAGUGUAAGUAUAUGCAUA--U----------GCAUGUCCGUAUCUUGAUGAGUGGAAU
.......((((((((((.(((((.((((.((........)))))).)))))))---))))))))....(((((...--.----------)))))(((...((.....))..))).. ( -22.50)
>DroSim_CAF1 26824 109 - 1
GUAUUUGUAUAUUUUCGGUGAAUUUUUGGCAUAUUUAAUUGCAAAUAUUUACG---AGAGUGUAAGUAUAUGCAGA--U--GUAUGUAAGCAUGUGCGUAUCUCGAUGAGUGGAAU
.(((((.((((((((((.(((((.((((.((........)))))).)))))))---))))))))((.(((((((.(--(--((......)))).)))))))))....))))).... ( -28.30)
>DroEre_CAF1 36476 108 - 1
GUAUUUGUAUAUUUUCUGUGAAUU-UUGGCAUAUUUAAUUGCAAAUAUUUACG---AGAGUGUAACUAUAUGCAUA--C--GUAUGUAUGUAUGUGAGUAUCCCGAUGAGUGGAAU
.......(((((((((.((((((.-...(((........)))....)))))))---))))))))((((((((((((--(--....)))))))))).))).((((.....).))).. ( -29.30)
>DroAna_CAF1 32121 93 - 1
GUA--UGUA--U-UCUGGUAAAUAUUUGGCAUAUUUAAUUGCAAAUAUUUACG---ACAGUGGAAGUAGAUGCAGA--G--GCGUACACACA-----------CACAGAAUGGAAU
...--(.((--(-(((((((((((((((.((........))))))))))))).---...(((...((..((((...--.--))))..)).))-----------).))))))).).. ( -26.50)
>DroPer_CAF1 36585 114 - 1
GUGUUUGUA--UUGCGGGUGUAUUUUUGGCAUAUUUAAUUGCAAAUAUUUACGACGAGCGGGUAAGUAUAUAUGUAGAUAGAUACGUAUCCAUAUGUAUGUAUAUAUGAGUGGAAC
((((((((.--(((((.(((((((....(((........)))...((((..(.....)..))))))))))).)))))))))))))...(((((.(((((....))))).))))).. ( -24.50)
>consensus
GUAUUUGUAUAUUUUCGGUGAAUUUUUGGCAUAUUUAAUUGCAAAUAUUUACG___AGAGUGUAAGUAUAUGCAUA__U__GUAUGUAUGCAUGUGCGUAUCUCGAUGAGUGGAAU
((((...((((((((..((((((.((((.((........)))))).))))))....)))))))).....))))........................................... ( -7.22 =  -9.38 +   2.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:09 2006