Locus 5526

Sequence ID	2R_DroMel_CAF1
Location	17,665,512 – 17,665,627
Length	115
Max. P	0.976371

overview

Window 8

Location	17,665,512 – 17,665,627
Length	115
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	90.14
Mean single sequence MFE	-31.00
Consensus MFE	-26.85
Energy contribution	-26.73
Covariance contribution	-0.13
Combinations/Pair	1.06
Mean z-score	-1.70
Structure conservation index	0.87
SVM decision value	0.67
SVM RNA-class probability	0.817345
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17665512 115 + 20766785
GUUUUAGUGUCGUGGAAUUUGUAGCUGGCUGUUGUGU-----UGUUUGCCUGACACACAAAAUCAUUGAGGUGUCAAAAGUAAGCGACAACAUCUACGAGACCACAUAUGUAUGUCUGUU
......((.(((((((.....((((.....))))(((-----(((((((.((((((.(((.....)))..))))))...))))))))))...))))))).)).((((....))))..... ( -32.30)
>DroSec_CAF1 18951 111 + 1
AUUUUAGUGUCGUGGAAUUUGUAGCUGGCUGUUGUGU-----UGUUUACCUGACACACAAAAUCAUUGAGGUGUCAAAAGUAAGCGACAAAAUCUACGAGACCACAUAU----GUCUGCU
......((.(((((((.....((((.....))))(((-----(((((((.((((((.(((.....)))..))))))...))))))))))...))))))).)).......----....... ( -32.10)
>DroEre_CAF1 19320 116 + 1
GUUUUAGUGUCGUGGAAUUUGUAGCUGGCUGUUGUAUUGCGUUGUUUGCCUAACACACAAAAUCAUUGAGGUGUCAAAAGUAAGCGACAACAUCUACGAGACCACAUA--U--ACAUAUU
......((((.((((..(((((((.((((.........))(((((((((...((((.(((.....)))..)))).....)))))))))..)).))))))).))))..)--)--))..... ( -29.20)
>DroYak_CAF1 31020 114 + 1
GUUUUAGUGUCGUGGAAUUUGUAGCUGGCUGUUGUGU----CUGUUUGCCUGACACACAAAAUCAUUGAGGUGUCAAAAGUAAGCGACAACAUCUACGAGACCCCAUAUGU--AUAUAUU
......((.(((((((.....((((.....))))(((----(.((((((.((((((.(((.....)))..))))))...))))))))))...))))))).)).........--....... ( -30.40)
>consensus
GUUUUAGUGUCGUGGAAUUUGUAGCUGGCUGUUGUGU_____UGUUUGCCUGACACACAAAAUCAUUGAGGUGUCAAAAGUAAGCGACAACAUCUACGAGACCACAUAU_U__AUAUAUU
......((.(((((((..((((.(((.(((...(((..........))).((((((.(((.....)))..))))))..))).))).))))..))))))).)).................. (-26.85 = -26.73 +  -0.13)

alignment

secondary structure

dotplot

Window 9

Location	17,665,512 – 17,665,627
Length	115
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	90.14
Mean single sequence MFE	-26.34
Consensus MFE	-25.52
Energy contribution	-25.39
Covariance contribution	-0.13
Combinations/Pair	1.07
Mean z-score	-1.97
Structure conservation index	0.97
SVM decision value	1.77
SVM RNA-class probability	0.976371
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17665512 115 - 20766785
AACAGACAUACAUAUGUGGUCUCGUAGAUGUUGUCGCUUACUUUUGACACCUCAAUGAUUUUGUGUGUCAGGCAAACA-----ACACAACAGCCAGCUACAAAUUCCACGACACUAAAAC
................((((.((((.((..((((.(((......((((((..(((.....))).))))))(((.....-----........)))))).))))..)).)))).)))).... ( -27.22)
>DroSec_CAF1 18951 111 - 1
AGCAGAC----AUAUGUGGUCUCGUAGAUUUUGUCGCUUACUUUUGACACCUCAAUGAUUUUGUGUGUCAGGUAAACA-----ACACAACAGCCAGCUACAAAUUCCACGACACUAAAAU
.......----.....((((.((((.((.(((((.(((......((((((..(((.....))).))))))(((.....-----........)))))).))))).)).)))).)))).... ( -27.22)
>DroEre_CAF1 19320 116 - 1
AAUAUGU--A--UAUGUGGUCUCGUAGAUGUUGUCGCUUACUUUUGACACCUCAAUGAUUUUGUGUGUUAGGCAAACAACGCAAUACAACAGCCAGCUACAAAUUCCACGACACUAAAAC
.......--.--....((((.((((.((..((((.(((......((((((..(((.....))).))))))(((..................)))))).))))..)).)))).)))).... ( -24.67)
>DroYak_CAF1 31020 114 - 1
AAUAUAU--ACAUAUGGGGUCUCGUAGAUGUUGUCGCUUACUUUUGACACCUCAAUGAUUUUGUGUGUCAGGCAAACAG----ACACAACAGCCAGCUACAAAUUCCACGACACUAAAAC
.......--........(((.((((.((..((((.(((......((((((..(((.....))).))))))(((......----........)))))).))))..)).)))).)))..... ( -26.24)
>consensus
AACAGAC__A_AUAUGUGGUCUCGUAGAUGUUGUCGCUUACUUUUGACACCUCAAUGAUUUUGUGUGUCAGGCAAACA_____ACACAACAGCCAGCUACAAAUUCCACGACACUAAAAC
................((((.((((.((..((((.(((......((((((..(((.....))).))))))(((..................)))))).))))..)).)))).)))).... (-25.52 = -25.39 +  -0.13)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:48 2006