Locus 3635

Sequence ID	3R_DroMel_CAF1
Location	9,810,507 – 9,810,642
Length	135
Max. P	0.978400

overview

Window 5

Location	9,810,507 – 9,810,604
Length	97
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	81.27
Mean single sequence MFE	-37.80
Consensus MFE	-27.60
Energy contribution	-27.60
Covariance contribution	0.00
Combinations/Pair	1.27
Mean z-score	-1.35
Structure conservation index	0.73
SVM decision value	0.16
SVM RNA-class probability	0.609949
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9810507 97 - 27905053
ACUGGGUGGCCCCGCCAGAGUUCUGUGAUGAUGGGCGACUGCCAGAGACAUGUGUUGCUGGUUC-CUA--------------------UAUGCUCGUAGUUGGAUGGCUAAUGCCGCC
....((((((...((((.....((((((..(((((.....(((((..((....))..))))).)-)))--------------------)....)))))).....))))....)))))) ( -33.10)
>DroSec_CAF1 16841 97 - 1
GCUGGGUGGCCCCGCCAGAGUUCUGUGAUGAUGGGCGACUGCCAGCGACAUGUGUUGCUGGUUC-CUA--------------------UAUGCUCGUAGUUGGAUGGCUAAUGCCGCC
....((((((...((((.....((((((..(((((.....(((((((((....))))))))).)-)))--------------------)....)))))).....))))....)))))) ( -38.90)
>DroSim_CAF1 17394 97 - 1
GCUGGGUGGCCCCGCCAGAGUUCUGUGAUGAUGGGCGACUGCCAGCGACAUGUGUUGCUGGUUC-CUA--------------------UAUGCACGUAGUUGGAUGGCUAAUGCCGCC
....((((((...((((.....(((((...(((((.....(((((((((....))))))))).)-)))--------------------)...)))..)).....))))....)))))) ( -39.20)
>DroEre_CAF1 17885 117 - 1
GCUGGGUGGCCCCGCCAGAGUUUUGUGAUGAUGGGCGACUGCCAGCGACAUGUGUUGCUGGUUC-CUACAUACAUACACAUGUACAUAUAUACUCGUAGUUGGAUGGCUAAUGCCGUC
((((((((....)))).((((..(((((((.((((.....(((((((((....))))))))).)-))))))((((....)))).))))...)))).))))..((((((....)))))) ( -43.00)
>DroYak_CAF1 17899 112 - 1
GCUGGGUGGCCCCGCCAGAGUUUUGUGAUGAUGGGCGACUGCCAGCGACAUGUGUUGCUGGUUU-CUACAGA-GUACA----UAUAUGUAUACUCGUAGUUGGAUGGCUAAUGCCGCC
....((((((..((((...(((....)))....))))...(((((((((....)))))))))..-((((.((-(((.(----(....)).))))))))).............)))))) ( -38.70)
>DroAna_CAF1 17556 107 - 1
ACUGGGUGGGCCCGUCGGAGUUCUGUGAUGAUGGGC-CCUGCCAACGACAUGUGUUGCUGCCUUUGUA------UACA----UAUACAUACAUACAUAUGUAUAUUGCUAAUGCCACC
....(((((((((((((...........))))))))-)).((.....((((((((...((....((((------(...----.)))))..)).)))))))).....))....)))... ( -33.90)
>consensus
GCUGGGUGGCCCCGCCAGAGUUCUGUGAUGAUGGGCGACUGCCAGCGACAUGUGUUGCUGGUUC_CUA____________________UAUACUCGUAGUUGGAUGGCUAAUGCCGCC
....((((((...((((.....(((((.....((....))(((((((((....)))))))))................................))))).....))))....)))))) (-27.60 = -27.60 +   0.00)

alignment

secondary structure

dotplot

Window 6

Location	9,810,537 – 9,810,642
Length	105
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	91.47
Mean single sequence MFE	-39.52
Consensus MFE	-37.54
Energy contribution	-37.74
Covariance contribution	0.20
Combinations/Pair	1.06
Mean z-score	-1.57
Structure conservation index	0.95
SVM decision value	1.81
SVM RNA-class probability	0.978400
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9810537 105 - 27905053
CUAGGAGAGGAAACGCCGGCUGAAAGAACAAAUCUGCAACUGGGUGGCCCCGCCAGAGUUCUGUGAUGAUGGGCGACUGCCAGAGACAUGUGUUGCUGGUUCCUA------------
.(((((..(....)((((((.......(((..(((....((((((.((((..((((....))).).....)))).))..)))))))..)))...)))))))))))------------ ( -33.20)
>DroSec_CAF1 16871 105 - 1
CUAGAAGAGGAAACGCCGGCUGAAAGAACAAAUCUGCAGCUGGGUGGCCCCGCCAGAGUUCUGUGAUGAUGGGCGACUGCCAGCGACAUGUGUUGCUGGUUCCUA------------
.......((((....(((((((..(((.....))).)))))))((.((((..((((....))).).....)))).)).(((((((((....))))))))))))).------------ ( -42.80)
>DroSim_CAF1 17424 105 - 1
CUAGAAGAGGAAACGCCGGCUGAAAGAACAAAUCUGCAGCUGGGUGGCCCCGCCAGAGUUCUGUGAUGAUGGGCGACUGCCAGCGACAUGUGUUGCUGGUUCCUA------------
.......((((....(((((((..(((.....))).)))))))((.((((..((((....))).).....)))).)).(((((((((....))))))))))))).------------ ( -42.80)
>DroEre_CAF1 17923 117 - 1
CUAGGAGAGGAAACGCCGACUGAAAGAACAAAUCUGCAGCUGGGUGGCCCCGCCAGAGUUUUGUGAUGAUGGGCGACUGCCAGCGACAUGUGUUGCUGGUUCCUACAUACAUACACA
.(((((..((...((((.((((..(((.....))).))).).)))).)).((((...(((....)))....))))...(((((((((....))))))))))))))............ ( -37.50)
>DroYak_CAF1 17935 114 - 1
CUAGGAGAGGAAACGCCGGCUGAAAGAACAAAUCUGCAGCUGGGUGGCCCCGCCAGAGUUUUGUGAUGAUGGGCGACUGCCAGCGACAUGUGUUGCUGGUUUCUACAGA-GUACA--
...((.(.((..((.(((((((..(((.....))).)))))))))..)).).)).(..(((((((.....((....))(((((((((....)))))))))...))))))-)..).-- ( -41.30)
>consensus
CUAGGAGAGGAAACGCCGGCUGAAAGAACAAAUCUGCAGCUGGGUGGCCCCGCCAGAGUUCUGUGAUGAUGGGCGACUGCCAGCGACAUGUGUUGCUGGUUCCUA____________
.......((((....(((((((..(((.....))).)))))))((.((((..((((....))).).....)))).)).(((((((((....)))))))))))))............. (-37.54 = -37.74 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:13 2006