Locus 4609

Sequence ID	X_DroMel_CAF1
Location	12,067,550 – 12,067,649
Length	99
Max. P	0.954344

overview

Window 7

Location	12,067,550 – 12,067,649
Length	99
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	80.77
Mean single sequence MFE	-33.18
Consensus MFE	-19.61
Energy contribution	-21.83
Covariance contribution	2.22
Combinations/Pair	1.06
Mean z-score	-3.23
Structure conservation index	0.59
SVM decision value	1.44
SVM RNA-class probability	0.954344
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12067550 99 + 22224390
--------------ACGAACCACCCACCAUCCGCACAUAAGUAAUUUGUGUGUGCUCGUAUGGGUCAGGUGGUUU-UUCGGUAGCCAGAAACUUGUUUAGUUUUCGGUUUGCCU
--------------..((((((((..(((((((((((((((...))))))))))...).))))....))))))))-...(((((((..(((((.....)))))..)).))))). ( -35.80)
>DroSec_CAF1 3430 99 + 1
--------------ACC-ACCACCCAACAUCCGCACAUAAGUAAUUUGUGUGUGCUCGUAUGGGUCAGGUGGUUUUUUUGGUAGCCAGAAACUUGUUUAGUUUUCGGUUUGCCU
--------------(((-((((((((((...((((((((((...))))))))))...)).)))))..))))))......(((((((..(((((.....)))))..)).))))). ( -37.90)
>DroSim_CAF1 3472 99 + 1
--------------ACC-ACCACCCACCAUCCGCACAUAAGUAAUUUGUGUGUGCUCGUAUGGGUCAGGUGGUUUUUUUGGUAGCCAGAAACUUGUUUAGUUUUCGGUUUGCCU
--------------(((-((((((((.....((((((((((...))))))))))......)))))..))))))......(((((((..(((((.....)))))..)).))))). ( -36.80)
>DroEre_CAF1 3288 112 + 1
GAACCACCCAUCGAACC-ACCACCCACCAUCCGCACAUAAGUAAUUUGUGUGUGCUCGUAUGGGUCAGGUGGUUU-UUCGGUAGCCAGAAACUUGUUUAGUUUUCGGUUUGCCU
............(((((-((((((((.....((((((((((...))))))))))......)))))..))))))))-...(((((((..(((((.....)))))..)).))))). ( -39.60)
>DroYak_CAF1 3049 88 + 1
-------------------------ACCAUCCGCACAUAAGUAAUUUGUGUGUGCUCGUAUGGGUCAGGUGGUUU-UUCAGUAGCCAAAAACUUGUUUAGUUAACGGUUUGCCU
-------------------------.(((((((((((((((...))))))))))...).))))...((((((((.-......))))..(((((.(((.....)))))))))))) ( -20.70)
>DroAna_CAF1 3278 81 + 1
-------------------CCACCCACUAG--GCGUAUACGUAAUUUGU--GUACUCGUGUGGGUCAGGUAGCC----------CCAGAAACUUGUUUAGUUUUCGGUUUGGCU
-------------------((((((((.(.--(.(((((((.....)))--)))).).)))))))..)).((((----------((..(((((.....)))))..))...)))) ( -28.30)
>consensus
______________ACC_ACCACCCACCAUCCGCACAUAAGUAAUUUGUGUGUGCUCGUAUGGGUCAGGUGGUUU_UUCGGUAGCCAGAAACUUGUUUAGUUUUCGGUUUGCCU
.......................(((((....(((((((((...)))))))))((((....))))..))))).......(((((((.((((((.....)))))).)).))))). (-19.61 = -21.83 +   2.22)

alignment

secondary structure

dotplot

Window 8

Location	12,067,550 – 12,067,649
Length	99
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	80.77
Mean single sequence MFE	-26.30
Consensus MFE	-15.34
Energy contribution	-17.59
Covariance contribution	2.25
Combinations/Pair	1.08
Mean z-score	-2.09
Structure conservation index	0.58
SVM decision value	0.39
SVM RNA-class probability	0.717616
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12067550 99 - 22224390
AGGCAAACCGAAAACUAAACAAGUUUCUGGCUACCGAA-AAACCACCUGACCCAUACGAGCACACACAAAUUACUUAUGUGCGGAUGGUGGGUGGUUCGU--------------
.((....(((.(((((.....))))).)))...))...-.((((((((...((((....(((((.............)))))..)))).))))))))...-------------- ( -27.22)
>DroSec_CAF1 3430 99 - 1
AGGCAAACCGAAAACUAAACAAGUUUCUGGCUACCAAAAAAACCACCUGACCCAUACGAGCACACACAAAUUACUUAUGUGCGGAUGUUGGGUGGU-GGU--------------
.((....(((.(((((.....))))).)))...))......((((((..(((((.(((.(((((.............)))))...)))))))))))-)))-------------- ( -28.52)
>DroSim_CAF1 3472 99 - 1
AGGCAAACCGAAAACUAAACAAGUUUCUGGCUACCAAAAAAACCACCUGACCCAUACGAGCACACACAAAUUACUUAUGUGCGGAUGGUGGGUGGU-GGU--------------
.((....(((.(((((.....))))).)))...))......((((((..((((((....(((((.............))))).....)))))))))-)))-------------- ( -30.12)
>DroEre_CAF1 3288 112 - 1
AGGCAAACCGAAAACUAAACAAGUUUCUGGCUACCGAA-AAACCACCUGACCCAUACGAGCACACACAAAUUACUUAUGUGCGGAUGGUGGGUGGU-GGUUCGAUGGGUGGUUC
.......(((.(((((.....))))).)))(((((.(.-.(((((((..((((((....(((((.............))))).....)))))))))-))))...).)))))... ( -36.32)
>DroYak_CAF1 3049 88 - 1
AGGCAAACCGUUAACUAAACAAGUUUUUGGCUACUGAA-AAACCACCUGACCCAUACGAGCACACACAAAUUACUUAUGUGCGGAUGGU-------------------------
(((....(((..((((.....))))..)))....((..-....)))))...((((....(((((.............)))))..)))).------------------------- ( -14.12)
>DroAna_CAF1 3278 81 - 1
AGCCAAACCGAAAACUAAACAAGUUUCUGG----------GGCUACCUGACCCACACGAGUAC--ACAAAUUACGUAUACGC--CUAGUGGGUGG-------------------
((((...(((.(((((.....))))).)))----------)))).....((((((.((.((((--.........)))).)).--...))))))..------------------- ( -21.50)
>consensus
AGGCAAACCGAAAACUAAACAAGUUUCUGGCUACCGAA_AAACCACCUGACCCAUACGAGCACACACAAAUUACUUAUGUGCGGAUGGUGGGUGGU_GGU______________
.......(((.(((((.....))))).)))...........(((((((...((((....(((((.............)))))..)))).))))))).................. (-15.34 = -17.59 +   2.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:20 2006