Locus 5262

Sequence ID	2L_DroMel_CAF1
Location	14,839,366 – 14,839,466
Length	100
Max. P	0.745677

overview

Window 6

Location	14,839,366 – 14,839,466
Length	100
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.95
Mean single sequence MFE	-17.02
Consensus MFE	-11.33
Energy contribution	-11.83
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-1.30
Structure conservation index	0.67
SVM decision value	0.05
SVM RNA-class probability	0.558745
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14839366 100 + 22407834
--CAAAUAACCGCAACUACUUAGCAACAUUAUACACUUCCGUGCCAGCAUC-------AGGAUCUGAAA-----------AACCCCACCCAAAACGUAAUUAUUGUUGCGGUAAAUGUCA
--......((((((((.................((..((((((....))).-------.)))..))...-----------......((.......)).......))))))))........ ( -16.30)
>DroGri_CAF1 100097 93 + 1
ACGAAAUAACCGCAACUACUUAGCAACAUUAUACACUUCCGUGC-AGCUUCCCAAAAA--------------------------CCGGCCAAAACAUAAUUAUUGUUGCGGUAAACGCCA
........((((((((.................(((....))).-.(((.........--------------------------..)))...............))))))))........ ( -14.60)
>DroSec_CAF1 81203 99 + 1
--CAAAUAACCGCAACUACUUAGCAACAUUAUACACUUCCGUGCCAGCAUC-------AGGAUCUGAA------------UACCCCACCCAAAACGUAAUUAUUGUUGCGGUAAAUGCCA
--......((((((((.................((..((((((....))).-------.)))..))..------------(((............)))......))))))))........ ( -16.90)
>DroYak_CAF1 78752 99 + 1
--CAAAUAACCGCAACUACUUAGCAACAUUAUACACUUCCGUGCCAGCAUC-------AGGAUCUGCA------------AGCCCCACCCCAAACGUAAUUAUUGCUGCGGUAAAUGCCA
--.........(((..((((((((((.(((((.(((....)))...(((..-------......))).------------...............)))))..)))))).))))..))).. ( -15.50)
>DroMoj_CAF1 119572 117 + 1
--GAAAUAACCGCAACUACUUAGCAACAUUAUACACUUCCGUGC-AGCUUCCCAAAAAAGGAAAAAAAAAAAAAGAGAAUAGCACUGGCCGAAACGUAAUUAUUGUUGCGGUAAAUGCCA
--......((((((((......((.........(((....))).-...((((.......))))..................))....((......)).......))))))))........ ( -17.90)
>DroAna_CAF1 75563 99 + 1
--CAAAUAACCGCAACUACUUAGCAACAUUAUACACUUCCGUGCCAGCAUC-------AGGAUCUGAA------------AAACCAACCCAAAACGUAAUUAUUGUUGCGGUAAAUGCGG
--.......(((((..((((..((((((.(((((...((((((....))).-------.)))..((..------------....)).........)))..)).))))))))))..))))) ( -20.90)
>consensus
__CAAAUAACCGCAACUACUUAGCAACAUUAUACACUUCCGUGCCAGCAUC_______AGGAUCUGAA____________AACCCCACCCAAAACGUAAUUAUUGUUGCGGUAAAUGCCA
........((((((((.................(((....)))................((...........................))..............))))))))........ (-11.33 = -11.83 +   0.50)

alignment

secondary structure

dotplot

Window 7

Location	14,839,366 – 14,839,466
Length	100
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.95
Mean single sequence MFE	-27.59
Consensus MFE	-18.91
Energy contribution	-18.77
Covariance contribution	-0.14
Combinations/Pair	1.07
Mean z-score	-1.55
Structure conservation index	0.69
SVM decision value	0.46
SVM RNA-class probability	0.745677
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14839366 100 - 22407834
UGACAUUUACCGCAACAAUAAUUACGUUUUGGGUGGGGUU-----------UUUCAGAUCCU-------GAUGCUGGCACGGAAGUGUAUAAUGUUGCUAAGUAGUUGCGGUUAUUUG--
...((...((((((((........((((..((((..((..-----------..))..)))).-------))))...((((....))))................))))))))....))-- ( -26.50)
>DroGri_CAF1 100097 93 - 1
UGGCGUUUACCGCAACAAUAAUUAUGUUUUGGCCGG--------------------------UUUUUGGGAAGCU-GCACGGAAGUGUAUAAUGUUGCUAAGUAGUUGCGGUUAUUUCGU
..(((...((((((((((((....))))(((((.((--------------------------((((...))))))-((((....))))........)))))...)))))))).....))) ( -26.50)
>DroSec_CAF1 81203 99 - 1
UGGCAUUUACCGCAACAAUAAUUACGUUUUGGGUGGGGUA------------UUCAGAUCCU-------GAUGCUGGCACGGAAGUGUAUAAUGUUGCUAAGUAGUUGCGGUUAUUUG--
........((((((((......(((......((..(((((------------(.(((...))-------)))))).((((....))))......)..))..)))))))))))......-- ( -25.40)
>DroYak_CAF1 78752 99 - 1
UGGCAUUUACCGCAGCAAUAAUUACGUUUGGGGUGGGGCU------------UGCAGAUCCU-------GAUGCUGGCACGGAAGUGUAUAAUGUUGCUAAGUAGUUGCGGUUAUUUG--
........((((((((...........(..((((..(...------------..)..)))).-------.)((((.((((....))))............))))))))))))......-- ( -26.62)
>DroMoj_CAF1 119572 117 - 1
UGGCAUUUACCGCAACAAUAAUUACGUUUCGGCCAGUGCUAUUCUCUUUUUUUUUUUUUCCUUUUUUGGGAAGCU-GCACGGAAGUGUAUAAUGUUGCUAAGUAGUUGCGGUUAUUUC--
..(((.((((.((((((........((((((((....)))...................((......)))))))(-((((....)))))...))))))...)))).))).........-- ( -28.70)
>DroAna_CAF1 75563 99 - 1
CCGCAUUUACCGCAACAAUAAUUACGUUUUGGGUUGGUUU------------UUCAGAUCCU-------GAUGCUGGCACGGAAGUGUAUAAUGUUGCUAAGUAGUUGCGGUUAUUUG--
(((((.((((.((((((.....((((((((.(((..((..------------.((((...))-------)).))..)).).))))))))...))))))...)))).))))).......-- ( -31.80)
>consensus
UGGCAUUUACCGCAACAAUAAUUACGUUUUGGGUGGGGUU____________UUCAGAUCCU_______GAUGCUGGCACGGAAGUGUAUAAUGUUGCUAAGUAGUUGCGGUUAUUUG__
........((((((((............................................................((((....)))).......(((...)))))))))))........ (-18.91 = -18.77 +  -0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:02 2006