Locus 2810

Sequence ID	2L_DroMel_CAF1
Location	7,999,832 – 7,999,945
Length	113
Max. P	0.726446

overview

Window 5

Location	7,999,832 – 7,999,945
Length	113
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	80.38
Mean single sequence MFE	-35.53
Consensus MFE	-25.39
Energy contribution	-25.92
Covariance contribution	0.53
Combinations/Pair	1.16
Mean z-score	-1.49
Structure conservation index	0.71
SVM decision value	0.41
SVM RNA-class probability	0.726446
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7999832 113 + 22407834
AAAUGAC-UUGGCUAAU-GCUGCUCCUGCUCCACAAGCUCGGCAAUCAGGUUCUCGCUCAGCUUCCACAGUUGCUGCUGCAGUGCAGCACUUUUGGACAACUUGCUGGGCUCGCA
....(((-(((((....-))((((...(((.....)))..))))..))))))...(((((((.((((.((.((((((......)))))).)).))))......)))))))..... ( -37.80)
>DroVir_CAF1 463 112 + 1
AACUUGAA-AUUCAAAUUGUUGU--CGGCUCCAUUAGCUCAAGGAUCAGGCGCUCGCUGAGCGCCCACAAUUGCUGCUGCAGUGCCGCACACUUGGACAGCUUGCUGGGCUCACA
........-...........(((--.(((.(((..((((((((.....(((((((...)))))))......(((.((......)).)))..))))...))))...)))))).))) ( -33.50)
>DroSec_CAF1 560 101 + 1
-------------UAAU-GUUGCUCCUGCUCCACAAGCUCGGCAAUCAGGUUCUCGCUCAGCUUCCACAGCUGCUGCUGCAGUGCAGCACUUUUGGACAACUUGCUGGGCUCGCA
-------------....-((((((...(((.....)))..)))))).........(((((((.((((.((.((((((......)))))).)).))))......)))))))..... ( -33.60)
>DroSim_CAF1 524 108 + 1
AAAUGAC------UAGU-GUUGUUCCUGCUCCACAAGCUCGGCAAUCAGGUUCUCGCUCAGCUUCCACAGUUGCUGCUGCAGUGCAGCACUUUUGGACAACUUGCUGGGCUCGCA
.......------..((-(..(..((((..((........))....))))..)..(((((((.((((.((.((((((......)))))).)).))))......))))))).))). ( -33.40)
>DroEre_CAF1 598 109 + 1
AAAUGGA--CGGU---U-AGUGCUGCUCCUGCACAAACUCGGCAAUCAGGUUCUCACUAAGCCUCCACAGUUGCUGCUGCAGUGCAGCACUUUUGGACAAUUUGCUGGGCUCGCA
....(((--((((---.-...)))).))).((.....((((((((...((((.......))))((((.((.((((((......)))))).)).))))....))))))))...)). ( -34.40)
>DroYak_CAF1 625 110 + 1
AUAUGGA----GUAUGU-GCUGCUACUCCUCCACAAGCUCGGCAAUCAGGUGCUCACUGAGCUUCCACAGUUGCUGCUGCAGUGCAGCACUUUUGGACAACUUGCUGGGCUCGCA
....(((----(((.(.-....)))))))......((((((((((((((.......))))...((((.((.((((((......)))))).)).))))....)))))))))).... ( -40.50)
>consensus
AAAUGGA____G_UAAU_GUUGCUCCUGCUCCACAAGCUCGGCAAUCAGGUUCUCGCUCAGCUUCCACAGUUGCUGCUGCAGUGCAGCACUUUUGGACAACUUGCUGGGCUCGCA
...................................((((((((((...(((....))).....((((.((.((((((......)))))).)).))))....)))))))))).... (-25.39 = -25.92 +   0.53)

alignment

secondary structure

dotplot

Window 6

Location	7,999,832 – 7,999,945
Length	113
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	80.38
Mean single sequence MFE	-36.22
Consensus MFE	-26.00
Energy contribution	-26.12
Covariance contribution	0.11
Combinations/Pair	1.25
Mean z-score	-1.18
Structure conservation index	0.72
SVM decision value	0.05
SVM RNA-class probability	0.558816
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7999832 113 - 22407834
UGCGAGCCCAGCAAGUUGUCCAAAAGUGCUGCACUGCAGCAGCAACUGUGGAAGCUGAGCGAGAACCUGAUUGCCGAGCUUGUGGAGCAGGAGCAGC-AUUAGCCAA-GUCAUUU
(((..((.((((......((((....((((((......))))))....)))).)))).)).....((((....(((......)))..)))).)))((-....))...-....... ( -35.10)
>DroVir_CAF1 463 112 - 1
UGUGAGCCCAGCAAGCUGUCCAAGUGUGCGGCACUGCAGCAGCAAUUGUGGGCGCUCAGCGAGCGCCUGAUCCUUGAGCUAAUGGAGCCG--ACAACAAUUUGAAU-UUCAAGUU
(((..(((((((..(((((...((((.....))))...)))))......((((((((...)))))))).........))...))).))..--)))..((((((...-..)))))) ( -37.30)
>DroSec_CAF1 560 101 - 1
UGCGAGCCCAGCAAGUUGUCCAAAAGUGCUGCACUGCAGCAGCAGCUGUGGAAGCUGAGCGAGAACCUGAUUGCCGAGCUUGUGGAGCAGGAGCAAC-AUUA-------------
(((.......))).(((((((.....((((((......))))))(((.((.(((((..((((........))))..))))).)).))).))).))))-....------------- ( -37.00)
>DroSim_CAF1 524 108 - 1
UGCGAGCCCAGCAAGUUGUCCAAAAGUGCUGCACUGCAGCAGCAACUGUGGAAGCUGAGCGAGAACCUGAUUGCCGAGCUUGUGGAGCAGGAACAAC-ACUA------GUCAUUU
(((.......))).(((((((.....((((((......)))))).((.((.(((((..((((........))))..))))).)).))..)).)))))-....------....... ( -32.60)
>DroEre_CAF1 598 109 - 1
UGCGAGCCCAGCAAAUUGUCCAAAAGUGCUGCACUGCAGCAGCAACUGUGGAGGCUUAGUGAGAACCUGAUUGCCGAGUUUGUGCAGGAGCAGCACU-A---ACCG--UCCAUUU
(((.......)))...........((((((((..(((....))).(((((.(((((..(..(........)..)..))))).)))))..))))))))-.---....--....... ( -33.70)
>DroYak_CAF1 625 110 - 1
UGCGAGCCCAGCAAGUUGUCCAAAAGUGCUGCACUGCAGCAGCAACUGUGGAAGCUCAGUGAGCACCUGAUUGCCGAGCUUGUGGAGGAGUAGCAGC-ACAUAC----UCCAUAU
.((((((.(.((((....((((....((((((......))))))....)))).((((...))))......)))).).))))))...((((((.....-...)))----))).... ( -41.60)
>consensus
UGCGAGCCCAGCAAGUUGUCCAAAAGUGCUGCACUGCAGCAGCAACUGUGGAAGCUGAGCGAGAACCUGAUUGCCGAGCUUGUGGAGCAGGAGCAAC_AUUA_C____UCCAUUU
(((..(((((.((((((.((((....((((((......))))))....))))......((((........))))..))))))))).))....))).................... (-26.00 = -26.12 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:47 2006