Locus 2383

Sequence ID	2R_DroMel_CAF1
Location	8,617,449 – 8,617,609
Length	160
Max. P	0.596806

overview

Window 2

Location	8,617,449 – 8,617,569
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	89.31
Mean single sequence MFE	-29.19
Consensus MFE	-21.30
Energy contribution	-22.10
Covariance contribution	0.80
Combinations/Pair	1.21
Mean z-score	-1.67
Structure conservation index	0.73
SVM decision value	0.03
SVM RNA-class probability	0.550407
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8617449 120 + 20766785
ACUUUCCAAAUGGACAAAACCCUCCUGUAAGCGAUAUAUUUACGAUUCUUUGGGUUUGUAUAGACACACCAUGUUGUCAAUUAAUAAUAUUGAAUGUGAACCCAAAGUGGAGUGAGUAUU
....(((....))).....................((((((((....(((((((((..(((.((((.....)))).(((((.......))))))))..)))))))))....)))))))). ( -29.00)
>DroSec_CAF1 19743 120 + 1
ACUUUCCAAUUGGACAAAACCCUCCUGUAAGCGAUAUAUUUACGAUUCUUUGGGUUCGUAUAGACACACCAUGUUGUCAAUUAAUAAUAUUGAAUGUGAACCCAAAGUGGAGUGGGUAUU
....(((....))).....((((((((((((.......))))))...((((((((((((((.((((.....)))).(((((.......))))))))))))))))))).)))).))..... ( -31.50)
>DroSim_CAF1 17036 120 + 1
ACUUUCCAAUUGGACAAAACCCUCCUGUAAGCGAAAUAUUUACGAUUCUUUGGGUUCGUAUAGACACACCAUGUUGUCAAUUAAUAAUAUUGAAUGUGAACCCAAAGUGGAGUGGGUAUU
....(((....))).....((((((((((((.......))))))...((((((((((((((.((((.....)))).(((((.......))))))))))))))))))).)))).))..... ( -31.50)
>DroEre_CAF1 17504 111 + 1
ACUUUCCAAUUGGACAAAACC---CUGUAAGCGAUAUAUUUACGAUUCUUCGGGUUCGGAUGGACACACCGCGUUGUCAAUUAAUAAUAUUGAAUGU------GAAGUGGAGUGGGUAUU
....(((....)))....(((---(.....((..(((((((((((..(....)..)))(((.((((........)))).)))........)))))))------)..)).....))))... ( -23.70)
>DroYak_CAF1 13244 116 + 1
ACUUUCCAAUUGGACAGAAGC---CUGUAAGCGAUAUAUUUACG-UUCCUAGGGUUCAGAUAGACACACCACGUUCUCAAUUAAUAAUAUUGAAUGUAAGUCCGAGGUGGAGUGGGUAUU
.(.(((((.((((((.(((.(---(((..((((.((....))))-))..)))).))).............((((((...............))))))..))))))..))))).)...... ( -30.26)
>consensus
ACUUUCCAAUUGGACAAAACCCUCCUGUAAGCGAUAUAUUUACGAUUCUUUGGGUUCGUAUAGACACACCAUGUUGUCAAUUAAUAAUAUUGAAUGUGAACCCAAAGUGGAGUGGGUAUU
....(((....))).....................((((((((....((((((((((((((.(((.......))).(((((.......)))))))))))))))))))....)))))))). (-21.30 = -22.10 +   0.80)

alignment

secondary structure

dotplot

Window 3

Location	8,617,489 – 8,617,609
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	89.24
Mean single sequence MFE	-34.11
Consensus MFE	-24.46
Energy contribution	-25.26
Covariance contribution	0.80
Combinations/Pair	1.19
Mean z-score	-1.83
Structure conservation index	0.72
SVM decision value	0.13
SVM RNA-class probability	0.596806
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8617489 120 + 20766785
UACGAUUCUUUGGGUUUGUAUAGACACACCAUGUUGUCAAUUAAUAAUAUUGAAUGUGAACCCAAAGUGGAGUGAGUAUUGCCGUGUCCUUGGCCUUGGUCAUCCCAGUACUCCCCCCAC
.......(((((((((..(((.((((.....)))).(((((.......))))))))..)))))))))(((.(.((((((((..(((.((........)).)))..)))))))).).))). ( -38.30)
>DroSec_CAF1 19783 120 + 1
UACGAUUCUUUGGGUUCGUAUAGACACACCAUGUUGUCAAUUAAUAAUAUUGAAUGUGAACCCAAAGUGGAGUGGGUAUUCCCGUGUCCUUGGCCUUGGUCAUCCCAGUACUCUACCUAC
........(((((((((((((.((((.....)))).(((((.......))))))))))))))))))((((((((((....)))(((.((........)).)))......))))))).... ( -33.80)
>DroSim_CAF1 17076 120 + 1
UACGAUUCUUUGGGUUCGUAUAGACACACCAUGUUGUCAAUUAAUAAUAUUGAAUGUGAACCCAAAGUGGAGUGGGUAUUCCCGUGUCCUUGGCCUUGGUCAUCCCAGUACUCCACCUAC
........(((((((((((((.((((.....)))).(((((.......))))))))))))))))))((((((((((....)))(((.((........)).)))......))))))).... ( -36.10)
>DroEre_CAF1 17541 112 + 1
UACGAUUCUUCGGGUUCGGAUGGACACACCGCGUUGUCAAUUAAUAAUAUUGAAUGU------GAAGUGGAGUGGGUAUUCCUGUGUCCUUGGCCUUGGUCAUC-CAGUACUCC-CUUAC
(((((..(....)..))(((((((((((.(((((..(((((.......)))))))))------)....(((((....))))))))))))..(((....))))))-).)))....-..... ( -32.20)
>DroYak_CAF1 13281 117 + 1
UACG-UUCCUAGGGUUCAGAUAGACACACCACGUUCUCAAUUAAUAAUAUUGAAUGUAAGUCCGAGGUGGAGUGGGUAUUCCCGUGUCCUUGGCCUUGGUCAUCCCAGUACUCC-C-UAC
....-....(((((................((((((...............))))))..(.(((((((.(((((((....))))....))).))))))).)...........))-)-)). ( -30.16)
>consensus
UACGAUUCUUUGGGUUCGUAUAGACACACCAUGUUGUCAAUUAAUAAUAUUGAAUGUGAACCCAAAGUGGAGUGGGUAUUCCCGUGUCCUUGGCCUUGGUCAUCCCAGUACUCC_CCUAC
.((....((((((((((((((.(((.......))).(((((.......)))))))))))))))))))....))(((((((...(((.((........)).)))...)))))))....... (-24.46 = -25.26 +   0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:42 2006