Locus 8430

Sequence ID	X_DroMel_CAF1
Location	20,923,873 – 20,924,021
Length	148
Max. P	0.985473

overview

Window 8

Location	20,923,873 – 20,923,987
Length	114
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	87.17
Mean single sequence MFE	-43.08
Consensus MFE	-34.60
Energy contribution	-35.92
Covariance contribution	1.32
Combinations/Pair	1.12
Mean z-score	-2.49
Structure conservation index	0.80
SVM decision value	2.01
SVM RNA-class probability	0.985473
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20923873 114 - 22224390
UUGGCAUUAGCUCCGCCAGGUGGAGUUCCAGUUGCAGGCACCUUCGUGCCAGUGACU---CACCUUCCUGCCCACUUGCUUGGGGCUUCUGAACACCCUGUUCCUCUGGUCCCAGUU
..((((..((((((((...))))))))..(((..(.(((((....))))).)..)))---........)))).......((((((((...((((.....))))....)))))))).. ( -42.00)
>DroSec_CAF1 4244 114 - 1
UUGACAUUGGCUCCGCCAGGUGGAGUUCCAGUUGCAGGCACCUUUGUGCCUGUGACU---CGCCUUCCUGCCCACUUGCUUGGGGCUUCUGAACACCCUGUUCCUCUGGUCCCAGUU
.......((((...))))(((((((..(.(((..(((((((....)))))))..)))---.)..)))).))).......((((((((...((((.....))))....)))))))).. ( -44.80)
>DroSim_CAF1 4249 114 - 1
UUGGCAUUGGCUCCGCCAGGUGGAGUUCCAGUUGCAGGCACCUUUGUGCCUGUGACU---CGCCUUCCUGCCCACUUGCUUGGGGCUUCUGAACACCCUGUUCCUCUGGUCCCAGUU
..((((.((((...))))(((((((..(.(((..(((((((....)))))))..)))---.)..)))).)))....))))(((((((...((((.....))))....)))))))... ( -47.60)
>DroEre_CAF1 4429 117 - 1
UUGGCACUGGCUCCGCCAGGUGGAGUUCCAGUUGCAGGCGCCUUCGUGCCCGUUACUCCCCGACUUUCUGCUCACCUCCUAGCAGAUGCUGAGCCCCCUGCUCCUCUGGUCCCAGUU
..((((..(((((.((..((.(((((.......((.(((((....))))).)).))))))).....((((((........)))))).)).)))))...))))...(((....))).. ( -41.20)
>DroYak_CAF1 4392 117 - 1
UUGGCAUUGGCUCCGCCAGUUGGAGUUCCAGUUGCAGGCGCCUUCGUGCCUGUGCCAUCACGACUUUCUGCCCACUUCCUCGGGGAUACAGAACACCCUGUUGCUCUGGUCCCAGUG
.((((((((((((((.....)))))..))))).((((((((....))))))))))))...............((((......(((((.((((.((......)).))))))))))))) ( -39.80)
>consensus
UUGGCAUUGGCUCCGCCAGGUGGAGUUCCAGUUGCAGGCACCUUCGUGCCUGUGACU___CGCCUUCCUGCCCACUUGCUUGGGGCUUCUGAACACCCUGUUCCUCUGGUCCCAGUU
..((((..((((((((...))))))))...(((((((((((....)))))))))))............)))).........((((((...((((.....))))....)))))).... (-34.60 = -35.92 +   1.32)

alignment

secondary structure

dotplot

Window 9

Location	20,923,913 – 20,924,021
Length	108
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	69.64
Mean single sequence MFE	-36.19
Consensus MFE	-16.00
Energy contribution	-17.12
Covariance contribution	1.11
Combinations/Pair	1.29
Mean z-score	-2.00
Structure conservation index	0.44
SVM decision value	1.20
SVM RNA-class probability	0.929095
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20923913 108 - 22224390
------CACGUAUCCUGACCUGGGAUAUCCCUAUCAAUUGUUGGCAUUAGCUCCGCCAGGUGGAGUUCCAGUUGCAGGCACCUUCGUGCCAGU---GACU---CACCUUCCUGCCCACUU
------...(((((((.....)))))))...........((.((((..((((((((...))))))))..(((..(.(((((....))))).).---.)))---........)))).)).. ( -35.50)
>DroSec_CAF1 4284 108 - 1
------CACGUAUCCUGACCUGGGAUACCCCUAUCAAUUGUUGACAUUGGCUCCGCCAGGUGGAGUUCCAGUUGCAGGCACCUUUGUGCCUGU---GACU---CGCCUUCCUGCCCACUU
------...(((((((.....)))))))...................((((...))))(((((((..(.(((..(((((((....))))))).---.)))---.)..)))).)))..... ( -38.80)
>DroSim_CAF1 4289 108 - 1
------CACGUAUCCUGACCUGGGAUACCCCUAUCAAUUGUUGGCAUUGGCUCCGCCAGGUGGAGUUCCAGUUGCAGGCACCUUUGUGCCUGU---GACU---CGCCUUCCUGCCCACUU
------...(((((((.....)))))))...........((.((((..((((((((...))))).....(((..(((((((....))))))).---.)))---.)))....)))).)).. ( -43.10)
>DroEre_CAF1 4469 99 - 1
------CACAUAUCCCGGCCUGGC------------AUUGUUGGCACUGGCUCCGCCAGGUGGAGUUCCAGUUGCAGGCGCCUUCGUGCCCGU---UACUCCCCGACUUUCUGCUCACCU
------..........((...(((------------(..(((((((((((((((((...))))))..)))).))).(((((....)))))...---.......))))....))))..)). ( -31.50)
>DroYak_CAF1 4432 99 - 1
------CACAUAUCCCGGCCUGGC------------ACUGUUGGCAUUGGCUCCGCCAGUUGGAGUUCCAGUUGCAGGCGCCUUCGUGCCUGU---GCCAUCACGACUUUCUGCCCACUU
------.........((...((((------------((....(((((.(((.((..((..(((....)))..))..)).)))...))))).))---))))...))............... ( -33.90)
>DroAna_CAF1 4165 102 - 1
CGAUCCUGGAUAUCCUGCUGUGGGCUAUCCCUACCAAGUGGUGGAGGUGACUGCAUCGCGU------------CCUGGCGGCUGUAUGCCUGUAGAGUCU---CGUUAUCCUGCCAA---
.......(((((.....(((..((((((..(..(((.((((((.((....)).))))))..------------..)))..)..))).)))..))).....---...)))))......--- ( -34.32)
>consensus
______CACAUAUCCUGACCUGGGAUA_CCCUAUCAAUUGUUGGCAUUGGCUCCGCCAGGUGGAGUUCCAGUUGCAGGCACCUUCGUGCCUGU___GACU___CGCCUUCCUGCCCACUU
.............((......))................((.((((..((((((((...)))))))).........(((((....))))).....................)))).)).. (-16.00 = -17.12 +   1.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:48 2006