Locus 8515

Sequence ID	3R_DroMel_CAF1
Location	22,733,121 – 22,733,220
Length	99
Max. P	0.987476

overview

Window 1

Location	22,733,121 – 22,733,220
Length	99
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	71.15
Mean single sequence MFE	-25.86
Consensus MFE	-16.30
Energy contribution	-18.06
Covariance contribution	1.76
Combinations/Pair	1.11
Mean z-score	-2.05
Structure conservation index	0.63
SVM decision value	2.08
SVM RNA-class probability	0.987476
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22733121 99 + 27905053
UAUA-UG--UUUUUUAUUUGUG---------CUGUUUUUGGAGGCUGUGUCUAUAUCUACUGCGAGUAGAUGGCUGACACGCCUAGAUACUUGGCACGUCAUGUGCUAAGA
....-..--.............---------..........((((.(((((..(((((((.....)))))))...))))))))).....((((((((.....)))))))). ( -32.80)
>DroSec_CAF1 23239 95 + 1
UAUA-UG--UUUUU----UGUG---------CUGUAUUUGGUGGCUGUGUCUAUAUCUGCUACGAGUCGAUGGCUGACACGCCUAGAUACUUGGCACAUCAUGUGCUAAGA
((((-((--.....----((((---------(((((((((..(((.(((((..((((.((.....)).))))...)))))))))))))))..)))))).))))))...... ( -31.10)
>DroSim_CAF1 23304 83 + 1
UAUA-UG--UUUUU---UUGUG----------------------CUGUGUCUAUAUCUGCUACGAGUCGAUGGCUGACACGCCUAGAUACUUGGCACAUCAUGUGCUAAGA
....-..--....(---(((.(----------------------(.(((((..((((.((.....)).))))...))))))).))))..((((((((.....)))))))). ( -25.40)
>DroYak_CAF1 24674 104 + 1
UAUA-UG--UUUUU---UUGUAUUGUGUUUG-UGUUUUUGGUGCCUGUGUCUAUAUCUGCUGACUGCUAACUGCUGACACGCCUAGAUAGUUGGCACAUCAUGUGCUAAGA
....-..--.....---..............-...((((((..(.((((((..(((((((((.(.((.....)).).)).))..)))))...))))))....)..)))))) ( -21.70)
>DroAna_CAF1 21810 93 + 1
UAUCAUCCCAUUU----UUCUCCUCUU----UUGUAUCU-AUAUAUGUGCCUAUAGCUGU---GG------GUCUGACACGCCUAGACACUUGGCACCACAUGUGCUAAGA
.............----..........----.....(((-(....(((((((((....))---))------))...)))....))))..((((((((.....)))))))). ( -18.30)
>consensus
UAUA_UG__UUUUU___UUGUG__________UGUAUUUGGUGGCUGUGUCUAUAUCUGCUACGAGUCGAUGGCUGACACGCCUAGAUACUUGGCACAUCAUGUGCUAAGA
..............................................(((((..((((.((.....)).))))...))))).........((((((((.....)))))))). (-16.30 = -18.06 +   1.76)

alignment

secondary structure

dotplot

Window 2

Location	22,733,121 – 22,733,220
Length	99
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	71.15
Mean single sequence MFE	-19.56
Consensus MFE	-10.50
Energy contribution	-10.54
Covariance contribution	0.04
Combinations/Pair	1.08
Mean z-score	-1.63
Structure conservation index	0.54
SVM decision value	0.24
SVM RNA-class probability	0.647769
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22733121 99 - 27905053
UCUUAGCACAUGACGUGCCAAGUAUCUAGGCGUGUCAGCCAUCUACUCGCAGUAGAUAUAGACACAGCCUCCAAAAACAG---------CACAAAUAAAAAA--CA-UAUA
.(((.((((.....)))).))).....(((((((((....((((((.....))))))...))))).))))..........---------.............--..-.... ( -24.10)
>DroSec_CAF1 23239 95 - 1
UCUUAGCACAUGAUGUGCCAAGUAUCUAGGCGUGUCAGCCAUCGACUCGUAGCAGAUAUAGACACAGCCACCAAAUACAG---------CACA----AAAAA--CA-UAUA
.(((.((((.....)))).)))......((((((((....(((..(.....)..)))...))))).)))...........---------....----.....--..-.... ( -19.20)
>DroSim_CAF1 23304 83 - 1
UCUUAGCACAUGAUGUGCCAAGUAUCUAGGCGUGUCAGCCAUCGACUCGUAGCAGAUAUAGACACAG----------------------CACAA---AAAAA--CA-UAUA
.(((.((((.....)))).)))(((((..(((.(((.......))).)))...))))).........----------------------.....---.....--..-.... ( -16.50)
>DroYak_CAF1 24674 104 - 1
UCUUAGCACAUGAUGUGCCAACUAUCUAGGCGUGUCAGCAGUUAGCAGUCAGCAGAUAUAGACACAGGCACCAAAAACA-CAAACACAAUACAA---AAAAA--CA-UAUA
..............(((((..((....))..(((((.((.....)).(((....)))...))))).)))))........-..............---.....--..-.... ( -17.50)
>DroAna_CAF1 21810 93 - 1
UCUUAGCACAUGUGGUGCCAAGUGUCUAGGCGUGUCAGAC------CC---ACAGCUAUAGGCACAUAUAU-AGAUACAA----AAGAGGAGAA----AAAUGGGAUGAUA
((((.((((.....))))...(((((((((((((......------.)---)).))).)))))))......-........----.....)))).----............. ( -20.50)
>consensus
UCUUAGCACAUGAUGUGCCAAGUAUCUAGGCGUGUCAGCCAUCGACUCGCAGCAGAUAUAGACACAGCCACCAAAAACA__________CACAA___AAAAA__CA_UAUA
.(((.((((.....)))).))).........(((((........................))))).............................................. (-10.50 = -10.54 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:13:07 2006