Locus 10191

Sequence ID	3R_DroMel_CAF1
Location	27,346,825 – 27,346,917
Length	92
Max. P	0.970216

overview

Window 6

Location	27,346,825 – 27,346,917
Length	92
Sequences	6
Columns	101
Reading direction	forward
Mean pairwise identity	80.38
Mean single sequence MFE	-27.37
Consensus MFE	-23.49
Energy contribution	-23.62
Covariance contribution	0.13
Combinations/Pair	1.11
Mean z-score	-1.59
Structure conservation index	0.86
SVM decision value	0.73
SVM RNA-class probability	0.834244
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27346825 92 + 27905053
AUUUUUGGCAGUCGACGG-------CCGCCGGCUUCUCAAUCAGACUGACCCAGAUAUGGGUCAAGCCAUUGACUUCUGCCA-AGUGCUACCUUU-UUGCC
...((((((((((((.((-------(........(((.....))).(((((((....))))))).))).)))))...)))))-))..........-..... ( -28.80)
>DroPse_CAF1 44416 84 + 1
AUUUUUGGCAGUCAACGG-------CCGCUGGCUUCCCAAUCAUUUUGACCCACUUCUGGGCCAAGCCAUUGACUUCUGCCCGUGUCC---------GCA-
......(((((((((.((-------(...(((....)))......(((.((((....)))).)))))).)))))...)))).((....---------)).- ( -22.90)
>DroSim_CAF1 56093 85 + 1
AUUUUUGGCAGUCGACGG-------CCGCCGGCUGCUCAAUCAGACUGACCCAGUUUUGGGUCAAGCCAUUGACUUCUGCCAUAGUGCUACC---------
.....((((((..(.(((-------((...))))).(((((..(..((((((......))))))..).))))))..))))))..........--------- ( -28.00)
>DroEre_CAF1 56948 93 + 1
AUUUUUGGCAGUCGACGG-------CCGCCGGCUUCUCAAUCAGACUGACCCAGUUUUGGGUCAAGCCAUUGACUUCUGCCAUUGUGCUACCUU-CUGCCC
......(((((..(..((-------(((..(((...(((((..(..((((((......))))))..).))))).....)))..)).)))..)..-))))). ( -29.80)
>DroYak_CAF1 49472 101 + 1
AUUUUUGGCAGUCGACGGCCACCGGCCGCCGGCUUCUCAAUCAGACUGACCCAGUUUUGGGUCAAGCCAUUUACUUCUGCCAUUGUGCUACCUUUUUGCCC
.....((((((..(.(((((...))))).)(((((((.....))).((((((......))))))))))........))))))................... ( -33.10)
>DroAna_CAF1 58719 91 + 1
AUUUUUGGCAGUCGACGG-------CCGCCGGCUCCUCAAUCAGUCUGACCUAGUUUCGGGACAAGCCAUUGACUUGUGC--UUCUGCUGGUUU-CCGCAC
......((.(((((.(..-------..).))))))).......((..((((.(((...((.(((((.......))))).)--)...))))))).-..)).. ( -21.60)
>consensus
AUUUUUGGCAGUCGACGG_______CCGCCGGCUUCUCAAUCAGACUGACCCAGUUUUGGGUCAAGCCAUUGACUUCUGCCAUUGUGCUACCUU__UGCCC
.....(((((((((.((((.....)))).)))))............((((((......)))))).))))................................ (-23.49 = -23.62 +   0.13)

alignment

secondary structure

dotplot

Window 7

Location	27,346,825 – 27,346,917
Length	92
Sequences	6
Columns	101
Reading direction	reverse
Mean pairwise identity	80.38
Mean single sequence MFE	-33.92
Consensus MFE	-29.28
Energy contribution	-29.68
Covariance contribution	0.41
Combinations/Pair	1.19
Mean z-score	-2.93
Structure conservation index	0.86
SVM decision value	1.65
SVM RNA-class probability	0.970216
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27346825 92 - 27905053
GGCAA-AAAGGUAGCACU-UGGCAGAAGUCAAUGGCUUGACCCAUAUCUGGGUCAGUCUGAUUGAGAAGCCGGCGG-------CCGUCGACUGCCAAAAAU
((((.-...((..((..(-((((...(((((..((((.((((((....))))))))))))))).....)))))..)-------)..))...))))...... ( -33.20)
>DroPse_CAF1 44416 84 - 1
-UGC---------GGACACGGGCAGAAGUCAAUGGCUUGGCCCAGAAGUGGGUCAAAAUGAUUGGGAAGCCAGCGG-------CCGUUGACUGCCAAAAAU
-..(---------(....))((((...(((((((((((((((((....))))))))..((.((((....)))))))-------))))))))))))...... ( -35.90)
>DroSim_CAF1 56093 85 - 1
---------GGUAGCACUAUGGCAGAAGUCAAUGGCUUGACCCAAAACUGGGUCAGUCUGAUUGAGCAGCCGGCGG-------CCGUCGACUGCCAAAAAU
---------((((((.....(((.(.(((((..((((.((((((....)))))))))))))))...).)))(((..-------..)))).)))))...... ( -31.90)
>DroEre_CAF1 56948 93 - 1
GGGCAG-AAGGUAGCACAAUGGCAGAAGUCAAUGGCUUGACCCAAAACUGGGUCAGUCUGAUUGAGAAGCCGGCGG-------CCGUCGACUGCCAAAAAU
.(((((-..((..((....((((...(((((..((((.((((((....))))))))))))))).....))))...)-------)..))..)))))...... ( -38.00)
>DroYak_CAF1 49472 101 - 1
GGGCAAAAAGGUAGCACAAUGGCAGAAGUAAAUGGCUUGACCCAAAACUGGGUCAGUCUGAUUGAGAAGCCGGCGGCCGGUGGCCGUCGACUGCCAAAAAU
..((.........))....((((((........(((((((((((....))))))).(((.....)))))))(((((((...)))))))..))))))..... ( -40.20)
>DroAna_CAF1 58719 91 - 1
GUGCGG-AAACCAGCAGAA--GCACAAGUCAAUGGCUUGUCCCGAAACUAGGUCAGACUGAUUGAGGAGCCGGCGG-------CCGUCGACUGCCAAAAAU
(((((.-...)(....)..--)))).((((.((((((.(.((.(...((..(((.....)))..))...).)))))-------)))).))))......... ( -24.30)
>consensus
GGGCA__AAGGUAGCACAAUGGCAGAAGUCAAUGGCUUGACCCAAAACUGGGUCAGUCUGAUUGAGAAGCCGGCGG_______CCGUCGACUGCCAAAAAU
....................(((((...(((((((.((((((((....)))))))).)).))))).....(((((((.....))))))).)))))...... (-29.28 = -29.68 +   0.41)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:51:02 2006