Locus 8037

Sequence ID	3R_DroMel_CAF1
Location	21,599,630 – 21,599,748
Length	118
Max. P	0.573782

overview

Window 8

Location	21,599,630 – 21,599,748
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	86.45
Mean single sequence MFE	-36.34
Consensus MFE	-24.85
Energy contribution	-26.29
Covariance contribution	1.44
Combinations/Pair	1.03
Mean z-score	-1.69
Structure conservation index	0.68
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21599630 118 + 27905053
UUUCAGAAUGCACGCAUCACAGAUGUUGCAGUGCCAGGACCUUG-GCG-GUACAUUCCUUUGGCAUAUUUUGCAAAAAUGCCACAGGUGCUCUUCACCUUUCAUUGGCUGCUGCAUUUGC
.....(((((((.(((((...))))).((((((((((....)))-))(-((.....(((.((((((...........)))))).)))........)))........)))))))))))).. ( -35.42)
>DroSec_CAF1 88523 120 + 1
NNNNNNNNNGCACGCAUCACAGGUGUUGCAGUGCCAGGACCGUGCGCGUGUACAUUCCUUUGGCAUAUUUUGCAAAAAUGCCACAGGUGCUCUUCACCUUUCAUCGGCUGCUGCAUUUCC
.........(((.(((((...(((.((((((((((((((..((((....))))..)))..))))))....)))))....)))..(((((.....)))))......)).))))))...... ( -33.80)
>DroSim_CAF1 84235 118 + 1
UUUUAGAAUGCACGCAUCACAGGUGUUGCAGUGCCAGGACCUUG-GCG-GUACAUUCCUUUGGCAUAUUUUGCAAAAAUGCCACAGGUGCUCCUCACCUUUCAUCGGCUGCUGCAUUUCC
.....(((((((.(((.(..(((((..(((.((((((....)))-)))-.......(((.((((((...........)))))).))))))....))))).......).)))))))))).. ( -35.60)
>DroEre_CAF1 79093 118 + 1
CUUCAGAAUGCACGCAUUACAGGUAUCGCAGUGCCAGGACCUUG-GCG-GCACUGUCCUCUGGCAUAUGUUGCAAUAGUGCCACAGAUGCUCCUCACCUUUCAUCGGCUGCUGCAUUUUA
....((((((((.(((.....((((((.....(((((....)))-))(-(((((((......(((.....))).))))))))...)))))).....((.......)).))))))))))). ( -38.20)
>DroYak_CAF1 83393 118 + 1
UUUCAGAAUGCACGCAUUGCACGUCUGGCAGUGCCAGGACCUUG-GCG-GCACUGUCCUUUGGCAUAUGUUGCAAAAGUGCCACAGGUGCUCCUCACCUUCCAUCGGUUGCUGCACUUCC
.....(((((((.(((..((((....(((((((((.........-..)-))))))))((.((((((...........)))))).)))))).....(((.......)))))))))).))). ( -38.70)
>consensus
UUUCAGAAUGCACGCAUCACAGGUGUUGCAGUGCCAGGACCUUG_GCG_GUACAUUCCUUUGGCAUAUUUUGCAAAAAUGCCACAGGUGCUCCUCACCUUUCAUCGGCUGCUGCAUUUCC
.....(((((((.(((.........((((((((((((((................)))..))))))....)))))....(((..(((((.....)))))......))))))))))))).. (-24.85 = -26.29 +   1.44)

alignment

secondary structure

dotplot

Window 9

Location	21,599,630 – 21,599,748
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	86.45
Mean single sequence MFE	-37.62
Consensus MFE	-28.43
Energy contribution	-28.87
Covariance contribution	0.44
Combinations/Pair	1.13
Mean z-score	-1.58
Structure conservation index	0.76
SVM decision value	0.08
SVM RNA-class probability	0.573782
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21599630 118 - 27905053
GCAAAUGCAGCAGCCAAUGAAAGGUGAAGAGCACCUGUGGCAUUUUUGCAAAAUAUGCCAAAGGAAUGUAC-CGC-CAAGGUCCUGGCACUGCAACAUCUGUGAUGCGUGCAUUCUGAAA
(((..(((((..((((.....(((((.....))))).))))....))))).....)))....(((((((((-.((-((......))))...(((.((....)).)))))))))))).... ( -37.10)
>DroSec_CAF1 88523 120 - 1
GGAAAUGCAGCAGCCGAUGAAAGGUGAAGAGCACCUGUGGCAUUUUUGCAAAAUAUGCCAAAGGAAUGUACACGCGCACGGUCCUGGCACUGCAACACCUGUGAUGCGUGCNNNNNNNNN
(((..(((.((..........(((((.....)))))((((((((((((((.....)))...)))))))).))))))))...)))..((((.(((.((....)).)))))))......... ( -33.00)
>DroSim_CAF1 84235 118 - 1
GGAAAUGCAGCAGCCGAUGAAAGGUGAGGAGCACCUGUGGCAUUUUUGCAAAAUAUGCCAAAGGAAUGUAC-CGC-CAAGGUCCUGGCACUGCAACACCUGUGAUGCGUGCAUUCUAAAA
((((.(((((((..((.....(((((.((.((((((.((((((...........)))))).)))..))).)-)((-((......)))).......))))).)).))).)))))))).... ( -39.00)
>DroEre_CAF1 79093 118 - 1
UAAAAUGCAGCAGCCGAUGAAAGGUGAGGAGCAUCUGUGGCACUAUUGCAACAUAUGCCAGAGGACAGUGC-CGC-CAAGGUCCUGGCACUGCGAUACCUGUAAUGCGUGCAUUCUGAAG
...(((((((((((((.....(((((.....))))).))))..(((((((.....(((((..((((..((.-...-))..))))))))).))))))).......))).))))))...... ( -37.10)
>DroYak_CAF1 83393 118 - 1
GGAAGUGCAGCAACCGAUGGAAGGUGAGGAGCACCUGUGGCACUUUUGCAACAUAUGCCAAAGGACAGUGC-CGC-CAAGGUCCUGGCACUGCCAGACGUGCAAUGCGUGCAUUCUGAAA
((((.((((((((((.......))).....((((.(.((((.((((.(((.....))).))))...(((((-(((-....))...)))))))))).).))))..))).)))))))).... ( -41.90)
>consensus
GGAAAUGCAGCAGCCGAUGAAAGGUGAGGAGCACCUGUGGCAUUUUUGCAAAAUAUGCCAAAGGAAUGUAC_CGC_CAAGGUCCUGGCACUGCAACACCUGUGAUGCGUGCAUUCUGAAA
...(((((((((((((.....(((((.....))))).))))....(((((.....(((((..(((................)))))))).))))).........))).))))))...... (-28.43 = -28.87 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:01 2006