Locus 8692

Sequence ID	3R_DroMel_CAF1
Location	23,210,923 – 23,211,017
Length	94
Max. P	0.961593

overview

Window 9

Location	23,210,923 – 23,211,017
Length	94
Sequences	6
Columns	98
Reading direction	forward
Mean pairwise identity	77.74
Mean single sequence MFE	-27.22
Consensus MFE	-22.22
Energy contribution	-22.55
Covariance contribution	0.33
Combinations/Pair	1.14
Mean z-score	-1.99
Structure conservation index	0.82
SVM decision value	1.53
SVM RNA-class probability	0.961593
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23210923 94 + 27905053
----CCAUUUUCGUUGGCAUCCAAGCGUUUCCGCUCCAUUUGCGGGCCGUCAAAGCAACGGCCUCAGAAUUGAAACAUUGCCAGGACCAGCUCCUUAC
----........(((((..(((..((((((((((.......)))((((((.......))))))........)))))...))..))))))))....... ( -27.60)
>DroPse_CAF1 9075 89 + 1
U---GCUCUUUCCUUGGCAGAGCAACAUUUCCGCUCCAUUUGCGGGCCGUCAAAGCAACGGCUCCGGAAUUGAAACAUUGCCAACAUCA------UGC
.---((.......((((((((((.........))))((.((.((((((((.......))))).))).)).))......)))))).....------.)) ( -26.82)
>DroSec_CAF1 8539 90 + 1
----CCAUUUUCGUUGGCAUCCAAGCGUUUCCGCUCCAUUUGCGGGCCGUCAAAGCAACGGCCUCCGAAUUGAAACAUUGCCAG----GACUCCAUAC
----......((.((((((.....(((....)))((.(((((.(((((((.......))))))).))))).)).....))))))----))........ ( -27.00)
>DroWil_CAF1 8261 83 + 1
----CGAU----GGUGGCAGG-CAGCAUUUCCGCUCCAUUUGCGGGCAGUCAAAGCAACGGCCUCGGAAUUGAAACAUUGCCAACAUCA------UGC
----.(((----(.((((((.-...((.((((((.......))((((.((.......)).)))).)))).)).....)))))).)))).------... ( -27.80)
>DroAna_CAF1 2810 85 + 1
UGCCACAUUUUUGUUGGCAGGGCAGCAUUUCCGCUCCAUUUGCGGGCCGUCAAAGGAAAGGCCUCGGAAUUGAAACAUUGCCA-------------AC
(((((((....)).))))).(((((((.((((((.......))(((((.((....))..))))).)))).)).....))))).-------------.. ( -27.90)
>DroPer_CAF1 9121 89 + 1
U---GCUCUUUCCUUGGCAGAGAAACAUUUCCGCUCCAUUUGCGGGCCGUCAAAGCAACGGCUCCGGAAUUGAAACAUUGCCAACAUCA------UGC
.---((.......(((((((.(...((.((((((.......))(((((((.......))))).)))))).))...).))))))).....------.)) ( -26.22)
>consensus
____CCAUUUUCGUUGGCAGAGAAGCAUUUCCGCUCCAUUUGCGGGCCGUCAAAGCAACGGCCUCGGAAUUGAAACAUUGCCAACAUCA______UAC
..............((((((.....((.((((((.......))(((((((.......))))))).)))).)).....))))))............... (-22.22 = -22.55 +   0.33)

alignment

secondary structure

dotplot

Window 0

Location	23,210,923 – 23,211,017
Length	94
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	77.74
Mean single sequence MFE	-31.08
Consensus MFE	-21.00
Energy contribution	-21.28
Covariance contribution	0.28
Combinations/Pair	1.13
Mean z-score	-2.01
Structure conservation index	0.68
SVM decision value	1.38
SVM RNA-class probability	0.947997
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23210923 94 - 27905053
GUAAGGAGCUGGUCCUGGCAAUGUUUCAAUUCUGAGGCCGUUGCUUUGACGGCCCGCAAAUGGAGCGGAAACGCUUGGAUGCCAACGAAAAUGG----
....((.((((.((..((((((((((((....))))).)))))))..))))))))(((..(.(((((....))))).).)))............---- ( -33.80)
>DroPse_CAF1 9075 89 - 1
GCA------UGAUGUUGGCAAUGUUUCAAUUCCGGAGCCGUUGCUUUGACGGCCCGCAAAUGGAGCGGAAAUGUUGCUCUGCCAAGGAAAGAGC---A
((.------(..(.((((((..((..((.((((((.((((((.....))))))))((.......)))))).))..))..)))))).)..)..))---. ( -32.90)
>DroSec_CAF1 8539 90 - 1
GUAUGGAGUC----CUGGCAAUGUUUCAAUUCGGAGGCCGUUGCUUUGACGGCCCGCAAAUGGAGCGGAAACGCUUGGAUGCCAACGAAAAUGG----
((.(((.(((----(.(((...((((((.(((((..((((((.....))))))))).)).))))))(....)))).)))).)))))........---- ( -34.10)
>DroWil_CAF1 8261 83 - 1
GCA------UGAUGUUGGCAAUGUUUCAAUUCCGAGGCCGUUGCUUUGACUGCCCGCAAAUGGAGCGGAAAUGCUG-CCUGCCACC----AUCG----
...------.((((.(((((..((..((.(((((...(((((((...........)).)))))..))))).))..)-).))))).)----))).---- ( -28.30)
>DroAna_CAF1 2810 85 - 1
GU-------------UGGCAAUGUUUCAAUUCCGAGGCCUUUCCUUUGACGGCCCGCAAAUGGAGCGGAAAUGCUGCCCUGCCAACAAAAAUGUGGCA
((-------------(((((..((..((.(((((.((((((......)).)))))((.......)))))).))..))..)))))))............ ( -27.10)
>DroPer_CAF1 9121 89 - 1
GCA------UGAUGUUGGCAAUGUUUCAAUUCCGGAGCCGUUGCUUUGACGGCCCGCAAAUGGAGCGGAAAUGUUUCUCUGCCAAGGAAAGAGC---A
((.------(..(.((((((..((((((.((.(((.((((((.....))))))))).)).))))))((((....)))).)))))).)..)..))---. ( -30.30)
>consensus
GCA______UGAUGUUGGCAAUGUUUCAAUUCCGAGGCCGUUGCUUUGACGGCCCGCAAAUGGAGCGGAAAUGCUGCCCUGCCAACGAAAAUGG____
...............(((((....((((.((.((.(((((((.....))))))))).)).))))(((....))).....))))).............. (-21.00 = -21.28 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:17:23 2006