Locus 2568

Sequence ID	X_DroMel_CAF1
Location	6,890,974 – 6,891,194
Length	220
Max. P	0.994687

overview

Window 5

Location	6,890,974 – 6,891,075
Length	101
Sequences	4
Columns	115
Reading direction	reverse
Mean pairwise identity	80.31
Mean single sequence MFE	-19.88
Consensus MFE	-15.55
Energy contribution	-15.55
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.87
Structure conservation index	0.78
SVM decision value	0.92
SVM RNA-class probability	0.882227
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6890974 101 - 22224390
CAA--------UUCCCCAAAUACCCCAAUUCUCCACUCGGAGUUUUGAUGCU----GGCA--CUGGCACGCAUCAAAUUCCCUGCUCCUUUUUACCCAGACCUCCGCCGAUUCUC
...--------..........................(((((.((((((((.----.((.--...))..))))))))....(((............)))..)))))......... ( -17.70)
>DroSec_CAF1 15312 103 - 1
CAA--------UUCCCCA-AUCCCCCAAUUCUCCACUCGGAGUUUUGAUGCUGGCUGGCA--UUGGCACGCAUCAAAUUCCCUGCUCCUUUUU-CCCAGACCUCCACCGAUUCUC
...--------.......-...................(((((((((((((..(((....--..)))..))))))))......))))).....-..................... ( -18.80)
>DroSim_CAF1 16012 103 - 1
CAA--------UUCCCCA-AUCCCCCAAUUCUCCACUCGGAGUUUUGAUGCUGGCUGGCA--UUGGCACGCAUCAAAUUCCCUGCUCCUUUUU-UCCAGACCUCCGCCGAUUCUC
...--------.......-..................(((((.((((((((..(((....--..)))..))))))))....(((.........-..)))..)))))......... ( -19.40)
>DroYak_CAF1 17734 102 - 1
CAAUUUCCCCAAUCUCCA-AA------GUUCCUCACUUGGAGUUUUGAUGCU----GGCAGAGUGGCACGCAUCAAAUUCCCUGCUCCAGU-U-CCCGAACCUUCGCUGAUUUUC
..........((((..((-(.------((((.....((((((((((((((((----(.(.....).)).))))))))......))))))).-.-...)))).)).)..))))... ( -23.60)
>consensus
CAA________UUCCCCA_AUCCCCCAAUUCUCCACUCGGAGUUUUGAUGCU____GGCA__UUGGCACGCAUCAAAUUCCCUGCUCCUUUUU_CCCAGACCUCCGCCGAUUCUC
......................................(((((((((((((......((......))..))))))))......)))))........................... (-15.55 = -15.55 +  -0.00)

alignment

secondary structure

dotplot

Window 6

Location	6,891,075 – 6,891,194
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.80
Mean single sequence MFE	-35.31
Consensus MFE	-32.98
Energy contribution	-33.58
Covariance contribution	0.60
Combinations/Pair	1.11
Mean z-score	-1.76
Structure conservation index	0.93
SVM decision value	2.50
SVM RNA-class probability	0.994687
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6891075 119 + 22224390
GGGAAAUGGACAUGGCCAUCGUUCACUGAUGGAUAGUUCACUUGAUUGCAACUGGCAGCGGGGUGGCCACCAUCGAAAUUGAAAGCCAAGUAAAACAAACAA-AAAGCACAUUUCUCGUU
((((((((..(.((((..(((.....((((((...(..(((((..((((.....))))..)))))..).))))))....)))..)))).((.......))..-...)..))))))))... ( -33.20)
>DroSec_CAF1 15415 119 + 1
GGGGAAUGGACAUGGCCAUCGUUCACUGAUGGAUAGUUCCCUUGAUUGGAGCUGGCAGCGGGGUUGCCACCAUCGAAAUUGAAAGCCAAGUAAAACAAACAA-AAAACACAUUUCUCGUU
((((((((....((((..(((.....((((((..((((((.......))))))((((((...)))))).))))))....)))..)))).((.......))..-......))))))))... ( -37.20)
>DroSim_CAF1 16115 119 + 1
GGGGAAUGGACGUGGCCAUCGUUCACUGAUGGAUAGUUCCCUUGAUUGGAGCUGGCAGCGGGGUUGCCACCAUCGAAAUUGAAAGCCAAGUAAAACAAACAA-AAAACACAUUUCUCGUU
((((((((.((.((((..(((.....((((((..((((((.......))))))((((((...)))))).))))))....)))..)))).))...........-......))))))))... ( -37.17)
>DroEre_CAF1 14820 119 + 1
GGGGAAUGGACAUGGCCAUCGUUCACUGAUGGAUAGUUCCCUUGAUUGGAGCUGGCAGCAGGGUUGCCACCAUCGAAAUUGAAAGCCAAGUAAAACAAACAG-AAAACACAUUCCUCGUU
((((((((....((((..(((.....((((((..((((((.......))))))((((((...)))))).))))))....)))..)))).((.......))..-......))))))))... ( -40.10)
>DroYak_CAF1 17836 120 + 1
GGGGCAUGGACAUGGCCAUCGUUCGCUGAUGGAUAGUUGUCUUGAUUGGAGCUGGCAGCCGAGUUGCCACCAACGAAAUUGAAAGCCAAGUAAAACAAACAACAAAAUACAUUUCUCGUU
((((.(((.......((((((.....))))))...(((((.(((.((((...(((((((...))))))))))).....(((.....)))......))))))))......))).))))... ( -28.90)
>consensus
GGGGAAUGGACAUGGCCAUCGUUCACUGAUGGAUAGUUCCCUUGAUUGGAGCUGGCAGCGGGGUUGCCACCAUCGAAAUUGAAAGCCAAGUAAAACAAACAA_AAAACACAUUUCUCGUU
((((((((....((((..(((.....((((((..((((((.......))))))((((((...)))))).))))))....)))..)))).((.......)).........))))))))... (-32.98 = -33.58 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:57 2006