Locus 545

Sequence ID	3L_DroMel_CAF1
Location	1,575,554 – 1,575,651
Length	97
Max. P	0.727888

overview

Window 4

Location	1,575,554 – 1,575,651
Length	97
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.07
Mean single sequence MFE	-24.55
Consensus MFE	-15.75
Energy contribution	-15.95
Covariance contribution	0.20
Combinations/Pair	1.17
Mean z-score	-1.89
Structure conservation index	0.64
SVM decision value	0.42
SVM RNA-class probability	0.727888
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1575554 97 + 23771897
UCUGCCCGUAUCAGAUUUCAAAUGCAGCGCCAUUCG-----------------------UUUGGCAUGCACUUGCUUCCGAGAUAACAAAUUGCCAUGGAAAUUGAAAUUCUAUAUGUUU
......(((((..((((((((.((((..((((....-----------------------..)))).)))).....(((((.(.(((....))).).))))).))))))))..)))))... ( -23.30)
>DroSec_CAF1 19818 97 + 1
UCUUCCCGUAUCAGAUUUCAAAUGCAGCGCCAUUCG-----------------------UUUGGCAUGCACUUGCUUCCGAGAUAACAAAUUGCCAUGGAAAUUGAAAUUCUAUAUGUUU
......(((((..((((((((.((((..((((....-----------------------..)))).)))).....(((((.(.(((....))).).))))).))))))))..)))))... ( -23.30)
>DroSim_CAF1 20182 97 + 1
UCUUCCCGUAUCAGAUUUCAAAUGCAGCGCCAUUCG-----------------------UUUGGCAUGCACUUGCUUCCGAGAUAACAAAUUGCCAUGGAAAUUGAAAUUCUAUAUGUUU
......(((((..((((((((.((((..((((....-----------------------..)))).)))).....(((((.(.(((....))).).))))).))))))))..)))))... ( -23.30)
>DroEre_CAF1 26854 95 + 1
U--CCCCAUAUCGUAUUUCAAACGCAGCGCCACUCG-----------------------CUUGGCAUGCACUUGCUUCCGAGAUAACAAAUUGCCAUGGAAAUGGAAAUUCCAUAUGCUU
.--...(((((.(.(((((....(((..((((....-----------------------..)))).))).((((....))))............(((....)))))))).).)))))... ( -19.40)
>DroYak_CAF1 20893 95 + 1
U--CCCCAUAUUGAAUUUCAAACGCAGCGCCACUCG-----------------------CCUGGCAUGCACUUGCUACCGAGAUAGCAAAUUGCCAUGGAAACGGAAAUUCUAUAUGUUU
.--...(((((.(((((((....(((..((((....-----------------------..)))).)))..((((((......)))))).......((....))))))))).)))))... ( -27.10)
>DroAna_CAF1 28462 118 + 1
U--CCUCGUAUUGAGUUUCAAACGAAGCGCCCUGCCUGCCGGCCAGUUGCCAGUUGCCAGUUUGCAUUCACUUGCUUCCGAGAUAACAAAUUGCAAUUGAAAUUGAAAUUCUAUAUGUUU
.--...(((((.(((((((((.....(((.(..(((....)))..).)))(((((((.((((((......((((....))))....)))))))))))))...))))))))).)))))... ( -30.90)
>consensus
U__CCCCGUAUCAGAUUUCAAACGCAGCGCCAUUCG_______________________UUUGGCAUGCACUUGCUUCCGAGAUAACAAAUUGCCAUGGAAAUUGAAAUUCUAUAUGUUU
......(((((..((((((((..(((..((((.............................)))).))).((((....))))....................))))))))..)))))... (-15.75 = -15.95 +   0.20)

alignment

secondary structure

dotplot

Window 5

Location	1,575,554 – 1,575,651
Length	97
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.07
Mean single sequence MFE	-28.68
Consensus MFE	-15.98
Energy contribution	-16.57
Covariance contribution	0.59
Combinations/Pair	1.22
Mean z-score	-2.27
Structure conservation index	0.56
SVM decision value	0.35
SVM RNA-class probability	0.702122
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1575554 97 - 23771897
AAACAUAUAGAAUUUCAAUUUCCAUGGCAAUUUGUUAUCUCGGAAGCAAGUGCAUGCCAAA-----------------------CGAAUGGCGCUGCAUUUGAAAUCUGAUACGGGCAGA
.....(((.(((.......))).)))....((((((...(((((..(((((((((((((..-----------------------....))))).))))))))...)))))....)))))) ( -25.60)
>DroSec_CAF1 19818 97 - 1
AAACAUAUAGAAUUUCAAUUUCCAUGGCAAUUUGUUAUCUCGGAAGCAAGUGCAUGCCAAA-----------------------CGAAUGGCGCUGCAUUUGAAAUCUGAUACGGGAAGA
..................((((((((((.....))))).(((((..(((((((((((((..-----------------------....))))).))))))))...)))))...))))).. ( -28.10)
>DroSim_CAF1 20182 97 - 1
AAACAUAUAGAAUUUCAAUUUCCAUGGCAAUUUGUUAUCUCGGAAGCAAGUGCAUGCCAAA-----------------------CGAAUGGCGCUGCAUUUGAAAUCUGAUACGGGAAGA
..................((((((((((.....))))).(((((..(((((((((((((..-----------------------....))))).))))))))...)))))...))))).. ( -28.10)
>DroEre_CAF1 26854 95 - 1
AAGCAUAUGGAAUUUCCAUUUCCAUGGCAAUUUGUUAUCUCGGAAGCAAGUGCAUGCCAAG-----------------------CGAGUGGCGCUGCGUUUGAAAUACGAUAUGGGG--A
..((.(((((((.......)))))))))...((.((((.(((....(((((((((((((..-----------------------....))))).)))))))).....))).)))).)--) ( -27.90)
>DroYak_CAF1 20893 95 - 1
AAACAUAUAGAAUUUCCGUUUCCAUGGCAAUUUGCUAUCUCGGUAGCAAGUGCAUGCCAGG-----------------------CGAGUGGCGCUGCGUUUGAAAUUCAAUAUGGGG--A
...(((((.((((((((((.....((((((((((((((....)))))))))...)))))((-----------------------((.....)))))))...))))))).)))))...--. ( -32.50)
>DroAna_CAF1 28462 118 - 1
AAACAUAUAGAAUUUCAAUUUCAAUUGCAAUUUGUUAUCUCGGAAGCAAGUGAAUGCAAACUGGCAACUGGCAACUGGCCGGCAGGCAGGGCGCUUCGUUUGAAACUCAAUACGAGG--A
...................((((.((((..((((......)))).)))).)))).((...(((.(..(((((.....)))))..).))).)).(((((((((.....))).))))))--. ( -29.90)
>consensus
AAACAUAUAGAAUUUCAAUUUCCAUGGCAAUUUGUUAUCUCGGAAGCAAGUGCAUGCCAAA_______________________CGAAUGGCGCUGCAUUUGAAAUCCGAUACGGGG__A
...................(((((((((.....))))).(((((..(((((((((((((.............................))))).))))))))...)))))...))))... (-15.98 = -16.57 +   0.59)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:59 2006