Locus 7582

Sequence ID	X_DroMel_CAF1
Location	18,866,299 – 18,866,401
Length	102
Max. P	0.950924

overview

Window 5

Location	18,866,299 – 18,866,401
Length	102
Sequences	5
Columns	115
Reading direction	forward
Mean pairwise identity	76.85
Mean single sequence MFE	-33.45
Consensus MFE	-15.78
Energy contribution	-17.70
Covariance contribution	1.92
Combinations/Pair	1.19
Mean z-score	-2.27
Structure conservation index	0.47
SVM decision value	1.41
SVM RNA-class probability	0.950924
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18866299 102 + 22224390
UGCAUAGAUAACACAUUUGUGAGGGGUAAAUGUUUUUUAAAGGUUCUCCACCGCAU-------------GGUGGGAACCUGGUUGAAGGGUAAACCCCUAGAGUACCGGGCAGAA
(((........(((....)))((((((..((.((((....((((((.(((((....-------------)))))))))))....)))).))..))))))..........)))... ( -36.50)
>DroSec_CAF1 102893 101 + 1
UGCACAGUUAACCCAUUUGACAGGGGUAAAUGUUUUUUAAAGGUUCUCCACCGCA--------------GGAGGGAACCUGGUUAAAGCGUAAACCCCUGGAGUACCGGGCAGAA
...........(((...(..(((((((..(((((((....((((((.((.((...--------------)).))))))))....)))))))..)))))))..)....)))..... ( -35.90)
>DroSim_CAF1 97862 101 + 1
UGCACAGUUAACCCAUUUGACAGGGGUAAAUGUUUUUUAAAGGUUCCCCACCGCA--------------GGAGGGAACCUGGUUAAAGCGUAAACCCCUGGAGUACCGGGCAGAA
...........(((...(..(((((((..(((((((....((((((((..(....--------------)..))))))))....)))))))..)))))))..)....)))..... ( -38.60)
>DroEre_CAF1 103538 93 + 1
UGCAUAGUUGGCCCAUUUGACAGGGG-AAAUGUUUUUCAAACGU--------------------AUAUUUGCGGGAACCAGGUCGAAGGGUAAAACCCUGGAGUACCGUG-CGAA
.(((..((..(((((((((((..(((-(((....))))...(((--------------------(....))))....))..))))))(((.....)))))).))))..))-)... ( -28.00)
>DroYak_CAF1 100764 115 + 1
UGCAUAGUUAACCCAUUUGACAGGGGUAAAUGUUUUUGAAGGGUUCUCCACCGCAGGCUUAUACAUAUAUGUGGAAAACAGGUUGAGGGACAAACCCCUGGAGUGCCGAGCCGAA
.((...(((.((((.........)))).)))..........(((.((((.(((((..............)))))...........((((......)))))))).)))..)).... ( -28.24)
>consensus
UGCAUAGUUAACCCAUUUGACAGGGGUAAAUGUUUUUUAAAGGUUCUCCACCGCA______________GGAGGGAACCUGGUUGAAGGGUAAACCCCUGGAGUACCGGGCAGAA
....................(((((((..((.((((....((((((((........................))))))))....)))).))..)))))))............... (-15.78 = -17.70 +   1.92)

alignment

secondary structure

dotplot

Window 6

Location	18,866,299 – 18,866,401
Length	102
Sequences	5
Columns	115
Reading direction	reverse
Mean pairwise identity	76.85
Mean single sequence MFE	-29.21
Consensus MFE	-14.28
Energy contribution	-17.08
Covariance contribution	2.80
Combinations/Pair	1.10
Mean z-score	-2.25
Structure conservation index	0.49
SVM decision value	1.39
SVM RNA-class probability	0.948862
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18866299 102 - 22224390
UUCUGCCCGGUACUCUAGGGGUUUACCCUUCAACCAGGUUCCCACC-------------AUGCGGUGGAGAACCUUUAAAAAACAUUUACCCCUCACAAAUGUGUUAUCUAUGCA
....((..((((....((((((.............(((((((((((-------------....))))).)))))).............))))))(((....))).))))...)). ( -30.77)
>DroSec_CAF1 102893 101 - 1
UUCUGCCCGGUACUCCAGGGGUUUACGCUUUAACCAGGUUCCCUCC--------------UGCGGUGGAGAACCUUUAAAAAACAUUUACCCCUGUCAAAUGGGUUAACUGUGCA
....((.(((((((((((((((.............((((((((.((--------------...)).)).)))))).............)))))))......))))..)))).)). ( -31.57)
>DroSim_CAF1 97862 101 - 1
UUCUGCCCGGUACUCCAGGGGUUUACGCUUUAACCAGGUUCCCUCC--------------UGCGGUGGGGAACCUUUAAAAAACAUUUACCCCUGUCAAAUGGGUUAACUGUGCA
....((.(((((((((((((((.............((((((((..(--------------....)..)))))))).............)))))))......))))..)))).)). ( -35.27)
>DroEre_CAF1 103538 93 - 1
UUCG-CACGGUACUCCAGGGUUUUACCCUUCGACCUGGUUCCCGCAAAUAU--------------------ACGUUUGAAAAACAUUU-CCCCUGUCAAAUGGGCCAACUAUGCA
...(-(((((....(((((..............)))))...)))(((((..--------------------..)))))..........-.(((........))).......))). ( -18.74)
>DroYak_CAF1 100764 115 - 1
UUCGGCUCGGCACUCCAGGGGUUUGUCCCUCAACCUGUUUUCCACAUAUAUGUAUAAGCCUGCGGUGGAGAACCCUUCAAAAACAUUUACCCCUGUCAAAUGGGUUAACUAUGCA
...((((((......(((((((.(((..........(((((((((...((.((....)).))..))))))))).........)))...))))))).....))))))......... ( -29.71)
>consensus
UUCUGCCCGGUACUCCAGGGGUUUACCCUUCAACCAGGUUCCCACC______________UGCGGUGGAGAACCUUUAAAAAACAUUUACCCCUGUCAAAUGGGUUAACUAUGCA
....(((((......(((((((.............((((((((.(...................).)).)))))).............))))))).....))))).......... (-14.28 = -17.08 +   2.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:35 2006