Locus 8101

Sequence ID	3L_DroMel_CAF1
Location	21,324,463 – 21,324,560
Length	97
Max. P	0.998031

overview

Window 2

Location	21,324,463 – 21,324,560
Length	97
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	67.45
Mean single sequence MFE	-25.69
Consensus MFE	-10.09
Energy contribution	-10.07
Covariance contribution	-0.02
Combinations/Pair	1.26
Mean z-score	-2.33
Structure conservation index	0.39
SVM decision value	1.84
SVM RNA-class probability	0.979384
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21324463 97 + 23771897
A-----UAGUUGCGUGCAACUAUGCUCUGCUGAUAAGAUAACC---AGGUUAGGAUUAGUCCAGGAGAACCCUAGACCUAUCUUAUCUGGCAGCAGAGUGUAAGC
(-----((((((....)))))))(((((((((.........((---((((.(((((..(((.(((.....))).)))..))))))))))))))))))))...... ( -38.90)
>DroSec_CAF1 27636 85 + 1
G-----UAGUUGUGAGCAACUAUGCUGUGCUGAUAAGAUAACC---AGGUC---------GCAGGAUUACCCUAGA---AUCUUAUCUGGCAGGAGAGUGUAAAC
(-----((((((....)))))))(((.(.(((...((((((..---...((---------..(((.....))).))---...))))))..))).).)))...... ( -23.10)
>DroSim_CAF1 27684 80 + 1
G-----UAGUUGCGAGCAACUAUGCUGUGCUGAUAAGAUAACC---AGGUC---------GCAGGAUUACCCUAGA---AUCUUAUCUGGCCGCAG-----CAAC
(-----((((((....)))))))((((((((((((((((....---...((---------..(((.....))).))---)))))))).)).)))))-----)... ( -27.51)
>DroEre_CAF1 29574 80 + 1
G-----UAGUUGCGUGCAACUACG-----CAGAUAAGAUAACU---AAGUC---------UCAGGAUCGCCCCAGA---AUCUUAUCUGUCGGAAGAGUCUGAGC
(-----((((((....))))))).-----((((((((((....---...((---------(..((....))..)))---))))))))))(((((....))))).. ( -25.11)
>DroYak_CAF1 53927 79 + 1
G-----UAGUUGCGUGAAACUAUG-----CAGAUAAGAUAGCU---AGGUC---------UCAGGAUUACC-CUGA---AUCUUAUCUGACAGAAGAGUCUGAAC
(-----(((((......)))))).-----((((((((((....---.....---------(((((.....)-))))---)))))))))).((((....))))... ( -23.80)
>DroAna_CAF1 46049 88 + 1
CAUUUUGAAUUCUCUGGAACUG-GUUGGGAAGAUAAGAUAACCCAGAAGUC---------UCAAGUUUAUCUGAAA---AUCUUAUCUUUUUG-UGAGUGUG---
..................(((.-..(..(((((((((((....((((....---------.........))))...---)))))))))))..)-..)))...--- ( -15.72)
>consensus
G_____UAGUUGCGUGCAACUAUGCUGUGCAGAUAAGAUAACC___AGGUC_________UCAGGAUUACCCUAGA___AUCUUAUCUGGCAGAAGAGUGUGAAC
......((((((....)))))).........((((((((.(((....))).............((.....)).......)))))))).................. (-10.09 = -10.07 +  -0.02)

alignment

secondary structure

dotplot

Window 3

Location	21,324,463 – 21,324,560
Length	97
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	67.45
Mean single sequence MFE	-24.54
Consensus MFE	-12.08
Energy contribution	-12.08
Covariance contribution	0.00
Combinations/Pair	1.32
Mean z-score	-2.95
Structure conservation index	0.49
SVM decision value	2.99
SVM RNA-class probability	0.998031
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21324463 97 - 23771897
GCUUACACUCUGCUGCCAGAUAAGAUAGGUCUAGGGUUCUCCUGGACUAAUCCUAACCU---GGUUAUCUUAUCAGCAGAGCAUAGUUGCACGCAACUA-----U
.......(((((((....(((((((((((((((((.....))))))))...((......---)).)))))))))))))))).(((((((....))))))-----) ( -37.70)
>DroSec_CAF1 27636 85 - 1
GUUUACACUCUCCUGCCAGAUAAGAU---UCUAGGGUAAUCCUGC---------GACCU---GGUUAUCUUAUCAGCACAGCAUAGUUGCUCACAACUA-----C
.............(((..((((((((---.(((((..........---------..)))---))..)))))))).))).....((((((....))))))-----. ( -21.40)
>DroSim_CAF1 27684 80 - 1
GUUG-----CUGCGGCCAGAUAAGAU---UCUAGGGUAAUCCUGC---------GACCU---GGUUAUCUUAUCAGCACAGCAUAGUUGCUCGCAACUA-----C
..((-----(((..((..((((((((---.(((((..........---------..)))---))..)))))))).)).)))))((((((....))))))-----. ( -28.90)
>DroEre_CAF1 29574 80 - 1
GCUCAGACUCUUCCGACAGAUAAGAU---UCUGGGGCGAUCCUGA---------GACUU---AGUUAUCUUAUCUG-----CGUAGUUGCACGCAACUA-----C
..............(.((((((((((---.(((((.(........---------).)))---))..))))))))))-----)(((((((....))))))-----) ( -24.90)
>DroYak_CAF1 53927 79 - 1
GUUCAGACUCUUCUGUCAGAUAAGAU---UCAG-GGUAAUCCUGA---------GACCU---AGCUAUCUUAUCUG-----CAUAGUUUCACGCAACUA-----C
.....((..((..((.((((((((((---((((-(.....)))))---------.....---....))))))))))-----)).))..)).........-----. ( -19.30)
>DroAna_CAF1 46049 88 - 1
---CACACUCA-CAAAAAGAUAAGAU---UUUCAGAUAAACUUGA---------GACUUCUGGGUUAUCUUAUCUUCCCAAC-CAGUUCCAGAGAAUUCAAAAUG
---........-....((((((((((---.((((((.........---------....))))))..))))))))))......-.(((((....)))))....... ( -15.02)
>consensus
GUUCACACUCUGCUGCCAGAUAAGAU___UCUAGGGUAAUCCUGA_________GACCU___GGUUAUCUUAUCAGCACAGCAUAGUUGCACGCAACUA_____C
..................((((((((.....((((.....))))..........((((....)))))))))))).........((((((....))))))...... (-12.08 = -12.08 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:21 2006