Locus 5337

Sequence ID	3L_DroMel_CAF1
Location	14,737,584 – 14,737,677
Length	93
Max. P	0.912266

overview

Window 5

Location	14,737,584 – 14,737,677
Length	93
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	61.80
Mean single sequence MFE	-37.57
Consensus MFE	-10.13
Energy contribution	-10.47
Covariance contribution	0.34
Combinations/Pair	1.53
Mean z-score	-2.49
Structure conservation index	0.27
SVM decision value	0.88
SVM RNA-class probability	0.872815
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14737584 93 + 23771897
UGUGGAUAUCCUGUAG---CCUGUUG------CUGGGACUGAGCAUACCCAGCUAGAUGUUGUUGAGGUGUCUG------UGGAUAUCCAGUCUGUUGCUGCUGUGC------U----
..(((((((((..(((---(((....------..))).)))((.(((((((((........)))).))))))).------.))))))))).......((......))------.---- ( -29.50)
>DroSec_CAF1 2679 99 + 1
UGUGGAUAUCCAGUAG---CCUGUUG------CUGGGACUGAGGAUACCCAGCUAGCUGUUGCUGAGGUGUCUG------CGGAUAUCCAGUCUGUUGGUGCUGUGGUGUCUGU----
.(..((((((((((((---(..((((------(((((..........)))))).))).))))))).))))))..------)(((((((((((........)))).)))))))..---- ( -43.90)
>DroEre_CAF1 2649 103 + 1
UGGGGAUACCCUGUAG---CCUGUUG------CUGGGGCUGCGGAUACCCAGCCAUCUGCUGCUGUGGUGCCUG------UGGAUAUCCAGUCUGUUGCUGCUGAGGUGUCUGUUGCU
...((((((((.((((---(.....(------(((((.(..(((.((((((((........)))).)))).)))------..)...)))))).....))))).).)))))))...... ( -43.80)
>DroYak_CAF1 2646 94 + 1
UGGGGAUAUCCUGUAG---CCUGUUG------CUGGGACUGAGGAUAACCAGUCAUCUGUUGCUG---------------UGGAUAUCCAGUCUGUUGCUGCUGAGGUGUCUGUUGCU
...((((((((.((((---(.....(------(((((((((.(.....))))))(((..(....)---------------..)))..))))).....))))).).)))))))...... ( -31.20)
>DroMoj_CAF1 4539 91 + 1
UGUGGAUAAUUGGUUG---CCUGCUGAGACGUCUGCGUCUGUGGAUAACUGCCUGGU---UGUUGAGAUGUCUGUGUCUGCGGGUAACUUCCCGAGG---------------------
.(.(((.....(((((---(((((.((.(((...((((((...(((((((....)))---)))).)))))).))).)).))))))))))))))....--------------------- ( -32.40)
>DroAna_CAF1 2806 94 + 1
UGUGGGUAUCCAGUGGACACCUGCUGUGGAGUCUGAGACUGCGGAUAUCCACUUGGUUGUUG------CGUCUG------CGGAUACCCAGCAGGCUGCUGCUGGG------------
.........((((..(.(((((((((.((.(((((((((.((((....((....))...)))------))))).------))))).))))))))).)))..)))).------------ ( -44.60)
>consensus
UGUGGAUAUCCUGUAG___CCUGUUG______CUGGGACUGAGGAUACCCAGCUAGCUGUUGCUGAGGUGUCUG______CGGAUAUCCAGUCUGUUGCUGCUGAGG______U____
...((((((((........(((............)))............((((........))))................))))))))............................. (-10.13 = -10.47 +   0.34)

alignment

secondary structure

dotplot

Window 6

Location	14,737,584 – 14,737,677
Length	93
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	61.80
Mean single sequence MFE	-26.32
Consensus MFE	-8.30
Energy contribution	-8.63
Covariance contribution	0.34
Combinations/Pair	1.46
Mean z-score	-2.33
Structure conservation index	0.32
SVM decision value	1.08
SVM RNA-class probability	0.912266
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14737584 93 - 23771897
----A------GCACAGCAGCAACAGACUGGAUAUCCA------CAGACACCUCAACAACAUCUAGCUGGGUAUGCUCAGUCCCAG------CAACAGG---CUACAGGAUAUCCACA
----.------((......)).......(((((((((.------..((....))...........((((((.((.....)))))))------)......---.....))))))))).. ( -26.00)
>DroSec_CAF1 2679 99 - 1
----ACAGACACCACAGCACCAACAGACUGGAUAUCCG------CAGACACCUCAGCAACAGCUAGCUGGGUAUCCUCAGUCCCAG------CAACAGG---CUACUGGAUAUCCACA
----........................((((((((((------(.((....)).))...((((.((((((..........)))))------)....))---))...))))))))).. ( -28.80)
>DroEre_CAF1 2649 103 - 1
AGCAACAGACACCUCAGCAGCAACAGACUGGAUAUCCA------CAGGCACCACAGCAGCAGAUGGCUGGGUAUCCGCAGCCCCAG------CAACAGG---CUACAGGGUAUCCCCA
.((...((....))..))...........((((((((.------...((......))(((.....((((((..........)))))------).....)---))...))))))))... ( -28.30)
>DroYak_CAF1 2646 94 - 1
AGCAACAGACACCUCAGCAGCAACAGACUGGAUAUCCA---------------CAGCAACAGAUGACUGGUUAUCCUCAGUCCCAG------CAACAGG---CUACAGGAUAUCCCCA
.((...((....))..))...........((((((((.---------------...........((((((......))))))..((------(.....)---))...))))))))... ( -21.10)
>DroMoj_CAF1 4539 91 - 1
---------------------CCUCGGGAAGUUACCCGCAGACACAGACAUCUCAACA---ACCAGGCAGUUAUCCACAGACGCAGACGUCUCAGCAGG---CAACCAAUUAUCCACA
---------------------.((((((......)))).)).................---....((..(((......(((((....))))).....))---)..))........... ( -14.00)
>DroAna_CAF1 2806 94 - 1
------------CCCAGCAGCAGCCUGCUGGGUAUCCG------CAGACG------CAACAACCAAGUGGAUAUCCGCAGUCUCAGACUCCACAGCAGGUGUCCACUGGAUACCCACA
------------...(((((....)))))(((((((((------(....)------)........((((((((((.((((((...)))).....)).))))))))))))))))))... ( -39.70)
>consensus
____A______CCACAGCAGCAACAGACUGGAUAUCCA______CAGACACCUCAGCAACAGCUAGCUGGGUAUCCUCAGUCCCAG______CAACAGG___CUACAGGAUAUCCACA
.............................((((((((...............................((((.......))))..............(.......).))))))))... ( -8.30 =  -8.63 +   0.34)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:39 2006