Locus 6107

Sequence ID	X_DroMel_CAF1
Location	15,652,371 – 15,652,464
Length	93
Max. P	0.764605

overview

Window 4

Location	15,652,371 – 15,652,464
Length	93
Sequences	6
Columns	93
Reading direction	forward
Mean pairwise identity	75.44
Mean single sequence MFE	-24.80
Consensus MFE	-18.59
Energy contribution	-18.78
Covariance contribution	0.20
Combinations/Pair	1.20
Mean z-score	-0.99
Structure conservation index	0.75
SVM decision value	0.51
SVM RNA-class probability	0.764605
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15652371 93 + 22224390
GGAAUAUCACCAGCGAUAUCGGCUUUACAGUGGCGCCCUUCUCAAAUCAUUUAGAUUCCCUCGAGGAAUUCAAGGAGUUAUCGGGUGAGUGGA
......(((((..(((((.((((...........))).........((.(((..(((((.....)))))..)))))).))))))))))..... ( -19.80)
>DroVir_CAF1 55060 92 + 1
GAAA-AGCGACUUAGACAACGGCUCCAAAGUGGCGCCGUUCUCCAAACAUUUGGAUUCCCUCGAGGAAUUCAAGGCUCUCACCGGUGAGUUGU
....-.((((((((((.((((((.((.....)).)))))).))......((((((((((.....))))))))))...........)))))))) ( -31.00)
>DroGri_CAF1 51115 90 + 1
GAAA-AACGACACAGACAACGGCUCCAAAGUGGCGCCGUUCUCCAAACAUUUGGAUUCCCUCGAGGAAUUCAAGGCUCUAUCCGGUGAGUU--
....-.........((.((((((.((.....)).)))))).))......((((((((((.....))))))))))((((........)))).-- ( -26.90)
>DroSim_CAF1 3 81 + 1
------------GCGAUAUCGGCUUUACAGUGGCGCCCUUCUCAAAUCAUUUAGAUUCCCUCGAGGAAUUCAAGGAGUUAUCCGGUGAGUGGA
------------(((.(((.(......).))).)))((..((((......((..(((((.....)))))..))(((....)))..)))).)). ( -17.40)
>DroMoj_CAF1 56841 90 + 1
GAAG-AGCGACUCAGAUAACGGCUCCAAAUUGGCGCCGUUCUCCAAGCACUUGGAUUCCCUCGAGGAAUUUAAGACCCUGUCCGGUGAGUG--
....-....((((.((.((((((.((.....)).)))))).))......((((((((((.....))))))))))(((......))))))).-- ( -29.50)
>DroPer_CAF1 43933 84 + 1
AAAUU-------AAGAAAACGGCUUUAAGUUGGCGCCGUUCUCUAACCACUUGGAUUCCCUUGAGGAAUUCAAGGCAUUAUCUGGUGAGUU--
.....-------.(((.((((((...........)))))).))).((((((((((((((.....))))))))))........)))).....-- ( -24.20)
>consensus
GAAA_A_CGAC_CAGAUAACGGCUCCAAAGUGGCGCCGUUCUCCAAACAUUUGGAUUCCCUCGAGGAAUUCAAGGCGCUAUCCGGUGAGUG__
..............((.((((((.((.....)).)))))).))......((((((((((.....))))))))))................... (-18.59 = -18.78 +   0.20)

alignment

secondary structure

dotplot

Window 5

Location	15,652,371 – 15,652,464
Length	93
Sequences	6
Columns	93
Reading direction	reverse
Mean pairwise identity	75.44
Mean single sequence MFE	-26.10
Consensus MFE	-15.25
Energy contribution	-15.28
Covariance contribution	0.03
Combinations/Pair	1.27
Mean z-score	-1.59
Structure conservation index	0.58
SVM decision value	0.47
SVM RNA-class probability	0.750394
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15652371 93 - 22224390
UCCACUCACCCGAUAACUCCUUGAAUUCCUCGAGGGAAUCUAAAUGAUUUGAGAAGGGCGCCACUGUAAAGCCGAUAUCGCUGGUGAUAUUCC
.....((((((((((...((((((.....))))))(((((.....)))))......(((...........)))..)))))..)))))...... ( -23.70)
>DroVir_CAF1 55060 92 - 1
ACAACUCACCGGUGAGAGCCUUGAAUUCCUCGAGGGAAUCCAAAUGUUUGGAGAACGGCGCCACUUUGGAGCCGUUGUCUAAGUCGCU-UUUC
....((((....))))(((.(((.(((((.....))))).)))..(((((((.((((((.((.....)).)))))).)))))).))))-.... ( -31.90)
>DroGri_CAF1 51115 90 - 1
--AACUCACCGGAUAGAGCCUUGAAUUCCUCGAGGGAAUCCAAAUGUUUGGAGAACGGCGCCACUUUGGAGCCGUUGUCUGUGUCGUU-UUUC
--........((((....((((((.....))))))..))))(((((..((((.((((((.((.....)).)))))).))))...))))-)... ( -29.80)
>DroSim_CAF1 3 81 - 1
UCCACUCACCGGAUAACUCCUUGAAUUCCUCGAGGGAAUCUAAAUGAUUUGAGAAGGGCGCCACUGUAAAGCCGAUAUCGC------------
....(((...........((((((.....))))))(((((.....))))))))...(((...........)))........------------ ( -16.70)
>DroMoj_CAF1 56841 90 - 1
--CACUCACCGGACAGGGUCUUAAAUUCCUCGAGGGAAUCCAAGUGCUUGGAGAACGGCGCCAAUUUGGAGCCGUUAUCUGAGUCGCU-CUUC
--...((.((....((((........))))...)))).....((((((..((.((((((.((.....)).)))))).))..)).))))-.... ( -29.30)
>DroPer_CAF1 43933 84 - 1
--AACUCACCAGAUAAUGCCUUGAAUUCCUCAAGGGAAUCCAAGUGGUUAGAGAACGGCGCCAACUUAAAGCCGUUUUCUU-------AAUUU
--(((.(((..(((..(.((((((.....)))))).))))...))))))((((((((((...........)))))))))).-------..... ( -25.20)
>consensus
__AACUCACCGGAUAAAGCCUUGAAUUCCUCGAGGGAAUCCAAAUGAUUGGAGAACGGCGCCACUUUAAAGCCGUUAUCUC_GUCG_U_UUUC
..................((((((.....))))))..............(((.((((((...........)))))).)))............. (-15.25 = -15.28 +   0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:22 2006