Locus 6984

Sequence ID 2L_DroMel_CAF1
Location 19,412,724 – 19,412,823
Length 99
Max. P 0.760300
window11140 window11141

overview

Window 0

Location 19,412,724 – 19,412,823
Length 99
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 74.51
Mean single sequence MFE -25.73
Consensus MFE -6.70
Energy contribution -6.95
Covariance contribution 0.25
Combinations/Pair 1.31
Mean z-score -2.58
Structure conservation index 0.26
SVM decision value 0.50
SVM RNA-class probability 0.760300
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19412724 99 + 22407834
AGUGCAUA-AAUAUGUAGACAGUGC-G-----AGGGGCAAUACUCUCGGAAAUGUAAAAGUUAGCAAUAAAAAGCUAAAUUUGUU--UACCUUACAUGCUAUGC---------ACUU---
((((((((-..(((((((......(-(-----((((......)))))).....(((((..(((((........))))).....))--))).))))))).)))))---------))).--- ( -30.00)
>DroSec_CAF1 15656 104 + 1
AGUGCAUA-AAUGUAUAGACAGUGA-AAUCCUCGGGGCAAUACUCUCGGAAAUGUAAAAGUUAGCAACAAAAUGCUAAAUUUGUU--UACCUUACAUGCUAUGC---------ACUU---
((((((((-.((((((((((((...-..(((..(((......)))..)))..........((((((......))))))..)))))--))...)))))..)))))---------))).--- ( -28.80)
>DroSim_CAF1 15918 104 + 1
AGUGCAUA-AAUGUAUAGACAGUAA-AAUCCUCGGGGCAAUACUCUCGGAAAUGUAAAAGUUAGCAACAAAAUGCUAAAUUUGUU--UACCUUACAUGCUAUGC---------ACUU---
((((((((-.((((((((((((...-..(((..(((......)))..)))..........((((((......))))))..)))))--))...)))))..)))))---------))).--- ( -28.80)
>DroEre_CAF1 15139 107 + 1
AGUGCAUG-AAUAUAUAGGCAGUAA-GAUGCUUAGGGCAAUACUCUCGGAA------AAGUUAGCAACAAAGUGCUACAUUUGUU--UACCUUACAUCCUAUGCAUAGGAUCCACUU---
.(((((((-......((((((....-..))))))(((.....)))..(((.------..((.((((......))))))...(((.--......)))))))))))))...........--- ( -20.10)
>DroYak_CAF1 15973 105 + 1
AGUGCAUG-AAUGUAUAGGCAGUAAAAAUGCUUAGGGCGAUACUCUCGGAAAUGGAUAAGUUAGCAACAAAAUGCUAAAUUUGUU--UACCUUACAUGCUAUGC---------ACUU---
((((((((-.(((((((((((.......))))))((.(((.....)))....((((((((((((((......)))).))))))))--)))).)))))..)))))---------))).--- ( -31.40)
>DroAna_CAF1 14016 110 + 1
AAAGUAUCUAAUACCUGUUCAGAAA-CUUAUUUCAGGCGAGCCUCUUGCAGACAUAAAACUUGGCAAAGAAAAGCUAAACAUCUUGUAUCUUUACAUGCCUUGC---------ACAUCAC
.((((.((((((....))).))).)-))).....((((((((.((((((.((........)).)).))))...)))........((((....)))))))))...---------....... ( -15.30)
>consensus
AGUGCAUA_AAUAUAUAGACAGUAA_AAUCCUUGGGGCAAUACUCUCGGAAAUGUAAAAGUUAGCAACAAAAUGCUAAAUUUGUU__UACCUUACAUGCUAUGC_________ACUU___
...(((((.........................((((.....)))).((...........(((((........)))))...........))........)))))................ ( -6.70 =  -6.95 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 19,412,724 – 19,412,823
Length 99
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.51
Mean single sequence MFE -25.60
Consensus MFE -7.61
Energy contribution -8.37
Covariance contribution 0.75
Combinations/Pair 1.23
Mean z-score -2.33
Structure conservation index 0.30
SVM decision value 0.23
SVM RNA-class probability 0.643017
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19412724 99 - 22407834
---AAGU---------GCAUAGCAUGUAAGGUA--AACAAAUUUAGCUUUUUAUUGCUAACUUUUACAUUUCCGAGAGUAUUGCCCCU-----C-GCACUGUCUACAUAUU-UAUGCACU
---.(((---------((((((.(((((..(((--((.....(((((........)))))..)))))......((.(((...((....-----.-))))).)))))))..)-)))))))) ( -23.10)
>DroSec_CAF1 15656 104 - 1
---AAGU---------GCAUAGCAUGUAAGGUA--AACAAAUUUAGCAUUUUGUUGCUAACUUUUACAUUUCCGAGAGUAUUGCCCCGAGGAUU-UCACUGUCUAUACAUU-UAUGCACU
---.(((---------((((((.(((((.((((--(.......(((((......)))))((((((........)))))).)))))....((((.-.....)))).))))))-)))))))) ( -29.20)
>DroSim_CAF1 15918 104 - 1
---AAGU---------GCAUAGCAUGUAAGGUA--AACAAAUUUAGCAUUUUGUUGCUAACUUUUACAUUUCCGAGAGUAUUGCCCCGAGGAUU-UUACUGUCUAUACAUU-UAUGCACU
---.(((---------((((((.(((((..(((--((.....((((((......))))))..)))))......((.((((...((....))...-.)))).))..))))))-)))))))) ( -29.30)
>DroEre_CAF1 15139 107 - 1
---AAGUGGAUCCUAUGCAUAGGAUGUAAGGUA--AACAAAUGUAGCACUUUGUUGCUAACUU------UUCCGAGAGUAUUGCCCUAAGCAUC-UUACUGCCUAUAUAUU-CAUGCACU
---..((((((..((.(((((((((((..((((--(.......(((((......)))))((((------(....))))).)))))....)))))-))).))).))...)))-)))..... ( -25.10)
>DroYak_CAF1 15973 105 - 1
---AAGU---------GCAUAGCAUGUAAGGUA--AACAAAUUUAGCAUUUUGUUGCUAACUUAUCCAUUUCCGAGAGUAUCGCCCUAAGCAUUUUUACUGCCUAUACAUU-CAUGCACU
---.(((---------((((.(.((((((((((--.......((((((......))))))............(((.....)))................))))).))))).-)))))))) ( -25.20)
>DroAna_CAF1 14016 110 - 1
GUGAUGU---------GCAAGGCAUGUAAAGAUACAAGAUGUUUAGCUUUUCUUUGCCAAGUUUUAUGUCUGCAAGAGGCUCGCCUGAAAUAAG-UUUCUGAACAGGUAUUAGAUACUUU
....(((---------...((((..(((((((...(((........))).)))))))..((((((.((....)).)))))).))))...)))((-(.(((((.......))))).))).. ( -21.70)
>consensus
___AAGU_________GCAUAGCAUGUAAGGUA__AACAAAUUUAGCAUUUUGUUGCUAACUUUUACAUUUCCGAGAGUAUUGCCCCAAGCAUU_UUACUGUCUAUACAUU_UAUGCACU
................((((...(((((.(((...........((((........))))((((((........))))))..................))).....)))))...))))... ( -7.61 =  -8.37 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:34 2006