Locus 3732

Sequence ID	3L_DroMel_CAF1
Location	10,801,163 – 10,801,256
Length	93
Max. P	0.863063

overview

Window 7

Location	10,801,163 – 10,801,256
Length	93
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	74.25
Mean single sequence MFE	-19.55
Consensus MFE	-11.60
Energy contribution	-11.77
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-1.55
Structure conservation index	0.59
SVM decision value	0.58
SVM RNA-class probability	0.789787
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10801163 93 + 23771897
---------UUCCUUUGCCAUUUUUAUUGUUCUUGGCACACACAACUUCAUUUUAGCCCACUU--UUGGGUGGUUUAUUUUUAUGGCUCCAUCCCC-----AAAGUUCC-----------
---------......(((((.............))))).....................((((--(.((((((.((((....))))..))).))).-----)))))...----------- ( -16.42)
>DroVir_CAF1 28246 106 + 1
CGUGCGUCCUCUGCCUGCCAUUUUUAUUGUUCUUUGCAC--AGAACUUCAUUUUAGCCCACUUU-UUGGGUGGUUUAUUUUUAUGGCUCCAUAUCAUGCCCGCACCGCC-----------
.(((((..........(((.........(((((......--))))).........(((((....-.))))))))..........(((..........))))))))....----------- ( -23.00)
>DroPse_CAF1 91589 105 + 1
---------UGCCUUUACCAUUUUUAUUGUUCUUCGCACACACAACUUCAUUUUAGCCCACUUU-UUGGGUGGUUUAUUUUUAUGGCUCCAUCCCU-----GGAGGAGCCCCCGCCCAGC
---------(((......((.......))......)))..........................-((((((((...........((((((.((...-----.)))))))).)))))))). ( -23.60)
>DroGri_CAF1 28559 94 + 1
------------GCCUGCCAUUUUUAUUGUUCUUUGCAC--ACAACUUCAUUUUAGCCCACUUUUUUGGGUGGCUUAUUUGUAUGGCUCCAUAUCAUGACG-CCCUUAC-----------
------------....(((........(((.....))).--..............(((((......))))))))......(((.(((((........)).)-))..)))----------- ( -15.50)
>DroMoj_CAF1 23468 96 + 1
---------CUGGCUUGCCAUUUUUAUUGUUCUUUGCAC--ACAACUUCAUUGUAGCCCACUUU-UUGGGUGGUUUAUUUUUAUGGCUCCAUAUCAGGGCC-CUCUGCC-----------
---------..(((..(((....................--((((.....)))).(((((....-.))))))))..........(((.((......)))))-....)))----------- ( -18.90)
>DroAna_CAF1 5076 104 + 1
---------UUCCUUUGCCAUUUUUAUUGUUCUUGGCACACACAACUUCAUUUUAGCCCACUUU-UUGGGUGGUUUAUUUUUAUGGCUCCAUCCCU-----GAAUUUGUCCC-GGCGAGC
---------....((((((....................................(((((....-.)))))((..((..((((.((......)).)-----)))..))..))-)))))). ( -19.90)
>consensus
_________UUCCCUUGCCAUUUUUAUUGUUCUUUGCAC__ACAACUUCAUUUUAGCCCACUUU_UUGGGUGGUUUAUUUUUAUGGCUCCAUACCA_____GCACUUCC___________
................(((((......(((.....))).................(((((......)))))...........)))))................................. (-11.60 = -11.77 +   0.17)

alignment

secondary structure

dotplot

Window 8

Location	10,801,163 – 10,801,256
Length	93
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	74.25
Mean single sequence MFE	-22.26
Consensus MFE	-12.52
Energy contribution	-12.55
Covariance contribution	0.03
Combinations/Pair	1.07
Mean z-score	-1.76
Structure conservation index	0.56
SVM decision value	0.84
SVM RNA-class probability	0.863063
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10801163 93 - 23771897
-----------GGAACUUU-----GGGGAUGGAGCCAUAAAAAUAAACCACCCAA--AAGUGGGCUAAAAUGAAGUUGUGUGUGCCAAGAACAAUAAAAAUGGCAAAGGAA---------
-----------((.(((((-----.(((.(((...............)))))).)--))))...))................(((((.............)))))......--------- ( -15.58)
>DroVir_CAF1 28246 106 - 1
-----------GGCGGUGCGGGCAUGAUAUGGAGCCAUAAAAAUAAACCACCCAA-AAAGUGGGCUAAAAUGAAGUUCU--GUGCAAAGAACAAUAAAAAUGGCAGGCAGAGGACGCACG
-----------....((((.(((....((((....))))........((((....-...)))))))........(((((--.(((......((.......))....))).))))))))). ( -27.00)
>DroPse_CAF1 91589 105 - 1
GCUGGGCGGGGGCUCCUCC-----AGGGAUGGAGCCAUAAAAAUAAACCACCCAA-AAAGUGGGCUAAAAUGAAGUUGUGUGUGCGAAGAACAAUAAAAAUGGUAAAGGCA---------
(((.......((((((((.-----...)).))))))..........((((((((.-....))))..........(((((...........))))).....))))...))).--------- ( -27.30)
>DroGri_CAF1 28559 94 - 1
-----------GUAAGGG-CGUCAUGAUAUGGAGCCAUACAAAUAAGCCACCCAAAAAAGUGGGCUAAAAUGAAGUUGU--GUGCAAAGAACAAUAAAAAUGGCAGGC------------
-----------(((..((-(..(((...)))..))).)))......((((((((......))))..........(((((--.........))))).....))))....------------ ( -20.80)
>DroMoj_CAF1 23468 96 - 1
-----------GGCAGAG-GGCCCUGAUAUGGAGCCAUAAAAAUAAACCACCCAA-AAAGUGGGCUACAAUGAAGUUGU--GUGCAAAGAACAAUAAAAAUGGCAAGCCAG---------
-----------(((....-...((......)).(((((.........((((....-...))))((((((((...)))))--).))..............)))))..)))..--------- ( -24.00)
>DroAna_CAF1 5076 104 - 1
GCUCGCC-GGGACAAAUUC-----AGGGAUGGAGCCAUAAAAAUAAACCACCCAA-AAAGUGGGCUAAAAUGAAGUUGUGUGUGCCAAGAACAAUAAAAAUGGCAAAGGAA---------
((((((.-.(((....)))-----.(((.(((...............))))))..-...)))))).................(((((.............)))))......--------- ( -18.88)
>consensus
___________GGAAGUGC_____UGAGAUGGAGCCAUAAAAAUAAACCACCCAA_AAAGUGGGCUAAAAUGAAGUUGU__GUGCAAAGAACAAUAAAAAUGGCAAACGAA_________
.................................(((((.........((((........))))...........(((((...........)))))....)))))................ (-12.52 = -12.55 +   0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:24 2006