Locus 2648

Sequence ID	3L_DroMel_CAF1
Location	7,335,387 – 7,335,491
Length	104
Max. P	0.641991

overview

Window 1

Location	7,335,387 – 7,335,491
Length	104
Sequences	5
Columns	105
Reading direction	forward
Mean pairwise identity	91.86
Mean single sequence MFE	-23.14
Consensus MFE	-18.12
Energy contribution	-18.20
Covariance contribution	0.08
Combinations/Pair	1.21
Mean z-score	-1.51
Structure conservation index	0.78
SVM decision value	0.11
SVM RNA-class probability	0.586695
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7335387 104 + 23771897
UCAUGCUGUGCUU-GUGCACUUUGCACACACGCUCACUGACCAAUCGGCUGCUCUCUCACGAUUUUCCUCUCGCGAGAUUUUCAUUUCUGUAGCGCUGGCAUUCC
..(((((((((((-((((.....))))).((((...((((....))))..))..((((.(((........))).))))...........))))))).)))))... ( -27.50)
>DroSec_CAF1 533 104 + 1
UCAUGCUGAGCUU-GUGCACUUUGCACACACGCUCACUGACCAAUCGGCUGCUCUCUCACGAUUUUCCUCUCGCGAGAUUUCCAUUUCUGUAGCGCUGGCAUUCC
..(((((((((.(-((((.....)))))...))))............(((((..((((.(((........))).))))...........)))))...)))))... ( -28.32)
>DroSim_CAF1 533 104 + 1
UCAUGCUGUGCUU-GUGCACUUUGCACACACGCUCACUGACCAAUCGGCUGCUCUCUCACGAUUUUCCUCUCGCGAGAUUUCCAUUUCUGUAGCGCUGGCAUUCC
..(((((((((((-((((.....))))).((((...((((....))))..))..((((.(((........))).))))...........))))))).)))))... ( -27.50)
>DroEre_CAF1 520 104 + 1
UCUUGCUGUGUUU-GUGUACUUUGCACACACGCUCACUGACCAAUCGGCUCCUCUCUCAAGAUUUUCCUCUCGCGAUAUUUUCAUUUCUGUAACGCUGGCAUUCC
(((((..((((.(-((((.....))))).))))...((((....)))).........)))))..........(((.(((..........))).)))......... ( -17.40)
>DroYak_CAF1 538 105 + 1
UCUUGUUGUAUUUCGUGCACUUUGCACACACGCUCGCUGACCAAUCGUGUACUCUUUUAAGAUUUUCCUCUCUCGAGAUUUUCAUUUCUGUAACGCUGGCAUUCC
..............((((.....))))....(((.((..((.....(((...((((...(((......)))...))))....)))....))...)).)))..... ( -15.00)
>consensus
UCAUGCUGUGCUU_GUGCACUUUGCACACACGCUCACUGACCAAUCGGCUGCUCUCUCACGAUUUUCCUCUCGCGAGAUUUUCAUUUCUGUAGCGCUGGCAUUCC
...(((((((((..((((.....))))(((.((...((((....))))..))..((((.(((........))).))))..........)))))))).)))).... (-18.12 = -18.20 +   0.08)

alignment

secondary structure

dotplot

Window 2

Location	7,335,387 – 7,335,491
Length	104
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	91.86
Mean single sequence MFE	-29.58
Consensus MFE	-21.34
Energy contribution	-22.10
Covariance contribution	0.76
Combinations/Pair	1.11
Mean z-score	-2.14
Structure conservation index	0.72
SVM decision value	0.22
SVM RNA-class probability	0.641991
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7335387 104 - 23771897
GGAAUGCCAGCGCUACAGAAAUGAAAAUCUCGCGAGAGGAAAAUCGUGAGAGAGCAGCCGAUUGGUCAGUGAGCGUGUGUGCAAAGUGCAC-AAGCACAGCAUGA
...((((..(((((.((....))....((((((((........)))))))).))).(((....)))......))((((((((.....))))-..)))).)))).. ( -33.10)
>DroSec_CAF1 533 104 - 1
GGAAUGCCAGCGCUACAGAAAUGGAAAUCUCGCGAGAGGAAAAUCGUGAGAGAGCAGCCGAUUGGUCAGUGAGCGUGUGUGCAAAGUGCAC-AAGCUCAGCAUGA
...((((..(((((.((....))....((((((((........)))))))).))).))...........(((((...(((((.....))))-).))))))))).. ( -36.40)
>DroSim_CAF1 533 104 - 1
GGAAUGCCAGCGCUACAGAAAUGGAAAUCUCGCGAGAGGAAAAUCGUGAGAGAGCAGCCGAUUGGUCAGUGAGCGUGUGUGCAAAGUGCAC-AAGCACAGCAUGA
...((((..(((((.((....))....((((((((........)))))))).))).(((....)))......))((((((((.....))))-..)))).)))).. ( -33.30)
>DroEre_CAF1 520 104 - 1
GGAAUGCCAGCGUUACAGAAAUGAAAAUAUCGCGAGAGGAAAAUCUUGAGAGAGGAGCCGAUUGGUCAGUGAGCGUGUGUGCAAAGUACAC-AAACACAGCAAGA
....(((..((.((((.((.((....)).)).(((..((....((((....))))..))..)))....)))))).(((((((...))))))-)......)))... ( -23.50)
>DroYak_CAF1 538 105 - 1
GGAAUGCCAGCGUUACAGAAAUGAAAAUCUCGAGAGAGGAAAAUCUUAAAAGAGUACACGAUUGGUCAGCGAGCGUGUGUGCAAAGUGCACGAAAUACAACAAGA
.(...(((((((((((...........((((....))))....(((....)))))).))).)))))...)....((((((((.....))))...))))....... ( -21.60)
>consensus
GGAAUGCCAGCGCUACAGAAAUGAAAAUCUCGCGAGAGGAAAAUCGUGAGAGAGCAGCCGAUUGGUCAGUGAGCGUGUGUGCAAAGUGCAC_AAGCACAGCAUGA
.....(((((((...((....))....((((((((........)))))))).......)).)))))......((((((((((.....))))...)))).)).... (-21.34 = -22.10 +   0.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:26 2006