Locus 2388

Sequence ID	X_DroMel_CAF1
Location	6,373,645 – 6,373,740
Length	95
Max. P	0.995280

overview

Window 5

Location	6,373,645 – 6,373,740
Length	95
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	71.60
Mean single sequence MFE	-27.80
Consensus MFE	-15.80
Energy contribution	-16.30
Covariance contribution	0.50
Combinations/Pair	1.09
Mean z-score	-2.36
Structure conservation index	0.57
SVM decision value	2.56
SVM RNA-class probability	0.995280
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6373645 95 + 22224390
U----------GUUAGUUGUCAGUGGGCUGAGAUUU----CGAGAGAAU----------UAAGAUCUAGAUGCUAGA-UCUUGAUCUCUGCACUCUGCAGAUGCUUCCAGCUUCGAAAAA
.----------...(((((..((((..((((((...----..(((((.(----------((((((((((...)))))-)))))))))))....))).))).))))..)))))........ ( -29.60)
>DroSec_CAF1 3707 95 + 1
U----------GAUUGUUGUCAGUGGGCUGAGAUUU----CGAGAGAAU----------UAAGAUCUAGAUGCUAGA-UCUUGAUCUCUGCUCUCGGCAGAUGCUUCCAGCAUCGGAGAA
.----------(((.((((..((((.(((((((...----(.(((((.(----------((((((((((...)))))-)))))))))))).)))))))...))))..)))))))...... ( -36.90)
>DroEre_CAF1 4409 113 + 1
CA----ACCAAUCCAAUAAUCAGUGAGCUGAGAUUUAGAUUGAGAGAAUAUCCGACACCUUAGCUCUAUA---UAGAUUCUUGAUCUCUGCUCUCUGCAGAUUCUUCCAGCAUCAGAAAA
..----.................(((((((.((....(((..((((..(((..(((......).))...)---))..))))..)))(((((.....)))))....)))))).)))..... ( -22.80)
>DroYak_CAF1 26213 113 + 1
CAAACCACCAAUCAAAUAAUCAGUGAGCUGAGAUUU----UGAGAGUAUAUUCGACAACUAAGAAAUAUG---UAGAUUCUUGAUCUCUGCUCUCUGCAGAUUCUUCCAGCAUCAGAAAA
...........((.......(((.((((.((((((.----.(((..(((((((.........))...)))---))..)))..)))))).)))).)))..(((.(.....).))).))... ( -21.90)
>consensus
C__________GCUAAUAAUCAGUGAGCUGAGAUUU____CGAGAGAAU__________UAAGAUCUAGA___UAGA_UCUUGAUCUCUGCUCUCUGCAGAUGCUUCCAGCAUCAGAAAA
.......................(((((((.((..........................(((((((((.....)))).)))))...(((((.....)))))....)))))).)))..... (-15.80 = -16.30 +   0.50)

alignment

secondary structure

dotplot

Window 6

Location	6,373,645 – 6,373,740
Length	95
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	71.60
Mean single sequence MFE	-26.30
Consensus MFE	-13.25
Energy contribution	-14.25
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.02
Structure conservation index	0.50
SVM decision value	0.79
SVM RNA-class probability	0.850347
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6373645 95 - 22224390
UUUUUCGAAGCUGGAAGCAUCUGCAGAGUGCAGAGAUCAAGA-UCUAGCAUCUAGAUCUUA----------AUUCUCUCG----AAAUCUCAGCCCACUGACAACUAAC----------A
..((((((.((.....)).(((((.....)))))((..((((-(((((...))))))))).----------..))..)))----)))..((((....))))........----------. ( -24.60)
>DroSec_CAF1 3707 95 - 1
UUCUCCGAUGCUGGAAGCAUCUGCCGAGAGCAGAGAUCAAGA-UCUAGCAUCUAGAUCUUA----------AUUCUCUCG----AAAUCUCAGCCCACUGACAACAAUC----------A
......(((((.....))))).((.((((.((((((..((((-(((((...))))))))).----------..))))).)----...)))).))...............----------. ( -29.10)
>DroEre_CAF1 4409 113 - 1
UUUUCUGAUGCUGGAAGAAUCUGCAGAGAGCAGAGAUCAAGAAUCUA---UAUAGAGCUAAGGUGUCGGAUAUUCUCUCAAUCUAAAUCUCAGCUCACUGAUUAUUGGAUUGGU----UG
...(((((((((....((.(((((.....)))))..)).....(((.---...))).....))))))))).......(((((((((...((((....))))...))))))))).----.. ( -28.80)
>DroYak_CAF1 26213 113 - 1
UUUUCUGAUGCUGGAAGAAUCUGCAGAGAGCAGAGAUCAAGAAUCUA---CAUAUUUCUUAGUUGUCGAAUAUACUCUCA----AAAUCUCAGCUCACUGAUUAUUUGAUUGGUGGUUUG
.........((((((.((.(((((.....)))))..))(((((....---.....)))))....................----...)).))))((((..(((....)))..)))).... ( -22.70)
>consensus
UUUUCCGAUGCUGGAAGAAUCUGCAGAGAGCAGAGAUCAAGA_UCUA___UAUAGAUCUUA__________AUUCUCUCA____AAAUCUCAGCCCACUGACAACUAGA__________A
.........((((((....(((((.....)))))....((((.((((.....))))))))...........................)).)))).......................... (-13.25 = -14.25 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:19 2006