Locus 7609

Sequence ID	2L_DroMel_CAF1
Location	21,086,153 – 21,086,252
Length	99
Max. P	0.530624

overview

Window 0

Location	21,086,153 – 21,086,252
Length	99
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	77.58
Mean single sequence MFE	-22.48
Consensus MFE	-14.93
Energy contribution	-14.98
Covariance contribution	0.06
Combinations/Pair	1.17
Mean z-score	-1.14
Structure conservation index	0.66
SVM decision value	-0.01
SVM RNA-class probability	0.530624
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21086153 99 + 22407834
-CCCCCAUAUAA-CGACU----CUUCCAGCACCAACAAUUGAUGCCGAAAGUGCCUCAAUGGCACUGCCUGCGCUACUUUAAGCAUGAUGUCCUGAUGAUGCGCC
-...........-.....----......(((.((.((...(((((.(..((((((.....))))))..).))(((......))).....))).)).)).)))... ( -21.60)
>DroVir_CAF1 9690 105 + 1
CUCUGUAUAUAUUCUCCUGCAUCAUCUAGCAUCAACAGCUAAUGCCCAAGGUGCCCCAAUGGCAUUGUUUGCGCUACUUUAAGCACGAUGUGCUGAUGAUGAGGC
...............(((.(((((((..(((((..(((.(((((((...((....))...))))))).))).(((......)))..)))))...)))))))))). ( -33.00)
>DroEre_CAF1 9101 99 + 1
-CCUCUAUAUAA-CACCU----CUUCCAGCACCAACAAUUGAUGCCGAAAGUGCCUCAAUGGCACUGUCUGCGCUACUUUAAGCACGAUGUCCUGAUGAUGCGUC
-...........-.....----......(((.((.((((((..((.((.((((((.....)))))).)).))(((......))).))))....)).)).)))... ( -23.10)
>DroYak_CAF1 8854 99 + 1
-UCCCUAUAUAA-UUCCU----CUUUCAGCACCAACAAUUGAUGCCAAAAGUGCCUCAAUGGCACUGUCUGCGAUACUUUAAACAUGAUGUCCUGAUGAUGCGUC
-...........-.....----......(((.((.((......((....((((((.....))))))....))(((((.........).)))).)).)).)))... ( -17.80)
>DroMoj_CAF1 10942 101 + 1
AUUUUUUUGUAAUCCUCCACAU----UAGCAUCAACAGCUCAUGCCCAAGGUGCCCCAAUGGCAUUGUUUGCGUUACUUUAAGCACGAUGUUCUGAUGAUGCGUC
......................----..((((((.(((..(((((....((((((.....))))))....))(((......)))...)))..))).))))))... ( -24.30)
>DroAna_CAF1 10297 102 + 1
-CACUUAAAUAA-UAUCUU-AAUUUCCAGCACCAACAACUGAUGCCCAAGGUCCCUCAAUGGCAUUGCCUCCGCUACUUCAAGCACGAUGUCCUGAUGAUGCGAC
-...........-......-........(((.((.((...((((((..((....))....))))))......(((......))).........)).)).)))... ( -15.10)
>consensus
_CCCCUAUAUAA_CACCU____CUUCCAGCACCAACAACUGAUGCCCAAAGUGCCUCAAUGGCACUGUCUGCGCUACUUUAAGCACGAUGUCCUGAUGAUGCGUC
............................(((.((.((......((....((((((.....))))))....))(((......))).........)).)).)))... (-14.93 = -14.98 +   0.06)

alignment

secondary structure

dotplot

Window 1

Location	21,086,153 – 21,086,252
Length	99
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	77.58
Mean single sequence MFE	-29.67
Consensus MFE	-17.28
Energy contribution	-16.45
Covariance contribution	-0.83
Combinations/Pair	1.29
Mean z-score	-1.46
Structure conservation index	0.58
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21086153 99 - 22407834
GGCGCAUCAUCAGGACAUCAUGCUUAAAGUAGCGCAGGCAGUGCCAUUGAGGCACUUUCGGCAUCAAUUGUUGGUGCUGGAAG----AGUCG-UUAUAUGGGGG-
..(.(((.((.(.(((....(((((..(((.((((.....)))).))).)))))((((((((((((.....))))))))))))----.))).-).))))).)..- ( -31.70)
>DroVir_CAF1 9690 105 - 1
GCCUCAUCAUCAGCACAUCGUGCUUAAAGUAGCGCAAACAAUGCCAUUGGGGCACCUUGGGCAUUAGCUGUUGAUGCUAGAUGAUGCAGGAGAAUAUAUACAGAG
.((((((((((((((((.((((((......)))))....((((((...((....))...))))))....).)).)))).))))))).)))............... ( -37.00)
>DroEre_CAF1 9101 99 - 1
GACGCAUCAUCAGGACAUCGUGCUUAAAGUAGCGCAGACAGUGCCAUUGAGGCACUUUCGGCAUCAAUUGUUGGUGCUGGAAG----AGGUG-UUAUAUAGAGG-
......((.....(((((((((((......))))).....(((((.....)))))(((((((((((.....))))))))))).----.))))-)).....))..- ( -34.20)
>DroYak_CAF1 8854 99 - 1
GACGCAUCAUCAGGACAUCAUGUUUAAAGUAUCGCAGACAGUGCCAUUGAGGCACUUUUGGCAUCAAUUGUUGGUGCUGAAAG----AGGAA-UUAUAUAGGGA-
...((.(((...((.(((..(((((..........))))))))))..))).)).((((..((((((.....))))))..))))----.....-...........- ( -23.30)
>DroMoj_CAF1 10942 101 - 1
GACGCAUCAUCAGAACAUCGUGCUUAAAGUAACGCAAACAAUGCCAUUGGGGCACCUUGGGCAUGAGCUGUUGAUGCUA----AUGUGGAGGAUUACAAAAAAAU
...((((((.(((....((((((((((.((..(.(((.........))).)..)).)))))))))).))).))))))..----.(((((....)))))....... ( -29.40)
>DroAna_CAF1 10297 102 - 1
GUCGCAUCAUCAGGACAUCGUGCUUGAAGUAGCGGAGGCAAUGCCAUUGAGGGACCUUGGGCAUCAGUUGUUGGUGCUGGAAAUU-AAGAUA-UUAUUUAAGUG-
...((((((..(.(((...(((((..(.((..(((.(((...))).)))....)).)..)))))..))).)))))))........-......-...........- ( -22.40)
>consensus
GACGCAUCAUCAGGACAUCGUGCUUAAAGUAGCGCAGACAAUGCCAUUGAGGCACCUUGGGCAUCAAUUGUUGGUGCUGGAAG____AGGAG_UUAUAUAGAGA_
...((((((.(((......((((..((.((.......))..((((.....))))..))..))))...))).))))))............................ (-17.28 = -16.45 +  -0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:00 2006