Locus 4332

Sequence ID	2L_DroMel_CAF1
Location	12,403,021 – 12,403,118
Length	97
Max. P	0.913052

overview

Window 5

Location	12,403,021 – 12,403,118
Length	97
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	81.02
Mean single sequence MFE	-22.67
Consensus MFE	-13.90
Energy contribution	-13.52
Covariance contribution	-0.39
Combinations/Pair	1.24
Mean z-score	-2.78
Structure conservation index	0.61
SVM decision value	1.09
SVM RNA-class probability	0.913052
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12403021 97 + 22407834
UAAUUAACUAGUGUUUUUUAUUUAAUGCAGGCAAAACUAAUGAGGCAUAUAAUGCCUAUCAAGCAUUUUAUGCCCGUA------UUCAAUUUAAACCACUGAA----------
........(((((.(((..(((.(((((((......))...(.((((((.(((((.......))))).))))))))))------)).)))..))).)))))..---------- ( -23.70)
>DroSec_CAF1 226808 95 + 1
UAAUUACCUAGUGUUU-UUAUUUAAUGCAGGCAAAACUAAUGAGGCAUAUAAUGCCUAUCAAGCAUUUUAUGCCCGUA------UUCAAUUUAAAACAGUGA-----------
........((.(((((-(.(((.(((((((......))...(.((((((.(((((.......))))).))))))))))------)).)))..)))))).)).----------- ( -22.40)
>DroSim_CAF1 234393 96 + 1
UAAUUAACUAGUGUUUUUUAUUUAAUGCAGGCAAAACUAAUGAGGCAUAUAAUGCCUAUCAAGCAUUUUAUGCCCGUA------UUCAAUUUAAAACAGUGA-----------
........((.((((((..(((.(((((((......))...(.((((((.(((((.......))))).))))))))))------)).)))..)))))).)).----------- ( -24.00)
>DroEre_CAF1 225674 105 + 1
UAAUUAACUAGUGCUU-UUAUUUAAUGCAGGGAAAACUAAUGAGGCAUAUAAUGCCUAUCAGGCGUUUUAUGCCCGUA------CUCAAUUUAAACCACUGAAAUCUCCAGC-
........(((((...-...........((......)).(((.((((((.((((((.....)))))).))))))))).------............)))))...........- ( -22.50)
>DroYak_CAF1 235645 111 + 1
UAAUUAACUAGUGUUU-UUAUUUAAUGCAGUGAAAACUAAUGAGGCAUAUAAUGCCUAUCAAGCAUUUUAUGCCCGUAUUCGUAUUCAAUUUAAACCACUGAAAUCUCCACC-
........((((((((-..(((.((((((((....))).(((.((((((.(((((.......))))).)))))))))....))))).)))..))).)))))...........- ( -27.30)
>DroAna_CAF1 213410 105 + 1
UAAUUAACUA-UGCUG-UUUUUUAAUGCACAAAGAACUAAUGAGGCAUACAAUGCCCAUGGAACGCUUUAUGCUCAUA------AUCGAUUUAAAUCAAGCCUAUCUCUAUCG
..........-.(((.-...(((((.(((.((((.....(((.(((((...))))))))......)))).)))((...------...)).)))))...)))............ ( -16.10)
>consensus
UAAUUAACUAGUGUUU_UUAUUUAAUGCAGGCAAAACUAAUGAGGCAUAUAAUGCCUAUCAAGCAUUUUAUGCCCGUA______UUCAAUUUAAACCACUGAA__________
...........(((............)))..........(((.((((((.(((((.......))))).))))))))).................................... (-13.90 = -13.52 +  -0.39)

alignment

secondary structure

dotplot

Window 6

Location	12,403,021 – 12,403,118
Length	97
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	81.02
Mean single sequence MFE	-23.07
Consensus MFE	-14.13
Energy contribution	-14.22
Covariance contribution	0.08
Combinations/Pair	1.23
Mean z-score	-2.04
Structure conservation index	0.61
SVM decision value	0.44
SVM RNA-class probability	0.736631
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12403021 97 - 22407834
----------UUCAGUGGUUUAAAUUGAA------UACGGGCAUAAAAUGCUUGAUAGGCAUUAUAUGCCUCAUUAGUUUUGCCUGCAUUAAAUAAAAAACACUAGUUAAUUA
----------....(((((..(((((((.------...(((((((.((((((.....)))))).)))))))..))))))).))).)).......................... ( -23.00)
>DroSec_CAF1 226808 95 - 1
-----------UCACUGUUUUAAAUUGAA------UACGGGCAUAAAAUGCUUGAUAGGCAUUAUAUGCCUCAUUAGUUUUGCCUGCAUUAAAUAA-AAACACUAGGUAAUUA
-----------..........(((((((.------...(((((((.((((((.....)))))).)))))))..)))))))((((((..........-......)))))).... ( -21.29)
>DroSim_CAF1 234393 96 - 1
-----------UCACUGUUUUAAAUUGAA------UACGGGCAUAAAAUGCUUGAUAGGCAUUAUAUGCCUCAUUAGUUUUGCCUGCAUUAAAUAAAAAACACUAGUUAAUUA
-----------....((((((..(((.((------(.((((((......(((.(((((((((...)))))).))))))..)))))).))).)))..))))))........... ( -21.00)
>DroEre_CAF1 225674 105 - 1
-GCUGGAGAUUUCAGUGGUUUAAAUUGAG------UACGGGCAUAAAACGCCUGAUAGGCAUUAUAUGCCUCAUUAGUUUUCCCUGCAUUAAAUAA-AAGCACUAGUUAAUUA
-(((....(((((((.((...(((((((.------...(((((((.((.(((.....))).)).)))))))..))))))).)))))....))))..-.)))............ ( -26.10)
>DroYak_CAF1 235645 111 - 1
-GGUGGAGAUUUCAGUGGUUUAAAUUGAAUACGAAUACGGGCAUAAAAUGCUUGAUAGGCAUUAUAUGCCUCAUUAGUUUUCACUGCAUUAAAUAA-AAACACUAGUUAAUUA
-(((((((((((((((.......)))))).........(((((((.((((((.....)))))).))))))).....)))))))))...........-................ ( -27.30)
>DroAna_CAF1 213410 105 - 1
CGAUAGAGAUAGGCUUGAUUUAAAUCGAU------UAUGAGCAUAAAGCGUUCCAUGGGCAUUGUAUGCCUCAUUAGUUCUUUGUGCAUUAAAAAA-CAGCA-UAGUUAAUUA
.(((..((((.......))))..)))(((------((((.((((((((..((..((((((((...))))).))).))..)))))))).........-...))-)))))..... ( -19.72)
>consensus
__________UUCAGUGGUUUAAAUUGAA______UACGGGCAUAAAAUGCUUGAUAGGCAUUAUAUGCCUCAUUAGUUUUGCCUGCAUUAAAUAA_AAACACUAGUUAAUUA
......................................(((((((.((((((.....)))))).))))))).......................................... (-14.13 = -14.22 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:15 2006