Locus 4616

Sequence ID	2R_DroMel_CAF1
Location	15,093,723 – 15,093,840
Length	117
Max. P	0.969431

overview

Window 6

Location	15,093,723 – 15,093,813
Length	90
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	76.82
Mean single sequence MFE	-30.62
Consensus MFE	-22.89
Energy contribution	-23.92
Covariance contribution	1.03
Combinations/Pair	1.22
Mean z-score	-1.96
Structure conservation index	0.75
SVM decision value	1.64
SVM RNA-class probability	0.969431
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15093723 90 - 20766785
UUGCUUC-CUUUUGGCUAACAACUAACGGCACUUGCAGAAGGGACGGGAGAUCUUGCAGUUGUUGGCCAAGAGGCACACCCUCCU--------------CCCCCG-
......(-((((((((((((((((....((....))....(((((....).))))..)))))))))))))))))...........--------------......- ( -30.20)
>DroSec_CAF1 70310 89 - 1
UUGCUUC-CU-UUGGCUAACAACUAACGGCACUUGCAAAAGGGGCAGGAGAUCUAGCAGUUGUUGGCCAAGAGGCACACCCUCCG--------------CCCCCG-
.((((((-..-(((((((((((((...(((.(((((.......))))).).))....))))))))))))))))))).........--------------......- ( -30.80)
>DroSim_CAF1 48257 90 - 1
UUGCUUC-CUUUUGGCUAACAACUAACGGCACUUGCAAAAGGGGCAGGAGAUCUUGCAGUUGUUGGCCAAGAGGCACACCCUCCG--------------CCCCCG-
......(-((((((((((((((((....((....)).......(((((....))))))))))))))))))))))...........--------------......- ( -34.60)
>DroEre_CAF1 70684 90 - 1
UUGCUUU-CGUUUGGCUAACAACUAACGGCACUUGCAACAGGGGCAGGAGAUCUUGCAGUUGUUGGCCAACAGGCACACCCUCCU--------------CCCCCG-
.(((((.-...(((((((((((((....((....)).......(((((....)))))))))))))))))).))))).........--------------......- ( -30.50)
>DroYak_CAF1 72926 97 - 1
UUGCUUU-CGUUUGGCUAACAACUAACGGCACUUGCCAAAGGGGCAGGAGAUCUUGCAGUUGUUGGCCAAGAGGCACACCCUUCACCUC---UUC----CCCCCG-
.((((((-...(((((((((((((...(((....)))......(((((....)))))))))))))))))))))))).............---...----......- ( -35.90)
>DroPer_CAF1 74051 102 - 1
UUGCCCCGCUUUGGGCCAGCAACUAACGGCACAUGGUG-AGAGCCAGGCCAAAAUGCAGUUACUCAC---UGGUCUCUACCUCUACCUCCCUUUCCCCUCUCUCAC
..((((......))))...........(((...((((.-...)))).)))......((((.....))---)).................................. ( -21.70)
>consensus
UUGCUUC_CUUUUGGCUAACAACUAACGGCACUUGCAAAAGGGGCAGGAGAUCUUGCAGUUGUUGGCCAAGAGGCACACCCUCCA______________CCCCCG_
.((((((....(((((((((((((....((((((((.......)))))......)))))))))))))))))))))).............................. (-22.89 = -23.92 +   1.03)

alignment

secondary structure

dotplot

Window 7

Location	15,093,743 – 15,093,840
Length	97
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	70.90
Mean single sequence MFE	-26.30
Consensus MFE	-10.46
Energy contribution	-11.35
Covariance contribution	0.89
Combinations/Pair	1.27
Mean z-score	-1.83
Structure conservation index	0.40
SVM decision value	0.24
SVM RNA-class probability	0.649125
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15093743 97 - 20766785
C--UCCUUUUUU-UUUUAUUAUUUUCUUACUUGCUUC-CUUUUGGCUAACAACUAACGGCACUUGC--AGAAGGGACGGGAGAUCU--UGCAGUU---GUUGGCCAAG--
.--.........-........................-...(((((((((((((....((....))--....(((((....).)))--)..))))---))))))))).-- ( -22.90)
>DroSec_CAF1 70330 92 - 1
C--UUCUU-----UUUUAUUAUUUUCUUUCUUGCUUC-CU-UUGGCUAACAACUAACGGCACUUGC--AAAAGGGGCAGGAGAUCU--AGCAGUU---GUUGGCCAAG--
.--.....-----........................-..-(((((((((((((...(((.(((((--.......))))).).)).--...))))---))))))))).-- ( -23.80)
>DroSim_CAF1 48277 93 - 1
C--UUCUU-----UUUUAUUAUUUUCUUACUUGCUUC-CUUUUGGCUAACAACUAACGGCACUUGC--AAAAGGGGCAGGAGAUCU--UGCAGUU---GUUGGCCAAG--
.--.....-----........................-...(((((((((((((....((....))--.......(((((....))--)))))))---))))))))).-- ( -27.30)
>DroEre_CAF1 70704 95 - 1
C--UCCUUUUU---UUUAUUAUUUUCUUACUUGCUUU-CGUUUGGCUAACAACUAACGGCACUUGC--AACAGGGGCAGGAGAUCU--UGCAGUU---GUUGGCCAAC--
.--........---.......................-...(((((((((((((....((....))--.......(((((....))--)))))))---))))))))).-- ( -27.00)
>DroAna_CAF1 72324 104 - 1
CGCUCCUUUAUUUUUGUAUAAUUUUUU-UUUCG-----CUUUUGGCUAACAACUAACGGCACUUGGGGAGAGGGGGAGGGACAACUGCUACAGAUGCAGUUGGCCAGGCC
..(((((((((......))))....((-((((.-----((....(((..........)))....)).)))))))))))((.(((((((.......))))))).))..... ( -27.10)
>DroPer_CAF1 74086 86 - 1
C--CGAUU-----CUGC----CUCGCUGCCUUGCCCCGCUUUGGGCCAGCAACUAACGGCACAUGG--UG-AGAGCCAGGCCAAAA--UGCAGUU---ACUCAC---U--
.--.((..-----((((----...((((....((((......)))))))).......(((...(((--(.-...)))).)))....--.))))..---..))..---.-- ( -29.70)
>consensus
C__UCCUU_____UUUUAUUAUUUUCUUACUUGCUUC_CUUUUGGCUAACAACUAACGGCACUUGC__AAAAGGGGCAGGAGAUCU__UGCAGUU___GUUGGCCAAG__
.........................................(((((((((..(....)...(((((.........)))))..................)))))))))... (-10.46 = -11.35 +   0.89)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:47 2006