Locus 5171

Sequence ID	2R_DroMel_CAF1
Location	16,831,783 – 16,831,900
Length	117
Max. P	0.968333

overview

Window 7

Location	16,831,783 – 16,831,900
Length	117
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	84.85
Mean single sequence MFE	-42.00
Consensus MFE	-36.85
Energy contribution	-38.43
Covariance contribution	1.59
Combinations/Pair	1.11
Mean z-score	-2.63
Structure conservation index	0.88
SVM decision value	1.62
SVM RNA-class probability	0.968333
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16831783 117 + 20766785
GAAUGAAGGUAAUUCAGCAGGAGGGGGGCAUGAAGGGCUCAGCCCGGCCCCUCCUGCUGUGCCAGACCGCGUAACUCCACAUUCAACGGAAAUUUCAGUUGCCCCCGCCAAUUC---UAC
((((...((((...(((((((((((((((.(((.....))))))...)))))))))))))))).......((((((.....(((....))).....))))))........))))---... ( -42.20)
>DroPse_CAF1 713 120 + 1
GAAUGAAGGUAAUUCAGCAGGAGGGGGGCAUGAAGGGCUAAGCCCGGCCCCUCCUGCUGUGUCAGACCGCGUAACUUUACACUCUACGGAAAAAUCAGUUGCACUCCCAAAAUUAAACAC
.......(((....((((((((..(((((.....((((...)))).)))))))))))))......)))..((((((......((....))......)))))).................. ( -42.70)
>DroGri_CAF1 807 117 + 1
GAAUGAAGGUAAUUCAGCAGGAGGGGGGCAUGAAGGGCUAAGCCCGGCCCCUCCUGCUGUGUCAGACCGUGUAACGUUACUAUCAACGGAAAAAUCAGUUACAACGCCAAAAUC---AAC
...(((.(((....((((((((..(((((.....((((...)))).)))))))))))))......))).(((((((((......))).((....)).)))))).........))---).. ( -41.40)
>DroWil_CAF1 1374 111 + 1
GAAUGAAGGUAAUUCAGCAGGAGGGGGGCACGAAGGGCUAAGCCCGGCCCCUCCUGCUGUGCAAGACCGCGUUACGUUACAAACUACGGAAAAAUCAGCAGCAGCAACAG---------C
.......(((....((((((((..(((((.....((((...)))).)))))))))))))......)))(((((.(((........))).........((....))))).)---------) ( -39.10)
>DroAna_CAF1 216 117 + 1
GAAUGAAGGUAAUUCAGCAGGAGGGGGGCAUGAAGGGCUCAGCCCGGCCCCUCCUGCUGUGCCAGACCGCGUAACUUCAUACUCAACGGAAAAAUCGGUUGGAACUCCCAAACA---UAU
..((((((......(((((((((((((((.(((.....))))))...)))))))))))).((......))....))))))..(((((.((....)).)))))............---... ( -43.90)
>DroPer_CAF1 81 120 + 1
GAAUGAAGGUAAUUCAGCAGGAGGGGGGCAUGAAGGGCUAAGCCCGGCCCCUCCUGCUGUGUCAGACCGCGUAACUUUACACUCUACGGAAAAAUCAGUUGCACUCCCAAAAUUGAACAC
.......(((....((((((((..(((((.....((((...)))).)))))))))))))......)))..((((((......((....))......)))))).................. ( -42.70)
>consensus
GAAUGAAGGUAAUUCAGCAGGAGGGGGGCAUGAAGGGCUAAGCCCGGCCCCUCCUGCUGUGCCAGACCGCGUAACUUUACACUCAACGGAAAAAUCAGUUGCACCCCCAAAAUC___CAC
.......(((....((((((((..(((((.....((((...)))).)))))))))))))......)))..((((((......((....))......)))))).................. (-36.85 = -38.43 +   1.59)

alignment

secondary structure

dotplot

Window 8

Location	16,831,783 – 16,831,900
Length	117
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	84.85
Mean single sequence MFE	-42.10
Consensus MFE	-34.28
Energy contribution	-33.45
Covariance contribution	-0.83
Combinations/Pair	1.23
Mean z-score	-1.99
Structure conservation index	0.81
SVM decision value	0.45
SVM RNA-class probability	0.740092
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16831783 117 - 20766785
GUA---GAAUUGGCGGGGGCAACUGAAAUUUCCGUUGAAUGUGGAGUUACGCGGUCUGGCACAGCAGGAGGGGCCGGGCUGAGCCCUUCAUGCCCCCCUCCUGCUGAAUUACCUUCAUUC
...---...(..((((..(.........)..))))..)..((((((....((......)).((((((((((((...(((((((...)))).)))))))))))))))......)))))).. ( -46.80)
>DroPse_CAF1 713 120 - 1
GUGUUUAAUUUUGGGAGUGCAACUGAUUUUUCCGUAGAGUGUAAAGUUACGCGGUCUGACACAGCAGGAGGGGCCGGGCUUAGCCCUUCAUGCCCCCCUCCUGCUGAAUUACCUUCAUUC
(((((..(((..(((((..(....)...))))).....(((((....))))))))..)))))(((((((((((..((((...))))........)))))))))))............... ( -39.30)
>DroGri_CAF1 807 117 - 1
GUU---GAUUUUGGCGUUGUAACUGAUUUUUCCGUUGAUAGUAACGUUACACGGUCUGACACAGCAGGAGGGGCCGGGCUUAGCCCUUCAUGCCCCCCUCCUGCUGAAUUACCUUCAUUC
(((---(((..((((((((((((.((....)).))))....))))))..))..))).))).((((((((((((..((((...))))........)))))))))))).............. ( -40.60)
>DroWil_CAF1 1374 111 - 1
G---------CUGUUGCUGCUGCUGAUUUUUCCGUAGUUUGUAACGUAACGCGGUCUUGCACAGCAGGAGGGGCCGGGCUUAGCCCUUCGUGCCCCCCUCCUGCUGAAUUACCUUCAUUC
.---------..(((((.(((((.((....)).)))))..)))))((((.(((....))).((((((((((((..((((...))))........))))))))))))..))))........ ( -44.20)
>DroAna_CAF1 216 117 - 1
AUA---UGUUUGGGAGUUCCAACCGAUUUUUCCGUUGAGUAUGAAGUUACGCGGUCUGGCACAGCAGGAGGGGCCGGGCUGAGCCCUUCAUGCCCCCCUCCUGCUGAAUUACCUUCAUUC
...---.............((((.((....)).))))...((((((....((......)).((((((((((((...(((((((...)))).)))))))))))))))......)))))).. ( -42.20)
>DroPer_CAF1 81 120 - 1
GUGUUCAAUUUUGGGAGUGCAACUGAUUUUUCCGUAGAGUGUAAAGUUACGCGGUCUGACACAGCAGGAGGGGCCGGGCUUAGCCCUUCAUGCCCCCCUCCUGCUGAAUUACCUUCAUUC
(..(((........)))..).((.((....)).)).(((((((....)))))(((......((((((((((((..((((...))))........))))))))))))....))).)).... ( -39.50)
>consensus
GUA___AAUUUUGGGGGUGCAACUGAUUUUUCCGUAGAGUGUAAAGUUACGCGGUCUGACACAGCAGGAGGGGCCGGGCUUAGCCCUUCAUGCCCCCCUCCUGCUGAAUUACCUUCAUUC
...................((((.((....)).))))...((((.((((.......)))).((((((((((((..((((...))))........))))))))))))..))))........ (-34.28 = -33.45 +  -0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:19 2006