Locus 6320

Sequence ID	3R_DroMel_CAF1
Location	16,515,580 – 16,515,689
Length	109
Max. P	0.974632

overview

Window 0

Location	16,515,580 – 16,515,689
Length	109
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	76.93
Mean single sequence MFE	-38.43
Consensus MFE	-22.56
Energy contribution	-23.62
Covariance contribution	1.06
Combinations/Pair	1.19
Mean z-score	-1.84
Structure conservation index	0.59
SVM decision value	0.81
SVM RNA-class probability	0.855761
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16515580 109 + 27905053
AAAUCCUAGACCUUUGCAUCGCUAUACUCGAUGCGAACCACGCGCCUUGGUCGCUGCCCUGCGGGCAAGGGGAUCACU------CCCGUUCUCGUUCCACGCAGCGCCAUUAGCU
............(((((((((.......)))))))))....((....(((.((((((...(((((.((.((((....)------))).))))))).....)))))))))...)). ( -40.80)
>DroPse_CAF1 70756 101 + 1
-----UUACACCCUUGCAUCGCUGUACUCGAUGCGAACCAUGCGCCUUGGUCGCUGCC---CGGGCCUCGAAACCGCA------CCAGUUCCCAGGCCACGCAGCGCCAGCAGCU
-----........((((((((.......)))))))).....((((..(((.((((((.---..(((((.(.(((....------...))).).)))))..))))))))))).)). ( -37.70)
>DroEre_CAF1 73440 109 + 1
AAAUCCUAGACCCUGGCAUCGCUGUACUCGAUGCGAACCACGCGCCUUGGCCGCUGCACUCCGGGCAGGGGUAUCGCC------CCCGUUCCCGUUCCGCGCAGCGCCAUUAGCU
...............((((((.......)))))).......((....((((.(((((.(..((((..((((......)------)))...))))....).)))))))))...)). ( -40.10)
>DroWil_CAF1 79482 101 + 1
-----UUACACUCUGGCAUCACUGUACUCGAUACGAACUAUGCGUCUUGGCCGCUGACC---UGGCAUUGGAGUCGCU------CCCGAUCCAAGGCCACGCAGAGCCAAUAGCU
-----........((((.((..((((.....)))).....(((((...(((((((....---.))).(((((.(((..------..)))))))))))))))))))))))...... ( -30.40)
>DroYak_CAF1 67809 115 + 1
AAAUCCUAGACCCUGGCAUCGCUGUACUCGAUGCGAACCACGCGCCUUGGUCGCUGCAUUCCGGGCAAGGGUAUCGUCACCGAUCCCGUUCCCGUUCCGCGCAGCGCCAUUAGCU
........((((..(((((((.......))))(((.....))))))..))))(((((....((((...(((.((((....)))))))...))))......)))))((.....)). ( -41.80)
>DroPer_CAF1 71304 101 + 1
-----UUAGACCCUCGCAUCGCUGUACUCGAUGCGAACCAUGCGCCUUGGUCGCUGCC---UGGGCCUCGAAACCGCA------CCAGUUCCCAGGCCACGCAGCGCCAGCAGCU
-----........((((((((.......)))))))).....((((..(((.((((((.---..(((((.(.(((....------...))).).)))))..))))))))))).)). ( -39.80)
>consensus
_____CUAGACCCUGGCAUCGCUGUACUCGAUGCGAACCACGCGCCUUGGUCGCUGCCC__CGGGCAUGGGAAUCGCA______CCCGUUCCCAGGCCACGCAGCGCCAUUAGCU
...............((((((.......)))))).......((....(((.((((((......((.(.((((((.............)))))).).))..)))))))))...)). (-22.56 = -23.62 +   1.06)

alignment

secondary structure

dotplot

Window 1

Location	16,515,580 – 16,515,689
Length	109
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	76.93
Mean single sequence MFE	-47.50
Consensus MFE	-28.44
Energy contribution	-28.05
Covariance contribution	-0.39
Combinations/Pair	1.28
Mean z-score	-2.37
Structure conservation index	0.60
SVM decision value	1.73
SVM RNA-class probability	0.974632
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16515580 109 - 27905053
AGCUAAUGGCGCUGCGUGGAACGAGAACGGG------AGUGAUCCCCUUGCCCGCAGGGCAGCGACCAAGGCGCGUGGUUCGCAUCGAGUAUAGCGAUGCAAAGGUCUAGGAUUU
.(((..(((((((((((((..((((...(((------(....)))))))).))))...)))))).))).))).(.(((..(((((((.......))))))...)..))).).... ( -40.70)
>DroPse_CAF1 70756 101 - 1
AGCUGCUGGCGCUGCGUGGCCUGGGAACUGG------UGCGGUUUCGAGGCCCG---GGCAGCGACCAAGGCGCAUGGUUCGCAUCGAGUACAGCGAUGCAAGGGUGUAA-----
.(((..(((((((((.((((((.(((((((.------..))))))).))).)))---.)))))).))).)))((((..((.((((((.......))))))))..))))..----- ( -50.20)
>DroEre_CAF1 73440 109 - 1
AGCUAAUGGCGCUGCGCGGAACGGGAACGGG------GGCGAUACCCCUGCCCGGAGUGCAGCGGCCAAGGCGCGUGGUUCGCAUCGAGUACAGCGAUGCCAGGGUCUAGGAUUU
......(((((((((((....((((..((((------((.....))))))))))..))))))).))))((((.(.((((((((..........)))).)))).)))))....... ( -52.20)
>DroWil_CAF1 79482 101 - 1
AGCUAUUGGCUCUGCGUGGCCUUGGAUCGGG------AGCGACUCCAAUGCCA---GGUCAGCGGCCAAGACGCAUAGUUCGUAUCGAGUACAGUGAUGCCAGAGUGUAA-----
.((..((((((((((.((((.((((((((..------..))).))))).))))---.).))).))))))...))(((.((.((((((.......))))))..)).)))..----- ( -37.90)
>DroYak_CAF1 67809 115 - 1
AGCUAAUGGCGCUGCGCGGAACGGGAACGGGAUCGGUGACGAUACCCUUGCCCGGAAUGCAGCGACCAAGGCGCGUGGUUCGCAUCGAGUACAGCGAUGCCAGGGUCUAGGAUUU
......((((((((((.....((((...(((((((....)))).)))...))))...))))))).)))((((.(.((((((((..........)))).)))).)))))....... ( -51.50)
>DroPer_CAF1 71304 101 - 1
AGCUGCUGGCGCUGCGUGGCCUGGGAACUGG------UGCGGUUUCGAGGCCCA---GGCAGCGACCAAGGCGCAUGGUUCGCAUCGAGUACAGCGAUGCGAGGGUCUAA-----
.(((..(((((((((.((((((.(((((((.------..))))))).))).)))---.)))))).))).)))......(((((((((.......))))))))).......----- ( -52.50)
>consensus
AGCUAAUGGCGCUGCGUGGAACGGGAACGGG______AGCGAUUCCCAUGCCCG__GGGCAGCGACCAAGGCGCAUGGUUCGCAUCGAGUACAGCGAUGCCAGGGUCUAA_____
.(((..(((((((((......((((...(((.............)))...))))....)))))).))).))).........((((((.......))))))............... (-28.44 = -28.05 +  -0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:38 2006