Locus 4304

Sequence ID	2R_DroMel_CAF1
Location	14,154,580 – 14,154,673
Length	93
Max. P	0.994908

overview

Window 8

Location	14,154,580 – 14,154,673
Length	93
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	90.10
Mean single sequence MFE	-32.34
Consensus MFE	-32.20
Energy contribution	-32.20
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.50
Structure conservation index	1.00
SVM decision value	1.68
SVM RNA-class probability	0.971442
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14154580 93 + 20766785
------ACAAAAUUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUAAAUACUAGAUG
------.........((((((((((((.......)))))((((((.((...)).)))).)).................))))))).............. ( -32.20)
>DroSec_CAF1 7917 99 + 1
UGUAUAAAAAAAUUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUAAACGCAACUUG
...............((((((((((((.......)))))((((((.((...)).)))).)).................))))))).............. ( -32.20)
>DroSim_CAF1 6918 99 + 1
UGUAUAAAAAAAGUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUAAACGCAACUUG
..........(((((((((((((((((.......)))))((((((.((...)).)))).)).................)))))(......)))))))). ( -32.90)
>DroEre_CAF1 7119 99 + 1
UGAAAAAAAGAGGUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUAAAUGCAAGUUG
...............((((((((((((.......)))))((((((.((...)).)))).)).................))))))).............. ( -32.20)
>DroYak_CAF1 7132 99 + 1
AUAAAAAAAGCGGUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUAAACAUAUCUUG
...............((((((((((((.......)))))((((((.((...)).)))).)).................))))))).............. ( -32.20)
>consensus
UGAAAAAAAAAAGUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUUAAACGCAACUUG
...............((((((((((((.......)))))((((((.((...)).)))).)).................))))))).............. (-32.20 = -32.20 +  -0.00)

alignment

secondary structure

dotplot

Window 9

Location	14,154,580 – 14,154,673
Length	93
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	90.10
Mean single sequence MFE	-36.82
Consensus MFE	-35.90
Energy contribution	-35.90
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.79
Structure conservation index	0.98
SVM decision value	2.52
SVM RNA-class probability	0.994908
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14154580 93 - 20766785
CAUCUAGUAUUUAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAAUUUUGU------
..............(((((((..((((.......))))((.(((((((...)))))))))(((((.......)))))))))))).........------ ( -35.90)
>DroSec_CAF1 7917 99 - 1
CAAGUUGCGUUUAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAAUUUUUUUAUACA
..............(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))............... ( -35.90)
>DroSim_CAF1 6918 99 - 1
CAAGUUGCGUUUAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAACUUUUUUUAUACA
.((((((((((...((.((((((((...(((((.....)).)))..))))).)))))((((.(((.......))))))))))))))))).......... ( -39.30)
>DroEre_CAF1 7119 99 - 1
CAACUUGCAUUUAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAACCUCUUUUUUUCA
..............(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))............... ( -35.90)
>DroYak_CAF1 7132 99 - 1
CAAGAUAUGUUUAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAACCGCUUUUUUUAU
......((((....)))).(((((((..(((((((.........)))))))(((..(((((.(((.......)))))))).))))))))))........ ( -37.10)
>consensus
CAAGUUGCGUUUAAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAACUUUUUUUAUACA
..............(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))............... (-35.90 = -35.90 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:40 2006