Locus 8094

Sequence ID	3R_DroMel_CAF1
Location	21,733,699 – 21,733,804
Length	105
Max. P	0.943992

overview

Window 9

Location	21,733,699 – 21,733,804
Length	105
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	76.47
Mean single sequence MFE	-36.53
Consensus MFE	-21.78
Energy contribution	-20.82
Covariance contribution	-0.96
Combinations/Pair	1.52
Mean z-score	-2.06
Structure conservation index	0.60
SVM decision value	1.34
SVM RNA-class probability	0.943992
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21733699 105 + 27905053
GAUUACUUGGUCUUCAUCGCCAUGUUGGCGGUCUGCGCCGUUAUCGGCUUCUAUUUCGGCUUUAUCGAAAAGAAGCAAAAGAAACAGA---------AGCUGGCCGGCAA------GGAC
.........(((((.((((((.....))))))....((((...(((((((((.((((.(((((........)))))....)))).)))---------)))))).)))).)------)))) ( -38.30)
>DroVir_CAF1 15770 117 + 1
GAUUAUUUGGUUUUCAUAGCCAUGCUGGUGGUCUGUGCCGUAAUUGGCUUCUAUUUCGGCUUCAUCGAAAAGAAGAAGAAAAAGCAAA---AGGGCCAAGUGCCCGCCGAUGAAAAAGAU
........((....(((((((((....)))).)))))))...((((((..((.((((..((((........))))..)))).))....---.((((.....))))))))))......... ( -31.00)
>DroPse_CAF1 314 114 + 1
GACUAUUUGGUGUUCAUAGCCAUGCUGGCGGUCUGCGCCGUCAUCGGGGUCUAUUUCGGCUUCAUCGAAAAGAAGCAGAAGGCAAAGAAGAAGGGACAGCUGGCCGGCAA------GGAU
.......((((.......))))(((((((.(.((((.((.((.((...((((...((.(((((........))))).))))))...)).)).))).))).).))))))).------.... ( -37.30)
>DroGri_CAF1 13077 117 + 1
GAUUAUUUGGUUUUCAUCGCCAUGUUGGCGGUCUGUGCCGUAAUUGGCUUCUAUUUCGGCUUCAUCGAAAAGAAGCAGAAAAAGAAAA---GGGGCCAAUUGUCUACCGAUGAACAAGAU
.....((((...(((((((((.....)))(((((.(((((....))))((((.((((.(((((........))))).)))).)))).)---.)))))...........)))))))))).. ( -36.80)
>DroWil_CAF1 8138 117 + 1
GAUUAUAUGGUUUUCGUUGCCAUGUUGGCCAUUUGUGCUAUUAUUGGCUUCUAUUUCGGUUUUAUCGAAAAGAAGCAAAAGAAAAAGA---AAUCAAAAUUGGCCAGCAAUGGAACGGAU
............((((((.((((((((((((((((..((.((.((.((((((.(((((((...)))))))))))))...)).)).)).---...))))..)))))))).)))))))))). ( -38.50)
>DroPer_CAF1 320 114 + 1
GACUAUUUGGUGUUCAUAGCCAUGCUGGCGGUCUGCGCCGUCAUCGGGGUCUAUUUCGGCUUCAUCGAAAAGAAGCAGAAGGCAAAGAAGAAGGGACAGCUGGCCGGCAA------GGAU
.......((((.......))))(((((((.(.((((.((.((.((...((((...((.(((((........))))).))))))...)).)).))).))).).))))))).------.... ( -37.30)
>consensus
GAUUAUUUGGUUUUCAUAGCCAUGCUGGCGGUCUGCGCCGUAAUCGGCUUCUAUUUCGGCUUCAUCGAAAAGAAGCAGAAGAAAAAGA___AGGGACAACUGGCCGGCAA______GGAU
.......((((.......))))((((((((((....((((....)))).....((((.(((((........))))).)))).................)))).))))))........... (-21.78 = -20.82 +  -0.96)

alignment

secondary structure

dotplot

Window 0

Location	21,733,699 – 21,733,804
Length	105
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	76.47
Mean single sequence MFE	-30.97
Consensus MFE	-13.33
Energy contribution	-14.83
Covariance contribution	1.50
Combinations/Pair	1.00
Mean z-score	-2.24
Structure conservation index	0.43
SVM decision value	0.59
SVM RNA-class probability	0.792440
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21733699 105 - 27905053
GUCC------UUGCCGGCCAGCU---------UCUGUUUCUUUUGCUUCUUUUCGAUAAAGCCGAAAUAGAAGCCGAUAACGGCGCAGACCGCCAACAUGGCGAUGAAGACCAAGUAAUC
(((.------.(((((..(.(((---------((((((((....((((..........)))).))))))))))).)....)))))..)))((((.....))))................. ( -33.00)
>DroVir_CAF1 15770 117 - 1
AUCUUUUUCAUCGGCGGGCACUUGGCCCU---UUUGCUUUUUCUUCUUCUUUUCGAUGAAGCCGAAAUAGAAGCCAAUUACGGCACAGACCACCAGCAUGGCUAUGAAAACCAAAUAAUC
....(((((((.(((((((.....)))).---..((((.....((((...(((((.......))))).))))(((......)))..........))))..)))))))))).......... ( -28.80)
>DroPse_CAF1 314 114 - 1
AUCC------UUGCCGGCCAGCUGUCCCUUCUUCUUUGCCUUCUGCUUCUUUUCGAUGAAGCCGAAAUAGACCCCGAUGACGGCGCAGACCGCCAGCAUGGCUAUGAACACCAAAUAGUC
....------.(((.(((...((((.((.((.((((((..(((.(((((........))))).))).))))....)).)).)).))))...))).))).((((((.........)))))) ( -29.90)
>DroGri_CAF1 13077 117 - 1
AUCUUGUUCAUCGGUAGACAAUUGGCCCC---UUUUCUUUUUCUGCUUCUUUUCGAUGAAGCCGAAAUAGAAGCCAAUUACGGCACAGACCGCCAACAUGGCGAUGAAAACCAAAUAAUC
......(((((((.((...(((((((...---..((((.((((.(((((........))))).)))).)))))))))))..(((.......)))....)).)))))))............ ( -34.70)
>DroWil_CAF1 8138 117 - 1
AUCCGUUCCAUUGCUGGCCAAUUUUGAUU---UCUUUUUCUUUUGCUUCUUUUCGAUAAAACCGAAAUAGAAGCCAAUAAUAGCACAAAUGGCCAACAUGGCAACGAAAACCAUAUAAUC
...((((((((.(.((((((.....((..---......))....(((((((((((.......))))).))))))...............)))))).))))).)))).............. ( -29.50)
>DroPer_CAF1 320 114 - 1
AUCC------UUGCCGGCCAGCUGUCCCUUCUUCUUUGCCUUCUGCUUCUUUUCGAUGAAGCCGAAAUAGACCCCGAUGACGGCGCAGACCGCCAGCAUGGCUAUGAACACCAAAUAGUC
....------.(((.(((...((((.((.((.((((((..(((.(((((........))))).))).))))....)).)).)).))))...))).))).((((((.........)))))) ( -29.90)
>consensus
AUCC______UUGCCGGCCAGCUGUCCCU___UCUUUUUCUUCUGCUUCUUUUCGAUGAAGCCGAAAUAGAAGCCAAUAACGGCACAGACCGCCAACAUGGCUAUGAAAACCAAAUAAUC
................((((........................(((((((((((.......))))).)))))).......(((.......)))....)))).................. (-13.33 = -14.83 +   1.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:28 2006