Locus 7177

Sequence ID 3L_DroMel_CAF1
Location 19,242,348 – 19,242,502
Length 154
Max. P 0.963705
window11654 window11655 window11656

overview

Window 4

Location 19,242,348 – 19,242,462
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 69.64
Mean single sequence MFE -26.59
Consensus MFE -6.15
Energy contribution -8.43
Covariance contribution 2.28
Combinations/Pair 1.32
Mean z-score -2.30
Structure conservation index 0.23
SVM decision value 1.56
SVM RNA-class probability 0.963705
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19242348 114 + 23771897
UUUCAUUGUACACAAAGGUUUUGCAUUUGUUUGAGAAGACUGGCAAAAUAAAUGUACAU----AAAAGGAAAUGGUUUUCCAUAUUCACAGAGCACAUAUAGCA-CA-GAAUAUGUGCUC
......((((((.....(((((((....((((....))))..)))))))...)))))).----....(((.((((....)))).)))...((((((((((....-..-..)))))))))) ( -33.20)
>DroSec_CAF1 70352 88 + 1
----------------GGUUCUGCAUUUGUUCGAGUAGACUGGCAAAAUAAAUGUACAU----AAAAGGAAAUGGUUUUCCAUAUUCGCAGAGCACA-----------GAA-AUGUGCUU
----------------...(((((.(((((..(......)..)))))............----....(((.((((....)))).))))))))(((((-----------...-.))))).. ( -24.40)
>DroSim_CAF1 75888 104 + 1
UUUCAUUGUACACAAAGGUUCUGCAUUUGUUCGAGUAGACGGGCAAAAUAAAUGUGCAU----AAAAGGAAAUGGUUUUCCAUAUUCGCAGAGCACA-----------GAA-AUGUGCUU
...................(((((.((((((((......))))))))............----....(((.((((....)))).))))))))(((((-----------...-.))))).. ( -29.10)
>DroEre_CAF1 74850 119 + 1
UUUUAUUGUACACAAAGGAUCUGUAUGUGCUUGAGUAGACUAGGAAAAUAAAUGUAAAUGUAAUAAGGGACAUCCCUUUUCAUAUUCUCCUAGCGCACAUAGCAGCUACAA-AUGUGCUU
.......(((((........((((((((((.......(.((((((.((((........((....(((((....)))))..)))))).))))))))))))).))))......-.))))).. ( -27.67)
>DroYak_CAF1 101775 110 + 1
UUUUCUUGAACACAAAGGUUCUGCAUGUGCUUGAGUAGACUAGGAAAAUAAACAUACA-----AAAGGGCCAUCCAUUUCUAUUUCCCCAUAGU----AAGAUAGAUACAA-AUGUGUUU
.......(((((((..((((((..((((.(((.((....))))).......))))...-----..)))))).......(((((((..(....).----.))))))).....-.))))))) ( -18.60)
>consensus
UUUCAUUGUACACAAAGGUUCUGCAUUUGUUUGAGUAGACUGGCAAAAUAAAUGUACAU____AAAAGGAAAUGGUUUUCCAUAUUCGCAGAGCACA_A____A____GAA_AUGUGCUU
.....................(((((((((((.((....))....)))))))))))...........(((((....))))).........(((((((................))))))) ( -6.15 =  -8.43 +   2.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 19,242,348 – 19,242,462
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 69.64
Mean single sequence MFE -24.42
Consensus MFE -2.22
Energy contribution -5.18
Covariance contribution 2.96
Combinations/Pair 1.22
Mean z-score -2.30
Structure conservation index 0.09
SVM decision value 1.06
SVM RNA-class probability 0.908136
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19242348 114 - 23771897
GAGCACAUAUUC-UG-UGCUAUAUGUGCUCUGUGAAUAUGGAAAACCAUUUCCUUUU----AUGUACAUUUAUUUUGCCAGUCUUCUCAAACAAAUGCAAAACCUUUGUGUACAAUGAAA
((((((((((..-..-....)))))))))).(((((...(((((....))))).)))----))((((((...((((((..((........))....)))))).....))))))....... ( -28.30)
>DroSec_CAF1 70352 88 - 1
AAGCACAU-UUC-----------UGUGCUCUGCGAAUAUGGAAAACCAUUUCCUUUU----AUGUACAUUUAUUUUGCCAGUCUACUCGAACAAAUGCAGAACC----------------
..(((((.-...-----------)))))((((((.....(((((....)))))....----............((((....((.....)).))))))))))...---------------- ( -16.60)
>DroSim_CAF1 75888 104 - 1
AAGCACAU-UUC-----------UGUGCUCUGCGAAUAUGGAAAACCAUUUCCUUUU----AUGCACAUUUAUUUUGCCCGUCUACUCGAACAAAUGCAGAACCUUUGUGUACAAUGAAA
.((((((.-...-----------))))))....(((.((((....))))))).....----.((((((....((((((...((.....))......))))))....))))))........ ( -20.20)
>DroEre_CAF1 74850 119 - 1
AAGCACAU-UUGUAGCUGCUAUGUGCGCUAGGAGAAUAUGAAAAGGGAUGUCCCUUAUUACAUUUACAUUUAUUUUCCUAGUCUACUCAAGCACAUACAGAUCCUUUGUGUACAAUAAAA
..(((((.-......(((.((((((((((((((((((((((.(((((....))))).)))..........))))))))))))........))))))))))......)))))......... ( -36.52)
>DroYak_CAF1 101775 110 - 1
AAACACAU-UUGUAUCUAUCUU----ACUAUGGGGAAAUAGAAAUGGAUGGCCCUUU-----UGUAUGUUUAUUUUCCUAGUCUACUCAAGCACAUGCAGAACCUUUGUGUUCAAGAAAA
.((((((.-..((.(((.....----....((((((((((((.(..((.......))-----..)...))))))))))))..........((....)))))))...))))))........ ( -20.50)
>consensus
AAGCACAU_UUC____U____U_UGUGCUCUGCGAAUAUGGAAAACCAUUUCCUUUU____AUGUACAUUUAUUUUGCCAGUCUACUCAAACAAAUGCAGAACCUUUGUGUACAAUAAAA
..(((((................(((((...........(((((....)))))..........)))))....((((((..((........))....))))))....)))))......... ( -2.22 =  -5.18 +   2.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 19,242,388 – 19,242,502
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 65.82
Mean single sequence MFE -23.14
Consensus MFE -6.57
Energy contribution -7.61
Covariance contribution 1.04
Combinations/Pair 1.44
Mean z-score -2.55
Structure conservation index 0.28
SVM decision value 1.34
SVM RNA-class probability 0.944019
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19242388 114 + 23771897
UGGCAAAAUAAAUGUACAU----AAAAGGAAAUGGUUUUCCAUAUUCACAGAGCACAUAUAGCA-CA-GAAUAUGUGCUCUAAUGAACAGGAUAUUUGACCUAAUGUAAUUUGGUAAAAU
.((..(((((..(((.(((----....(((.((((....)))).)))..(((((((((((....-..-..))))))))))).))).)))...)))))..))................... ( -28.30)
>DroSec_CAF1 70376 104 + 1
UGGCAAAAUAAAUGUACAU----AAAAGGAAAUGGUUUUCCAUAUUCGCAGAGCACA-----------GAA-AUGUGCUUUAAUGAACAGAUUAUUCGAUCUAAUGUGAUUUUGUAAAAU
..(((((((....((.(((----....(((.((((....)))).)))..((((((((-----------...-.)))))))).))).))(((((....)))))......)))))))..... ( -26.20)
>DroSim_CAF1 75928 104 + 1
GGGCAAAAUAAAUGUGCAU----AAAAGGAAAUGGUUUUCCAUAUUCGCAGAGCACA-----------GAA-AUGUGCUUUAACGAACAGGAUAUUUGAUCUAAUGUAAUUUUGAAAAAU
...((((((.....(((((----....(((((....)))))...((((.((((((((-----------...-.))))))))..))))..((((.....)))).)))))))))))...... ( -24.60)
>DroEre_CAF1 74890 107 + 1
UAGGAAAAUAAAUGUAAAUGUAAUAAGGGACAUCCCUUUUCAUAUUCUCCUAGCGCACAUAGCAGCUACAA-AUGUGCUUCAACGAACUCGAUAUUCAAGCCUAUGUA------------
(((((.((((........((....(((((....)))))..)))))).)))))....((((((((((.((..-..)))))....((....))........).)))))).------------ ( -20.00)
>DroYak_CAF1 101815 98 + 1
UAGGAAAAUAAACAUACA-----AAAGGGCCAUCCAUUUCUAUUUCCCCAUAGU----AAGAUAGAUACAA-AUGUGUUUUAAUGAACACGAAAUGCAACCCUAUGUA------------
..............((((-----..((((.....((((((............((----(.......)))..-..((((((....))))))))))))...)))).))))------------ ( -16.60)
>consensus
UGGCAAAAUAAAUGUACAU____AAAAGGAAAUGGUUUUCCAUAUUCGCAGAGCACA_A____A____GAA_AUGUGCUUUAAUGAACAGGAUAUUCGACCUAAUGUAAUUU_G_AAAAU
..............(((((........(((((....)))))........((((((((................))))))))......................)))))............ ( -6.57 =  -7.61 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:05 2006