Locus 7953

Sequence ID X_DroMel_CAF1
Location 19,828,156 – 19,828,337
Length 181
Max. P 0.999813
window13051 window13052 window13053 window13054 window13055

overview

Window 1

Location 19,828,156 – 19,828,268
Length 112
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 88.49
Mean single sequence MFE -46.20
Consensus MFE -37.10
Energy contribution -38.62
Covariance contribution 1.52
Combinations/Pair 1.07
Mean z-score -2.87
Structure conservation index 0.80
SVM decision value 2.61
SVM RNA-class probability 0.995784
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19828156 112 + 22224390
UUCACAAUCGCGGGAUAGGGCUACUCCGGGUUCUCCGUGUACUCUGGGUU-UUCCGGUCUUUCCGGGUAUUCCGGCGCCUGUCAGCUGGCAGUUUUCCUUUACCAGCUGGCAG
........(((.((((((((.(((..(((.....))).))))))))....-.(((((.....)))))...))).))).(((((((((((.((.......)).))))))))))) ( -42.90)
>DroSec_CAF1 33714 110 + 1
UUCACAAUC--CGGAUAGGGCUACUACGGGUACUCCGGGUACUCUGGGUU-UUCCGCGCUUUCCGGGUAUUCCGGCGCCUGUCAGCUGGCAGUUUUCCUUUGCCAGCUGGCAG
......(((--((((.((.((......((((((.....))))))..((..-..)))).)).)))))))..........((((((((((((((.......)))))))))))))) ( -50.20)
>DroSim_CAF1 32065 110 + 1
UUCACAAUC--GGGAUAGGGCUACUACGGGUACUCCGCGUACUCUGGGUU-UUCCGGGCUUUCCGGGUAUUCCGGCGCCUGUCAGCUGGCAGUUUUCCUUUGCCAGCUGGCAG
.......((--((((((......(((.((((((.....)))))))))...-.(((((.....)))))))))))))...((((((((((((((.......)))))))))))))) ( -48.20)
>DroEre_CAF1 23945 109 + 1
UUCACAAUC--GGGAUAGGGGUACUCCGGGUUUUCCGGGUACUCUGGGUU-UUCCGGGCUUUCCGGGUAUUCCGGCGCCUGUCAUCUGGCAGUUU-CCCCCACCAGCUGGCAG
.......((--(((((((((((((.((((.....))))))))))).....-.(((((.....)))))))))))))...((((((.((((..(...-...)..)))).)))))) ( -42.60)
>DroYak_CAF1 24828 104 + 1
UUCACAAUC--GGAAUAUAG-------GGGUAUGCCGGGUACUCUGGGUUUUUCCGGGCUUUCCGGCUAUUCCGGCGCCUGUCAGCUGGCUGUUUUCCUUUGCCAGCUGGCAG
.........--........(-------(((((.((((((...((((((....))))))...)))))))))))).....((((((((((((...........)))))))))))) ( -47.10)
>consensus
UUCACAAUC__GGGAUAGGGCUACUACGGGUACUCCGGGUACUCUGGGUU_UUCCGGGCUUUCCGGGUAUUCCGGCGCCUGUCAGCUGGCAGUUUUCCUUUGCCAGCUGGCAG
..........................((((...((((((...((((((....))))))...))))))...))))....((((((((((((((.......)))))))))))))) (-37.10 = -38.62 +   1.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 19,828,156 – 19,828,268
Length 112
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 88.49
Mean single sequence MFE -37.61
Consensus MFE -27.88
Energy contribution -28.32
Covariance contribution 0.44
Combinations/Pair 1.09
Mean z-score -1.83
Structure conservation index 0.74
SVM decision value 0.38
SVM RNA-class probability 0.713077
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19828156 112 - 22224390
CUGCCAGCUGGUAAAGGAAAACUGCCAGCUGACAGGCGCCGGAAUACCCGGAAAGACCGGAA-AACCCAGAGUACACGGAGAACCCGGAGUAGCCCUAUCCCGCGAUUGUGAA
(((.(((((((((.........))))))))).))).(((.(((....((((.....))))..-.....((.((((.(((.....)))..)).)).)).))).)))........ ( -37.10)
>DroSec_CAF1 33714 110 - 1
CUGCCAGCUGGCAAAGGAAAACUGCCAGCUGACAGGCGCCGGAAUACCCGGAAAGCGCGGAA-AACCCAGAGUACCCGGAGUACCCGUAGUAGCCCUAUCCG--GAUUGUGAA
(((((((((((((.........)))))))))....((.((((.....))))...))))))..-....((.(((..(((((.....(......).....))))--)))).)).. ( -38.80)
>DroSim_CAF1 32065 110 - 1
CUGCCAGCUGGCAAAGGAAAACUGCCAGCUGACAGGCGCCGGAAUACCCGGAAAGCCCGGAA-AACCCAGAGUACGCGGAGUACCCGUAGUAGCCCUAUCCC--GAUUGUGAA
....(((((((((.........)))))))))((((((.((((.....))))...)))(((..-.......(.((((.((....)))))).).........))--)..)))... ( -37.97)
>DroEre_CAF1 23945 109 - 1
CUGCCAGCUGGUGGGGG-AAACUGCCAGAUGACAGGCGCCGGAAUACCCGGAAAGCCCGGAA-AACCCAGAGUACCCGGAAAACCCGGAGUACCCCUAUCCC--GAUUGUGAA
(..((....))..)(((-(..(((........(.(((.((((.....))))...))).)...-....))).((((((((.....)))).)))).....))))--......... ( -37.16)
>DroYak_CAF1 24828 104 - 1
CUGCCAGCUGGCAAAGGAAAACAGCCAGCUGACAGGCGCCGGAAUAGCCGGAAAGCCCGGAAAAACCCAGAGUACCCGGCAUACCC-------CUAUAUUCC--GAUUGUGAA
(((.((((((((...........)))))))).))).(((((((((((((((...(((.((......)).).))..)))))......-------...))))))--)...))).. ( -37.00)
>consensus
CUGCCAGCUGGCAAAGGAAAACUGCCAGCUGACAGGCGCCGGAAUACCCGGAAAGCCCGGAA_AACCCAGAGUACCCGGAGUACCCGGAGUAGCCCUAUCCC__GAUUGUGAA
(((.(((((((((.........))))))))).)))((.((((.....))))...))..((......))........(((.....))).......................... (-27.88 = -28.32 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 19,828,191 – 19,828,307
Length 116
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 92.96
Mean single sequence MFE -52.02
Consensus MFE -45.67
Energy contribution -47.15
Covariance contribution 1.48
Combinations/Pair 1.05
Mean z-score -2.97
Structure conservation index 0.88
SVM decision value 4.14
SVM RNA-class probability 0.999813
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19828191 116 + 22224390
CGUGUACUCUGGGUU-UUCCGGUCUUUCCGGGUAUUCCGGCGCCUGUCAGCUGGCAGUUUUCCUUUACCAGCUGGCAGUGCC-UGGCUGACGUGAAUUCCCGAAAAGUCACAGGGCCU
......(((((((..-..)).(.((((.((((.((((((((((.((((((((((.((.......)).)))))))))))))))-.(.....)).)))).)))).)))).).)))))... ( -46.00)
>DroSec_CAF1 33747 113 + 1
CGGGUACUCUGGGUU-UUCCGCGCUUUCCGGGUAUUCCGGCGCCUGUCAGCUGGCAGUUUUCCUUUGCCAGCUGGCAG---C-CGGCUGACGGGAAUUCCCGAAAAGUCACAGGGCCU
.(((..(((((((..-..))..(((((.((((.(((((.((((((((((((((((((.......))))))))))))).---.-.))).).).))))).)))).)))))..)))))))) ( -54.20)
>DroSim_CAF1 32098 113 + 1
CGCGUACUCUGGGUU-UUCCGGGCUUUCCGGGUAUUCCGGCGCCUGUCAGCUGGCAGUUUUCCUUUGCCAGCUGGCAG---C-CGGCUGACGGGAAUUCCCGAAAAGUCACAGGGCCU
......((((((..(-((.((((..((((.(.....(((((...(((((((((((((.......))))))))))))))---)-)))....).))))..)))).)))..).)))))... ( -56.60)
>DroEre_CAF1 23978 112 + 1
CGGGUACUCUGGGUU-UUCCGGGCUUUCCGGGUAUUCCGGCGCCUGUCAUCUGGCAGUUU-CCCCCACCAGCUGGCAG---C-CGGCUGACGGGAGUUCCCGAAAAGUCACAGGGCCU
.(((..(((((((..-..)).((((((.((((.(((((((...(((((....)))))...-)).....(((((((...---)-))))))...))))).)))).)))))).)))))))) ( -46.40)
>DroYak_CAF1 24854 115 + 1
CGGGUACUCUGGGUUUUUCCGGGCUUUCCGGCUAUUCCGGCGCCUGUCAGCUGGCUGUUUUCCUUUGCCAGCUGGCAG---CCCGGCUGACGGGAAUUCCCGAAAAGUCACAGGGCCU
.(((..((((((..(((((.((..((((((......((((.((.(((((((((((...........))))))))))))---)))))....))))))..)).)))))..).)))))))) ( -56.90)
>consensus
CGGGUACUCUGGGUU_UUCCGGGCUUUCCGGGUAUUCCGGCGCCUGUCAGCUGGCAGUUUUCCUUUGCCAGCUGGCAG___C_CGGCUGACGGGAAUUCCCGAAAAGUCACAGGGCCU
......(((((((.....)).((((((.((((.(((((.((((((((((((((((((.......))))))))))))).......))).).).))))).)))).)))))).)))))... (-45.67 = -47.15 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 19,828,191 – 19,828,307
Length 116
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 92.96
Mean single sequence MFE -47.56
Consensus MFE -38.46
Energy contribution -38.90
Covariance contribution 0.44
Combinations/Pair 1.07
Mean z-score -2.69
Structure conservation index 0.81
SVM decision value 2.40
SVM RNA-class probability 0.993488
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19828191 116 - 22224390
AGGCCCUGUGACUUUUCGGGAAUUCACGUCAGCCA-GGCACUGCCAGCUGGUAAAGGAAAACUGCCAGCUGACAGGCGCCGGAAUACCCGGAAAGACCGGAA-AACCCAGAGUACACG
.......(((.(((((((((.((((..(....)..-(((.(((.(((((((((.........))))))))).)))..))).)))).)))))))))...((..-...))......))). ( -44.10)
>DroSec_CAF1 33747 113 - 1
AGGCCCUGUGACUUUUCGGGAAUUCCCGUCAGCCG-G---CUGCCAGCUGGCAAAGGAAAACUGCCAGCUGACAGGCGCCGGAAUACCCGGAAAGCGCGGAA-AACCCAGAGUACCCG
.((..(((((.(((((((((.(((((.(.....((-.---(((.(((((((((.........))))))))).))).))).))))).))))))))))))((..-...))..))..)).. ( -49.70)
>DroSim_CAF1 32098 113 - 1
AGGCCCUGUGACUUUUCGGGAAUUCCCGUCAGCCG-G---CUGCCAGCUGGCAAAGGAAAACUGCCAGCUGACAGGCGCCGGAAUACCCGGAAAGCCCGGAA-AACCCAGAGUACGCG
.......((((((((..(((..((((.((((((.(-(---(((((....)))).((.....))))).)))))).(((.((((.....))))...))).))))-..)))))))).))). ( -48.70)
>DroEre_CAF1 23978 112 - 1
AGGCCCUGUGACUUUUCGGGAACUCCCGUCAGCCG-G---CUGCCAGCUGGUGGGGG-AAACUGCCAGAUGACAGGCGCCGGAAUACCCGGAAAGCCCGGAA-AACCCAGAGUACCCG
.((..((.((..((((((((..(((((..((((.(-(---...)).))))..)))))-.....(((........))).((((.....))))....)))))))-)...)).))..)).. ( -45.30)
>DroYak_CAF1 24854 115 - 1
AGGCCCUGUGACUUUUCGGGAAUUCCCGUCAGCCGGG---CUGCCAGCUGGCAAAGGAAAACAGCCAGCUGACAGGCGCCGGAAUAGCCGGAAAGCCCGGAAAAACCCAGAGUACCCG
.((..((.((..((((((((..((((.((...(((((---((..((((((((...........))))))))...))).))))....)).))))..))))))))....)).))..)).. ( -50.00)
>consensus
AGGCCCUGUGACUUUUCGGGAAUUCCCGUCAGCCG_G___CUGCCAGCUGGCAAAGGAAAACUGCCAGCUGACAGGCGCCGGAAUACCCGGAAAGCCCGGAA_AACCCAGAGUACCCG
.(((((((((.((...((((....))))..)).)..........(((((((((.........)))))))))))))).)))((.....((((.....))))......)).......... (-38.46 = -38.90 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 19,828,230 – 19,828,337
Length 107
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 81.88
Mean single sequence MFE -36.65
Consensus MFE -21.44
Energy contribution -24.28
Covariance contribution 2.83
Combinations/Pair 1.08
Mean z-score -2.53
Structure conservation index 0.59
SVM decision value 0.50
SVM RNA-class probability 0.761284
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19828230 107 + 22224390
CGCCUGUCAGCUGGCAGU--UUUCCUUUACCAGCUGGCAGUGCC-UGGCUGACGUGAAUUCCCGAAAAGUCACAGGGCCUACAAUGGCAGUGAAAAAUUGAGUUAGCGAU
.(((((((((((((.((.--......)).))))))))))).)).-..((((((((((.((......)).))))...(((......))).............))))))... ( -38.70)
>DroPse_CAF1 29320 97 + 1
---------GCUGGGUGUGAUGUCAGAUGUGAGAUGGGCG---A-UGGGUGAUGGGAAUUCCCAACAAGUCACAGGGCCUACAAUGGCAGUGAAAAAUUGAGUUAGCGAU
---------(((((.(.((((.(((..(((.(..(((((.---.-((..((.((((....)))).)).....))..)))))...).))).)))...))))).)))))... ( -26.80)
>DroSim_CAF1 32137 104 + 1
CGCCUGUCAGCUGGCAGU--UUUCCUUUGCCAGCUGGCAG---C-CGGCUGACGGGAAUUCCCGAAAAGUCACAGGGCCUACAAUGGCAGUGAAAAAUUGAGUUAGCGAU
((.((((((((((((((.--......))))))))))))))---.-))(((((((((....)))......((((...(((......))).))))........))))))... ( -50.90)
>DroEre_CAF1 24017 103 + 1
CGCCUGUCAUCUGGCAGU--UU-CCCCCACCAGCUGGCAG---C-CGGCUGACGGGAGUUCCCGAAAAGUCACAGGGCCUACAAUGGCAUUGAAAAAUUGAGUUAGCGAU
((.((((((.((((..(.--..-...)..)))).))))))---.-))(((((((((....))).........(((.(((......))).))).........))))))... ( -35.20)
>DroYak_CAF1 24894 105 + 1
CGCCUGUCAGCUGGCUGU--UUUCCUUUGCCAGCUGGCAG---CCCGGCUGACGGGAAUUCCCGAAAAGUCACAGGGCCUACAAUGGCAGUGAAAAAUUGAGUUAGCGAU
((.((((((((((((...--........))))))))))))---..))(((((((((....)))......((((...(((......))).))))........))))))... ( -46.30)
>DroPer_CAF1 29954 97 + 1
---------GCUGGGUGUGAUGUCAGAUGUGAGAUGGGAG---A-UGGGUGAAGGGAAUUCCCAACAAGUCACAGGGCCUACAAUGGCAGUGAAAAAUUGAGUUAGCGAU
---------(((((.(.((((.(((..(((.(..((((..---.-...((((.(((....)))......))))....))))...).))).)))...))))).)))))... ( -22.00)
>consensus
CGCCUGUCAGCUGGCAGU__UUUCCUUUGCCAGCUGGCAG___C_CGGCUGACGGGAAUUCCCGAAAAGUCACAGGGCCUACAAUGGCAGUGAAAAAUUGAGUUAGCGAU
...((((((.((((...............)))).)))))).......(((((((((....)))......((((...(((......))).))))........))))))... (-21.44 = -24.28 +   2.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:43 2006