Locus 7167

Sequence ID 3L_DroMel_CAF1
Location 19,218,499 – 19,218,750
Length 251
Max. P 0.990801
window11638 window11639 window11640 window11641

overview

Window 8

Location 19,218,499 – 19,218,598
Length 99
Sequences 3
Columns 99
Reading direction forward
Mean pairwise identity 99.33
Mean single sequence MFE -24.10
Consensus MFE -24.10
Energy contribution -24.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.89
Structure conservation index 1.00
SVM decision value 2.07
SVM RNA-class probability 0.987187
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19218499 99 + 23771897
GGAAAGGCCAAACUAGAAAAUGGGGCCAGGGAAAAGCAAAAGCAGCUUUACCAGGCAAAGGCUAAAAAGUAAACGCCUUUGGUUAGUGAAAAGUGAAAG
.....((((...(........).))))..((.(((((.......))))).))((.(((((((............))))))).))............... ( -24.10)
>DroSec_CAF1 47234 99 + 1
GGAAAGGCCAAACUGGAAAAUGGGGCCAGGGAAAAGCAAAAGCAGCUUUACCAGGCAAAGGCUAAAAAGUAAACGCCUUUGGUUAGUGAAAAGUGAAAG
.....((((...(........).))))..((.(((((.......))))).))((.(((((((............))))))).))............... ( -24.10)
>DroSim_CAF1 50987 99 + 1
GGAAAGGCCAAACUGGAAAAUGGGGCCAGGGAAAAGCAAAAGCAGCUUUACCAGGCAAAGGCUAAAAAGUAAACGCCUUUGGUUAGUGAAAAGUGAAAG
.....((((...(........).))))..((.(((((.......))))).))((.(((((((............))))))).))............... ( -24.10)
>consensus
GGAAAGGCCAAACUGGAAAAUGGGGCCAGGGAAAAGCAAAAGCAGCUUUACCAGGCAAAGGCUAAAAAGUAAACGCCUUUGGUUAGUGAAAAGUGAAAG
.....((((...(........).))))..((.(((((.......))))).))((.(((((((............))))))).))............... (-24.10 = -24.10 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 19,218,499 – 19,218,598
Length 99
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 99.33
Mean single sequence MFE -21.40
Consensus MFE -21.33
Energy contribution -21.33
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.28
Structure conservation index 1.00
SVM decision value 2.23
SVM RNA-class probability 0.990801
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19218499 99 - 23771897
CUUUCACUUUUCACUAACCAAAGGCGUUUACUUUUUAGCCUUUGCCUGGUAAAGCUGCUUUUGCUUUUCCCUGGCCCCAUUUUCUAGUUUGGCCUUUCC
............((((..(((((((............)))))))..))))(((((.......))))).....((((..(((....)))..))))..... ( -21.80)
>DroSec_CAF1 47234 99 - 1
CUUUCACUUUUCACUAACCAAAGGCGUUUACUUUUUAGCCUUUGCCUGGUAAAGCUGCUUUUGCUUUUCCCUGGCCCCAUUUUCCAGUUUGGCCUUUCC
............((((..(((((((............)))))))..))))(((((.......))))).....((((..((......))..))))..... ( -21.20)
>DroSim_CAF1 50987 99 - 1
CUUUCACUUUUCACUAACCAAAGGCGUUUACUUUUUAGCCUUUGCCUGGUAAAGCUGCUUUUGCUUUUCCCUGGCCCCAUUUUCCAGUUUGGCCUUUCC
............((((..(((((((............)))))))..))))(((((.......))))).....((((..((......))..))))..... ( -21.20)
>consensus
CUUUCACUUUUCACUAACCAAAGGCGUUUACUUUUUAGCCUUUGCCUGGUAAAGCUGCUUUUGCUUUUCCCUGGCCCCAUUUUCCAGUUUGGCCUUUCC
............((((..(((((((............)))))))..))))(((((.......))))).....((((..(((....)))..))))..... (-21.33 = -21.33 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 19,218,539 – 19,218,638
Length 99
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 88.53
Mean single sequence MFE -25.83
Consensus MFE -22.52
Energy contribution -22.15
Covariance contribution -0.37
Combinations/Pair 1.08
Mean z-score -1.34
Structure conservation index 0.87
SVM decision value 0.00
SVM RNA-class probability 0.533954
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19218539 99 - 23771897
UGCUCCCGAGUCGGCGGCUGUCGUAUUUGUUUACGCUGCUCUUUCACUUUUCACUAACCAAAGGCGUUUACUUUUUAGCCUUUGCCUGGUAAAGC--------------------UGCU
.(((...(((..((((((....(((......)))))))))..))).......((((..(((((((............)))))))..))))..)))--------------------.... ( -25.60)
>DroSec_CAF1 47274 99 - 1
UGCUCCCGAGUCGGUGGCUGUCGUAUUUGUUUACGCUGCUCUUUCACUUUUCACUAACCAAAGGCGUUUACUUUUUAGCCUUUGCCUGGUAAAGC--------------------UGCU
.(((...(((.(((((.....((....))....))))))))...........((((..(((((((............)))))))..))))..)))--------------------.... ( -23.10)
>DroSim_CAF1 51027 99 - 1
UGCUCCCGAGUCGGCGGCUGUCGUAUUUGUUUACGCUGCUCUUUCACUUUUCACUAACCAAAGGCGUUUACUUUUUAGCCUUUGCCUGGUAAAGC--------------------UGCU
.(((...(((..((((((....(((......)))))))))..))).......((((..(((((((............)))))))..))))..)))--------------------.... ( -25.60)
>DroYak_CAF1 76249 119 - 1
UGGUCCCGAGUCGGCGACUCUUGUAUUUGUUUACGCUGCUCUUUCACUUUUCACUAACCAAAGGCGUUUACUUUUUAGCCUUUGCCUGGUAAAGCUUGGCUUUUGCUUCGGCUUCUGCU
.......(((.(((((...(........)....)))))))).....((((..((((..(((((((............)))))))..))))))))...(((....((....))....))) ( -29.00)
>consensus
UGCUCCCGAGUCGGCGGCUGUCGUAUUUGUUUACGCUGCUCUUUCACUUUUCACUAACCAAAGGCGUUUACUUUUUAGCCUUUGCCUGGUAAAGC____________________UGCU
.......(((.(((((.....((....))....)))))))).....((((..((((..(((((((............)))))))..))))))))......................... (-22.52 = -22.15 +  -0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 19,218,638 – 19,218,750
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.55
Mean single sequence MFE -38.02
Consensus MFE -26.88
Energy contribution -26.92
Covariance contribution 0.04
Combinations/Pair 1.18
Mean z-score -1.70
Structure conservation index 0.71
SVM decision value 0.10
SVM RNA-class probability 0.582511
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19218638 112 + 23771897
ACUUACAUCUGCUGAUAAAGAAAACAGCAGGCAUCCCAUGUGAGCCAUGUCCAUAGGUUAUAAAUCGUGGUCGGGCUG-----CCUGGUUGGGUGGUUCCGACCUGGCUAGGUAGUU---
.(((((((((((((..........)))))).......)))))))...((.((((.(((.....))))))).))(((((-----((((((..((((....).)))..)))))))))))--- ( -40.81)
>DroSec_CAF1 47373 110 + 1
ACUUACAUCUGCUGAUAAAGAAAACAGCAGGCAUCCCAUGUGAGCCACGUCCAUAGGUUAUAAAUCGUGGUUGGGCUG-----CCUGGUUGGGUGGUUCCGACCUGGCUAGGUUG-----
........((((((..........))))))(((.((((.....((((((................)))))))))).))-----)(((((..((((....).)))..)))))....----- ( -37.59)
>DroSim_CAF1 51126 110 + 1
ACUUACAUCUGCUGAUAAAGAAAACAGCAGGCAUCCCAUGUGAGCCAUGUCCAUAGGUUAUAAAUCGUGGUUGGGCUG-----CCUGGUUGGGUGGUUCCGACCUGGCUAGGUUG-----
.(((((((((((((..........)))))).......)))))))(((...((((.(((.....))))))).)))...(-----((((((..((((....).)))..)))))))..----- ( -36.81)
>DroEre_CAF1 49643 119 + 1
ACUUACAUCUGCUGAUAAAGAAAACAGCAGGCAUCCUAUGUGAGCCAUGUUCAUAGUUUAUAAAUCGUGGUUGGGUUGGUUAGGCCGGUGGGGCGGUUCCGACCUGGCUGAGUGGGUGG-
.......(((((((..........)))))))(((((..(((((((...))))))).............(((..((((((....(((.....)))....))))))..)))....))))).- ( -40.60)
>DroYak_CAF1 76368 106 + 1
ACUUACAUCUCCUGAUAAAGAAAACUGCAGGCAUCCUAUGUGAGCCAUG----UAGUUUAUAAAUCAUGGUUG----------GCUGGUUGGGCGGUUUCGACCUGGCUGGGUGGGUGCU
((((((....((((((.....(((((((((((.((......))))).))----))))))....)))).))...----------.(..((..((((....)).))..))..)))))))... ( -34.30)
>consensus
ACUUACAUCUGCUGAUAAAGAAAACAGCAGGCAUCCCAUGUGAGCCAUGUCCAUAGGUUAUAAAUCGUGGUUGGGCUG_____CCUGGUUGGGUGGUUCCGACCUGGCUAGGUGG_U___
.(((((((((((((..........)))))).......)))))))(((((................))))).............((((((..((((....)).))..))))))........ (-26.88 = -26.92 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:49 2006