View Alignment

This page shows all the targets hit by the same query that passed the project filter. Click a track to view the detailed alignment.

Legend
 Query
 Query hiting target  Query hiting target's complemental strand
 Query's complemental strand hiting target  Query's complemental strand hiting target's complemental strand

Alignment Overview

Query: NF9799_low_6 (Length: 242)

Name: NF9799_low_6
Description: NF9799
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9799_low_6
NF9799_low_6
[»] chr3 (11 HSPs)
chr3 (1-226)||(31252825-31253050)
chr3 (1-226)||(13002536-13002761)
chr3 (1-220)||(31093336-31093555)
chr3 (12-206)||(27206865-27207059)
chr3 (4-225)||(16163518-16163737)
chr3 (54-204)||(25658949-25659099)
chr3 (54-204)||(25665354-25665504)
chr3 (54-204)||(25671759-25671909)
chr3 (54-204)||(25678164-25678314)
chr3 (54-204)||(25684840-25684990)
chr3 (121-177)||(27229561-27229617)
[»] scaffold0029 (2 HSPs)
scaffold0029 (58-202)||(43042-43186)
scaffold0029 (120-202)||(18092-18174)
[»] chr2 (3 HSPs)
chr2 (58-202)||(33130018-33130162)
chr2 (58-200)||(33120275-33120417)
chr2 (92-205)||(19113240-19113353)


Alignment Details
Target: chr3 (Bit Score: 222; Significance: 1e-122; HSPs: 11)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 222; E-Value: 1e-122
Query Start/End: Original strand, 1 - 226
Target Start/End: Complemental strand, 31253050 - 31252825
Alignment:
Q  1 tgtaatcatgattggaattcatcaaagaaagtctttcttaatatttacatcatcaattctaagctatcttgaaaggagcaggttttagagaaggatatgc 100  Q
    |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  31253050 tgtaatcatgattggaattcatgaaagaaagtctttcttaatatttacatcatcaattctaagctatcttgaaaggagcaggttttagagaaggatatgc 31252951  T
Q  101 aaaagggccttcgattaatcctttagctatttgcttataagcggcttcggtaaaatggggtccatcccaatttattagttttgaaggatcagagcaaact 200  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  31252950 aaaagggccttcgattaatcctttagctatttgcttataagcggcttcggtaaaatggggtccatcccaatttattagttttgaaggatcagagcaaact 31252851  T
Q  201 gttgtattcggcgttccacaccaata 226  Q
    ||||||||||||||||||||||||||    
T  31252850 gttgtattcggcgttccacaccaata 31252825  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3; HSP #2
Raw Score: 218; E-Value: 1e-120
Query Start/End: Original strand, 1 - 226
Target Start/End: Original strand, 13002536 - 13002761
Alignment:
Q  1 tgtaatcatgattggaattcatcaaagaaagtctttcttaatatttacatcatcaattctaagctatcttgaaaggagcaggttttagagaaggatatgc 100  Q
    |||||||||||||| ||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  13002536 tgtaatcatgattgtaattcattaaagaaagtctttcttaatatttacatcatcaattctaagctatcttgaaaggagcaggttttagagaaggatatgc 13002635  T
Q  101 aaaagggccttcgattaatcctttagctatttgcttataagcggcttcggtaaaatggggtccatcccaatttattagttttgaaggatcagagcaaact 200  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  13002636 aaaagggccttcgattaatcctttagctatttgcttataagcggcttcggtaaaatggggtccatcccaatttattagttttgaaggatcagagcaaact 13002735  T
Q  201 gttgtattcggcgttccacaccaata 226  Q
    ||||||||||||||||||||||||||    
T  13002736 gttgtattcggcgttccacaccaata 13002761  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3; HSP #3
Raw Score: 148; E-Value: 3e-78
Query Start/End: Original strand, 1 - 220
Target Start/End: Original strand, 31093336 - 31093555
Alignment:
Q  1 tgtaatcatgattggaattcatcaaagaaagtctttcttaatatttacatcatcaattctaagctatcttgaaaggagcaggttttagagaaggatatgc 100  Q
    |||||||||| |||||||||||||||||||||| |||||||| ||||||||||| |||||||||||||||||||||||||||||||||||||||||||||    
T  31093336 tgtaatcatgcttggaattcatcaaagaaagtcgttcttaatgtttacatcatcgattctaagctatcttgaaaggagcaggttttagagaaggatatgc 31093435  T
Q  101 aaaagggccttcgattaatcctttagctatttgcttataagcggcttcggtaaaatggggtccatcccaatttattagttttgaaggatcagagcaaact 200  Q
    ||||| |||||| | ||| | ||||||||| ||||||||||||||||||||||| ||  | ||||||||||||| ||||||||||||||| ||||||| |    
T  31093436 aaaagagccttccactaaacatttagctatatgcttataagcggcttcggtaaagtgttgaccatcccaatttaatagttttgaaggatcggagcaaatt 31093535  T
Q  201 gttgtattcggcgttccaca 220  Q
    |||||||||| |||||||||    
T  31093536 gttgtattcgacgttccaca 31093555  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3; HSP #4
Raw Score: 127; E-Value: 1e-65
Query Start/End: Original strand, 12 - 206
Target Start/End: Complemental strand, 27207059 - 27206865
Alignment:
Q  12 ttggaattcatcaaagaaagtctttcttaatatttacatcatcaattctaagctatcttgaaaggagcaggttttagagaaggatatgcaaaagggcctt 111  Q
    |||||| |||||||||||||||||||||||| ||| ||||||||||||||| |||||||||||||||| |||||||||||||||| ||||||| ||||||    
T  27207059 ttggaaatcatcaaagaaagtctttcttaatgtttgcatcatcaattctaaactatcttgaaaggagcgggttttagagaaggatttgcaaaatggcctt 27206960  T
Q  112 cgattaatcctttagctatttgcttataagcggcttcggtaaaatggggtccatcccaatttattagttttgaaggatcagagcaaactgttgta 206  Q
    ||||||| ||||||| |||||| |||| ||| ||||| ||||| || ||||||||||||||||||||||| |||||||||||||||| |||||||    
T  27206959 cgattaaacctttagttatttgtttatgagctgcttcagtaaagtgcggtccatcccaatttattagtttcgaaggatcagagcaaattgttgta 27206865  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3; HSP #5
Raw Score: 95; E-Value: 1e-46
Query Start/End: Original strand, 4 - 225
Target Start/End: Complemental strand, 16163737 - 16163518
Alignment:
Q  4 aatcatgattggaattcatcaaagaaagtctttcttaatatttacatcatcaattctaagctatcttgaaaggagcaggttttagagaaggatatgcaaa 103  Q
    ||||||| || ||||||||| || |||||||||||| || |   ||||||||||||||  |||||||||||| |||||||||||| || |||| ||||||    
T  16163737 aatcatgcttagaattcatcgaacaaagtctttcttgatgtg--catcatcaattctagactatcttgaaagcagcaggttttagggatggatttgcaaa 16163640  T
Q  104 agggccttcgattaatcctttagctatttgcttataagcggcttcggtaaaatggggtccatcccaatttattagttttgaaggatcagagcaaactgtt 203  Q
    ||  ||||| ||||| ||||| |||||||||||||| || |||||||| || || ||||||||  |||||||||||||||||||||||||||||||||||    
T  16163639 agaaccttcaattaaacctttggctatttgcttatatgctgcttcggttaagtgaggtccatcaaaatttattagttttgaaggatcagagcaaactgtt 16163540  T
Q  204 gtattcggcgttccacaccaat 225  Q
    |||   ||| ||||||||||||    
T  16163539 gtaccaggcattccacaccaat 16163518  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3; HSP #6
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 54 - 204
Target Start/End: Complemental strand, 25659099 - 25658949
Alignment:
Q  54 caattctaagctatcttgaaaggagcaggttttagagaaggatatgcaaaagggccttcgattaatcctttagctatttgcttataagcggcttcggtaa 153  Q
    |||||||||||||| |||||| ||| || ||| || ||||||| ||||||||||||||| | || ||| || ||||||  |||||| |  ||||| || |    
T  25659099 caattctaagctatattgaaaagaggagttttaagggaaggatttgcaaaagggccttcaactagtccctttgctattaacttatatgatgcttcagtta 25659000  T
Q  154 aatggggtccatcccaatttattagttttgaaggatcagagcaaactgttg 204  Q
    | || |  ||||||||||||||   ||||||||| || | |||||||||||    
T  25658999 agtgtgagccatcccaatttatatattttgaagggtcggggcaaactgttg 25658949  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3; HSP #7
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 54 - 204
Target Start/End: Complemental strand, 25665504 - 25665354
Alignment:
Q  54 caattctaagctatcttgaaaggagcaggttttagagaaggatatgcaaaagggccttcgattaatcctttagctatttgcttataagcggcttcggtaa 153  Q
    |||||||||||||| |||||| ||| || ||| || ||||||| ||||||||||||||| | || ||| || ||||||  |||||| |  ||||| || |    
T  25665504 caattctaagctatattgaaaagaggagttttaagggaaggatttgcaaaagggccttcaactagtccctttgctattaacttatatgatgcttcagtta 25665405  T
Q  154 aatggggtccatcccaatttattagttttgaaggatcagagcaaactgttg 204  Q
    | || |  ||||||||||||||   ||||||||| || | |||||||||||    
T  25665404 agtgtgagccatcccaatttatatattttgaagggtcggggcaaactgttg 25665354  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3; HSP #8
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 54 - 204
Target Start/End: Complemental strand, 25671909 - 25671759
Alignment:
Q  54 caattctaagctatcttgaaaggagcaggttttagagaaggatatgcaaaagggccttcgattaatcctttagctatttgcttataagcggcttcggtaa 153  Q
    |||||||||||||| |||||| ||| || ||| || ||||||| ||||||||||||||| | || ||| || ||||||  |||||| |  ||||| || |    
T  25671909 caattctaagctatattgaaaagaggagttttaagggaaggatttgcaaaagggccttcaactagtccctttgctattaacttatatgatgcttcagtta 25671810  T
Q  154 aatggggtccatcccaatttattagttttgaaggatcagagcaaactgttg 204  Q
    | || |  ||||||||||||||   ||||||||| || | |||||||||||    
T  25671809 agtgtgagccatcccaatttatatattttgaagggtcggggcaaactgttg 25671759  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3; HSP #9
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 54 - 204
Target Start/End: Complemental strand, 25678314 - 25678164
Alignment:
Q  54 caattctaagctatcttgaaaggagcaggttttagagaaggatatgcaaaagggccttcgattaatcctttagctatttgcttataagcggcttcggtaa 153  Q
    |||||||||||||| |||||| ||| || ||| || ||||||| ||||||||||||||| | || ||| || ||||||  |||||| |  ||||| || |    
T  25678314 caattctaagctatattgaaaagaggagttttaagggaaggatttgcaaaagggccttcaactagtccctttgctattaacttatatgatgcttcagtta 25678215  T
Q  154 aatggggtccatcccaatttattagttttgaaggatcagagcaaactgttg 204  Q
    | || |  ||||||||||||||   ||||||||| || | |||||||||||    
T  25678214 agtgtgagccatcccaatttatatattttgaagggtcggggcaaactgttg 25678164  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3; HSP #10
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 54 - 204
Target Start/End: Complemental strand, 25684990 - 25684840
Alignment:
Q  54 caattctaagctatcttgaaaggagcaggttttagagaaggatatgcaaaagggccttcgattaatcctttagctatttgcttataagcggcttcggtaa 153  Q
    |||||||||||||| |||||| ||| || ||| || ||||||| ||||||||||||||| | || ||| || ||||||  |||||| |  ||||| || |    
T  25684990 caattctaagctatattgaaaagaggagttttaagggaaggatttgcaaaagggccttcaactagtccctttgctattaacttatatgatgcttcagtta 25684891  T
Q  154 aatggggtccatcccaatttattagttttgaaggatcagagcaaactgttg 204  Q
    | || |  ||||||||||||||   ||||||||| || | |||||||||||    
T  25684890 agtgtgagccatcccaatttatatattttgaagggtcggggcaaactgttg 25684840  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3; HSP #11
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 121 - 177
Target Start/End: Complemental strand, 27229617 - 27229561
Alignment:
Q  121 ctttagctatttgcttataagcggcttcggtaaaatggggtccatcccaatttatta 177  Q
    |||| ||||||||||||| ||| ||||||||||| |||| ||||||| |||||||||    
T  27229617 cttttgctatttgcttatgagctgcttcggtaaagtgggatccatcctaatttatta 27229561  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: scaffold0029 (Bit Score: 49; Significance: 4e-19; HSPs: 2)
Name: scaffold0029
Description:

Target: scaffold0029; HSP #1
Raw Score: 49; E-Value: 4e-19
Query Start/End: Original strand, 58 - 202
Target Start/End: Original strand, 43042 - 43186
Alignment:
Q  58 tctaagctatcttgaaaggagcaggttttagagaaggatatgcaaaagggccttcgattaatcctttagctatttgcttataagcggcttcggtaaaatg 157  Q
    |||||||||| |||||| |||  | ||| |||||||||| || ||| || || || | ||  ||||| |||||| |||||||||| ||||| ||||| ||    
T  43042 tctaagctattttgaaaagaggggatttaagagaaggatttgaaaatggaccctcaactagcccttttgctattagcttataagctgcttcagtaaagtg 43141  T
Q  158 gggtccatcccaatttattagttttgaaggatcagagcaaactgt 202  Q
     ||||| |||||||||||  |||||||||||||||||||||||||    
T  43142 tggtccgtcccaatttatacgttttgaaggatcagagcaaactgt 43186  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: scaffold0029; HSP #2
Raw Score: 47; E-Value: 6e-18
Query Start/End: Original strand, 120 - 202
Target Start/End: Original strand, 18092 - 18174
Alignment:
Q  120 cctttagctatttgcttataagcggcttcggtaaaatggggtccatcccaatttattagttttgaaggatcagagcaaactgt 202  Q
    ||||| |||||| |||||||||| ||||| ||||| || ||||| |||||||||||  |||||||||||||||||||||||||    
T  18092 ccttttgctattagcttataagctgcttcagtaaagtgtggtccgtcccaatttatacgttttgaaggatcagagcaaactgt 18174  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2 (Bit Score: 49; Significance: 4e-19; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 49; E-Value: 4e-19
Query Start/End: Original strand, 58 - 202
Target Start/End: Original strand, 33130018 - 33130162
Alignment:
Q  58 tctaagctatcttgaaaggagcaggttttagagaaggatatgcaaaagggccttcgattaatcctttagctatttgcttataagcggcttcggtaaaatg 157  Q
    |||||||||| |||||| |||  | ||| |||||||||| || ||| || || || | ||  ||||| |||||| |||||||||| ||||| ||||| ||    
T  33130018 tctaagctattttgaaaagaggggatttaagagaaggatttgaaaatggaccctcaactagcccttttgctattagcttataagctgcttcagtaaagtg 33130117  T
Q  158 gggtccatcccaatttattagttttgaaggatcagagcaaactgt 202  Q
     ||||| |||||||||||  |||||||||||||||||||||||||    
T  33130118 aggtccgtcccaatttatacgttttgaaggatcagagcaaactgt 33130162  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2; HSP #2
Raw Score: 43; E-Value: 0.000000000000001
Query Start/End: Original strand, 58 - 200
Target Start/End: Original strand, 33120275 - 33120417
Alignment:
Q  58 tctaagctatcttgaaaggagcaggttttagagaaggatatgcaaaagggccttcgattaatcctttagctatttgcttataagcggcttcggtaaaatg 157  Q
    |||||||||| |||||| |||  | ||| |||||||||| || ||| || || || | ||  ||||| |||||| |||||||||| ||||| ||||| ||    
T  33120275 tctaagctattttgaaaagaggggatttaagagaaggatttgaaaatggaccctcaactagcccttttgctattagcttataagctgcttcagtaaagtg 33120374  T
Q  158 gggtccatcccaatttattagttttgaaggatcagagcaaact 200  Q
     ||||| |||||||||||  | |||||||||||||||||||||    
T  33120375 aggtccgtcccaatttatacgatttgaaggatcagagcaaact 33120417  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2; HSP #3
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 92 - 205
Target Start/End: Complemental strand, 19113353 - 19113240
Alignment:
Q  92 aggatatgcaaaagggccttcgattaatcctttagctatttgcttataagcggcttcggtaaaatggggtccatcccaatttattagttttgaaggatca 191  Q
    ||||| ||||||||| ||||| | || |||||| ||||||||| |||| || ||||| ||||  ||||||||||||||||||||   ||| ||||| ||     
T  19113353 aggatttgcaaaaggaccttcaactagtccttttgctatttgcctatatgctgcttctgtaaggtggggtccatcccaatttatatatttagaagggtcg 19113254  T
Q  192 gagcaaactgttgt 205  Q
    |||||||| |||||    
T  19113253 gagcaaacagttgt 19113240  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]



© Oklahoma State University