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: NF3704_1D_low_5 (Length: 390)

Name: NF3704_1D_low_5
Description: NF3704_1D
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF3704_1D_low_5
NF3704_1D_low_5
[»] chr4 (7 HSPs)
chr4 (10-378)||(44361165-44361532)
chr4 (75-361)||(35736176-35736454)
chr4 (124-181)||(38020377-38020433)
chr4 (124-187)||(2097082-2097144)
chr4 (141-187)||(29728814-29728859)
chr4 (139-187)||(22841088-22841136)
chr4 (144-176)||(43848689-43848721)
[»] chr7 (3 HSPs)
chr7 (125-187)||(46976943-46977005)
chr7 (126-187)||(36062542-36062603)
chr7 (142-178)||(37829928-37829964)
[»] chr5 (4 HSPs)
chr5 (140-185)||(9860790-9860835)
chr5 (125-187)||(29814963-29815024)
chr5 (128-181)||(31674258-31674311)
chr5 (140-176)||(7367596-7367632)
[»] chr8 (1 HSPs)
chr8 (126-176)||(12005095-12005145)
[»] chr6 (2 HSPs)
chr6 (122-176)||(23907946-23908000)
chr6 (125-181)||(21537471-21537526)
[»] chr2 (2 HSPs)
chr2 (145-187)||(26849265-26849307)
chr2 (140-181)||(14195205-14195245)
[»] chr3 (3 HSPs)
chr3 (144-188)||(42892912-42892957)
chr3 (140-181)||(54913724-54913765)
chr3 (124-176)||(54220540-54220592)


Alignment Details
Target: chr4 (Bit Score: 321; Significance: 0; HSPs: 7)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 321; E-Value: 0
Query Start/End: Original strand, 10 - 378
Target Start/End: Original strand, 44361165 - 44361532
Alignment:
Q  10 tgagatggacatcacttaaatcataacattcaatgttcattgtcactacnnnnnnnnngaaacggccaattaatgttagtaattagttcttatgttaata 109  Q
    |||||||| ||| ||||||||||||||||||||||||||||||||||||         |||||||||||| |||||||||||||||||||||||||||||    
T  44361165 tgagatggccataacttaaatcataacattcaatgttcattgtcactactttttttt-gaaacggccaatcaatgttagtaattagttcttatgttaata 44361263  T
Q  110 ttttttcttttattgggtttgaacctgggtcctccaactcctttaacccttagctcaaaccagttgaactactcaacctccacccctctcctgttcagcg 209  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||    
T  44361264 ttttttcttttattgggtttgaacctgggtcctccaactcctttaacccttagctcaaactagttgaactactcaacctccacccctctcctgttcagcg 44361363  T
Q  210 tcactactattttgccacattttgattctgctgttttcattatattgaaaatggtgctttctgtaaacaatcaaatgaattagatattttaatatttctt 309  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  44361364 tcactactattttgccacattttgattctgctgttttcattatattgaaaatggtgctttctgtaaacaatcaaatgaattagatattttaatatttctt 44361463  T
Q  310 ttggctagatgtgtgatctatatagttgattgaaggtttgttatgattaatatatacgaaatatgatgt 378  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  44361464 ttggctagatgtgtgatctatatagttgattgaaggtttgttatgattaatatatacgaaatatgatgt 44361532  T

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

Target: chr4; HSP #2
Raw Score: 74; E-Value: 8e-34
Query Start/End: Original strand, 75 - 361
Target Start/End: Original strand, 35736176 - 35736454
Alignment:
Q  75 ccaattaatgttagtaattagttcttatgttaatattttttcttttattgggtttgaacctgggtcctccaactcctttaacccttagctcaaaccagtt 174  Q
    ||||||||||||||||||||||| |||   || |||||| || || |   | |||||||| ||||||||||||||||||||||   ||||||||| ||||    
T  35736176 ccaattaatgttagtaattagttgttacactagtattttatccttcaccagatttgaacccgggtcctccaactcctttaacc---agctcaaactagtt 35736272  T
Q  175 gaactactcaacctccacccctctcctgttcagcgtcactactatttt-gccacattttgattctgctgttttcattatattgaaaatggtgctttctgt 273  Q
    |  |||| |||     |||||  | ||||   | |||||||||||||| ||| |||||||||||||||||||| |||| |||||||||||| ||| ||||    
T  35736273 gccctacccaat----acccccgttctgt---gtgtcactactatttttgcctcattttgattctgctgtttttattaaattgaaaatggttctt-ctgt 35736364  T
Q  274 aaacaatcaaatgaattagatattttaatatttcttttggctagatgtg--tgatctatatagttgattgaaggtttgttatgattaata 361  Q
    ||||| | ||||||||||||| ||||  |||||||||||||||||||||  | |||  |||||| |||||||| ||||||||||||||||    
T  35736365 aaacactaaaatgaattagatgttttggtatttcttttggctagatgtgtataatcactatagtcgattgaagatttgttatgattaata 35736454  T

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

Target: chr4; HSP #3
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 124 - 181
Target Start/End: Complemental strand, 38020433 - 38020377
Alignment:
Q  124 gggtttgaacctgggtcctccaactcctttaacccttagctcaaaccagttgaactac 181  Q
    |||||||||||| || ||||||||||||| ||||||||||||||||||||||| ||||    
T  38020433 gggtttgaaccttggacctccaactcctt-aacccttagctcaaaccagttgagctac 38020377  T

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

Target: chr4; HSP #4
Raw Score: 32; E-Value: 0.000000009
Query Start/End: Original strand, 124 - 187
Target Start/End: Complemental strand, 2097144 - 2097082
Alignment:
Q  124 gggtttgaacctgggtcctccaactcctttaacccttagctcaaaccagttgaactactcaacc 187  Q
    |||||||||||  || ||||||||||||| |||||||||||||||| |||||| |||| |||||    
T  2097144 gggtttgaacccaggacctccaactcctt-aacccttagctcaaactagttgagctacccaacc 2097082  T

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

Target: chr4; HSP #5
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 141 - 187
Target Start/End: Original strand, 29728814 - 29728859
Alignment:
Q  141 ctccaactcctttaacccttagctcaaaccagttgaactactcaacc 187  Q
    |||||||||||| ||||||||||||||||||||||| |||| |||||    
T  29728814 ctccaactcctt-aacccttagctcaaaccagttgagctacccaacc 29728859  T

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

Target: chr4; HSP #6
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 139 - 187
Target Start/End: Complemental strand, 22841136 - 22841088
Alignment:
Q  139 tcctccaactcctttaacccttagctcaaaccagttgaactactcaacc 187  Q
    |||| |||||| ||||||||||||||||||||| |||  ||||||||||    
T  22841136 tccttcaactcttttaacccttagctcaaaccaattgtgctactcaacc 22841088  T

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

Target: chr4; HSP #7
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 144 - 176
Target Start/End: Original strand, 43848689 - 43848721
Alignment:
Q  144 caactcctttaacccttagctcaaaccagttga 176  Q
    |||||||||||||||||||||||||| ||||||    
T  43848689 caactcctttaacccttagctcaaactagttga 43848721  T

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

Target: chr7 (Bit Score: 43; Significance: 0.000000000000002; HSPs: 3)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 43; E-Value: 0.000000000000002
Query Start/End: Original strand, 125 - 187
Target Start/End: Original strand, 46976943 - 46977005
Alignment:
Q  125 ggtttgaacctgggtcctccaactcctttaacccttagctcaaaccagttgaactactcaacc 187  Q
    |||||||||||| || ||||||||| |||||||||||||||||||||||||| |||| |||||    
T  46976943 ggtttgaacctgagttctccaactcttttaacccttagctcaaaccagttgagctacccaacc 46977005  T

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

Target: chr7; HSP #2
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 126 - 187
Target Start/End: Original strand, 36062542 - 36062603
Alignment:
Q  126 gtttgaacctgggtcctccaactcctttaacccttagctcaaaccagttgaactactcaacc 187  Q
    ||||| ||||||| ||||| |||||||||||||||||||||||| |||||| |||| |||||    
T  36062542 gtttggacctgggacctcctactcctttaacccttagctcaaacaagttgagctacccaacc 36062603  T

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

Target: chr7; HSP #3
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 142 - 178
Target Start/End: Complemental strand, 37829964 - 37829928
Alignment:
Q  142 tccaactcctttaacccttagctcaaaccagttgaac 178  Q
    ||||||||||||||||||||| |||||||||||||||    
T  37829964 tccaactcctttaacccttagatcaaaccagttgaac 37829928  T

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

Target: chr5 (Bit Score: 42; Significance: 0.000000000000009; HSPs: 4)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 42; E-Value: 0.000000000000009
Query Start/End: Original strand, 140 - 185
Target Start/End: Original strand, 9860790 - 9860835
Alignment:
Q  140 cctccaactcctttaacccttagctcaaaccagttgaactactcaa 185  Q
    ||||||||||||||||||||||||||||||||||||| ||||||||    
T  9860790 cctccaactcctttaacccttagctcaaaccagttgagctactcaa 9860835  T

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

Target: chr5; HSP #2
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 125 - 187
Target Start/End: Original strand, 29814963 - 29815024
Alignment:
Q  125 ggtttgaacctgggtcctccaactcctttaacccttagctcaaaccagttgaactactcaacc 187  Q
    ||||||||||| || ||||||||||| ||| |||||||||||||||| |||| |||| |||||    
T  29814963 ggtttgaacctaggacctccaactcc-ttatcccttagctcaaaccaattgagctacccaacc 29815024  T

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

Target: chr5; HSP #3
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 128 - 181
Target Start/End: Complemental strand, 31674311 - 31674258
Alignment:
Q  128 ttgaacctgggtcctccaactcctttaacccttagctcaaaccagttgaactac 181  Q
    ||||||| ||| | ||||||||||||| ||||||| ||||||||||||| ||||    
T  31674311 ttgaacccgggacatccaactcctttaccccttagttcaaaccagttgagctac 31674258  T

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

Target: chr5; HSP #4
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 140 - 176
Target Start/End: Complemental strand, 7367632 - 7367596
Alignment:
Q  140 cctccaactcctttaacccttagctcaaaccagttga 176  Q
    |||||||||||||||||||||||| ||||| ||||||    
T  7367632 cctccaactcctttaacccttagcgcaaacaagttga 7367596  T

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

Target: chr8 (Bit Score: 31; Significance: 0.00000003; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 126 - 176
Target Start/End: Complemental strand, 12005145 - 12005095
Alignment:
Q  126 gtttgaacctgggtcctccaactcctttaacccttagctcaaaccagttga 176  Q
    ||||||| ||||| ||||||| |||| |||| |||||||||||||||||||    
T  12005145 gtttgaatctgggacctccaattcctgtaactcttagctcaaaccagttga 12005095  T

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

Target: chr6 (Bit Score: 31; Significance: 0.00000003; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 122 - 176
Target Start/End: Original strand, 23907946 - 23908000
Alignment:
Q  122 ttgggtttgaacctgggtcctccaactcctttaacccttagctcaaaccagttga 176  Q
    ||||||||||||| ||| ||||||| ||||||||| | ||||||||| |||||||    
T  23907946 ttgggtttgaacccgggacctccaaatcctttaactcctagctcaaagcagttga 23908000  T

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

Target: chr6; HSP #2
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 125 - 181
Target Start/End: Complemental strand, 21537526 - 21537471
Alignment:
Q  125 ggtttgaacctgggtcctccaactcctttaacccttagctcaaaccagttgaactac 181  Q
    |||||||||||  | ||||||||||||| |||||||||||||||| |||||| ||||    
T  21537526 ggtttgaaccttagacctccaactcctt-aacccttagctcaaactagttgagctac 21537471  T

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

Target: chr2 (Bit Score: 31; Significance: 0.00000003; HSPs: 2)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 145 - 187
Target Start/End: Original strand, 26849265 - 26849307
Alignment:
Q  145 aactcctttaacccttagctcaaaccagttgaactactcaacc 187  Q
    |||||||||| ||||||||||||||||||||| |||| |||||    
T  26849265 aactcctttatcccttagctcaaaccagttgagctacccaacc 26849307  T

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

Target: chr2; HSP #2
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 140 - 181
Target Start/End: Original strand, 14195205 - 14195245
Alignment:
Q  140 cctccaactcctttaacccttagctcaaaccagttgaactac 181  Q
    ||||||||||||| ||||||||||||||||||||||| ||||    
T  14195205 cctccaactcctt-aacccttagctcaaaccagttgagctac 14195245  T

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

Target: chr3 (Bit Score: 30; Significance: 0.0000001; HSPs: 3)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 144 - 188
Target Start/End: Complemental strand, 42892957 - 42892912
Alignment:
Q  144 caactcctttaa-cccttagctcaaaccagttgaactactcaacct 188  Q
    |||||||||||| |||||||||||||||| ||||||| ||||||||    
T  42892957 caactcctttaatcccttagctcaaaccaattgaactcctcaacct 42892912  T

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

Target: chr3; HSP #2
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 140 - 181
Target Start/End: Original strand, 54913724 - 54913765
Alignment:
Q  140 cctccaactcctttaacccttagctcaaaccagttgaactac 181  Q
    |||||||||| ||||||||||||||||||| |||||| ||||    
T  54913724 cctccaactcttttaacccttagctcaaactagttgagctac 54913765  T

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

Target: chr3; HSP #3
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 124 - 176
Target Start/End: Original strand, 54220540 - 54220592
Alignment:
Q  124 gggtttgaacctgggtcctccaactcctttaacccttagctcaaaccagttga 176  Q
    |||||||||| | |||||| ||||| ||| ||| |||||||||||||||||||    
T  54220540 gggtttgaacatcggtccttcaactgcttcaactcttagctcaaaccagttga 54220592  T

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



© Oklahoma State University