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: NF3599_high_21 (Length: 221)

Name: NF3599_high_21
Description: NF3599
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF3599_high_21
NF3599_high_21
[»] chr3 (7 HSPs)
chr3 (1-221)||(17682130-17682350)
chr3 (1-176)||(19766372-19766547)
chr3 (175-220)||(19766578-19766623)
chr3 (72-117)||(19881742-19881787)
chr3 (72-106)||(37982797-37982831)
chr3 (72-103)||(53972931-53972962)
chr3 (72-117)||(31685508-31685553)
[»] chr2 (4 HSPs)
chr2 (1-151)||(32277372-32277526)
chr2 (72-115)||(18354946-18354989)
chr2 (72-117)||(23348611-23348656)
chr2 (72-106)||(12742133-12742167)
[»] chr8 (3 HSPs)
chr8 (72-117)||(14677653-14677698)
chr8 (72-117)||(31100503-31100548)
chr8 (72-117)||(5658201-5658246)
[»] chr7 (3 HSPs)
chr7 (72-117)||(1262534-1262579)
chr7 (72-117)||(43071013-43071058)
chr7 (72-117)||(48849413-48849458)
[»] chr5 (3 HSPs)
chr5 (72-117)||(7473120-7473165)
chr5 (72-117)||(30442177-30442222)
chr5 (72-106)||(9044247-9044281)
[»] chr6 (4 HSPs)
chr6 (72-106)||(10092917-10092951)
chr6 (131-176)||(10092961-10093006)
chr6 (72-106)||(33045088-33045122)
chr6 (175-207)||(15434339-15434371)
[»] scaffold0596 (1 HSPs)
scaffold0596 (72-117)||(1099-1144)
[»] scaffold0045 (1 HSPs)
scaffold0045 (72-117)||(11265-11310)
[»] chr1 (1 HSPs)
chr1 (6-47)||(50975557-50975598)
[»] chr4 (4 HSPs)
chr4 (72-116)||(29862993-29863037)
chr4 (175-221)||(22292316-22292362)
chr4 (6-47)||(37618723-37618764)
chr4 (133-169)||(29862955-29862991)
[»] scaffold0014 (1 HSPs)
scaffold0014 (1-32)||(32963-32994)


Alignment Details
Target: chr3 (Bit Score: 213; Significance: 1e-117; HSPs: 7)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 213; E-Value: 1e-117
Query Start/End: Original strand, 1 - 221
Target Start/End: Original strand, 17682130 - 17682350
Alignment:
Q  1 catacatgaagaaaatttcaatctctcccatgtcttttccactttcaatgttgtcttttctcctcccactccccttcaccaatgctctcgattccgacat 100  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||    
T  17682130 catacatgaagaaaatttcaatctctcccatgtcttttccactttcaatgttgtcttttctcctcccattccccttcaccaatgctctcgattccgacat 17682229  T
Q  101 cacctttgctgttgtcgactttcccaccaccgtctgcggcatcgtatcagccagacaagcaaaaagaaccgcacaaagagaaagaagccatggaaatttg 200  Q
    ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  17682230 cacctttgccgttgtcgactttcccaccaccgtctgcggcatcgtatcagccagacaagcaaaaagaaccgcacaaagagaaagaagccatggaaatttg 17682329  T
Q  201 caatctcgattggaagctccc 221  Q
    |||||||||||||||||||||    
T  17682330 caatctcgattggaagctccc 17682350  T

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Target: chr3; HSP #2
Raw Score: 132; E-Value: 1e-68
Query Start/End: Original strand, 1 - 176
Target Start/End: Original strand, 19766372 - 19766547
Alignment:
Q  1 catacatgaagaaaatttcaatctctcccatgtcttttccactttcaatgttgtcttttctcctcccactccccttcaccaatgctctcgattccgacat 100  Q
    |||||||||||||||||||||||||||||||||||||||||||||||  ||||||||||||||||||||||||||||||||||||||| |||||||||||    
T  19766372 catacatgaagaaaatttcaatctctcccatgtcttttccactttcacagttgtcttttctcctcccactccccttcaccaatgctctagattccgacat 19766471  T
Q  101 cacctttgctgttgtcgactttcccaccaccgtctgcggcatcgtatcagccagacaagcaaaaagaaccgcacaa 176  Q
    |||||| || ||||||||||| ||| ||||||| |||  |||||||||||| ||||||||||||||||||||||||    
T  19766472 caccttcgccgttgtcgacttccccgccaccgtatgcatcatcgtatcagctagacaagcaaaaagaaccgcacaa 19766547  T

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Target: chr3; HSP #3
Raw Score: 46; E-Value: 2e-17
Query Start/End: Original strand, 175 - 220
Target Start/End: Original strand, 19766578 - 19766623
Alignment:
Q  175 aaagagaaagaagccatggaaatttgcaatctcgattggaagctcc 220  Q
    ||||||||||||||||||||||||||||||||||||||||||||||    
T  19766578 aaagagaaagaagccatggaaatttgcaatctcgattggaagctcc 19766623  T

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Target: chr3; HSP #4
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 72 - 117
Target Start/End: Complemental strand, 19881787 - 19881742
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctttgctgttgtcg 117  Q
    ||||||||||||||||||||||||||||||||||| || |||||||    
T  19881787 cccttcaccaatgctctcgattccgacatcaccttcgccgttgtcg 19881742  T

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Target: chr3; HSP #5
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 72 - 106
Target Start/End: Original strand, 37982797 - 37982831
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctt 106  Q
    |||||||||||||||||||||||||||||||||||    
T  37982797 cccttcaccaatgctctcgattccgacatcacctt 37982831  T

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Target: chr3; HSP #6
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 72 - 103
Target Start/End: Complemental strand, 53972962 - 53972931
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcac 103  Q
    ||||||||||||||||||||||||||||||||    
T  53972962 cccttcaccaatgctctcgattccgacatcac 53972931  T

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Target: chr3; HSP #7
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 72 - 117
Target Start/End: Original strand, 31685508 - 31685553
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctttgctgttgtcg 117  Q
    ||||||||||||| | ||||||||||||||||||| || |||||||    
T  31685508 cccttcaccaatgatatcgattccgacatcaccttcgccgttgtcg 31685553  T

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Target: chr2 (Bit Score: 70; Significance: 1e-31; HSPs: 4)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 70; E-Value: 1e-31
Query Start/End: Original strand, 1 - 151
Target Start/End: Original strand, 32277372 - 32277526
Alignment:
Q  1 catacatgaagaaaatttcaatctctcccatgtcttttccactttcaatgttgtcttttctcctcccactccccttcaccaatgctctcgattccgacat 100  Q
    ||||||||||| |||||| ||| | ||||||||||||||||||||||   ||| |||||||||||||||||||||||||| || ||||||||||||||||    
T  32277372 catacatgaaggaaattttaatttgtcccatgtcttttccactttcacctttgccttttctcctcccactccccttcaccgattctctcgattccgacat 32277471  T
Q  101 cacctttgctgttgtcgactt----tcccaccaccgtctgcggcatcgtatcagc 151  Q
    || | | || |||||||||||     ||| ||||| |||||||||||||||||||    
T  32277472 catcctcgccgttgtcgacttccccgcccgccaccatctgcggcatcgtatcagc 32277526  T

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Target: chr2; HSP #2
Raw Score: 40; E-Value: 0.00000000000008
Query Start/End: Original strand, 72 - 115
Target Start/End: Complemental strand, 18354989 - 18354946
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctttgctgttgt 115  Q
    ||||||||||||||||||||||||||||||||||| ||||||||    
T  18354989 cccttcaccaatgctctcgattccgacatcaccttcgctgttgt 18354946  T

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Target: chr2; HSP #3
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 72 - 117
Target Start/End: Complemental strand, 23348656 - 23348611
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctttgctgttgtcg 117  Q
    ||||||||||||||||||||||||||||||||||| || |||||||    
T  23348656 cccttcaccaatgctctcgattccgacatcaccttcgccgttgtcg 23348611  T

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Target: chr2; HSP #4
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 72 - 106
Target Start/End: Original strand, 12742133 - 12742167
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctt 106  Q
    |||||||||||||||||||||||||||||||||||    
T  12742133 cccttcaccaatgctctcgattccgacatcacctt 12742167  T

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Target: chr8 (Bit Score: 38; Significance: 0.000000000001; HSPs: 3)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 72 - 117
Target Start/End: Complemental strand, 14677698 - 14677653
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctttgctgttgtcg 117  Q
    ||||||||||||||||||||||||||||||||||| || |||||||    
T  14677698 cccttcaccaatgctctcgattccgacatcaccttcgccgttgtcg 14677653  T

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Target: chr8; HSP #2
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 72 - 117
Target Start/End: Complemental strand, 31100548 - 31100503
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctttgctgttgtcg 117  Q
    |||||||||||||||||||||||| |||||||||| || |||||||    
T  31100548 cccttcaccaatgctctcgattccaacatcaccttcgccgttgtcg 31100503  T

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Target: chr8; HSP #3
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 72 - 117
Target Start/End: Original strand, 5658201 - 5658246
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctttgctgttgtcg 117  Q
    ||||||||||||||||| |||||| |||||||||| || |||||||    
T  5658201 cccttcaccaatgctcttgattccaacatcaccttcgccgttgtcg 5658246  T

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Target: chr7 (Bit Score: 38; Significance: 0.000000000001; HSPs: 3)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 72 - 117
Target Start/End: Original strand, 1262534 - 1262579
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctttgctgttgtcg 117  Q
    ||||||||||||||||||||||||||||||||||| || |||||||    
T  1262534 cccttcaccaatgctctcgattccgacatcaccttcgccgttgtcg 1262579  T

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

Target: chr7; HSP #2
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 72 - 117
Target Start/End: Complemental strand, 43071058 - 43071013
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctttgctgttgtcg 117  Q
    ||||||||||||||||||||||||||||||||||| || |||||||    
T  43071058 cccttcaccaatgctctcgattccgacatcaccttcgccgttgtcg 43071013  T

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Target: chr7; HSP #3
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 72 - 117
Target Start/End: Complemental strand, 48849458 - 48849413
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctttgctgttgtcg 117  Q
    ||||||||||||||||||||||||||||||||||| || |||||||    
T  48849458 cccttcaccaatgctctcgattccgacatcaccttcgccgttgtcg 48849413  T

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Target: chr5 (Bit Score: 38; Significance: 0.000000000001; HSPs: 3)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 72 - 117
Target Start/End: Complemental strand, 7473165 - 7473120
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctttgctgttgtcg 117  Q
    ||||||||||||||||||||||||||||||||||| || |||||||    
T  7473165 cccttcaccaatgctctcgattccgacatcaccttcgccgttgtcg 7473120  T

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Target: chr5; HSP #2
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 72 - 117
Target Start/End: Complemental strand, 30442222 - 30442177
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctttgctgttgtcg 117  Q
    ||||||||||||||||||||||||||||||||||| || |||||||    
T  30442222 cccttcaccaatgctctcgattccgacatcaccttggccgttgtcg 30442177  T

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Target: chr5; HSP #3
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 72 - 106
Target Start/End: Original strand, 9044247 - 9044281
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctt 106  Q
    |||||||||||||||||||||| ||||||||||||    
T  9044247 cccttcaccaatgctctcgatttcgacatcacctt 9044281  T

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Target: chr6 (Bit Score: 35; Significance: 0.00000000008; HSPs: 4)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 72 - 106
Target Start/End: Original strand, 10092917 - 10092951
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctt 106  Q
    |||||||||||||||||||||||||||||||||||    
T  10092917 cccttcaccaatgctctcgattccgacatcacctt 10092951  T

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Target: chr6; HSP #2
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 131 - 176
Target Start/End: Original strand, 10092961 - 10093006
Alignment:
Q  131 cgtctgcggcatcgtatcagccagacaagcaaaaagaaccgcacaa 176  Q
    |||||||||||||||||||||||| ||| |||||||||| ||||||    
T  10092961 cgtctgcggcatcgtatcagccaggcaaacaaaaagaacagcacaa 10093006  T

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

Target: chr6; HSP #3
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 72 - 106
Target Start/End: Complemental strand, 33045122 - 33045088
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctt 106  Q
    |||||||||||||||||||||||| ||||||||||    
T  33045122 cccttcaccaatgctctcgattccaacatcacctt 33045088  T

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Target: chr6; HSP #4
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 175 - 207
Target Start/End: Complemental strand, 15434371 - 15434339
Alignment:
Q  175 aaagagaaagaagccatggaaatttgcaatctc 207  Q
    ||||||||| |||||||||||||||||||||||    
T  15434371 aaagagaaataagccatggaaatttgcaatctc 15434339  T

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Target: scaffold0596 (Bit Score: 34; Significance: 0.0000000003; HSPs: 1)
Name: scaffold0596
Description:

Target: scaffold0596; HSP #1
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 72 - 117
Target Start/End: Original strand, 1099 - 1144
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctttgctgttgtcg 117  Q
    |||||||||||||||||||||||||||||||| || || |||||||    
T  1099 cccttcaccaatgctctcgattccgacatcactttcgccgttgtcg 1144  T

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Target: scaffold0045 (Bit Score: 34; Significance: 0.0000000003; HSPs: 1)
Name: scaffold0045
Description:

Target: scaffold0045; HSP #1
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 72 - 117
Target Start/End: Complemental strand, 11310 - 11265
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctttgctgttgtcg 117  Q
    |||||||||||||||||||| |||||||||||||| || |||||||    
T  11310 cccttcaccaatgctctcgaatccgacatcaccttcgccgttgtcg 11265  T

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Target: chr1 (Bit Score: 34; Significance: 0.0000000003; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 6 - 47
Target Start/End: Original strand, 50975557 - 50975598
Alignment:
Q  6 atgaagaaaatttcaatctctcccatgtcttttccactttca 47  Q
    ||||||||||||||| ||||| ||||||||||||||||||||    
T  50975557 atgaagaaaatttcactctcttccatgtcttttccactttca 50975598  T

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Target: chr4 (Bit Score: 33; Significance: 0.000000001; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 72 - 116
Target Start/End: Complemental strand, 29863037 - 29862993
Alignment:
Q  72 cccttcaccaatgctctcgattccgacatcacctttgctgttgtc 116  Q
    ||||||||| |||||||||||||||||||||| ||||| ||||||    
T  29863037 cccttcaccgatgctctcgattccgacatcacttttgccgttgtc 29862993  T

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Target: chr4; HSP #2
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 175 - 221
Target Start/End: Complemental strand, 22292362 - 22292316
Alignment:
Q  175 aaagagaaagaagccatggaaatttgcaatctcgattggaagctccc 221  Q
    ||||||||| ||||||||||||||||||||||| | |||| ||||||    
T  22292362 aaagagaaataagccatggaaatttgcaatctcaagtggaggctccc 22292316  T

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Target: chr4; HSP #3
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 6 - 47
Target Start/End: Complemental strand, 37618764 - 37618723
Alignment:
Q  6 atgaagaaaatttcaatctctcccatgtcttttccactttca 47  Q
    ||||||||||||||| ||||| |||||||||||| |||||||    
T  37618764 atgaagaaaatttcactctcttccatgtcttttctactttca 37618723  T

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

Target: chr4; HSP #4
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 133 - 169
Target Start/End: Complemental strand, 29862991 - 29862955
Alignment:
Q  133 tctgcggcatcgtatcagccagacaagcaaaaagaac 169  Q
    |||||||||||||||||||||| ||| ||||||||||    
T  29862991 tctgcggcatcgtatcagccaggcaaacaaaaagaac 29862955  T

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Target: scaffold0014 (Bit Score: 32; Significance: 0.000000005; HSPs: 1)
Name: scaffold0014
Description:

Target: scaffold0014; HSP #1
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 1 - 32
Target Start/End: Original strand, 32963 - 32994
Alignment:
Q  1 catacatgaagaaaatttcaatctctcccatg 32  Q
    ||||||||||||||||||||||||||||||||    
T  32963 catacatgaagaaaatttcaatctctcccatg 32994  T

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