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: NF3523_low_3 (Length: 614)

Name: NF3523_low_3
Description: NF3523
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF3523_low_3
NF3523_low_3
[»] chr1 (4 HSPs)
chr1 (281-597)||(7133839-7134149)
chr1 (9-164)||(7134269-7134424)
chr1 (189-243)||(7134187-7134241)
chr1 (23-102)||(41933746-41933825)
[»] chr4 (15 HSPs)
chr4 (340-533)||(3399549-3399760)
chr4 (431-574)||(20863242-20863385)
chr4 (411-535)||(3398963-3399087)
chr4 (411-535)||(3399194-3399318)
chr4 (411-535)||(3399425-3399549)
chr4 (442-569)||(3399893-3400020)
chr4 (416-535)||(3398738-3398856)
chr4 (340-428)||(3398856-3398944)
chr4 (340-428)||(3399087-3399175)
chr4 (340-428)||(3399318-3399406)
chr4 (424-520)||(20863037-20863133)
chr4 (411-474)||(3399829-3399892)
chr4 (323-364)||(3398690-3398731)
chr4 (339-384)||(3399761-3399806)
chr4 (329-357)||(20862891-20862919)
[»] chr7 (1 HSPs)
chr7 (11-94)||(2891916-2891999)
[»] chr3 (1 HSPs)
chr3 (9-92)||(43418814-43418898)
[»] chr5 (1 HSPs)
chr5 (11-92)||(28442897-28442978)


Alignment Details
Target: chr1 (Bit Score: 294; Significance: 1e-165; HSPs: 4)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 294; E-Value: 1e-165
Query Start/End: Original strand, 281 - 597
Target Start/End: Complemental strand, 7134149 - 7133839
Alignment:
Q  281 cttgagtagttagtttcgcgagtaagaaaacttcgccgatcacaaaatcaaaatcaaaatcggagatgtttagaaatcaatacgataccgacgtaacaac 380  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||      |||||||||||||||||||||||||||||||||||||||    
T  7134149 cttgagtagttagtttcgcgagtaagaaaacttcgccgatcacaaaatcaaaatc------ggagatgtttagaaatcaatacgataccgacgtaacaac 7134056  T
Q  381 atggtcaccggcgggaagactcttccaggtggaatacgccatggaagcagttaagcaaggttcagcagcaataggtctccgatccaaaactcacgtggtt 480  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  7134055 atggtcaccggcgggaagactcttccaggtggaatacgccatggaagcagttaagcaaggttcagcagcaataggtctccgatccaaaactcacgtggtt 7133956  T
Q  481 ctcgcgtgtgttaacaaagccaattccgaattatcttctcatcagaagaagatctttaaggttgatgatcacatcggtgttgccatcgccggtctcaccg 580  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  7133955 ctcgcgtgtgttaacaaagccaattccgaattatcttctcatcagaagaagatctttaaggttgatgatcacatcggtgttgccatcgccggtctcaccg 7133856  T
Q  581 ccgatggccgtgttctt 597  Q
    |||||||||||||||||    
T  7133855 ccgatggccgtgttctt 7133839  T

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Target: chr1; HSP #2
Raw Score: 99; E-Value: 1e-48
Query Start/End: Original strand, 9 - 164
Target Start/End: Complemental strand, 7134424 - 7134269
Alignment:
Q  9 agcagagacctttaacattaaatacaacacaaaaaatgcagtgcgtgaagttttgaattttagaatccgaaaattcctaacaatcttatttggattttag 108  Q
    |||||||||||||||||| |||||||||||||||||||||||||||||||||||| ||||||||| |||||||| || |||||||||||| |||||||||    
T  7134424 agcagagacctttaacatcaaatacaacacaaaaaatgcagtgcgtgaagttttggattttagaaaccgaaaataccaaacaatcttattcggattttag 7134325  T
Q  109 aatccnnnnnnntggtattttcggaaactttacatgacgcgcgtgaatatggtggg 164  Q
    |||||       || |||||||||||| |||| |||||||||||||||||||||||    
T  7134324 aatccgaaaaaatgatattttcggaaattttatatgacgcgcgtgaatatggtggg 7134269  T

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Target: chr1; HSP #3
Raw Score: 55; E-Value: 3e-22
Query Start/End: Original strand, 189 - 243
Target Start/End: Complemental strand, 7134241 - 7134187
Alignment:
Q  189 gatcagagcccattggaccaacgaaagcccaaaatgtctaaagtgtcttgttcat 243  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  7134241 gatcagagcccattggaccaacgaaagcccaaaatgtctaaagtgtcttgttcat 7134187  T

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Target: chr1; HSP #4
Raw Score: 36; E-Value: 0.00000000006
Query Start/End: Original strand, 23 - 102
Target Start/End: Original strand, 41933746 - 41933825
Alignment:
Q  23 acattaaatacaacacaaaaaatgcagtgcgtgaagttttgaattttagaatccgaaaattcctaacaatcttatttgga 102  Q
    |||||||||||||||||||||||| ||| | ||||||||  ||||||||||    ||||  |||||||||||||||||||    
T  41933746 acattaaatacaacacaaaaaatgaagtacttgaagtttcaaattttagaaataaaaaaaccctaacaatcttatttgga 41933825  T

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Target: chr4 (Bit Score: 113; Significance: 6e-57; HSPs: 15)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 113; E-Value: 6e-57
Query Start/End: Original strand, 340 - 533
Target Start/End: Original strand, 3399549 - 3399760
Alignment:
Q  340 tcggagatgtttagaaatcaatacgataccgacgtaacaacatggtcaccggcgggaagactcttccaggtggaa------------------tacgcca 421  Q
    |||||||||||||||||||||||| |||||||| || |||||||||||||||||||| ||| |||||||||||||                  |||||||    
T  3399549 tcggagatgtttagaaatcaataccataccgacatagcaacatggtcaccggcgggaggacacttccaggtggaatacgccatggaagcggaatacgcca 3399648  T
Q  422 tggaagcagttaagcaaggttcagcagcaataggtctccgatccaaaactcacgtggttctcgcgtgtgttaacaaagccaattccgaattatcttctca 521  Q
    |||||||||||||||||||| ||||||||| || |||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||     
T  3399649 tggaagcagttaagcaaggtccagcagcaacagatctccgatccaaaactcacgtggttcccgcgtgtgttaacaaagccaattccgaattatcttctcg 3399748  T
Q  522 tcagaagaagat 533  Q
    ||||||||||||    
T  3399749 tcagaagaagat 3399760  T

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Target: chr4; HSP #2
Raw Score: 112; E-Value: 3e-56
Query Start/End: Original strand, 431 - 574
Target Start/End: Original strand, 20863242 - 20863385
Alignment:
Q  431 ttaagcaaggttcagcagcaataggtctccgatccaaaactcacgtggttctcgcgtgtgttaacaaagccaattccgaattatcttctcatcagaagaa 530  Q
    ||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||| |||    
T  20863242 ttaagcaaggttcagcagcaataagtctccgatccaaaactcacgtggttctcgcgtgtgttaacaaagccaattccgaattatattctcatcagatgaa 20863341  T
Q  531 gatctttaaggttgatgatcacatcggtgttgccatcgccggtc 574  Q
    |||||| ||||||||| |||||||||| || |||||||| ||||    
T  20863342 gatcttaaaggttgataatcacatcggggtcgccatcgctggtc 20863385  T

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Target: chr4; HSP #3
Raw Score: 105; E-Value: 4e-52
Query Start/End: Original strand, 411 - 535
Target Start/End: Original strand, 3398963 - 3399087
Alignment:
Q  411 ggaatacgccatggaagcagttaagcaaggttcagcagcaataggtctccgatccaaaactcacgtggttctcgcgtgtgttaacaaagccaattccgaa 510  Q
    ||||||||||||||||||||||||||||||| ||||||||| || |||||||||||||||||||||||||| ||||||||||||||||||||||||||||    
T  3398963 ggaatacgccatggaagcagttaagcaaggtccagcagcaacagatctccgatccaaaactcacgtggttcccgcgtgtgttaacaaagccaattccgaa 3399062  T
Q  511 ttatcttctcatcagaagaagatct 535  Q
    |||||||||| ||||||||||||||    
T  3399063 ttatcttctcgtcagaagaagatct 3399087  T

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Target: chr4; HSP #4
Raw Score: 105; E-Value: 4e-52
Query Start/End: Original strand, 411 - 535
Target Start/End: Original strand, 3399194 - 3399318
Alignment:
Q  411 ggaatacgccatggaagcagttaagcaaggttcagcagcaataggtctccgatccaaaactcacgtggttctcgcgtgtgttaacaaagccaattccgaa 510  Q
    ||||||||||||||||||||||||||||||| ||||||||| || |||||||||||||||||||||||||| ||||||||||||||||||||||||||||    
T  3399194 ggaatacgccatggaagcagttaagcaaggtccagcagcaacagatctccgatccaaaactcacgtggttcccgcgtgtgttaacaaagccaattccgaa 3399293  T
Q  511 ttatcttctcatcagaagaagatct 535  Q
    |||||||||| ||||||||||||||    
T  3399294 ttatcttctcgtcagaagaagatct 3399318  T

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Target: chr4; HSP #5
Raw Score: 105; E-Value: 4e-52
Query Start/End: Original strand, 411 - 535
Target Start/End: Original strand, 3399425 - 3399549
Alignment:
Q  411 ggaatacgccatggaagcagttaagcaaggttcagcagcaataggtctccgatccaaaactcacgtggttctcgcgtgtgttaacaaagccaattccgaa 510  Q
    ||||||||||||||||||||||||||||||| ||||||||| || |||||||||||||||||||||||||| ||||||||||||||||||||||||||||    
T  3399425 ggaatacgccatggaagcagttaagcaaggtccagcagcaacagatctccgatccaaaactcacgtggttcccgcgtgtgttaacaaagccaattccgaa 3399524  T
Q  511 ttatcttctcatcagaagaagatct 535  Q
    |||||||||| ||||||||||||||    
T  3399525 ttatcttctcgtcagaagaagatct 3399549  T

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Target: chr4; HSP #6
Raw Score: 96; E-Value: 9e-47
Query Start/End: Original strand, 442 - 569
Target Start/End: Original strand, 3399893 - 3400020
Alignment:
Q  442 tcagcagcaataggtctccgatccaaaactcacgtggttctcgcgtgtgttaacaaagccaattccgaattatcttctcatcagaagaagatctttaagg 541  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| || |||||||| ||||||||| |||     
T  3399893 tcagcagcaataggtctccgatccaaaactcacgtggttctcgcgtgtgttaacaaagccaattccgaattatattatcatcagacgaagatcttcaaga 3399992  T
Q  542 ttgatgatcacatcggtgttgccatcgc 569  Q
    ||||||||||||| || || ||||||||    
T  3399993 ttgatgatcacattggggtcgccatcgc 3400020  T

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Target: chr4; HSP #7
Raw Score: 92; E-Value: 2e-44
Query Start/End: Original strand, 416 - 535
Target Start/End: Original strand, 3398738 - 3398856
Alignment:
Q  416 acgccatggaagcagttaagcaaggttcagcagcaataggtctccgatccaaaactcacgtggttctcgcgtgtgttaacaaagccaattccgaattatc 515  Q
    |||||||||||||||||||||||| || |||||||| || |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||    
T  3398738 acgccatggaagcagttaagcaagttt-agcagcaacagatctccgatccaaaactcacgtggttcccgcgtgtgttaacaaagccaattccgaattatc 3398836  T
Q  516 ttctcatcagaagaagatct 535  Q
    ||||| ||||||||||||||    
T  3398837 ttctcgtcagaagaagatct 3398856  T

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Target: chr4; HSP #8
Raw Score: 73; E-Value: 5e-33
Query Start/End: Original strand, 340 - 428
Target Start/End: Original strand, 3398856 - 3398944
Alignment:
Q  340 tcggagatgtttagaaatcaatacgataccgacgtaacaacatggtcaccggcgggaagactcttccaggtggaatacgccatggaagc 428  Q
    |||||||||||||||||||||||| ||||||||||| |||||||||||||||||||| ||| |||||||||||||||||||||||||||    
T  3398856 tcggagatgtttagaaatcaataccataccgacgtagcaacatggtcaccggcgggaggacacttccaggtggaatacgccatggaagc 3398944  T

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Target: chr4; HSP #9
Raw Score: 69; E-Value: 1e-30
Query Start/End: Original strand, 340 - 428
Target Start/End: Original strand, 3399087 - 3399175
Alignment:
Q  340 tcggagatgtttagaaatcaatacgataccgacgtaacaacatggtcaccggcgggaagactcttccaggtggaatacgccatggaagc 428  Q
    |||||||||||||||||||||||| |||||||| || |||||||||||||||||||| ||| |||||||||||||||||||||||||||    
T  3399087 tcggagatgtttagaaatcaataccataccgacatagcaacatggtcaccggcgggaggacacttccaggtggaatacgccatggaagc 3399175  T

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Target: chr4; HSP #10
Raw Score: 69; E-Value: 1e-30
Query Start/End: Original strand, 340 - 428
Target Start/End: Original strand, 3399318 - 3399406
Alignment:
Q  340 tcggagatgtttagaaatcaatacgataccgacgtaacaacatggtcaccggcgggaagactcttccaggtggaatacgccatggaagc 428  Q
    |||||||||||||||||||||||| |||||||| || |||||||||||||||||||| ||| |||||||||||||||||||||||||||    
T  3399318 tcggagatgtttagaaatcaataccataccgacatagcaacatggtcaccggcgggaggacacttccaggtggaatacgccatggaagc 3399406  T

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Target: chr4; HSP #11
Raw Score: 57; E-Value: 2e-23
Query Start/End: Original strand, 424 - 520
Target Start/End: Original strand, 20863037 - 20863133
Alignment:
Q  424 gaagcagttaagcaaggttcagcagcaataggtctccgatccaaaactcacgtggttctcgcgtgtgttaacaaagccaattccgaattatcttctc 520  Q
    |||||||| |||||| |||||||||||||  |||||||||||||||||| |||||||| |||| |||||||||||||||| | | ||||||||||||    
T  20863037 gaagcagtcaagcaacgttcagcagcaatgagtctccgatccaaaactcgcgtggttcccgcgcgtgttaacaaagccaaataccaattatcttctc 20863133  T

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Target: chr4; HSP #12
Raw Score: 48; E-Value: 4e-18
Query Start/End: Original strand, 411 - 474
Target Start/End: Original strand, 3399829 - 3399892
Alignment:
Q  411 ggaatacgccatggaagcagttaagcaaggttcagcagcaataggtctccgatccaaaactcac 474  Q
    ||||||||||||||||||||||||||||||| ||||||||| || ||||||||| |||||||||    
T  3399829 ggaatacgccatggaagcagttaagcaaggtccagcagcaacagatctccgatcaaaaactcac 3399892  T

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Target: chr4; HSP #13
Raw Score: 38; E-Value: 0.000000000004
Query Start/End: Original strand, 323 - 364
Target Start/End: Original strand, 3398690 - 3398731
Alignment:
Q  323 caaaatcaaaatcaaaatcggagatgtttagaaatcaatacg 364  Q
    ||||||||||||||||||||||||||| ||||||||||||||    
T  3398690 caaaatcaaaatcaaaatcggagatgtatagaaatcaatacg 3398731  T

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Target: chr4; HSP #14
Raw Score: 34; E-Value: 0.0000000009
Query Start/End: Original strand, 339 - 384
Target Start/End: Original strand, 3399761 - 3399806
Alignment:
Q  339 atcggagatgtttagaaatcaatacgataccgacgtaacaacatgg 384  Q
    ||||||||||||||||||||||||| ||||||||||| || |||||    
T  3399761 atcggagatgtttagaaatcaataccataccgacgtagcaccatgg 3399806  T

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

Target: chr4; HSP #15
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 329 - 357
Target Start/End: Original strand, 20862891 - 20862919
Alignment:
Q  329 caaaatcaaaatcggagatgtttagaaat 357  Q
    |||||||||||||||||||||||||||||    
T  20862891 caaaatcaaaatcggagatgtttagaaat 20862919  T

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Target: chr7 (Bit Score: 44; Significance: 0.000000000000001; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 44; E-Value: 0.000000000000001
Query Start/End: Original strand, 11 - 94
Target Start/End: Complemental strand, 2891999 - 2891916
Alignment:
Q  11 cagagacctttaacattaaatacaacacaaaaaatgcagtgcgtgaagttttgaattttagaatccgaaaattcctaacaatct 94  Q
    ||||||||||| | || |||||||||| |||||||||||| ||| |||||| ||||||||||||| |||||  |||||||||||    
T  2891999 cagagacctttgagatcaaatacaacataaaaaatgcagttcgtaaagtttcgaattttagaatctgaaaagacctaacaatct 2891916  T

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Target: chr3 (Bit Score: 37; Significance: 0.00000000001; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 9 - 92
Target Start/End: Complemental strand, 43418898 - 43418814
Alignment:
Q  9 agcagagacctttaacattaaatacaacacaaaaaa-tgcagtgcgtgaagttttgaattttagaatccgaaaattcctaacaat 92  Q
    ||||||||||||| |||| |||||||||| |||||| |||||| | | | |||||||||||| ||||||||||| | ||||||||    
T  43418898 agcagagacctttgacatcaaatacaacaaaaaaaaatgcagttcataatgttttgaatttttgaatccgaaaaatgctaacaat 43418814  T

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Target: chr5 (Bit Score: 34; Significance: 0.0000000009; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 34; E-Value: 0.0000000009
Query Start/End: Original strand, 11 - 92
Target Start/End: Complemental strand, 28442978 - 28442897
Alignment:
Q  11 cagagacctttaacattaaatacaacacaaaaaatgcagtgcgtgaagttttgaattttagaatccgaaaattcctaacaat 92  Q
    ||||||||||| |||||||||||||||||||||||| |||   | |  ||| | ||||||||||||||||| | ||||||||    
T  28442978 cagagacctttgacattaaatacaacacaaaaaatggagtttctaatatttcggattttagaatccgaaaaatgctaacaat 28442897  T

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