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: NF3336_low_3 (Length: 507)

Name: NF3336_low_3
Description: NF3336
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF3336_low_3
NF3336_low_3
[»] chr3 (14 HSPs)
chr3 (19-499)||(9336556-9337036)
chr3 (139-499)||(9329852-9330212)
chr3 (228-476)||(9395298-9395549)
chr3 (399-492)||(41980877-41980970)
chr3 (397-498)||(9756397-9756498)
chr3 (399-499)||(41985644-41985744)
chr3 (402-499)||(9494811-9494908)
chr3 (398-498)||(9695615-9695715)
chr3 (399-499)||(9343861-9343961)
chr3 (399-499)||(9407382-9407482)
chr3 (399-499)||(9448330-9448430)
chr3 (399-478)||(9485969-9486048)
chr3 (399-478)||(13864241-13864320)
chr3 (398-499)||(9617462-9617563)
[»] chr7 (1 HSPs)
chr7 (390-474)||(450102-450186)
[»] chr6 (7 HSPs)
chr6 (391-478)||(7025793-7025880)
chr6 (390-497)||(7041514-7041621)
chr6 (391-478)||(7029850-7029937)
chr6 (388-478)||(7012857-7012947)
chr6 (388-478)||(9170854-9170944)
chr6 (399-479)||(7046875-7046955)
chr6 (388-478)||(9159484-9159574)
[»] chr1 (2 HSPs)
chr1 (455-499)||(4439876-4439920)
chr1 (463-499)||(18991220-18991256)
[»] chr2 (1 HSPs)
chr2 (458-499)||(20694360-20694401)


Alignment Details
Target: chr3 (Bit Score: 461; Significance: 0; HSPs: 14)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 461; E-Value: 0
Query Start/End: Original strand, 19 - 499
Target Start/End: Complemental strand, 9337036 - 9336556
Alignment:
Q  19 ctacatgcacctcctgattggaggagatgcaagtttctttagcttttctgttgctgccgtgtgtcacggggaacatcgtcctgttatcgtcacgcttaaa 118  Q
    ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||| ||||||||||||||||||||||||| ||||||    
T  9337036 ctacatgcacctcctgattggaggagatgcaagtttctttagcttttatgttgctgccgtgtgtcacagggaacatcgtcctgttatcgtcacacttaaa 9336937  T
Q  119 tctgacttctctctggagccgatgatgttttgttgtggggacgacagttggaccatgatacccaacatgccaacctctcatggaggaaatgcttgtgttt 218  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  9336936 tctgacttctctctggagccgatgatgttttgttgtggggacgacagttggaccatgatacccaacatgccaacctctcatggaggaaatgcttgtgttt 9336837  T
Q  219 ttaaaggatggccttgtgtggtagacaaagctggtcggactgtcatgattggaccggatttgaccactcatttgatcgctgagccggtgtttggtgggca 318  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  9336836 ttaaaggatggccttgtgtggtagacaaagctggtcggactgtcatgattggaccggatttgaccactcatttgatcgctgagccggtgtttggtgggca 9336737  T
Q  319 aaataaattcttggttgagagtagtgagtttgagttgttgctggtggatagatatgaaaattattgtgttcctgtatggattgatgtgtttaggcttgat 418  Q
    ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  9336736 aaataaattcttggtcgagagtagtgagtttgagttgttgctggtggatagatatgaaaattattgtgttcctgtatggattgatgtgtttaggcttgat 9336637  T
Q  419 gagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttggggaatggatgttcgttctctgct 499  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||    
T  9336636 gagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttggggaatggatgttcgttttctgct 9336556  T

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

Target: chr3; HSP #2
Raw Score: 265; E-Value: 1e-147
Query Start/End: Original strand, 139 - 499
Target Start/End: Complemental strand, 9330212 - 9329852
Alignment:
Q  139 gatgatgttttgttgtggggacgacagttggaccatgatacccaacatgccaacctctcatggaggaaatgcttgtgtttttaaaggatggccttgtgtg 238  Q
    |||||||||| ||||||||||||| |||||||| |  || ||||||||| ||| ||| ||||||||||||| |||||||||||||||  ||||||||||     
T  9330212 gatgatgtttcgttgtggggacgatagttggactaccatccccaacatgtcaaactcccatggaggaaatgtttgtgtttttaaagggcggccttgtgtt 9330113  T
Q  239 gtagacaaagctggtcggactgtcatgattggaccggatttgaccactcatttgatcgctgagccggtgtttggtgggcaaaataaattcttggttgaga 338  Q
    ||||||||| ||||||||||| ||||||||||||||||||| |||||||||||||||||||||||||||||||||||| ||| |||||||||||| ||||    
T  9330112 gtagacaaaactggtcggactttcatgattggaccggatttaaccactcatttgatcgctgagccggtgtttggtgggaaaagtaaattcttggtcgaga 9330013  T
Q  339 gtagtgagtttgagttgttgctggtggatagatatgaaaattattgtgttcctgtatggattgatgtgtttaggcttgatgagaaagagaaaaggtgggt 438  Q
    |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  9330012 gtagtgagtttgagttgttgctggtggatagatatgaaaattatcgtgttcctgtatggattgatgtgtttaggcttgatgagaaagagaaaaggtgggt 9329913  T
Q  439 caagctgacgaatttaggagataaggttttgttcttggggaatggatgttcgttctctgct 499  Q
    |||| || ||||||||||||||||||||||||||||||||||||||| |||||| ||||||    
T  9329912 caagttggcgaatttaggagataaggttttgttcttggggaatggatattcgttttctgct 9329852  T

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

Target: chr3; HSP #3
Raw Score: 86; E-Value: 7e-41
Query Start/End: Original strand, 228 - 476
Target Start/End: Complemental strand, 9395549 - 9395298
Alignment:
Q  228 ggccttgtgtggtagacaaagctggtcggactgtcatgattggaccggatttgaccactcatttgatcgctgagccggtgtttggtgggcaaaataaatt 327  Q
    |||||||| ||||||||||| ||||||||||||| ||||||| | | || |||| |  |||||| || |||||||| ||| |||| ||  ||| ||||||    
T  9395549 ggccttgtatggtagacaaaactggtcggactgttatgattgaatcagacttgagctatcattttatagctgagcctgtgattggcggagaaagtaaatt 9395450  T
Q  328 cttggttgagagtagtgagtttgagttgttgctggtggatagatatgaaaattatt---gtgttcctgtatggattgatgtgtttaggcttgatgagaaa 424  Q
    |||||| |||| |||||| ||| |||||||||| ||||||| |||| ||||| ||    |||||  |||| ||||||||||||||||||||||||||||     
T  9395449 cttggtcgagactagtgactttcagttgttgctagtggatatatataaaaatgatgatcgtgttattgtaaggattgatgtgtttaggcttgatgagaag 9395350  T
Q  425 gagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttgg 476  Q
     |||||| |||||| ||| |||| ||||||||||||  ||||||||||||||    
T  9395349 cagaaaaagtgggtgaagttgactaatttaggagatttggttttgttcttgg 9395298  T

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Target: chr3; HSP #4
Raw Score: 54; E-Value: 9e-22
Query Start/End: Original strand, 399 - 492
Target Start/End: Complemental strand, 41980970 - 41980877
Alignment:
Q  399 ttgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttggggaatggatgttcgtt 492  Q
    |||||||||||||||||| | |||||||||| |  ||||||||| |||||| |||||| ||||  |||||||||||||||||||||||||||||    
T  41980970 ttgatgtgtttaggcttgctaagaaagagaagaaatgggtcaagttgacgagtttaggggatagagttttgttcttggggaatggatgttcgtt 41980877  T

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Target: chr3; HSP #5
Raw Score: 50; E-Value: 2e-19
Query Start/End: Original strand, 397 - 498
Target Start/End: Complemental strand, 9756498 - 9756397
Alignment:
Q  397 gattgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttggggaatggatgttcgttctct 496  Q
    ||||||||||| |||||||||||||||||||||||||||||||||| ||  |||||| || |||| ||||||||| || ||| | || ||||| ||||||    
T  9756498 gattgatgtgtataggcttgatgagaaagagaaaaggtgggtcaagttggtgaatttgggggatagggttttgtttttcggggaaggctgttcattctct 9756399  T
Q  497 gc 498  Q
    ||    
T  9756398 gc 9756397  T

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Target: chr3; HSP #6
Raw Score: 49; E-Value: 8e-19
Query Start/End: Original strand, 399 - 499
Target Start/End: Complemental strand, 41985744 - 41985644
Alignment:
Q  399 ttgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttggggaatggatgttcgttctctgc 498  Q
    |||||||||| || ||||||||||| ||||| |  ||||||||| || ||| |||||| ||||  ||||||||||||||||||||||||||||| |||||    
T  41985744 ttgatgtgttcagacttgatgagaaggagaagaaatgggtcaagttggcgagtttaggggatagagttttgttcttggggaatggatgttcgttttctgc 41985645  T
Q  499 t 499  Q
    |    
T  41985644 t 41985644  T

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Target: chr3; HSP #7
Raw Score: 46; E-Value: 5e-17
Query Start/End: Original strand, 402 - 499
Target Start/End: Original strand, 9494811 - 9494908
Alignment:
Q  402 atgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttggggaatggatgttcgttctctgct 499  Q
    ||||| |||||||||||||||| ||||  || ||||| ||  ||| || |||||| |||| |||||||||||||||||||||||||||||| ||||||    
T  9494811 atgtgcttaggcttgatgagaaggagatgagatgggtgaatttgatgagtttaggggatagggttttgttcttggggaatggatgttcgttttctgct 9494908  T

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Target: chr3; HSP #8
Raw Score: 45; E-Value: 2e-16
Query Start/End: Original strand, 398 - 498
Target Start/End: Original strand, 9695615 - 9695715
Alignment:
Q  398 attgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttggggaatggatgttcgttctctg 497  Q
    |||||||| || |||||||||||||| ||||| | |||||||||| |||| |||||||| |||| ||||||||| |||||| | |  |||||||||||||    
T  9695615 attgatgtattcaggcttgatgagaaggagaagaagtgggtcaagttgaccaatttaggggatagggttttgtttttgggggaagactgttcgttctctg 9695714  T
Q  498 c 498  Q
    |    
T  9695715 c 9695715  T

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Target: chr3; HSP #9
Raw Score: 41; E-Value: 0.00000000000005
Query Start/End: Original strand, 399 - 499
Target Start/End: Complemental strand, 9343961 - 9343861
Alignment:
Q  399 ttgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttggggaatggatgttcgttctctgc 498  Q
    |||||||||||| |||||||||||  ||||| | |||||| ||| | || | |||||| ||||  ||||||||||||||||||| ||||||||| |||||    
T  9343961 ttgatgtgtttaagcttgatgagatggagaagaagtgggtgaagttaacaactttaggggatagtgttttgttcttggggaatgaatgttcgttttctgc 9343862  T
Q  499 t 499  Q
    |    
T  9343861 t 9343861  T

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Target: chr3; HSP #10
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 399 - 499
Target Start/End: Complemental strand, 9407482 - 9407382
Alignment:
Q  399 ttgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttggggaatggatgttcgttctctgc 498  Q
    ||||||||||||| ||||| |||||  | ||||| ||||| ||| ||| || |||||| |||| |||||||||||| | |||||||||||| || |||||    
T  9407482 ttgatgtgtttagacttgacgagaagaataaaagatgggtgaagttgatgagtttaggggatagggttttgttctttgtgaatggatgttcattttctgc 9407383  T
Q  499 t 499  Q
    |    
T  9407382 t 9407382  T

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Target: chr3; HSP #11
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 399 - 499
Target Start/End: Complemental strand, 9448430 - 9448330
Alignment:
Q  399 ttgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttggggaatggatgttcgttctctgc 498  Q
    |||||||||||| |||| ||||||| ||||| |  ||||| ||| | || | |||||| ||||  |||||||||||||||||||  |||||||| |||||    
T  9448430 ttgatgtgtttaagctttatgagaaggagaagaaatgggtgaagttaacaactttaggggatagtgttttgttcttggggaatgactgttcgttttctgc 9448331  T
Q  499 t 499  Q
    |    
T  9448330 t 9448330  T

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Target: chr3; HSP #12
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 399 - 478
Target Start/End: Original strand, 9485969 - 9486048
Alignment:
Q  399 ttgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttgggg 478  Q
    ||||||||||||||||||||||||| ||||| | ||||||  || |||  ||||| || |||| ||||||||| ||||||    
T  9485969 ttgatgtgtttaggcttgatgagaaggagaagaagtgggtggaggtgagaaatttgggggatatggttttgtttttgggg 9486048  T

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Target: chr3; HSP #13
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 399 - 478
Target Start/End: Complemental strand, 13864320 - 13864241
Alignment:
Q  399 ttgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttgggg 478  Q
    ||||||||||||||||||||||||  ||||||| ||||||  || |||  ||||| || |||| ||||||||| ||||||    
T  13864320 ttgatgtgtttaggcttgatgagagggagaaaaagtgggtggaggtgagaaatttgggggatagggttttgtttttgggg 13864241  T

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Target: chr3; HSP #14
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 398 - 499
Target Start/End: Original strand, 9617462 - 9617563
Alignment:
Q  398 attgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttggggaatggatgttcgttctctg 497  Q
    ||||| ||||| ||| || ||||||||||||| |  ||||| ||| |||  |||||||| |||| |||||||||| | | |||||||||||| || ||||    
T  9617462 attgaagtgttcaggtttcatgagaaagagaagaaatgggtgaagttgaaaaatttaggggatagggttttgttccttgtgaatggatgttcattttctg 9617561  T
Q  498 ct 499  Q
    ||    
T  9617562 ct 9617563  T

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Target: chr7 (Bit Score: 57; Significance: 1e-23; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 57; E-Value: 1e-23
Query Start/End: Original strand, 390 - 474
Target Start/End: Original strand, 450102 - 450186
Alignment:
Q  390 ctgtatggattgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttctt 474  Q
    |||||||||||||||||||||||||||||||||| ||||||| |||||||||| ||| ||||||||||||||   ||||||||||    
T  450102 ctgtatggattgatgtgtttaggcttgatgagaaggagaaaaagtgggtcaagttgaggaatttaggagatacaattttgttctt 450186  T

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Target: chr6 (Bit Score: 44; Significance: 8e-16; HSPs: 7)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 44; E-Value: 8e-16
Query Start/End: Original strand, 391 - 478
Target Start/End: Complemental strand, 7025880 - 7025793
Alignment:
Q  391 tgtatggattgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttgggg 478  Q
    |||| |||||||| |||||| |||| ||||||| ||||| | |||||| ||| |||||| ||||||||||| ||||||||||||||||    
T  7025880 tgtaaggattgatttgtttaagcttaatgagaaggagaagaagtgggtgaagttgacgagtttaggagatagggttttgttcttgggg 7025793  T

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Target: chr6; HSP #2
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 390 - 497
Target Start/End: Complemental strand, 7041621 - 7041514
Alignment:
Q  390 ctgtatggattgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttggggaatggatgttc 489  Q
    |||||||||||||| ||||||  ||| ||||||| ||||| | |||||| ||| |||| | |||||| |||| |||||||||||||||  | | ||||||    
T  7041621 ctgtatggattgatttgtttaaacttaatgagaaggagaagaagtgggtgaagttgactagtttaggggatagggttttgttcttgggagaagtatgttc 7041522  T
Q  490 gttctctg 497  Q
    ||||||||    
T  7041521 gttctctg 7041514  T

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Target: chr6; HSP #3
Raw Score: 36; E-Value: 0.00000000005
Query Start/End: Original strand, 391 - 478
Target Start/End: Complemental strand, 7029937 - 7029850
Alignment:
Q  391 tgtatggattgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttgggg 478  Q
    |||| |||||||| |||||| |||| ||||||| ||||| | |||||| ||| |||||| ||| || |||| ||||||||||||||||    
T  7029937 tgtaaggattgatttgtttaagcttaatgagaaggagaagaagtgggtgaagttgacgagtttcggggatagggttttgttcttgggg 7029850  T

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Target: chr6; HSP #4
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 388 - 478
Target Start/End: Complemental strand, 7012947 - 7012857
Alignment:
Q  388 tcctgtatggattgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttgggg 478  Q
    ||||||| | |||||| |||||| |||| ||||||| ||||| | |||||| ||| |||| | ||||||||||| | ||||||||||||||    
T  7012947 tcctgtaagaattgatttgtttaagcttaatgagaaggagaagaagtgggtgaagttgacaagtttaggagataggattttgttcttgggg 7012857  T

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Target: chr6; HSP #5
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 388 - 478
Target Start/End: Complemental strand, 9170944 - 9170854
Alignment:
Q  388 tcctgtatggattgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttgggg 478  Q
    ||||||| |||||||| |||||| |||| ||||||| ||||| | |||||| ||  | |||| |||||| |||| ||||||||||||||||    
T  9170944 tcctgtaaggattgatttgtttaagcttaatgagaaggagaagaagtgggtgaaattaacgagtttaggggatagggttttgttcttgggg 9170854  T

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Target: chr6; HSP #6
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 399 - 479
Target Start/End: Complemental strand, 7046955 - 7046875
Alignment:
Q  399 ttgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttgggga 479  Q
    ||||| |||||| |||| ||||||| ||||| | |||||| ||| | |||| |||||| ||||| ||||||||||||||||    
T  7046955 ttgatttgtttaagcttaatgagaaggagaagaagtgggtgaagttaacgagtttaggggataaagttttgttcttgggga 7046875  T

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Target: chr6; HSP #7
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 388 - 478
Target Start/End: Original strand, 9159484 - 9159574
Alignment:
Q  388 tcctgtatggattgatgtgtttaggcttgatgagaaagagaaaaggtgggtcaagctgacgaatttaggagataaggttttgttcttgggg 478  Q
    ||||||| |||||||| |||||| |||| | ||||| ||||| | |||||| ||  | |||| |||||| |||| ||||||||||||||||    
T  9159484 tcctgtaaggattgatttgtttaagcttaacgagaaggagaagaagtgggtgaaattaacgagtttaggggatagggttttgttcttgggg 9159574  T

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Target: chr1 (Bit Score: 33; Significance: 0.000000003; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 455 - 499
Target Start/End: Complemental strand, 4439920 - 4439876
Alignment:
Q  455 ggagataaggttttgttcttggggaatggatgttcgttctctgct 499  Q
    ||||||| ||||||||| |||||||||||||||||||| ||||||    
T  4439920 ggagatagggttttgtttttggggaatggatgttcgttttctgct 4439876  T

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Target: chr1; HSP #2
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 463 - 499
Target Start/End: Complemental strand, 18991256 - 18991220
Alignment:
Q  463 ggttttgttcttggggaatggatgttcgttctctgct 499  Q
    |||||||||||||||||||||||||||||| ||||||    
T  18991256 ggttttgttcttggggaatggatgttcgttttctgct 18991220  T

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Target: chr2 (Bit Score: 30; Significance: 0.0000002; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 458 - 499
Target Start/End: Original strand, 20694360 - 20694401
Alignment:
Q  458 gataaggttttgttcttggggaatggatgttcgttctctgct 499  Q
    |||| ||||||||| |||||||||||||||||||| ||||||    
T  20694360 gatagggttttgtttttggggaatggatgttcgttttctgct 20694401  T

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