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: NF19889_low_4 (Length: 507)

Name: NF19889_low_4
Description: NF19889
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF19889_low_4
NF19889_low_4
[»] chr3 (15 HSPs)
chr3 (148-411)||(783913-784176)
chr3 (190-382)||(9587328-9587523)
chr3 (204-389)||(763697-763879)
chr3 (206-389)||(9585271-9585451)
chr3 (448-487)||(792800-792839)
chr3 (339-381)||(771649-771691)
chr3 (87-129)||(781120-781162)
chr3 (197-381)||(43997282-43997472)
chr3 (17-54)||(781085-781122)
chr3 (294-382)||(14888755-14888846)
chr3 (197-252)||(9608626-9608681)
chr3 (197-308)||(44001332-44001443)
chr3 (197-264)||(2491817-2491884)
chr3 (339-381)||(2456106-2456148)
chr3 (214-255)||(771769-771810)
[»] chr2 (7 HSPs)
chr2 (201-375)||(33020043-33020217)
chr2 (201-262)||(33037881-33037942)
chr2 (336-372)||(7200134-7200170)
chr2 (335-375)||(33026518-33026558)
chr2 (324-375)||(33038004-33038055)
chr2 (201-254)||(33026384-33026437)
chr2 (287-376)||(34561064-34561158)
[»] scaffold0044 (1 HSPs)
scaffold0044 (338-376)||(89013-89051)
[»] chr6 (1 HSPs)
chr6 (199-257)||(24417748-24417806)
[»] chr1 (2 HSPs)
chr1 (336-374)||(51854806-51854844)
chr1 (336-366)||(51858465-51858495)
[»] chr5 (4 HSPs)
chr5 (199-252)||(20301165-20301218)
chr5 (199-252)||(20305578-20305631)
chr5 (199-252)||(20309982-20310035)
chr5 (198-238)||(3181429-3181469)


Alignment Details
Target: chr3 (Bit Score: 223; Significance: 1e-122; HSPs: 15)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 223; E-Value: 1e-122
Query Start/End: Original strand, 148 - 411
Target Start/End: Complemental strand, 784176 - 783913
Alignment:
Q  148 gtaattataagattgttgccgtttcnnnnnnngaggtcaacaaatatggagttagtgtttatactttgggtactgattcttggaggaggatccaagactt 247  Q
    ||||||||||||||||||| |||||       ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||    
T  784176 gtaattataagattgttgctgtttctttttttgaggtcaacaaatatggagttagtgtttatactttgggtaccgattcttggaggaggatccaagactt 784077  T
Q  248 cccatattctggccccagtcctatgcctggagtctttgtgagtggcaccattaattggttgacctatgatgcaagtagttctttgcatgtcattgtttct 347  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||    
T  784076 cccatattctggccccagtcctatgcctggagtctttgtgagtggcaccattaattggttgacatatgatgcaagtagttctttgcatgtcattgtttct 783977  T
Q  348 cttgatttggagaatgagtcgtatcaaaatcttttcaagcctgatacgaagaaggattgttgga 411  Q
    ||||||||||||||||||||||||||||||||||| |||||||||||||||||||||| |||||    
T  783976 cttgatttggagaatgagtcgtatcaaaatcttttgaagcctgatacgaagaaggattattgga 783913  T

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

Target: chr3; HSP #2
Raw Score: 86; E-Value: 7e-41
Query Start/End: Original strand, 190 - 382
Target Start/End: Complemental strand, 9587523 - 9587328
Alignment:
Q  190 aatatggagttagtgtttatactttgggtactgattcttggaggaggatccaagacttcccatattctggccccagtcctatgcctggagtctttgtgag 289  Q
    ||||| |||||||||||||||||||||||||  || ||||||||||||||||||||||||||||||||  |  ||||  ||  || || || ||||||||    
T  9587523 aatatagagttagtgtttatactttgggtaccaatacttggaggaggatccaagacttcccatattctcacatcagtgataatccaggtgtatttgtgag 9587424  T
Q  290 tggcaccattaattggttgacctatgatg---caagtagttctttgcatgtcattgtttctcttgatttggagaatgagtcgtatcaaaatctttt 382  Q
    ||||||||||||||||||| | ||||||    |||||||   |||| ||| |||||||||||||||||||||||| ||||||||||||||||||||    
T  9587423 tggcaccattaattggttgtcatatgatatttcaagtagacttttgaatgccattgtttctcttgatttggagaacgagtcgtatcaaaatctttt 9587328  T

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

Target: chr3; HSP #3
Raw Score: 52; E-Value: 1e-20
Query Start/End: Original strand, 204 - 389
Target Start/End: Complemental strand, 763879 - 763697
Alignment:
Q  204 gtttatactttgggtactgattcttggaggaggatccaagacttcccatattctggccccagtcctatgcctggagtctttgtgagtggcaccattaatt 303  Q
    ||||||||| ||||||| ||||||||||||||||| |||||||| ||||||| ||||  || |  |   || ||||| ||||  || || ||||||||||    
T  763879 gtttatactctgggtacggattcttggaggaggatacaagacttaccatattatggctacattagtgaaccaggagtatttgctagaggtaccattaatt 763780  T
Q  304 ggttgacctatgatgcaagtagttctttgcatgtcattgtttctcttgatttggagaatgagtcgtatcaaaatcttttcaagcct 389  Q
    ||||| |  ||||    |||||||||| |||   |||||||||||||||||||||||| |||||||||||||| ||||| ||||||    
T  763779 ggttggcacatgag---agtagttcttcgcacaacattgtttctcttgatttggagaaggagtcgtatcaaaagcttttaaagcct 763697  T

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Target: chr3; HSP #4
Raw Score: 42; E-Value: 0.00000000000001
Query Start/End: Original strand, 206 - 389
Target Start/End: Complemental strand, 9585451 - 9585271
Alignment:
Q  206 ttatactttgggtactgattcttggaggaggatccaagacttcccatattctggccccagtcctatgcctggagtctttgtgagtggcaccattaattgg 305  Q
    ||||||||||||||| |||| ||||||||||||||||||||| ||||||   ||| ||| |  |      ||||| ||||  || || ||||||||||||    
T  9585451 ttatactttgggtacggattgttggaggaggatccaagacttaccatat---ggctccactagtgcagtaggagtatttgctagaggtaccattaattgg 9585355  T
Q  306 ttgacctatgatgcaagtagttctttgcatgtcattgtttctcttgatttggagaatgagtcgtatcaaaatcttttcaagcct 389  Q
    ||| | |||||| |    |||||||  |||  |||||||||||||||||||||||| |||||||||||||| ||||| ||||||    
T  9585354 ttggcatatgattctcagagttcttcacataacattgtttctcttgatttggagaaggagtcgtatcaaaagcttttgaagcct 9585271  T

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

Target: chr3; HSP #5
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 448 - 487
Target Start/End: Original strand, 792800 - 792839
Alignment:
Q  448 tttagctctagacaccagcagcacttgttcatcttcgtaa 487  Q
    ||||||||||||||||||||||||||||||||||||||||    
T  792800 tttagctctagacaccagcagcacttgttcatcttcgtaa 792839  T

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

Target: chr3; HSP #6
Raw Score: 39; E-Value: 0.0000000000008
Query Start/End: Original strand, 339 - 381
Target Start/End: Complemental strand, 771691 - 771649
Alignment:
Q  339 attgtttctcttgatttggagaatgagtcgtatcaaaatcttt 381  Q
    ||||||||||||||||||||||||||||| |||||||||||||    
T  771691 attgtttctcttgatttggagaatgagtcatatcaaaatcttt 771649  T

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Target: chr3; HSP #7
Raw Score: 39; E-Value: 0.0000000000008
Query Start/End: Original strand, 87 - 129
Target Start/End: Original strand, 781120 - 781162
Alignment:
Q  87 cattcttgtatttcatatacttcaataattgccagttacaaaa 129  Q
    ||||||||||||||||||||||||||||||| |||||||||||    
T  781120 cattcttgtatttcatatacttcaataattgtcagttacaaaa 781162  T

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

Target: chr3; HSP #8
Raw Score: 39; E-Value: 0.0000000000008
Query Start/End: Original strand, 197 - 381
Target Start/End: Original strand, 43997282 - 43997472
Alignment:
Q  197 agttagtgtttatactttgggtactgattcttggaggaggatccaagacttcccatattctggccccagtcctatgcctggagtctttgtgagtggcacc 296  Q
    ||||| |||| |||||||||||||| ||| ||||||||||||||| |||||||| ||||||    |||  |||   || || || ||||||||||| ||     
T  43997282 agttaatgttcatactttgggtactaattattggaggaggatccaggacttcccgtattctcaatccatacctggaccgggtgtatttgtgagtggtact 43997381  T
Q  297 attaattggttgacctatgatg---ca---agtagttctttgcatgtcattgtttctcttgatttggagaatgagtcgtatcaaaatcttt 381  Q
    |||||||||||||  |||||||   ||   ||| ||||||| |||| |||||||||||| ||| |||| |  |||||||||||||| ||||    
T  43997382 attaattggttgatatatgatgtttcaggtagttgttcttttcatgccattgtttctctcgatctggaaatagagtcgtatcaaaagcttt 43997472  T

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Target: chr3; HSP #9
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 17 - 54
Target Start/End: Original strand, 781085 - 781122
Alignment:
Q  17 caaagggaaagtgtggatttgtgatcctttgaggacat 54  Q
    ||||||||||||||||||||||||||||||||||||||    
T  781085 caaagggaaagtgtggatttgtgatcctttgaggacat 781122  T

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

Target: chr3; HSP #10
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 294 - 382
Target Start/End: Complemental strand, 14888846 - 14888755
Alignment:
Q  294 accattaattggttgacctatgatg---caagtagttctttgcatgtcattgtttctcttgatttggagaatgagtcgtatcaaaatctttt 382  Q
    ||||||||||||||| | |||||||   ||||| | | |||| ||| |||| |||||||||||||||||||  |||||||||||||||||||    
T  14888846 accattaattggttggcatatgatgattcaagttgatttttgaatgccattttttctcttgatttggagaacaagtcgtatcaaaatctttt 14888755  T

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Target: chr3; HSP #11
Raw Score: 36; E-Value: 0.00000000005
Query Start/End: Original strand, 197 - 252
Target Start/End: Complemental strand, 9608681 - 9608626
Alignment:
Q  197 agttagtgtttatactttgggtactgattcttggaggaggatccaagacttcccat 252  Q
    |||||||||| |||||||||| ||||||| |||||| ||||| |||||||||||||    
T  9608681 agttagtgttcatactttgggcactgattattggagaaggatacaagacttcccat 9608626  T

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

Target: chr3; HSP #12
Raw Score: 36; E-Value: 0.00000000005
Query Start/End: Original strand, 197 - 308
Target Start/End: Original strand, 44001332 - 44001443
Alignment:
Q  197 agttagtgtttatactttgggtactgattcttggaggaggatccaagacttcccatattctggccccagtcctatgcctggagtctttgtgagtggcacc 296  Q
    |||||||||| ||| | ||||||||| || |||||||||||||||  |||||||||||||| |   ||  ||||  || ||||| ||||||||||||||     
T  44001332 agttagtgttcatagtatgggtactggttattggaggaggatccataacttcccatattctcgtagcatgcctagaccaggagtatttgtgagtggcact 44001431  T
Q  297 attaattggttg 308  Q
     |||||||||||    
T  44001432 gttaattggttg 44001443  T

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Target: chr3; HSP #13
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 197 - 264
Target Start/End: Original strand, 2491817 - 2491884
Alignment:
Q  197 agttagtgtttatactttgggtactgattcttggaggaggatccaagacttcccatattctggcccca 264  Q
    ||||||||||||||||||||| ||||||| |||||  || ||| | ||| |||||||||||| |||||    
T  2491817 agttagtgtttatactttggggactgattattggacaagaatcaaggacatcccatattctgacccca 2491884  T

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Target: chr3; HSP #14
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 339 - 381
Target Start/End: Original strand, 2456106 - 2456148
Alignment:
Q  339 attgtttctcttgatttggagaatgagtcgtatcaaaatcttt 381  Q
    ||||||||||||||||||||||| ||||| |||||| ||||||    
T  2456106 attgtttctcttgatttggagaaggagtcatatcaagatcttt 2456148  T

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

Target: chr3; HSP #15
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 214 - 255
Target Start/End: Complemental strand, 771810 - 771769
Alignment:
Q  214 tgggtactgattcttggaggaggatccaagacttcccatatt 255  Q
    ||||||| ||||||||||| ||||| ||||||||||||||||    
T  771810 tgggtacagattcttggagaaggatacaagacttcccatatt 771769  T

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Target: chr2 (Bit Score: 40; Significance: 0.0000000000002; HSPs: 7)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 201 - 375
Target Start/End: Original strand, 33020043 - 33020217
Alignment:
Q  201 agtgtttatactttgggtactgattcttggaggaggatccaagacttcccatattctggccccagtcctatgcctggagtctttgtgagtggcaccatta 300  Q
    |||||| ||||||||||||| ||| ||||||| ||||| | ||||||||||| || ||||||  ||| |  |  |||| | ||||||||||||||  |||    
T  33020043 agtgttcatactttgggtacggatacttggagaaggataccagacttcccatgttttggcccgtgtcgtgggtatggaatatttgtgagtggcacagtta 33020142  T
Q  301 attggttgacctatgatgcaagt-agttctttgcatgtcattgtttctcttgatttggagaatgagtcgtatcaaa 375  Q
    |||||||| | |  || | | || ||||||  |  ||||||||||||||||||||||||||| |||||||||||||    
T  33020143 attggttggcattcgaag-atgtgagttctccgtgtgtcattgtttctcttgatttggagaaggagtcgtatcaaa 33020217  T

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Target: chr2; HSP #2
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 201 - 262
Target Start/End: Original strand, 33037881 - 33037942
Alignment:
Q  201 agtgtttatactttgggtactgattcttggaggaggatccaagacttcccatattctggccc 262  Q
    |||||| ||||||||||||| ||| ||||||| ||||| | |||||||||||||||||||||    
T  33037881 agtgttcatactttgggtacggatacttggagaaggataccagacttcccatattctggccc 33037942  T

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

Target: chr2; HSP #3
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 336 - 372
Target Start/End: Complemental strand, 7200170 - 7200134
Alignment:
Q  336 gtcattgtttctcttgatttggagaatgagtcgtatc 372  Q
    |||||||||||||||||||||||||||||||| ||||    
T  7200170 gtcattgtttctcttgatttggagaatgagtcttatc 7200134  T

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

Target: chr2; HSP #4
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 335 - 375
Target Start/End: Original strand, 33026518 - 33026558
Alignment:
Q  335 tgtcattgtttctcttgatttggagaatgagtcgtatcaaa 375  Q
    ||||||||||||||||||||||||||| |||| ||||||||    
T  33026518 tgtcattgtttctcttgatttggagaaggagttgtatcaaa 33026558  T

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

Target: chr2; HSP #5
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 324 - 375
Target Start/End: Original strand, 33038004 - 33038055
Alignment:
Q  324 agttctttgcatgtcattgtttctcttgatttggagaatgagtcgtatcaaa 375  Q
    |||||||||   |||||||||||||||||||||||||| || ||||||||||    
T  33038004 agttctttgtgcgtcattgtttctcttgatttggagaaggaatcgtatcaaa 33038055  T

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

Target: chr2; HSP #6
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 201 - 254
Target Start/End: Original strand, 33026384 - 33026437
Alignment:
Q  201 agtgtttatactttgggtactgattcttggaggaggatccaagacttcccatat 254  Q
    |||||| ||||||||||||| ||| ||||||| ||||| | |||||||||||||    
T  33026384 agtgttcatactttgggtacagatacttggagaaggataccagacttcccatat 33026437  T

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

Target: chr2; HSP #7
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 287 - 376
Target Start/End: Complemental strand, 34561158 - 34561064
Alignment:
Q  287 gagtggcaccattaattggttgacctatgatg---caagtagt--tctttgcatgtcattgtttctcttgatttggagaatgagtcgtatcaaaa 376  Q
    ||||||| || ||||||||||||| |||||||   | ||||||  ||||||||||  |||| ||| ||||||||||| || ||||||||||||||    
T  34561158 gagtggcgccgttaattggttgacatatgatgtttcgagtagttctctttgcatgctattgcttcccttgatttggataaagagtcgtatcaaaa 34561064  T

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Target: scaffold0044 (Bit Score: 31; Significance: 0.00000005; HSPs: 1)
Name: scaffold0044
Description:

Target: scaffold0044; HSP #1
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 338 - 376
Target Start/End: Original strand, 89013 - 89051
Alignment:
Q  338 cattgtttctcttgatttggagaatgagtcgtatcaaaa 376  Q
    ||||||||| |||||||||||||||||||||||| ||||    
T  89013 cattgtttcacttgatttggagaatgagtcgtataaaaa 89051  T

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Target: chr6 (Bit Score: 31; Significance: 0.00000005; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 199 - 257
Target Start/End: Complemental strand, 24417806 - 24417748
Alignment:
Q  199 ttagtgtttatactttgggtactgattcttggaggaggatccaagacttcccatattct 257  Q
    |||||||| ||||  ||||||| ||||||||||| | ||| ||||||||||||||||||    
T  24417806 ttagtgttcataccctgggtacagattcttggagaacgatacaagacttcccatattct 24417748  T

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

Target: chr1 (Bit Score: 31; Significance: 0.00000005; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 336 - 374
Target Start/End: Original strand, 51854806 - 51854844
Alignment:
Q  336 gtcattgtttctcttgatttggagaatgagtcgtatcaa 374  Q
    |||||||||||||||||||||||||||| || |||||||    
T  51854806 gtcattgtttctcttgatttggagaatgggttgtatcaa 51854844  T

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

Target: chr1; HSP #2
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 336 - 366
Target Start/End: Original strand, 51858465 - 51858495
Alignment:
Q  336 gtcattgtttctcttgatttggagaatgagt 366  Q
    |||||||||||||||||||||||||||||||    
T  51858465 gtcattgtttctcttgatttggagaatgagt 51858495  T

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Target: chr5 (Bit Score: 30; Significance: 0.0000002; HSPs: 4)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 199 - 252
Target Start/End: Original strand, 20301165 - 20301218
Alignment:
Q  199 ttagtgtttatactttgggtactgattcttggaggaggatccaagacttcccat 252  Q
    |||||||| |||||||||||||||| | |||||| ||||| |||||||| ||||    
T  20301165 ttagtgttcatactttgggtactgaatattggagaaggatacaagactttccat 20301218  T

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

Target: chr5; HSP #2
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 199 - 252
Target Start/End: Original strand, 20305578 - 20305631
Alignment:
Q  199 ttagtgtttatactttgggtactgattcttggaggaggatccaagacttcccat 252  Q
    |||||||| |||||||||||||||| | |||||| ||||| |||||||| ||||    
T  20305578 ttagtgttcatactttgggtactgaatattggagaaggatacaagactttccat 20305631  T

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

Target: chr5; HSP #3
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 199 - 252
Target Start/End: Original strand, 20309982 - 20310035
Alignment:
Q  199 ttagtgtttatactttgggtactgattcttggaggaggatccaagacttcccat 252  Q
    |||||||| |||||||||||||||| | |||||| ||||| |||||||| ||||    
T  20309982 ttagtgttcatactttgggtactgaatattggagaaggatacaagactttccat 20310035  T

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

Target: chr5; HSP #4
Raw Score: 29; E-Value: 0.0000007
Query Start/End: Original strand, 198 - 238
Target Start/End: Original strand, 3181429 - 3181469
Alignment:
Q  198 gttagtgtttatactttgggtactgattcttggaggaggat 238  Q
    ||||||||||||||||| |||||||||| |||||| |||||    
T  3181429 gttagtgtttatactttaggtactgattattggagaaggat 3181469  T

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