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: NF11039_low_19 (Length: 317)

Name: NF11039_low_19
Description: NF11039
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF11039_low_19
NF11039_low_19
[»] chr3 (13 HSPs)
chr3 (22-311)||(22620962-22621251)
chr3 (22-310)||(22657114-22657402)
chr3 (132-310)||(22648317-22648494)
chr3 (22-163)||(22615316-22615457)
chr3 (22-78)||(22648232-22648288)
chr3 (21-76)||(22034881-22034936)
chr3 (21-76)||(22115449-22115504)
chr3 (22-165)||(22458537-22458680)
chr3 (22-165)||(22481518-22481661)
chr3 (34-305)||(30989365-30989636)
chr3 (113-165)||(22358141-22358193)
chr3 (113-165)||(22442878-22442930)
chr3 (113-165)||(22635642-22635694)
[»] chr1 (4 HSPs)
chr1 (51-310)||(34980292-34980551)
chr1 (22-310)||(34989347-34989635)
chr1 (22-310)||(2305533-2305821)
chr1 (50-310)||(34975512-34975772)
[»] scaffold1439 (2 HSPs)
scaffold1439 (51-145)||(1714-1808)
scaffold1439 (22-67)||(1641-1686)
[»] chr5 (2 HSPs)
chr5 (22-74)||(40580354-40580406)
chr5 (112-154)||(27372821-27372863)
[»] chr4 (1 HSPs)
chr4 (258-306)||(29610855-29610903)


Alignment Details
Target: chr3 (Bit Score: 282; Significance: 1e-158; HSPs: 13)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 282; E-Value: 1e-158
Query Start/End: Original strand, 22 - 311
Target Start/End: Original strand, 22620962 - 22621251
Alignment:
22 caacatccatacttcttgttgtaatcaatatcttactcccatttttattatcaatcacaacatgctctatttcattccaaaaatccatggtccatacatc 121  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||    
22620962 caacatccatacttcttgttgtaatcaatatcttactcccatttttattatcaatcacaacatgctctatttcattccaaaaatctatggtccatacatc 22621061  T
122 atcaaatacaaaaacatacctcttttgttgcaagtggtttctcaacttagaaatcaatgaccctagatccatttcagagatatcttgagaagggtcgtct 221  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
22621062 atcaaatacaaaaacatacctcttttgttgcaagtggtttctcaacttagaaatcaatgaccctagatccatttcagagatatcttgagaagggtcgtct 22621161  T
222 cctttttgttggtaaatctccttcaacatgtatctcagcaacccctctatattgtatgattgtgacactgtgacccatacacgatattcg 311  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||    
22621162 cctttttgttggtaaatctccttcaacatgtatctcagcaacccctctatatcgtatgattgtgacactgtgacccatacacgatattcg 22621251  T

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

Target: chr3; HSP #2
Raw Score: 121; E-Value: 5e-62
Query Start/End: Original strand, 22 - 310
Target Start/End: Original strand, 22657114 - 22657402
Alignment:
22 caacatccatacttcttgttgtaatcaatatcttactcccatttttattatcaatcacaacatgctctatttcattccaaaaatccatggtccatacatc 121  Q
    ||||||||||| ||||||||||||| |||||||||||||||||||||| ||||   ||| |||  || || |||| |||||||    || ||||||||||    
22657114 caacatccatatttcttgttgtaataaatatcttactcccatttttatgatcaccaacagcatattcaatctcatcccaaaaacttttgttccatacatc 22657213  T
122 atcaaatacaaaaacatacctcttttgttgcaagtggtttctcaacttagaaatcaatgaccctagatccatttcagagatatcttgagaagggtcgtct 221  Q
    |||||| |||||||||||||||||||  |||||||  ||||||| || |||||||||||  ||| |||||||||||| ||||||||||| ||| | ||||    
22657214 atcaaacacaaaaacatacctctttttctgcaagtattttctcagctcagaaatcaatgcgcctcgatccatttcagtgatatcttgaggaggattgtct 22657313  T
222 cctttttgttggtaaatctccttcaacatgtatctcagcaacccctctatattgtatgattgtgacactgtgacccatacacgatattc 310  Q
    |||||||||| ||||| |||||||||||||  ||||| |||| | ||||||||||| |||||||||||||||| ||| |||||| ||||    
22657314 cctttttgtttgtaaagctccttcaacatgcgtctcaacaacacttctatattgtaagattgtgacactgtgatccaaacacgacattc 22657402  T

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Target: chr3; HSP #3
Raw Score: 71; E-Value: 4e-32
Query Start/End: Original strand, 132 - 310
Target Start/End: Original strand, 22648317 - 22648494
Alignment:
132 aaaacatacctcttttgttgcaagtggtttctcaacttagaaatcaatgaccctagatccatttcagagatatcttgagaagggtcgtctcctttttgtt 231  Q
    ||||||||||||||||||||||||| |||||||| || ||||||||| ||||||  ||||||||  |||||| ||| || ||| || |||||||||||||    
22648317 aaaacatacctcttttgttgcaagtagtttctcagctcagaaatcaacgaccctc-atccattttcgagatacctttaggaggctcttctcctttttgtt 22648415  T
232 ggtaaatctccttcaacatgtatctcagcaacccctctatattgtatgattgtgacactgtgacccatacacgatattc 310  Q
     ||||| ||| |||||||||  |||||||||||| ||| ||| |||||||||  ||||| ||| |||||||||| ||||    
22648416 tgtaaagctcattcaacatgcctctcagcaacccttctgtatagtatgattgcaacactttgatccatacacgaaattc 22648494  T

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Target: chr3; HSP #4
Raw Score: 62; E-Value: 9e-27
Query Start/End: Original strand, 22 - 163
Target Start/End: Original strand, 22615316 - 22615457
Alignment:
22 caacatccatacttcttgttgtaatcaatatcttactcccatttttattatcaatcacaacatgctctatttcattccaaaaatccatggtccatacatc 121  Q
    ||||||| ||| | |||||||| || ||||||||||| ||||||||||||||||| ||| ||   || || ||||||||||||| |||| ||||||||||    
22615316 caacatctatattccttgttgttataaatatcttacttccatttttattatcaattacagcagattcaatctcattccaaaaatgcatgttccatacatc 22615415  T
122 atcaaatacaaaaacatacctcttttgttgcaagtggtttct 163  Q
    |||||| |||| ||| ||||||||||| ||||||| ||||||    
22615416 atcaaacacaacaacgtacctcttttgctgcaagtagtttct 22615457  T

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Target: chr3; HSP #5
Raw Score: 49; E-Value: 5e-19
Query Start/End: Original strand, 22 - 78
Target Start/End: Original strand, 22648232 - 22648288
Alignment:
22 caacatccatacttcttgttgtaatcaatatcttactcccatttttattatcaatca 78  Q
    ||||||||||| ||||||||||||| |||||||||||||||||||||||||||||||    
22648232 caacatccatatttcttgttgtaataaatatcttactcccatttttattatcaatca 22648288  T

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Target: chr3; HSP #6
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 21 - 76
Target Start/End: Complemental strand, 22034936 - 22034881
Alignment:
21 acaacatccatacttcttgttgtaatcaatatcttactcccatttttattatcaat 76  Q
    |||||||||||  |||||||||| || ||||||||||| ||||||||| |||||||    
22034936 acaacatccatgtttcttgttgttataaatatcttacttccatttttactatcaat 22034881  T

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Target: chr3; HSP #7
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 21 - 76
Target Start/End: Complemental strand, 22115504 - 22115449
Alignment:
21 acaacatccatacttcttgttgtaatcaatatcttactcccatttttattatcaat 76  Q
    |||||||||||  |||||||||| || ||||||||||| ||||||||| |||||||    
22115504 acaacatccatgtttcttgttgttataaatatcttacttccatttttactatcaat 22115449  T

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

Target: chr3; HSP #8
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 22 - 165
Target Start/End: Original strand, 22458537 - 22458680
Alignment:
22 caacatccatacttcttgttgtaatcaatatcttactcccatttttattatcaatcacaacatgctctatttcattccaaaaatccatggtccatacatc 121  Q
    ||||||||||  |||||||||| || ||||||||||  || |||||||||||||||| | ||   |  || |||| ||||||||  | | ||||||||||    
22458537 caacatccatgtttcttgttgtgattaatatcttacaaccctttttattatcaatcatagcaaatttgatatcatcccaaaaatgtaagctccatacatc 22458636  T
122 atcaaatacaaaaacatacctcttttgttgcaagtggtttctca 165  Q
    |||||| || | ||||||||| ||||  ||||||| ||| ||||    
22458637 atcaaaaactataacataccttttttcctgcaagtagttcctca 22458680  T

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Target: chr3; HSP #9
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 22 - 165
Target Start/End: Original strand, 22481518 - 22481661
Alignment:
22 caacatccatacttcttgttgtaatcaatatcttactcccatttttattatcaatcacaacatgctctatttcattccaaaaatccatggtccatacatc 121  Q
    ||||||||||  |||||||||| || ||||||||||  || |||||||||||||||| | ||   |  || |||| ||||||||  | | ||||||||||    
22481518 caacatccatgtttcttgttgtgattaatatcttacaaccctttttattatcaatcatagcaaatttgatatcatcccaaaaatgtaagctccatacatc 22481617  T
122 atcaaatacaaaaacatacctcttttgttgcaagtggtttctca 165  Q
    |||||| || | ||||||||| ||||  ||||||| ||| ||||    
22481618 atcaaaaactataacataccttttttcctgcaagtagttcctca 22481661  T

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Target: chr3; HSP #10
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 34 - 305
Target Start/End: Original strand, 30989365 - 30989636
Alignment:
34 ttcttgttgtaatcaatatcttactcccatttttattatcaatcacaacatgctctatttcattccaaaaatccatggtccatacatcatcaaatacaaa 133  Q
    |||||||||| || ||||||||||| ||||||||||||||||| ||| ||   || || |||| ||||||||  |   |||| ||||||||||| ||||     
30989365 ttcttgttgtgataaatatcttacttccatttttattatcaattacagcaaattcaatatcatcccaaaaatgtacactccaaacatcatcaaacacaac 30989464  T
134 aacatacctcttttgttgcaagtggtttctcaacttagaaatcaatgaccctagatccatttcagagatatcttgagaagggtcgtctcctttttgttgg 233  Q
     |||||||| |||    |||||| ||||||||  | |  | ||||||||||| ||||||||| | | ||||| | || ||| || ||| | ||||||| |    
30989465 gacatacctttttaaccgcaagtagtttctcacttcatcagtcaatgaccctcgatccatttgaaaaatatccttaggaggatcttcttcgttttgtttg 30989564  T
234 taaatctccttcaacatgtatctcagcaacccctctatattgtatgattgtgacactgtgacccatacacga 305  Q
    |||| ||    ||||||||  |||| |||||| || | | | |||||||| |||||| ||| ||||||||||    
30989565 taaaactttagcaacatgtccctcaacaacccttcaacagtatatgattgagacactatgatccatacacga 30989636  T

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Target: chr3; HSP #11
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 113 - 165
Target Start/End: Original strand, 22358141 - 22358193
Alignment:
113 ccatacatcatcaaatacaaaaacatacctcttttgttgcaagtggtttctca 165  Q
    ||||||||||||||| || | ||||||||| |||| |||||||| ||||||||    
22358141 ccatacatcatcaaacactacaacataccttttttcttgcaagtagtttctca 22358193  T

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Target: chr3; HSP #12
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 113 - 165
Target Start/End: Original strand, 22442878 - 22442930
Alignment:
113 ccatacatcatcaaatacaaaaacatacctcttttgttgcaagtggtttctca 165  Q
    ||||||||||||||| || | ||||||||| |||| |||||||| ||||||||    
22442878 ccatacatcatcaaacactacaacataccttttttcttgcaagtagtttctca 22442930  T

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Target: chr3; HSP #13
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 113 - 165
Target Start/End: Original strand, 22635642 - 22635694
Alignment:
113 ccatacatcatcaaatacaaaaacatacctcttttgttgcaagtggtttctca 165  Q
    ||||||||||||||| || ||||||||||| |||  ||| |||||||||||||    
22635642 ccatacatcatcaaacactaaaacatacctttttccttgaaagtggtttctca 22635694  T

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Target: chr1 (Bit Score: 96; Significance: 4e-47; HSPs: 4)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 96; E-Value: 4e-47
Query Start/End: Original strand, 51 - 310
Target Start/End: Complemental strand, 34980551 - 34980292
Alignment:
51 atcttactcccatttttattatcaatcacaacatgctctatttcattccaaaaatccatggtccatacatcatcaaatacaaaaacatacctcttttgtt 150  Q
    |||||||| ||||||||||||||| |||||||||  || || |||| |||||||    || |||||||||||||||| |||||||||||||||||||  |    
34980551 atcttactaccatttttattatcactcacaacatattcaatctcatcccaaaaacttgtgttccatacatcatcaaacacaaaaacatacctctttttct 34980452  T
151 gcaagtggtttctcaacttagaaatcaatgaccctagatccatttcagagatatcttgagaagggtcgtctcctttttgttggtaaatctccttcaacat 250  Q
    ||||||  |||||||||| | |||||||||   || |||||||||||| |||||||| |  ||| |  ||||||||||||| ||||| || |||||||||    
34980451 gcaagtaatttctcaactcataaatcaatgcatctcgatccatttcagtgatatcttcaagaggatgttctcctttttgttcgtaaagcttcttcaacat 34980352  T
251 gtatctcagcaacccctctatattgtatgattgtgacactgtgacccatacacgatattc 310  Q
    |  |||||||||  | || ||||||||||||||||||||||||| |||||||||| ||||    
34980351 gcgtctcagcaatacttcaatattgtatgattgtgacactgtgatccatacacgacattc 34980292  T

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

Target: chr1; HSP #2
Raw Score: 89; E-Value: 7e-43
Query Start/End: Original strand, 22 - 310
Target Start/End: Complemental strand, 34989635 - 34989347
Alignment:
22 caacatccatacttcttgttgtaatcaatatcttactcccatttttattatcaatcacaacatgctctatttcattccaaaaatccatggtccatacatc 121  Q
    |||||||| || ||||||| ||||| ||||||||||| ||||||||||||||| |||||||||  || || |||| |||||||    || ||||||||||    
34989635 caacatccttatttcttgtggtaataaatatcttactaccatttttattatcactcacaacatattcaatctcatcccaaaaacttgtgttccatacatc 34989536  T
122 atcaaatacaaaaacatacctcttttgttgcaagtggtttctcaacttagaaatcaatgaccctagatccatttcagagatatcttgagaagggtcgtct 221  Q
    |||||| |||||||||||||||||||  |||||||  |||||||||| |||||||||||  ||| |||||||||||| |||  ||| || ||| |  |||    
34989535 atcaaacacaaaaacatacctctttttctgcaagtactttctcaactcagaaatcaatgcacctcgatccatttcagtgattcctttaggaggtttttct 34989436  T
222 cctttttgttggtaaatctccttcaacatgtatctcagcaacccctctatattgtatgattgtgacactgtgacccatacacgatattc 310  Q
    |||||||||  ||||| || || |||||||| ||||  |||  | ||  | |||| ||||||||||||||||| |||||||||| ||||    
34989435 cctttttgtccgtaaagcttctccaacatgtgtctcgacaatacttcagtgttgtttgattgtgacactgtgatccatacacgacattc 34989347  T

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Target: chr1; HSP #3
Raw Score: 77; E-Value: 1e-35
Query Start/End: Original strand, 22 - 310
Target Start/End: Original strand, 2305533 - 2305821
Alignment:
22 caacatccatacttcttgttgtaatcaatatcttactcccatttttattatcaatcacaacatgctctatttcattccaaaaatccatggtccatacatc 121  Q
    ||||||||||| ||||||| ||||| ||||||||||| |||||||||| |||| ||| | |||  || || |||| |||||||    || |||||||||     
2305533 caacatccatatttcttgtggtaataaatatcttactaccatttttatgatcactcatagcatattcaatctcatcccaaaaacttgtgttccatacatt 2305632  T
122 atcaaatacaaaaacatacctcttttgttgcaagtggtttctcaacttagaaatcaatgaccctagatccatttcagagatatcttgagaagggtcgtct 221  Q
    |||||| ||||||||||||||||| |  |||||||  |||||||||| | ||||||||   ||| ||||||||||| ||||||||| ||   |    |||    
2305633 atcaaacacaaaaacatacctcttattctgcaagtactttctcaactcaaaaatcaattcacctcgatccatttcatagatatctttaggtagaaattct 2305732  T
222 cctttttgttggtaaatctccttcaacatgtatctcagcaacccctctatattgtatgattgtgacactgtgacccatacacgatattc 310  Q
     ||||||||| || || || |||||||||| |||||| |||  | |||||||||||||||||||||| ||||| |||||||||| ||||    
2305733 actttttgttcgtgaagcttcttcaacatgcatctcaacaagacttctatattgtatgattgtgacattgtgatccatacacgacattc 2305821  T

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Target: chr1; HSP #4
Raw Score: 77; E-Value: 1e-35
Query Start/End: Original strand, 50 - 310
Target Start/End: Complemental strand, 34975772 - 34975512
Alignment:
50 tatcttactcccatttttattatcaatcacaacatgctctatttcattccaaaaatccatggtccatacatcatcaaatacaaaaacatacctcttttgt 149  Q
    ||||||||| ||||||||||||||| |||||||||  || || |||| |||||||    || |||||||||||||||| |||||||||||||||||||      
34975772 tatcttactaccatttttattatcactcacaacatattcaatctcatcccaaaaacttgtgttccatacatcatcaaacacaaaaacatacctctttttc 34975673  T
150 tgcaagtggtttctcaacttagaaatcaatgaccctagatccatttcagagatatcttgagaagggtcgtctcctttttgttggtaaatctccttcaaca 249  Q
    |||||||  |||||||||| |||||||||||  ||| |||||||||||| |||  ||| || ||| |  ||||||||||||  ||||| || || |||||    
34975672 tgcaagtactttctcaactcagaaatcaatgcacctcgatccatttcagtgattcctttaggaggtttttctcctttttgtccgtaaagcttctccaaca 34975573  T
250 tgtatctcagcaacccctctatattgtatgattgtgacactgtgacccatacacgatattc 310  Q
    ||| ||||  |||  | ||  | |||| ||||||||||||||||| |||||||||| ||||    
34975572 tgtgtctcgacaatacttcagtgttgtgtgattgtgacactgtgatccatacacgacattc 34975512  T

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Target: scaffold1439 (Bit Score: 43; Significance: 0.000000000000002; HSPs: 2)
Name: scaffold1439
Description:

Target: scaffold1439; HSP #1
Raw Score: 43; E-Value: 0.000000000000002
Query Start/End: Original strand, 51 - 145
Target Start/End: Original strand, 1714 - 1808
Alignment:
51 atcttactcccatttttattatcaatcacaacatgctctatttcattccaaaaatccatggtccatacatcatcaaatacaaaaacatacctctt 145  Q
    |||||||| ||||||||||||||| |||||||||  || || |||| |||||||    || |||||||||||||||| |||||||||||||||||    
1714 atcttactaccatttttattatcactcacaacatattcaatctcatcccaaaaacttgtgttccatacatcatcaaacacaaaaacatacctctt 1808  T

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Target: scaffold1439; HSP #2
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 22 - 67
Target Start/End: Original strand, 1641 - 1686
Alignment:
22 caacatccatacttcttgttgtaatcaatatcttactcccattttt 67  Q
    ||||||||||| ||||||| ||||| ||||||||||| ||||||||    
1641 caacatccatatttcttgtggtaataaatatcttactaccattttt 1686  T

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

Target: chr5 (Bit Score: 37; Significance: 0.000000000007; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 37; E-Value: 0.000000000007
Query Start/End: Original strand, 22 - 74
Target Start/End: Complemental strand, 40580406 - 40580354
Alignment:
22 caacatccatacttcttgttgtaatcaatatcttactcccatttttattatca 74  Q
    ||||||||||||||||||  ||||| ||||||||||| |||||||||||||||    
40580406 caacatccatacttcttgaggtaataaatatcttactaccatttttattatca 40580354  T

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Target: chr5; HSP #2
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 112 - 154
Target Start/End: Complemental strand, 27372863 - 27372821
Alignment:
112 tccatacatcatcaaatacaaaaacatacctcttttgttgcaa 154  Q
    ||||||||||| ||||||| | |||||||||||||||||||||    
27372863 tccatacatcaccaaatacgataacatacctcttttgttgcaa 27372821  T

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Target: chr4 (Bit Score: 33; Significance: 0.000000002; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 258 - 306
Target Start/End: Original strand, 29610855 - 29610903
Alignment:
258 agcaacccctctatattgtatgattgtgacactgtgacccatacacgat 306  Q
    ||||| || |||||||||||||||||||| ||||||| |||||||||||    
29610855 agcaatccttctatattgtatgattgtgatactgtgatccatacacgat 29610903  T

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