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: NF9540_low_9 (Length: 230)

Name: NF9540_low_9
Description: NF9540
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9540_low_9
NF9540_low_9
[»] chr1 (21 HSPs)
chr1 (12-214)||(8920957-8921159)
chr1 (13-214)||(8932362-8932563)
chr1 (12-214)||(8956284-8956486)
chr1 (13-214)||(8942278-8942479)
chr1 (12-214)||(9254675-9254877)
chr1 (12-214)||(9320163-9320365)
chr1 (12-214)||(9350480-9350682)
chr1 (12-213)||(9317937-9318138)
chr1 (50-127)||(9096494-9096571)
chr1 (50-127)||(9104676-9104753)
chr1 (50-139)||(9082224-9082313)
chr1 (50-139)||(8999999-9000088)
chr1 (44-127)||(9432516-9432599)
chr1 (50-139)||(8964848-8964937)
chr1 (50-139)||(9056897-9056986)
chr1 (50-127)||(9485874-9485951)
chr1 (52-127)||(9142558-9142633)
chr1 (50-127)||(9453509-9453586)
chr1 (55-127)||(9399980-9400052)
chr1 (50-107)||(11004704-11004761)
chr1 (64-107)||(8873767-8873810)
[»] chr6 (1 HSPs)
chr6 (12-206)||(15926843-15927037)
[»] chr3 (1 HSPs)
chr3 (13-214)||(9159853-9160054)


Alignment Details
Target: chr1 (Bit Score: 191; Significance: 1e-104; HSPs: 21)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 191; E-Value: 1e-104
Query Start/End: Original strand, 12 - 214
Target Start/End: Complemental strand, 8921159 - 8920957
Alignment:
Q  12 cataggaaaaatacatcacgccaatgtagtgtgacttgttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctct 111  Q
    ||||||||||||||||||||||||||| ||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||    
T  8921159 cataggaaaaatacatcacgccaatgtggtgcgacttgttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgccaaatggctct 8921060  T
Q  112 cttgatagatatatttcctctagagaagatcacatttccttaacttataagcaaatgtacgagatatctcttggagttgcacgtggaattgcttatttgc 211  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  8921059 cttgatagatatatttcctctagagaagatcacatttccttaacttataagcaaatgtacgagatatctcttggagttgcacgtggaattgcttatttgc 8920960  T
Q  212 atc 214  Q
    |||    
T  8920959 atc 8920957  T

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

Target: chr1; HSP #2
Raw Score: 174; E-Value: 9e-94
Query Start/End: Original strand, 13 - 214
Target Start/End: Complemental strand, 8932563 - 8932362
Alignment:
Q  13 ataggaaaaatacatcacgccaatgtagtgtgacttgttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctctc 112  Q
    |||||||||||||||||| ||||||| ||| |||||||||||||||||||||||  ||||||||||||||||||||||||||||||||||||||||||||    
T  8932563 ataggaaaaatacatcacaccaatgtggtgcgacttgttggattttgtgttgagaaatcaaaacgtgctcttgtttatgatttcatgcccaatggctctc 8932464  T
Q  113 ttgatagatatatttcctctagagaagatcacatttccttaacttataagcaaatgtacgagatatctcttggagttgcacgtggaattgcttatttgca 212  Q
    |||||||||||||||||||||||||||| || ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  8932463 ttgatagatatatttcctctagagaagaccatatttccttaacttataagcaaatgtacgagatatctcttggagttgcacgtggaattgcttatttgca 8932364  T
Q  213 tc 214  Q
    ||    
T  8932363 tc 8932362  T

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

Target: chr1; HSP #3
Raw Score: 171; E-Value: 6e-92
Query Start/End: Original strand, 12 - 214
Target Start/End: Complemental strand, 8956486 - 8956284
Alignment:
Q  12 cataggaaaaatacatcacgccaatgtagtgtgacttgttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctct 111  Q
    ||||||||||||||||||| ||||||| ||| ||||||||||||||||  ||||||||||||||||||||||||||||||||||||||||||||||||||    
T  8956486 cataggaaaaatacatcacaccaatgtggtgcgacttgttggattttgcattgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctct 8956387  T
Q  112 cttgatagatatatttcctctagagaagatcacatttccttaacttataagcaaatgtacgagatatctcttggagttgcacgtggaattgcttatttgc 211  Q
    ||||||||||||||||||||||| |||||||| |||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||    
T  8956386 cttgatagatatatttcctctagggaagatcatatttccttaacttataagcaaatgtatgagatatctcttggagttgcacgtggaattgcttatttgc 8956287  T
Q  212 atc 214  Q
    |||    
T  8956286 atc 8956284  T

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

Target: chr1; HSP #4
Raw Score: 138; E-Value: 3e-72
Query Start/End: Original strand, 13 - 214
Target Start/End: Complemental strand, 8942479 - 8942278
Alignment:
Q  13 ataggaaaaatacatcacgccaatgtagtgtgacttgttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctctc 112  Q
    ||||||| |||||||||| ||||||| ||| ||||| |||||||||||||||||||||||||| | ||||||||||||||||||||||||||||||||||    
T  8942479 ataggaagaatacatcacaccaatgtggtgcgacttattggattttgtgttgagggatcaaaaagagctcttgtttatgatttcatgcccaatggctctc 8942380  T
Q  113 ttgatagatatatttcctctagagaagatcacatttccttaacttataagcaaatgtacgagatatctcttggagttgcacgtggaattgcttatttgca 212  Q
    |||||| |||||| || |||||||||||||| ||||||||||||||||| ||||| || |||||||||||||  ||||||||||||||||||||||||||    
T  8942379 ttgataaatatatatcatctagagaagatcatatttccttaacttataaacaaatatatgagatatctcttgccgttgcacgtggaattgcttatttgca 8942280  T
Q  213 tc 214  Q
    ||    
T  8942279 tc 8942278  T

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

Target: chr1; HSP #5
Raw Score: 91; E-Value: 3e-44
Query Start/End: Original strand, 12 - 214
Target Start/End: Original strand, 9254675 - 9254877
Alignment:
Q  12 cataggaaaaatacatcacgccaatgtagtgtgacttgttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctct 111  Q
    |||||||| |||||||||| ||||||| |   ||||| |||| |||||||||||||||||||| ||||||||||||||||| |||||| ||||||| |||    
T  9254675 cataggaagaatacatcacaccaatgtggctcgacttattgggttttgtgttgagggatcaaagcgtgctcttgtttatgaattcatgtccaatggttct 9254774  T
Q  112 cttgatagatatatttcctctagagaagatcacatttccttaacttataagcaaatgtacgagatatctcttggagttgcacgtggaattgcttatttgc 211  Q
    ||||||| |||||||||||||||||| |||   || ||  ||| |||| || ||||||||||||||||||||||||| || | ||| ||||||||||| |    
T  9254775 cttgataaatatatttcctctagagaggatactatctctctaagttatcagaaaatgtacgagatatctcttggagtggctcatggtattgcttatttac 9254874  T
Q  212 atc 214  Q
    |||    
T  9254875 atc 9254877  T

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

Target: chr1; HSP #6
Raw Score: 91; E-Value: 3e-44
Query Start/End: Original strand, 12 - 214
Target Start/End: Complemental strand, 9320365 - 9320163
Alignment:
Q  12 cataggaaaaatacatcacgccaatgtagtgtgacttgttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctct 111  Q
    |||||||| |||||||||| ||||||| ||  ||||| |||| ||||||||||| |||||||| ||||||||||||||||| |||||| |||||||||||    
T  9320365 cataggaagaatacatcacaccaatgtggttcgacttattgggttttgtgttgaaggatcaaagcgtgctcttgtttatgaattcatgtccaatggctct 9320266  T
Q  112 cttgatagatatatttcctctagagaagatcacatttccttaacttataagcaaatgtacgagatatctcttggagttgcacgtggaattgcttatttgc 211  Q
    ||||||| |||||||||||||||||| |||   || ||  ||| |||| || ||||||| ||||||||||||||||| || ||||| || |||||||| |    
T  9320265 cttgataaatatatttcctctagagaggatactatctctctaaattatcagaaaatgtatgagatatctcttggagtggctcgtggtatggcttatttac 9320166  T
Q  212 atc 214  Q
    |||    
T  9320165 atc 9320163  T

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

Target: chr1; HSP #7
Raw Score: 91; E-Value: 3e-44
Query Start/End: Original strand, 12 - 214
Target Start/End: Complemental strand, 9350682 - 9350480
Alignment:
Q  12 cataggaaaaatacatcacgccaatgtagtgtgacttgttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctct 111  Q
    |||||||| |||||||||| ||||||| || |||||| |||| ||||||||||| |||||||| ||||||||||||||||| |||||| |||||||||||    
T  9350682 cataggaagaatacatcacaccaatgtggtttgacttattgggttttgtgttgaaggatcaaagcgtgctcttgtttatgaattcatgtccaatggctct 9350583  T
Q  112 cttgatagatatatttcctctagagaagatcacatttccttaacttataagcaaatgtacgagatatctcttggagttgcacgtggaattgcttatttgc 211  Q
    ||||||| |||||||||||||||||| |||   || ||  ||| |||| || ||||||| ||||||||| ||||||| || ||||| || |||||||| |    
T  9350582 cttgataaatatatttcctctagagaggatactatctctctaagttatcagaaaatgtatgagatatctgttggagtggctcgtggtatggcttatttac 9350483  T
Q  212 atc 214  Q
    |||    
T  9350482 atc 9350480  T

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

Target: chr1; HSP #8
Raw Score: 78; E-Value: 2e-36
Query Start/End: Original strand, 12 - 213
Target Start/End: Original strand, 9317937 - 9318138
Alignment:
Q  12 cataggaaaaatacatcacgccaatgtagtgtgacttgttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctct 111  Q
    |||||||| |||||| || || ||||| ||  ||||| |||| |||||| ||||| ||||||||||||| ||||||||||| ||||||||||| ||||||    
T  9317937 cataggaagaatacaccatgcaaatgtggttagacttattggtttttgttttgagagatcaaaacgtgcacttgtttatgaattcatgcccaacggctct 9318036  T
Q  112 cttgatagatatatttcctctagagaagatcacatttccttaacttataagcaaatgtacgagatatctcttggagttgcacgtggaattgcttatttgc 211  Q
    ||||||| ||| |||||||||| ||| |||   |||    ||||||  ||| ||||||| ||||||||||||||||| || |||||||||||||||||||    
T  9318037 cttgataaatacatttcctctaaagatgatgttattgatctaacttgcaagaaaatgtatgagatatctcttggagtggctcgtggaattgcttatttgc 9318136  T
Q  212 at 213  Q
    ||    
T  9318137 at 9318138  T

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Target: chr1; HSP #9
Raw Score: 54; E-Value: 4e-22
Query Start/End: Original strand, 50 - 127
Target Start/End: Original strand, 9096494 - 9096571
Alignment:
Q  50 ttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctctcttgatagatatattt 127  Q
    ||||||||||| ||||||||||||||||||||||||||||||| |||||||| ||||| |||||||||| || |||||    
T  9096494 ttggattttgtattgagggatcaaaacgtgctcttgtttatgaattcatgcctaatggatctcttgataaatttattt 9096571  T

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Target: chr1; HSP #10
Raw Score: 54; E-Value: 4e-22
Query Start/End: Original strand, 50 - 127
Target Start/End: Original strand, 9104676 - 9104753
Alignment:
Q  50 ttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctctcttgatagatatattt 127  Q
    ||||||||||| ||||||||||||||||||||||||||||||| |||||||| ||||| |||||||||| || |||||    
T  9104676 ttggattttgtattgagggatcaaaacgtgctcttgtttatgaattcatgcctaatggatctcttgataaatttattt 9104753  T

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

Target: chr1; HSP #11
Raw Score: 50; E-Value: 9e-20
Query Start/End: Original strand, 50 - 139
Target Start/End: Original strand, 9082224 - 9082313
Alignment:
Q  50 ttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctctcttgatagatatatttcctctagagaag 139  Q
    ||||||||||  |||||||||| |||||||||||||||||||| |||||||| ||||| |||||||||| || ||||| ||||| |||||    
T  9082224 ttggattttgcattgagggatccaaacgtgctcttgtttatgaattcatgcctaatggatctcttgataaatttattttctctaaagaag 9082313  T

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

Target: chr1; HSP #12
Raw Score: 46; E-Value: 2e-17
Query Start/End: Original strand, 50 - 139
Target Start/End: Complemental strand, 9000088 - 8999999
Alignment:
Q  50 ttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctctcttgatagatatatttcctctagagaag 139  Q
    ||||||||||| | |||||||| |||||||||||||||||||| |||||||| ||||| || ||||||| || ||||| ||||| |||||    
T  9000088 ttggattttgtatcgagggatcgaaacgtgctcttgtttatgaattcatgcctaatggatcacttgataaatttattttctctaaagaag 8999999  T

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

Target: chr1; HSP #13
Raw Score: 44; E-Value: 3e-16
Query Start/End: Original strand, 44 - 127
Target Start/End: Original strand, 9432516 - 9432599
Alignment:
Q  44 gacttgttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctctcttgatagatatattt 127  Q
    |||| ||||| |||||||| || ||||||||||| ||||||||||| || | ||||||||||||||| ||||||| ||||||||    
T  9432516 gactcgttgggttttgtgtcgaaggatcaaaacgcgctcttgtttacgagtacatgcccaatggctcacttgataaatatattt 9432599  T

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

Target: chr1; HSP #14
Raw Score: 42; E-Value: 0.000000000000005
Query Start/End: Original strand, 50 - 139
Target Start/End: Complemental strand, 8964937 - 8964848
Alignment:
Q  50 ttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctctcttgatagatatatttcctctagagaag 139  Q
    |||| |||||||| ||||||||||| ||||||||||||||||| |||||| | ||||| || ||||||| || ||||| ||||| |||||    
T  8964937 ttggtttttgtgtcgagggatcaaaccgtgctcttgtttatgaattcatgtctaatggatcccttgataaatttattttctctaaagaag 8964848  T

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

Target: chr1; HSP #15
Raw Score: 42; E-Value: 0.000000000000005
Query Start/End: Original strand, 50 - 139
Target Start/End: Complemental strand, 9056986 - 9056897
Alignment:
Q  50 ttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctctcttgatagatatatttcctctagagaag 139  Q
    ||||||||||  ||||||| |||||||| |||||||||||||| || ||||  ||||| |||||||||| |||||||| ||||| |||||    
T  9056986 ttggattttgcattgaggggtcaaaacgagctcttgtttatgaatttatgcgtaatggatctcttgataaatatattttctctaaagaag 9056897  T

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

Target: chr1; HSP #16
Raw Score: 42; E-Value: 0.000000000000005
Query Start/End: Original strand, 50 - 127
Target Start/End: Original strand, 9485874 - 9485951
Alignment:
Q  50 ttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctctcttgatagatatattt 127  Q
    |||| |||||||| || ||||| ||||||||||||||||| || | ||||||||||||||| ||||||| ||||||||    
T  9485874 ttgggttttgtgtcgaaggatcgaaacgtgctcttgtttacgagtacatgcccaatggctcacttgataaatatattt 9485951  T

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

Target: chr1; HSP #17
Raw Score: 40; E-Value: 0.00000000000008
Query Start/End: Original strand, 52 - 127
Target Start/End: Original strand, 9142558 - 9142633
Alignment:
Q  52 ggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctctcttgatagatatattt 127  Q
    ||||||||| |||||||||||||||| |||||| ||||||| |||||| | ||||| |||||||||| || |||||    
T  9142558 ggattttgtattgagggatcaaaacgcgctcttatttatgaattcatgtcaaatggatctcttgataaatttattt 9142633  T

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Target: chr1; HSP #18
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 50 - 127
Target Start/End: Original strand, 9453509 - 9453586
Alignment:
Q  50 ttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctctcttgatagatatattt 127  Q
    |||| |||||||| || ||||||||||| ||||||||||| || | ||||||||| ||||| ||||||| ||||||||    
T  9453509 ttgggttttgtgtcgaaggatcaaaacgcgctcttgtttacgagtacatgcccaaaggctcacttgataaatatattt 9453586  T

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Target: chr1; HSP #19
Raw Score: 37; E-Value: 0.000000000005
Query Start/End: Original strand, 55 - 127
Target Start/End: Complemental strand, 9400052 - 9399980
Alignment:
Q  55 ttttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctctcttgatagatatattt 127  Q
    |||||||| || ||||| ||||| ||||||||||| || | ||||||||||||||| ||||||| ||||||||    
T  9400052 ttttgtgtcgaaggatcgaaacgagctcttgtttacgagtacatgcccaatggctcacttgataaatatattt 9399980  T

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Target: chr1; HSP #20
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 50 - 107
Target Start/End: Original strand, 11004704 - 11004761
Alignment:
Q  50 ttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatgg 107  Q
    ||||||||||||| ||||| ||||||||||||||| | ||||| |||||||| |||||    
T  11004704 ttggattttgtgtggagggttcaaaacgtgctcttatatatgaattcatgccaaatgg 11004761  T

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Target: chr1; HSP #21
Raw Score: 32; E-Value: 0.000000005
Query Start/End: Original strand, 64 - 107
Target Start/End: Original strand, 8873767 - 8873810
Alignment:
Q  64 gagggatcaaaacgtgctcttgtttatgatttcatgcccaatgg 107  Q
    ||||||||||||||||||||||||||||| || ||||| |||||    
T  8873767 gagggatcaaaacgtgctcttgtttatgagtttatgcctaatgg 8873810  T

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

Target: chr6 (Bit Score: 107; Significance: 9e-54; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 107; E-Value: 9e-54
Query Start/End: Original strand, 12 - 206
Target Start/End: Original strand, 15926843 - 15927037
Alignment:
Q  12 cataggaaaaatacatcacgccaatgtagtgtgacttgttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctct 111  Q
    |||||||| |||||||||| ||||||||||  ||||| ||||||||||||||||||||||||| ||||||||||||||||| |||||||||||||| |||    
T  15926843 cataggaagaatacatcacaccaatgtagttcgacttattggattttgtgttgagggatcaaagcgtgctcttgtttatgaattcatgcccaatggttct 15926942  T
Q  112 cttgatagatatatttcctctagagaagatcacatttccttaacttataagcaaatgtacgagatatctcttggagttgcacgtggaattgctta 206  Q
    ||||||| ||||||||| ||||| || |||   || ||  ||||||||||||||||||| |||||||||||||||||||| ||||| || |||||    
T  15926943 cttgataaatatatttcttctagcgaggatgctatctctctaacttataagcaaatgtatgagatatctcttggagttgctcgtggtatggctta 15927037  T

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

Target: chr3 (Bit Score: 82; Significance: 7e-39; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 82; E-Value: 7e-39
Query Start/End: Original strand, 13 - 214
Target Start/End: Complemental strand, 9160054 - 9159853
Alignment:
Q  13 ataggaaaaatacatcacgccaatgtagtgtgacttgttggattttgtgttgagggatcaaaacgtgctcttgtttatgatttcatgcccaatggctctc 112  Q
    ||||||| |||||| || || ||||| ||  ||||| ||||||||||||| ||| |||||||| || ||||||||||||| ||||||||||| |||||||    
T  9160054 ataggaagaatacaccatgcaaatgtggtaagacttattggattttgtgtggagagatcaaaatgtactcttgtttatgaattcatgcccaacggctctc 9159955  T
Q  113 ttgatagatatatttcctctagagaagatcacatttccttaacttataagcaaatgtacgagatatctcttggagttgcacgtggaattgcttatttgca 212  Q
    |||||| ||| |||||||||| ||| |||   |||    ||||||||||| ||||||| ||||||||| ||||||| || ||||||||||||||||||||    
T  9159954 ttgataaatacatttcctctaaagatgatgttattaatctaacttataagaaaatgtatgagatatctattggagtggctcgtggaattgcttatttgca 9159855  T
Q  213 tc 214  Q
    ||    
T  9159854 tc 9159853  T

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