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: NF3704_1D_low_49 (Length: 201)

Name: NF3704_1D_low_49
Description: NF3704_1D
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF3704_1D_low_49
NF3704_1D_low_49
[»] scaffold1312 (1 HSPs)
scaffold1312 (4-200)||(1350-1546)
[»] chr7 (2 HSPs)
chr7 (4-116)||(26374562-26374674)
chr7 (51-88)||(6198479-6198516)
[»] chr8 (3 HSPs)
chr8 (56-125)||(21586497-21586566)
chr8 (56-146)||(760091-760181)
chr8 (4-120)||(43215796-43215911)
[»] chr5 (1 HSPs)
chr5 (56-125)||(33011547-33011616)
[»] chr3 (2 HSPs)
chr3 (56-125)||(12744020-12744089)
chr3 (37-114)||(10974187-10974264)
[»] scaffold0211 (1 HSPs)
scaffold0211 (51-190)||(18451-18590)
[»] chr4 (6 HSPs)
chr4 (51-190)||(6554490-6554629)
chr4 (56-123)||(39977214-39977281)
chr4 (29-134)||(42727146-42727251)
chr4 (56-125)||(284293-284362)
chr4 (67-197)||(13233018-13233145)
chr4 (51-120)||(24180971-24181040)
[»] scaffold0021 (1 HSPs)
scaffold0021 (37-114)||(126828-126905)
[»] chr1 (2 HSPs)
chr1 (51-196)||(43385112-43385257)
chr1 (62-112)||(7844621-7844671)
[»] scaffold0114 (1 HSPs)
scaffold0114 (51-190)||(36989-37128)
[»] chr2 (3 HSPs)
chr2 (56-190)||(31965844-31965978)
chr2 (67-198)||(5787220-5787351)
chr2 (51-112)||(34425583-34425644)
[»] scaffold0159 (1 HSPs)
scaffold0159 (67-198)||(31593-31724)
[»] chr6 (1 HSPs)
chr6 (36-112)||(26594995-26595071)
[»] scaffold0380 (1 HSPs)
scaffold0380 (30-125)||(16816-16911)


Alignment Details
Target: scaffold1312 (Bit Score: 165; Significance: 2e-88; HSPs: 1)
Name: scaffold1312
Description:

Target: scaffold1312; HSP #1
Raw Score: 165; E-Value: 2e-88
Query Start/End: Original strand, 4 - 200
Target Start/End: Complemental strand, 1546 - 1350
Alignment:
Q  4 aatgagatggacatcacaatttctcccaaaaaatttaggcacacgtttatgagtcatttcacttatatcttattcaacatctattattcaatccattgta 103  Q
    ||||| || ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||    
T  1546 aatgacattgacatcacaatttctcccaaaaaatttaggcgcacgtttatgagtcatttcacttatatcttattcaacatctattattcaatacattgta 1447  T
Q  104 gaactttaactcttatttgacaaaataacatatcttcctcaagtataagattctctgtttccgtaattacgtgacatagtcaaataaagtcaaactg 200  Q
    |||||||||||||||||||||| |||||||| ||||||||||||||||||||||  |||||||||||||||||||||||||||||||||||||||||    
T  1446 gaactttaactcttatttgacacaataacatctcttcctcaagtataagattcttcgtttccgtaattacgtgacatagtcaaataaagtcaaactg 1350  T

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

Target: chr7 (Bit Score: 53; Significance: 1e-21; HSPs: 2)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 53; E-Value: 1e-21
Query Start/End: Original strand, 4 - 116
Target Start/End: Original strand, 26374562 - 26374674
Alignment:
Q  4 aatgagatggacatcacaatttctcccaaaaaatttaggcacacgtttatgagtcatttcacttatatcttattcaacatctattattcaatccattgta 103  Q
    ||||| || |||| ||||||||||||||||   |||||||||| |||| |||||||| ||||||||||||||||||||||||| |||||  | ||| |||    
T  26374562 aatgatattgacaccacaatttctcccaaattctttaggcacatgtttgtgagtcatctcacttatatcttattcaacatctactattcctttcatggta 26374661  T
Q  104 gaactttaactct 116  Q
    |||||||| ||||    
T  26374662 gaactttatctct 26374674  T

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

Target: chr7; HSP #2
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 51 - 88
Target Start/End: Complemental strand, 6198516 - 6198479
Alignment:
Q  51 tatgagtcatttcacttatatcttattcaacatctatt 88  Q
    ||||||||||||||||||||| ||||||| ||||||||    
T  6198516 tatgagtcatttcacttatatgttattcatcatctatt 6198479  T

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Target: chr8 (Bit Score: 46; Significance: 2e-17; HSPs: 3)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 46; E-Value: 2e-17
Query Start/End: Original strand, 56 - 125
Target Start/End: Original strand, 21586497 - 21586566
Alignment:
Q  56 gtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaactcttatttgaca 125  Q
    ||||| |||||||||| |||||||||||||| ||||| ||| |||||||||||||||||| |||||||||    
T  21586497 gtcatctcacttatatgttattcaacatctactattccatcaattgtagaactttaactcatatttgaca 21586566  T

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

Target: chr8; HSP #2
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 56 - 146
Target Start/End: Complemental strand, 760181 - 760091
Alignment:
Q  56 gtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaactcttatttgacaaaataacatatcttcctcaag 146  Q
    |||||||||||||||| |||||| ||||||| | ||   || |||||||||||| || || ||||||||| | |||||| ||| |||||||    
T  760181 gtcatttcacttatatgttattccacatctactctttcttctattgtagaacttaaaatcatatttgacacattaacatctctccctcaag 760091  T

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

Target: chr8; HSP #3
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 4 - 120
Target Start/End: Original strand, 43215796 - 43215911
Alignment:
Q  4 aatgagatggacatcacaatttctcccaaaaaatttaggcacacgtttatgagtcatttcacttatatcttattcaacatctattattcaatccattgta 103  Q
    |||||||| |||| |||| |||   |||||| |||||| |||| || |||||||||||| |||||||| ||||||| |||||| | ||  ||| ||||||    
T  43215796 aatgagattgacaccacatttttatccaaaatatttagacacatgtatatgagtcattt-acttatatgttattcatcatctactctttcatctattgta 43215894  T
Q  104 gaactttaactcttatt 120  Q
     || |||||||| ||||    
T  43215895 aaattttaactcatatt 43215911  T

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

Target: chr5 (Bit Score: 46; Significance: 2e-17; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 46; E-Value: 2e-17
Query Start/End: Original strand, 56 - 125
Target Start/End: Original strand, 33011547 - 33011616
Alignment:
Q  56 gtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaactcttatttgaca 125  Q
    ||||| |||| ||||| |||||||||||||| ||||| ||| ||||||||||||||||||||||||||||    
T  33011547 gtcatctcacatatatgttattcaacatctactattccatcaattgtagaactttaactcttatttgaca 33011616  T

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Target: chr3 (Bit Score: 46; Significance: 2e-17; HSPs: 2)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 46; E-Value: 2e-17
Query Start/End: Original strand, 56 - 125
Target Start/End: Original strand, 12744020 - 12744089
Alignment:
Q  56 gtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaactcttatttgaca 125  Q
    ||||| |||||||||| |||||||||||||| ||||| ||| |||||||||||||||||| |||||||||    
T  12744020 gtcatctcacttatatgttattcaacatctactattccatcaattgtagaactttaactcatatttgaca 12744089  T

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Target: chr3; HSP #2
Raw Score: 42; E-Value: 0.000000000000005
Query Start/End: Original strand, 37 - 114
Target Start/End: Original strand, 10974187 - 10974264
Alignment:
Q  37 tttaggcacacgtttatgagtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaact 114  Q
    |||||||||| || ||||| |||| ||||||||| ||||||||||||||| | | | |||||||||||||||||||||    
T  10974187 tttaggcacatgtatatgactcatctcacttataacttattcaacatctactttaccatccattgtagaactttaact 10974264  T

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Target: scaffold0211 (Bit Score: 44; Significance: 3e-16; HSPs: 1)
Name: scaffold0211
Description:

Target: scaffold0211; HSP #1
Raw Score: 44; E-Value: 3e-16
Query Start/End: Original strand, 51 - 190
Target Start/End: Original strand, 18451 - 18590
Alignment:
Q  51 tatgagtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaactcttatttgacaaaataacatatcttcctcaagtata 150  Q
    |||||||||| |||||||||| |||||||| ||||| | ||| ||||| | ||||| ||||||||  | ||||| || |||||| ||||  |||||| |     
T  18451 tatgagtcatctcacttatatgttattcaaaatctactcttctatccactatagaattttaactcacacttgactaattaacatctcttattcaagtttg 18550  T
Q  151 agattctctgtttccgtaattacgtgacatagtcaaataa 190  Q
      | ||||||| ||| ||||||||||||||||||||||||    
T  18551 caactctctgtgtccataattacgtgacatagtcaaataa 18590  T

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Target: chr4 (Bit Score: 44; Significance: 3e-16; HSPs: 6)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 44; E-Value: 3e-16
Query Start/End: Original strand, 51 - 190
Target Start/End: Complemental strand, 6554629 - 6554490
Alignment:
Q  51 tatgagtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaactcttatttgacaaaataacatatcttcctcaagtata 150  Q
    |||||||||| |||||||||| |||||||| ||||| | ||| ||||| | ||||| ||||||||  | |||||| | |||||| ||||  |||||| |     
T  6554629 tatgagtcatctcacttatatgttattcaaaatctactcttccatccactatagaattttaactcacacttgacacattaacatctcttattcaagtttg 6554530  T
Q  151 agattctctgtttccgtaattacgtgacatagtcaaataa 190  Q
      | ||||||| ||| ||||||||||||||||||||||||    
T  6554529 caactctctgtgtccataattacgtgacatagtcaaataa 6554490  T

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

Target: chr4; HSP #2
Raw Score: 44; E-Value: 3e-16
Query Start/End: Original strand, 56 - 123
Target Start/End: Complemental strand, 39977281 - 39977214
Alignment:
Q  56 gtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaactcttatttga 123  Q
    ||||| |||||||||| |||||||||||||| ||||| ||| |||||||||||||||||| |||||||    
T  39977281 gtcatctcacttatatgttattcaacatctactattccatcaattgtagaactttaactcatatttga 39977214  T

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

Target: chr4; HSP #3
Raw Score: 39; E-Value: 0.0000000000003
Query Start/End: Original strand, 29 - 134
Target Start/End: Original strand, 42727146 - 42727251
Alignment:
Q  29 ccaaaaaatttaggcacacgtttatgagtcatttcacttatatcttattcaacatcta-ttattcaatccattgtagaactttaactcttatttgacaaa 127  Q
    |||||||||||||||||| | ||| | ||||| |||| ||||| |||||||| ||||| | |||| ||| |||||||||||||||||| ||||||||| |    
T  42727146 ccaaaaaatttaggcacatgcttacgggtcatctcacatatatgttattcaatatctactcattc-atctattgtagaactttaactcatatttgacaca 42727244  T
Q  128 ataacat 134  Q
     ||||||    
T  42727245 ttaacat 42727251  T

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

Target: chr4; HSP #4
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 56 - 125
Target Start/End: Complemental strand, 284362 - 284293
Alignment:
Q  56 gtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaactcttatttgaca 125  Q
    ||||| |||| ||||| ||| |||||||||| ||||| ||| |||||||||||||||||| |||||||||    
T  284362 gtcatctcacatatatgttactcaacatctactattccatcaattgtagaactttaactcatatttgaca 284293  T

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

Target: chr4; HSP #5
Raw Score: 32; E-Value: 0.000000004
Query Start/End: Original strand, 67 - 197
Target Start/End: Complemental strand, 13233145 - 13233018
Alignment:
Q  67 tatatcttattcaacatctattattcaatccattgtagaactttaactcttatttgacaaaataacatatcttcctcaagtataagattctctgtttccg 166  Q
    ||||| ||||||||||| || ||||| ||| |||||||||||||||||| || |||||| |  ||||| |  ||| ||||| |  || ||||||| ||||    
T  13233145 tatatgttattcaacatatactattccatcaattgtagaactttaactcatacttgacata--aacatct-atccccaagtgtgcgactctctgtgtccg 13233049  T
Q  167 taattacgtgacatagtcaaataaagtcaaa 197  Q
    ||||||  | |||||||||||||| ||||||    
T  13233048 taattatatcacatagtcaaataaggtcaaa 13233018  T

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

Target: chr4; HSP #6
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 51 - 120
Target Start/End: Original strand, 24180971 - 24181040
Alignment:
Q  51 tatgagtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaactcttatt 120  Q
    ||||||| ||||||||||||| ||||||| |||||| | ||| ||| |||||| || |||||||| ||||    
T  24180971 tatgagttatttcacttatatgttattcatcatctactcttccatctattgtaaaattttaactcatatt 24181040  T

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Target: scaffold0021 (Bit Score: 42; Significance: 0.000000000000005; HSPs: 1)
Name: scaffold0021
Description:

Target: scaffold0021; HSP #1
Raw Score: 42; E-Value: 0.000000000000005
Query Start/End: Original strand, 37 - 114
Target Start/End: Original strand, 126828 - 126905
Alignment:
Q  37 tttaggcacacgtttatgagtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaact 114  Q
    |||||||||| || ||||| |||| ||||||||| ||||||||||||||| | | | |||||||||||||||||||||    
T  126828 tttaggcacatgtatatgactcatctcacttataacttattcaacatctactttaccatccattgtagaactttaact 126905  T

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

Target: chr1 (Bit Score: 42; Significance: 0.000000000000005; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 42; E-Value: 0.000000000000005
Query Start/End: Original strand, 51 - 196
Target Start/End: Original strand, 43385112 - 43385257
Alignment:
Q  51 tatgagtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaactcttatttgacaaaataacatatcttcctcaagtata 150  Q
    |||||||||| |||| ||||| |||||||||||||| ||||| ||| ||| |||||||||||||| || |||||| | |||||| | | || | ||| |     
T  43385112 tatgagtcatctcacatatatgttattcaacatctactattccatcaattctagaactttaactcatacttgacatattaacatctatcccccgagtgtg 43385211  T
Q  151 agattctctgtttccgtaattacgtgacatagtcaaataaagtcaa 196  Q
     |  ||||| | ||||||||||  |||||||||||||||| |||||    
T  43385212 cggctctctatgtccgtaattatatgacatagtcaaataaggtcaa 43385257  T

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

Target: chr1; HSP #2
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 62 - 112
Target Start/End: Original strand, 7844621 - 7844671
Alignment:
Q  62 tcacttatatcttattcaacatctattattcaatccattgtagaactttaa 112  Q
    |||||||||| || ||||||||||||||||  ||||| |||||||||||||    
T  7844621 tcacttatatgttgttcaacatctattattgcatccaatgtagaactttaa 7844671  T

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

Target: scaffold0114 (Bit Score: 36; Significance: 0.00000000002; HSPs: 1)
Name: scaffold0114
Description:

Target: scaffold0114; HSP #1
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 51 - 190
Target Start/End: Complemental strand, 37128 - 36989
Alignment:
Q  51 tatgagtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaactcttatttgacaaaataacatatcttcctcaagtata 150  Q
    ||||| |||| |||||||||| |||||||| ||||| | ||| ||||| | ||||| ||||||||  | |||||| | |||||| ||||  |||||| |     
T  37128 tatgaatcatctcacttatatgttattcaaaatctactcttctatccactatagaattttaactcacacttgacacattaacatctcttattcaagtttg 37029  T
Q  151 agattctctgtttccgtaattacgtgacatagtcaaataa 190  Q
      | ||||||| ||| |||||||||||| |||||||||||    
T  37028 caactctctgtgtccataattacgtgacgtagtcaaataa 36989  T

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

Target: chr2 (Bit Score: 35; Significance: 0.00000000007; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 35; E-Value: 0.00000000007
Query Start/End: Original strand, 56 - 190
Target Start/End: Original strand, 31965844 - 31965978
Alignment:
Q  56 gtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaactcttatttgacaaaataacatatcttcctcaagtataagatt 155  Q
    ||||| |||||||||| |||||||| ||||| | ||| ||| | | ||||| |||||||| || |||||| | |||| | ||||  |||||| |   | |    
T  31965844 gtcatctcacttatatgttattcaaaatctactcttctatctactatagaattttaactcatacttgacacattaacttctcttattcaagtttgcaact 31965943  T
Q  156 ctctgtttccgtaattacgtgacatagtcaaataa 190  Q
    |||||| ||| ||||||||||||||||||||||||    
T  31965944 ctctgtgtccataattacgtgacatagtcaaataa 31965978  T

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

Target: chr2; HSP #2
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 67 - 198
Target Start/End: Original strand, 5787220 - 5787351
Alignment:
Q  67 tatatcttattcaacatctattattcaatccattgtagaactttaactcttatttgacaaaataacatatcttcctc-aagtataagattctctgtttcc 165  Q
    ||||| |||||||||||||| ||||| ||| ||||||| |||||||||| ||  ||||| | ||||||||  ||||| |||| |  || | | ||| |||    
T  5787220 tatatgttattcaacatctactattccatcaattgtagtactttaactcatacatgacatattaacatat-atcctcaaagtgtgtgactttatgtgtcc 5787318  T
Q  166 gtaattacgtgacatagtcaaataaagtcaaac 198  Q
    |||||||  |||||||||||||||| |||||||    
T  5787319 gtaattatatgacatagtcaaataaggtcaaac 5787351  T

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

Target: chr2; HSP #3
Raw Score: 30; E-Value: 0.00000007
Query Start/End: Original strand, 51 - 112
Target Start/End: Original strand, 34425583 - 34425644
Alignment:
Q  51 tatgagtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaa 112  Q
    ||||||| || |||||||||| || ||||||||||||||||  ||||| ||| |||||||||    
T  34425583 tatgagttatatcacttatatgttgttcaacatctattattgcatccaatgtggaactttaa 34425644  T

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

Target: scaffold0159 (Bit Score: 33; Significance: 0.000000001; HSPs: 1)
Name: scaffold0159
Description:

Target: scaffold0159; HSP #1
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 67 - 198
Target Start/End: Original strand, 31593 - 31724
Alignment:
Q  67 tatatcttattcaacatctattattcaatccattgtagaactttaactcttatttgacaaaataacatatcttcctc-aagtataagattctctgtttcc 165  Q
    ||||| |||||||||||||| ||||| ||| ||||||| |||||||||| ||  ||||| | ||||||||  ||||| |||| |  || | | ||| |||    
T  31593 tatatgttattcaacatctactattccatcaattgtagtactttaactcatacatgacatattaacatat-atcctcaaagtgtgtgactttatgtgtcc 31691  T
Q  166 gtaattacgtgacatagtcaaataaagtcaaac 198  Q
    |||||||  |||||||||||||||| |||||||    
T  31692 gtaattatatgacatagtcaaataaggtcaaac 31724  T

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

Target: chr6 (Bit Score: 33; Significance: 0.000000001; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 36 - 112
Target Start/End: Original strand, 26594995 - 26595071
Alignment:
Q  36 atttaggcacacgtttatgagtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaa 112  Q
    ||||||||| | || ||||| |||| ||| ||||||||||||||||||||| ||    |||||||||||||||||||    
T  26594995 atttaggcatatgtatatgactcatctcagttatatcttattcaacatctactacaatatccattgtagaactttaa 26595071  T

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Target: scaffold0380 (Bit Score: 32; Significance: 0.000000004; HSPs: 1)
Name: scaffold0380
Description:

Target: scaffold0380; HSP #1
Raw Score: 32; E-Value: 0.000000004
Query Start/End: Original strand, 30 - 125
Target Start/End: Complemental strand, 16911 - 16816
Alignment:
Q  30 caaaaaatttaggcacacgtttatgagtcatttcacttatatcttattcaacatctattattcaatccattgtagaactttaactcttatttgaca 125  Q
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T  16911 caaaatatttaggcacatatatatgggtcatctcacatatatgttattaaacatatatcattctatcaattgtagaactttaaatcatatctgaca 16816  T

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