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: NF17140_low_9 (Length: 380)

Name: NF17140_low_9
Description: NF17140
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF17140_low_9
NF17140_low_9
[»] chr3 (17 HSPs)
chr3 (1-361)||(2441088-2441448)
chr3 (118-223)||(988652-988757)
chr3 (121-228)||(996806-996913)
chr3 (121-228)||(1013196-1013303)
chr3 (138-259)||(37758440-37758561)
chr3 (158-217)||(1891797-1891856)
chr3 (121-210)||(2679149-2679238)
chr3 (121-210)||(2687056-2687145)
chr3 (120-217)||(2697457-2697554)
chr3 (120-229)||(13478852-13478961)
chr3 (148-228)||(2651150-2651230)
chr3 (172-235)||(2458617-2458680)
chr3 (165-231)||(803979-804045)
chr3 (135-261)||(13525782-13525908)
chr3 (95-227)||(1003726-1003858)
chr3 (95-227)||(1021723-1021855)
chr3 (165-229)||(3745201-3745265)
[»] chr4 (2 HSPs)
chr4 (120-228)||(22672849-22672957)
chr4 (119-232)||(20020499-20020612)
[»] chr5 (4 HSPs)
chr5 (118-227)||(1428462-1428571)
chr5 (123-175)||(20305160-20305212)
chr5 (123-175)||(20309564-20309616)
chr5 (123-175)||(20292300-20292352)
[»] chr1 (2 HSPs)
chr1 (172-259)||(51382209-51382296)
chr1 (164-258)||(23896906-23897000)
[»] chr6 (1 HSPs)
chr6 (121-238)||(24418152-24418269)


Alignment Details
Target: chr3 (Bit Score: 341; Significance: 0; HSPs: 17)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 341; E-Value: 0
Query Start/End: Original strand, 1 - 361
Target Start/End: Complemental strand, 2441448 - 2441088
Alignment:
Q  1 gagaatactcatactctgtgatgttggtggttaagttgttgagaacgggcccgagtgggtaagacttgagaacgtacagataggggaacccagtgtagct 100  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  2441448 gagaatactcatactctgtgatgttggtggttaagttgttgagaacgggcccgagtgggtaagacttgagaacgtacagataggggaacccagtgtagct 2441349  T
Q  101 tacgcagtgaagatagcgtgtggttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagc 200  Q
    ||||||||||||  ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  2441348 tacgcagtgaaggcagcgtgtggttgacaagctgaggtgcttcttggcgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagc 2441249  T
Q  201 tgaaggaggagcttcacaggtagcctacacaggatctctgccaccaaatcaaacggaagcgtaggaagtggcgggtcgtaaagtgaatggccagaagagc 300  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||    
T  2441248 tgaaggaggagcttcacaggtagcctacacaggatctctgccaccaaatcaaacggaagcgtaggaagtggcgggtcataaagtgaatggccagaagagc 2441149  T
Q  301 ttaaggtagggaggacacacaagagctgcttgttaatggcagtcaattccaccatcataat 361  Q
    |||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||    
T  2441148 ttaaggtagggaggacacacaagaactgcttgttaatggcagtcaattccaccatcataat 2441088  T

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

Target: chr3; HSP #2
Raw Score: 62; E-Value: 1e-26
Query Start/End: Original strand, 118 - 223
Target Start/End: Complemental strand, 988757 - 988652
Alignment:
Q  118 gtgtggttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcac 217  Q
    |||||||||||| ||| |||||||| || | ||||||| |||| | ||||||||||||||||||||||||  |||||||||| |||||||||||||||||    
T  988757 gtgtggttgacaggctaaggtgcttttttgcgaatttgggatcagagattaaagaattccatgacttgcaagagcatcggagttgaaggaggagcttcac 988658  T
Q  218 aggtag 223  Q
    ||||||    
T  988657 aggtag 988652  T

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Target: chr3; HSP #3
Raw Score: 44; E-Value: 6e-16
Query Start/End: Original strand, 121 - 228
Target Start/End: Complemental strand, 996913 - 996806
Alignment:
Q  121 tggttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcacagg 220  Q
    ||||||||| ||| ||||||||||| |  |||||| |||  | ||||| |||| |||| |||||||||  |||||||||||| |||||||||||||| ||    
T  996913 tggttgacatgctaaggtgcttcttagcaaatttgggattagagattagagaactccaggacttgcaggcgcatcggagctggaggaggagcttcacggg 996814  T
Q  221 tagcctac 228  Q
    ||||||||    
T  996813 tagcctac 996806  T

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

Target: chr3; HSP #4
Raw Score: 44; E-Value: 6e-16
Query Start/End: Original strand, 121 - 228
Target Start/End: Complemental strand, 1013303 - 1013196
Alignment:
Q  121 tggttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcacagg 220  Q
    ||||||||| ||| ||||||||||| |  |||||| |||  | ||||| |||| |||| |||||||||  |||||||||||| |||||||||||||| ||    
T  1013303 tggttgacatgctaaggtgcttcttagcaaatttgggattagagattagagaactccaggacttgcaggcgcatcggagctggaggaggagcttcacggg 1013204  T
Q  221 tagcctac 228  Q
    ||||||||    
T  1013203 tagcctac 1013196  T

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

Target: chr3; HSP #5
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 138 - 259
Target Start/End: Original strand, 37758440 - 37758561
Alignment:
Q  138 tgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcacaggtagcctacacaggatct 237  Q
    |||||||| | ||||||| ||||   ||||||||||||| | |||||||||| ||||||||| || | ||| | ||| ||||| |||||||| || || |    
T  37758440 tgcttcttagcgaatttgggatccaagattaaagaattcaaggacttgcagaggcatcggagttgtaagagtaacttgacaggaagcctacatagaattt 37758539  T
Q  238 ctgccaccaaatcaaacggaag 259  Q
    ||||||||||||| || |||||    
T  37758540 ctgccaccaaatcgaaaggaag 37758561  T

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Target: chr3; HSP #6
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 158 - 217
Target Start/End: Original strand, 1891797 - 1891856
Alignment:
Q  158 atcggtgattaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcac 217  Q
    ||||| ||||| ||||||||||||||||||||   ||||||| |||||||||||||||||    
T  1891797 atcggagattagagaattccatgacttgcagacagatcggagttgaaggaggagcttcac 1891856  T

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Target: chr3; HSP #7
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 121 - 210
Target Start/End: Original strand, 2679149 - 2679238
Alignment:
Q  121 tggttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagctgaaggagga 210  Q
    ||||||||| ||| ||||||||||| |  |||||  |||||| ||| | ||| ||||||||||||||||  |||||||| ||||||||||    
T  2679149 tggttgacacgctaaggtgcttcttagcaaattttggatcggagatcagagatttccatgacttgcagacacatcggagttgaaggagga 2679238  T

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

Target: chr3; HSP #8
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 121 - 210
Target Start/End: Original strand, 2687056 - 2687145
Alignment:
Q  121 tggttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagctgaaggagga 210  Q
    |||||||||| || ||||||||||| |  |||||  |||||| ||| | ||| ||||||||||||||||  |||||||| ||||||||||    
T  2687056 tggttgacaatctaaggtgcttcttagcaaattttggatcggagatcagagatttccatgacttgcagacacatcggagttgaaggagga 2687145  T

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Target: chr3; HSP #9
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 120 - 217
Target Start/End: Original strand, 2697457 - 2697554
Alignment:
Q  120 gtggttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcac 217  Q
    |||||||||| ||| |||||||||||||| ||  ||  ||| ||||||| ||||||||||||||| |||| |||||| || || ||||| | ||||||    
T  2697457 gtggttgacatgctaaggtgcttcttggtaaaactggtatcagtgattagagaattccatgacttacagacgcatcgaagttgtaggagtaacttcac 2697554  T

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Target: chr3; HSP #10
Raw Score: 34; E-Value: 0.0000000005
Query Start/End: Original strand, 120 - 229
Target Start/End: Complemental strand, 13478961 - 13478852
Alignment:
Q  120 gtggttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcacag 219  Q
    |||||||||| ||  || ||||| ||||  |||||| |||| ||||| |||||||||||  |||| | ||  ||||| || ||||||||||||||||| |    
T  13478961 gtggttgacatgcgaagatgcttgttggcaaatttgcgatcagtgataaaagaattccacaacttactgacacatcgaagttgaaggaggagcttcacgg 13478862  T
Q  220 gtagcctaca 229  Q
    ||||||||||    
T  13478861 gtagcctaca 13478852  T

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Target: chr3; HSP #11
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 148 - 228
Target Start/End: Original strand, 2651150 - 2651230
Alignment:
Q  148 tgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcacaggtagcctac 228  Q
    ||||||||||||||| ||| | ||||||||||| ||||||||  ||||| || |||| ||||||||| || |||| |||||    
T  2651150 tgaatttgtgatcggagataagagaattccatggcttgcagacacatcgaagttgaaagaggagctttaccggtaacctac 2651230  T

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

Target: chr3; HSP #12
Raw Score: 32; E-Value: 0.000000008
Query Start/End: Original strand, 172 - 235
Target Start/End: Complemental strand, 2458680 - 2458617
Alignment:
Q  172 aattccatgacttgcagaagcatcggagctgaaggaggagcttcacaggtagcctacacaggat 235  Q
    ||||||| |||||||| ||||| || || ||||||||||||||||| |||||||| | ||||||    
T  2458680 aattccacgacttgcataagcaacgaagttgaaggaggagcttcactggtagcctgcccaggat 2458617  T

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Target: chr3; HSP #13
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 165 - 231
Target Start/End: Original strand, 803979 - 804045
Alignment:
Q  165 attaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcacaggtagcctacaca 231  Q
    |||| |||||||||||||||||| | ||||||||| ||||| | || ||||||||||| || |||||    
T  803979 attagagaattccatgacttgcaaacgcatcggagttgaagtaagaacttcacaggtaaccaacaca 804045  T

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Target: chr3; HSP #14
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 135 - 261
Target Start/End: Complemental strand, 13525908 - 13525782
Alignment:
Q  135 aggtgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcacaggtagcctacacagga 234  Q
    ||||||||||||| ||||||| |||| | ||| || || ||||| || ||||| | ||||||||  || | |||    |||||||| |||||||| || |    
T  13525908 aggtgcttcttggcgaatttgggatcagagatcaatgatttccaggatttgcatacgcatcggaattgcaagagtgatttcacaggaagcctacaaagaa 13525809  T
Q  235 tctctgccaccaaatcaaacggaagcg 261  Q
    |||||| |||||||||||| |||||||    
T  13525808 tctctggcaccaaatcaaagggaagcg 13525782  T

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Target: chr3; HSP #15
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 95 - 227
Target Start/End: Complemental strand, 1003858 - 1003726
Alignment:
Q  95 gtagcttacgcagtgaagatagcgtgtggttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcat 194  Q
    ||||||||| ||||||||   | |||||||||| |  || |||||||||||    ||||||  || || ||||| | ||||||||||||||||   ||||    
T  1003858 gtagcttacacagtgaagggtgtgtgtggttgaaagactaaggtgcttcttatgaaatttggtattggagattagaaaattccatgacttgcaagcgcat 1003759  T
Q  195 cggagctgaaggaggagcttcacaggtagccta 227  Q
    || || ||||||||||||||||| |||| ||||    
T  1003758 cgaagttgaaggaggagcttcactggtaaccta 1003726  T

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

Target: chr3; HSP #16
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 95 - 227
Target Start/End: Complemental strand, 1021855 - 1021723
Alignment:
Q  95 gtagcttacgcagtgaagatagcgtgtggttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcat 194  Q
    ||||||||| ||||||||   | |||||||||| |  || |||||||||||    ||||||  || || ||||| | ||||||||||||||||   ||||    
T  1021855 gtagcttacacagtgaagggtgtgtgtggttgaaagactaaggtgcttcttatgaaatttggtattggagattagaaaattccatgacttgcaagcgcat 1021756  T
Q  195 cggagctgaaggaggagcttcacaggtagccta 227  Q
    || || ||||||||||||||||| |||| ||||    
T  1021755 cgaagttgaaggaggagcttcactggtaaccta 1021723  T

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

Target: chr3; HSP #17
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 165 - 229
Target Start/End: Complemental strand, 3745265 - 3745201
Alignment:
Q  165 attaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcacaggtagcctaca 229  Q
    |||| |||||||||||||||||| |  |||||||  ||||||| || |||||| |||||||||||    
T  3745265 attagagaattccatgacttgcaaacacatcggaattgaaggatgaacttcaccggtagcctaca 3745201  T

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

Target: chr4 (Bit Score: 57; Significance: 1e-23; HSPs: 2)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 57; E-Value: 1e-23
Query Start/End: Original strand, 120 - 228
Target Start/End: Original strand, 22672849 - 22672957
Alignment:
Q  120 gtggttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcacag 219  Q
    |||||||||| ||| ||||||||||| | ||||||| |||| | ||||| |||||||||||||||||||  |||| |||||||||||||||||||||| |    
T  22672849 gtggttgacaggctaaggtgcttcttagcgaatttgcgatcagagattagagaattccatgacttgcaggcgcattggagctgaaggaggagcttcaccg 22672948  T
Q  220 gtagcctac 228  Q
    ||| |||||    
T  22672949 gtaacctac 22672957  T

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Target: chr4; HSP #2
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 119 - 232
Target Start/End: Original strand, 20020499 - 20020612
Alignment:
Q  119 tgtggttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcaca 218  Q
    ||||||||||| ||  |||||||||||||  |||||  |||  | ||| | |||||||||||| || || |  ||||| || |||||||||||||||||     
T  20020499 tgtggttgacatgcgaaggtgcttcttggaaaatttaggatgagagatgagagaattccatgaattacatacacatcgaagttgaaggaggagcttcact 20020598  T
Q  219 ggtagcctacacag 232  Q
    |||| |||||||||    
T  20020599 ggtaacctacacag 20020612  T

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Target: chr5 (Bit Score: 54; Significance: 6e-22; HSPs: 4)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 54; E-Value: 6e-22
Query Start/End: Original strand, 118 - 227
Target Start/End: Original strand, 1428462 - 1428571
Alignment:
Q  118 gtgtggttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcac 217  Q
    |||||||||||| ||| || |||||||||| ||||||| |||| ||||||| |||||| |||| |||||| | ||||||||| ||||||||||| |||||    
T  1428462 gtgtggttgacatgctaagttgcttcttggcgaatttgagatcagtgattagagaattacatgccttgcaaaggcatcggagttgaaggaggagtttcac 1428561  T
Q  218 aggtagccta 227  Q
     |||||||||    
T  1428562 gggtagccta 1428571  T

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Target: chr5; HSP #2
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 123 - 175
Target Start/End: Complemental strand, 20305212 - 20305160
Alignment:
Q  123 gttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaatt 175  Q
    ||||||||||  ||||||||||||| ||||||| |||||||||||| ||||||    
T  20305212 gttgacaagcgaaggtgcttcttggcgaatttgggatcggtgattagagaatt 20305160  T

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Target: chr5; HSP #3
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 123 - 175
Target Start/End: Complemental strand, 20309616 - 20309564
Alignment:
Q  123 gttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaatt 175  Q
    ||||||||||  ||||||||||||| ||||||| |||||||||||| ||||||    
T  20309616 gttgacaagcgaaggtgcttcttggcgaatttgggatcggtgattagagaatt 20309564  T

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Target: chr5; HSP #4
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 123 - 175
Target Start/End: Complemental strand, 20292352 - 20292300
Alignment:
Q  123 gttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaatt 175  Q
    ||||||||||  ||||||||||||| ||||||| ||| |||||||| ||||||    
T  20292352 gttgacaagcgaaggtgcttcttggcgaatttgggattggtgattagagaatt 20292300  T

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Target: chr1 (Bit Score: 36; Significance: 0.00000000003; HSPs: 2)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 36; E-Value: 0.00000000003
Query Start/End: Original strand, 172 - 259
Target Start/End: Original strand, 51382209 - 51382296
Alignment:
Q  172 aattccatgacttgcagaagcatcggagctgaaggaggagcttcacaggtagcctacacaggatctctgccaccaaatcaaacggaag 259  Q
    |||||||||||||||||| ||| ||||| ||||||||| | ||||| || |||   |||||||| |||||||||| ||| ||||||||    
T  51382209 aattccatgacttgcagacgcaacggagttgaaggaggtgtttcacggggagcaggcacaggatttctgccaccagatcgaacggaag 51382296  T

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Target: chr1; HSP #2
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 164 - 258
Target Start/End: Original strand, 23896906 - 23897000
Alignment:
Q  164 gattaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcacaggtagcctacacaggatctctgccaccaaatcaaacggaa 258  Q
    ||||| |||||||||||||||||||| ||| ||||  || ||||||| ||| ||||| || || |||||||| ||  |||| | |||||||||||    
T  23896906 gattagagaattccatgacttgcagacgcagcggaattgtaggaggaacttgacagggagtctgcacaggatttcaaccacgagatcaaacggaa 23897000  T

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

Target: chr6 (Bit Score: 30; Significance: 0.0000001; HSPs: 1)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 30; E-Value: 0.0000001
Query Start/End: Original strand, 121 - 238
Target Start/End: Original strand, 24418152 - 24418269
Alignment:
Q  121 tggttgacaagctgaggtgcttcttggtgaatttgtgatcggtgattaaagaattccatgacttgcagaagcatcggagctgaaggaggagcttcacagg 220  Q
    ||||||||||||  |||||||| || | ||||||| |||| | |||||| |||||  | ||||||||||  || || || |||||||| | |||||| ||    
T  24418152 tggttgacaagcgaaggtgcttgtttgcgaatttgggatcagagattaatgaattgaaggacttgcagagacagcgaagttgaaggagtaacttcacggg 24418251  T
Q  221 tagcctacacaggatctc 238  Q
     ||||||||||| |||||    
T  24418252 aagcctacacagaatctc 24418269  T

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