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: NF8549_low_3 (Length: 541)

Name: NF8549_low_3
Description: NF8549
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF8549_low_3
NF8549_low_3
[»] chr3 (10 HSPs)
chr3 (11-517)||(51942007-51942499)
chr3 (63-395)||(5155224-5155554)
chr3 (41-222)||(4582497-4582678)
chr3 (69-394)||(46478252-46478575)
chr3 (286-395)||(46550107-46550216)
chr3 (318-394)||(46469899-46469975)
chr3 (277-351)||(47398186-47398260)
chr3 (314-351)||(46490237-46490274)
chr3 (321-395)||(47414786-47414860)
chr3 (50-103)||(4614280-4614333)
[»] chr8 (2 HSPs)
chr8 (50-396)||(9677463-9677807)
chr8 (52-394)||(9693206-9693546)
[»] chr4 (4 HSPs)
chr4 (68-379)||(35160480-35160789)
chr4 (317-394)||(35154336-35154413)
chr4 (50-222)||(35154071-35154243)
chr4 (135-193)||(15555098-15555156)
[»] chr2 (3 HSPs)
chr2 (298-351)||(20143699-20143752)
chr2 (298-351)||(20169758-20169811)
chr2 (63-171)||(20154380-20154488)


Alignment Details
Target: chr3 (Bit Score: 411; Significance: 0; HSPs: 10)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 411; E-Value: 0
Query Start/End: Original strand, 11 - 517
Target Start/End: Original strand, 51942007 - 51942499
Alignment:
Q  11 tcgtaagaacaatgtctcttcatgatcaacccaaacacgagtttccctcagaatcgccaaacatttgttctcaaaacaatcagaaaacaacatcgtcttt 110  Q
    ||||||||||||||||||| ||||| ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  51942007 tcgtaagaacaatgtctctccatgaccaacc-aaacacgagtttccctcagaatcgccaaacatttgttctcaaaacaatcagaaaacaacatcgtcttt 51942105  T
Q  111 tcgctattgtccctgcaagatgtgctcagcatgatcgctgctggctcttatggtcccacacggcagcaacttctagacttcctacgatccaaatcaactg 210  Q
    |||| |||||| ||||||| ||||||||||||             ||| || ||||||||| |||||||||||| |||||||||||||||||||||||||    
T  51942106 tcgccattgtctctgcaagttgtgctcagcat-------------tctgattgtcccacaccgcagcaacttctcgacttcctacgatccaaatcaactg 51942192  T
Q  211 atcatctcaactacctcgactcacagcttgtttctctattgtgctctccgacgctgcttctgccggtggacctcacctctccttcgccgatggtgtatgg 310  Q
    |||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||    
T  51942193 atcatctcaactacctcgcctcacagcttgtttctctattgtgctctccgacgctgcttctgccggtggacctcacctctccttcgtcgatggtgtatgg 51942292  T
Q  311 atagaaaaaaccctttctcttcaaccttccttcaaacaaatcatgtcgtctgactataaggccactttggcttccgttgatttcatgttcaaggtatata 410  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  51942293 atagaaaaaaccctttctcttcaaccttccttcaaacaaatcatgtcgtctgactataaggccactttggcttccgttgatttcatgttcaaggtatata 51942392  T
Q  411 tattgtatatcttattcttttccctacaatctatgcactgcttttatttcatgttaattaactaaaagatataccatcataaacaattagtttttatttc 510  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  51942393 tattgtatatcttattcttttccctacaatctatgcactgcttttatttcatgttaattaactaaaagatataccatcataaacaattagtttttatttc 51942492  T

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

Target: chr3; HSP #2
Raw Score: 94; E-Value: 1e-45
Query Start/End: Original strand, 63 - 395
Target Start/End: Original strand, 5155224 - 5155554
Alignment:
Q  63 atcgccaaacatttgttctcaaaacaatcagaaaacaacatcgtcttttcgctattgtccctgcaagatgtgctcagcatgatcgctgctggctcttatg 162  Q
    |||||||||||| ||||||  ||| ||| ||| || ||||| || ||||||| | |||| || |||| ||| || ||||| ||||||||||||||| | |    
T  5155224 atcgccaaacatctgttcttgaaagaattagacaagaacattgtgttttcgccactgtctcttcaagttgtactaagcatcatcgctgctggctctgagg 5155323  T
Q  163 gtcccacacggcagcaacttctagacttcctacgatccaaatcaactgatcatctcaactacctcgactcacagcttgtttctctattgtgctctccgac 262  Q
    |||||||||  || || ||||| |||||||| |  |||||||| ||||| ||||||||| | || | ||| || ||||||||| |   ||||||| ||||    
T  5155324 gtcccacacaacaacagcttctcgacttcctcctgtccaaatccactgaccatctcaacgatcttgcctctcaacttgtttctgtc--gtgctcttcgac 5155421  T
Q  263 gctgcttctgccggtggacctcacctctccttcgccgatggtgtatggatagaaaaaaccctttctcttcaaccttccttcaaacaaatcatgtcgtctg 362  Q
    |||||| |  | ||||||||||   ||||||||| | ||||||||||| | ||| ||||||||||||||||||||||||||||| ||||| |||| ||||    
T  5155422 gctgctcccacaggtggacctcgattctccttcgtcaatggtgtatgggttgaacaaaccctttctcttcaaccttccttcaaagaaatcgtgtcctctg 5155521  T
Q  363 actataaggccactttggcttccgttgatttca 395  Q
    | |||||||||||||||  ||| ||||||||||    
T  5155522 attataaggccactttgctttctgttgatttca 5155554  T

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

Target: chr3; HSP #3
Raw Score: 62; E-Value: 2e-26
Query Start/End: Original strand, 41 - 222
Target Start/End: Complemental strand, 4582678 - 4582497
Alignment:
Q  41 ccaaacacgagtttccctcagaatcgccaaacatttgttctcaaaacaatcagaaaacaacatcgtcttttcgctattgtccctgcaagatgtgctcagc 140  Q
    |||||||  |||||||||||||||||||||| || | ||||||||| ||||||| || ||||| || ||||| | | | || || |||| || |||||||    
T  4582678 ccaaacaaaagtttccctcagaatcgccaaatatctcttctcaaaagaatcagagaagaacattgtgttttccccactttcgctccaagttgcgctcagc 4582579  T
Q  141 atgatcgctgctggctcttatggtcccacacggcagcaacttctagacttcctacgatccaaatcaactgatcatctcaact 222  Q
    |||||||||||||||||| | || |||||| |  | || ||||| |||||||| |  |||||||||||||||||||||||||    
T  4582578 atgatcgctgctggctctgacggacccacaagagaacagcttctcgacttccttctctccaaatcaactgatcatctcaact 4582497  T

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

Target: chr3; HSP #4
Raw Score: 59; E-Value: 9e-25
Query Start/End: Original strand, 69 - 394
Target Start/End: Original strand, 46478252 - 46478575
Alignment:
Q  69 aaacatttgttctcaaaacaatcagaaaacaacatcgtcttttcgctattgtccctgcaagatgtgctcagcatgatcgctgctggctcttatggtccca 168  Q
    |||||| | ||||| ||| ||||||| ||||||||||| ||||| | | | || || |||| |||||| || || |||||| |||| ||| | |||||||    
T  46478252 aaacatctcttctccaaagaatcagacaacaacatcgtgttttctccactttcactccaagttgtgctaagtataatcgcttctggttctgagggtccca 46478351  T
Q  169 cacggcagcaacttctagacttcctacgatccaaatcaactgatcatctcaactacctcgactcacagcttgtttctctattgtgctctccgacgctgct 268  Q
    | |  || |||||| |  ||||||| | ||||||||| || ||||||||||||||| |||  |||||||| |||||  |  |   |||||||||||| ||    
T  46478352 ctcaacaacaacttttcaacttccttcaatccaaatccaccgatcatctcaactacttcgcttcacagctcgtttccgtcatc--ctctccgacgcttct 46478449  T
Q  269 tctgccggtggacctcacctctccttcgccgatggtgtatggatagaaaaaaccctttctcttcaaccttccttcaaacaaatcatgtcgtctgactata 368  Q
     | |||||||| |||| |||||| |||| ||| ||||| ||| | ||  |||||||||||||||||||||||||| |||||||| ||||  || | | ||    
T  46478450 cccgccggtggtcctctcctctctttcgtcgacggtgtttgggttgatcaaaccctttctcttcaaccttccttccaacaaatcgtgtccactcatttta 46478549  T
Q  369 aggccactttggcttccgttgatttc 394  Q
    | ||  ||||| ||||||||||||||    
T  46478550 aagcagctttgtcttccgttgatttc 46478575  T

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

Target: chr3; HSP #5
Raw Score: 42; E-Value: 0.00000000000001
Query Start/End: Original strand, 286 - 395
Target Start/End: Complemental strand, 46550216 - 46550107
Alignment:
Q  286 cctctccttcgccgatggtgtatggatagaaaaaaccctttctcttcaaccttccttcaaacaaatcatgtcgtctgactataaggccactttggcttcc 385  Q
    |||||| |||| | ||||||  ||||| ||| |||||||||||||||||||||||||  || |||  ||| |  |||| ||||||||||||||||||||     
T  46550216 cctctctttcgtcaatggtgcgtggattgaacaaaccctttctcttcaaccttcctttgaaaaaactatggctactgattataaggccactttggcttca 46550117  T
Q  386 gttgatttca 395  Q
    ||||||||||    
T  46550116 gttgatttca 46550107  T

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

Target: chr3; HSP #6
Raw Score: 41; E-Value: 0.00000000000005
Query Start/End: Original strand, 318 - 394
Target Start/End: Original strand, 46469899 - 46469975
Alignment:
Q  318 aaaccctttctcttcaaccttccttcaaacaaatcatgtcgtctgactataaggccactttggcttccgttgatttc 394  Q
    ||||||||||||||||||||||||||||| |||  |||    |||| ||||| ||||||||||||||||||||||||    
T  46469899 aaaccctttctcttcaaccttccttcaaagaaacaatggttactgattataaagccactttggcttccgttgatttc 46469975  T

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Target: chr3; HSP #7
Raw Score: 39; E-Value: 0.0000000000008
Query Start/End: Original strand, 277 - 351
Target Start/End: Complemental strand, 47398260 - 47398186
Alignment:
Q  277 tggacctcacctctccttcgccgatggtgtatggatagaaaaaaccctttctcttcaaccttccttcaaacaaat 351  Q
    |||||||| |||||| |||| | |||| || ||| | ||| ||||||||||||||||||||||||||||||||||    
T  47398260 tggacctcgcctctctttcgtcaatggcgtgtgggttgaacaaaccctttctcttcaaccttccttcaaacaaat 47398186  T

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

Target: chr3; HSP #8
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 314 - 351
Target Start/End: Original strand, 46490237 - 46490274
Alignment:
Q  314 gaaaaaaccctttctcttcaaccttccttcaaacaaat 351  Q
    ||||||||||||||||||||||||||||||||||||||    
T  46490237 gaaaaaaccctttctcttcaaccttccttcaaacaaat 46490274  T

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

Target: chr3; HSP #9
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 321 - 395
Target Start/End: Complemental strand, 47414860 - 47414786
Alignment:
Q  321 ccctttctcttcaaccttccttcaaacaaatcatgtcgtctgactataaggccactttggcttccgttgatttca 395  Q
    ||||||||||| |||||||||||||||||||| | |   |||| ||||||||| ||||| ||||||| |||||||    
T  47414860 ccctttctcttaaaccttccttcaaacaaatcgtctatcctgattataaggccgctttgtcttccgtagatttca 47414786  T

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

Target: chr3; HSP #10
Raw Score: 34; E-Value: 0.0000000008
Query Start/End: Original strand, 50 - 103
Target Start/End: Complemental strand, 4614333 - 4614280
Alignment:
Q  50 agtttccctcagaatcgccaaacatttgttctcaaaacaatcagaaaacaacat 103  Q
    ||||||||||||||||||||||||| | ||||||||| ||||||| || |||||    
T  4614333 agtttccctcagaatcgccaaacatcttttctcaaaagaatcagagaagaacat 4614280  T

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

Target: chr8 (Bit Score: 72; Significance: 2e-32; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 72; E-Value: 2e-32
Query Start/End: Original strand, 50 - 396
Target Start/End: Complemental strand, 9677807 - 9677463
Alignment:
Q  50 agtttccctcagaatcgccaaacatttgttctcaaaacaatcagaaaacaacatcgtcttttcgctattgtccctgcaagatgtgctcagcatgatcgct 149  Q
    |||||||||||   ||||||||||| | ||||||||| ||||||| |||||| |||||||||| | |||||| || |||| ||| ||||| || ||||||    
T  9677807 agtttccctcacggtcgccaaacatctcttctcaaaagaatcagacaacaacgtcgtcttttcaccattgtctctccaagttgttctcagtatcatcgct 9677708  T
Q  150 gctggctcttatggtcccacacggcagcaacttctagacttcctacgatccaaatcaactgatcatctcaactacctcgactcacagcttgtttctctat 249  Q
    ||||||||| | ||||| || |  || || ||||| |||||||| || | |||||| |  ||||||||||||| | ||| ||| || ||  ||||| |      
T  9677707 gctggctctgagggtcctactcaacaacagcttctcgacttcctccgtttcaaatccatcgatcatctcaactccttcgtctctcatctcctttctgtcc 9677608  T
Q  250 tgtgctctccgacgctgcttctgccggtggacctcacctctccttcgccgatggtgtatggatagaaaaaaccctttctcttcaaccttccttcaaacaa 349  Q
    |   |||   || || |||||| ||||||| |||| |||||| |||||| ||||||||||| | || |||| |||||||||||||||||||||| || ||    
T  9677607 tc--ctcaaagatgcagcttcttccggtggtcctcgcctctctttcgccaatggtgtatgggtggagaaaaacctttctcttcaaccttccttccaagaa 9677510  T
Q  350 atcatgtcgtctgactataaggccactttggcttccgttgatttcat 396  Q
    | ||||||  | || |||||||||||| | ||||| |||||||||||    
T  9677509 accatgtctaccgattataaggccactctcgcttctgttgatttcat 9677463  T

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

Target: chr8; HSP #2
Raw Score: 68; E-Value: 4e-30
Query Start/End: Original strand, 52 - 394
Target Start/End: Complemental strand, 9693546 - 9693206
Alignment:
Q  52 tttccctcagaatcgccaaacatttgttctcaaaacaatcagaaaacaacatcgtcttttcgctattgtccctgcaagatgtgctcagcatgatcgctgc 151  Q
    |||||||||  |||||||||||| | ||||||||| ||||||| || ||  |||||||||| | |||||| || |||| ||| |||||||| |||||||     
T  9693546 tttccctcaccatcgccaaacatctcttctcaaaagaatcagacaagaatgtcgtcttttcaccattgtctctccaagttgttctcagcatcatcgctgt 9693447  T
Q  152 tggctcttatggtcccacacggcagcaacttctagacttcctacgatccaaatcaactgatcatctcaactacctcgactcacagcttgtttctctattg 251  Q
    ||||||| | ||||| || |  || || ||||| |||||||| || | |||||| |  ||||||||||||| | | | ||| || ||  ||| | |  |     
T  9693446 tggctctgacggtcctactcaacaacagcttcttgacttcctccgtttcaaatccatcgatcatctcaacttctttgtctctcatctcctttatgtcctc 9693347  T
Q  252 tgctctccgacgctgcttctgccggtggacctcacctctccttcgccgatggtgtatggatagaaaaaaccctttctcttcaaccttccttcaaacaaat 351  Q
      |||   |||||  ||||| ||||||| ||||||||||| |||||| ||||||| ||| |||| |||||||||||||||||||||||||||||| |||     
T  9693346 --ctcaaagacgcaacttcttccggtggtcctcacctctctttcgccaatggtgtgtgggtagagaaaaccctttctcttcaaccttccttcaaagaaac 9693249  T
Q  352 catgtcgtctgactataaggccactttggcttccgttgatttc 394  Q
    ||||||  |||| ||||||||  ||||| |||| |||||||||    
T  9693248 catgtctactgattataaggctgctttgtcttctgttgatttc 9693206  T

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

Target: chr4 (Bit Score: 70; Significance: 3e-31; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 70; E-Value: 3e-31
Query Start/End: Original strand, 68 - 379
Target Start/End: Original strand, 35160480 - 35160789
Alignment:
Q  68 caaacatttgttctcaaaacaatcagaaaacaacatcgtcttttcgctattgtccctgcaagatgtgctcagcatgatcgctgctggctcttatggtccc 167  Q
    ||||||| | ||||| ||| |||||||||| |||||||| ||||||| |||||| || |||| |||||||||||| ||| ||||||||||| | ||| |     
T  35160480 caaacatctcttctccaaagaatcagaaaagaacatcgtgttttcgccattgtctctccaagttgtgctcagcataatcactgctggctctgagggttca 35160579  T
Q  168 acacggcagcaacttctagacttcctacgatccaaatcaactgatcatctcaactacctc-gactcacagcttgtttctctattgtgctctccgacgctg 266  Q
    ||||  || || ||||| |||||||| || | |||||| |||||||||||||||| |||| | ||| || |   ||||   ||  | |||   ||||||     
T  35160580 acacaacaacagcttcttgacttcctccgtttcaaatccactgatcatctcaact-cctcagtctctcatcaactttcc--atcatcctcaaagacgcta 35160676  T
Q  267 cttctgccggtggacctcacctctccttcgccgatggtgtatggatagaaaaaaccctttctcttcaaccttccttcaaacaaatcatgtcgtctgacta 366  Q
    ||||| ||||||| ||||||||||| |||| ||| ||||| ||| | ||||||||||||||||||||| ||||||||||||||||| ||||    || ||    
T  35160677 cttcttccggtggtcctcacctctctttcgtcgacggtgtttggctggaaaaaaccctttctcttcaatcttccttcaaacaaatcgtgtctgaagatta 35160776  T
Q  367 taaggccactttg 379  Q
    |||||||||||||    
T  35160777 taaggccactttg 35160789  T

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

Target: chr4; HSP #2
Raw Score: 34; E-Value: 0.0000000008
Query Start/End: Original strand, 317 - 394
Target Start/End: Original strand, 35154336 - 35154413
Alignment:
Q  317 aaaaccctttctcttcaaccttccttcaaacaaatcatgtcgtctgactataaggccactttggcttccgttgatttc 394  Q
    ||||||||||||| |||||||||||||||||| ||| || |  | || || |||||||||||| |||| |||||||||    
T  35154336 aaaaccctttctcctcaaccttccttcaaacatatcgtgactaccgattacaaggccactttgtcttctgttgatttc 35154413  T

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

Target: chr4; HSP #3
Raw Score: 33; E-Value: 0.000000003
Query Start/End: Original strand, 50 - 222
Target Start/End: Original strand, 35154071 - 35154243
Alignment:
Q  50 agtttccctcagaatcgccaaacatttgttctcaaaacaatcagaaaacaacatcgtcttttcgctattgtccctgcaagatgtgctcagcatgatcgct 149  Q
    |||||||||||  |||||||||||| | ||||||||  |||||||||| || ||||| |||||||  ||||| || ||||  |||||    || ||||||    
T  35154071 agtttccctcactatcgccaaacatcttttctcaaaggaatcagaaaagaatatcgtgttttcgcctttgtctctccaagtagtgcttgcaatcatcgct 35154170  T
Q  150 gctggctcttatggtcccacacggcagcaacttctagacttcctacgatccaaatcaactgatcatctcaact 222  Q
    ||||||||| | ||| ||||||| || || |||||  ||||||| | || ||||||  |  ||||||||||||    
T  35154171 gctggctctgacggttccacacgacaacagcttctcaacttcctccaattcaaatccgcctatcatctcaact 35154243  T

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

Target: chr4; HSP #4
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 135 - 193
Target Start/End: Original strand, 15555098 - 15555156
Alignment:
Q  135 ctcagcatgatcgctgctggctcttatggtcccacacggcagcaacttctagacttcct 193  Q
    |||||||| ||||||||||||||| | ||| |||||| ||| |||||||| ||||||||    
T  15555098 ctcagcatcatcgctgctggctctgagggttccacacagcaacaacttctcgacttcct 15555156  T

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

Target: chr2 (Bit Score: 42; Significance: 0.00000000000001; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 42; E-Value: 0.00000000000001
Query Start/End: Original strand, 298 - 351
Target Start/End: Original strand, 20143699 - 20143752
Alignment:
Q  298 cgatggtgtatggatagaaaaaaccctttctcttcaaccttccttcaaacaaat 351  Q
    ||||||||||||| | ||| ||||||||||||||||||||||||||||||||||    
T  20143699 cgatggtgtatgggttgaacaaaccctttctcttcaaccttccttcaaacaaat 20143752  T

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Target: chr2; HSP #2
Raw Score: 42; E-Value: 0.00000000000001
Query Start/End: Original strand, 298 - 351
Target Start/End: Complemental strand, 20169811 - 20169758
Alignment:
Q  298 cgatggtgtatggatagaaaaaaccctttctcttcaaccttccttcaaacaaat 351  Q
    ||||||||||||| | ||| ||||||||||||||||||||||||||||||||||    
T  20169811 cgatggtgtatgggttgaacaaaccctttctcttcaaccttccttcaaacaaat 20169758  T

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Target: chr2; HSP #3
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 63 - 171
Target Start/End: Original strand, 20154380 - 20154488
Alignment:
Q  63 atcgccaaacatttgttctcaaaacaatcagaaaacaacatcgtcttttcgctattgtccctgcaagatgtgctcagcatgatcgctgctggctcttatg 162  Q
    |||||||||||| ||||||  ||||||||||| || ||||| || ||||||| | |||| || |||| |||| ||||| | | ||||||||||||| | |    
T  20154380 atcgccaaacatctgttcttgaaacaatcagacaagaacattgtgttttcgccagtgtcactccaagttgtgttcagcctcaccgctgctggctctgaag 20154479  T
Q  163 gtcccacac 171  Q
    |||||||||    
T  20154480 gtcccacac 20154488  T

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