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: Solexa-NF5855-4 (Length: 216)

Name: Solexa-NF5855-4
Description: NF5855
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] Solexa-NF5855-4
Solexa-NF5855-4
[»] chr3 (5 HSPs)
chr3 (87-216)||(12008996-12009125)
chr3 (89-216)||(47669118-47669245)
chr3 (94-204)||(51985886-51985996)
chr3 (8-71)||(12008908-12008971)
chr3 (22-71)||(51985799-51985848)
[»] chr8 (2 HSPs)
chr8 (89-216)||(34053194-34053321)
chr8 (23-67)||(34053125-34053169)
[»] chr4 (9 HSPs)
chr4 (15-216)||(11882874-11883074)
chr4 (93-216)||(35347150-35347273)
chr4 (107-216)||(33018515-33018624)
chr4 (98-216)||(33432814-33432931)
chr4 (22-71)||(33018666-33018715)
chr4 (22-70)||(33432739-33432787)
chr4 (26-70)||(35347298-35347342)
chr4 (28-64)||(23668224-23668260)
chr4 (27-63)||(52106253-52106289)
[»] chr1 (4 HSPs)
chr1 (93-216)||(7298541-7298664)
chr1 (87-216)||(47124689-47124818)
chr1 (22-71)||(7298695-7298744)
chr1 (22-71)||(47124620-47124669)
[»] chr7 (1 HSPs)
chr7 (98-216)||(26761474-26761591)
[»] chr5 (2 HSPs)
chr5 (89-209)||(43070065-43070185)
chr5 (22-71)||(43070211-43070260)
[»] chr6 (2 HSPs)
chr6 (89-216)||(6535154-6535281)
chr6 (24-71)||(6535303-6535350)


Alignment Details
Target: chr3 (Bit Score: 126; Significance: 4e-65; HSPs: 5)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 126; E-Value: 4e-65
Query Start/End: Original strand, 87 - 216
Target Start/End: Original strand, 12008996 - 12009125
Alignment:
Q  87 atcttctgacatttcctaaccgttagattggttaaacacaccatagatcaaatacacttgattatattttcatttgtcttcttccctctcaactctcatg 186  Q
    |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  12008996 atcttctgacattttctaaccgttagattggttaaacacaccatagatcaaatacacttgattatattttcatttgtcttcttccctctcaactctcatg 12009095  T
Q  187 agctttcacctttctctaatatccctctct 216  Q
    ||||||||||||||||||||||||||||||    
T  12009096 agctttcacctttctctaatatccctctct 12009125  T

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

Target: chr3; HSP #2
Raw Score: 104; E-Value: 5e-52
Query Start/End: Original strand, 89 - 216
Target Start/End: Complemental strand, 47669245 - 47669118
Alignment:
Q  89 cttctgacatttcctaaccgttagattggttaaacacaccatagatcaaatacacttgattatattttcatttgtcttcttccctctcaactctcatgag 188  Q
    ||||| ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||    
T  47669245 cttctcacatttcctaaccgttagattggttaaacacaccagagatcaaatacacttgattatcttttcatttgtcttcttccctctcaactctcatgag 47669146  T
Q  189 ctttcacctttctctaatatccctctct 216  Q
    |||||| |||||||| |||| |||||||    
T  47669145 ctttcatctttctctcatattcctctct 47669118  T

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

Target: chr3; HSP #3
Raw Score: 99; E-Value: 5e-49
Query Start/End: Original strand, 94 - 204
Target Start/End: Original strand, 51985886 - 51985996
Alignment:
Q  94 gacatttcctaaccgttagattggttaaacacaccatagatcaaatacacttgattatattttcatttgtcttcttccctctcaactctcatgagctttc 193  Q
    ||||||||||||||||||||||||||||||| |||||||||||||||||||||||||| ||||||||||||||||| |||||||||||||||||||||||    
T  51985886 gacatttcctaaccgttagattggttaaacataccatagatcaaatacacttgattatcttttcatttgtcttctttcctctcaactctcatgagctttc 51985985  T
Q  194 acctttctcta 204  Q
    |||||||||||    
T  51985986 acctttctcta 51985996  T

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Target: chr3; HSP #4
Raw Score: 56; E-Value: 2e-23
Query Start/End: Original strand, 8 - 71
Target Start/End: Original strand, 12008908 - 12008971
Alignment:
Q  8 gctgcatgtttgatggcggcgtttagggtgggagccctttataggtctcctaccgtgcatgacc 71  Q
    |||||||||||||||| ||||||||||||||||| |||||||||||||||||||||||||||||    
T  12008908 gctgcatgtttgatggtggcgtttagggtgggagacctttataggtctcctaccgtgcatgacc 12008971  T

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Target: chr3; HSP #5
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 22 - 71
Target Start/End: Original strand, 51985799 - 51985848
Alignment:
Q  22 ggcggcgtttagggtgggagccctttataggtctcctaccgtgcatgacc 71  Q
    ||||| ||||||||||||||  |||||||||||||||||||| |||||||    
T  51985799 ggcggtgtttagggtgggagatctttataggtctcctaccgtacatgacc 51985848  T

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Target: chr8 (Bit Score: 116; Significance: 3e-59; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 116; E-Value: 3e-59
Query Start/End: Original strand, 89 - 216
Target Start/End: Original strand, 34053194 - 34053321
Alignment:
Q  89 cttctgacatttcctaaccgttagattggttaaacacaccatagatcaaatacacttgattatattttcatttgtcttcttccctctcaactctcatgag 188  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||    
T  34053194 cttctgacatttcctaaccgttagattggttaaacacaccatagatcaaatacacttgattatcttttcatttgtcttcttccctctcaactctcatgag 34053293  T
Q  189 ctttcacctttctctaatatccctctct 216  Q
    |||| |||||||||| ||||||||||||    
T  34053294 cttttacctttctctgatatccctctct 34053321  T

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Target: chr8; HSP #2
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 23 - 67
Target Start/End: Original strand, 34053125 - 34053169
Alignment:
Q  23 gcggcgtttagggtgggagccctttataggtctcctaccgtgcat 67  Q
    ||||||| ||||||||||  ||||||||||||||||||| |||||    
T  34053125 gcggcgtgtagggtgggaaacctttataggtctcctaccatgcat 34053169  T

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

Target: chr4 (Bit Score: 116; Significance: 3e-59; HSPs: 9)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 116; E-Value: 3e-59
Query Start/End: Original strand, 15 - 216
Target Start/End: Complemental strand, 11883074 - 11882874
Alignment:
Q  15 gtttgatggcggcgtttagggtgggagccctttataggtctcctaccgtgcatgaccnnnnnnnnnnnnnnnatcttctgacatttcctaaccgttagat 114  Q
    |||| |||||||||||||||||||||| |||||||||||||||||||||||||| ||               | |||| ||| |||||||||||||||||    
T  11883074 gttttatggcggcgtttagggtgggagacctttataggtctcctaccgtgcatggcctctttttttttttg-accttcggacttttcctaaccgttagat 11882976  T
Q  115 tggttaaacacaccatagatcaaatacacttgattatattttcatttgtcttcttccctctcaactctcatgagctttcacctttctctaatatccctct 214  Q
    ||||| ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||    
T  11882975 tggttgaacacaccatagatcaaatacacttgattatcttttcatttgtcttcttccctctcaactctcatgagctttcacctttctctgatatccctct 11882876  T
Q  215 ct 216  Q
    ||    
T  11882875 ct 11882874  T

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Target: chr4; HSP #2
Raw Score: 92; E-Value: 7e-45
Query Start/End: Original strand, 93 - 216
Target Start/End: Complemental strand, 35347273 - 35347150
Alignment:
Q  93 tgacatttcctaaccgttagattggttaaacacaccatagatcaaatacacttgattatattttcatttgtcttcttccctctcaactctcatgagcttt 192  Q
    |||| ||| |||||||||| ||| |||||||||| |||||||| ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||    
T  35347273 tgactttttctaaccgttaaattagttaaacacatcatagatcgaatacacttgattattttttcatttgtcttcttccctctcaactctcatgagcttt 35347174  T
Q  193 cacctttctctaatatccctctct 216  Q
    ||||||||||| ||||||||||||    
T  35347173 cacctttctctgatatccctctct 35347150  T

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Target: chr4; HSP #3
Raw Score: 90; E-Value: 1e-43
Query Start/End: Original strand, 107 - 216
Target Start/End: Complemental strand, 33018624 - 33018515
Alignment:
Q  107 cgttagattggttaaacacaccatagatcaaatacacttgattatattttcatttgtcttcttccctctcaactctcatgagctttcacctttctctaat 206  Q
    ||||||||||||| |||||| |||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||| | ||    
T  33018624 cgttagattggttgaacacatcatagatcaaatacacttgattatcttttcatttgtcttcttccctctcaactctcatgagctttcacctttctttgat 33018525  T
Q  207 atccctctct 216  Q
    ||||||||||    
T  33018524 atccctctct 33018515  T

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Target: chr4; HSP #4
Raw Score: 79; E-Value: 4e-37
Query Start/End: Original strand, 98 - 216
Target Start/End: Original strand, 33432814 - 33432931
Alignment:
Q  98 tttcctaaccgttagattggttaaacacaccatagatcaaatacacttgattatattttcatttgtcttcttccctctcaactctcatgagctttcacct 197  Q
    ||||||||  |||||||||||| |||||||||||||| |||||||||  ||||| ||||||||||||||||||||||||||||||||||||||||| |||    
T  33432814 tttcctaatagttagattggttgaacacaccatagattaaatacactgaattatcttttcatttgtcttcttccctctcaactctcatgagctttcccct 33432913  T
Q  198 ttctctaatatccctctct 216  Q
    |||||| ||||||||||||    
T  33432914 ttctct-atatccctctct 33432931  T

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Target: chr4; HSP #5
Raw Score: 46; E-Value: 2e-17
Query Start/End: Original strand, 22 - 71
Target Start/End: Complemental strand, 33018715 - 33018666
Alignment:
Q  22 ggcggcgtttagggtgggagccctttataggtctcctaccgtgcatgacc 71  Q
    |||||||||||||||||||| |||||||||||||||||||||||||||||    
T  33018715 ggcggcgtttagggtgggagacctttataggtctcctaccgtgcatgacc 33018666  T

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Target: chr4; HSP #6
Raw Score: 41; E-Value: 0.00000000000002
Query Start/End: Original strand, 22 - 70
Target Start/End: Original strand, 33432739 - 33432787
Alignment:
Q  22 ggcggcgtttagggtgggagccctttataggtctcctaccgtgcatgac 70  Q
    |||||||||||||||||||| ||||||||| ||||||||||||||||||    
T  33432739 ggcggcgtttagggtgggagacctttatagatctcctaccgtgcatgac 33432787  T

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

Target: chr4; HSP #7
Raw Score: 33; E-Value: 0.000000001
Query Start/End: Original strand, 26 - 70
Target Start/End: Complemental strand, 35347342 - 35347298
Alignment:
Q  26 gcgtttagggtgggagccctttataggtctcctaccgtgcatgac 70  Q
    |||| ||||||||||| |||||||||||| |||||||||||||||    
T  35347342 gcgtctagggtgggagacctttataggtcccctaccgtgcatgac 35347298  T

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Target: chr4; HSP #8
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 28 - 64
Target Start/End: Original strand, 23668224 - 23668260
Alignment:
Q  28 gtttagggtgggagccctttataggtctcctaccgtg 64  Q
    |||||||||||||| |||| |||||||||||||||||    
T  23668224 gtttagggtgggagaccttaataggtctcctaccgtg 23668260  T

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

Target: chr4; HSP #9
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 27 - 63
Target Start/End: Complemental strand, 52106289 - 52106253
Alignment:
Q  27 cgtttagggtgggagccctttataggtctcctaccgt 63  Q
    ||||||||||||||| ||||| |||||||||||||||    
T  52106289 cgtttagggtgggagacctttttaggtctcctaccgt 52106253  T

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Target: chr1 (Bit Score: 112; Significance: 8e-57; HSPs: 4)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 112; E-Value: 8e-57
Query Start/End: Original strand, 93 - 216
Target Start/End: Complemental strand, 7298664 - 7298541
Alignment:
Q  93 tgacatttcctaaccgttagattggttaaacacaccatagatcaaatacacttgattatattttcatttgtcttcttccctctcaactctcatgagcttt 192  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||| ||||||||||||| ||||||||||||||||||||    
T  7298664 tgacatttcctaaccgttagattggttaaacacaccatagatcaaatacacttaattatattttcctttgtcttcttccttctcaactctcatgagcttt 7298565  T
Q  193 cacctttctctaatatccctctct 216  Q
    ||||||||||||||||||||||||    
T  7298564 cacctttctctaatatccctctct 7298541  T

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

Target: chr1; HSP #2
Raw Score: 106; E-Value: 3e-53
Query Start/End: Original strand, 87 - 216
Target Start/End: Original strand, 47124689 - 47124818
Alignment:
Q  87 atcttctgacatttcctaaccgttagattggttaaacacaccatagatcaaatacacttgattatattttcatttgtcttcttccctctcaactctcatg 186  Q
    |||||| ||| |||||||||||||||||||||| ||||||||||||||||||||||| ||||||| ||||||||||||||||||||||||||||||||||    
T  47124689 atcttcagacctttcctaaccgttagattggttgaacacaccatagatcaaatacacctgattatcttttcatttgtcttcttccctctcaactctcatg 47124788  T
Q  187 agctttcacctttctctaatatccctctct 216  Q
    |||||| |||||||||||||||||||||||    
T  47124789 agcttttacctttctctaatatccctctct 47124818  T

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

Target: chr1; HSP #3
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 22 - 71
Target Start/End: Complemental strand, 7298744 - 7298695
Alignment:
Q  22 ggcggcgtttagggtgggagccctttataggtctcctaccgtgcatgacc 71  Q
    ||||||||||||||| |||| ||| |||||||||||||||||||||||||    
T  7298744 ggcggcgtttagggtaggagacctatataggtctcctaccgtgcatgacc 7298695  T

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

Target: chr1; HSP #4
Raw Score: 34; E-Value: 0.0000000003
Query Start/End: Original strand, 22 - 71
Target Start/End: Original strand, 47124620 - 47124669
Alignment:
Q  22 ggcggcgtttagggtgggagccctttataggtctcctaccgtgcatgacc 71  Q
    |||||||||||||||||||| ||||||||| ||| |||| ||||||||||    
T  47124620 ggcggcgtttagggtgggagacctttatagatcttctactgtgcatgacc 47124669  T

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

Target: chr7 (Bit Score: 107; Significance: 8e-54; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 107; E-Value: 8e-54
Query Start/End: Original strand, 98 - 216
Target Start/End: Original strand, 26761474 - 26761591
Alignment:
Q  98 tttcctaaccgttagattggttaaacacaccatagatcaaatacacttgattatattttcatttgtcttcttccctctcaactctcatgagctttcacct 197  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||    
T  26761474 tttcctaaccgttagattggttaaacacaccatagatcaaatacacttgattatcttttcatttgtcttcttccctctcaactctcatgagctttcacct 26761573  T
Q  198 ttctctaatatccctctct 216  Q
    |||||| ||||||||||||    
T  26761574 ttctct-atatccctctct 26761591  T

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

Target: chr5 (Bit Score: 101; Significance: 3e-50; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 101; E-Value: 3e-50
Query Start/End: Original strand, 89 - 209
Target Start/End: Complemental strand, 43070185 - 43070065
Alignment:
Q  89 cttctgacatttcctaaccgttagattggttaaacacaccatagatcaaatacacttgattatattttcatttgtcttcttccctctcaactctcatgag 188  Q
    |||| ||| ||||||||||||||||||||||||||||| |||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||    
T  43070185 cttcggacctttcctaaccgttagattggttaaacacatcatagatcaaatacacttgattatcttttcatttgtcttcttccctctcaactctcatgag 43070086  T
Q  189 ctttcacctttctctaatatc 209  Q
    ||||||||||||||| |||||    
T  43070085 ctttcacctttctctgatatc 43070065  T

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

Target: chr5; HSP #2
Raw Score: 42; E-Value: 0.000000000000005
Query Start/End: Original strand, 22 - 71
Target Start/End: Complemental strand, 43070260 - 43070211
Alignment:
Q  22 ggcggcgtttagggtgggagccctttataggtctcctaccgtgcatgacc 71  Q
    |||||||||||||||||||| ||||||||||||||||||||| |||||||    
T  43070260 ggcggcgtttagggtgggagacctttataggtctcctaccgtacatgacc 43070211  T

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

Target: chr6 (Bit Score: 96; Significance: 3e-47; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 96; E-Value: 3e-47
Query Start/End: Original strand, 89 - 216
Target Start/End: Complemental strand, 6535281 - 6535154
Alignment:
Q  89 cttctgacatttcctaaccgttagattggttaaacacaccatagatcaaatacacttgattatattttcatttgtcttcttccctctcaactctcatgag 188  Q
    |||| ||| |||||||| |||||||||| || ||||||||| |||||||||||| |||||||| ||||||||||||||||||||||||||||||||||||    
T  6535281 cttcggacctttcctaatcgttagattgattgaacacaccacagatcaaatacatttgattatcttttcatttgtcttcttccctctcaactctcatgag 6535182  T
Q  189 ctttcacctttctctaatatccctctct 216  Q
    ||||||||||||||||||||||||||||    
T  6535181 ctttcacctttctctaatatccctctct 6535154  T

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

Target: chr6; HSP #2
Raw Score: 44; E-Value: 3e-16
Query Start/End: Original strand, 24 - 71
Target Start/End: Complemental strand, 6535350 - 6535303
Alignment:
Q  24 cggcgtttagggtgggagccctttataggtctcctaccgtgcatgacc 71  Q
    |||||||||||||||||| |||||||||||||||||||||||||||||    
T  6535350 cggcgtttagggtgggagacctttataggtctcctaccgtgcatgacc 6535303  T

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



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