Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 58 of 109
Found at i:19006631 original size:179 final size:182
Alignment explanation
Indices: 19006331--19006675 Score: 624
Period size: 179 Copynumber: 1.9 Consensus size: 182
19006321 GGATTTCTAG
*
19006331 TGTAACACCCCTAACCCATATCCGTCGCCGGATTAGGATTAAGGAGTGATACTAAATATCGAAAT
1 TGTAACACCCCTAACCCATATCCGTCACCGGATTAGGATTAAGGAGTGATACTAAATATCGAAAT
*
19006396 CTTACACTTAACAGAATGAACCAAATATTAAGCTGTATATAAATATGCGTCTTGAATATGT-A-A
66 CTTACACTTAACAGAATGAACCAAATATCAAGCTGTATATAAATATGCGTCTTGAATATGTAATA
19006459 TATATATATTTAAAATCCTAATTT-TTTCACCTAACTCTGATACCAATAAAA
131 TATATATATTTAAAATCCTAATTTATTTCACCTAACTCTGATACCAATAAAA
*
19006510 TGTAACACCCCTAACCCATATCCGTCACCGGATTAGGATTAATGAGTGATACTAAATATCGAAAT
1 TGTAACACCCCTAACCCATATCCGTCACCGGATTAGGATTAAGGAGTGATACTAAATATCGAAAT
*
19006575 CTTACACTTAACAGAATGAGCCAAATATCAAGCTGTATATAAATATGCGTCTTGAATATGTAAAT
66 CTTACACTTAACAGAATGAACCAAATATCAAGCTGTATATAAATATGCGTCTTGAATATGT-AAT
19006640 ATATATATATTTAAAATCCTAATTTATTTCACCTAA
130 ATATATATATTTAAAATCCTAATTTATTTCACCTAA
19006676 TTATCAAAAA
Statistics
Matches: 158, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
179 122 0.77
181 1 0.01
182 25 0.16
183 10 0.06
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (182 bp):
TGTAACACCCCTAACCCATATCCGTCACCGGATTAGGATTAAGGAGTGATACTAAATATCGAAAT
CTTACACTTAACAGAATGAACCAAATATCAAGCTGTATATAAATATGCGTCTTGAATATGTAATA
TATATATATTTAAAATCCTAATTTATTTCACCTAACTCTGATACCAATAAAA
Found at i:19007015 original size:47 final size:47
Alignment explanation
Indices: 19006916--19007127 Score: 266
Period size: 47 Copynumber: 4.5 Consensus size: 47
19006906 CAACCCTGTT
* * * * *
19006916 TTGGACAGCAATTATTCATCAAATTGGACAGCAAT-AATATGCTCTAAA
1 TTGGACAGC-ATTATACATTAAAATGGACAGC-ATCAATATACTCAAAA
*** * * * * *
19006964 -TGGACAGCATTATACACCGAATTAGACAGCTTAAATCTACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
*
19007010 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTGAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
19007057 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
19007104 TTGGACAGCATTATACATTAAAAT
1 TTGGACAGCATTATACATTAAAAT
19007128 TTATAACACA
Statistics
Matches: 144, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
45 1 0.01
46 28 0.19
47 115 0.80
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (47 bp):
TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
Found at i:19007038 original size:22 final size:23
Alignment explanation
Indices: 19007006--19007128 Score: 146
Period size: 22 Copynumber: 5.3 Consensus size: 23
19006996 AAATCTACTC
19007006 AAAATTGGACAGCATTATACATT
1 AAAATTGGACAGCATTATACATT
*
19007029 AAAA-TGGACAGCATCAATATAC-TG
1 AAAATTGGACAGCAT---TATACATT
19007053 AAAATTGGACAGCATTATACATT
1 AAAATTGGACAGCATTATACATT
*
19007076 AAAA-TGGACAGCATCAATATAC-TC
1 AAAATTGGACAGCAT---TATACATT
19007100 AAAATTGGACAGCATTATACATT
1 AAAATTGGACAGCATTATACATT
19007123 AAAATT
1 AAAATT
19007129 TATAACACAA
Statistics
Matches: 86, Mismatches: 4, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
22 30 0.35
23 16 0.19
24 10 0.12
25 30 0.35
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.27
Consensus pattern (23 bp):
AAAATTGGACAGCATTATACATT
Found at i:19007113 original size:25 final size:24
Alignment explanation
Indices: 19006936--19007114 Score: 142
Period size: 25 Copynumber: 7.6 Consensus size: 24
19006926 ATTATTCATC
* *
19006936 AAATTGGACAGCAATAATATGCTCT
1 AAATTGGACAGC-ATAATATACTCA
* *
19006961 AAA-TGGACAGCAT--TATACACC
1 AAATTGGACAGCATAATATACTCA
* * * *
19006982 GAATTAGACAGCTTAAATCTACTCA
1 AAATTGGACAGCAT-AATATACTCA
*
19007007 AAATTGGACAGCAT--TATACATTA
1 AAATTGGACAGCATAATATAC-TCA
*
19007030 AAA-TGGACAGCATCAATATACTGA
1 AAATTGGACAGCAT-AATATACTCA
*
19007054 AAATTGGACAGCAT--TATACATTA
1 AAATTGGACAGCATAATATAC-TCA
19007077 AAA-TGGACAGCATCAATATACTCA
1 AAATTGGACAGCAT-AATATACTCA
19007101 AAATTGGACAGCAT
1 AAATTGGACAGCAT
19007115 TATACATTAA
Statistics
Matches: 123, Mismatches: 17, Indels: 28
0.73 0.10 0.17
Matches are distributed among these distances:
21 7 0.06
22 37 0.30
23 12 0.10
24 18 0.15
25 49 0.40
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (24 bp):
AAATTGGACAGCATAATATACTCA
Found at i:19008092 original size:28 final size:27
Alignment explanation
Indices: 19008060--19008130 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 27
19008050 TTAATAAGTA
19008060 CGCACACTTAGTGCTTAAT-AATCAAACT
1 CGCACACTTAGTGCTT--TCAATCAAACT
*
19008088 CGCACACTTAGTGCATTTCAATTAAACT
1 CGCACACTTAGTGC-TTTCAATCAAACT
19008116 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19008131 AATCTCATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 2 0.05
28 36 0.90
29 2 0.05
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTTTCAATCAAACT
Found at i:19009811 original size:34 final size:34
Alignment explanation
Indices: 19009768--19009845 Score: 138
Period size: 34 Copynumber: 2.3 Consensus size: 34
19009758 GAATTTCTAG
*
19009768 TTTGTATTTCTATAATCCGAACCTAGTTGTTAAT
1 TTTGTATTTCTATAATCCGAACCAAGTTGTTAAT
19009802 TTTGTATTTCTATAATCCGAACCAAGTTGTTAAT
1 TTTGTATTTCTATAATCCGAACCAAGTTGTTAAT
19009836 TGTTGTATTT
1 T-TTGTATTT
19009846 TAAATTAATG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 34 0.81
35 8 0.19
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.49
Consensus pattern (34 bp):
TTTGTATTTCTATAATCCGAACCAAGTTGTTAAT
Found at i:19011772 original size:245 final size:245
Alignment explanation
Indices: 19011342--19012042 Score: 1377
Period size: 245 Copynumber: 2.9 Consensus size: 245
19011332 TCTCAGACAG
19011342 AGACAAATAATTCAACATCTCAACAAGTGTAGATTTCATGCAAATTACATACATCATGCAAAAAT
1 AGACAAATAATTCAACATCTCAACAAGTGTAGATTTCATGCAAATTACATACATCATGCAAAAAT
19011407 TGAAAAGAAAAAATTAAAATAAAACATGCAAACTATCATCTTAGGAAATGACTCAACCATATTTG
66 TGAAAAGAAAAAATTAAAATAAAACATGCAAACTATCATCTTAGGAAATGACTCAACCATATTTG
19011472 CATGTGTTTTTCTTGAATTTAATAAGTTTAGTCTTTGTAGAATAAATTGCTAAAGGGTAAGAAAT
131 CATGTGTTTTTCTTGAATTTAATAAGTTTAGTCTTTGTAGAATAAATTGCTAAAGGGTAAGAAAT
19011537 TTATTTATGGTGCTTTATTCTCACAAGCTTATTTACCGCATTCCTCCATC
196 TTATTTATGGTGCTTTATTCTCACAAGCTTATTTACCGCATTCCTCCATC
19011587 AGACAAATAATTCAACATCTCAACAAGTGTAGATTTCATGCAAATTACATACATCATGCAAAAAT
1 AGACAAATAATTCAACATCTCAACAAGTGTAGATTTCATGCAAATTACATACATCATGCAAAAAT
19011652 TGAAAAGAAAAAATTAAAATAAAACATGCAAACTATCATCTTAGGAAATGACTCAACCATATTTG
66 TGAAAAGAAAAAATTAAAATAAAACATGCAAACTATCATCTTAGGAAATGACTCAACCATATTTG
19011717 CATGTGTTTTTCTTGAATTTAATAAGTTTAGTCTTTGTAGAATAAATTGCTAAAGGGTAAGAAAT
131 CATGTGTTTTTCTTGAATTTAATAAGTTTAGTCTTTGTAGAATAAATTGCTAAAGGGTAAGAAAT
19011782 TTATTTATGGTGCTTTATTCTCACAAGCTTATTTACCGCATTCCTCCATC
196 TTATTTATGGTGCTTTATTCTCACAAGCTTATTTACCGCATTCCTCCATC
19011832 AGACAAATAATTCAACATCTCAACAAGTGTAGATTTCATGCAAATTACATACATCATGCAAAAAT
1 AGACAAATAATTCAACATCTCAACAAGTGTAGATTTCATGCAAATTACATACATCATGCAAAAAT
19011897 TGAAAAGAAAAAATTAAAATAAAACATGCAAACTATCATCTTAGGAAATGACTCAACCATATTTG
66 TGAAAAGAAAAAATTAAAATAAAACATGCAAACTATCATCTTAGGAAATGACTCAACCATATTTG
*
19011962 CATGTGTTTTTCTTGAATTTAATGAGTTTAGTCTTTGTAGAATAAATTGCTAAAGGGTAAGAAAT
131 CATGTGTTTTTCTTGAATTTAATAAGTTTAGTCTTTGTAGAATAAATTGCTAAAGGGTAAGAAAT
19012027 TTATTTAATGGT-CTTT
196 TTATTT-ATGGTGCTTT
19012043 TTAGCACGAT
Statistics
Matches: 454, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
245 449 0.99
246 5 0.01
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (245 bp):
AGACAAATAATTCAACATCTCAACAAGTGTAGATTTCATGCAAATTACATACATCATGCAAAAAT
TGAAAAGAAAAAATTAAAATAAAACATGCAAACTATCATCTTAGGAAATGACTCAACCATATTTG
CATGTGTTTTTCTTGAATTTAATAAGTTTAGTCTTTGTAGAATAAATTGCTAAAGGGTAAGAAAT
TTATTTATGGTGCTTTATTCTCACAAGCTTATTTACCGCATTCCTCCATC
Found at i:19021321 original size:77 final size:78
Alignment explanation
Indices: 19021229--19021385 Score: 298
Period size: 77 Copynumber: 2.0 Consensus size: 78
19021219 GTATTGGAAG
19021229 AAAGTATTAACAGAATTGTTATTTCTAAGATTTCCTATCA-TTGAAATGTCAGTACTTTGTTTTC
1 AAAGTATTAACAGAATTGTTATTTCTAAGATTTCCTATCATTTGAAATGTCAGTACTTTGTTTTC
19021293 AAAATTTGCTAAT
66 AAAATTTGCTAAT
*
19021306 AAAGTATTAACAGAATTGTTATTTCTAAGATTTCCTATCATTTGAGATGTCAGTACTTTGTTTTC
1 AAAGTATTAACAGAATTGTTATTTCTAAGATTTCCTATCATTTGAAATGTCAGTACTTTGTTTTC
19021371 AAAATTTGCTAAT
66 AAAATTTGCTAAT
19021384 AA
1 AA
19021386 CTAAGACTGA
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
77 40 0.51
78 38 0.49
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (78 bp):
AAAGTATTAACAGAATTGTTATTTCTAAGATTTCCTATCATTTGAAATGTCAGTACTTTGTTTTC
AAAATTTGCTAAT
Found at i:19023933 original size:20 final size:21
Alignment explanation
Indices: 19023908--19023952 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
19023898 GTGAGAACTT
19023908 TAAAAT-AAAATAATG-AAAAA
1 TAAAATGAAAATAA-GAAAAAA
*
19023928 TAAAATGAAAATTAGAAAAAA
1 TAAAATGAAAATAAGAAAAAA
19023949 TAAA
1 TAAA
19023953 TTGGTTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (21 bp):
TAAAATGAAAATAAGAAAAAA
Found at i:19024357 original size:26 final size:27
Alignment explanation
Indices: 19024327--19024380 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
19024317 AATAGCTAAT
*
19024327 TTGATCCTTAAGTT-TAGTTAAAAGAA
1 TTGATCCCTAAGTTATAGTTAAAAGAA
19024353 TTGATCCCTAAGTTATAGTTAAAAGAA
1 TTGATCCCTAAGTTATAGTTAAAAGAA
19024380 T
1 T
19024381 CTTTTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (27 bp):
TTGATCCCTAAGTTATAGTTAAAAGAA
Found at i:19030014 original size:19 final size:19
Alignment explanation
Indices: 19029980--19030026 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
19029970 ACACAGGTAA
19029980 TTTTAAAATTTTCAAAATAAT
1 TTTTAAAA-TTTCAAAAT-AT
19030001 TTTTAAAA-TTCAAAATAT
1 TTTTAAAATTTCAAAATAT
*
19030019 TTATAAAA
1 TTTTAAAA
19030027 ATCCAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 9 0.36
19 8 0.32
21 8 0.32
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTTAAAATTTCAAAATAT
Found at i:19030025 original size:18 final size:18
Alignment explanation
Indices: 19029990--19030040 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
19029980 TTTTAAAATT
*
19029990 TTCAAAATAATTTTTAAAA
1 TTCAAAAT-ATTTATAAAA
19030009 TTCAAAATATTTATAAAA
1 TTCAAAATATTTATAAAA
* *
19030027 ATCCAAA-ATTTATA
1 TTCAAAATATTTATA
19030041 TTTTTTAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 7 0.24
18 14 0.48
19 8 0.28
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (18 bp):
TTCAAAATATTTATAAAA
Found at i:19030027 original size:19 final size:19
Alignment explanation
Indices: 19029977--19030035 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
19029967 ATTACACAGG
*
19029977 TAATTTTAAAATTTTCAAAA
1 TAATTTTAAAA-ATTCAAAA
*
19029997 TAATTTTTAAAATTCAAAA
1 TAATTTTAAAAATTCAAAA
*
19030016 T-ATTTATAAAAATCCAAAA
1 TAATTT-TAAAAATTCAAAA
19030035 T
1 T
19030036 TTATATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.12
19 20 0.59
20 10 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATTTTAAAAATTCAAAA
Found at i:19030098 original size:20 final size:19
Alignment explanation
Indices: 19030062--19030117 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 19
19030052 ATATAGAAAT
19030062 TATAAAAAAATCCTAAAGAA
1 TATAAAAAAATCCTAAA-AA
**
19030082 TATAAAAAAATGTTAAAAA
1 TATAAAAAAATCCTAAAAA
*
19030101 -GTAAAAAAAT-CTAAAAA
1 TATAAAAAAATCCTAAAAA
19030118 AAACCTAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 6 0.19
18 9 0.28
19 2 0.06
20 15 0.47
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (19 bp):
TATAAAAAAATCCTAAAAA
Found at i:19038807 original size:10 final size:11
Alignment explanation
Indices: 19038794--19038822 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
19038784 CAAAATATTT
19038794 AAAAAAAACA-
1 AAAAAAAACAG
19038804 AAAAAAAACAG
1 AAAAAAAACAG
19038815 AAAAAAAA
1 AAAAAAAA
19038823 ACCTGAACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAG
Found at i:19039130 original size:15 final size:15
Alignment explanation
Indices: 19039106--19039144 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
19039096 CAATAAGCAC
*
19039106 AATAACTAAAACTAG
1 AATAATTAAAACTAG
*
19039121 AATAATT-AAATTAG
1 AATAATTAAAACTAG
19039135 AATAATTAAA
1 AATAATTAAA
19039145 TTGATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (15 bp):
AATAATTAAAACTAG
Found at i:19039137 original size:14 final size:14
Alignment explanation
Indices: 19039118--19039146 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19039108 TAACTAAAAC
19039118 TAGAATAATTAAAT
1 TAGAATAATTAAAT
19039132 TAGAATAATTAAAT
1 TAGAATAATTAAAT
19039146 T
1 T
19039147 GATACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:19039765 original size:27 final size:29
Alignment explanation
Indices: 19039735--19039799 Score: 100
Period size: 27 Copynumber: 2.3 Consensus size: 29
19039725 CTTTTTTTTG
19039735 ATATATTTTGATAAAT-AAAAAAA-TTAT
1 ATATATTTTGATAAATAAAAAAAAGTTAT
*
19039762 ATATATTTTGGTAAATAAAAAAAAGTTAT
1 ATATATTTTGATAAATAAAAAAAAGTTAT
19039791 A-ATATTTTG
1 ATATATTTTG
19039800 GTNNNNNNNN
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 15 0.43
28 15 0.43
29 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.42
Consensus pattern (29 bp):
ATATATTTTGATAAATAAAAAAAAGTTAT
Found at i:19039795 original size:28 final size:27
Alignment explanation
Indices: 19039735--19039801 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 27
19039725 CTTTTTTTTG
*
19039735 ATATATTTTGATAAATAAAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAATTAT
19039762 ATATATTTTGGTAAATAAAAAAAAGTTAT
1 ATATATTTTGGTAAAT-AAAAAAA-TTAT
19039791 A-ATATTTTGGT
1 ATATATTTTGGT
19039802 NNNNNNNNNN
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
27 15 0.41
28 17 0.46
29 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAATTAT
Found at i:19040441 original size:10 final size:10
Alignment explanation
Indices: 19040426--19040515 Score: 75
Period size: 10 Copynumber: 9.4 Consensus size: 10
19040416 TTCGCTTCTC
19040426 CTTTCCTTTT
1 CTTTCCTTTT
19040436 CTTTCCTTATT
1 CTTTCCTT-TT
19040447 -TTT-C-TTT
1 CTTTCCTTTT
***
19040454 CTTTCCTCCC
1 CTTTCCTTTT
19040464 CTTTCCTTTT
1 CTTTCCTTTT
19040474 CTTTCCTTCTT
1 CTTTCCTT-TT
19040485 -TTT-C-TTT
1 CTTTCCTTTT
19040492 CTTTCCTTTT
1 CTTTCCTTTT
* *
19040502 CCTTCTTTTT
1 CTTTCCTTTT
19040512 CTTT
1 CTTT
19040516 TTCTTTCTTC
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
7 4 0.06
8 8 0.13
9 4 0.06
10 43 0.68
11 4 0.06
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:19040449 original size:38 final size:39
Alignment explanation
Indices: 19040407--19040515 Score: 145
Period size: 38 Copynumber: 2.9 Consensus size: 39
19040397 TTCTTCTTTC
19040407 TTTTT-TTT-TTTCGCTTCTCCTTTCCTTTTCTTTCCTTA
1 TTTTTCTTTCTTTC-CTTCTCCTTTCCTTTTCTTTCCTTA
* *
19040445 TTTTTCTTTCTTTCC-TCCCCTTTCCTTTTCTTTCCTTC
1 TTTTTCTTTCTTTCCTTCTCCTTTCCTTTTCTTTCCTTA
* *
19040483 TTTTTCTTTCTTTCCTTTTCC-TTCTTTTTCTTT
1 TTTTTCTTTCTTTCCTTCTCCTTTCCTTTTCTTT
19040516 TTCTTTCTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 52 0.83
39 7 0.11
40 4 0.06
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.69
Consensus pattern (39 bp):
TTTTTCTTTCTTTCCTTCTCCTTTCCTTTTCTTTCCTTA
Found at i:19040454 original size:18 final size:18
Alignment explanation
Indices: 19040433--19040499 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
19040423 CTCCTTTCCT
*
19040433 TTTCTTTCCTTATTTTTC
1 TTTCTTTCCTTCTTTTTC
* * *
19040451 TTTCTTTCCTCCCCTTTCC
1 TTTCTTTCCT-TCTTTTTC
19040470 TTTTCTTTCCTTCTTTTTC
1 -TTTCTTTCCTTCTTTTTC
19040489 TTTCTTTCCTT
1 TTTCTTTCCTT
19040500 TTCCTTCTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 21 0.52
19 9 0.22
20 10 0.25
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTTTCCTTCTTTTTC
Found at i:19040460 original size:28 final size:28
Alignment explanation
Indices: 19040426--19040530 Score: 85
Period size: 28 Copynumber: 3.8 Consensus size: 28
19040416 TTCGCTTCTC
*
19040426 CTTTCCTTTTCTTTCCTTATT-TTTCTTT
1 CTTTCCTTTTCTTTCCTT-TTCTTTCCTT
***
19040454 CTTTCCTCCCCTTTCCTTTTCTTTCCTT
1 CTTTCCTTTTCTTTCCTTTTCTTTCCTT
* *
19040482 CTTT-TTCTTTCTTTCCTTTTCCTT-CTT
1 CTTTCCT-TTTCTTTCCTTTTCTTTCCTT
*
19040509 -TTTCTTTTTCTTT-CTTCTTCTT
1 CTTTCCTTTTCTTTCCTT-TTCTT
19040531 CCCCTCTCCT
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
25 3 0.05
26 14 0.22
27 8 0.13
28 38 0.60
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTTTCTTTCCTT
Found at i:19040487 original size:14 final size:14
Alignment explanation
Indices: 19040470--19040527 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
19040460 TCCCCTTTCC
19040470 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
19040484 TTTTCTTTCTTTCCT
1 TTTTCTTTCCTT-CT
* **
19040499 TTTCCTTCTTTTTCT
1 TTTTCTT-TCCTTCT
19040514 TTTTCTTT-CTTCT
1 TTTTCTTTCCTTCT
19040527 T
1 T
19040528 CTTCCCCTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
13 5 0.14
14 12 0.32
15 16 0.43
16 4 0.11
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:19040507 original size:18 final size:18
Alignment explanation
Indices: 19040433--19040509 Score: 52
Period size: 18 Copynumber: 4.2 Consensus size: 18
19040423 CTCCTTTCCT
*
19040433 TTTCTTTCCTTATTTTTC
1 TTTCTTTCCTTATTCTTC
*
19040451 TTTCTTTCCTCCCCT-TTCCT-
1 TTTCTTTCCT----TATTCTTC
* *
19040471 TTTCTTTCCTTCTTTTTC
1 TTTCTTTCCTTATTCTTC
19040489 TTTCTTTCCTT-TTCCTTC
1 TTTCTTTCCTTATT-CTTC
19040507 TTT
1 TTT
19040510 TTCTTTTTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
16 1 0.02
17 5 0.11
18 27 0.57
20 10 0.21
21 3 0.06
22 1 0.02
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTCTTTCCTTATTCTTC
Found at i:19040617 original size:27 final size:27
Alignment explanation
Indices: 19040579--19040659 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
19040569 AATTCAAGGG
*
19040579 TGGTGCCGCCAACCTGGTTCCCTCCAC
1 TGGTGCCGCCAACCTGCTTCCCTCCAC
* ***
19040606 TGGTGCTGCCAACCTGCTTCCC-CTGTT
1 TGGTGCCGCCAACCTGCTTCCCTC-CAC
19040633 TGGTGCCGCCAACCTGCTTCCCTCCAC
1 TGGTGCCGCCAACCTGCTTCCCTCCAC
19040660 CCAGAGAGTT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
26 1 0.02
27 41 0.95
28 1 0.02
ACGTcount: A:0.10, C:0.43, G:0.21, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAACCTGCTTCCCTCCAC
Found at i:19040720 original size:14 final size:13
Alignment explanation
Indices: 19040685--19040718 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
19040675 ATCAGTTCAG
19040685 GTTTTTTTT-TCT
1 GTTTTTTTTGTCT
*
19040697 GTTTTTTTTGTTT
1 GTTTTTTTTGTCT
19040710 GTTTTTTTT
1 GTTTTTTTT
19040719 TGATATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (13 bp):
GTTTTTTTTGTCT
Found at i:19040753 original size:28 final size:28
Alignment explanation
Indices: 19040721--19040789 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
19040711 TTTTTTTTTG
19040721 ATATATTTTGGTAAATAAAAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAAATTAT
*
19040749 ATATATTTTGGTAAATAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAATTAT
*
19040777 A-ACATTTTGGTAA
1 ATATATTTTGGTAA
19040790 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 11 0.28
28 28 0.72
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.39
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAATTAT
Found at i:19052374 original size:56 final size:50
Alignment explanation
Indices: 19052299--19052480 Score: 188
Period size: 50 Copynumber: 3.5 Consensus size: 50
19052289 GGGAATGAGA
* **
19052299 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCA-C-CT---A-TATGAGAAC
* *
19052355 TCCCATGTAAGGCCATGTCTGGGACATGACGTTGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCTATATGAGAAC
* * * * *
19052405 TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCA-GTACA-GAAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCTATATGAGAAC
*
19052453 ATCCCATGTAAGACTATGTCTGGGACAT
1 -TCCCATGTAAGACCATGTCTGGGACAT
19052481 AGCTTTGGCA
Statistics
Matches: 111, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
48 5 0.05
49 28 0.25
50 40 0.36
51 1 0.01
54 1 0.01
55 1 0.01
56 35 0.32
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCTATATGAGAAC
Found at i:19052489 original size:49 final size:49
Alignment explanation
Indices: 19052355--19052490 Score: 150
Period size: 49 Copynumber: 2.7 Consensus size: 49
19052345 TTATGAGAGG
* * * *
19052355 TCCCATGTAAGGCCATGTCTGGGACATGACGTTGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATG-CATTGGCACCTACATGAAAAC
* *
19052405 TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCA-GTACA-GAAAAC
1 TCCCATGTAAGACCATGTCTGGGACAT-GCATTGGCACCTACATGAAAAC
* *
19052453 ATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACAT-GCATTGGCA
19052491 TGTATTATCA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
48 5 0.07
49 36 0.49
50 32 0.43
51 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGCATTGGCACCTACATGAAAAC
Found at i:19055321 original size:39 final size:36
Alignment explanation
Indices: 19055278--19055355 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
19055268 TGTGACCCAT
*
19055278 TTGGTGGTAATATGAAACGTAAGAAAAGCATATTATCCA
1 TTGGTGG-AATA--AAACGTAAGAAAAGCATACTATCCA
* * *
19055317 TTGGTGGCATAAAACGTAAGAAATGTATACTATCCA
1 TTGGTGGAATAAAACGTAAGAAAAGCATACTATCCA
19055353 TTG
1 TTG
19055356 CATAATATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 25 0.71
38 3 0.09
39 7 0.20
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (36 bp):
TTGGTGGAATAAAACGTAAGAAAAGCATACTATCCA
Found at i:19055777 original size:48 final size:47
Alignment explanation
Indices: 19055719--19055903 Score: 183
Period size: 48 Copynumber: 3.9 Consensus size: 47
19055709 ACGCATGGAA
* *
19055719 GGAGGCTTACGGAAAGTAATAAAGTGACCCTGCTCCCAGATGTAAGG
1 GGAGGCTTACGGAAAGTAATAAAGTGACCTTGCTCCCAGACGTAAGG
* * *
19055766 GGAAGGCTTAC-GAAAGCTAAGAAAGTGACCTTGCTCTCAGACGTATGGG
1 GG-AGGCTTACGGAAAG-TAATAAAGTGACCTTGCTCCCAGACGTA-AGG
* * * * * *
19055815 GGAGGCTTATGGAAAGTAGTAAAGTGGCCTTGCTCCCGAACACATGAGG
1 GGAGGCTTACGGAAAGTAATAAAGTGACCTTGCTCCC--AGACGTAAGG
* * * *
19055864 GGAGGCTTATGAAAAGTAATAAACTAACCTTGCTCCCAGA
1 GGAGGCTTACGGAAAGTAATAAAGTGACCTTGCTCCCAGA
19055904 TGCACGGGGG
Statistics
Matches: 112, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
47 9 0.08
48 56 0.50
49 43 0.38
50 4 0.04
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.21
Consensus pattern (47 bp):
GGAGGCTTACGGAAAGTAATAAAGTGACCTTGCTCCCAGACGTAAGG
Found at i:19056193 original size:75 final size:76
Alignment explanation
Indices: 19056070--19056216 Score: 260
Period size: 75 Copynumber: 1.9 Consensus size: 76
19056060 GGAAAAACGA
* *
19056070 GTTTGGAAAATGCAGCGGAAAATAAATTTAGGGAAAAACCAAAGTTTTAAATTTTTTTCC-AACA
1 GTTTGGAAAATACAACGGAAAATAAATTTAGGGAAAAACCAAAGTTTTAAATTTTTTTCCAAACA
19056134 AGATCTAACAG
66 AGATCTAACAG
19056145 GTTTGGAAAATACAACGGAAAATAAATTTAGGGAAAAACCAAAGTTTTAAATTTTTTTCCAAAAC
1 GTTTGGAAAATACAACGGAAAATAAATTTAGGGAAAAACCAAAGTTTTAAATTTTTTTCC-AAAC
19056210 AAGATCT
65 AAGATCT
19056217 TGGTTGTGAT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
75 58 0.85
77 10 0.15
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (76 bp):
GTTTGGAAAATACAACGGAAAATAAATTTAGGGAAAAACCAAAGTTTTAAATTTTTTTCCAAACA
AGATCTAACAG
Found at i:19064908 original size:6 final size:6
Alignment explanation
Indices: 19064891--19065116 Score: 292
Period size: 6 Copynumber: 37.7 Consensus size: 6
19064881 AAAGTACCCT
* * *
19064891 TATATGC TATATC TATATC TATATC TATATC TATGTC TATGTC TATGTC
1 TATAT-C TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * *
19064940 TATGTC TATGTC TATGTC TATATC TATATC TATATC TATATC TATGTC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * *
19064988 TATGTC TATGTC TATGTC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
* * * * * *
19065036 TATATC TATGTC TATGTC TATGTC TATGTC TATGTC TAT-GC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
19065083 TATATC TATATC TATATC TATATC TATATC TATA
1 TATATC TATATC TATATC TATATC TATATC TATA
19065117 CATGTGTGTG
Statistics
Matches: 211, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
5 4 0.02
6 202 0.96
7 5 0.02
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.50
Consensus pattern (6 bp):
TATATC
Found at i:19065326 original size:6 final size:6
Alignment explanation
Indices: 19065315--19065389 Score: 150
Period size: 6 Copynumber: 12.5 Consensus size: 6
19065305 TTTGGCCCTT
19065315 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
19065363 TATATG TATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TAT
19065390 GGTGTTGAGA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:19071327 original size:19 final size:19
Alignment explanation
Indices: 19071292--19071343 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
19071282 GCCTCTTTTT
19071292 GCATT-CATTTCATTCATCG
1 GCATTACATTTCA-TCATCG
*
19071311 GCATTACATTTCATCATCT
1 GCATTACATTTCATCATCG
*
19071330 GCATTAAATTTCAT
1 GCATTACATTTCAT
19071344 GAAAAGATCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (19 bp):
GCATTACATTTCATCATCG
Found at i:19079163 original size:44 final size:44
Alignment explanation
Indices: 19079109--19079634 Score: 341
Period size: 44 Copynumber: 11.7 Consensus size: 44
19079099 GTTATCGTGG
* * * * *
19079109 CAAATTTTATCTCCCTGAAGTTGTAGTGAAGCAAATTAAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* *
19079153 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAA-TTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA
* * * * * * *
19079197 CGAATCTTATCTCTCTAAAGTTACAGTAGAGCAGATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* *
19079241 CAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-ATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA
* * * *
19079285 GCAAATCTTATCTCTCTAAAGTTGCAGTAGG-GTAGATTGAAGCTA
1 -CAAATCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTAAAGCTA
** * *
19079330 CAAATCTTATCTCTGTGAAATTGCAGTGGA-TAGATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * *
19079373 CAAATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAAGCGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * *
19079417 CAAATCTAGTATCT--CTGAAGTTGCAGTAGG-TCGGATTAAATCTA
1 CAAATCT--TATCTCCCTGAAGTTGCAGT-GGAGCAGATTAAAGCTA
* * * *
19079461 CCATAGCAAGTCTTATTTCCCTGAAGTTGTAGTGGAATAGACTAAAGCTACAAGCTA
1 -C--A--AA-TCTTATCTCCCTGAAGTTGCAGTGG---AG-C-AGA-TTA-AAGCTA
* * **
19079518 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAATATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * * * * *
19079562 CAAATCTCATAC-CCTTGAATTTACAGCGGCGTAGATT-GAGACTA
1 CAAATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CTA
* * *
19079606 CAACTCCTATATCCCTGAAGTTGCAGTGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGG
19079635 GTTAGAATGA
Statistics
Matches: 375, Mismatches: 77, Indels: 60
0.73 0.15 0.12
Matches are distributed among these distances:
43 44 0.12
44 218 0.58
45 42 0.11
46 9 0.02
47 1 0.00
48 6 0.02
49 4 0.01
50 15 0.04
51 23 0.06
52 2 0.01
54 2 0.01
55 1 0.00
56 3 0.01
57 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
Found at i:19079332 original size:89 final size:88
Alignment explanation
Indices: 19079147--19079443 Score: 343
Period size: 89 Copynumber: 3.4 Consensus size: 88
19079137 AAGCAAATTA
* * * *
19079147 AAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATTACGAATCTTATCTCTC
1 AAGCTACAAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAAATACAAATCTTATCTCTC
* *
19079212 TAAAGTTACAGTAGAGCAGATTG
66 TAAAGTTGCAGTAGGGCAGATTG
* *
19079235 AAGTTACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAGCAAATCTTATCTCT
1 AAGCTACAAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAAATA-CAAATCTTATCTCT
*
19079300 CTAAAGTTGCAGTAGGGTAGATTG
65 CTAAAGTTGCAGTAGGGCAGATTG
* ** * * *
19079324 AAGCTACAAATCTTATCTCTGTGAAATTGCAGTGGA-TAGATT-AAAGCTACAAATCTTATCTCC
1 AAGCTACAAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAA-ATACAAATCTTATCTCT
*
19079387 CTGAAA-TTGCAAT-GGAGCAGATTG
65 CT-AAAGTTGCAGTAGG-GCAGATTG
* * *
19079411 AAGCGACAAAT-CTAGTATCTCTGAAGTTGCAGT
1 AAGCTACAAATCCTA-TCTCCCTGAAGTTGCAGT
19079444 AGGTCGGATT
Statistics
Matches: 180, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
86 4 0.02
87 56 0.31
88 55 0.31
89 65 0.36
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (88 bp):
AAGCTACAAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAAATACAAATCTTATCTCTC
TAAAGTTGCAGTAGGGCAGATTG
Found at i:19082326 original size:72 final size:71
Alignment explanation
Indices: 19082239--19082382 Score: 236
Period size: 72 Copynumber: 2.0 Consensus size: 71
19082229 CTTTGACAAG
19082239 ATAACTCCCAAAAGAAGAAACACCATGAACTTTTTTTTTTTTTTTTTAAGTT-AAGGGAAATAAT
1 ATAACTCCCAAAAGAAGAAACACCATGAACTTTTTTTTTTTTTTTTTAAGTTGAA-GGAAATAAT
19082303 AAATTAT
65 AAATTAT
* *
19082310 ATNAACTCCCAAAAGAAGAAACCCCATGAACTTTTTTTTTTTTTTTTTAAGTTGAAGGTAATAAT
1 AT-AACTCCCAAAAGAAGAAACACCATGAACTTTTTTTTTTTTTTTTTAAGTTGAAGGAAATAAT
*
19082375 GAATTAT
65 AAATTAT
19082382 A
1 A
19082383 CTTCAAAAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
71 2 0.03
72 64 0.94
73 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.38
Consensus pattern (71 bp):
ATAACTCCCAAAAGAAGAAACACCATGAACTTTTTTTTTTTTTTTTTAAGTTGAAGGAAATAATA
AATTAT
Found at i:19086731 original size:34 final size:34
Alignment explanation
Indices: 19086664--19086733 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
19086654 ATACACCATG
* *
19086664 TAACCAACCAACACACCACTAGCTCGTAGGAGCA
1 TAACCAACCAACACACCAATAGCTCATAGGAGCA
* *
19086698 TAACCATCCAACACACCAATGGCTCAATA-GAGCA
1 TAACCAACCAACACACCAATAGCTC-ATAGGAGCA
19086732 TA
1 TA
19086734 GATCGAAGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.94
35 2 0.06
ACGTcount: A:0.40, C:0.33, G:0.13, T:0.14
Consensus pattern (34 bp):
TAACCAACCAACACACCAATAGCTCATAGGAGCA
Found at i:19095418 original size:16 final size:16
Alignment explanation
Indices: 19095397--19095427 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19095387 TTAATTTTAA
*
19095397 TTAATTAATTAATTTC
1 TTAATTAAATAATTTC
19095413 TTAATTAAATAATTT
1 TTAATTAAATAATTT
19095428 TCTCAACCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAATTAAATAATTTC
Found at i:19096315 original size:22 final size:22
Alignment explanation
Indices: 19096287--19096332 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
19096277 CACACATACA
19096287 TAGTTCGTCATCTACTCAAGAT
1 TAGTTCGTCATCTACTCAAGAT
*
19096309 TAGTTCGTCATCTACTCCAGAT
1 TAGTTCGTCATCTACTCAAGAT
19096331 TA
1 TA
19096333 AGGTGTGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (22 bp):
TAGTTCGTCATCTACTCAAGAT
Found at i:19099866 original size:124 final size:125
Alignment explanation
Indices: 19099646--19099894 Score: 475
Period size: 124 Copynumber: 2.0 Consensus size: 125
19099636 TGGATGACTC
19099646 CCAGAAGATAGAGACATAGATGTGACTAACTGACCTAACAGTGCATCGGATTAGACCCAAGAAGA
1 CCAGAAGATAGAGACATAGATGTGACTAACTGACCTAACAGTGCATCGGATTAGACCCAAGAAGA
19099711 ATAGATCATGAATACTTTTATGGATTTATTCACTTGTGACATTCATAGT-TGACATACCT
66 ATAGATCATGAATACTTTTATGGATTTATTCACTTGTGACATTCATAGTGTGACATACCT
19099770 CCAGAAGATAGAGACATAGATGTGACTAACTGGA-CTAACAGTGCATCGGATTAGACCCAAGAAG
1 CCAGAAGATAGAGACATAGATGTGACTAACT-GACCTAACAGTGCATCGGATTAGACCCAAGAAG
19099834 AATAGATCATGAATACTTTTATGGATTTATTCACTTGTGACATTCATAGTGTGACATACCT
65 AATAGATCATGAATACTTTTATGGATTTATTCACTTGTGACATTCATAGTGTGACATACCT
19099895 AAATCTTGAG
Statistics
Matches: 123, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
124 111 0.90
125 12 0.10
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (125 bp):
CCAGAAGATAGAGACATAGATGTGACTAACTGACCTAACAGTGCATCGGATTAGACCCAAGAAGA
ATAGATCATGAATACTTTTATGGATTTATTCACTTGTGACATTCATAGTGTGACATACCT
Found at i:19108569 original size:16 final size:16
Alignment explanation
Indices: 19108549--19108586 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
19108539 TTAATGTCTG
19108549 ACCCAATT-AAATAAA
1 ACCCAATTAAAATAAA
19108564 ATCCCAATTCAAAATAAA
1 A-CCCAATT-AAAATAAA
19108582 ACCCA
1 ACCCA
19108587 CATATCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 7 0.35
17 4 0.20
18 8 0.40
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.18
Consensus pattern (16 bp):
ACCCAATTAAAATAAA
Found at i:19110647 original size:570 final size:571
Alignment explanation
Indices: 19109879--19111020 Score: 2277
Period size: 570 Copynumber: 2.0 Consensus size: 571
19109869 GGAGTCATTG
19109879 AGGAGAACCTGATAAGAAACGGTAGAAATACATTGGTGAATTAAATTAATCCTTCTTTGGTCCAA
1 AGGAGAACCTGATAAGAAACGGTAGAAATACATTGGTGAATTAAATTAATCCTTCTTTGGTCCAA
19109944 CCTCATTTCCTAATGACAACAATAAAGAAATTTCACGTTGAACCTGACAATGGCTTTACTCATAT
66 CCTCATTTCCTAATGACAACAATAAAGAAATTTCACGTTGAACCTGACAATGGCTTTACTCATAT
19110009 CAATTTTGAAAACAACAAAAGAGTCTTTTCCACTTGTCATTGAACAAAGGCATGTTGGAATTCAG
131 CAATTTTGAAAACAACAAAAGAGTCTTTTCCACTTGTCATTGAACAAAGGCATGTTGGAATTCAG
19110074 AAACAAGCGATGGCATAACTTTTTCGAGGCGATTAACAAGGACTTTTAAGATAATTTTGTAAGCA
196 AAACAAGCGATGGCATAACTTTTTCGAGGCGATTAACAAGGACTTTTAAGATAATTTTGTAAGCA
19110139 AAATTAAACATGCTAATGGGCCTAAAATCAATTGGACTGGCTTGAGAGTTTCCCTAGGGGATTAG
261 AAATTAAACATGCTAATGGGCCTAAAATCAATTGGACTGGCTTGAGAGTTTCCCTAGGGGATTAG
19110204 GGTTGTAACGGTTTTATTGAGTTATTTGAGCAGGACATCGGAGTTGAGAAAAAAAAGATAAGAGG
326 GGTTGTAACGGTTTTATTGAGTTATTTGAGCAGGACATCGGAGTTGAGAAAAAAAAGATAAGAGG
19110269 AAATGATGTCATTGTCCACAATATCCCAATATTTCTGATAGTACAAGCTAGGTTTACCATCCATA
391 AAATGATGTCATTGTCCACAATATCCCAATATTTCTGATAGTACAAGCTAGGTTTACCATCCATA
19110334 TCTAGAGCCTTAAGCCCCAATCTCGAAAACATCCTTAATTTCCTTAGCCCAAAAATTTAAATTTA
456 TCTAGAGCCTTAAGCCCCAATCTCGAAAACATCCTTAATTTCCTTAGCCCAAAAATTTAAATTTA
19110399 TTTTTTAAAAATCTTTTTAAATTTTATATATTATTTTTTA-TTTTAAATTT
521 TTTTTTAAAAATCTTTTTAAATTTTATATATTATTTTTTATTTTTAAATTT
19110449 AGGAGAACCTGATAAGAAACGGTAGAAATACATTGGTGAATTAAATTAATCCTTCTTTGGTCCAA
1 AGGAGAACCTGATAAGAAACGGTAGAAATACATTGGTGAATTAAATTAATCCTTCTTTGGTCCAA
19110514 CCTCATTTCCTAATGACAACAATAAAGAAATTTCACGTTGAACCTGACAATGGCTTTACTCATAT
66 CCTCATTTCCTAATGACAACAATAAAGAAATTTCACGTTGAACCTGACAATGGCTTTACTCATAT
19110579 CAATTTTGAAAACAACAAAAGAGTCTTTTCCACTTGTCATTGAACAAAGGCATGTTGGAATTCAG
131 CAATTTTGAAAACAACAAAAGAGTCTTTTCCACTTGTCATTGAACAAAGGCATGTTGGAATTCAG
19110644 AAACAAGCGATGGCATAACTTTTTCGAGGCGATTAACAAGGACTTTTAAGATAATTTTGTAAGCA
196 AAACAAGCGATGGCATAACTTTTTCGAGGCGATTAACAAGGACTTTTAAGATAATTTTGTAAGCA
19110709 AAATTAAACATGCTAATGGGCCTAAAATCAATTGGACTGGCTTGAGAGTTTCCCTAGGGGATTAG
261 AAATTAAACATGCTAATGGGCCTAAAATCAATTGGACTGGCTTGAGAGTTTCCCTAGGGGATTAG
19110774 GGTTGTAACGGTTTTATTGAGTTATTTGAGCAGGACATCGGAGTTGAGAAAAAAAAGATAAGAGG
326 GGTTGTAACGGTTTTATTGAGTTATTTGAGCAGGACATCGGAGTTGAGAAAAAAAAGATAAGAGG
19110839 AAATGATGTCATTGTCCACAATATCCCAATATTTCTGATAGTACAAGCTAGGTTTACCATCCATA
391 AAATGATGTCATTGTCCACAATATCCCAATATTTCTGATAGTACAAGCTAGGTTTACCATCCATA
19110904 TCTAGAGCCTTAAGCCCCAATCTCGAAAACATCCTTAATTTCCTTAGCCCAAAAATTTAAATTTA
456 TCTAGAGCCTTAAGCCCCAATCTCGAAAACATCCTTAATTTCCTTAGCCCAAAAATTTAAATTTA
19110969 TTTTTTAAAAATCTTTTTAAATTTTATATATTATTTTTTATTTTTAAATTT
521 TTTTTTAAAAATCTTTTTAAATTTTATATATTATTTTTTATTTTTAAATTT
19111020 A
1 A
19111021 TTATTATACA
Statistics
Matches: 571, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
570 560 0.98
571 11 0.02
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (571 bp):
AGGAGAACCTGATAAGAAACGGTAGAAATACATTGGTGAATTAAATTAATCCTTCTTTGGTCCAA
CCTCATTTCCTAATGACAACAATAAAGAAATTTCACGTTGAACCTGACAATGGCTTTACTCATAT
CAATTTTGAAAACAACAAAAGAGTCTTTTCCACTTGTCATTGAACAAAGGCATGTTGGAATTCAG
AAACAAGCGATGGCATAACTTTTTCGAGGCGATTAACAAGGACTTTTAAGATAATTTTGTAAGCA
AAATTAAACATGCTAATGGGCCTAAAATCAATTGGACTGGCTTGAGAGTTTCCCTAGGGGATTAG
GGTTGTAACGGTTTTATTGAGTTATTTGAGCAGGACATCGGAGTTGAGAAAAAAAAGATAAGAGG
AAATGATGTCATTGTCCACAATATCCCAATATTTCTGATAGTACAAGCTAGGTTTACCATCCATA
TCTAGAGCCTTAAGCCCCAATCTCGAAAACATCCTTAATTTCCTTAGCCCAAAAATTTAAATTTA
TTTTTTAAAAATCTTTTTAAATTTTATATATTATTTTTTATTTTTAAATTT
Found at i:19112126 original size:44 final size:44
Alignment explanation
Indices: 19112078--19112168 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
19112068 GTAGGTCAAA
19112078 TAATATTAAAATAA-TCTACACTAATCAAAATTTAAGTGGAAAAC
1 TAATATTAAAATAACT-TACACTAATCAAAATTTAAGTGGAAAAC
* * *
19112122 TAATATTAAAATAACTTACACTAATTAAAGTTTAAGTGGTAAAC
1 TAATATTAAAATAACTTACACTAATCAAAATTTAAGTGGAAAAC
19112166 TAA
1 TAA
19112169 AAACAGAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 42 0.98
45 1 0.02
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.32
Consensus pattern (44 bp):
TAATATTAAAATAACTTACACTAATCAAAATTTAAGTGGAAAAC
Found at i:19115187 original size:29 final size:27
Alignment explanation
Indices: 19115143--19115197 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
19115133 TGCAATATTA
19115143 AATTATTTATTAAAATAATAAATTATGTT
1 AATTATTTATTAAAAT-ATAAA-TATGTT
19115172 AATTATGTTATT-AAATATAAATATGT
1 AATTAT-TTATTAAAATATAAATATGT
19115198 AAGTTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.20
28 5 0.20
29 10 0.40
30 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (27 bp):
AATTATTTATTAAAATATAAATATGTT
Found at i:19116163 original size:17 final size:19
Alignment explanation
Indices: 19116143--19116181 Score: 55
Period size: 17 Copynumber: 2.1 Consensus size: 19
19116133 TTTGAACAAT
19116143 AATTATTT-TAT-AAAATA
1 AATTATTTATATAAAAATA
19116160 AATTATTTCATATAAAAATA
1 AATTATTT-ATATAAAAATA
19116180 AA
1 AA
19116182 CGAATCTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
19 3 0.16
20 8 0.42
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTATTTATATAAAAATA
Found at i:19117157 original size:15 final size:17
Alignment explanation
Indices: 19117130--19117168 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
19117120 GACATTGTGT
*
19117130 AATAAATTTATAT-AAA
1 AATAAATTGATATGAAA
19117146 AA-AAATTGATATGAAA
1 AATAAATTGATATGAAA
19117162 AATAAAT
1 AATAAAT
19117169 GTTACATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 9 0.45
16 7 0.35
17 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (17 bp):
AATAAATTGATATGAAA
Found at i:19118611 original size:38 final size:38
Alignment explanation
Indices: 19118569--19118644 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
19118559 TACTTATTTT
*
19118569 TATTTATACTATAATGAAATCTTTAATAAATTTTGTTC
1 TATTTATACTATAATGAAATCTTTAATAAAATTTGTTC
19118607 TATTTATACTATAATGAAATCTTTAATAAAATTTGTTC
1 TATTTATACTATAATGAAATCTTTAATAAAATTTGTTC
19118645 GGTATAAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (38 bp):
TATTTATACTATAATGAAATCTTTAATAAAATTTGTTC
Found at i:19118825 original size:37 final size:40
Alignment explanation
Indices: 19118742--19118825 Score: 102
Period size: 42 Copynumber: 2.1 Consensus size: 40
19118732 TCAATCAATT
* **
19118742 TAATCTTTTATACTATTTTAAAGTAAAGTGAACAAACAAGTT
1 TAATTTTTTATACTATTTTAAAGTAAAG-G-ACAAACAAGGA
19118784 TAATTTTTTATACTATTTTAAAGT-AA-G-CAAACAAGGA
1 TAATTTTTTATACTATTTTAAAGTAAAGGACAAACAAGGA
19118821 TAATT
1 TAATT
19118826 GAATATGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
37 13 0.33
39 1 0.03
41 2 0.05
42 23 0.59
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (40 bp):
TAATTTTTTATACTATTTTAAAGTAAAGGACAAACAAGGA
Found at i:19121666 original size:39 final size:39
Alignment explanation
Indices: 19121610--19121687 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
19121600 CTTCTCTTTG
* *
19121610 CAAAATTTAATTACAGAAGAAATCAAATATATAAGTTTT
1 CAAAATTTAATTACAGAAGAAATCAAAGATATAAATTTT
* *
19121649 CAAATTTTAATTGCAGAAGAAATCAAAGATATAAATTTT
1 CAAAATTTAATTACAGAAGAAATCAAAGATATAAATTTT
19121688 TGGTGCTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.33
Consensus pattern (39 bp):
CAAAATTTAATTACAGAAGAAATCAAAGATATAAATTTT
Found at i:19126187 original size:7 final size:7
Alignment explanation
Indices: 19126175--19126201 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19126165 GAAATGAAGA
19126175 TGATGGG
1 TGATGGG
19126182 TGATGGG
1 TGATGGG
19126189 TGATGGG
1 TGATGGG
19126196 TGATGG
1 TGATGG
19126202 TAGAGGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.56, T:0.30
Consensus pattern (7 bp):
TGATGGG
Found at i:19130156 original size:20 final size:21
Alignment explanation
Indices: 19130100--19130156 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 21
19130090 GGAATTAAAA
19130100 ACAAATGTATCGATACC-TGTC
1 ACAAA-GTATCGATACCTTGTC
*
19130121 ACAAAGTATC--TACCTTTTC
1 ACAAAGTATCGATACCTTGTC
*
19130140 -CAAGGTATCGATACCTT
1 ACAAAGTATCGATACCTT
19130157 ACCTTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 12 0.39
19 3 0.10
20 11 0.35
21 5 0.16
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (21 bp):
ACAAAGTATCGATACCTTGTC
Found at i:19136661 original size:21 final size:22
Alignment explanation
Indices: 19136629--19136681 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
19136619 TATAACAACA
*
19136629 AAAGAA-AGAATAGAAA-GGAG
1 AAAGAACAGAATAGAAACAGAG
19136649 AAAGAACAGAATAGAAACAGAG
1 AAAGAACAGAATAGAAACAGAG
19136671 AAAGAAACAGA
1 AAAG-AACAGA
19136682 GAGCAAAACG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 6 0.21
21 10 0.34
22 7 0.24
23 6 0.21
ACGTcount: A:0.66, C:0.06, G:0.25, T:0.04
Consensus pattern (22 bp):
AAAGAACAGAATAGAAACAGAG
Found at i:19136678 original size:12 final size:12
Alignment explanation
Indices: 19136646--19136683 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
19136636 GAATAGAAAG
19136646 GAGAAAG-AACA
1 GAGAAAGAAACA
*
19136657 GA-ATAGAAACA
1 GAGAAAGAAACA
19136668 GAGAAAGAAACA
1 GAGAAAGAAACA
19136680 GAGA
1 GAGA
19136684 GCAAAACGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 3 0.13
11 8 0.35
12 12 0.52
ACGTcount: A:0.63, C:0.08, G:0.26, T:0.03
Consensus pattern (12 bp):
GAGAAAGAAACA
Found at i:19137821 original size:26 final size:24
Alignment explanation
Indices: 19137767--19137826 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
19137757 ACTTTAGCGC
19137767 GCTCTCTGATATTAGCACGTTGGT
1 GCTCTCTGATATTAGCACGTTGGT
19137791 GCTCTCTGATATTAGCACGTTGGT
1 GCTCTCTGATATTAGCACGTTGGT
19137815 GCTCTCTG-TATT
1 GCTCTCTGATATT
19137827 TGTTCCGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.11
24 32 0.89
ACGTcount: A:0.15, C:0.22, G:0.23, T:0.40
Consensus pattern (24 bp):
GCTCTCTGATATTAGCACGTTGGT
Found at i:19138437 original size:43 final size:43
Alignment explanation
Indices: 19138376--19138460 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
19138366 GATTTGAATT
* * *
19138376 ATTGCTTATTGTTATTAATTATCAAGTTGATTTAATGTATGAG
1 ATTGCTTATTGTTATTAATGATCAAGTTGAGTTAAAGTATGAG
19138419 ATTGCTTATTGTTATTAATGATCAAGTTGAGTTAAAGTATGA
1 ATTGCTTATTGTTATTAATGATCAAGTTGAGTTAAAGTATGA
19138461 AATAATTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.46
Consensus pattern (43 bp):
ATTGCTTATTGTTATTAATGATCAAGTTGAGTTAAAGTATGAG
Found at i:19154525 original size:103 final size:103
Alignment explanation
Indices: 19154332--19154532 Score: 278
Period size: 103 Copynumber: 2.0 Consensus size: 103
19154322 GTGAATTGCT
* * * *
19154332 GGTGGACATGACAAAATACTTTAAATGACTTTTGGAAAATGCTCCTTCCTATCTATTGGCACAAT
1 GGTGGACATGACAAAATACTTTAAATAACTTTCGGAAAATGCTCCTTCCAATCTATTGACACAAT
** *
19154397 ATCAATTGACCCTTATGGAGGGGTGTTTGATGTCTAAG
66 ATCAATTGACCCTTATAAAGAGGTGTTTGATGTCTAAG
** * *
19154435 GGTGGACATGGGAAAATACTTTGAATAACTTTCGGAAAATTCTCCTTCCAATCTATTGACACAAT
1 GGTGGACATGACAAAATACTTTAAATAACTTTCGGAAAATGCTCCTTCCAATCTATTGACACAAT
*
19154500 ATCTATTGATCCC-TATAAAGAGGTGTTTGATGT
66 ATCAATTGA-CCCTTATAAAGAGGTGTTTGATGT
19154533 AAGACCTATG
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
103 82 0.96
104 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (103 bp):
GGTGGACATGACAAAATACTTTAAATAACTTTCGGAAAATGCTCCTTCCAATCTATTGACACAAT
ATCAATTGACCCTTATAAAGAGGTGTTTGATGTCTAAG
Found at i:19161474 original size:12 final size:12
Alignment explanation
Indices: 19161457--19161482 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19161447 AATAAAGGTT
19161457 TCTGTTAATAAA
1 TCTGTTAATAAA
19161469 TCTGTTAATAAA
1 TCTGTTAATAAA
19161481 TC
1 TC
19161483 AAGTGGAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (12 bp):
TCTGTTAATAAA
Found at i:19169331 original size:117 final size:118
Alignment explanation
Indices: 19169119--19169337 Score: 277
Period size: 117 Copynumber: 1.9 Consensus size: 118
19169109 AATTTTCGAA
* **
19169119 TTAGGCTTAAGAATTGATAACTGTTGTTTGTTGATAAGGTGCCTTGGCTTATATAGATGGATTTA
1 TTAGGCTTAAGAAATGATAACTGTTGTTTGTTGATAAGGTGCCTTGGCTTATATAGATGGATGGA
* *
19169184 TATATCCAGTTGTAGTGTAATTAAGTGG-AAATTATGTGTTTTGTGTTGTTGG
66 GATATCCAATTGTAGTGTAATTAAGTGGAAAATTATGTGTTTTGTGTTGTTGG
*
19169236 TTAGGCTTAAGAAATGATAACTGTTGTTTGTTGAT-AGTGTTG-CTT-GCTTTAATATGGATGGA
1 TTAGGCTTAAGAAATGATAACTGTTGTTTGTTGATAAG-G-TGCCTTGGC-TT-ATATAGATGGA
* * **
19169298 TGGGGCTATTGAATTGTAGTGTAATTAAG-GGAAAATTATG
62 TGGAGATATCCAATTGTAGTGTAATTAAGTGGAAAATTATG
19169338 CATGTATGTC
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
116 4 0.05
117 42 0.48
118 41 0.47
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.42
Consensus pattern (118 bp):
TTAGGCTTAAGAAATGATAACTGTTGTTTGTTGATAAGGTGCCTTGGCTTATATAGATGGATGGA
GATATCCAATTGTAGTGTAATTAAGTGGAAAATTATGTGTTTTGTGTTGTTGG
Found at i:19171608 original size:23 final size:23
Alignment explanation
Indices: 19171550--19171619 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
19171540 TAAAAATTAC
19171550 ATCAATAATTAAAATAAGGACTTTA
1 ATCAATAATTAAAATAAGGAC--TA
* *
19171575 AT-ACTTTATTAAAATAAGGACTA
1 ATCA-ATAATTAAAATAAGGACTA
19171598 ATCAATAATTAAAATAAGGACT
1 ATCAATAATTAAAATAAGGACT
19171620 TAATATTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 20 0.51
24 2 0.05
25 17 0.44
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (23 bp):
ATCAATAATTAAAATAAGGACTA
Found at i:19173332 original size:92 final size:91
Alignment explanation
Indices: 19173175--19173383 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
19173165 TTGATTTTAG
* * *
19173175 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
19173240 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
19173267 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
19173331 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
19173359 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
19173384 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:19173346 original size:24 final size:25
Alignment explanation
Indices: 19173311--19173358 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
19173301 TTATGAAATT
19173311 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
19173335 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
19173359 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:19173554 original size:16 final size:16
Alignment explanation
Indices: 19173533--19173574 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
19173523 TTATTAAATT
*
19173533 ATATATTTTAATTATA
1 ATATATTTTAATAATA
19173549 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
19173564 AT-TATGTTTAA
1 ATATAT-TTTAA
19173575 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:19173559 original size:15 final size:15
Alignment explanation
Indices: 19173524--19173565 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19173514 TTAAGAATTT
*
19173524 TATTAAATTAT-ATA
1 TATTTAATTATAATA
19173538 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
19173552 TATTTAATAATAAT
1 TATTTAATTATAAT
19173566 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:19173811 original size:16 final size:16
Alignment explanation
Indices: 19173790--19173825 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
19173780 GATTTGCTAT
19173790 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
19173806 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
19173822 TACA
1 TACA
19173826 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:19180076 original size:28 final size:28
Alignment explanation
Indices: 19180044--19180101 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
19180034 AGGCCCAACC
*
19180044 AACATGATATAAACAACAAAAGCTAATA
1 AACATGATATAAACAAAAAAAGCTAATA
19180072 AACATGATATAAACAAAAAAAGCTAATA
1 AACATGATATAAACAAAAAAAGCTAATA
19180100 AA
1 AA
19180102 ACAGCAGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.64, C:0.12, G:0.07, T:0.17
Consensus pattern (28 bp):
AACATGATATAAACAAAAAAAGCTAATA
Found at i:19182516 original size:15 final size:16
Alignment explanation
Indices: 19182490--19182521 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
19182480 TAAATATCCT
19182490 TATAACTTTTTTTTTG
1 TATAACTTTTTTTTTG
19182506 TATAA-TTTTTTTTTG
1 TATAACTTTTTTTTTG
19182521 T
1 T
19182522 CGGTGATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (16 bp):
TATAACTTTTTTTTTG
Found at i:19182630 original size:13 final size:13
Alignment explanation
Indices: 19182606--19182633 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19182596 TAAATTTTAA
19182606 TAAAATGTTTTTG
1 TAAAATGTTTTTG
19182619 TAAAATGTTTTTG
1 TAAAATGTTTTTG
19182632 TA
1 TA
19182634 TAAAAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
TAAAATGTTTTTG
Found at i:19185368 original size:32 final size:30
Alignment explanation
Indices: 19185327--19185385 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
19185317 TTCAATACCC
*
19185327 AATAACAATAACATAATTACTATGAAAAAGAA
1 AATAACAATAA-ATAATTA-TATCAAAAAGAA
*
19185359 AATAACAATAAATATTTATATCAAAAA
1 AATAACAATAAATAATTATATCAAAAA
19185386 AAGAAAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 6 0.24
32 11 0.44
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.25
Consensus pattern (30 bp):
AATAACAATAAATAATTATATCAAAAAGAA
Found at i:19188778 original size:22 final size:22
Alignment explanation
Indices: 19188745--19188789 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
19188735 TAGTTTTAGG
*
19188745 TTTAGTTTTCTCTA-AGTTTTC
1 TTTAGTTTTCTCTACACTTTTC
19188766 TTTAGTTTTTCTCTACACTTTTC
1 TTTAG-TTTTCTCTACACTTTTC
19188789 T
1 T
19188790 AGGATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 9 0.43
23 7 0.33
ACGTcount: A:0.13, C:0.18, G:0.07, T:0.62
Consensus pattern (22 bp):
TTTAGTTTTCTCTACACTTTTC
Found at i:19193269 original size:16 final size:16
Alignment explanation
Indices: 19193244--19193277 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19193234 ATGAATATAT
* *
19193244 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
19193260 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
19193276 AT
1 AT
19193278 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:19195146 original size:44 final size:44
Alignment explanation
Indices: 19195083--19195173 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
19195073 TTCAACATAG
19195083 AAAGAGAGTTAACCAAATCAAGTTGCTTGCCAAACACCAACTTT
1 AAAGAGAGTTAACCAAATCAAGTTGCTTGCCAAACACCAACTTT
19195127 AAAGAGAGTTAACCAAATCAAGTTGCTTGCCAAACACCAACTTT
1 AAAGAGAGTTAACCAAATCAAGTTGCTTGCCAAACACCAACTTT
19195171 AAA
1 AAA
19195174 CCATACATGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.22
Consensus pattern (44 bp):
AAAGAGAGTTAACCAAATCAAGTTGCTTGCCAAACACCAACTTT
Found at i:19195213 original size:14 final size:15
Alignment explanation
Indices: 19195186--19195214 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19195176 ATACATGAAA
19195186 TTTCACATTTATACC
1 TTTCACATTTATACC
19195201 TTTCACA-TTATACC
1 TTTCACATTTATACC
19195215 ATAAAAATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTCACATTTATACC
Found at i:19198398 original size:23 final size:23
Alignment explanation
Indices: 19198368--19198618 Score: 288
Period size: 23 Copynumber: 10.7 Consensus size: 23
19198358 GGTATATATA
* *
19198368 TATATATGTTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
19198391 TATATATGCTGTTCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
19198414 TATAAAATGCTGTCCAATTTGGTG
1 TAT-AAATGCTGTCCAATTTGGTG
*
19198438 TATAAATGTTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* * * *
19198461 TATATATGCTGCCCAATTTAGTA
1 TATAAATGCTGTCCAATTTGGTG
* *
19198484 TATATATATGCTATCCAATTGGGTG
1 TATA-A-ATGCTGTCCAATTTGGTG
19198509 TATAAATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* * *
19198532 TATAAATGCTATCCACTTTGGTA
1 TATAAATGCTGTCCAATTTGGTG
*
19198555 TATATATATGCTGTCCAATTGGGTG
1 TATA-A-ATGCTGTCCAATTTGGTG
* *
19198580 TATAAATGCTGTCCGATTTGATG
1 TATAAATGCTGTCCAATTTGGTG
19198603 TATAAGA-GCTGTCCAA
1 TATAA-ATGCTGTCCAA
19198619 ATAGGGTAGA
Statistics
Matches: 193, Mismatches: 29, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
23 133 0.69
24 25 0.13
25 35 0.18
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (23 bp):
TATAAATGCTGTCCAATTTGGTG
Found at i:19198528 original size:71 final size:71
Alignment explanation
Indices: 19198368--19198606 Score: 336
Period size: 71 Copynumber: 3.4 Consensus size: 71
19198358 GGTATATATA
* * * * *
19198368 TATATATGTTGTCCAATTTGGTGTATATATGCTGTTCAATTTGGTGTATA-AAATGCTGTCCAAT
1 TATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTATATATATATGCTGTCCAAT
*
19198432 TTGGTG
66 TGGGTG
* * * *
19198438 TATAAATGTTGTCCAATTTGGTGTATATATGCTGCCCAATTTAGTATATATATATGCTATCCAAT
1 TATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTATATATATATGCTGTCCAAT
19198503 TGGGTG
66 TGGGTG
* * *
19198509 TATAAATGCTGTCCAATTTGGTGTATAAATGCTATCCACTTTGGTATATATATATGCTGTCCAAT
1 TATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTATATATATATGCTGTCCAAT
19198574 TGGGTG
66 TGGGTG
* *
19198580 TATAAATGCTGTCCGATTTGATGTATA
1 TATAAATGCTGTCCAATTTGGTGTATA
19198607 AGAGCTGTCC
Statistics
Matches: 151, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
70 45 0.30
71 106 0.70
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (71 bp):
TATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTATATATATATGCTGTCCAAT
TGGGTG
Found at i:19198566 original size:48 final size:48
Alignment explanation
Indices: 19198364--19198599 Score: 257
Period size: 48 Copynumber: 5.0 Consensus size: 48
19198354 ATTGGGTATA
* * * *
19198364 TATATATATATGTTGTCCAATTTGGTGTATATATGCTGTTCAATTTGG
1 TATATATATATGCTGTCCAATTTGGTGTATAAATGCTATCCAATTTGG
* * * *
19198412 TGTATA-AAATGCTGTCCAATTTGGTGTATAAATGTTGTCCAATTTGG
1 TATATATATATGCTGTCCAATTTGGTGTATAAATGCTATCCAATTTGG
* * * * *
19198459 --TGTATATATGCTGCCCAATTTAGTATATATATATGCTATCCAATTGGG
1 TATATATATATGCTGTCCAATTTGGTGTATA-A-ATGCTATCCAATTTGG
* *
19198507 TGTATA-A-ATGCTGTCCAATTTGGTGTATAAATGCTATCCACTTTGG
1 TATATATATATGCTGTCCAATTTGGTGTATAAATGCTATCCAATTTGG
* * *
19198553 TATATATATATGCTGTCCAATTGGGTGTATAAATGCTGTCCGATTTG
1 TATATATATATGCTGTCCAATTTGGTGTATAAATGCTATCCAATTTG
19198600 ATGTATAAGA
Statistics
Matches: 156, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
45 3 0.02
46 39 0.25
47 39 0.25
48 71 0.46
49 1 0.01
50 3 0.02
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (48 bp):
TATATATATATGCTGTCCAATTTGGTGTATAAATGCTATCCAATTTGG
Found at i:19198589 original size:94 final size:94
Alignment explanation
Indices: 19198364--19198618 Score: 318
Period size: 94 Copynumber: 2.7 Consensus size: 94
19198354 ATTGGGTATA
* * *
19198364 TATATATATATGTTGTCCAATTTGGTGTATATATGCTGTTCAATTTGGTGTATAAAATGCTGTCC
1 TATATATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTAT-AAATGCTGTCC
* *
19198429 AATTTGGTGTATAAATGTTGTCCAATTTGG
65 AATTTGGTGTATAAATGCTATCCAATTTGG
* * * * * *
19198459 --TGTATATATGCTGCCCAATTTAGTATATATATATGCTATCCAATTGGGTGTATAAATGCTGTC
1 TATATATATATGCTGTCCAATTTGGTGTATA-A-ATGCTGTCCAATTTGGTGTATAAATGCTGTC
*
19198522 CAATTTGGTGTATAAATGCTATCCACTTTGG
64 CAATTTGGTGTATAAATGCTATCCAATTTGG
* * *
19198553 TATATATATATGCTGTCCAATTGGGTGTATAAATGCTGTCCGATTTGATGTATAAGA-GCTGTCC
1 TATATATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAA-ATGCTGTCC
19198617 AA
65 AA
19198619 ATAGGGTAGA
Statistics
Matches: 134, Mismatches: 21, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
93 24 0.18
94 66 0.49
95 20 0.15
96 24 0.18
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (94 bp):
TATATATATATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATGCTGTCCA
ATTTGGTGTATAAATGCTATCCAATTTGG
Found at i:19199644 original size:19 final size:18
Alignment explanation
Indices: 19199618--19199682 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 18
19199608 ATGTTTTACT
19199618 TTAATTAAACTAGTTTAA
1 TTAATTAAACTAGTTTAA
* *
19199636 TTAAGTTAATCT-GTTTTACT
1 TTAA-TTAAACTAG-TTTA-A
19199656 TTAATTAAACTAGTTTAA
1 TTAATTAAACTAGTTTAA
19199674 TTAAGTTAA
1 TTAA-TTAA
19199683 TCTTAATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
18 9 0.24
19 24 0.63
20 5 0.13
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (18 bp):
TTAATTAAACTAGTTTAA
Found at i:19199660 original size:38 final size:38
Alignment explanation
Indices: 19199609--19199685 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
19199599 ATTTATATTA
19199609 TGTTTTACTTTAATTAAACTAGTTTAATTAAGTTAATC
1 TGTTTTACTTTAATTAAACTAGTTTAATTAAGTTAATC
19199647 TGTTTTACTTTAATTAAACTAGTTTAATTAAGTTAATC
1 TGTTTTACTTTAATTAAACTAGTTTAATTAAGTTAATC
19199685 T
1 T
19199686 TAATTATTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.51
Consensus pattern (38 bp):
TGTTTTACTTTAATTAAACTAGTTTAATTAAGTTAATC
Found at i:19202560 original size:21 final size:23
Alignment explanation
Indices: 19202530--19202612 Score: 71
Period size: 24 Copynumber: 3.6 Consensus size: 23
19202520 TTCCAAAAAT
*
19202530 AGTACTCAAACAAT-GT-TGAAC
1 AGTACCCAAACAATAGTGTGAAC
* *
19202551 AGTACCCAAACAATACTTGTGAAT
1 AGTACCCAAACAATA-GTGTGAAC
* *
19202575 AGTACCCAAACAATACTTGTCAAC
1 AGTACCCAAACAATA-GTGTGAAC
* *
19202599 AGTATCTAAACAAT
1 AGTACCCAAACAAT
19202613 GATAAGAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
21 13 0.25
23 1 0.02
24 38 0.73
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (23 bp):
AGTACCCAAACAATAGTGTGAAC
Found at i:19202578 original size:24 final size:24
Alignment explanation
Indices: 19202546--19202612 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
19202536 CAAACAATGT
19202546 TGAACAGTACCCAAACAATACTTG
1 TGAACAGTACCCAAACAATACTTG
*
19202570 TGAATAGTACCCAAACAATACTTG
1 TGAACAGTACCCAAACAATACTTG
* * *
19202594 TCAACAGTATCTAAACAAT
1 TGAACAGTACCCAAACAAT
19202613 GATAAGAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.24
Consensus pattern (24 bp):
TGAACAGTACCCAAACAATACTTG
Found at i:19203171 original size:19 final size:18
Alignment explanation
Indices: 19203147--19203195 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
19203137 TATTATCAAC
19203147 ATATTATAGAAAATATGAA
1 ATATTATAGAAAATAT-AA
* *
19203166 ATATTATA-AATATATAT
1 ATATTATAGAAAATATAA
19203183 ATA-TATAGAAAAT
1 ATATTATAGAAAAT
19203196 TATATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 4 0.15
17 8 0.31
18 6 0.23
19 8 0.31
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (18 bp):
ATATTATAGAAAATATAA
Found at i:19203625 original size:21 final size:22
Alignment explanation
Indices: 19203589--19203646 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
19203579 AGAAATTATT
* *
19203589 AAATCATTATAAAAATTT-TAGA
1 AAATTATTAAAAAAATTTATA-A
*
19203611 AAATTA-TAAAAAAATTTATAT
1 AAATTATTAAAAAAATTTATAA
19203632 AAATTATTAAAAAAA
1 AAATTATTAAAAAAA
19203647 ATATAAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (22 bp):
AAATTATTAAAAAAATTTATAA
Found at i:19203651 original size:21 final size:21
Alignment explanation
Indices: 19203611--19203651 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19203601 AAATTTTAGA
*
19203611 AAATTATAAAAAAATTTATAT
1 AAATTATAAAAAAATATATAT
19203632 AAATTATTAAAAAAA-ATATA
1 AAATTA-TAAAAAAATATATA
19203652 AGATTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATTATAAAAAAATATATAT
Found at i:19206631 original size:49 final size:49
Alignment explanation
Indices: 19206544--19206640 Score: 119
Period size: 49 Copynumber: 2.0 Consensus size: 49
19206534 TACGGTTTAA
*
19206544 CCAAACAAATAATATAAATATTTTTTTACTTTGCTAA-T-TTTATCTAT
1 CCAAACAAATAATATAAATATTTTTTTACTTTGATAATTATTTATCTAT
* *
19206591 CCAAACAAAATAAATATAATTAATTTTTTT-CTTTTATAATTATTTATCTA
1 CCAAAC-AAAT-AATATAAAT-ATTTTTTTACTTTGATAATTATTTATCTA
19206641 AACTTATAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
47 6 0.14
48 4 0.10
49 15 0.36
50 9 0.21
51 8 0.19
ACGTcount: A:0.40, C:0.11, G:0.01, T:0.47
Consensus pattern (49 bp):
CCAAACAAATAATATAAATATTTTTTTACTTTGATAATTATTTATCTAT
Found at i:19207755 original size:14 final size:14
Alignment explanation
Indices: 19207736--19207768 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
19207726 TCCAATATCC
19207736 AAATAATAACAATA
1 AAATAATAACAATA
19207750 AAATAATAACAATA
1 AAATAATAACAATA
*
19207764 TAATA
1 AAATA
19207769 GCAAAACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:19209316 original size:20 final size:20
Alignment explanation
Indices: 19209291--19209330 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19209281 AATATTTTCC
*
19209291 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
19209311 AGTAAAACATTTTTCAGAAA
1 AGTAAAACATTTTACAGAAA
19209331 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:19209332 original size:34 final size:34
Alignment explanation
Indices: 19209279--19209344 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
19209269 CAAACACCAG
*
19209279 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
*
19209314 AAAACATTTTTCAG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
19209345 ATATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:19212348 original size:27 final size:27
Alignment explanation
Indices: 19212310--19212386 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
19212300 TAGTATTGGC
19212310 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
19212337 GCCTACCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
19212364 GCC-ATTCTGAGAGGCGCCAATGG
1 GCCTA-TCTGGGAGGCGCCAATGG
19212387 GCCGGGCCGG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.17, C:0.25, G:0.39, T:0.19
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:19214948 original size:19 final size:20
Alignment explanation
Indices: 19214911--19214948 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
19214901 TGATTATAAT
* *
19214911 TAAAATTTAATTATGTTTAA
1 TAAAATTTAATGATATTTAA
19214931 TAAAA-TTAATGATATTTA
1 TAAAATTTAATGATATTTA
19214949 TTTTCAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TAAAATTTAATGATATTTAA
Found at i:19245037 original size:59 final size:59
Alignment explanation
Indices: 19244945--19245113 Score: 320
Period size: 59 Copynumber: 2.9 Consensus size: 59
19244935 ATAATGAGCT
*
19244945 TAAAATTTCAAATATAAAAAAGAAGCAACAAGGTATAAACCAGATTATAAACTAGAATA
1 TAAAATTTCAAATATAAAAAAGAAGCAACAAGGTATAAACCAGATTATAAACCAGAATA
19245004 TAAAATTTCAAATATAAAAAAGAAGCAACAAGGTATAAACCAGATTATAAACCAGAATA
1 TAAAATTTCAAATATAAAAAAGAAGCAACAAGGTATAAACCAGATTATAAACCAGAATA
*
19245063 TAAAATTTCAAATATAAAAAAGAAGCAATAAGGTATAAACCAGATTATAAA
1 TAAAATTTCAAATATAAAAAAGAAGCAACAAGGTATAAACCAGATTATAAA
19245114 ATTTAAGATA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 108 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.22
Consensus pattern (59 bp):
TAAAATTTCAAATATAAAAAAGAAGCAACAAGGTATAAACCAGATTATAAACCAGAATA
Found at i:19245054 original size:12 final size:12
Alignment explanation
Indices: 19245037--19245066 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19245027 AGCAACAAGG
*
19245037 TATAAACCAGAT
1 TATAAACCAGAA
19245049 TATAAACCAGAA
1 TATAAACCAGAA
19245061 TATAAA
1 TATAAA
19245067 ATTTCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.23
Consensus pattern (12 bp):
TATAAACCAGAA
Found at i:19245165 original size:22 final size:22
Alignment explanation
Indices: 19245123--19245165 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
19245113 AATTTAAGAT
*
19245123 AAGAGAAAGTAAGAGAAATTAA
1 AAGAGAAAGTAAGACAAATTAA
*
19245145 AAGAGAATAG-AAGACAGATTA
1 AAGAGAA-AGTAAGACAAATTA
19245166 TAAACCAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.60, C:0.02, G:0.23, T:0.14
Consensus pattern (22 bp):
AAGAGAAAGTAAGACAAATTAA
Found at i:19245269 original size:14 final size:14
Alignment explanation
Indices: 19245250--19245276 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19245240 AAATGGAACT
19245250 GTAAGGCAACAACA
1 GTAAGGCAACAACA
19245264 GTAAGGCAACAAC
1 GTAAGGCAACAAC
19245277 GACAGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.22, G:0.22, T:0.07
Consensus pattern (14 bp):
GTAAGGCAACAACA
Found at i:19245303 original size:59 final size:59
Alignment explanation
Indices: 19245233--19245351 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
19245223 CTTTTGAACG
19245233 ACTAAACAAATGGAACTGTAAGGCAACAACAGTAAGGCAACAACGACAGATTATAAACA
1 ACTAAACAAATGGAACTGTAAGGCAACAACAGTAAGGCAACAACGACAGATTATAAACA
*
19245292 ACTAAACAAATGGAACTGTAAGGCAACAACAGTAAGGCAACAACGATAGATTATAAACA
1 ACTAAACAAATGGAACTGTAAGGCAACAACAGTAAGGCAACAACGACAGATTATAAACA
19245351 A
1 A
19245352 GGTTTTGAAC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.51, C:0.18, G:0.17, T:0.14
Consensus pattern (59 bp):
ACTAAACAAATGGAACTGTAAGGCAACAACAGTAAGGCAACAACGACAGATTATAAACA
Found at i:19245326 original size:14 final size:14
Alignment explanation
Indices: 19245309--19245335 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19245299 AAATGGAACT
19245309 GTAAGGCAACAACA
1 GTAAGGCAACAACA
19245323 GTAAGGCAACAAC
1 GTAAGGCAACAAC
19245336 GATAGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.22, G:0.22, T:0.07
Consensus pattern (14 bp):
GTAAGGCAACAACA
Found at i:19246231 original size:20 final size:20
Alignment explanation
Indices: 19246208--19246246 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
19246198 ATCAATAATT
19246208 AATTAATTT-TTAAAAATATA
1 AATT-ATTTATTAAAAATATA
19246228 AATTATTTATTAAAAATAT
1 AATTATTTATTAAAAATAT
19246247 TATTCAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTATTTATTAAAAATATA
Found at i:19249275 original size:13 final size:13
Alignment explanation
Indices: 19249253--19249281 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
19249243 ATTTGCAGGA
19249253 TTTAAATTTTTTT
1 TTTAAATTTTTTT
19249266 TTT-AATTTTTTT
1 TTTAAATTTTTTT
19249278 TTTA
1 TTTA
19249282 TGGAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.80
13 3 0.20
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTAAATTTTTTT
Found at i:19251009 original size:34 final size:34
Alignment explanation
Indices: 19250966--19251031 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
19250956 TGGTAGGGTG
* *
19250966 TCTATTATTGT-AAGTGGAGTTCTTTCTTGGCATT
1 TCTATTATTGTCAA-TGGAGTTATTGCTTGGCATT
19251000 TCTATTATTGTCAATGGAGTTATTGCTTGGCA
1 TCTATTATTGTCAATGGAGTTATTGCTTGGCA
19251032 GTAAATGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.20, C:0.12, G:0.21, T:0.47
Consensus pattern (34 bp):
TCTATTATTGTCAATGGAGTTATTGCTTGGCATT
Found at i:19257475 original size:23 final size:23
Alignment explanation
Indices: 19257386--19257475 Score: 96
Period size: 23 Copynumber: 4.0 Consensus size: 23
19257376 ACCTGATCAG
*
19257386 TATATGACACAT-AAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
* * *
19257408 -A-ACGACATATGAGGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
* *
19257429 AATACGACATATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
*
19257452 TATACGACACATAAAGTGTCTGA
1 TATACGACACATAAAGTGCCTGA
19257475 T
1 T
19257476 CGGCAAGGCC
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
20 7 0.12
21 10 0.18
22 1 0.02
23 39 0.68
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (23 bp):
TATACGACACATAAAGTGCCTGA
Found at i:19258447 original size:9 final size:9
Alignment explanation
Indices: 19258435--19258483 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
19258425 CTGCTGTTCT
*
19258435 TTTTGTTTC
1 TTTTCTTTC
19258444 TTTTAC-TTC
1 TTTT-CTTTC
19258453 TTTTCTTTC
1 TTTTCTTTC
19258462 TTTTCTTTC
1 TTTTCTTTC
**
19258471 TTTAGTTTC
1 TTTTCTTTC
19258480 TTTT
1 TTTT
19258484 ATTTACTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 1 0.03
9 33 0.97
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.76
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:19258456 original size:18 final size:19
Alignment explanation
Indices: 19258435--19258484 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
19258425 CTGCTGTTCT
19258435 TTTTGTTTCTTTTAC-TTC
1 TTTTGTTTCTTTTACTTTC
*
19258453 TTTTCTTTCTTTT-CTTTC
1 TTTTGTTTCTTTTACTTTC
*
19258471 TTTAGTTTCTTTTA
1 TTTTGTTTCTTTTA
19258485 TTTACTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 26 0.96
ACGTcount: A:0.06, C:0.16, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTTGTTTCTTTTACTTTC
Found at i:19258488 original size:14 final size:14
Alignment explanation
Indices: 19258480--19258509 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19258470 CTTTAGTTTC
19258480 TTTTATTTACTTTA
1 TTTTATTTACTTTA
19258494 TTTTATTTACTTTA
1 TTTTATTTACTTTA
19258508 TT
1 TT
19258510 GTATCTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTATTTACTTTA
Found at i:19263440 original size:11 final size:11
Alignment explanation
Indices: 19263424--19263453 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
19263414 TGTCTCATGC
19263424 TACAGTATCGT
1 TACAGTATCGT
19263435 TACAGTATCGT
1 TACAGTATCGT
19263446 TACAGTAT
1 TACAGTAT
19263454 ATAATCTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (11 bp):
TACAGTATCGT
Found at i:19270764 original size:31 final size:31
Alignment explanation
Indices: 19270729--19270794 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
19270719 AAAATAAAGT
*
19270729 ATAAGTCATGTGGCGTATAAGCTTTAATAAG
1 ATAAGTCATGTGGCATATAAGCTTTAATAAG
19270760 ATAAGTCATGTGGCATATAAGCTTTAATAAG
1 ATAAGTCATGTGGCATATAAGCTTTAATAAG
19270791 ATAA
1 ATAA
19270795 TTTTCATCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (31 bp):
ATAAGTCATGTGGCATATAAGCTTTAATAAG
Found at i:19282976 original size:19 final size:20
Alignment explanation
Indices: 19282940--19282977 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
19282930 CAATTTAAAT
19282940 TTTAAAACCCTAAACCCTAC
1 TTTAAAACCCTAAACCCTAC
*
19282960 TTTAAAA-CCTTAACCCTA
1 TTTAAAACCCTAAACCCTA
19282978 AACCATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (20 bp):
TTTAAAACCCTAAACCCTAC
Found at i:19284334 original size:21 final size:21
Alignment explanation
Indices: 19284310--19284350 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19284300 ATTTTTTCTA
*
19284310 AAGTTAAAAGTCAAAACTATT
1 AAGTTAAAAGGCAAAACTATT
*
19284331 AAGTTAAAAGGCTAAACTAT
1 AAGTTAAAAGGCAAAACTAT
19284351 GTCATTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATT
Found at i:19287720 original size:105 final size:106
Alignment explanation
Indices: 19287596--19287806 Score: 415
Period size: 105 Copynumber: 2.0 Consensus size: 106
19287586 CTGACGTGGC
19287596 GTACACGTAGATGATACATTAACATTTAATTATTTTTAAAATTCAAAAAAATCATAAAATGTTGT
1 GTACACGTAGATGATACATTAACATTTAATTATTTTTAAAATTCAAAAAAATCATAAAATGTTGT
19287661 TTTTGAAAATTAAAAATTACTAAAATTATA-AAAAATATTT
66 TTTTGAAAATTAAAAATTACTAAAATTATATAAAAATATTT
19287701 GTACACGTAGATGATACATTAACATTTAATTATTTTTAAAATTCAAAAAAATCATAAAATGTTGT
1 GTACACGTAGATGATACATTAACATTTAATTATTTTTAAAATTCAAAAAAATCATAAAATGTTGT
19287766 TTTTGAAAATTAAAAATTACTAAAATTATATAAAAATATTT
66 TTTTGAAAATTAAAAATTACTAAAATTATATAAAAATATTT
19287807 TTTAAAATTT
Statistics
Matches: 105, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
105 95 0.90
106 10 0.10
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (106 bp):
GTACACGTAGATGATACATTAACATTTAATTATTTTTAAAATTCAAAAAAATCATAAAATGTTGT
TTTTGAAAATTAAAAATTACTAAAATTATATAAAAATATTT
Found at i:19291337 original size:15 final size:15
Alignment explanation
Indices: 19291304--19291342 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
19291294 AAATTTAGAT
* **
19291304 ATTATTATTATTAGT
1 ATTATTATTATCACA
19291319 ATTATTATTATCACA
1 ATTATTATTATCACA
19291334 ATTATTATT
1 ATTATTATT
19291343 TTCATTGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (15 bp):
ATTATTATTATCACA
Found at i:19292883 original size:17 final size:18
Alignment explanation
Indices: 19292846--19292883 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
19292836 TCTAATATAT
*
19292846 ATATATACAAAATAATTAA
1 ATATATAAAAAATAA-TAA
19292865 ATATATAAAAAATAA-AA
1 ATATATAAAAAATAATAA
19292882 AT
1 AT
19292884 TATGTTAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATATATAAAAAATAATAA
Found at i:19295932 original size:123 final size:123
Alignment explanation
Indices: 19295700--19295945 Score: 271
Period size: 123 Copynumber: 2.0 Consensus size: 123
19295690 ATTTTTTTAA
**
19295700 AATATAGTTTTAATAAACATTACAAAAATATTGATGGTCAATCTAATAGGTCATGTAATGTAAAA
1 AATATAGTTTTAATAAACATTACAAAAATATTGATGGTCAATCTAATAGGTCATCAAATGTAAAA
** * * * * * * *
19295765 AAAAAAAAATCTTTTATCAAATATATATAAACTTTAAAAATTATAAAAGTGGAAATTT
66 AAAAAAAAAGATTATATAAAATAGAAATAAACTATAAAAATTATAAAAATGAAAATTT
* * *
19295823 AATATAGTTTTAATAAACATTACAAAAATATTGATGGTCAATCTAATAGTTTTATCAAATGTATA
1 AATATAGTTTTAATAAACATTACAAAAATATTGATGGTCAATCTAATAG-GTCATCAAATGTAAA
* **** * *
19295888 TAAACTTTAAGATTATA-AAAATGGAAATAAA-TATATAAACTTATAAAAATGAAAATTT
65 AAAAAAAAAAGATTATATAAAATAGAAATAAACTATA-AAAATTATAAAAATGAAAATTT
19295946 TCTAATATAT
Statistics
Matches: 100, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
122 3 0.03
123 78 0.78
124 19 0.19
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (123 bp):
AATATAGTTTTAATAAACATTACAAAAATATTGATGGTCAATCTAATAGGTCATCAAATGTAAAA
AAAAAAAAAGATTATATAAAATAGAAATAAACTATAAAAATTATAAAAATGAAAATTT
Found at i:19296443 original size:6 final size:7
Alignment explanation
Indices: 19296418--19296451 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
19296408 TTTTTGAATT
19296418 TTTTTATA
1 TTTTTA-A
19296426 TTTTTAA
1 TTTTTAA
19296433 TTTTTAA
1 TTTTTAA
19296440 TTTTTAA
1 TTTTTAA
19296447 TTTTT
1 TTTTT
19296452 TTAAGGCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:19296452 original size:8 final size:8
Alignment explanation
Indices: 19296407--19296452 Score: 51
Period size: 7 Copynumber: 5.8 Consensus size: 8
19296397 TTATATACTT
19296407 TTTTTTGAA
1 TTTTTT-AA
*
19296416 TTTTTTTA
1 TTTTTTAA
19296424 TATTTTTAA
1 T-TTTTTAA
19296433 -TTTTTAA
1 TTTTTTAA
19296440 -TTTTTAA
1 TTTTTTAA
19296447 TTTTTT
1 TTTTTT
19296453 TAAGGCTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
7 14 0.42
8 7 0.21
9 12 0.36
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (8 bp):
TTTTTTAA
Found at i:19302523 original size:14 final size:14
Alignment explanation
Indices: 19302504--19302534 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
19302494 AGGAGATGGA
19302504 AAGGATTAAAAGAT
1 AAGGATTAAAAGAT
19302518 AAGGATTAAAAGAT
1 AAGGATTAAAAGAT
19302532 AAG
1 AAG
19302535 ATACAAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.19
Consensus pattern (14 bp):
AAGGATTAAAAGAT
Found at i:19304141 original size:28 final size:28
Alignment explanation
Indices: 19304101--19304156 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
19304091 TAACCAACTA
19304101 CATAAAATATTGTAAAACAATGAAGAGG
1 CATAAAATATTGTAAAACAATGAAGAGG
19304129 CATAAAATATTGTAAAACAATGAAGAGG
1 CATAAAATATTGTAAAACAATGAAGAGG
19304157 GAAACTCCGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.07, G:0.18, T:0.21
Consensus pattern (28 bp):
CATAAAATATTGTAAAACAATGAAGAGG
Found at i:19308105 original size:3 final size:3
Alignment explanation
Indices: 19308099--19308146 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
19308089 ATTACAATAT
19308099 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
19308147 TAATAATAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:19309629 original size:128 final size:129
Alignment explanation
Indices: 19309454--19309698 Score: 298
Period size: 128 Copynumber: 1.9 Consensus size: 129
19309444 TTTGATGCAA
* * * *
19309454 TCTGCTCTACTGTAATTTCAAAGAGATAAGATCCATCATTCTAATCCACTCCGCTACAACCTT-A
1 TCTGCTCTACTGCAACTTCAAAGAGATAAGATCCAACATTCTAATCCACTCCACTACAA-CTTCA
* ** * *
19309518 GGGAGATAGGATTTAT-TTATTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
65 GGGAGATAAGA-TTATCGGATTTAATCGGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
19309582 T
129 T
* ** * * *
19309583 TCTGCTCT-CTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTTCACTGCAACTTCAG
1 TCTGCTCTACTGCAACTTCAAAGAGATAAGATCCAACATTCTAATCCACTCCACTACAACTTCAG
* *
19309647 GGAGATAAGATTATCGGCTTTAATCGGCTCCACTGTAACTTCAGGGAGATAA
66 GGAGATAAGATTATCGGATTTAATCGGCTCCACTGCAACTTCAGGGAGATAA
19309699 AAATTGCCAT
Statistics
Matches: 97, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
127 7 0.07
128 82 0.85
129 8 0.08
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (129 bp):
TCTGCTCTACTGCAACTTCAAAGAGATAAGATCCAACATTCTAATCCACTCCACTACAACTTCAG
GGAGATAAGATTATCGGATTTAATCGGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGT
Found at i:19309669 original size:44 final size:44
Alignment explanation
Indices: 19309591--19309698 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
19309581 GTTCTGCTCT
* * *
19309591 CTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTTCA
1 CTGCAACTTCAGGGAGATAAGATCCAAGGCTTTAATCCACTCCA
* * **
19309635 CTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATCGGCTCCA
1 CTGCAACTTCAGGGAGATAAGATCCA-AGGCTTTAATCCACTCCA
*
19309679 CTGTAACTTCAGGGAGATAA
1 CTGCAACTTCAGGGAGATAA
19309699 AAATTGCCAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 1 0.02
44 54 0.98
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATCCAAGGCTTTAATCCACTCCA
Done.