Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 100 of 203
Found at i:31603145 original size:51 final size:51
Alignment explanation
Indices: 31603071--31603247 Score: 192
Period size: 51 Copynumber: 3.5 Consensus size: 51
31603061 AAGTGGAGTG
* * * *
31603071 GATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCCTTATAGTGGAATA
1 GATTAAAGCTAAAGGCAGAGAATCCTATCTCCTTGGCATTATAGTGGAACA
* * * * * ** ** *
31603122 GATTAAAGCTAAAGGTAGAGAATCTTGTTTCCCTGGTGTTATAGCAGAGCA
1 GATTAAAGCTAAAGGCAGAGAATCCTATCTCCTTGGCATTATAGTGGAACA
* * *
31603173 GATTAAAGCTAAAGGCAGCGAATCCTATCTTCTTGGCATTACAGTGGAACA
1 GATTAAAGCTAAAGGCAGAGAATCCTATCTCCTTGGCATTATAGTGGAACA
*
31603224 GATTAAAGCTAAAGGTAGAGAATC
1 GATTAAAGCTAAAGGCAGAGAATC
31603248 TTGTTTCCCT
Statistics
Matches: 98, Mismatches: 28, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 98 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (51 bp):
GATTAAAGCTAAAGGCAGAGAATCCTATCTCCTTGGCATTATAGTGGAACA
Found at i:31603247 original size:102 final size:102
Alignment explanation
Indices: 31603071--31603305 Score: 362
Period size: 102 Copynumber: 2.3 Consensus size: 102
31603061 AAGTGGAGTG
* * *
31603071 GATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCCTTATAGTGGAATAGATTAAAGCTAAAG
1 GATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCATTACAGTGGAACAGATTAAAGCTAAAG
* *
31603136 GTAGAGAATCTTGTTTCCCTGGTGTTATAGCAGAGCA
66 GTAGAGAATCTTGTTTCCCTGGCGTTACAGCAGAGCA
* *
31603173 GATTAAAGCTAAAGGCAGCGAATCCTATCTTCTTGGCATTACAGTGGAACAGATTAAAGCTAAAG
1 GATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCATTACAGTGGAACAGATTAAAGCTAAAG
* * *
31603238 GTAGAGAATCTTGTTTCCCTGGCGTTGCAGCGGAGTA
66 GTAGAGAATCTTGTTTCCCTGGCGTTACAGCAGAGCA
* *
31603275 GATTAAAGCTGAAGGCAGCAAATCTTATCTC
1 GATTAAAGCTGAAGGCAGCGAATCCTATCTC
31603306 TCTGGTGTTA
Statistics
Matches: 119, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 119 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (102 bp):
GATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCATTACAGTGGAACAGATTAAAGCTAAAG
GTAGAGAATCTTGTTTCCCTGGCGTTACAGCAGAGCA
Found at i:31603278 original size:51 final size:51
Alignment explanation
Indices: 31603121--31603289 Score: 196
Period size: 51 Copynumber: 3.3 Consensus size: 51
31603111 ATAGTGGAAT
* * *
31603121 AGATTAAAGCTAAAGGTAGAGAATCTTGTTTCCCTGGTGTTATAGCAGAGC
1 AGATTAAAGCTAAAGGTAGAGAATCTTGTTTCCCTGGCGTTACAGCGGAGC
* * * * * * * *
31603172 AGATTAAAGCTAAAGGCAGCGAATCCTATCTT-CTTGGCATTACAGTGGAAC
1 AGATTAAAGCTAAAGGTAGAGAATCTTGT-TTCCCTGGCGTTACAGCGGAGC
* *
31603223 AGATTAAAGCTAAAGGTAGAGAATCTTGTTTCCCTGGCGTTGCAGCGGAGT
1 AGATTAAAGCTAAAGGTAGAGAATCTTGTTTCCCTGGCGTTACAGCGGAGC
*
31603274 AGATTAAAGCTGAAGG
1 AGATTAAAGCTAAAGG
31603290 CAGCAAATCT
Statistics
Matches: 94, Mismatches: 22, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
50 2 0.02
51 90 0.96
52 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (51 bp):
AGATTAAAGCTAAAGGTAGAGAATCTTGTTTCCCTGGCGTTACAGCGGAGC
Found at i:31603299 original size:51 final size:51
Alignment explanation
Indices: 31603065--31603302 Score: 185
Period size: 51 Copynumber: 4.7 Consensus size: 51
31603055 AAGCTGAAGT
* * * * * * * * *
31603065 GGAGTGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCCTTATAGT
1 GGAGTAGATTAAAGCTAAAGGCAGCAAATCTTATTTCCCTGGCGTTACAGC
* * * * *
31603116 GGAATAGATTAAAGCTAAAGGTAG-AGAATCTTGTTTCCCTGGTGTTATAGC
1 GGAGTAGATTAAAGCTAAAGGCAGCA-AATCTTATTTCCCTGGCGTTACAGC
* * * * * * *
31603167 AGAGCAGATTAAAGCTAAAGGCAGCGAATCCTATCTT-CTTGGCATTACAGT
1 GGAGTAGATTAAAGCTAAAGGCAGCAAATCTTAT-TTCCCTGGCGTTACAGC
** * * *
31603218 GGAACAGATTAAAGCTAAAGGTAG-AGAATCTTGTTTCCCTGGCGTTGCAGC
1 GGAGTAGATTAAAGCTAAAGGCAGCA-AATCTTATTTCCCTGGCGTTACAGC
*
31603269 GGAGTAGATTAAAGCTGAAGGCAGCAAATCTTAT
1 GGAGTAGATTAAAGCTAAAGGCAGCAAATCTTAT
31603303 CTCTCTGGTG
Statistics
Matches: 142, Mismatches: 39, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
50 2 0.01
51 137 0.96
52 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (51 bp):
GGAGTAGATTAAAGCTAAAGGCAGCAAATCTTATTTCCCTGGCGTTACAGC
Found at i:31608464 original size:22 final size:22
Alignment explanation
Indices: 31608439--31608480 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
31608429 TATTTTAAAA
*
31608439 TATTTTTAAAATACTTTTTTTT
1 TATTTTTAAAATAATTTTTTTT
31608461 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTT
31608481 GGTGTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTTTAAAATAATTTTTTTT
Found at i:31608492 original size:23 final size:22
Alignment explanation
Indices: 31608439--31608494 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
31608429 TATTTTAAAA
* **
31608439 TATTTTTAAAATACTTTTTTTT
1 TATTTTTAAAATAATTTTTTGG
31608461 TATTTTTAAAATAATTTTTTGG
1 TATTTTTAAAATAATTTTTTGG
*
31608483 TGTTTATTAAAA
1 TATTT-TTAAAA
31608495 AATGGGCCGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 23 0.79
23 6 0.21
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (22 bp):
TATTTTTAAAATAATTTTTTGG
Found at i:31608871 original size:48 final size:48
Alignment explanation
Indices: 31608781--31608919 Score: 149
Period size: 48 Copynumber: 3.0 Consensus size: 48
31608771 AAACATATCT
* * * *
31608781 TCCAAACACAA-C-TAAACATACCCTCC-AACACAACCAATTATACCC
1 TCCAAACACAACCATATATATAACCTCCAAACACAACCAAGTATACCC
* ** * *
31608826 TTCAAACACAACTTTATTTATAACCTCCAAACCCAACCAAGTATACCC
1 TCCAAACACAACCATATATATAACCTCCAAACACAACCAAGTATACCC
* * *
31608874 TCCATACACAACCATATATATAACCTCCAAAAAAAACCAAGTATAC
1 TCCAAACACAACCATATATATAACCTCCAAACACAACCAAGTATAC
31608920 TTACTATTTT
Statistics
Matches: 75, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
45 10 0.13
47 10 0.13
48 55 0.73
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (48 bp):
TCCAAACACAACCATATATATAACCTCCAAACACAACCAAGTATACCC
Found at i:31608893 original size:23 final size:23
Alignment explanation
Indices: 31608754--31608919 Score: 100
Period size: 23 Copynumber: 7.1 Consensus size: 23
31608744 TAAAACTATC
* * **
31608754 ACCCACCAAACATAACCAAACAT
1 ACCCTCCAAACACAACCAAGTAT
* * * **
31608777 ATCTTCCAAACACAACTAAACAT
1 ACCCTCCAAACACAACCAAGTAT
*
31608800 ACCCTCC-AACACAACCAATTAT
1 ACCCTCCAAACACAACCAAGTAT
* * **
31608822 ACCCTTCAAACACAACTTTATTTAT
1 ACCCTCCAAACACAAC--CAAGTAT
* *
31608847 AACCTCCAAACCCAACCAAGTAT
1 ACCCTCCAAACACAACCAAGTAT
* *
31608870 ACCCTCCATACACAACCATATATAT
1 ACCCTCCAAACACAACCA-A-GTAT
* * *
31608895 AACCTCCAAAAAAAACCAAGTAT
1 ACCCTCCAAACACAACCAAGTAT
31608918 AC
1 AC
31608920 TTACTATTTT
Statistics
Matches: 109, Mismatches: 29, Indels: 10
0.74 0.20 0.07
Matches are distributed among these distances:
22 18 0.17
23 54 0.50
24 2 0.02
25 35 0.32
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.19
Consensus pattern (23 bp):
ACCCTCCAAACACAACCAAGTAT
Found at i:31608901 original size:25 final size:23
Alignment explanation
Indices: 31608781--31608918 Score: 98
Period size: 25 Copynumber: 5.9 Consensus size: 23
31608771 AAACATATCT
* ** *
31608781 TCCAAACACAACTAAACATACCC
1 TCCAAACACAACCAATTATAACC
*
31608804 TCC-AACACAACCAATTATACCC
1 TCCAAACACAACCAATTATAACC
* * *
31608826 TTCAAACACAACTTTATTTATAACC
1 TCCAAACACAAC--CAATTATAACC
* * *
31608851 TCCAAACCCAACCAAGTATACCC
1 TCCAAACACAACCAATTATAACC
*
31608874 TCCATACACAACCATATATATAACC
1 TCCAAACACAACCA-AT-TATAACC
* * *
31608899 TCCAAAAAAAACCAAGTATA
1 TCCAAACACAACCAATTATA
31608919 CTTACTATTT
Statistics
Matches: 89, Mismatches: 21, Indels: 10
0.74 0.17 0.08
Matches are distributed among these distances:
22 18 0.20
23 34 0.38
24 2 0.02
25 35 0.39
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.20
Consensus pattern (23 bp):
TCCAAACACAACCAATTATAACC
Found at i:31611757 original size:20 final size:19
Alignment explanation
Indices: 31611730--31611771 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
31611720 CTTTCCAAAT
31611730 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
31611749 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
31611769 TTT
1 TTT
31611772 ACTTTCTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:31613939 original size:21 final size:21
Alignment explanation
Indices: 31613913--31613980 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
31613903 CCATAAGGGT
31613913 TAAACGGAAGCTCGAAAGAGC
1 TAAACGGAAGCTCGAAAGAGC
* * * * * *
31613934 TGAACGAAAACTCGTATGAGT
1 TAAACGGAAGCTCGAAAGAGC
* *
31613955 TAAACAGAAGCTCGAAAAAGC
1 TAAACGGAAGCTCGAAAGAGC
31613976 TAAAC
1 TAAAC
31613981 AGAAAGTAAA
Statistics
Matches: 33, Mismatches: 14, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (21 bp):
TAAACGGAAGCTCGAAAGAGC
Found at i:31613939 original size:42 final size:42
Alignment explanation
Indices: 31613857--31613985 Score: 125
Period size: 42 Copynumber: 3.1 Consensus size: 42
31613847 CATGAGACCT
* * * *
31613857 AAACCCATAAGGGTTGAACAGAAGCTTGTAATAG-TAGAACGG
1 AAACCCATAAGGGTTAAACAGAAGCTCGAAAAAGCT-GAACGG
* * *
31613899 AAACCCATAAGGGTTAAACGGAAGCTCGAAAGAGCTGAACGA
1 AAACCCATAAGGGTTAAACAGAAGCTCGAAAAAGCTGAACGG
* * * * * *
31613941 AAACTCGTATGAGTTAAACAGAAGCTCGAAAAAGCTAAACAG
1 AAACCCATAAGGGTTAAACAGAAGCTCGAAAAAGCTGAACGG
31613983 AAA
1 AAA
31613986 GTAAAACATG
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 70 0.99
43 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.16
Consensus pattern (42 bp):
AAACCCATAAGGGTTAAACAGAAGCTCGAAAAAGCTGAACGG
Found at i:31618662 original size:25 final size:25
Alignment explanation
Indices: 31618634--31618803 Score: 96
Period size: 25 Copynumber: 6.8 Consensus size: 25
31618624 TCATGTACAT
*
31618634 GTATACTCA-TACGAGCTGT-GAATCG
1 GTATACTCACT-CGAGCTGTAG-ATCA
*
31618659 GTATGCTCACTCGAGCTGTAGATCA
1 GTATACTCACTCGAGCTGTAGATCA
* * * *
31618684 GTATACTCTCCCGAGCTATAAATCTA
1 GTATACTCACTCGAGCTGTAGATC-A
* * * *
31618710 -TATGCTTACTCGATCTCTAGATCA
1 GTATACTCACTCGAGCTGTAGATCA
* * *
31618734 GTATGCTTACTCGAGCTGCAGATCA
1 GTATACTCACTCGAGCTGTAGATCA
* * * *
31618759 GTTATGCTCTCTCGAGCTATAAATC-
1 G-TATACTCACTCGAGCTGTAGATCA
* *
31618784 GATATGCTCACACGAGCTGT
1 G-TATACTCACTCGAGCTGT
31618804 GGAGTATCCG
Statistics
Matches: 114, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
24 1 0.01
25 92 0.81
26 21 0.18
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (25 bp):
GTATACTCACTCGAGCTGTAGATCA
Found at i:31618995 original size:21 final size:20
Alignment explanation
Indices: 31618970--31619022 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
31618960 TCGGTAATTT
* *
31618970 TATATGACAATTCATAACATA
1 TATAT-ACAATTAAAAACATA
*
31618991 TATATTTCAATTAAAAACATA
1 TATA-TACAATTAAAAACATA
*
31619012 TAAATACAATT
1 TATATACAATT
31619023 TAATTACACA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 6 0.23
21 19 0.73
22 1 0.04
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (20 bp):
TATATACAATTAAAAACATA
Found at i:31619327 original size:11 final size:11
Alignment explanation
Indices: 31619307--31619336 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
31619297 ATTTTTAAAA
31619307 AAAAAGTATTTT
1 AAAAA-TATTTT
31619319 AAAAATATTTT
1 AAAAATATTTT
31619330 AAAAATA
1 AAAAATA
31619337 AAAAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:31623532 original size:23 final size:23
Alignment explanation
Indices: 31623506--31623551 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
31623496 TTGAATATTC
31623506 GAAATATTGAAAG-TGAAAGGTTG
1 GAAA-ATTGAAAGTTGAAAGGTTG
* *
31623529 GAAAATTTAAAGTTGAAATGTTG
1 GAAAATTGAAAGTTGAAAGGTTG
31623552 TCCAAATGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.30
Consensus pattern (23 bp):
GAAAATTGAAAGTTGAAAGGTTG
Found at i:31623812 original size:69 final size:70
Alignment explanation
Indices: 31623680--31623812 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
31623670 TAGTTTATTA
* * * * *
31623680 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
31623745 CTTAG
66 CTTAG
31623750 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
31623813 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:31626295 original size:47 final size:47
Alignment explanation
Indices: 31626242--31626654 Score: 709
Period size: 47 Copynumber: 8.7 Consensus size: 47
31626232 TTAGGATTCT
31626242 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
31626289 ATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
31626336 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
31626385 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
31626432 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
31626479 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
31626526 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
31626573 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
31626620 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
31626655 TCCCGAAGGG
Statistics
Matches: 350, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 304 0.87
49 46 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:31629701 original size:20 final size:20
Alignment explanation
Indices: 31629676--31629713 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
31629666 TGTTATTTTA
*
31629676 TTAATAAAATAAATAAAAGG
1 TTAATAAAATAAAGAAAAGG
31629696 TTAATAAAATAAAGAAAA
1 TTAATAAAATAAAGAAAA
31629714 CATGATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (20 bp):
TTAATAAAATAAAGAAAAGG
Found at i:31663733 original size:29 final size:29
Alignment explanation
Indices: 31663688--31663743 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
31663678 AGGGGGATAA
* *
31663688 AATAGAATCAAATTCATTAACCAAAAGGG
1 AATAGAATCAAATTCATCAAACAAAAGGG
*
31663717 AATAGTATCACAA-TCATCAAACAAAAG
1 AATAGAATCA-AATTCATCAAACAAAAG
31663744 AACAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 21 0.91
30 2 0.09
ACGTcount: A:0.54, C:0.16, G:0.11, T:0.20
Consensus pattern (29 bp):
AATAGAATCAAATTCATCAAACAAAAGGG
Found at i:31677621 original size:124 final size:124
Alignment explanation
Indices: 31677401--31677654 Score: 499
Period size: 124 Copynumber: 2.0 Consensus size: 124
31677391 ACTAATTCTC
*
31677401 AACCTTTAAACTATACAAAACTACATGTTTCTAGGTTTCAAATTTTTTTACAAGTTTTGGCCATT
1 AACCTTTAAACTATACAAAACTACATGTTTCAAGGTTTCAAATTTTTTTACAAGTTTTGGCCATT
31677466 ATGATGAAAATTCATTAAAACTTGAGAATTCATTAACTAAACTTCAAAGTAACTTTAGA
66 ATGATGAAAATTCATTAAAACTTGAGAATTCATTAACTAAACTTCAAAGTAACTTTAGA
31677525 AACCTTTAAACTATACAAAACTACATGTTTCAAGGTTTCAAATTTTTTTACAAGTTTTGGCCATT
1 AACCTTTAAACTATACAAAACTACATGTTTCAAGGTTTCAAATTTTTTTACAAGTTTTGGCCATT
31677590 ATGATGAAAATTCATTAAAACTTGAGAATTCATTAACTAAACTTCAAAGTAACTTTAGA
66 ATGATGAAAATTCATTAAAACTTGAGAATTCATTAACTAAACTTCAAAGTAACTTTAGA
31677649 AACCTT
1 AACCTT
31677655 CTAATTATGT
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 129 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (124 bp):
AACCTTTAAACTATACAAAACTACATGTTTCAAGGTTTCAAATTTTTTTACAAGTTTTGGCCATT
ATGATGAAAATTCATTAAAACTTGAGAATTCATTAACTAAACTTCAAAGTAACTTTAGA
Found at i:31679277 original size:16 final size:17
Alignment explanation
Indices: 31679258--31679300 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
31679248 AATTTTTATA
*
31679258 AAATATTATT-TATTTT
1 AAATATTATTATATGTT
31679274 AAATATTACTTATATGTT
1 AAATATTA-TTATATGTT
*
31679292 ATATATTAT
1 AAATATTAT
31679301 ACATTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 8 0.35
17 3 0.13
18 12 0.52
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
AAATATTATTATATGTT
Found at i:31684503 original size:41 final size:41
Alignment explanation
Indices: 31684438--31684548 Score: 177
Period size: 41 Copynumber: 2.7 Consensus size: 41
31684428 CCTTTTGGGG
** *
31684438 CTTTAGCGGCGTTTTTATAAAAGCGCCGCTAATTCTCGGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCGGGT
* *
31684479 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCGGGT
31684520 CTTTAGCGGCGTTTTTGGAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGC
31684549 AAAAACATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.17, C:0.23, G:0.29, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCGGGT
Found at i:31684999 original size:7 final size:7
Alignment explanation
Indices: 31684987--31685026 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
31684977 GGGTTGTGAT
31684987 TTAGGGG
1 TTAGGGG
31684994 TTAGGGG
1 TTAGGGG
31685001 TTAGGGG
1 TTAGGGG
*
31685008 TTAGGGA
1 TTAGGGG
*
31685015 TT-CGGG
1 TTAGGGG
31685021 TTAGGG
1 TTAGGG
31685027 TTTAAATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.15, C:0.03, G:0.53, T:0.30
Consensus pattern (7 bp):
TTAGGGG
Found at i:31685097 original size:7 final size:7
Alignment explanation
Indices: 31685083--31685114 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
31685073 GAGGTTAGTA
31685083 GTTAGGG
1 GTTAGGG
*
31685090 GTTTGGG
1 GTTAGGG
31685097 GTTAGGG
1 GTTAGGG
31685104 GTTAGGG
1 GTTAGGG
31685111 GTTA
1 GTTA
31685115 AGAGTTAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.53, T:0.34
Consensus pattern (7 bp):
GTTAGGG
Found at i:31685121 original size:21 final size:21
Alignment explanation
Indices: 31685083--31685122 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
31685073 GAGGTTAGTA
** *
31685083 GTTAGGGGTTTGGGGTTAGGG
1 GTTAGGGGTTAAGAGTTAGGG
31685104 GTTAGGGGTTAAGAGTTAG
1 GTTAGGGGTTAAGAGTTAG
31685123 TAATTTAAGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (21 bp):
GTTAGGGGTTAAGAGTTAGGG
Found at i:31685756 original size:27 final size:27
Alignment explanation
Indices: 31685717--31685770 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
31685707 TTACATGTTG
31685717 AAATTAATGAAGGGAATGTAAACAAGA
1 AAATTAATGAAGGGAATGTAAACAAGA
*
31685744 AAATTAATTAAGGGAATGTAAACAAGA
1 AAATTAATGAAGGGAATGTAAACAAGA
31685771 GAAAAGAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.56, C:0.04, G:0.20, T:0.20
Consensus pattern (27 bp):
AAATTAATGAAGGGAATGTAAACAAGA
Found at i:31688920 original size:43 final size:43
Alignment explanation
Indices: 31688872--31688966 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
31688862 TTCAGGATAC
* * * *
31688872 TTTATTACCAAGATTTCCTTGATTAAGTAAATGTATTATATCT
1 TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTATATAT
*
31688915 TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATAT
1 TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTATATAT
31688958 TTTATTACC
1 TTTATTACC
31688967 TTGCATATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (43 bp):
TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTATATAT
Found at i:31689285 original size:43 final size:43
Alignment explanation
Indices: 31689237--31689399 Score: 222
Period size: 43 Copynumber: 3.8 Consensus size: 43
31689227 AAGATAAGTT
* *
31689237 TTTAGCGGCGTTTTTGTGAAAAGCGTCGCTAAAGGTACTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTACTGGTC
31689280 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGT-CATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTAC-TGGTC
* *
31689323 TATAGCGGCGTTTGTGGGAAAAGTG-CTGCTAAAGGTACTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGTC-GCTAAAGGTACTGGTC
* * * *
31689366 TTTAGCGGCGTTTATGGTAAAAGCGCCGCAAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAG
31689400 TTAGCGACGC
Statistics
Matches: 107, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
42 2 0.02
43 103 0.96
44 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.33, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTACTGGTC
Found at i:31692248 original size:26 final size:29
Alignment explanation
Indices: 31692213--31692268 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 29
31692203 ATAATATCAT
31692213 TTTATTATTAA-A-ATATTA-TCAAAATA
1 TTTATTATTAATATATATTATTCAAAATA
*
31692239 TTTATTATTAATATATATTATTTAAAATA
1 TTTATTATTAATATATATTATTCAAAATA
31692268 T
1 T
31692269 CACCAACATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 11 0.42
27 1 0.04
28 6 0.23
29 8 0.31
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTATTATTAATATATATTATTCAAAATA
Found at i:31693340 original size:16 final size:16
Alignment explanation
Indices: 31693319--31693352 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
31693309 AACTTATGGT
31693319 TTCTTTATACTTTTAG
1 TTCTTTATACTTTTAG
31693335 TTCTTTATACTTTTAG
1 TTCTTTATACTTTTAG
31693351 TT
1 TT
31693353 GGGGAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCTTTATACTTTTAG
Found at i:31702343 original size:29 final size:29
Alignment explanation
Indices: 31702309--31702367 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
31702299 AGTTTCTTTT
31702309 GAACATTAATTATTATCCAATGTGCTATG
1 GAACATTAATTATTATCCAATGTGCTATG
31702338 GAACATTAATTATTATCCAATGTGCTATG
1 GAACATTAATTATTATCCAATGTGCTATG
31702367 G
1 G
31702368 CTAAGAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (29 bp):
GAACATTAATTATTATCCAATGTGCTATG
Found at i:31706397 original size:25 final size:26
Alignment explanation
Indices: 31706363--31706412 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
31706353 TAGGTTAGGG
31706363 TTAGGATTTTCCTTTTCATTTTTAGT
1 TTAGGATTTTCCTTTTCATTTTTAGT
* *
31706389 TTAGG-TTTTCTTTTTCCTTTTTAG
1 TTAGGATTTTCCTTTTCATTTTTAG
31706413 AGTAGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.64
Consensus pattern (26 bp):
TTAGGATTTTCCTTTTCATTTTTAGT
Found at i:31706422 original size:25 final size:25
Alignment explanation
Indices: 31706367--31706422 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
31706357 TTAGGGTTAG
**
31706367 GATTTTCCTTTTCATTTTTAGTTTA
1 GATTTTCCTTTTCATTTTTAGAGTA
* * *
31706392 GGTTTTCTTTTTCCTTTTTAGAGTA
1 GATTTTCCTTTTCATTTTTAGAGTA
31706417 GATTTT
1 GATTTT
31706423 ATTCTTGTAG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.14, C:0.11, G:0.12, T:0.62
Consensus pattern (25 bp):
GATTTTCCTTTTCATTTTTAGAGTA
Found at i:31709237 original size:17 final size:17
Alignment explanation
Indices: 31709211--31709243 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31709201 TTTTGTTCTA
31709211 AAAAAACAAAAAAAAAG
1 AAAAAACAAAAAAAAAG
*
31709228 AAAAAGCAAAAAAAAA
1 AAAAAACAAAAAAAAA
31709244 TGTTTGATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAAACAAAAAAAAAG
Found at i:31719334 original size:113 final size:113
Alignment explanation
Indices: 31719202--31719431 Score: 433
Period size: 113 Copynumber: 2.0 Consensus size: 113
31719192 ATTATTAACG
*
31719202 TATTTCAAGAAAACCATTTAACAAGATTTTACTCTTGATTTCCTTATAATTTTCATCACATTGGA
1 TATTTCAAGAAAACCATTTAACAAGATTTTACTATTGATTTCCTTATAATTTTCATCACATTGGA
31719267 GGCACATAAGCCAAAAGAGAATGTAGTGTACTTTATCAATATAATGAA
66 GGCACATAAGCCAAAAGAGAATGTAGTGTACTTTATCAATATAATGAA
*
31719315 TATTTCAAGAAAACCATTTAACAAGATTTTACTATTGATTTCCTTATATTTTTCATCACATTGGA
1 TATTTCAAGAAAACCATTTAACAAGATTTTACTATTGATTTCCTTATAATTTTCATCACATTGGA
*
31719380 GGCACATAAGCCAAAAGAGAATGTGGTGTACTTTATCAATATAATGAA
66 GGCACATAAGCCAAAAGAGAATGTAGTGTACTTTATCAATATAATGAA
31719428 TATT
1 TATT
31719432 CTTACTTTTC
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 114 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (113 bp):
TATTTCAAGAAAACCATTTAACAAGATTTTACTATTGATTTCCTTATAATTTTCATCACATTGGA
GGCACATAAGCCAAAAGAGAATGTAGTGTACTTTATCAATATAATGAA
Found at i:31720261 original size:57 final size:57
Alignment explanation
Indices: 31720086--31720373 Score: 255
Period size: 56 Copynumber: 5.1 Consensus size: 57
31720076 ATTTTTCAAT
* * * * * * *
31720086 AGCAT-AATAATGCTTACTTTGAGACACTGAAGCAACA-CTTTAATTTAATTTAGGAC
1 AGCATGAA-AATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGAC
* * ** *
31720142 AGCAT-AATAATACTCAATTTGAAACATTAAAACATTAGGC--TAATTTAATTTAAGAC
1 AGCATGAA-AATGCTCAATTTGAAACACTAAAACAACA-GCTTTAATTCAATTTAAGAC
* * * * * *
31720198 AACATGAAAATGCTCAATTTGATACACTAAAATAGCAACTTTAATTCAATTTATGAC
1 AGCATGAAAATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGAC
* *
31720255 AGCATGAAAATGCTCAATTTGAAACACTAAAATAACAGC-TTGATTCAATTTAAGAC
1 AGCATGAAAATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGAC
* * * ** * * *
31720311 AGTAAGGAAATGCTCAATTTGATGCACTCAAACAACAGCTTTAATTCAATTTATGAT
1 AGCATGAAAATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGAC
31720368 AGCATG
1 AGCATG
31720374 CAAACAGTAA
Statistics
Matches: 188, Mismatches: 38, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
55 1 0.01
56 117 0.62
57 69 0.37
58 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (57 bp):
AGCATGAAAATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGAC
Found at i:31720271 original size:113 final size:114
Alignment explanation
Indices: 31720094--31720373 Score: 307
Period size: 113 Copynumber: 2.5 Consensus size: 114
31720084 ATAGCATAAT
* * * * * * *
31720094 AATGCTTACTTTGAGACACTGAAGCAAC-ACTTTAATTTAATTTAGGACAGCAT-AATAATACTC
1 AATGCTCAATTTGATACACTAAAACAACAACTTTAATTCAATTTATGACAGCATGAATAATACTC
* ** * *
31720157 AATTTGAAACATTAAAACATTAGGC-TAATTTAATTTAAGACAACATGAA
66 AATTTGAAACACTAAAACAACA-GCTTAATTCAATTTAAGACAACAAGAA
* * *
31720206 AATGCTCAATTTGATACACTAAAATAGCAACTTTAATTCAATTTATGACAGCATGAA-AATGCTC
1 AATGCTCAATTTGATACACTAAAACAACAACTTTAATTCAATTTATGACAGCATGAATAATACTC
* * ** *
31720270 AATTTGAAACACTAAAATAACAGCTTGATTCAATTTAAGACAGTAAGGA
66 AATTTGAAACACTAAAACAACAGCTTAATTCAATTTAAGACAACAAGAA
* * * *
31720319 AATGCTCAATTTGATGCACTCAAACAACAGCTTTAATTCAATTTATGATAGCATG
1 AATGCTCAATTTGATACACTAAAACAACAACTTTAATTCAATTTATGACAGCATG
31720374 CAAACAGTAA
Statistics
Matches: 139, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
112 23 0.17
113 114 0.82
114 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (114 bp):
AATGCTCAATTTGATACACTAAAACAACAACTTTAATTCAATTTATGACAGCATGAATAATACTC
AATTTGAAACACTAAAACAACAGCTTAATTCAATTTAAGACAACAAGAA
Found at i:31724498 original size:79 final size:81
Alignment explanation
Indices: 31724362--31724546 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
31724352 TTGAATGATG
* *
31724362 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
31724426 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
31724441 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
31724503 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
31724521 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31724547 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:31724560 original size:40 final size:40
Alignment explanation
Indices: 31724363--31724546 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
31724353 TGAATGATGT
* * * *
31724363 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
31724403 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
31724443 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
31724481 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
31724522 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
31724547 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:31724568 original size:79 final size:79
Alignment explanation
Indices: 31724363--31724579 Score: 192
Period size: 79 Copynumber: 2.7 Consensus size: 79
31724353 TGAATGATGT
** * * * ** *
31724363 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCAAT
*
31724426 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
31724443 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
*
31724508 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
31724522 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
31724580 TACGTGATTT
Statistics
Matches: 115, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 70 0.61
80 42 0.37
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
GCGAGATACTAATA
Found at i:31731469 original size:47 final size:47
Alignment explanation
Indices: 31731416--31731826 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
31731406 TTAGGATTCT
31731416 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
31731463 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
31731510 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
31731557 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
31731604 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
31731651 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
31731698 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
31731745 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
31731792 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
31731827 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:31732001 original size:37 final size:37
Alignment explanation
Indices: 31731945--31732023 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31731935 CCGAGCTCTA
* * *
31731945 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
31731982 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31732019 AAGAC
1 AAGAC
31732024 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31735195 original size:22 final size:22
Alignment explanation
Indices: 31735165--31735209 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
31735155 TAGTTTTAGG
*
31735165 TTTAGTTTTCTTTA-GGTTTTC
1 TTTAGTTTTCTTTACAGTTTTC
31735186 TTTAGTTTTTCTTTACAGTTTTC
1 TTTAG-TTTTCTTTACAGTTTTC
31735209 T
1 T
31735210 AGGAGTTTTT
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:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (22 bp):
TTTAGTTTTCTTTACAGTTTTC
Found at i:31735207 original size:13 final size:11
Alignment explanation
Indices: 31735165--31735200 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
31735155 TAGTTTTAGG
31735165 TTTAG-TTTTC
1 TTTAGTTTTTC
*
31735175 TTTAGGTTTTC
1 TTTAGTTTTTC
31735186 TTTAGTTTTTC
1 TTTAGTTTTTC
31735197 TTTA
1 TTTA
31735201 CAGTTTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.21
11 19 0.79
ACGTcount: A:0.11, C:0.08, G:0.11, T:0.69
Consensus pattern (11 bp):
TTTAGTTTTTC
Found at i:31739913 original size:20 final size:19
Alignment explanation
Indices: 31739888--31739930 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
31739878 CTAAAGAAGT
* *
31739888 AAATGCAATTGAAAGTAATG
1 AAATGCAAATGAAAATAA-G
31739908 AAATGCAAATGAAAATAAG
1 AAATGCAAATGAAAATAAG
31739927 AAAT
1 AAAT
31739931 TTTGAAAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.21
Consensus pattern (19 bp):
AAATGCAAATGAAAATAAG
Found at i:31740398 original size:15 final size:16
Alignment explanation
Indices: 31740378--31740407 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31740368 TGGTGCCTTG
31740378 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
31740393 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
31740408 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:31746683 original size:21 final size:21
Alignment explanation
Indices: 31746657--31746712 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
31746647 CACCTACAGT
*
31746657 GGTATAACGATATCCATTTTG
1 GGTATAACGATATCCACTTTG
*
31746678 GGTATAGCGATATCCACTTTG
1 GGTATAACGATATCCACTTTG
* *
31746699 GGTATCACAATATC
1 GGTATAACGATATC
31746713 TACCTTCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (21 bp):
GGTATAACGATATCCACTTTG
Found at i:31771736 original size:49 final size:47
Alignment explanation
Indices: 31771515--31771807 Score: 514
Period size: 47 Copynumber: 6.1 Consensus size: 47
31771505 CCCTTCGGGA
* * * *
31771515 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31771562 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31771609 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31771656 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31771703 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31771752 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31771801 CTTATCA
1 CTTATCA
31771808 ACATGTTTTG
Statistics
Matches: 240, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
47 145 0.60
49 95 0.40
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31776933 original size:13 final size:13
Alignment explanation
Indices: 31776904--31776942 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
31776894 TTTTGGGTTC
*
31776904 ACACAGCC-TGGG
1 ACACAGCCATGTG
*
31776916 ACACAGGCATGTG
1 ACACAGCCATGTG
31776929 ACACAGCCATGTG
1 ACACAGCCATGTG
31776942 A
1 A
31776943 GGCACACGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.31, C:0.28, G:0.28, T:0.13
Consensus pattern (13 bp):
ACACAGCCATGTG
Found at i:31778292 original size:41 final size:39
Alignment explanation
Indices: 31778170--31778303 Score: 103
Period size: 41 Copynumber: 3.4 Consensus size: 39
31778160 ACCAGTTTGG
* ** * *
31778170 CACCTAGTGCCTCATCGGATAATTTGAAGTAATAAATTAA
1 CACCCAGTGCCTCATC-GATAATCCGAAGTAGTAAATTGA
* * * * *
31778210 CACTCAGTGTCTCATCGGCTAAACCG-A--AGTAAATTGG
1 CACCCAGTGCCTCATC-GATAATCCGAAGTAGTAAATTGA
31778247 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCG-A-TAATCCGAAGTAGTAAATTGA
* *
31778288 CACCCAATGTCTCATC
1 CACCCAGTGCCTCATC
31778304 AACTCGAAGT
Statistics
Matches: 72, Mismatches: 17, Indels: 9
0.73 0.17 0.09
Matches are distributed among these distances:
36 1 0.01
37 21 0.29
38 6 0.08
39 2 0.03
40 19 0.26
41 23 0.32
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGATAATCCGAAGTAGTAAATTGA
Found at i:31778508 original size:24 final size:24
Alignment explanation
Indices: 31778463--31778509 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
31778453 TATATATACC
31778463 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
31778487 AATTC-ATCATATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
31778510 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:31785561 original size:42 final size:41
Alignment explanation
Indices: 31785482--31785676 Score: 236
Period size: 42 Copynumber: 4.8 Consensus size: 41
31785472 AAATATATTT
* * *
31785482 ATTTTTTTTATTTTAAAATATTTTTTACATAC-TTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
*
31785522 TTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTTTA
*
31785564 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
* **
31785605 ATTCTTTTAATTTTAAAATATTTTT-AAATA-TTTTTAAAATA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT--TTTA
* *
31785646 CTTTTTTTAATTTTTTAAA-ATTTTTAAAATA
1 ATTTTTTTAA-TTTTAAAATATTTTTAAAATA
31785677 AAAATGGGCC
Statistics
Matches: 136, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 5 0.04
40 33 0.24
41 47 0.35
42 51 0.38
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (41 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTA
Found at i:31785651 original size:82 final size:82
Alignment explanation
Indices: 31785482--31785676 Score: 252
Period size: 82 Copynumber: 2.4 Consensus size: 82
31785472 AAATATATTT
* * * * *
31785482 ATTTTTTTTATTTTAAAATATTTTTTACATACTTTTTTTATTTTTTTTAATTTTAAAATATTTTT
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAATTCTTTTAATTTTAAAATATTTTT
***
31785547 AAAATACTTTTTTTTTA
66 AAAATACTTTTTAAATA
31785564 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAATTCTTTTAATTTTAAAATATTTT
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT-AATTCTTTTAATTTTAAAATATTTT
31785629 T-AAATA-TTTTTAAAATA
65 TAAAATACTTTTT-AAATA
* *
31785646 CTTTTTTTAATTTTTTAAA-ATTTTTAAAATA
1 ATTTTTTTAA-TTTTAAAATATTTTTAAAATA
31785677 AAAATGGGCC
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
81 5 0.05
82 64 0.64
83 31 0.31
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (82 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAATTCTTTTAATTTTAAAATATTTTT
AAAATACTTTTTAAATA
Found at i:31786425 original size:19 final size:20
Alignment explanation
Indices: 31786389--31786426 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
31786379 ACTTGTGCAA
*
31786389 TTTTTATATCAAACCCAAAC
1 TTTTAATATCAAACCCAAAC
*
31786409 TTTTAATAT-AAATCCAAA
1 TTTTAATATCAAACCCAAA
31786427 AAAAAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTTAATATCAAACCCAAAC
Found at i:31793644 original size:20 final size:20
Alignment explanation
Indices: 31793605--31793644 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
31793595 TTATTTTTTA
**
31793605 TTAATTATTTTTTTTCATAT
1 TTAATTATTTTTTTAAATAT
31793625 TTAATTATTTTTTTAAATAT
1 TTAATTATTTTTTTAAATAT
31793645 ATGTATATAT
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:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTAATTATTTTTTTAAATAT
Found at i:31797933 original size:24 final size:24
Alignment explanation
Indices: 31797906--31797951 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
31797896 AGAACAGTCC
* *
31797906 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
31797930 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
31797952 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:31806113 original size:44 final size:43
Alignment explanation
Indices: 31806061--31806876 Score: 480
Period size: 44 Copynumber: 18.8 Consensus size: 43
31806051 GATCGCATCT
31806061 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* *
31806105 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGACAGACTGAAGATGGTA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACT-AAGA-AGCA
* * *
31806150 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAA-AA-CAAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC--A
* * * * * * * *
31806193 TAATCCTATCTCTCTGAAGTTGAAGTGGAGCGGATTAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * * *
31806237 GGATCTTATCTCTCTGAAGTTGTC-G-GAAGCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTG-CAGTGGAGCAGACTAAGAAGCA
31806278 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * *
31806322 AGTCTTATCTTCCTGAAGTTGCAGT-GAGGCAAACTGAAGATGGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
* * * *
31806367 AATCTTATCTCCCTGAAGTTGAAGTGGAGTAGATTAA-AA-CAAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC--A
* * * * * *
31806410 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * * *
31806454 AGATCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
*
31806495 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGCAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* *
31806539 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAAACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
* * * ** *
31806584 AATCTTATTTCCCTGAAGTTGTAGTGGAGCAGGTTAA-AACCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * *
31806627 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * * *
31806671 GGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCA-CATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
*
31806712 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGCAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
*
31806756 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
* * *
31806801 AATCTTATCTCCC-GAAGTTGCAGTGGAGCAGATTAA-AACCAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * *
31806843 TAATCCTATCTCCTTGAAGTTGCAATGGAGCAGA
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
31806877 TTAGAACCAC
Statistics
Matches: 617, Mismatches: 101, Indels: 108
0.75 0.12 0.13
Matches are distributed among these distances:
39 1 0.00
40 60 0.10
41 32 0.05
42 17 0.03
43 52 0.08
44 332 0.54
45 113 0.18
46 10 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:31806328 original size:84 final size:85
Alignment explanation
Indices: 31806061--31806832 Score: 364
Period size: 89 Copynumber: 8.9 Consensus size: 85
31806051 GATCGCATCT
* * * * *
31806061 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTT
1 AGTCTTATCTCTCTGAAGTTGCAGTGAAGCAGA-TAA--CATCTAGTCTTATCTC-CCTGAAGTT
* *
31806125 GCAGT-GAGACAGACTGAAG-ATGGTA
62 GCAGTGGAG-CAGACT-AAGCA-AGCA
* * * * ** * * *
31806150 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAATAATCCTATCTCTCTGAAGTTG
1 AGTCTTATCTCTCTGAAGTTGCAGTGAAGCAGA-T--AACATCTAGTCTTATCTCCCTGAAGTTG
* * * * *
31806215 AAGTGGAGCGGATTAA--AACCTT
63 CAGTGGAGCAGACTAAGCAAGC-A
* **
31806237 GGATCTTATCTCTCTGAAGTTGTC-G-GAAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGC
1 AG-TCTTATCTCTCTGAAGTTG-CAGTGAAGCAGATAACATCTAGTCTTATCTCCCTGAAGTTGC
31806300 AGTGGAGCAGACTAAGCAAGCA
64 AGTGGAGCAGACTAAGCAAGCA
* * * * *
31806322 AGTCTTATCT-TCCTGAAGTTGCAGTGAGGCAAACTGAAGATGGCAAATCTTATCTCCCTGAAGT
1 AGTCTTATCTCT-CTGAAGTTGCAGTGAAGCAGA-T-AACAT--CTAGTCTTATCTCCCTGAAGT
* * * * **
31806386 TGAAGTGGAGTAGATTAAAACAAATA
61 TGCAGTGGAGCAGACT-AAGCAAGCA
* * * * * * * *
31806412 A-TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTAAAGTTG
1 AGTCTTATCTCTCTGAAGTTGCAGTGAAGCAGA-TAACATC-TAG-TCTTATCTCCCTGAAGTTG
* * * *
31806476 CAG-AGAGCAGA-T-CGC-ATCT
63 CAGTGGAGCAGACTAAGCAAGCA
* * *
31806495 AGTCTTATCTCCCTGAAGTTGCAGT-AGAGCAGACTAAGCAAGCAAGTCTTATC-CTCCTGAAGT
1 AGTCTTATCTCTCTGAAGTTGCAGTGA-AGCAGA-TAA-C-ATCTAGTCTTATCTC-CCTGAAGT
* *
31806558 TGCAGT-GAGGCAAACTGAAG-ATGGCA
61 TGCAGTGGA-GCAGACT-AAGCA-AGCA
* * * * * * * * * *
31806584 AATCTTATTTCCCTGAAGTTGTAGTGGAGCAGGTTAAAACCGATAATCCTATCTCCCTGAAGTTG
1 AGTCTTATCTCTCTGAAGTTGCAGTGAAGCA-GATAACATC--TAGTCTTATCTCCCTGAAGTTG
* * * *
31806649 CAGTGGAGCGGATTAA--AACCTT
63 CAGTGGAGCAGACTAAGCAAGC-A
* * *
31806671 GGATCTTATCTCTCTGAAGTTGCAGAG-AGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCA
1 AG-TCTTATCTCTCTGAAGTTGCAGTGAAGCAGATAACATCTAGTCTTATCTCCCTGAAGTTGCA
*
31806735 GTAGAGCAGACTAAGCAAGCA
65 GTGGAGCAGACTAAGCAAGCA
* * * *
31806756 AGTCTTATC-CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCC-GAAGT
1 AGTCTTATCTCT-CTGAAGTTGCAGTGAAGCAGA-T-AACAT--CTAGTCTTATCTCCCTGAAGT
31806819 TGCAGTGGAGCAGA
61 TGCAGTGGAGCAGA
31806833 TTAAAACCAA
Statistics
Matches: 511, Mismatches: 124, Indels: 97
0.70 0.17 0.13
Matches are distributed among these distances:
83 7 0.01
84 156 0.31
85 19 0.04
86 20 0.04
87 27 0.05
88 83 0.16
89 182 0.36
90 15 0.03
91 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (85 bp):
AGTCTTATCTCTCTGAAGTTGCAGTGAAGCAGATAACATCTAGTCTTATCTCCCTGAAGTTGCAG
TGGAGCAGACTAAGCAAGCA
Found at i:31806360 original size:217 final size:217
Alignment explanation
Indices: 31805979--31806963 Score: 1523
Period size: 217 Copynumber: 4.5 Consensus size: 217
31805969 AAAGCCAATG
* * * *
31805979 ATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAATCAC--AGATCTTATCTCTCTGAAGTTG
1 ATCCTATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAAC-CTTGGATCTTATCTCTCTGAAGTTG
* *
31806042 TAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
65 CAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAG
* * *
31806107 TCTTATCCTCCTGAAGTTGCAGTGAGACAGACTGAAGATGGTAAATCTTATCTCCCTGAAGTTAC
130 TCTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATGGCAAATCTTATCTCCCTGAAGTTAC
31806172 AGTGGAGCAGATTAAAACAAATA
195 AGTGGAGCAGATTAAAACAAATA
*
31806195 ATCCTATCTCTCTGAAGTTGAAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGT
1 ATCCTATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTG-
*
31806260 CGGA-AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAG
65 CAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAG
*
31806324 TCTTATCTTCCTGAAGTTGCAGTGAGGCAAACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGA
130 TCTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATGGCAAATCTTATCTCCCTGAAGTT-A
*
31806389 -AGTGGAGTAGATTAAAACAAATA
194 CAGTGGAGCAGATTAAAACAAATA
* * *
31806412 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTAAAGTTGC
1 ATCCTATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGC
*
31806477 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGCAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGT
* **
31806542 CTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATGGCAAATCTTATTTCCCTGAAGTTGTA
131 CTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATGGCAAATCTTATCTCCCTGAAGTTACA
* **
31806607 GTGGAGCAGGTTAAAACCGATA
196 GTGGAGCAGATTAAAACAAATA
*
31806629 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGC
* *
31806694 AGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGCAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGT
* *
31806759 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCC-GAAGTTGCA
131 CTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATGGCAAATCTTATCTCCCTGAAGTTACA
*
31806823 GTGGAGCAGATTAAAACCAATA
196 GTGGAGCAGATTAAAACAAATA
* * *
31806845 ATCCTATCTCCTTGAAGTTGCAA-TGGAGCAGATTAGAACCACAAATCATGGATCTTATCTCTCT
1 ATCCTATCTCCCTGAAGTTG-AAGTGGAGCGGATTA-AA--AC----CTTGGATCTTATCTCTCT
* *
31806909 GAAGTTGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGAGGAG
58 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
31806964 TAGATTGAAG
Statistics
Matches: 715, Mismatches: 40, Indels: 21
0.92 0.05 0.03
Matches are distributed among these distances:
215 1 0.00
216 96 0.13
217 543 0.76
218 3 0.00
219 2 0.00
223 70 0.10
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (217 bp):
ATCCTATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGC
AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGT
CTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATGGCAAATCTTATCTCCCTGAAGTTACA
GTGGAGCAGATTAAAACAAATA
Found at i:31806545 original size:261 final size:262
Alignment explanation
Indices: 31806278--31806832 Score: 577
Period size: 261 Copynumber: 2.1 Consensus size: 262
31806268 GATCGCATCT
*
31806278 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCA-AGCAAGTCTTATCTT-CCTGAAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-ATAGCAAATCTTAT-TTCCCTGAAG
* ** * *
31806340 TTGCAGT-GAGGCAAACTGAAGATGGCA-AATCTTATCTCCCTGAAGTTGAAGTGGAGTAGATTA
64 TTGCAGTGGA-GC-AACTGAAAACCG-ATAATCCTATCTCCCTGAAGTTGAAGTGGAGCAGATTA
* * *
31806403 AAACAAAT-AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCT
126 AAAC-AATGAATCCTATCTCCCTGAAGTTGCAG-AGAGCAGA-TAAAACC-TAG-TCTTATCTCC
* * *
31806467 CTAAAGTTGCAG-AGAGCAGA-T-CGC-ATCTAGTCTTAT-CTCCCTGAAGTTGCAGT-AGAGCA
186 CTAAAGTTGCAGTAGAGCAGACTAAGCAAGCAAGTCTTATCCT-CCTGAAGTTGCAGTGAG-GCA
31806526 GACT-AAGCA-AGCA
249 GACTGAAG-ATAGCA
* *
31806539 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAAACTGAAGATGGCAAATCTTATTTCCCTGAAG
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTGAAGATAGCAAATCTTATTTCCCTGAAG
* ** * * *
31806602 TTGTAGTGGAGCAGGTTAAAACCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
64 TTGCAGTGGAGCAACTGAAAACCGATAATCCTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAA
** * * * * * * *
31806667 CCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTT
129 CAATGAATCCTATCTCCCTGAAGTTGCAGAGAGCAGATAAAACCTAGTCTTATCTCCCTAAAGTT
31806732 GCAGTAGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
194 GCAGTAGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGAT
*
31806797 GGCA
259 AGCA
*
31806801 AATCTTATCTCCC-GAAGTTGCAGTGGAGCAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
31806833 TTAAAACCAA
Statistics
Matches: 244, Mismatches: 32, Indels: 36
0.78 0.10 0.12
Matches are distributed among these distances:
257 20 0.08
258 11 0.05
259 5 0.02
260 13 0.05
261 142 0.58
262 50 0.20
263 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (262 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTT
GCAGTGGAGCAACTGAAAACCGATAATCCTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAACA
ATGAATCCTATCTCCCTGAAGTTGCAGAGAGCAGATAAAACCTAGTCTTATCTCCCTAAAGTTGC
AGTAGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATAG
CA
Found at i:31806877 original size:44 final size:43
Alignment explanation
Indices: 31806801--31806885 Score: 125
Period size: 44 Copynumber: 2.0 Consensus size: 43
31806791 GAAGATGGCA
* *
31806801 AATCTTATCTCCCGAAGTTGCAGTGGAGCAGATTAAAACCAAT
1 AATCCTATCTCCCGAAGTTGCAATGGAGCAGATTAAAACCAAT
* *
31806844 AATCCTATCTCCTTGAAGTTGCAATGGAGCAGATTAGAACCA
1 AATCCTATCTCC-CGAAGTTGCAATGGAGCAGATTAAAACCA
31806886 CAAATCATGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 11 0.30
44 26 0.70
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (43 bp):
AATCCTATCTCCCGAAGTTGCAATGGAGCAGATTAAAACCAAT
Found at i:31808346 original size:23 final size:23
Alignment explanation
Indices: 31808319--31808365 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
31808309 TTATTTACAG
31808319 TTCAAATTAGTCCTTTTTCATTT
1 TTCAAATTAGTCCTTTTTCATTT
31808342 TTCAAATTAGTCCTTTTTCATTT
1 TTCAAATTAGTCCTTTTTCATTT
31808365 T
1 T
31808366 CTTTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.04, T:0.57
Consensus pattern (23 bp):
TTCAAATTAGTCCTTTTTCATTT
Found at i:31808398 original size:26 final size:28
Alignment explanation
Indices: 31808361--31808422 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 28
31808351 GTCCTTTTTC
*
31808361 ATTTTCTTTATT-TTTTT-TA-TTAATT
1 ATTTTTTTTATTCTTTTTATATTTAATT
31808386 AGTTTTTTTTATTCTTTTTCATATTTAATT
1 A-TTTTTTTTATTCTTTTT-ATATTTAATT
31808416 ATTTTTT
1 ATTTTTT
31808423 AAAAATATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 1 0.03
26 10 0.32
27 5 0.16
29 8 0.26
30 7 0.23
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (28 bp):
ATTTTTTTTATTCTTTTTATATTTAATT
Found at i:31808928 original size:35 final size:35
Alignment explanation
Indices: 31808889--31808959 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
31808879 TTACATTTAA
31808889 TGTTTTGCATGTCATGGATTATTGTTTTTTTATTT
1 TGTTTTGCATGTCATGGATTATTGTTTTTTTATTT
31808924 TGTTTTGCATGTCATGGATTATTGTTTTTTTATTT
1 TGTTTTGCATGTCATGGATTATTGTTTTTTTATTT
31808959 T
1 T
31808960 TCGTCTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.14, C:0.06, G:0.17, T:0.63
Consensus pattern (35 bp):
TGTTTTGCATGTCATGGATTATTGTTTTTTTATTT
Found at i:31809017 original size:15 final size:15
Alignment explanation
Indices: 31808994--31809026 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
31808984 TTTTTATGTC
31808994 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
31809009 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
31809024 ATT
1 ATT
31809027 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:31810493 original size:2 final size:2
Alignment explanation
Indices: 31810488--31810529 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
31810478 CTTCATCAAG
31810488 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
31810530 GTACAGATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:31814498 original size:27 final size:27
Alignment explanation
Indices: 31814427--31814499 Score: 71
Period size: 29 Copynumber: 2.7 Consensus size: 27
31814417 ACTTCAAATA
31814427 AATG-TATTATAAAATATATTTAAACT
1 AATGATATTATAAAATATATTTAAACT
* *
31814453 AATGAAAATAT-AAATATATTTTACCAACT
1 AATGATATTATAAAATATA-TTTA--AACT
*
31814482 TAT-ATATTATAAAATATA
1 AATGATATTATAAAATATA
31814500 AATATGTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 11 0.30
27 8 0.22
28 5 0.14
29 13 0.35
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (27 bp):
AATGATATTATAAAATATATTTAAACT
Found at i:31816664 original size:11 final size:11
Alignment explanation
Indices: 31816646--31816788 Score: 97
Period size: 11 Copynumber: 13.8 Consensus size: 11
31816636 AAAAAAGTAC
31816646 TTTAAAATTAT
1 TTTAAAATTAT
31816657 TTTAAAATTA-
1 TTTAAAATTAT
* *
31816667 --AAAAAGTAT
1 TTTAAAATTAT
*
31816676 TTTAAAAATAT
1 TTTAAAATTAT
*
31816687 TTTAAAAATAT
1 TTTAAAATTAT
31816698 TTTAAAATTA-
1 TTTAAAATTAT
* *
31816708 --AAAAAGTAT
1 TTTAAAATTAT
*
31816717 TTTAAAAATAT
1 TTTAAAATTAT
*
31816728 TTTAAAAATAT
1 TTTAAAATTAT
31816739 TTTAAAATTA-
1 TTTAAAATTAT
**
31816749 -AAAAAATT-T
1 TTTAAAATTAT
** *
31816758 TAAAAAAGTAT
1 TTTAAAATTAT
*
31816769 TTTAAAAGTAT
1 TTTAAAATTAT
31816780 TTTAAAATT
1 TTTAAAATT
31816789 TAAAAAATTA
Statistics
Matches: 107, Mismatches: 16, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
8 12 0.11
9 6 0.06
10 7 0.07
11 82 0.77
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.43
Consensus pattern (11 bp):
TTTAAAATTAT
Found at i:31816691 original size:41 final size:41
Alignment explanation
Indices: 31816637--31816813 Score: 241
Period size: 41 Copynumber: 4.2 Consensus size: 41
31816627 AAAATTAAAA
* *
31816637 AAAAAGTACTTTAAAATTATTTTAAAATTAAAAAAGTATTTT
1 AAAAA-TATTTTAAAAATATTTTAAAATTAAAAAAGTATTTT
31816679 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAGTATTTT
1 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAGTATTTT
31816720 AAAAATATTTTAAAAATATTTTAAAATTAAAAAA--ATTTT
1 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAGTATTTT
* * **
31816759 AAAAAAGTATTTTAAAAGTATTTTAAAATTTAAAAAATTAAAATT
1 -AAAAA-TATTTTAAAAATATTTTAAAA-TTAAAAAAGT-ATTTT
31816804 AAAAATATTT
1 AAAAATATTT
31816814 ATTATATTCG
Statistics
Matches: 124, Mismatches: 5, Indels: 11
0.89 0.04 0.08
Matches are distributed among these distances:
39 5 0.04
40 5 0.04
41 88 0.71
42 13 0.10
43 5 0.04
44 5 0.04
45 3 0.02
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (41 bp):
AAAAATATTTTAAAAATATTTTAAAATTAAAAAAGTATTTT
Found at i:31816730 original size:52 final size:51
Alignment explanation
Indices: 31816667--31816786 Score: 129
Period size: 52 Copynumber: 2.3 Consensus size: 51
31816657 TTTAAAATTA
***
31816667 AAAAAGTATTTTAAAAATATTTTAAAAATATTTTAAAA-TTAAAAAAGTATTTT
1 AAAAA-TATTTTAAAAATATTTT-AAAAT-TAAAAAAATTTAAAAAAGTATTTT
31816720 AAAAATAT-TT-TAAAAATATTTTAAAATTAAAAAAATTTTAAAAAAGTATTTT
1 -AAAA-ATATTTTAAAAATATTTTAAAATTAAAAAAA-TTTAAAAAAGTATTTT
*
31816772 AAAAGTATTTTAAAA
1 AAAAATATTTTAAAA
31816787 TTTAAAAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
50 6 0.11
51 11 0.19
52 32 0.56
53 2 0.04
54 5 0.09
55 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (51 bp):
AAAAATATTTTAAAAATATTTTAAAATTAAAAAAATTTAAAAAAGTATTTT
Found at i:31816794 original size:30 final size:30
Alignment explanation
Indices: 31816637--31816794 Score: 110
Period size: 30 Copynumber: 5.2 Consensus size: 30
31816627 AAAATTAAAA
* * *
31816637 AAAAAGTACTTTAAAATTATTTTAAAATTA
1 AAAAAGTATTTTAAAAGTATTTTAAAATTT
*
31816667 AAAAAGTATTTTAAAAATATTTTAAAAATATT
1 AAAAAGTATTTTAAAAGTATTTT-AAAAT-TT
** **
31816699 TTAAA--ATTAAAAAAGTATTTTAAAAATATTTT
1 AAAAAGTATTTTAAAAGTATTTT--AAA-A-TTT
***
31816731 AAAAA-TATTTTAAAA-T-TAAAAAAATTTT
1 AAAAAGTATTTTAAAAGTATTTTAAAA-TTT
31816759 AAAAAAGTATTTTAAAAGTATTTTAAAATTT
1 -AAAAAGTATTTTAAAAGTATTTTAAAATTT
31816790 AAAAA
1 AAAAA
31816795 ATTAAAATTA
Statistics
Matches: 100, Mismatches: 18, Indels: 20
0.72 0.13 0.14
Matches are distributed among these distances:
28 5 0.05
29 8 0.08
30 49 0.49
31 14 0.14
32 16 0.16
33 8 0.08
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (30 bp):
AAAAAGTATTTTAAAAGTATTTTAAAATTT
Found at i:31818604 original size:49 final size:49
Alignment explanation
Indices: 31818544--31818641 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
31818534 CACCATTTGA
*
31818544 CATCTGCACTCAGAAAAAAGAATGAGGGGATTCTTACACATATTAAAGG
1 CATCTGCACTCAGAAAAAAGAATGAGGAGATTCTTACACATATTAAAGG
31818593 CATCTGCACTCAGAAAAAAGAATGAGGAGATTCTTACACATATTAAAGG
1 CATCTGCACTCAGAAAAAAGAATGAGGAGATTCTTACACATATTAAAGG
31818642 TAAAACTATC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.22
Consensus pattern (49 bp):
CATCTGCACTCAGAAAAAAGAATGAGGAGATTCTTACACATATTAAAGG
Found at i:31819441 original size:19 final size:18
Alignment explanation
Indices: 31819413--31819448 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
31819403 AACCCACAAA
31819413 CAAAAACAGAAACCAAAGT
1 CAAAAACAGAAA-CAAAGT
*
31819432 CAAAACCAGAAACAAAG
1 CAAAAACAGAAACAAAG
31819449 AAGGTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.64, C:0.22, G:0.11, T:0.03
Consensus pattern (18 bp):
CAAAAACAGAAACAAAGT
Found at i:31825886 original size:20 final size:21
Alignment explanation
Indices: 31825855--31825896 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
31825845 CTTTGTACCA
31825855 ATTTGTAACATT-CAAGAATAC
1 ATTTGTAACATTCCAA-AATAC
31825876 ATTTG-AACATTCCAAAATAC
1 ATTTGTAACATTCCAAAATAC
31825896 A
1 A
31825897 CAATTCAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (21 bp):
ATTTGTAACATTCCAAAATAC
Found at i:31826996 original size:30 final size:30
Alignment explanation
Indices: 31826960--31827372 Score: 517
Period size: 30 Copynumber: 13.8 Consensus size: 30
31826950 GTATATGTTT
* *
31826960 TATACATTGCCGAATTAATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
* * *
31826990 TATACATTACAGAATTGATTTGTATAT--A
1 TATACATTGCCGAATTGATTTGTATTTGGA
* * *
31827018 TATACATTGCCGAATTGATTGGTATATAGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
* * *
31827048 TCTACAATGCCGAATTGATTTATATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
* *
31827078 TATACATTGCCAAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
* *
31827108 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
*
31827138 TATACATTACCGAATTGATTTGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
* *
31827168 TATACATTGTCGAATTGATTGGTATATT-GA
1 TATACATTGCCGAATTGATTTGTAT-TTGGA
* *
31827198 TATACATTGCTGAATTGATTTGTATTCGGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
* *
31827228 TATACATTACCGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
* ** * *
31827258 TATATATTGTTGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
* * *
31827288 TATTCATTTCTGAATTGATTTGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
31827318 TATACATTGCCGAATTGATTTGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATTTGGA
*
31827348 TATGCATTGCCGAATTGATTTGTAT
1 TATACATTGCCGAATTGATTTGTAT
31827373 ATGAATACAT
Statistics
Matches: 325, Mismatches: 54, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
28 25 0.08
29 1 0.00
30 297 0.91
31 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATTTGGA
Found at i:31834685 original size:49 final size:49
Alignment explanation
Indices: 31834645--31834761 Score: 207
Period size: 49 Copynumber: 2.4 Consensus size: 49
31834635 AGGCTTATGA
* *
31834645 AAGGTAATAATAAAACTCTTTTCCTAGATGCATAGGGGGAGGCTCACGG
1 AAGGTAATAACAAAACCCTTTTCCTAGATGCATAGGGGGAGGCTCACGG
*
31834694 AAGGTAATAACAAAACCCTTTTCCTAGATGCATAGGGGGAGACTCACGG
1 AAGGTAATAACAAAACCCTTTTCCTAGATGCATAGGGGGAGGCTCACGG
31834743 AAGGTAATAACAAAACCCT
1 AAGGTAATAACAAAACCCT
31834762 GCTACCAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (49 bp):
AAGGTAATAACAAAACCCTTTTCCTAGATGCATAGGGGGAGGCTCACGG
Found at i:31834781 original size:49 final size:49
Alignment explanation
Indices: 31834672--31834855 Score: 160
Period size: 49 Copynumber: 3.8 Consensus size: 49
31834662 CTTTTCCTAG
* * * *
31834672 ATGCATAGGGGGAGGCTCACGGAAGGTAATAACAAAACCCT-TTTCCTAG
1 ATGCATAGGGGGAGACTCACGGAAGGTAATAACAAAACCCTGCTACC-AA
31834721 ATGCATAGGGGGAGACTCACGGAAGGTAATAACAAAACCCTGCTACCAA
1 ATGCATAGGGGGAGACTCACGGAAGGTAATAACAAAACCCTGCTACCAA
* * * * * * *
31834770 ATGTATTGGGGGA-AGCTTAGGGAA-GTAATAATAAAACTCTGCTCCCAA
1 ATGCATAGGGGGAGA-CTCACGGAAGGTAATAACAAAACCCTGCTACCAA
** * ** *
31834818 ACACAT-GAGGGGAGACTTACAAAAGGTAATAATAAAAC
1 ATGCATAG-GGGGAGACTCACGGAAGGTAATAACAAAAC
31834856 TCATTATTGG
Statistics
Matches: 113, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
47 1 0.01
48 36 0.32
49 73 0.65
50 3 0.03
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (49 bp):
ATGCATAGGGGGAGACTCACGGAAGGTAATAACAAAACCCTGCTACCAA
Found at i:31836384 original size:21 final size:19
Alignment explanation
Indices: 31836355--31836393 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
31836345 CATCAACATT
*
31836355 TTAACACATTTATCAACCAAC
1 TTAAAACATTT-T-AACCAAC
31836376 TTAAAACATTTTAACCAA
1 TTAAAACATTTTAACCAA
31836394 ACCAAAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 10 0.59
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (19 bp):
TTAAAACATTTTAACCAAC
Found at i:31838565 original size:19 final size:20
Alignment explanation
Indices: 31838523--31838565 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
31838513 TCATGCTTTC
*
31838523 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
31838543 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
31838561 TATTC
1 TATTC
31838566 CACAATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:31839366 original size:22 final size:24
Alignment explanation
Indices: 31839324--31839367 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
31839314 TAACTAAGTT
31839324 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
31839348 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
31839368 TCTTGTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:31839728 original size:11 final size:11
Alignment explanation
Indices: 31839692--31839722 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
31839682 TTAGTTTCTC
31839692 CTTT-TTCTTT
1 CTTTCTTCTTT
31839702 CTTTCTTCTTT
1 CTTTCTTCTTT
31839713 CTTTCTTCTT
1 CTTTCTTCTT
31839723 ATTTTCGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
CTTTCTTCTTT
Found at i:31840117 original size:31 final size:31
Alignment explanation
Indices: 31840065--31840126 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
31840055 ATCATTTATT
*
31840065 TTATTTATCACACAAAAATCTTATAATTTAA
1 TTATTTATCACACAAAAATCTTATAACTTAA
* * *
31840096 TTATTTATCTA-ATAAATATCTTTTAACTTAA
1 TTATTTATC-ACACAAAAATCTTATAACTTAA
31840127 AATTTAAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (31 bp):
TTATTTATCACACAAAAATCTTATAACTTAA
Found at i:31840308 original size:132 final size:128
Alignment explanation
Indices: 31840045--31840308 Score: 275
Period size: 130 Copynumber: 2.0 Consensus size: 128
31840035 ATTTATGCCA
* * *
31840045 TACATTTGTCATCATTTATTTTATTTATCACACAAAAATCTTATAATTTAATTATTTATCTAATA
1 TACAATTGTCATCATCTAATTTATTTATCACACAAAAATCTTATAATTTAATTATTTATCTAATA
* * *** * *
31840110 AATATCTTTTAACTTAAAATTTAAGTAATTATATATTTATTTTACATTTGTACTAATATTTTTAT
66 AATATCTTCTAAC-T-AAATTTAAATAATTATATACAAATTTTACATTTCTACTAATATTTGTAT
* * * *
31840175 TACAATTGTCATTATCTAATTTGTTTATCATACCAAAAATCTTATAATTTTAATTATTTATTTAA
1 TACAATTGTCATCATCTAATTTATTTATCACA-CAAAAATCTTATAA-TTTAATTATTTATCTAA
*
31840240 TAAATATCTATCTAA-T-AATTTAATATAATTAT-TACAAATGTTTATATTTCTA-TCAATACAT
64 TAAATATCT-TCTAACTAAATTTAA-ATAATTATATACAAAT-TTTACATTTCTACT-AAT--AT
31840301 TTGTAT
123 TTGTAT
31840307 TA
1 TA
31840309 AATCACTACC
Statistics
Matches: 111, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
129 12 0.11
130 46 0.41
131 15 0.14
132 34 0.31
133 4 0.04
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (128 bp):
TACAATTGTCATCATCTAATTTATTTATCACACAAAAATCTTATAATTTAATTATTTATCTAATA
AATATCTTCTAACTAAATTTAAATAATTATATACAAATTTTACATTTCTACTAATATTTGTAT
Found at i:31840857 original size:21 final size:21
Alignment explanation
Indices: 31840833--31840875 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
31840823 TAAATTTAAC
*
31840833 TCAATTTAATACAATTCATAT
1 TCAATTCAATACAATTCATAT
*
31840854 TCAATTCAATCCAATTCATAT
1 TCAATTCAATACAATTCATAT
31840875 T
1 T
31840876 TTAGGCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (21 bp):
TCAATTCAATACAATTCATAT
Found at i:31842887 original size:18 final size:19
Alignment explanation
Indices: 31842853--31842890 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
31842843 AATAATTTTC
31842853 AAAAATTCTAAATATTTAT
1 AAAAATTCTAAATATTTAT
31842872 AAAAATTCTAAA-ATTTAT
1 AAAAATTCTAAATATTTAT
31842890 A
1 A
31842891 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTCTAAATATTTAT
Found at i:31846012 original size:71 final size:71
Alignment explanation
Indices: 31845896--31846037 Score: 230
Period size: 71 Copynumber: 2.0 Consensus size: 71
31845886 TCTTTTCAAA
* * * * *
31845896 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCGTGATCCT
1 CTCAAGTTTTAAACAATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
31845961 TTTTTT
66 TTTTTT
*
31845967 CTCAAGTTTTAAACAATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTATTGGGCATGATCCC
1 CTCAAGTTTTAAACAATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
31846032 TTTTTT
66 TTTTTT
31846038 AAATCTGAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (71 bp):
CTCAAGTTTTAAACAATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
TTTTTT
Found at i:31848788 original size:31 final size:30
Alignment explanation
Indices: 31848753--31848836 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 30
31848743 AACACCAAAA
**
31848753 AAAAATTTAGAAAATTAAAAAAAAGTATTTT
1 AAAAATTTTTAAAA-TAAAAAAAAGTATTTT
*
31848784 AAAAATATTTTAAAA-ATAAAAAAGTATTTT
1 AAAAAT-TTTTAAAATAAAAAAAAGTATTTT
31848814 AAAATATTTTTAAAAATAAAAAA
1 AAAA-ATTTTT-AAAATAAAAAA
31848837 TATATATTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
30 22 0.49
31 12 0.27
32 11 0.24
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (30 bp):
AAAAATTTTTAAAATAAAAAAAAGTATTTT
Found at i:31848792 original size:11 final size:11
Alignment explanation
Indices: 31848772--31848831 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
31848762 GAAAATTAAA
31848772 AAAAAGTATTTT
1 AAAAA-TATTTT
31848784 AAAAATATTTT
1 AAAAATATTTT
31848795 AAAAATA----
1 AAAAATATTTT
31848802 AAAAAGTATTTT
1 AAAAA-TATTTT
31848814 -AAAATATTTTT
1 AAAAATA-TTTT
31848825 AAAAATA
1 AAAAATA
31848832 AAAAATATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
10 2 0.05
11 21 0.51
12 11 0.27
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:31848817 original size:29 final size:31
Alignment explanation
Indices: 31848771--31848836 Score: 118
Period size: 30 Copynumber: 2.2 Consensus size: 31
31848761 AGAAAATTAA
31848771 AAAAAAGTATTTTAAAAATA-TTTTAAAAAT
1 AAAAAAGTATTTTAAAAATATTTTTAAAAAT
31848801 AAAAAAGTATTTT-AAAATATTTTTAAAAAT
1 AAAAAAGTATTTTAAAAATATTTTTAAAAAT
31848831 AAAAAA
1 AAAAAA
31848837 TATATATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 6 0.17
30 29 0.83
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (31 bp):
AAAAAAGTATTTTAAAAATATTTTTAAAAAT
Found at i:31850854 original size:15 final size:16
Alignment explanation
Indices: 31850834--31850867 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
31850824 AATCATTTAA
31850834 AAATTATAAAAAT-AT
1 AAATTATAAAAATGAT
*
31850849 AAATTATTAAAATGAT
1 AAATTATAAAAATGAT
31850865 AAA
1 AAA
31850868 AATATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATGAT
Found at i:31864355 original size:16 final size:16
Alignment explanation
Indices: 31864336--31864373 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
31864326 TTTTAATAAA
31864336 ATTAAAACTAATTGTT
1 ATTAAAACTAATTGTT
*
31864352 ATTAAAATTAATTGTT
1 ATTAAAACTAATTGTT
*
31864368 AGTAAA
1 ATTAAA
31864374 TTTATCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (16 bp):
ATTAAAACTAATTGTT
Found at i:31864357 original size:22 final size:23
Alignment explanation
Indices: 31864307--31864362 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
31864297 CCCGTTTTTA
* *
31864307 ATTAAAATTAAAAATATTTTTTT
1 ATTAAAATTAAAAATATATTGTT
* *
31864330 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAAATATATTGTT
31864352 ATTAAAATTAA
1 ATTAAAATTAA
31864363 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTAAAATTAAAAATATATTGTT
Found at i:31864434 original size:59 final size:59
Alignment explanation
Indices: 31864366--31864491 Score: 243
Period size: 59 Copynumber: 2.1 Consensus size: 59
31864356 AAATTAATTG
*
31864366 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGA
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGA
31864425 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGA
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGA
31864484 TTAGTAAA
1 TTAGTAAA
31864492 ACAAACTTGA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 66 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (59 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGA
Found at i:31864599 original size:24 final size:24
Alignment explanation
Indices: 31864557--31864602 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
31864547 AAATAAACTT
*
31864557 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAAATATTATATTTTA
31864581 AAAATAAAAAAA-ATATATATTT
1 AAAATAAAAAAATAT-TATATTT
31864603 AATATTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATAAAAAAATATTATATTTTA
Found at i:31865943 original size:12 final size:12
Alignment explanation
Indices: 31865900--31865946 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 12
31865890 TGGGAAAGTG
*
31865900 AAAAATAAAACT
1 AAAATTAAAACT
31865912 AAAAATTAAAAACTT
1 -AAAATT-AAAAC-T
31865927 AAAATTAAAACT
1 AAAATTAAAACT
31865939 AAAATTAA
1 AAAATTAA
31865947 CTATTATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 9 0.29
13 10 0.32
14 11 0.35
15 1 0.03
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATTAAAACT
Found at i:31867348 original size:90 final size:90
Alignment explanation
Indices: 31867254--31867579 Score: 456
Period size: 90 Copynumber: 3.6 Consensus size: 90
31867244 TTGTATCTCC
*
31867254 AAATTTAATTTAGCCCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCCA
1 AAATTTAATTTAGCCCGTATTATATATAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCCA
31867319 TCTGTTTGTAGTTTGTTGGGTGTTT
66 TCTGTTTGTAGTTTGTTGGGTGTTT
* * * * * * *
31867344 AAATTTAATTTAGTCTGTGTTATATATAGTTTGAATTTAAAAATTTCGTGCACTAATTTTATCCA
1 AAATTTAATTTAGCCCGTATTATATATAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCCA
*
31867409 TCTGTTTTTAGTTTGTTGGGTGTTT
66 TCTGTTTGTAGTTTGTTGGGTGTTT
* * *
31867434 AAATTTAATTTAGCCCATATTATATATAGTTAGAATTTAAAATTTTCATGTATTAATTTTACCCA
1 AAATTTAATTTAGCCCGTATTATATATAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCCA
*
31867499 TCTGTTTGTAGTTTGTTGGGTGTCT
66 TCTGTTTGTAGTTTGTTGGGTGTTT
*** * * * * *
31867524 AAATTTAATTTAGTGTGTATTAT-TTTTGTTTGAATTTTATATTTTTGTGTATTAAT
1 AAATTTAATTTAGCCCGTATTATATATAGTTTGAATTTAAAATTTTCGTGTATTAAT
31867580 ATTCTAGAAT
Statistics
Matches: 204, Mismatches: 32, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
89 26 0.13
90 178 0.87
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (90 bp):
AAATTTAATTTAGCCCGTATTATATATAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCCA
TCTGTTTGTAGTTTGTTGGGTGTTT
Found at i:31876910 original size:20 final size:20
Alignment explanation
Indices: 31876885--31876925 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
31876875 GATACTAGGA
31876885 AAGAGAGGTGAGTCATAAAG
1 AAGAGAGGTGAGTCATAAAG
*
31876905 AAGAGAGGTGAGTCATGAAG
1 AAGAGAGGTGAGTCATAAAG
31876925 A
1 A
31876926 CTTCTTAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.37, T:0.15
Consensus pattern (20 bp):
AAGAGAGGTGAGTCATAAAG
Found at i:31896732 original size:27 final size:27
Alignment explanation
Indices: 31896702--31896879 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31896692 ATATTGAGTC
* * * *
31896702 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31896729 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31896756 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31896784 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31896811 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31896838 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31896865 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31896880 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31896841 original size:82 final size:81
Alignment explanation
Indices: 31896723--31896878 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31896713 TGCTATATAA
* *
31896723 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31896788 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31896805 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31896869 CACTTAGTGC
65 CACTTAGTGC
31896879 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31904990 original size:43 final size:43
Alignment explanation
Indices: 31904884--31904997 Score: 117
Period size: 43 Copynumber: 2.6 Consensus size: 43
31904874 TTTAATATTA
* *
31904884 AAGTGATTATCTTAATATTAAATTAAATTTAATATTTATCTTGT
1 AAGT-ATTATATTAATATTAAATTAAATCTAATATTTATCTTGT
* * *
31904928 -AG-ATAAATATTTAATATTAAGTTTAATCTAATATTTATCTTGAT
1 AAGTAT-TATA-TTAATATTAAATTAAATCTAATATTTATCTTG-T
31904972 AAGTATTATATTAA-ATTAATATTAAA
1 AAGTATTATATTAATATTAA-ATTAAA
31904998 GTGATTAAGT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
41 2 0.04
42 2 0.04
43 36 0.64
44 9 0.16
45 5 0.09
46 2 0.04
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (43 bp):
AAGTATTATATTAATATTAAATTAAATCTAATATTTATCTTGT
Found at i:31906994 original size:43 final size:44
Alignment explanation
Indices: 31906928--31907047 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
31906918 AGCTCGTACA
* *
31906928 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAA-TC-AAATATCG
1 ATGCC-ACTGTCCCAGACGTGGTCTTACACGAAAGTCTAAA-ATCG
*
31906971 ATGCCACTGTCCCAGACAG-GGTCTTACACGAAAGTCTCAAATCG
1 ATGCCACTGTCCCAGAC-GTGGTCTTACACGAAAGTCTAAAATCG
31907015 ATGCCA-TCGTCCCAGACGTGGTCTTACACGAAA
1 ATGCCACT-GTCCCAGACGTGGTCTTACACGAAA
31907048 TCTCATATCG
Statistics
Matches: 68, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.03
43 28 0.41
44 36 0.53
45 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACGTGGTCTTACACGAAAGTCTAAAATCG
Found at i:31907030 original size:44 final size:42
Alignment explanation
Indices: 31906928--31907058 Score: 158
Period size: 43 Copynumber: 3.0 Consensus size: 42
31906918 AGCTCGTACA
* * *
31906928 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATC-AAATATCG
1 ATGCC-ACGTCCCAGACGTGGTCTTACACGAAATCTCAA-ATCG
31906971 ATGCCACTGTCCCAGACAG-GGTCTTACACGAAAGTCTCAAATCG
1 ATGCCAC-GTCCCAGAC-GTGGTCTTACACGAAA-TCTCAAATCG
*
31907015 ATGCCATCGTCCCAGACGTGGTCTTACACGAAATCTCATATCG
1 ATGCCA-CGTCCCAGACGTGGTCTTACACGAAATCTCAAATCG
31907058 A
1 A
31907059 AATTCTATGT
Statistics
Matches: 78, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.03
43 37 0.47
44 36 0.46
45 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCACGTCCCAGACGTGGTCTTACACGAAATCTCAAATCG
Found at i:31912423 original size:20 final size:21
Alignment explanation
Indices: 31912398--31912437 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
31912388 GTAGAAAACC
31912398 AAATGAAAGAAA-AAGAAAAA
1 AAATGAAAGAAAGAAGAAAAA
31912418 AAATGAAAGAAAGAAGAAAA
1 AAATGAAAGAAAGAAGAAAA
31912438 TGGGAAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (21 bp):
AAATGAAAGAAAGAAGAAAAA
Found at i:31912707 original size:38 final size:38
Alignment explanation
Indices: 31912656--31912731 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
31912646 GCTCACTCCG
31912656 AGACTCAAAGACCAGACCCCAAATAGACAATCAAACCC
1 AGACTCAAAGACCAGACCCCAAATAGACAATCAAACCC
31912694 AGACTCAAAGACCAGACCCCAAATAGACAATCAAACCC
1 AGACTCAAAGACCAGACCCCAAATAGACAATCAAACCC
31912732 CTAAACATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.47, C:0.34, G:0.11, T:0.08
Consensus pattern (38 bp):
AGACTCAAAGACCAGACCCCAAATAGACAATCAAACCC
Found at i:31918150 original size:17 final size:17
Alignment explanation
Indices: 31918110--31918151 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
31918100 ACCTATTTTT
*
31918110 TATTTTATAATTTTTAA
1 TATTTTTTAATTTTTAA
*
31918127 TAGTTTTTAATTTTTAA
1 TATTTTTTAATTTTTAA
31918144 -ATTTTTTA
1 TATTTTTTA
31918152 GATCATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTTTTTAATTTTTAA
Found at i:31920657 original size:16 final size:17
Alignment explanation
Indices: 31920631--31920662 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
31920621 CATGCGCATG
31920631 AATATAAAAATAATAAA
1 AATATAAAAATAATAAA
31920648 AATA-AAAAATAATAA
1 AATATAAAAATAATAA
31920663 TAATGATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AATATAAAAATAATAAA
Found at i:31921171 original size:19 final size:19
Alignment explanation
Indices: 31921147--31921200 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
31921137 AATCATATCT
31921147 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
31921166 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
31921185 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
31921201 CTTGAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:31921196 original size:38 final size:40
Alignment explanation
Indices: 31921124--31921200 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
31921114 AAATTAAATC
31921124 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
31921166 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
31921201 CTTGAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:31921806 original size:45 final size:44
Alignment explanation
Indices: 31921711--31922216 Score: 305
Period size: 44 Copynumber: 11.6 Consensus size: 44
31921701 TTCTAATCCA
* * ** * *
31921711 CTCCACTACAACTTTAGGGAGATGGGATTTG-TTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTT-CTTAGTCTG
* * *
31921755 CCCCACTGCAATTTCAGGGGGATAAGACTTGATTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTT-AGTCTG
* *
31921800 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTAGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTA-GTCTG
** * *
31921845 CTCCACTGCAACTTCAGGGAGATAAGACCCGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
* * * **
31921886 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
* * *
31921929 CTCCACTGCAACTTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
* *** *
31921973 CTCCACTACAACTTCAGGGAGATAAGA-TTCGCCATCTTCAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GATTTCTT-AGTCTG
* * * * * *
31922018 C-CTCACTACAATTTTA-GGAGGATAAGGCTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTTCTTAGTCTG
* * * *
31922062 CTCCACTGCAACTTCAGGGAGATAAGACTAGA-TGC-GA-TCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
* * * *
31922103 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
* * * * *
31922146 CTTCACTGCGACTTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
*
31922190 CCCCACTGCAACTTCAGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
31922217 TTCGCCATCT
Statistics
Matches: 360, Mismatches: 73, Indels: 58
0.73 0.15 0.12
Matches are distributed among these distances:
40 46 0.13
41 18 0.05
42 11 0.03
43 11 0.03
44 163 0.45
45 109 0.30
46 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
Found at i:31921897 original size:40 final size:43
Alignment explanation
Indices: 31921751--31921952 Score: 142
Period size: 45 Copynumber: 4.7 Consensus size: 43
31921741 GTTTATTTAG
* * * ** *
31921751 TCTGCCCCACTGCAATTTCAGGGGGATAAGACTTG-ATTTCTTGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCA-TGC-TGA
* * * *
31921795 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTAGG
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCATGC-T-GA
31921841 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCG-ATGC-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCATGCTGA
* * * * * ** *
31921882 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCG-CATGCTGA
**
31921925 TCCACTCCACTGCAACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTCAGGGAGATA
31921953 GGATTATTGG
Statistics
Matches: 130, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
40 24 0.18
41 7 0.05
42 2 0.02
43 5 0.04
44 21 0.16
45 70 0.54
46 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCATGCTGA
Found at i:31922098 original size:217 final size:218
Alignment explanation
Indices: 31921699--31922231 Score: 725
Period size: 217 Copynumber: 2.4 Consensus size: 218
31921689 ATTTCACAGA
* * * * *** * *
31921699 GATTCTAATCCACTCCACTACAACTTTAGGGAGATGGGATT-TGTTTATTTAGTCTGCCCCACTG
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTAT-TGGCTTTAATCTGCCCCACTA
* * *** * * * * *
31921763 CAATTTCAGGGGGATAAGACTT-GATTTCTTGAGTCTG-CTCCACTGCAACTTCAGG-GAGATAA
65 CAACTTCAGGGAGATAAGA-TTCGCCATCTTCAGTTTGCCT-CACTACAATTTTAGGAG-GATAA
* * *
31921825 GACTCGCTTTCTTAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCT
127 GACTCGCTTACTTAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGATCTACTCT
31921890 CTGCAACTTCAGAGAGATAAGATCTGT
192 CTGCAACTTCAGAGAGATAAGATCTGT
*
31921917 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTAC
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCCCCACTAC
*
31921982 AACTTCAGGGAGATAAGATTCGCCATCTTCAGTTTGCCTCACTACAATTTTAGGAGGATAAGGCT
66 AACTTCAGGGAGATAAGATTCGCCATCTTCAGTTTGCCTCACTACAATTTTAGGAGGATAAGACT
* *
31922047 TGCTTACTTA-GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGC
131 CGCTTACTTAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGATCTACTCTCTGC
31922111 AACTTCAGAGAGATAAGATCTGT
196 AACTTCAGAGAGATAAGATCTGT
* * * *
31922134 GATTTTAATCCGCTTCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCCCCACTGC
1 GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCCCCACTAC
31922199 AACTTCAGGGAGATAAGATTCGCCATCTTCAGT
66 AACTTCAGGGAGATAAGATTCGCCATCTTCAGT
31922232 CTTTTAAATT
Statistics
Matches: 280, Mismatches: 31, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
217 169 0.60
218 107 0.38
219 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (218 bp):
GATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCCCCACTAC
AACTTCAGGGAGATAAGATTCGCCATCTTCAGTTTGCCTCACTACAATTTTAGGAGGATAAGACT
CGCTTACTTAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGATCTACTCTCTGC
AACTTCAGAGAGATAAGATCTGT
Found at i:31922527 original size:50 final size:50
Alignment explanation
Indices: 31922419--31922528 Score: 130
Period size: 50 Copynumber: 2.2 Consensus size: 50
31922409 TTAACACCAG
* *
31922419 GGAGATAAGATTCACCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAA
1 GGAGATAAGATTCACCATCGTGGCTTCAATCTGCTCCACTACAACGCCAA
* * ** * * *
31922469 GGAAATAAGATTCACCATTGTGGCTTCAATCTTTTCCATTGCAACGTCAA
1 GGAGATAAGATTCACCATCGTGGCTTCAATCTGCTCCACTACAACGCCAA
*
31922519 GGCGATAAGA
1 GGAGATAAGA
31922529 CTAATGTCTT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (50 bp):
GGAGATAAGATTCACCATCGTGGCTTCAATCTGCTCCACTACAACGCCAA
Found at i:31922652 original size:44 final size:44
Alignment explanation
Indices: 31922582--31922747 Score: 255
Period size: 44 Copynumber: 3.8 Consensus size: 44
31922572 ATCTGCTATT
* * *
31922582 TTCAACCTACTCCACTGTTG-CTCAGGGAGATGGGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
*
31922626 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATT
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
31922670 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
*
31922714 TTCAACCTATTCCACTACTGACCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
31922748 GATGGAGTCA
Statistics
Matches: 114, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
44 111 0.97
45 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:31922809 original size:88 final size:88
Alignment explanation
Indices: 31922758--31923324 Score: 823
Period size: 88 Copynumber: 6.4 Consensus size: 88
31922748 GATGGAGTCA
* *
31922758 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
31922823 CCAGGGAGGCAAGGCTGGTGTTT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
31922846 TCGATCTGCTTTGCTGTCGGTGCAGGAAGGCAAGATTTGCTATTTTTAACCTGCTCCGCTACAAT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* * *
31922911 CTAGGGAGGAAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
31922934 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATTTGCTATTTTTAACCTGCTCCGCTACCAA
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTA-CAA
* * *
31922999 -CTAGGGAGGCAAGTCTAGTGTCT
65 CCCAGGGAGGCAAGGCTGGTGTCT
* * * *
31923022 TTGATCTGCTTTGCTGTCGGTGCAGGAAGGCAAGATCTCCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* * * *
31923087 CTAGGGTGGTAAGACTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
31923110 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
31923175 CCAGGGAGGCAAGGCTAGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
31923198 TCGATCTGTTTCGCTGTCGGTGCAGGAATGTAAGATCTGCTATTTTTAACCTGGC-CTGCTACAA
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCT-GCTCCGCTACAA
* *
31923262 CCCAGGGAAGCAAGGTTGGTGTCT
65 CCCAGGGAGGCAAGGCTGGTGTCT
*
31923286 TCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
31923325 TTATCTTCAC
Statistics
Matches: 431, Mismatches: 45, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
87 3 0.01
88 423 0.98
89 5 0.01
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:31923011 original size:44 final size:43
Alignment explanation
Indices: 31922873--31923011 Score: 102
Period size: 44 Copynumber: 3.2 Consensus size: 43
31922863 CGGTGCAGGA
31922873 AGGCAAGATTTGCTATTTTTAACCTGCTCCGCTACAATCTAGGG
1 AGGCAAGATTTGCTATTTTTAACCTGCTCCGCTACAA-CTAGGG
* * * * * ** * * * ** *
31922917 AGGAAAG-GTTGGTGTCTTCGATCTGCTTCGCTGTC-GGTGCAGGA
1 AGGCAAGATTTGCTATTTTTAACCTGCTCCGCT-ACAACT--AGGG
31922961 AGGCAAGATTTGCTATTTTTAACCTGCTCCGCTACCAACTAGGG
1 AGGCAAGATTTGCTATTTTTAACCTGCTCCGCTA-CAACTAGGG
31923005 AGGCAAG
1 AGGCAAG
31923012 TCTAGTGTCT
Statistics
Matches: 63, Mismatches: 26, Indels: 12
0.62 0.26 0.12
Matches are distributed among these distances:
42 1 0.02
43 17 0.27
44 26 0.41
45 18 0.29
46 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (43 bp):
AGGCAAGATTTGCTATTTTTAACCTGCTCCGCTACAACTAGGG
Found at i:31924667 original size:14 final size:15
Alignment explanation
Indices: 31924644--31924676 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
31924634 ATCGGCGCTT
31924644 TTCCAAATAAGG-CC
1 TTCCAAATAAGGTCC
*
31924658 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
31924673 TTCC
1 TTCC
31924677 CAACTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:31925554 original size:26 final size:26
Alignment explanation
Indices: 31925500--31925560 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
31925490 AAGAAAATCC
* *
31925500 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTATCTCA
31925526 AAAAGAATGAAAAAAT-ATTGA-CTCA
1 AAAAGAATGAAAAAATAATT-ATCTCA
31925551 AAAATGAATG
1 AAAA-GAATG
31925561 CAAAGATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.59, C:0.05, G:0.13, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTATCTCA
Found at i:31929811 original size:15 final size:16
Alignment explanation
Indices: 31929793--31929825 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
31929783 AAATGTAAAC
31929793 AAATTTGAAAAT-AAT
1 AAATTTGAAAATGAAT
31929808 AAATTTGAAAATGAAT
1 AAATTTGAAAATGAAT
31929824 AA
1 AA
31929826 TAAGGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (16 bp):
AAATTTGAAAATGAAT
Found at i:31930120 original size:19 final size:19
Alignment explanation
Indices: 31930096--31930149 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
31930086 AATCATATCT
31930096 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
31930115 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
31930134 TCTAAGATTGTATATC
1 TCTAAGATTGCATATC
31930150 CTTGAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Done.