Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 314 of 352
Found at i:102471415 original size:58 final size:58
Alignment explanation
Indices: 102471287--102471407 Score: 215
Period size: 58 Copynumber: 2.1 Consensus size: 58
102471277 AAGTGAAGAC
*
102471287 TTATTAAGAAATAAAAATCAATGCAATAAGGGTCCAAACTGACTCGTGAAATAATTTA
1 TTATTAAGAAATAAAAATCAATGCAATAAGGGTCCAAAATGACTCGTGAAATAATTTA
* *
102471345 TTATTAAGAAATAAAAATCAATGTAATACGGGTCCAAAATGACTCGTGAAATAATTTA
1 TTATTAAGAAATAAAAATCAATGCAATAAGGGTCCAAAATGACTCGTGAAATAATTTA
102471403 TTATT
1 TTATT
102471408 TTGAAATATT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (58 bp):
TTATTAAGAAATAAAAATCAATGCAATAAGGGTCCAAAATGACTCGTGAAATAATTTA
Found at i:102472223 original size:24 final size:25
Alignment explanation
Indices: 102472189--102472235 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
102472179 AAAAATCAAA
102472189 ATATTTAT-AAAAATTTCAAAAATT
1 ATATTTATAAAAAATTTCAAAAATT
* *
102472213 ATATTTTTAAAAAATTTTAAAAA
1 ATATTTATAAAAAATTTCAAAAA
102472236 ATTCTAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
ATATTTATAAAAAATTTCAAAAATT
Found at i:102472732 original size:32 final size:32
Alignment explanation
Indices: 102472691--102472755 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
102472681 TTTGACAAAG
* *
102472691 TTATACATTTTGATATCTAAAGATAACAATAT
1 TTATACATTTTGACACCTAAAGATAACAATAT
* *
102472723 TTATACATTTTGGCACCTGAAGATAACAATAT
1 TTATACATTTTGACACCTAAAGATAACAATAT
102472755 T
1 T
102472756 AACTTTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.38
Consensus pattern (32 bp):
TTATACATTTTGACACCTAAAGATAACAATAT
Found at i:102478331 original size:16 final size:16
Alignment explanation
Indices: 102478307--102478338 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
102478297 ATCCGCAAGA
*
102478307 CTTATGTGCATGAATT
1 CTTACGTGCATGAATT
102478323 CTTACGTGCATGAATT
1 CTTACGTGCATGAATT
102478339 TCTCTTTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.41
Consensus pattern (16 bp):
CTTACGTGCATGAATT
Found at i:102484664 original size:19 final size:19
Alignment explanation
Indices: 102484640--102484676 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
102484630 TTCTATATTA
*
102484640 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
102484659 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
102484677 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:102484689 original size:3 final size:3
Alignment explanation
Indices: 102484635--102484670 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
102484625 TGAATTTCTA
*
102484635 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA
102484671 CTGTTATGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:102484917 original size:3 final size:3
Alignment explanation
Indices: 102484903--102484954 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
102484893 GTATTTTTGC
* *
102484903 TAT TAT TGT TAT TAT TAT TAT TAT TATT TAT TA- TATT TAT ATAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT -TAT TAT
102484950 TAT TA
1 TAT TA
102484955 ATAGGTACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 2 0.05
3 32 0.78
4 7 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:102486532 original size:26 final size:26
Alignment explanation
Indices: 102486503--102486555 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
102486493 TCAAACATGC
*
102486503 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
102486529 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
102486555 A
1 A
102486556 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:102488072 original size:26 final size:26
Alignment explanation
Indices: 102488042--102488097 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
102488032 TGAAATGCCC
102488042 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
102488068 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
102488094 ATCA
1 ATCA
102488098 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:102495399 original size:34 final size:34
Alignment explanation
Indices: 102495356--102495424 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
102495346 GAGGGAGAAG
102495356 AAGATATTGTAGCATCTATTTCTACCGATACACC
1 AAGATATTGTAGCATCTATTTCTACCGATACACC
*
102495390 AAGATATTGTAGCATCTATTTCTACCGATGCACC
1 AAGATATTGTAGCATCTATTTCTACCGATACACC
102495424 A
1 A
102495425 TACATTGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (34 bp):
AAGATATTGTAGCATCTATTTCTACCGATACACC
Found at i:102499786 original size:43 final size:44
Alignment explanation
Indices: 102499725--102499808 Score: 152
Period size: 43 Copynumber: 1.9 Consensus size: 44
102499715 TATGCCTAAA
*
102499725 AAAAAGGGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATAAT
1 AAAAAGGGATCAAGGTGAAAACCCGAAAAGGGCATCTTGATAAT
102499769 AAAAA-GGATCAAGGTGAAAACCCGAAAAGGGCATCTTGAT
1 AAAAAGGGATCAAGGTGAAAACCCGAAAAGGGCATCTTGAT
102499809 TAACACAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 34 0.87
44 5 0.13
ACGTcount: A:0.44, C:0.14, G:0.26, T:0.15
Consensus pattern (44 bp):
AAAAAGGGATCAAGGTGAAAACCCGAAAAGGGCATCTTGATAAT
Found at i:102499841 original size:43 final size:43
Alignment explanation
Indices: 102499725--102499845 Score: 140
Period size: 43 Copynumber: 2.8 Consensus size: 43
102499715 TATGCCTAAA
* * *
102499725 AAAAAGGGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATAAT
1 AAAAA-GGATCAAGATGAAAACCCGAAAAGGGCATCTTGATAAC
*
102499769 AAAAAGGATCAAGGTGAAAACCCGAAAAGGGCATCTTGATTAAC
1 AAAAAGGATCAAGATGAAAACCCGAAAAGGGCATCTTGA-TAAC
*
102499813 ACAAAA-GAT-TAGAATGAAAACCCG-AAAGGGCAT
1 A-AAAAGGATCAAG-ATGAAAACCCGAAAAGGGCAT
102499846 TCTAATGAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
43 44 0.63
44 22 0.31
45 4 0.06
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.15
Consensus pattern (43 bp):
AAAAAGGATCAAGATGAAAACCCGAAAAGGGCATCTTGATAAC
Found at i:102500704 original size:18 final size:18
Alignment explanation
Indices: 102500681--102500715 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
102500671 GCTGAGGTAA
102500681 TTTCAATTTCTGTTTTTT
1 TTTCAATTTCTGTTTTTT
102500699 TTTCAATTTCTGTTTTT
1 TTTCAATTTCTGTTTTT
102500716 CAAATTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTCAATTTCTGTTTTTT
Found at i:102500731 original size:14 final size:15
Alignment explanation
Indices: 102500697--102500729 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
102500687 TTTCTGTTTT
*
102500697 TTTTTC-AATTTCTG
1 TTTTTCAAATTTATG
102500711 TTTTTCAAATTTATG
1 TTTTTCAAATTTATG
102500726 TTTT
1 TTTT
102500730 CAGAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTTTCAAATTTATG
Found at i:102500882 original size:16 final size:16
Alignment explanation
Indices: 102500858--102500891 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
102500848 TGCTGAGGTA
*
102500858 TTTTCAATTTCTATTT
1 TTTTCAATTTATATTT
*
102500874 TTTTTAATTTATATTT
1 TTTTCAATTTATATTT
102500890 TT
1 TT
102500892 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:102500966 original size:14 final size:14
Alignment explanation
Indices: 102500947--102500982 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
102500937 CGCTGAGGTA
* *
102500947 TTTTCAATTTCTGC
1 TTTTCAAATTCAGC
102500961 TTTTCAAATTCAGC
1 TTTTCAAATTCAGC
102500975 TTTTCAAA
1 TTTTCAAA
102500983 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (14 bp):
TTTTCAAATTCAGC
Found at i:102501119 original size:87 final size:88
Alignment explanation
Indices: 102500785--102501282 Score: 525
Period size: 88 Copynumber: 5.6 Consensus size: 88
102500775 CGTTGAGGTA
102500785 TTTTCAATTTATG--TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCAC
1 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---AC
*
102500847 ATGCTGAGGTATTTTCAATTTCTATTT
63 ATGCTGAGGTATTTTCAATTTCT-TGT
* ** * * * *
102500874 TTTTTAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCGCAAGTCACG
1 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
*
102500939 CTGAGGTATTTTCAATTTC-TGC
66 CTGAGGTATTTTCAATTTCTTGT
* * *
102500961 TTTTCAAATTCA-GCTTTTCAAAAAAAATCAACTCATATTGCAAGAGCTGAGTTGAGCCTCAGGA
1 TTTTC-AATTTATGCTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* *
102501025 CACGCTGAGGTATTTTCAATTTC-CGT
62 CATGCTGAGGTATTTTCAATTTCTTGT
* * *
102501051 TTTTCAAGTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCATG
1 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
*
102501116 CTGAGGTATTTT-AATTTTCTTTT
66 CTGAGGTATTTTCAA-TTTCTTGT
** * *
102501139 TTTTCAATTTATATTTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACA
** *
102501204 TG-TCGAGGTATTTTCAAAAT-TTGC
64 TGCT-GAGGTATTTTCAATTTCTTGT
* * **
102501228 TTTTCAAATTAAG--TTTCAAAGAA-CTAACTCATATTGCGAGAAATGAGTTGAGCCT
1 TTTTCAATTTATGCTTTTCAAA-AATC-AACTCATATTGCGAGAGGTGAGTTGAGCCT
102501283 TGGCTCACGT
Statistics
Matches: 350, Mismatches: 43, Indels: 33
0.82 0.10 0.08
Matches are distributed among these distances:
86 2 0.01
87 77 0.22
88 89 0.25
89 50 0.14
90 88 0.25
91 43 0.12
92 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
CTGAGGTATTTTCAATTTCTTGT
Found at i:102501234 original size:177 final size:175
Alignment explanation
Indices: 102500785--102501282 Score: 532
Period size: 177 Copynumber: 2.8 Consensus size: 175
102500775 CGTTGAGGTA
* *
102500785 TTTTCAA-TT-TATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACA
1 TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
** * * * *
102500848 TGCTGAGGTATTTTCAATTTCTATTTTTTTTAATTTATATTTTTCAAAAATCAACTCATATTGCG
66 TGCTGAGGTATTTTCAAAAT-T-TGTTTTTCAAATTAT-GTTTTCAAAAATCAACTCATATTGCG
* *
102500913 AGAGGTGAGTTGAGCCGCAAGTCACGCTGAGGTATTTTCAATTTCTGC
128 AGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGC
* ** * * *
102500961 TTTTCAAATTCA-GCTTTTCAAAAAAAATCAACTCATATTGCAAGAGCTGAGTTGAGCCTCAGG-
1 TTTTC-AATTTATATTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* *
102501024 -ACACGCTGAGGTATTTTC--AATTTCCGTTTTTCAAGTTATGCTTTTCAAAAATCAACTCATAT
62 CACATGCTGAGGTATTTTCAAAATTT--GTTTTTCAAATTATG-TTTTCAAAAATCAACTCATAT
* * * **
102501086 TGCAAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGGTATTTT-AATTTTCTTTT
124 TGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAA-TTTC-TGC
*
102501139 TTTTCAATTTATATTTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
* *
102501204 TG-TCGAGGTATTTTCAAAATTTGCTTTTCAAATTAAG-TTTCAAAGAA-CTAACTCATATTGCG
66 TGCT-GAGGTATTTTCAAAATTTGTTTTTCAAATTATGTTTTCAAA-AATC-AACTCATATTGCG
**
102501266 AGAAATGAGTTGAGCCT
128 AGAGGTGAGTTGAGCCT
102501283 TGGCTCACGT
Statistics
Matches: 267, Mismatches: 36, Indels: 38
0.78 0.11 0.11
Matches are distributed among these distances:
175 46 0.17
176 38 0.14
177 108 0.40
178 16 0.06
179 22 0.08
181 37 0.14
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (175 bp):
TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
TGCTGAGGTATTTTCAAAATTTGTTTTTCAAATTATGTTTTCAAAAATCAACTCATATTGCGAGA
GGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGC
Found at i:102501356 original size:265 final size:266
Alignment explanation
Indices: 102500785--102501319 Score: 698
Period size: 265 Copynumber: 2.0 Consensus size: 266
102500775 CGTTGAGGTA
* *
102500785 TTTTCAATTTATG--TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCAC
1 TTTTCAAGTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG--CAC
*
102500847 ATGCTGAGGTATTTTCAATTTCTATTTTTTTTAATTTATATTTTTCAAAAATCAACTCATATTGC
64 ATGCTGAGGTATTTTCAATTTCTATTTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGC
* *
102500912 GAGAGGTGAGTTGAGCCGCAAGTCACGCTGAGGTATTTTCAATTTCTGCTTTTCAAATTCAGCTT
129 GAGAGGTGAGTTGAGCCGCAAGTCACGCTGAGGTATTTTCAAATTCTGCTTTTCAAATTAAGC-T
** * *
102500977 TTCAAAAAAAATCAACTCATATTGCAAGAGCTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
193 TTCAAAAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGGACACGCTAAGCTATTTTC
*
102501042 AATTTCCGT
258 AATTTCCAT
*
102501051 TTTTCAAGTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG-GCAT
1 TTTTCAAGTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCACAT
*
102501115 GCTGAGGTATTTT-AATTTTCT-TTTTTTTCAATTTATATTTTTCAAAAATCAATTCATATTGCG
66 GCTGAGGTATTTTCAA-TTTCTATTTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCG
* **
102501178 AGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAAAATT-TGCTTTTCAAATTAAG
130 AGAGGTGAGTTGAGCCGCAAGTCAC--GCT-GAGGTATTTTC-AAATTCTGCTTTTCAAATTAAG
* * * * *
102501241 -TTTC-AAAGAACT-AACTCATATTGCGAGAAATGAGTTGAGCCT-TGGCTCACGTGCTAAGCTA
191 CTTTCAAAAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGG-ACAC--GCTAAGCTA
*
102501302 TTTTCAATTTCTAT
253 TTTTCAATTTCCAT
102501316 TTTT
1 TTTT
102501320 AATGTCTGTT
Statistics
Matches: 237, Mismatches: 21, Indels: 23
0.84 0.07 0.08
Matches are distributed among these distances:
262 2 0.01
263 30 0.13
264 6 0.03
265 91 0.38
266 34 0.14
267 27 0.11
268 45 0.19
269 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (266 bp):
TTTTCAAGTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCACAT
GCTGAGGTATTTTCAATTTCTATTTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGA
GAGGTGAGTTGAGCCGCAAGTCACGCTGAGGTATTTTCAAATTCTGCTTTTCAAATTAAGCTTTC
AAAAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGGACACGCTAAGCTATTTTCAAT
TTCCAT
Found at i:102501428 original size:21 final size:21
Alignment explanation
Indices: 102501402--102501456 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
102501392 GAATAAAGAT
*
102501402 TGGAGCTAATCGAAGTTATAG
1 TGGAGCTAATCGAAGTTACAG
*
102501423 TGGAGCTAATCGAAGTTGCAG
1 TGGAGCTAATCGAAGTTACAG
*
102501444 TGGAACTAATCGA
1 TGGAGCTAATCGA
102501457 GGATATCAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (21 bp):
TGGAGCTAATCGAAGTTACAG
Found at i:102502447 original size:14 final size:14
Alignment explanation
Indices: 102502425--102502458 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
102502415 TATATATTAC
*
102502425 AAAATAAAACTAAA
1 AAAAAAAAACTAAA
102502439 AAAAAAAAACTAAA
1 AAAAAAAAACTAAA
102502453 AAAAAA
1 AAAAAA
102502459 TTACCGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (14 bp):
AAAAAAAAACTAAA
Found at i:102503035 original size:24 final size:24
Alignment explanation
Indices: 102502999--102503046 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
102502989 TATTATATTA
*
102502999 GTGTATATTATATTTACATACGTAT
1 GTGTATATTATATCTACATA-GTAT
102503024 GTGTAT-TTATATCTACATAGTAT
1 GTGTATATTATATCTACATAGTAT
102503047 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 12 0.55
25 6 0.27
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.48
Consensus pattern (24 bp):
GTGTATATTATATCTACATAGTAT
Found at i:102503114 original size:3 final size:3
Alignment explanation
Indices: 102503108--102503143 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
102503098 TGAATTTCTA
*
102503108 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA
102503144 CTGTTATGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:102503137 original size:19 final size:19
Alignment explanation
Indices: 102503113--102503149 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
102503103 TTCTATATTA
*
102503113 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
102503132 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
102503150 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:102503523 original size:26 final size:26
Alignment explanation
Indices: 102503494--102503575 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
102503484 TGATACAAAT
102503494 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
102503520 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
102503546 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
102503572 TGAT
1 TGAT
102503576 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:102505089 original size:26 final size:26
Alignment explanation
Indices: 102505060--102505112 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
102505050 TTTACAGTTT
102505060 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
102505086 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
102505112 T
1 T
102505113 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:102506969 original size:24 final size:25
Alignment explanation
Indices: 102506941--102507005 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
102506931 TTTATATATA
102506941 TATTATTATGTATATATACT-TTAGC
1 TATTATTATGTATATATACTCTTA-C
* *
102506966 -ATTACTAAT-TATATATATTCTTAC
1 TATTA-TTATGTATATATACTCTTAC
102506990 TATT-TTATGTATATAT
1 TATTATTATGTATATAT
102507006 TTCAAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 3 0.09
24 21 0.64
25 9 0.27
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (25 bp):
TATTATTATGTATATATACTCTTAC
Found at i:102512388 original size:20 final size:20
Alignment explanation
Indices: 102512363--102512403 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
102512353 ATTTTATCAC
102512363 AACTTAAGCACGACATATCT
1 AACTTAAGCACGACATATCT
102512383 AACTTAAGCACGACATATCT
1 AACTTAAGCACGACATATCT
102512403 A
1 A
102512404 GCGTGATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (20 bp):
AACTTAAGCACGACATATCT
Found at i:102512667 original size:14 final size:15
Alignment explanation
Indices: 102512648--102512677 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
102512638 AGTTTGAGTT
102512648 AAAATTACA-AAAAA
1 AAAATTACAGAAAAA
102512662 AAAATTACAGAAAAA
1 AAAATTACAGAAAAA
102512677 A
1 A
102512678 TTCAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAATTACAGAAAAA
Found at i:102513940 original size:21 final size:21
Alignment explanation
Indices: 102513902--102513941 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
102513892 CCTCAGCGCA
* *
102513902 ATTGGGTCATTGCAAGATGAC
1 ATTGGCTCATTACAAGATGAC
*
102513923 ATTGGCTCATTACGAGATG
1 ATTGGCTCATTACAAGATG
102513942 TAGTTAGTGG
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:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (21 bp):
ATTGGCTCATTACAAGATGAC
Found at i:102515929 original size:22 final size:22
Alignment explanation
Indices: 102515902--102515947 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
102515892 AATAAGAAAT
102515902 AAAAGGAAT-AATTTAAATATAA
1 AAAAGGAATAAATTTAAA-ATAA
*
102515924 AAAAGGACTAAATTTAAAATAA
1 AAAAGGAATAAATTTAAAATAA
102515946 AA
1 AA
102515948 TATCTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (22 bp):
AAAAGGAATAAATTTAAAATAA
Found at i:102518200 original size:30 final size:32
Alignment explanation
Indices: 102518144--102518208 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
102518134 TAATATTTTC
*
102518144 CTTTAATTAATATATAAAATTCAATTAATTAA
1 CTTTAATTAATATATAAAAATCAATTAATTAA
* *
102518176 CTTTATTTAAT-TA-AAAAATCAATTAATTTA
1 CTTTAATTAATATATAAAAATCAATTAATTAA
102518206 CTT
1 CTT
102518209 GGCTAGACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 18 0.60
31 2 0.07
32 10 0.33
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (32 bp):
CTTTAATTAATATATAAAAATCAATTAATTAA
Found at i:102518687 original size:31 final size:31
Alignment explanation
Indices: 102518652--102518715 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
102518642 ATAATACTGG
102518652 CAATGCTTGATATTCTCTCGACCTTCTGCAA
1 CAATGCTTGATATTCTCTCGACCTTCTGCAA
102518683 CAATGCTTGATATTCTCTCGACCTTCTGCAA
1 CAATGCTTGATATTCTCTCGACCTTCTGCAA
102518714 CA
1 CA
102518716 TTGATCATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.34
Consensus pattern (31 bp):
CAATGCTTGATATTCTCTCGACCTTCTGCAA
Found at i:102521585 original size:131 final size:131
Alignment explanation
Indices: 102521298--102521649 Score: 381
Period size: 131 Copynumber: 2.7 Consensus size: 131
102521288 AGAAAAATAC
* *
102521298 GAGTGAAATTTCGAAGAGACATTCGATTATTTTGAACAAATGGGAAATTGCAACCCAACACGATA
1 GAGTGAAATTTCGAAG-GACTTTCGATTATTTTGAACAAATGAGAAATTGCAACCCAACACGATA
* * * * *** *
102521363 GGGCACT-ATTCCCCGAATCGCCAAACATAGAGTATTTTTTTCGTTTTAAAGGGTTTTTAGAAAA
65 GGGCA-TGATTCCACGAATTGTCAAACACAGAGTATTGCCTTCGTTTTAAAGGATTTTTAGAAAA
102521427 TGT
129 TGT
* * * ** *
102521430 GAGTGAAATTCCGAA-GAATATTCGATTGTTTTGAACAAATGAGAAATCACAACCCAGCACGATA
1 GAGTGAAATTTCGAAGGACT-TTCGATTATTTTGAACAAATGAGAAATTGCAACCCAACACGATA
* * *
102521494 GGGCATGATT-CGCGAATTGTCAAACACCGAGTATTGCCTTCGTTTTAAAGGATTTTTGGAAGAC
65 GGGCATGATTCCACGAATTGTCAAACACAGAGTATTGCCTTCGTTTTAAAGGATTTTTAGAA-A-
102521558 ATG-
128 ATGT
* * * * *
102521561 G-GTGAAATTTTGAAGGGACTTTCGATTACTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
1 GAGTGAAATTTCGAA-GGACTTTCGATTATTTTGAACAAATGAGAAATTGCAACCCAACACGATA
* *
102521625 GGGCACGATTCCACGACTTGTCAAA
65 GGGCATGATTCCACGAATTGTCAAA
102521650 TATCAAATAT
Statistics
Matches: 181, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
130 55 0.30
131 94 0.52
132 32 0.18
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (131 bp):
GAGTGAAATTTCGAAGGACTTTCGATTATTTTGAACAAATGAGAAATTGCAACCCAACACGATAG
GGCATGATTCCACGAATTGTCAAACACAGAGTATTGCCTTCGTTTTAAAGGATTTTTAGAAAATG
T
Found at i:102536591 original size:18 final size:19
Alignment explanation
Indices: 102536558--102536595 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
102536548 AGACTCCAGG
*
102536558 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
102536577 TCTGATT-TCTTCAATCAT
1 TCTGATTCTCTTCAATCAT
102536595 T
1 T
102536596 GCTTGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Found at i:102545249 original size:32 final size:30
Alignment explanation
Indices: 102545208--102545266 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
102545198 ACCATTTTCC
* *
102545208 TTTAATTAATTTAGAAAATTCAGTTAATTAAA
1 TTTAATTAA-TTA-AAAAATCAATTAATTAAA
*
102545240 TTTATTTAATTAAAAAATCAATTAATT
1 TTTAATTAATTAAAAAATCAATTAATT
102545267 TATTTAGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.54
31 3 0.12
32 8 0.33
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (30 bp):
TTTAATTAATTAAAAAATCAATTAATTAAA
Found at i:102560142 original size:129 final size:129
Alignment explanation
Indices: 102559958--102560193 Score: 429
Period size: 129 Copynumber: 1.8 Consensus size: 129
102559948 TATTATTGCT
*
102559958 CTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTT
1 CTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAATAGGGTAACAGGTT
* *
102560023 GAGTTTACAGATCT-TACCCCGTAAGCAGTAGGGAAACAGATCGAAAGTGATGGGCTTCAACCCC
66 GAATTTACAGATCTAAACCCC-TAAGCAGTAGGGAAACAGATCGAAAGTGATGGGCTTCAACCCC
102560087 CTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAATAGGGTAACAGGTT
1 CTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAATAGGGTAACAGGTT
102560152 GAATTTACAGATCTAAACCCCTAAGCAGTAGGGAAACAGATC
66 GAATTTACAGATCTAAACCCCTAAGCAGTAGGGAAACAGATC
102560194 AATGATGACA
Statistics
Matches: 103, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
129 98 0.95
130 5 0.05
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (129 bp):
CTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAATAGGGTAACAGGTT
GAATTTACAGATCTAAACCCCTAAGCAGTAGGGAAACAGATCGAAAGTGATGGGCTTCAACCCC
Found at i:102560170 original size:42 final size:43
Alignment explanation
Indices: 102559958--102560236 Score: 174
Period size: 43 Copynumber: 6.5 Consensus size: 43
102559948 TATTATTGCT
* * * * *
102559958 CTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCC
1 CTAAGCAATAGGGTAACAGGTCGAATTTACAGACCTTAAACCC
* * * *
102560001 CTAAGCAGTAGGGTAACAGGTTGAGTTTACAGATCTT--ACCC
1 CTAAGCAATAGGGTAACAGGTCGAATTTACAGACCTTAAACCC
* * * * * * ** *
102560042 CGTAAGCAGTAGGGAAACAGATCGAAAGTGA-TGGGCTTCAACCCC
1 C-TAAGCAATAGGGTAACAGGTCG-AATTTACAGACCTT-AAACCC
* * * * *
102560087 CTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCC
1 CTAAGCAATAGGGTAACAGGTCGAATTTACAGACCTTAAACCC
* *
102560130 CTAAGCAATAGGGTAACAGGTTGAATTTACAGATC-TAAACCC
1 CTAAGCAATAGGGTAACAGGTCGAATTTACAGACCTTAAACCC
* * * * *
102560172 CTAAGCAGTAGGGAAACAGATC-AATGATGACA-AGCCTTAACCCC
1 CTAAGCAATAGGGTAACAGGTCGAAT--TTACAGA-CCTTAAACCC
* *
102560216 CTAAGCAGTAGGGTAAGAGGT
1 CTAAGCAATAGGGTAACAGGT
102560237 TGAAAATCAA
Statistics
Matches: 176, Mismatches: 50, Indels: 19
0.72 0.20 0.08
Matches are distributed among these distances:
41 8 0.05
42 49 0.28
43 72 0.41
44 43 0.24
45 4 0.02
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (43 bp):
CTAAGCAATAGGGTAACAGGTCGAATTTACAGACCTTAAACCC
Found at i:102560214 original size:129 final size:129
Alignment explanation
Indices: 102559958--102560231 Score: 428
Period size: 129 Copynumber: 2.1 Consensus size: 129
102559948 TATTATTGCT
*
102559958 CTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTT
1 CTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAATAGGGTAACAGGTT
* * ** *
102560023 GAGTTTACAGATCTTACCCCGTAAGCAGTAGGGAAACAGATCGAAAGTGATGGGCTTCAACCCC
66 GAATTTACAGATCTAACCCCGTAAGCAGTAGGGAAACAGATCGAAAGTGAAAGCCTTCAACCCC
102560087 CTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAATAGGGTAACAGGTT
1 CTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAATAGGGTAACAGGTT
*
102560152 GAATTTACAGATCTAAACCCC-TAAGCAGTAGGGAAACAGATC-AATGATGACAAGCCTT-AACC
66 GAATTTACAGATCT-AACCCCGTAAGCAGTAGGGAAACAGATCGAAAG-TGA-AAGCCTTCAACC
102560214 CC
128 CC
*
102560216 CTAAGCAGTAGGGTAA
1 CTAAGCAATAGGGTAA
102560232 GAGGTTGAAA
Statistics
Matches: 134, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
128 3 0.02
129 122 0.91
130 9 0.07
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (129 bp):
CTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAATAGGGTAACAGGTT
GAATTTACAGATCTAACCCCGTAAGCAGTAGGGAAACAGATCGAAAGTGAAAGCCTTCAACCCC
Found at i:102561411 original size:11 final size:9
Alignment explanation
Indices: 102561387--102561480 Score: 50
Period size: 9 Copynumber: 10.1 Consensus size: 9
102561377 CTATTATAAA
102561387 TATGTATA-
1 TATGTATAT
102561395 TATGTATACTT
1 TATGTATA--T
102561406 TATGTATAT
1 TATGTATAT
102561415 TATGTATAT
1 TATGTATAT
* *
102561424 ATTTTTATAT
1 -TATGTATAT
* *
102561434 T-TTTATAAA
1 TATGTAT-AT
102561443 TAT-TATAT
1 TATGTATAT
*
102561451 GTATATATAT
1 -TATGTATAT
* *
102561461 TTTAATATAT
1 TAT-GTATAT
102561471 TATGTATAT
1 TATGTATAT
102561480 T
1 T
102561481 GTGGACATAC
Statistics
Matches: 70, Mismatches: 7, Indels: 17
0.74 0.07 0.18
Matches are distributed among these distances:
8 14 0.20
9 27 0.39
10 21 0.30
11 8 0.11
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.57
Consensus pattern (9 bp):
TATGTATAT
Found at i:102561686 original size:27 final size:28
Alignment explanation
Indices: 102561656--102561717 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
102561646 ATATTGCGTG
** * *
102561656 TATATATATATTTTAATATTATAT-TTT
1 TATATATATACCTTAATACTATATCATT
*
102561683 TATACATATACCTTAATACTATATCATT
1 TATATATATACCTTAATACTATATCATT
102561711 TATATAT
1 TATATAT
102561718 TTTCATTTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (28 bp):
TATATATATACCTTAATACTATATCATT
Found at i:102585771 original size:19 final size:19
Alignment explanation
Indices: 102585743--102585785 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
102585733 CCCTATATAA
*
102585743 GGTATTGGTATCTCTACCT
1 GGTATCGGTATCTCTACCT
102585762 GGTATCGGTATCTCTACCT
1 GGTATCGGTATCTCTACCT
102585781 GGTAT
1 GGTAT
102585786 TGGCATCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (19 bp):
GGTATCGGTATCTCTACCT
Found at i:102588198 original size:21 final size:20
Alignment explanation
Indices: 102588174--102588212 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
102588164 GAGTATTTTT
102588174 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
102588195 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
102588213 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:102590293 original size:18 final size:18
Alignment explanation
Indices: 102590266--102590303 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
102590256 GTATGTATTT
102590266 TGTATATTAGACTTATAA
1 TGTATATTAGACTTATAA
*
102590284 TGTATCTTAGACTTATAA
1 TGTATATTAGACTTATAA
102590302 TG
1 TG
102590304 CTTAGGCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (18 bp):
TGTATATTAGACTTATAA
Found at i:102592225 original size:4 final size:4
Alignment explanation
Indices: 102592216--102592241 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
102592206 TAAAAGTTCA
102592216 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
102592242 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:102592621 original size:20 final size:21
Alignment explanation
Indices: 102592596--102592637 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
102592586 AAGTTACGTG
102592596 ATCGATATGGAATAAT-TTAA
1 ATCGATATGGAATAATCTTAA
102592616 ATCGATATGGAATAATCTTAA
1 ATCGATATGGAATAATCTTAA
102592637 A
1 A
102592638 GTGACACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.33
Consensus pattern (21 bp):
ATCGATATGGAATAATCTTAA
Found at i:102594017 original size:62 final size:62
Alignment explanation
Indices: 102593939--102594064 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
102593929 TGAACTTAGG
102593939 TGAATTTGGTTAATTGAAAAAAGATATGGGAATTGAAAAAAAACAAGTCTTTGTTGTGTTGA
1 TGAATTTGGTTAATTGAAAAAAGATATGGGAATTGAAAAAAAACAAGTCTTTGTTGTGTTGA
*
102594001 TGAATTTGGTTCATTGAAAAAAGATATGGGAATTGAAAAAAAACAAGTCTTTGTTGTGTTGA
1 TGAATTTGGTTAATTGAAAAAAGATATGGGAATTGAAAAAAAACAAGTCTTTGTTGTGTTGA
102594063 TG
1 TG
102594065 GGACTGAATT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (62 bp):
TGAATTTGGTTAATTGAAAAAAGATATGGGAATTGAAAAAAAACAAGTCTTTGTTGTGTTGA
Found at i:102595002 original size:168 final size:164
Alignment explanation
Indices: 102594704--102595008 Score: 353
Period size: 168 Copynumber: 1.8 Consensus size: 164
102594694 GCTGTTCTGT
* * **
102594704 CTTTGCACTTATGGTGATAATCAAGTATGCTATTGATTATATATGAGGTAATCTTAGCTTGATTG
1 CTTTGCACATATGGTGATAATAAAGTATGCTATTGATTATATATGAGGTAATCTTAGCCAGATTG
* ** *
102594769 GCATCGAGATGGTCCGTAGAAGGCTTGCATAGAATTGTTTTCATTATCGAACTGTATGAGGAAGA
66 GCATCGAGATGGTCCGTAGAAGGCTTGCATAGAAATGTTTTCATTATCGAAAAGTAAGAGGAAGA
*
102594834 ATGAATTACGGTATACGTTTTATTGCTCTCCTCA
131 ATAAATTACGGTATACGTTTTATTGCTCTCCTCA
* * * *
102594868 CTTTGCACATATTGTGATGATAAAAGTATGCTATTGATTATATATAATGAGTTAATCTTGGCCAG
1 CTTTGCACATATGGTGATAAT-AAAGTATGCTATTGA-T-TATAT-ATGAGGTAATCTTAGCCAG
* * * * * ** *
102594933 ATTGGCATCTAGCTGGTCCGTGGAGGGCTTGCCTAGAAATGTTTTTGTTGT-GAAAAAGTACAG-
62 ATTGGCATCGAGATGGTCCGTAGAAGGCTTGCATAGAAATGTTTTCATTATCG-AAAAGTA-AGA
102594996 GGAAGAATAAATT
125 GGAAGAATAAATT
102595009 GGGGGTCAGT
Statistics
Matches: 114, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
164 18 0.16
165 14 0.12
166 1 0.01
167 6 0.05
168 74 0.65
169 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (164 bp):
CTTTGCACATATGGTGATAATAAAGTATGCTATTGATTATATATGAGGTAATCTTAGCCAGATTG
GCATCGAGATGGTCCGTAGAAGGCTTGCATAGAAATGTTTTCATTATCGAAAAGTAAGAGGAAGA
ATAAATTACGGTATACGTTTTATTGCTCTCCTCA
Found at i:102596890 original size:5 final size:6
Alignment explanation
Indices: 102596867--102596897 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
102596857 TAAAAGAATC
102596867 ATTTTAT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTT-T ATTTTT ATTTTT ATTTTT ATTTTT
102596898 TTAATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:102596904 original size:29 final size:27
Alignment explanation
Indices: 102596868--102596925 Score: 71
Period size: 29 Copynumber: 2.1 Consensus size: 27
102596858 AAAAGAATCA
** *
102596868 TTTTATATTTTTATTTTTATTTTTATTT
1 TTTTATATTTAAATTTCTATTTTT-TTT
102596896 TTTTAATATTTAAATTTCTATTTTTTTT
1 TTTT-ATATTTAAATTTCTATTTTTTTT
102596924 TT
1 TT
102596926 GTAAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTTATATTTAAATTTCTATTTTTTTT
Found at i:102598777 original size:21 final size:21
Alignment explanation
Indices: 102598740--102598788 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
102598730 TTCACCGTGC
*
102598740 AATATTTTTTTAGATTTTATA
1 AATATTTTTTGAGATTTTATA
*
102598761 AATATTTTTCTGA-ATTTTTTA
1 AATATTTTT-TGAGATTTTATA
*
102598782 CATATTT
1 AATATTT
102598789 ATTTCTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (21 bp):
AATATTTTTTGAGATTTTATA
Found at i:102608124 original size:21 final size:21
Alignment explanation
Indices: 102608098--102608138 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
102608088 CAGACGAGCA
* *
102608098 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
102608119 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
102608139 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:102613291 original size:16 final size:16
Alignment explanation
Indices: 102613264--102613303 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
102613254 ATCTACATAG
102613264 TATTTT-TTTTAAAAT
1 TATTTTATTTTAAAAT
*
102613279 TATTTTATTTTAATAT
1 TATTTTATTTTAAAAT
*
102613295 TATTATATT
1 TATTTTATT
102613304 ATGTTTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTTATTTTAAAAT
Found at i:102613359 original size:19 final size:19
Alignment explanation
Indices: 102613335--102613371 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
102613325 TTCTATATTA
*
102613335 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
102613354 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
102613372 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:102613384 original size:3 final size:3
Alignment explanation
Indices: 102613330--102613365 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
102613320 TGAATTTCTA
*
102613330 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA
102613366 CTGTTATGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:102613518 original size:21 final size:21
Alignment explanation
Indices: 102613492--102613533 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
102613482 TTTTTTAACA
* * *
102613492 TTATTATGTTTACTATTTTAT
1 TTATTATCTTTAATATATTAT
102613513 TTATTATCTTTAATATATTAT
1 TTATTATCTTTAATATATTAT
102613534 ATTTTACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (21 bp):
TTATTATCTTTAATATATTAT
Found at i:102613594 original size:9 final size:9
Alignment explanation
Indices: 102613576--102613610 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
102613566 ACTTTCTTTT
*
102613576 TTATTTTTG
1 TTATTATTG
102613585 TTATTATTG
1 TTATTATTG
*
102613594 TTATTATTA
1 TTATTATTG
102613603 TTATTATT
1 TTATTATT
102613611 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (9 bp):
TTATTATTG
Found at i:102614085 original size:38 final size:40
Alignment explanation
Indices: 102614043--102614122 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 40
102614033 TTTGCTTACT
* * *
102614043 TTATTATGTACATACATTTTA-CAATACTTA-TATATATA
1 TTATTATGTAAATACACTTTAGCAATACTAATTATATATA
* *
102614081 TTATTATGTAAATATACTTTAGCATTACTAATTATATATA
1 TTATTATGTAAATACACTTTAGCAATACTAATTATATATA
102614121 TT
1 TT
102614123 CCTAAATACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 18 0.51
39 7 0.20
40 10 0.29
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.49
Consensus pattern (40 bp):
TTATTATGTAAATACACTTTAGCAATACTAATTATATATA
Found at i:102621239 original size:21 final size:21
Alignment explanation
Indices: 102621213--102621253 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
102621203 AGACGAGCGA
* *
102621213 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
102621234 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
102621254 TTGAGCTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:102633814 original size:69 final size:69
Alignment explanation
Indices: 102633708--102634375 Score: 437
Period size: 69 Copynumber: 9.7 Consensus size: 69
102633698 AAGTTTGCAA
* * * * * **
102633708 CTCCAAAATAGCTCGCGAACCTACGTTCCCAGTTGATATTATAAAAACTCTCCGGTTTAAGATCG
1 CTCCAAAACAACTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCTCCGGTTTAAGATCG
*
102633773 CAAC
66 CAGC
* * * * *
102633777 CTCCAAGACAACTTGCGGACCTAAGTTCCTAGCTGATATTATAAAGGCTCTCCGGTTTAATATTG
1 CTCCAAAACAACTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCTCCGGTTTAAGATCG
*
102633842 CAGG
66 CAGC
* * ** * **
102633846 CTCCAAAATAGCTCATGGACCTACGTTTCCT-GCTGATATTATAAAGGCTCGCTAGTTTAAGA-C
1 CTCCAAAACAACTCGCGGACCTACG-TTCCTAGCTGATATTATAAAGGCTCTCCGGTTTAAGATC
*
102633909 TGTAGC
65 -GCAGC
* * * * * *
102633915 CTCCAAAACAGCTCGCGAACCTACGCTCCTAGCTGATATTATAAAGGCTCACCGATCTAAGATCG
1 CTCCAAAACAACTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCTCCGGTTTAAGATCG
*
102633980 CATC
66 CAGC
**** ** * * * *** * *
102633984 CTCCAAAACAACTCAAAAACCTATATTCCCAACTGATATTATAAAGGTTCGAAGATTTAAGATCA
1 CTCCAAAACAACTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCTCCGGTTTAAGATCG
102634049 CAGC
66 CAGC
* * * * * * * ** * *
102634053 CTCCAAAATAGCTCGTGGACCTACGTTCCCAGCTAATATTGTAAAGGCTCGCTAGTTTAAAATCA
1 CTCCAAAACAACTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCTCCGGTTTAAGATCG
102634118 CAGC
66 CAGC
* * * * * * * * **
102634122 CTCCAAAGCAGCTTGTGGACCTATGCT-CTCAGCTGATATTGTAAAGGCTCACCGAATTAAGATC
1 CTCCAAAACAACTCGCGGACCTACGTTCCT-AGCTGATATTATAAAGGCTCTCCGGTTTAAGATC
*
102634186 GTAGC
65 GCAGC
* * * * * * * *
102634191 CTTCAAAACAACTCACGAACCTATGTTCCTAGCTAATATTGTAAAGGCT-TGCCAGATTAAGATC
1 CTCCAAAACAACTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCT-CCGGTTTAAGATC
* *
102634255 ACAGT
65 GCAGC
* * * * *** * *
102634260 CTCCAAAACAGCTCGCAGACCTATGTTCCCAGCTGATATTATAAAGGCTAGACGGTTTAATACCG
1 CTCCAAAACAACTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCTCCGGTTTAAGATCG
* *
102634325 TAAC
66 CAGC
* ** * *
102634329 CTCCAAAACAAGTAACGGGCCTACGTT-CTCAACTGATATTATAAAGG
1 CTCCAAAACAACTCGCGGACCTACGTTCCT-AGCTGATATTATAAAGG
102634376 TTAGTTGATT
Statistics
Matches: 460, Mismatches: 130, Indels: 18
0.76 0.21 0.03
Matches are distributed among these distances:
68 6 0.01
69 446 0.97
70 8 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (69 bp):
CTCCAAAACAACTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCTCCGGTTTAAGATCG
CAGC
Found at i:102634334 original size:207 final size:206
Alignment explanation
Indices: 102633708--102634338 Score: 640
Period size: 207 Copynumber: 3.0 Consensus size: 206
102633698 AAGTTTGCAA
* * * * ** * * *
102633708 CTCCAAAATAGCTCGCGAACCTACGTTCCCAGTTGATATTATAAAAACTCTCCGGTTTAAGATCG
1 CTCCAAAACAGCTCGCGAACCTACGCTCCTAGCTGATATTATAAAGGCTCACCGATCTAAGATCG
* * ***** * * * *
102633773 CAACCTCCAAGACAACTTGCGGACCTAAGTTCCTAGCTGATATTATAAAGGCTCTCCGGTTTAAT
66 CAGCCTCCAAAACAACTCAAAAACCTATGTTCCTAGCTGATATTATAAAGGCT-TCCAGATTAAG
** * * * *
102633838 ATTGCAGGCTCCAAAATAGCTCATGGACCTACGTTTCCTGCTGATATTATAAAGGCTCGCTAGTT
130 ATCACAGCCTCCAAAATAGCTCGTGGACCTACGTTCCCAGCTGATATTATAAAGGCTCGCTAGTT
* *
102633903 TAAGACTGTAGC
195 TAAAACCGTAGC
102633915 CTCCAAAACAGCTCGCGAACCTACGCTCCTAGCTGATATTATAAAGGCTCACCGATCTAAGATCG
1 CTCCAAAACAGCTCGCGAACCTACGCTCCTAGCTGATATTATAAAGGCTCACCGATCTAAGATCG
* * * * *
102633980 CATCCTCCAAAACAACTCAAAAACCTATATTCCCAACTGATATTATAAAGG-TTCGAAGATTTAA
66 CAGCCTCCAAAACAACTCAAAAACCTATGTTCCTAGCTGATATTATAAAGGCTTC-CAGA-TTAA
* *
102634044 GATCACAGCCTCCAAAATAGCTCGTGGACCTACGTTCCCAGCTAATATTGTAAAGGCTCGCTAGT
129 GATCACAGCCTCCAAAATAGCTCGTGGACCTACGTTCCCAGCTGATATTATAAAGGCTCGCTAGT
* **
102634109 TTAAAATCACAGC
194 TTAAAACCGTAGC
* * * * * *
102634122 CTCCAAAGCAGCTTGTGGACCTATGCT-CTCAGCTGATATTGTAAAGGCTCACCGAAT-TAAGAT
1 CTCCAAAACAGCTCGCGAACCTACGCTCCT-AGCTGATATTATAAAGGCTCACCG-ATCTAAGAT
* * ** * *
102634185 CGTAGCCTTCAAAACAACTCACGAACCTATGTTCCTAGCTAATATTGTAAAGGCTTGCCAGATTA
64 CGCAGCCTCCAAAACAACTCAAAAACCTATGTTCCTAGCTGATATTATAAAGGCTT-CCAGATTA
* * ** * * *
102634250 AGATCACAGTCTCCAAAACAGCTCGCAGACCTATGTTCCCAGCTGATATTATAAAGGCTAGAC-G
128 AGATCACAGCCTCCAAAATAGCTCGTGGACCTACGTTCCCAGCTGATATTATAAAGGCTCG-CTA
* *
102634314 GTTTAATACCGTAAC
192 GTTTAAAACCGTAGC
102634329 CTCCAAAACA
1 CTCCAAAACA
102634339 AGTAACGGGC
Statistics
Matches: 348, Mismatches: 69, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
205 2 0.01
206 4 0.01
207 333 0.96
208 8 0.02
209 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (206 bp):
CTCCAAAACAGCTCGCGAACCTACGCTCCTAGCTGATATTATAAAGGCTCACCGATCTAAGATCG
CAGCCTCCAAAACAACTCAAAAACCTATGTTCCTAGCTGATATTATAAAGGCTTCCAGATTAAGA
TCACAGCCTCCAAAATAGCTCGTGGACCTACGTTCCCAGCTGATATTATAAAGGCTCGCTAGTTT
AAAACCGTAGC
Found at i:102634336 original size:138 final size:138
Alignment explanation
Indices: 102633708--102634339 Score: 511
Period size: 138 Copynumber: 4.6 Consensus size: 138
102633698 AAGTTTGCAA
* * * ** **
102633708 CTCCAAAATAGCTCGC-GAACCTACGTTCCCAGTTGATATTATAAAAACTCTCCGGTTTAAGATC
1 CTCCAAAACAGCTCGCAG-ACCTATGTTCCCAGCTGATATTATAAAGGCTCGACGGTTTAAGATC
* * * * * * * * * *
102633772 GCAACCTCCAAGACAACTTGCGGACCTAAGTTCCTAGCTGATATTATAAAGGCTCTCCGGTTTAA
65 GTAGCCTCCAAAACAACTCGCGAACCTACGTTCCTAGCTAATATTATAAAGGCTCGCCAGATTAA
* ** *
102633837 TATTGCAGG
130 GATCACAGT
* *** * * * *
102633846 CTCCAAAATAGCTCATGGACCTACGTTTCCTGCTGATATTATAAAGGCTCG-CTAGTTTAAGA-C
1 CTCCAAAACAGCTCGCAGACCTATGTTCCCAGCTGATATTATAAAGGCTCGAC-GGTTTAAGATC
* * * *
102633909 TGTAGCCTCCAAAACAGCTCGCGAACCTACGCTCCTAGCTGATATTATAAAGGCTCACC-GATCT
65 -GTAGCCTCCAAAACAACTCGCGAACCTACGTTCCTAGCTAATATTATAAAGGCTCGCCAGAT-T
*
102633973 AAGATCGCA-T
128 AAGATCACAGT
* ** * * * * * *
102633983 CCTCCAAAACAACTCAAAAACCTATATTCCCAACTGATATTATAAAGGTTCGAAGATTTAAGATC
1 -CTCCAAAACAGCTCGCAGACCTATGTTCCCAGCTGATATTATAAAGGCTCGACGGTTTAAGATC
** * * * * * * * *
102634048 ACAGCCTCCAAAATAGCTCGTGGACCTACGTTCCCAGCTAATATTGTAAAGGCTCGCTAGTTTAA
65 GTAGCCTCCAAAACAACTCGCGAACCTACGTTCCTAGCTAATATTATAAAGGCTCGCCAGATTAA
* *
102634113 AATCACAGC
130 GATCACAGT
* * ** * * * **
102634122 CTCCAAAGCAGCTTGTGGACCTATGCTCTCAGCTGATATTGTAAAGGCTC-ACCGAATTAAGATC
1 CTCCAAAACAGCTCGCAGACCTATGTTCCCAGCTGATATTATAAAGGCTCGA-CGGTTTAAGATC
* * * * *
102634186 GTAGCCTTCAAAACAACTCACGAACCTATGTTCCTAGCTAATATTGTAAAGGCTTGCCAGATTAA
65 GTAGCCTCCAAAACAACTCGCGAACCTACGTTCCTAGCTAATATTATAAAGGCTCGCCAGATTAA
102634251 GATCACAGT
130 GATCACAGT
* * *
102634260 CTCCAAAACAGCTCGCAGACCTATGTTCCCAGCTGATATTATAAAGGCTAGACGGTTTAATACCG
1 CTCCAAAACAGCTCGCAGACCTATGTTCCCAGCTGATATTATAAAGGCTCGACGGTTTAAGATCG
*
102634325 TAACCTCCAAAACAA
66 TAGCCTCCAAAACAA
102634340 GTAACGGGCC
Statistics
Matches: 388, Mismatches: 95, Indels: 22
0.77 0.19 0.04
Matches are distributed among these distances:
137 5 0.01
138 378 0.97
139 5 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (138 bp):
CTCCAAAACAGCTCGCAGACCTATGTTCCCAGCTGATATTATAAAGGCTCGACGGTTTAAGATCG
TAGCCTCCAAAACAACTCGCGAACCTACGTTCCTAGCTAATATTATAAAGGCTCGCCAGATTAAG
ATCACAGT
Found at i:102635188 original size:18 final size:18
Alignment explanation
Indices: 102635149--102635222 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
102635139 GAAAGATTAT
* * *
102635149 TTATTCAGTAACAGTTAG
1 TTATTCAGTAACAATCAA
*
102635167 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
102635185 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
* *
102635203 TTACTCAGTATCAATCAA
1 TTATTCAGTAACAATCAA
102635221 TT
1 TT
102635223 GATCGGTTAT
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:102636859 original size:5 final size:5
Alignment explanation
Indices: 102636845--102636877 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
102636835 TTTAGTTTAT
102636845 ATATA TATATA ATATA ATATA ATATA ATATA AT
1 ATATA -ATATA ATATA ATATA ATATA ATATA AT
102636878 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:102638846 original size:64 final size:64
Alignment explanation
Indices: 102638762--102638938 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
102638752 ATATATATTT
*
102638762 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
102638826 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
102638890 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
102638939 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:102639114 original size:41 final size:41
Alignment explanation
Indices: 102639057--102639420 Score: 498
Period size: 41 Copynumber: 8.9 Consensus size: 41
102639047 TATATGAGAT
*
102639057 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
*
102639098 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
102639139 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
*
102639180 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
102639221 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * *
102639262 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * *
102639303 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * * * *
102639344 ATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGA
1 TTTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTG-AATTA
* * ** *
102639386 -ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
102639421 TTTTATATAG
Statistics
Matches: 303, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
40 2 0.01
41 294 0.97
42 7 0.02
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.34
Consensus pattern (41 bp):
TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:102640112 original size:14 final size:15
Alignment explanation
Indices: 102640088--102640122 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
102640078 TACTTTAATC
102640088 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
102640103 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
102640118 ATGGT
1 ATGGT
102640123 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:102641468 original size:21 final size:21
Alignment explanation
Indices: 102641423--102641494 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 21
102641413 CAATGCATTA
102641423 TAATTTTATTATTTTAAGTCAAATT
1 TAATTTTATTA-TTT-A-T-AAATT
102641448 TAATTTTGA-TATTTATAAATT
1 TAATTTT-ATTATTTATAAATT
* *
102641469 TAAATTTATTTTTTATACAATT
1 TAATTTTATTATTTATA-AATT
102641491 TAAT
1 TAAT
102641495 AATCATCCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.02
21 18 0.44
22 8 0.20
23 1 0.02
24 3 0.07
25 9 0.22
26 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TAATTTTATTATTTATAAATT
Found at i:102642592 original size:20 final size:20
Alignment explanation
Indices: 102642561--102642613 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
102642551 GAATTACAAA
*
102642561 AAAAAATTCAAAATAATTT-T
1 AAAAATTTCAAAAT-ATTTAT
* *
102642581 CAAATTTTCAAAATATTTAT
1 AAAAATTTCAAAATATTTAT
102642601 AAAAATTTCAAAA
1 AAAAATTTCAAAA
102642614 AATATAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATTTCAAAATATTTAT
Found at i:102646460 original size:6 final size:6
Alignment explanation
Indices: 102646449--102646473 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
102646439 AACATTTAAA
102646449 TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT T
102646474 TTTATAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:102646827 original size:68 final size:68
Alignment explanation
Indices: 102646746--102646883 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
102646736 ATATATATAT
102646746 GTATATATATATTTGTTATTAATTATATATTATTCATATAAAAGGAAAGGTCCTTTGGACTTTCC
1 GTATATATATATTTGTTATTAATTATATATTATTCATATAAAAGGAAAGGTCCTTTGGACTTTCC
102646811 TTC
66 TTC
102646814 GTATATATATATTTGTTATTAATTATATATTATTCATATAAAAGGAAAGGTCCTTTGGACTTTCC
1 GTATATATATATTTGTTATTAATTATATATTATTCATATAAAAGGAAAGGTCCTTTGGACTTTCC
102646879 TTC
66 TTC
102646882 GT
1 GT
102646884 TCACACGTGA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (68 bp):
GTATATATATATTTGTTATTAATTATATATTATTCATATAAAAGGAAAGGTCCTTTGGACTTTCC
TTC
Found at i:102647822 original size:17 final size:14
Alignment explanation
Indices: 102647779--102647824 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 14
102647769 TTTTTTTAGA
102647779 TTAAAATATTATTT
1 TTAAAATATTATTT
102647793 TTAAAAT-TTATTT
1 TTAAAATATTATTT
102647806 TTATTGAAATATTATTT
1 TTA---AAATATTATTT
102647823 TT
1 TT
102647825 CATAAGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.32
14 7 0.25
16 4 0.14
17 8 0.29
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (14 bp):
TTAAAATATTATTT
Found at i:102655297 original size:18 final size:18
Alignment explanation
Indices: 102655274--102655362 Score: 99
Period size: 18 Copynumber: 4.9 Consensus size: 18
102655264 TCATCAATAT
102655274 TAATCAGTTATTCAGTAA
1 TAATCAGTTATTCAGTAA
*
102655292 TAATCATTTATTCAGTAA
1 TAATCAGTTATTCAGTAA
* *
102655310 CAGTC-GTTTATTCAGTAA
1 TAATCAG-TTATTCAGTAA
* * *
102655328 CAGTCAATTATTCAGTAA
1 TAATCAGTTATTCAGTAA
*
102655346 TAATCATTTATTCAGTA
1 TAATCAGTTATTCAGTA
102655363 CCTTTATTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.40
Consensus pattern (18 bp):
TAATCAGTTATTCAGTAA
Found at i:102655323 original size:36 final size:36
Alignment explanation
Indices: 102655275--102655362 Score: 113
Period size: 36 Copynumber: 2.4 Consensus size: 36
102655265 CATCAATATT
* * *
102655275 AATCAGTTATTCAGTAATAATCATTTATTCAGTAAC
1 AATCATTTATTCAGTAACAATCAATTATTCAGTAAC
* * * *
102655311 AGTCGTTTATTCAGTAACAGTCAATTATTCAGTAAT
1 AATCATTTATTCAGTAACAATCAATTATTCAGTAAC
102655347 AATCATTTATTCAGTA
1 AATCATTTATTCAGTA
102655363 CCTTTATTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (36 bp):
AATCATTTATTCAGTAACAATCAATTATTCAGTAAC
Found at i:102662402 original size:45 final size:45
Alignment explanation
Indices: 102662310--102662413 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
102662300 CAATAATCAG
* * *
102662310 TAACAGTAGCAGTAACAGTATTCGACACACAAAGTGCCAAATTGA
1 TAACAGTAACAGTAACAATATTCGACACACAAAGTGCCAAATAGA
* * * **
102662355 TAATAGTAATAGTAACAATATTCGACACATAAAGTGCTGAATAGA
1 TAACAGTAACAGTAACAATATTCGACACACAAAGTGCCAAATAGA
102662400 TAACAGTAACAGTA
1 TAACAGTAACAGTA
102662414 GCAGTAACAG
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.23
Consensus pattern (45 bp):
TAACAGTAACAGTAACAATATTCGACACACAAAGTGCCAAATAGA
Found at i:102663391 original size:4 final size:4
Alignment explanation
Indices: 102663382--102663415 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
102663372 CACATCTGTC
102663382 TTTA TTTA TTTA TTTTA TTTA TTTA CTTTA TTTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA -TTTA TTTA
102663416 ATTAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:102663400 original size:9 final size:8
Alignment explanation
Indices: 102663382--102663415 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
102663372 CACATCTGTC
102663382 TTTATTTA
1 TTTATTTA
102663390 TTTATTTTA
1 TTTA-TTTA
102663399 TTTATTTA
1 TTTATTTA
102663407 CTTTATTTA
1 -TTTATTTA
102663416 ATTAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTATTTA
Found at i:102663400 original size:13 final size:13
Alignment explanation
Indices: 102663381--102663415 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
102663371 ACACATCTGT
102663381 CTTTATTTATTTA
1 CTTTATTTATTTA
*
102663394 TTTTATTTATTTA
1 CTTTATTTATTTA
102663407 CTTTATTTA
1 CTTTATTTA
102663416 ATTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (13 bp):
CTTTATTTATTTA
Found at i:102663822 original size:59 final size:59
Alignment explanation
Indices: 102663750--102663868 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
102663740 GAAACGGAGA
102663750 TCCAAAAATGCACTTTTCTGATAACCGTAAAATTCGGGTCATTACAAAATTGTAATTTT
1 TCCAAAAATGCACTTTTCTGATAACCGTAAAATTCGGGTCATTACAAAATTGTAATTTT
102663809 TCCAAAAATGCACTTTTCTGATAACCGTAAAATTCGGGTCATTACAAAATTGTAATTTT
1 TCCAAAAATGCACTTTTCTGATAACCGTAAAATTCGGGTCATTACAAAATTGTAATTTT
102663868 T
1 T
102663869 ACTATAGCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (59 bp):
TCCAAAAATGCACTTTTCTGATAACCGTAAAATTCGGGTCATTACAAAATTGTAATTTT
Found at i:102665508 original size:20 final size:20
Alignment explanation
Indices: 102665468--102665519 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
102665458 AAATACAAAT
* *
102665468 ATAATCATAATATATATTCAA
1 ATAATTATAA-ATATAATCAA
102665489 ATAATTATAAATATAATCAA
1 ATAATTATAAATATAATCAA
102665509 ATCAA-TATAAA
1 AT-AATTATAAA
102665520 ATACTATGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAATTATAAATATAATCAA
Found at i:102665939 original size:58 final size:57
Alignment explanation
Indices: 102665877--102665985 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
102665867 CTTAAAGAAC
* * *
102665877 AACTTGAACA-AATAAAGTTCAGGCC-CTAATGTAAAAATAATTGTTAAATTCAGAGACT
1 AACTTGAA-ATAAAAAAGTTCAAGCCTC-AAT-TAAAAATAATTGTAAAATTCAGAGACT
*
102665935 AACTTGAAATAAAAAAGTTCAAGCCTCAATTTAAAATAATTGTAAAATTCA
1 AACTTGAAATAAAAAAGTTCAAGCCTCAATTAAAAATAATTGTAAAATTCA
102665986 AGTCCCAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
57 20 0.44
58 24 0.53
59 1 0.02
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (57 bp):
AACTTGAAATAAAAAAGTTCAAGCCTCAATTAAAAATAATTGTAAAATTCAGAGACT
Found at i:102674496 original size:30 final size:30
Alignment explanation
Indices: 102674462--102674523 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
102674452 ACTTATTTTA
102674462 TTGTTAATTTTGTTATTATTTCAAAGGCAT
1 TTGTTAATTTTGTTATTATTTCAAAGGCAT
* *
102674492 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTCAAAGGCAT
102674522 TT
1 TT
102674524 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.05, G:0.15, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTCAAAGGCAT
Found at i:102675254 original size:6 final size:7
Alignment explanation
Indices: 102675232--102675266 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
102675222 AGCTCATATA
102675232 TTTAATT
1 TTTAATT
102675239 TTTAATT
1 TTTAATT
102675246 TTTAATT
1 TTTAATT
102675253 TTTAATT
1 TTTAATT
*
102675260 TTAAATT
1 TTTAATT
102675267 GCTTTCTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTAATT
Found at i:102676505 original size:15 final size:15
Alignment explanation
Indices: 102676453--102676569 Score: 58
Period size: 14 Copynumber: 8.1 Consensus size: 15
102676443 TTTATACTAC
*
102676453 AAAATATTT-TTATC
1 AAAATATTTATTATT
*
102676467 AATATATTTATTAATGT
1 AAAATATTTATT-AT-T
102676484 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
*
102676501 AAAATA-TTAATATT
1 AAAATATTTATTATT
*
102676515 -AAATA-TT-TTGTT
1 AAAATATTTATTATT
102676527 AAGAATA-TTA-T-TT
1 AA-AATATTTATTATT
102676540 AAAAT-TATTATT-TT
1 AAAATAT-TTATTATT
*
102676554 TAAA-ATTTATTATT
1 AAAATATTTATTATT
102676568 AA
1 AA
102676570 TATAATAATA
Statistics
Matches: 82, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
12 6 0.07
13 20 0.24
14 32 0.39
15 7 0.09
16 3 0.04
17 1 0.01
18 3 0.04
19 10 0.12
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:102676563 original size:16 final size:16
Alignment explanation
Indices: 102676532--102676568 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
102676522 TTGTTAAGAA
102676532 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
102676548 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
102676564 TATTA
1 TATTA
102676569 ATATAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:102676569 original size:13 final size:14
Alignment explanation
Indices: 102676487--102676583 Score: 78
Period size: 13 Copynumber: 7.1 Consensus size: 14
102676477 TTAATGTAAT
102676487 AAATATTTATTATTA
1 AAATA-TTATTATTA
*
102676502 AAATATTAATATT-
1 AAATATTATTATTA
*
102676515 AAATATT-TTGTTA
1 AAATATTATTATTA
102676528 AGAATATTA-T-TTA
1 A-AATATTATTATTA
*
102676541 AAATTATTATTTTTA
1 AAA-TATTATTATTA
102676556 AAAT-TTATTATTA
1 AAATATTATTATTA
* * *
102676569 ATATAATAATATTA
1 AAATATTATTATTA
102676583 A
1 A
102676584 GTTTGATTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 15
0.76 0.08 0.17
Matches are distributed among these distances:
12 5 0.07
13 28 0.41
14 24 0.35
15 11 0.16
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
AAATATTATTATTA
Found at i:102678317 original size:72 final size:73
Alignment explanation
Indices: 102678235--102678371 Score: 222
Period size: 73 Copynumber: 1.9 Consensus size: 73
102678225 TTTAAATTCA
102678235 TGTTTTCTTTGCATTTTCCGA-TTTTTCCTGGGTTTTTTACAACTGCGATAGCTGGTAAATGTTA
1 TGTTTTCTTTGCATTTTCCGATTTTTTCCTGGGTTTTTTACAACTGCGATAGCTGGTAAATGTTA
102678299 TTTTTCTC
66 TTTTTCTC
* * * * *
102678307 TGTTTTCTTTGCATTTTTCGATTTTTTCCTGGTTTTTTTACAACTTCGTTATCTGGTAAATGTTA
1 TGTTTTCTTTGCATTTTCCGATTTTTTCCTGGGTTTTTTACAACTGCGATAGCTGGTAAATGTTA
102678372 ATTACTTGTA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
72 20 0.34
73 39 0.66
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (73 bp):
TGTTTTCTTTGCATTTTCCGATTTTTTCCTGGGTTTTTTACAACTGCGATAGCTGGTAAATGTTA
TTTTTCTC
Found at i:102679788 original size:28 final size:28
Alignment explanation
Indices: 102679756--102679812 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
102679746 AATCTTTGCA
*
102679756 ACGCCTGAAAGAGAATATTCATACAGTC
1 ACGCCTGAAAGAGAATATTAATACAGTC
*
102679784 ACGCCTGAAAGAGCATATTAATACAGTC
1 ACGCCTGAAAGAGAATATTAATACAGTC
102679812 A
1 A
102679813 TCTAAACTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (28 bp):
ACGCCTGAAAGAGAATATTAATACAGTC
Found at i:102682486 original size:18 final size:18
Alignment explanation
Indices: 102682463--102682500 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
102682453 TATTGTTTTC
102682463 AAAATTTATTATTAAAAT
1 AAAATTTATTATTAAAAT
*
102682481 AAAATTTATTATTAATAT
1 AAAATTTATTATTAAAAT
102682499 AA
1 AA
102682501 TTATATTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAATTTATTATTAAAAT
Found at i:102686539 original size:21 final size:22
Alignment explanation
Indices: 102686513--102686571 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
102686503 GTTTTAAGAA
*
102686513 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
102686534 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
102686556 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
102686572 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:102686586 original size:26 final size:24
Alignment explanation
Indices: 102686542--102686591 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
102686532 ATTTGTTTTA
*
102686542 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
102686566 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
102686592 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:102697332 original size:87 final size:87
Alignment explanation
Indices: 102697227--102697596 Score: 233
Period size: 87 Copynumber: 4.3 Consensus size: 87
102697217 GACCTACTCT
* * * * * *
102697227 GCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATA
1 GCTGTAATCTCAGGGAGATAAGATCTC-TGACTTCAATCCACTCCACTGTAACCTCAGGGAGATA
* *
102697291 GGATAGTG-TCTTTGATCTGCTCC
65 AGAT-CTGATCTTTGATCTGCTCC
* **
102697314 GCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAA
1 GCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCACTCCACTGTAACCTCAGGGAGATAA
* *
102697379 GATCTGAAATTCTTTGGTCTGTTCC
66 GATCTG--A-TCTTTGATCTGCTCC
* * ** * * *
102697404 ACTGTAATCTCAGGGAGATAAGA-C-CTGA-TGT-GATCTTCTCTACTGTAACTTCAGAGAGATA
1 GCTGTAATCTCAGGGAGATAAGATCTCTGACT-TCAATCCACTCCACTGTAACCTCAGGGAGATA
* *
102697465 AGATC----CTTTAATCCGCTCC
65 AGATCTGATCTTTGATCTGCTCC
** * * ** * * *
102697484 ATTGTAATCTCAAGGAGATAGGAT-TACT-ATCTTTGATCCGCTCCGCTGTAATCTCAGGGAGAT
1 GCTGTAATCTCAGGGAGATAAGATCT-CTGA-CTTCAATCCACTCCACTGTAACCTCAGGGAGAT
* * *
102697547 AAGATCTGAAATTTTTTGGTCTGTTCC
64 AAGATCTG--A-TCTTTGATCTGCTCC
* *
102697574 ACTGTAATCTTAGGGAGATAAGA
1 GCTGTAATCTCAGGGAGATAAGA
102697597 CCTGTATAAT
Statistics
Matches: 221, Mismatches: 43, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
80 30 0.14
81 1 0.00
82 3 0.01
83 29 0.13
86 2 0.01
87 87 0.39
88 5 0.02
89 1 0.00
90 63 0.29
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (87 bp):
GCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCACTCCACTGTAACCTCAGGGAGATAA
GATCTGATCTTTGATCTGCTCC
Found at i:102697419 original size:46 final size:43
Alignment explanation
Indices: 102697267--102697596 Score: 225
Period size: 44 Copynumber: 7.6 Consensus size: 43
102697257 TTTTAATCCA
*
102697267 CTCCACTGTAA-CTTCAGGGAGATAGGA--TAGTGTCTTTGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTA-T-TCTTTGATCTG
* * * **
102697310 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAT-TCTTTGATCTG
* *
102697354 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---ATTCTTTGATCTG
* * * *
102697400 TTCCACTGTAATCTCAGGGAGATAAGACCTGA---TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-ATTCTTTGATCTG
* * * *
102697441 CTCTACTGTAA-CTTCAGAGAGATAAGATC----CTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTATTCTTTGATCTG
* * * *
102697480 CTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCCG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTA-T-TCTTTGATCTG
* * *
102697524 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTTTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---ATTCTTTGATCTG
* *
102697570 TTCCACTGTAATCTTAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
102697597 CCTGTATAAT
Statistics
Matches: 224, Mismatches: 44, Indels: 35
0.74 0.15 0.12
Matches are distributed among these distances:
39 26 0.12
40 2 0.01
41 29 0.13
43 23 0.10
44 73 0.33
45 2 0.01
46 66 0.29
47 2 0.01
48 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (43 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTATTCTTTGATCTG
Found at i:102698770 original size:1 final size:1
Alignment explanation
Indices: 102698764--102698792 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
102698754 CTCAAAGTCC
102698764 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
102698793 AGGAAGCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:102712323 original size:15 final size:15
Alignment explanation
Indices: 102712305--102712334 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
102712295 AAATTTTAAT
*
102712305 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
102712320 TTTTTATAATTTATA
1 TTTTTATAATTTATA
102712335 AAGGATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:102718863 original size:16 final size:16
Alignment explanation
Indices: 102718844--102718896 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
102718834 TGACGTACAT
*
102718844 TAATTTTAATTTTGTG
1 TAATTTTAATTTTATG
*
102718860 TAATTTT-A-TATATG
1 TAATTTTAATTTTATG
* *
102718874 TAATTTTAATTTAATT
1 TAATTTTAATTTTATG
102718890 TAATTTT
1 TAATTTT
102718897 CACAAATTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 11 0.37
15 2 0.07
16 17 0.57
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (16 bp):
TAATTTTAATTTTATG
Found at i:102722877 original size:31 final size:31
Alignment explanation
Indices: 102722842--102722924 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 31
102722832 AACCCCAATG
* * *
102722842 TGGGAATAATTATCAAGTTTAATAT-CTAATA
1 TGGGAACAATTGTCAAGTTCAA-ATCCTAATA
*
102722873 TGGGAACAATTGTTAAGTTCAAATCCTAATA
1 TGGGAACAATTGTCAAGTTCAAATCCTAATA
* *
102722904 TTGGAACAATTGTCAAATTCA
1 TGGGAACAATTGTCAAGTTCA
102722925 TGTACTGATT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 2 0.05
31 42 0.95
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (31 bp):
TGGGAACAATTGTCAAGTTCAAATCCTAATA
Found at i:102723437 original size:21 final size:22
Alignment explanation
Indices: 102723399--102723442 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
102723389 AAAACTTCAG
* *
102723399 TTTTTTCTTCAGTTTTTTACTA
1 TTTTTTCTTCACTATTTTACTA
*
102723421 TTTTTT-TTCACTATTTTGCTA
1 TTTTTTCTTCACTATTTTACTA
102723442 T
1 T
102723443 CATTTCACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.14, C:0.14, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTTTCTTCACTATTTTACTA
Found at i:102725150 original size:27 final size:27
Alignment explanation
Indices: 102725120--102725178 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
102725110 TTGACTGGAT
*
102725120 TTTAATAAATTTT-ATTTTAATATTTCA
1 TTTAAT-AATTTTGATATTAATATTTCA
* *
102725147 TTTAATATTTTTGGTATTAATATTTCA
1 TTTAATAATTTTGATATTAATATTTCA
102725174 TTTAA
1 TTTAA
102725179 GTTATTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (27 bp):
TTTAATAATTTTGATATTAATATTTCA
Found at i:102725535 original size:22 final size:22
Alignment explanation
Indices: 102725510--102725551 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
102725500 TTCTTTTTTT
* *
102725510 CTATTATTTTGCTACTATTTCA
1 CTATTATGTCGCTACTATTTCA
102725532 CTATTATGTCGCTACTATTT
1 CTATTATGTCGCTACTATTT
102725552 TAATGGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.19, G:0.07, T:0.52
Consensus pattern (22 bp):
CTATTATGTCGCTACTATTTCA
Found at i:102736316 original size:13 final size:13
Alignment explanation
Indices: 102736294--102736323 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
102736284 TCTTTTTTAA
*
102736294 TTTTTGTATAATT
1 TTTTTATATAATT
102736307 TTTTTATATAATT
1 TTTTTATATAATT
102736320 TTTT
1 TTTT
102736324 CACTCACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTTTATATAATT
Found at i:102748374 original size:83 final size:83
Alignment explanation
Indices: 102748235--102748401 Score: 316
Period size: 83 Copynumber: 2.0 Consensus size: 83
102748225 TTATAGATCA
*
102748235 CAATAACTAAGTGCACTACTTGGGGTAATAAACTTTCATTGATGTGCAATGATTGAAGGGAATTC
1 CAATAACTAAGTGCACTACTTGGGGTAATAAACTTTCATTGATGTGCAATGATTGAAGGGAATCC
102748300 AGTTTGCCATTTTTTCCC
66 AGTTTGCCATTTTTTCCC
*
102748318 CAATAACTAAGTGCACTACTTGGGGTAATAAATTTTCATTGATGTGCAATGATTGAAGGGAATCC
1 CAATAACTAAGTGCACTACTTGGGGTAATAAACTTTCATTGATGTGCAATGATTGAAGGGAATCC
102748383 AGTTTGCCATTTTTTCCC
66 AGTTTGCCATTTTTTCCC
102748401 C
1 C
102748402 TTCACCGTAG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (83 bp):
CAATAACTAAGTGCACTACTTGGGGTAATAAACTTTCATTGATGTGCAATGATTGAAGGGAATCC
AGTTTGCCATTTTTTCCC
Found at i:102756524 original size:25 final size:26
Alignment explanation
Indices: 102756467--102756550 Score: 93
Period size: 25 Copynumber: 3.3 Consensus size: 26
102756457 CTTTCCAATA
* *
102756467 TGCAAGCTGCAAGCTCAACAAAAATG
1 TGCAAGCTGCAAGCTTAGCAAAAATG
*
102756493 TGCAAGCTGCAAGCTTAGC-AAGATG
1 TGCAAGCTGCAAGCTTAGCAAAAATG
* *
102756518 T-CAAAGCTGCAAGCTTAGCGAGAA-G
1 TGC-AAGCTGCAAGCTTAGCAAAAATG
102756543 TGCAAGCT
1 TGCAAGCT
102756551 ATGAGCTCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.02
25 29 0.58
26 20 0.40
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (26 bp):
TGCAAGCTGCAAGCTTAGCAAAAATG
Found at i:102756726 original size:80 final size:79
Alignment explanation
Indices: 102756593--102756749 Score: 278
Period size: 80 Copynumber: 2.0 Consensus size: 79
102756583 GTTGCGAGCC
102756593 AAGACACCTTAAGAGACAGTAAGCAAAAATGCGAGCCTGTCAAAGGTGCAAGCTCAGCCTAGTGC
1 AAGACACCTTAAGAGACAGTAAGCAAAAATGCGAGCCTGTCAAAGGTGCAAGCTCAGCCTAGTGC
*
102756658 GAGCAGCAAAGTTG
66 GAGCAACAAAGTTG
* *
102756672 AAGACACCTTAAGAGACAGTAAGCAAAAAATGTGAGCCTGTCAAAGGTGCAAGCTCAGCCTGGTG
1 AAGACACCTTAAGAGACAGTAAGC-AAAAATGCGAGCCTGTCAAAGGTGCAAGCTCAGCCTAGTG
102756737 CGAGCAACAAAGT
65 CGAGCAACAAAGT
102756750 GCAAACCTGT
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
79 24 0.32
80 50 0.68
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (79 bp):
AAGACACCTTAAGAGACAGTAAGCAAAAATGCGAGCCTGTCAAAGGTGCAAGCTCAGCCTAGTGC
GAGCAACAAAGTTG
Found at i:102761710 original size:19 final size:20
Alignment explanation
Indices: 102761686--102761723 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
102761676 ATATTTTTAT
102761686 AAATATA-TTAAAAATGTAA
1 AAATATATTTAAAAATGTAA
102761705 AAATATATTTAAAAATGTA
1 AAATATATTTAAAAATGTA
102761724 TAAACATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AAATATATTTAAAAATGTAA
Found at i:102763219 original size:29 final size:29
Alignment explanation
Indices: 102763187--102763254 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
102763177 TATAGGAAAA
*
102763187 TTATTAAAATAATATATATTTAATATTT-T
1 TTATTAAAATAATAT-TAATTAATATTTAT
* *
102763216 TTATCAAAATAATATTAATTGATATTTAT
1 TTATTAAAATAATATTAATTAATATTTAT
102763245 TTATTAAAAT
1 TTATTAAAAT
102763255 GATTTGTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (29 bp):
TTATTAAAATAATATTAATTAATATTTAT
Found at i:102764228 original size:21 final size:21
Alignment explanation
Indices: 102764189--102764229 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
102764179 TGAAAATGTT
** *
102764189 TTTCTTTTTTTTCTTTTTCTC
1 TTTCTTTTTTCCCTCTTTCTC
102764210 TTTCTTTTTTCCCTCTTTCT
1 TTTCTTTTTTCCCTCTTTCT
102764230 TCAATGTTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTCTTTTTTCCCTCTTTCTC
Found at i:102767562 original size:18 final size:17
Alignment explanation
Indices: 102767539--102767574 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
102767529 CTTAATAAAT
*
102767539 ATTATAAATATATATTTA
1 ATTATAAAAATAT-TTTA
102767557 ATTATAAAAATATTTTA
1 ATTATAAAAATATTTTA
102767574 A
1 A
102767575 ATAGTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTATAAAAATATTTTA
Found at i:102767582 original size:18 final size:18
Alignment explanation
Indices: 102767541--102767583 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
102767531 TAATAAATAT
* *
102767541 TATAAATATATATTTAAT
1 TATAAAAATATATTTAAA
102767559 TATAAAAATAT-TTTAAA
1 TATAAAAATATATTTAAA
102767576 TAGTAAAA
1 TA-TAAAA
102767584 TAAAAAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
TATAAAAATATATTTAAA
Found at i:102769331 original size:30 final size:31
Alignment explanation
Indices: 102769296--102769355 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
102769286 AAAATTAAAT
*
102769296 TTTAGTTCTTAC-ATTTTTTA-TTTTTAGAAA
1 TTTAGTTCTT-CTATTTTTTAGATTTTAGAAA
102769326 TTTAGTTCTTCTATTTTTTAGATTTTAGAA
1 TTTAGTTCTTCTATTTTTTAGATTTTAGAA
102769356 TCAAAGTCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 18 0.67
31 8 0.30
ACGTcount: A:0.25, C:0.07, G:0.08, T:0.60
Consensus pattern (31 bp):
TTTAGTTCTTCTATTTTTTAGATTTTAGAAA
Found at i:102771772 original size:29 final size:30
Alignment explanation
Indices: 102771740--102771797 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
102771730 TTACTACTAA
* *
102771740 ACTTTGA-ATTTTATTAAAATTTTCCACCG
1 ACTTTGATATTTAATTAAAATTTACCACCG
102771769 ACTTTGATTATTTAATTAAAATTTACCAC
1 ACTTTGA-TATTTAATTAAAATTTACCAC
102771798 TTGATATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.28
31 18 0.72
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (30 bp):
ACTTTGATATTTAATTAAAATTTACCACCG
Found at i:102773936 original size:34 final size:34
Alignment explanation
Indices: 102773873--102773973 Score: 96
Period size: 34 Copynumber: 2.9 Consensus size: 34
102773863 CGAGTTGATA
**
102773873 TGTTATAAGCATATTATTTGCTATTGTATTGAAC
1 TGTTATAAGCATATTATTTGCTACCGTATTGAAC
**
102773907 TGTTATAAGCATATTGA-TTGCTACCGTATTGTTC
1 TGTTATAAGCATATT-ATTTGCTACCGTATTGAAC
* * ** *
102773941 TGTTAAAAGTATAGTTACATGCAACCGTATTGA
1 TGTTATAAGCATA-TTATTTGCTACCGTATTGA
102773974 TTTGTTTGAG
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
34 40 0.73
35 15 0.27
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.42
Consensus pattern (34 bp):
TGTTATAAGCATATTATTTGCTACCGTATTGAAC
Found at i:102777469 original size:17 final size:20
Alignment explanation
Indices: 102777442--102777485 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
102777432 CGTTTGTGTA
102777442 TTTATATTATTT-T-TTATT
1 TTTATATTATTTATCTTATT
102777460 TTTA-ATTATTTATCTTA-T
1 TTTATATTATTTATCTTATT
102777478 TTTATATT
1 TTTATATT
102777486 CGTATTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 7 0.30
18 10 0.43
19 6 0.26
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTATATTATTTATCTTATT
Found at i:102777905 original size:13 final size:11
Alignment explanation
Indices: 102777869--102777899 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
102777859 CCACCTGTAT
102777869 TAATTTTTATA
1 TAATTTTTATA
*
102777880 TTATTTTTATA
1 TAATTTTTATA
102777891 TAATTTTTA
1 TAATTTTTA
102777900 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:102778064 original size:30 final size:30
Alignment explanation
Indices: 102778020--102778082 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
102778010 ACTTAACAAG
*
102778020 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
102778050 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
102778080 CAA
1 CAA
102778083 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.24
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:102778132 original size:14 final size:14
Alignment explanation
Indices: 102778113--102778143 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
102778103 ATCCAAACAA
102778113 TAACAACAAAATAG
1 TAACAACAAAATAG
*
102778127 TAACAACATAATAG
1 TAACAACAAAATAG
102778141 TAA
1 TAA
102778144 AATGGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:102779661 original size:18 final size:18
Alignment explanation
Indices: 102779638--102779675 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
102779628 CCGGATTCCC
*
102779638 CTCTCTTCTCTCTCCCTT
1 CTCTCTTCCCTCTCCCTT
*
102779656 CTCTCTTCCCTCTCTCTT
1 CTCTCTTCCCTCTCCCTT
102779674 CT
1 CT
102779676 TTTTTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (18 bp):
CTCTCTTCCCTCTCCCTT
Found at i:102779673 original size:11 final size:12
Alignment explanation
Indices: 102779642--102779674 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
102779632 ATTCCCCTCT
102779642 CTTCTCTC-TCC
1 CTTCTCTCTTCC
102779653 CTTCTCTCTTCC
1 CTTCTCTCTTCC
102779665 C-TCTCTCTTC
1 CTTCTCTCTTC
102779675 TTTTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTCTCTCTTCC
Found at i:102780162 original size:3 final size:3
Alignment explanation
Indices: 102780138--102780208 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
102780128 AATATCCTTG
* * * *
102780138 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
102780185 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
102780209 GTACGTGTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:102780205 original size:23 final size:22
Alignment explanation
Indices: 102780150--102780211 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
102780140 ATTTTTATAT
*
102780150 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
102780171 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
102780193 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
102780212 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Done.