Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga10g00926.P24
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: 66158
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2 characters in sequence are not A, C, G, or T
Found at i:1194 original size:234 final size:234
Alignment explanation
Indices: 785--1249 Score: 903
Period size: 234 Copynumber: 2.0 Consensus size: 234
775 TGAGTACTTG
785 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
1 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
850 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
66 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
915 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
131 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
980 ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
196 ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
1019 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
1 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
* *
1084 TACTTATTTGTATGTAATGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGTTAAACAT
66 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
*
1149 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTTGTTTTCTATTATT
131 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
1214 ATTCCTCGTATGTAGAATTGACAACATTTTTATACT
196 ATTCCTCGTATGTAGAATTGACAACATTTTTATACT
1250 CTTCAAACAG
Statistics
Matches: 228, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
234 228 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (234 bp):
GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
Found at i:3572 original size:21 final size:21
Alignment explanation
Indices: 3546--3587 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
3536 ATAACATAAT
3546 ACTTTTATCATTAGGTTAAGA
1 ACTTTTATCATTAGGTTAAGA
3567 ACTTTTATCATTAGGTTAAGA
1 ACTTTTATCATTAGGTTAAGA
3588 GATTGTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (21 bp):
ACTTTTATCATTAGGTTAAGA
Found at i:5260 original size:107 final size:107
Alignment explanation
Indices: 5071--5284 Score: 358
Period size: 107 Copynumber: 2.0 Consensus size: 107
5061 TATCTGTTGA
* *
5071 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAGAAAGGCTAACTTAATATGTACTTAAAA
1 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACTAACTTAATATGTACTTAAAA
*
5136 CAACTTTCCCTATGCTAAATACTTTGATTTAAACAATGATAC
66 CAACTTTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
* *
5178 AATGCATGCAAAAGGGAAGGGAAAAGAGAGATATATAAAAAGACTAAGTTAATATGTACTTAAAA
1 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACTAACTTAATATGTACTTAAAA
*
5243 CAACTCTT-CTTAAGCTAAATACTTTGATTTAAACAATGATAC
66 CAACT-TTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
5285 GGGTTATTGC
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
107 98 0.98
108 2 0.02
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (107 bp):
AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACTAACTTAATATGTACTTAAAA
CAACTTTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
Found at i:6042 original size:2 final size:2
Alignment explanation
Indices: 6037--6069 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6027 TATACTCTTG
6037 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6070 TTGCTAAGCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10703 original size:42 final size:43
Alignment explanation
Indices: 10607--10718 Score: 149
Period size: 41 Copynumber: 2.7 Consensus size: 43
10597 AAACATCGCA
* * *
10607 CAAAGCCTGCTAGGTAATAAACCTGAT-TCAATACACTAGCAT
1 CAAAGCCTGCTAGGCAATAAGCCTGATATCAATACACCAGCAT
* *
10649 -AAAGCCTGCTAGGCAATAAGCTTGATATC-ATACACCGGCAT
1 CAAAGCCTGCTAGGCAATAAGCCTGATATCAATACACCAGCAT
*
10690 CAAAGCCTACTAGGCAATAAGCCTGATAT
1 CAAAGCCTGCTAGGCAATAAGCCTGATAT
10719 ATCACTGTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
41 33 0.54
42 28 0.46
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (43 bp):
CAAAGCCTGCTAGGCAATAAGCCTGATATCAATACACCAGCAT
Found at i:16231 original size:20 final size:22
Alignment explanation
Indices: 16190--16235 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
16180 TAAATATTCA
16190 TTTATACATATTTATTAGTAAT
1 TTTATACATATTTATTAGTAAT
*
16212 TTTATATATATTT-TTA-TAAT
1 TTTATACATATTTATTAGTAAT
16232 TTTA
1 TTTA
16236 AAAAATGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
21 3 0.13
22 12 0.52
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTATACATATTTATTAGTAAT
Found at i:16965 original size:28 final size:28
Alignment explanation
Indices: 16931--16993 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
16921 TCTCATATTA
16931 ATGGGGTATAGGAAAAATCTCATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
* * * *
16959 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
16987 ATGGGGT
1 ATGGGGT
16994 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAATCTCATAACTT
Found at i:21853 original size:93 final size:93
Alignment explanation
Indices: 21724--21895 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
21714 GCCCATAAGT
* * *
21724 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21789 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
21817 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21882 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
21896 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:21891 original size:46 final size:46
Alignment explanation
Indices: 21716--21891 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
21706 TGTAACCCGC
* * * *
21716 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
21762 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
21812 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
21855 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21892 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:21910 original size:46 final size:45
Alignment explanation
Indices: 21767--21910 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
21757 CGCATCCATA
* *
21767 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
21815 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
21860 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
21906 AGTGA
1 AGTGA
21911 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:30758 original size:107 final size:107
Alignment explanation
Indices: 30567--30780 Score: 340
Period size: 107 Copynumber: 2.0 Consensus size: 107
30557 TATCTGTTGA
* * *
30567 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAGAAAGGCTAACTTAATATGTACTTAAAA
1 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACAAACTTAATATGTACTTAAAA
*
30632 CAACTTTCCCTATGCTAAATACTTTGATTTAAACAATGATAC
66 CAACTTTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
* *
30674 AATGCATGCAAAAGGGAAGGGAAAAGAGAGATATATAAAAAGACAAAGTTAATATGTACTTAAAA
1 AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACAAACTTAATATGTACTTAAAA
* *
30739 CAACTCTT-CTTAAGTTAAATACTTTGATTTAAACAATGATAC
66 CAACT-TTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
30781 GGGTTATTGT
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
107 96 0.98
108 2 0.02
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (107 bp):
AATGCATGCAAAAGGGAAGGAAAAAGAGAGATATATAAAAAGACAAACTTAATATGTACTTAAAA
CAACTTTCCCTAAGCTAAATACTTTGATTTAAACAATGATAC
Found at i:31538 original size:2 final size:2
Alignment explanation
Indices: 31533--31564 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
31523 TATACTCTTG
31533 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31565 TTGCTAAGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32104 original size:26 final size:26
Alignment explanation
Indices: 32068--32177 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
32058 TGATACAAAT
32068 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
32094 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
32120 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
32146 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
32172 TGATAA
1 TGATAA
32178 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:33838 original size:27 final size:27
Alignment explanation
Indices: 33797--33935 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
33787 GAGGAAGCGT
*
33797 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
33824 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
33851 TCTGGTGGCTCTGCCACATATATCTG-
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
33877 TTTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
33905 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
33931 TCTGG
1 TCTGG
33936 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
26 27 0.27
27 59 0.59
28 14 0.14
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:34021 original size:19 final size:22
Alignment explanation
Indices: 33997--34036 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
33987 CTCCCCACAC
33997 GGTGTA-A-GGTTGGA-ATGGG
1 GGTGTATACGGTTGGATATGGG
34016 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
34037 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 7 0.39
22 4 0.22
ACGTcount: A:0.20, C:0.03, G:0.47, T:0.30
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:42635 original size:40 final size:40
Alignment explanation
Indices: 42575--42688 Score: 156
Period size: 40 Copynumber: 2.9 Consensus size: 40
42565 AAGAAAATGA
*
42575 CCTTGAATGCACATACGTGCCCCTGTTTGGACTTTGGTAC
1 CCTTAAATGCACATACGTGCCCCTGTTTGGACTTTGGTAC
* *
42615 CCTTAAATGCACATACGTGCCCCTGCTTAGACTTTGGTAC
1 CCTTAAATGCACATACGTGCCCCTGTTTGGACTTTGGTAC
** * * *
42655 TTTTAAATGCACATAAGTGCCCCTATTTGTACTT
1 CCTTAAATGCACATACGTGCCCCTGTTTGGACTT
42689 CAATATCTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (40 bp):
CCTTAAATGCACATACGTGCCCCTGTTTGGACTTTGGTAC
Found at i:45803 original size:25 final size:25
Alignment explanation
Indices: 45775--45824 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
45765 GAATTTAAGT
45775 TAGATCAACTACCAGTTGTTAATGA
1 TAGATCAACTACCAGTTGTTAATGA
45800 TAGATCAACTACCAGTTGTTAATGA
1 TAGATCAACTACCAGTTGTTAATGA
45825 GTTTACTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (25 bp):
TAGATCAACTACCAGTTGTTAATGA
Found at i:51132 original size:36 final size:33
Alignment explanation
Indices: 51073--51139 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 33
51063 TCTTTTTATA
* *
51073 TATTATAATATTAATTAATAAAATATTATTACT
1 TATTAAAATATTAATTAATAAAATATCATTACT
51106 TATTAAAATATTATTATTAATAAAAATATCATTA
1 TATTAAAATATTA--ATTAAT-AAAATATCATTA
51140 AAAAACAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 12 0.41
35 6 0.21
36 11 0.38
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (33 bp):
TATTAAAATATTAATTAATAAAATATCATTACT
Found at i:51139 original size:18 final size:17
Alignment explanation
Indices: 51081--51130 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 17
51071 TATATTATAA
51081 TATTAATTAATAAAATAT
1 TATT-ATTAATAAAATAT
*
51099 TATTACTTATTAAAATAT
1 TATTA-TTAATAAAATAT
51117 TATTATTAATAAAA
1 TATTATTAATAAAA
51131 ATATCATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 9 0.31
18 20 0.69
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTATTAATAAAATAT
Found at i:52063 original size:22 final size:22
Alignment explanation
Indices: 52013--52064 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
52003 AAAAACCTTT
*
52013 TTAAATATATTTTTTAATTATAA
1 TTAAA-ATATTTTCTAATTATAA
** *
52036 AAAAAATATTTTCTAATTTTAA
1 TTAAAATATTTTCTAATTATAA
52058 TTAAAAT
1 TTAAAAT
52065 TAAAATATTA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAAAATATTTTCTAATTATAA
Found at i:56884 original size:28 final size:28
Alignment explanation
Indices: 56850--56912 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
56840 TCTCATATTA
56850 ATGGGGTATAGGAAAAATCTCATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
* * * *
56878 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
56906 ATGGGGT
1 ATGGGGT
56913 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAATCTCATAACTT
Found at i:62294 original size:28 final size:28
Alignment explanation
Indices: 62262--62324 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
62252 TCCCATATTA
62262 ATGGGGTATAGGAAAAATCTCATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
* * * *
62290 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAATCTCATAACTT
62318 ATGGGGT
1 ATGGGGT
62325 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAATCTCATAACTT
Found at i:62682 original size:54 final size:54
Alignment explanation
Indices: 62624--62733 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
62614 AATTTGAGGT
*
62624 AAGAAGGATATATTATATTTCTGCTGGTGAAGATATTGACGTTACTGTTAAGCC
1 AAGAAGGATATATTATATTTCTGCTGGTGAAGATATTGACGTTACTATTAAGCC
62678 AAGAAGGATATATTATATTTCTGCTGGTGAAGATATTGACGTTACTATTAAGCC
1 AAGAAGGATATATTATATTTCTGCTGGTGAAGATATTGACGTTACTATTAAGCC
62732 AA
1 AA
62734 TGGTAGGCCT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.35
Consensus pattern (54 bp):
AAGAAGGATATATTATATTTCTGCTGGTGAAGATATTGACGTTACTATTAAGCC
Found at i:64696 original size:234 final size:234
Alignment explanation
Indices: 64287--64751 Score: 903
Period size: 234 Copynumber: 2.0 Consensus size: 234
64277 TGAGTACTTG
64287 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
1 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
64352 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
66 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
64417 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
131 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
64482 ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
196 ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
64521 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
1 GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
* *
64586 TACTTATTTGTATGTAATGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGTTAAACAT
66 TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
*
64651 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTTGTTTTCTATTATT
131 AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
64716 ATTCCTCGTATGTAGAATTGACAACATTTTTATACT
196 ATTCCTCGTATGTAGAATTGACAACATTTTTATACT
64752 CTTCAAACAG
Statistics
Matches: 228, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
234 228 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (234 bp):
GAATTTCTAATACTTCATCCTGTTGGATTCGACTAATGGAAGCATAGATGAAGCTTGTTGATGGT
TACTTATTTGTATGTAACGAATCTACTATGTGGCTTCTAGCAAATGGAATGATTTTGCTAAACAT
AGATACAGCACTGAGCTGAGATCCTTGAACTGATATAAAGAACCACCGTTTCGTTTTCTATTATT
ATTCCTCGTATGTAGAATTGACAACATTTTTATACTGTT
Done.