Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 48 of 65
Found at i:9577416 original size:7 final size:7
Alignment explanation
Indices: 9577406--9577462 Score: 57
Period size: 6 Copynumber: 8.4 Consensus size: 7
9577396 TTCTCTTTGT
9577406 TTTTTTC
1 TTTTTTC
9577413 -TTTTTC
1 TTTTTTC
9577419 -TTTTTC
1 TTTTTTC
**
9577425 TTTGCTC
1 TTTTTTC
9577432 TTTTTTC
1 TTTTTTC
*
9577439 TTTTCT-
1 TTTTTTC
9577445 TTTTTTC
1 TTTTTTC
9577452 TTTTTTTC
1 -TTTTTTC
9577460 TTT
1 TTT
9577463 GCTTCATTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
6 17 0.41
7 17 0.41
8 7 0.17
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:9577437 original size:56 final size:55
Alignment explanation
Indices: 9577334--9577441 Score: 130
Period size: 56 Copynumber: 1.9 Consensus size: 55
9577324 CTTTTTGTTC
* *
9577334 TTTGCTTTTTCTTTGCTCTTTTCTTTATTTTTTTATTTTTTTCTTTTTCTTTCTG
1 TTTGCTTTTTCTTTGCTCTTTTCTTTATTTTTTTATTTCTCTCTTTTTCTTTCTG
* * *
9577389 TTTGCTTTTCTCTTTGTTTTTTTCTTT-TTCTTTTTCTTTGCTCT-TTTTTCTTT
1 TTTGCTTTT-TCTTTGCTCTTTTCTTTATT-TTTTTATTT-CTCTCTTTTTCTTT
9577442 TCTTTTTTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
55 11 0.24
56 32 0.71
57 2 0.04
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.77
Consensus pattern (55 bp):
TTTGCTTTTTCTTTGCTCTTTTCTTTATTTTTTTATTTCTCTCTTTTTCTTTCTG
Found at i:9577472 original size:21 final size:21
Alignment explanation
Indices: 9577432--9577473 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9577422 TTCTTTGCTC
* **
9577432 TTTTTTCTTTTCTTTTTTTCT
1 TTTTTTCTTTGCTTCATTTCT
9577453 TTTTTTCTTTGCTTCATTTCT
1 TTTTTTCTTTGCTTCATTTCT
9577474 CTTTGTTTTT
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:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTTCTTTGCTTCATTTCT
Found at i:9577473 original size:74 final size:74
Alignment explanation
Indices: 9577327--9577483 Score: 187
Period size: 74 Copynumber: 2.1 Consensus size: 74
9577317 TTGTCCTCTT
* *
9577327 TTTGTTCTTTGCTTTTTCTTTGCTCTTTTCTTTATTTTTTTATTTTTTTCTTTTTCTTTCTGTTT
1 TTTGTTTTTTGCTTTTTCTTTGCTCTTTTCTTTATTTTTTTATTTTTTTCTTTTTCTTTCTGCTT
*
9577392 GCTTTTCTC
66 GCATTTCTC
* * * *
9577401 TTTGTTTTTTTCTTTTTCTTT-TTCTTTGCTCTTT-TTTCTTTTCTTTTTTTCTTTTT-TTCTTT
1 TTTGTTTTTTGCTTTTTCTTTGCTCTTT--TCTTTATTT-TTTTATTTTTTTCTTTTTCTT-TCT
9577463 GCTT-CATTTCTC
62 GCTTGCATTTCTC
9577475 TTTGTTTTT
1 TTTGTTTTT
9577484 CTTGTCTCTT
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
73 5 0.07
74 40 0.56
75 27 0.38
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (74 bp):
TTTGTTTTTTGCTTTTTCTTTGCTCTTTTCTTTATTTTTTTATTTTTTTCTTTTTCTTTCTGCTT
GCATTTCTC
Found at i:9578846 original size:14 final size:15
Alignment explanation
Indices: 9578807--9578836 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9578797 AATAAAATAC
9578807 AGATGCAAAATGCAA
1 AGATGCAAAATGCAA
9578822 AGATGC-AAATGCAA
1 AGATGCAAAATGCAA
9578836 A
1 A
9578837 TGCAAAAATG
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:0.53, C:0.13, G:0.20, T:0.13
Consensus pattern (15 bp):
AGATGCAAAATGCAA
Found at i:9582868 original size:21 final size:21
Alignment explanation
Indices: 9582839--9582891 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
9582829 ATTCTGACTA
9582839 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
9582860 TCGCGTTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCAAAT
*
9582881 TCGCAATGCGA
1 TCGCATTGCGA
9582892 ATAAGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:9582906 original size:20 final size:20
Alignment explanation
Indices: 9582881--9582971 Score: 155
Period size: 20 Copynumber: 4.5 Consensus size: 20
9582871 TTTTCCGAAT
9582881 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
*
9582901 TCGCAATGTGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
9582921 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
*
9582941 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATAAGTAAA
*
9582961 TCGCAACGCGA
1 TCGCAATGCGA
9582972 TTCTGACTAT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:9582983 original size:20 final size:20
Alignment explanation
Indices: 9582960--9583113 Score: 227
Period size: 20 Copynumber: 7.7 Consensus size: 20
9582950 GAATATGTAA
9582960 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
9582980 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATTCTGACT
9583000 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* * *
9583020 ATCTCAACGAGATACTGACT
1 ATCGCAACGCGATTCTGACT
9583040 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
9583060 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* * *
9583080 ATCACAATGCAATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
9583100 ATCGCAATGCGATT
1 ATCGCAACGCGATT
9583114 TACATAGCGC
Statistics
Matches: 119, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 119 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:9582984 original size:40 final size:40
Alignment explanation
Indices: 9582940--9583111 Score: 192
Period size: 40 Copynumber: 4.3 Consensus size: 40
9582930 GAATAAGTAA
*
9582940 ATCGCAATGCGAATATGTA-AATCGCAACGCGATTCTGACT
1 ATCGCAATGCGAATATG-ACTATCGCAACGCGATTCTGACT
9582980 ATCGCAA--CGAGATACTGACTATCGCAACGCGATTCTGACT
1 ATCGCAATGCGA-ATA-TGACTATCGCAACGCGATTCTGACT
*
9583020 ATCTCAA--CGAGATACTGACTATCGCAACGCGATTCTGACT
1 ATCGCAATGCGA-ATA-TGACTATCGCAACGCGATTCTGACT
* * * * * *
9583060 ATCGCAACGCGATTCTGACTATCACAATGCAATTCTGACT
1 ATCGCAATGCGAATATGACTATCGCAACGCGATTCTGACT
9583100 ATCGCAATGCGA
1 ATCGCAATGCGA
9583112 TTTACATAGC
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
38 3 0.03
39 4 0.03
40 107 0.91
41 1 0.01
42 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (40 bp):
ATCGCAATGCGAATATGACTATCGCAACGCGATTCTGACT
Found at i:9583311 original size:22 final size:22
Alignment explanation
Indices: 9583285--9583326 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9583275 GGCGACATCC
* *
9583285 GTCCCCATCTCTGACGAAATCA
1 GTCCCAATCTCCGACGAAATCA
9583307 GTCCCAATCTCCGACGAAAT
1 GTCCCAATCTCCGACGAAAT
9583327 TCGTCTATCT
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:0.29, C:0.36, G:0.14, T:0.21
Consensus pattern (22 bp):
GTCCCAATCTCCGACGAAATCA
Found at i:9583822 original size:20 final size:20
Alignment explanation
Indices: 9583752--9583819 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
9583742 CGATTCTTGC
9583752 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
9583772 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
9583792 GTTGCGATTTTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
9583812 GTTGCGAT
1 GTTGCGAT
9583820 TTTAAGTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.13, C:0.15, G:0.25, T:0.47
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:9585758 original size:20 final size:20
Alignment explanation
Indices: 9585733--9585860 Score: 193
Period size: 20 Copynumber: 6.4 Consensus size: 20
9585723 TAGTTTACTT
9585733 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
9585753 TCGCAATGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
9585773 TCGCAATGCGAAAATGTCTA
1 TCGCAACGCGAAAATGACTA
*
9585793 TCGCAATGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
9585813 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* **
9585833 TCACAACGCGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
9585853 TCGCAACG
1 TCGCAACG
9585861 AAAGAATCAC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 100 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:9585921 original size:34 final size:34
Alignment explanation
Indices: 9585883--9586002 Score: 150
Period size: 34 Copynumber: 3.4 Consensus size: 34
9585873 TGCGAAATGA
9585883 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
* **
9585917 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
1 TCGCATTGCGAT--TC--TCTCG--TTGCGATAGTCAAAT
*
9585957 TTGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
9585991 TCGCATTGCGAT
1 TCGCATTGCGAT
9586003 AGTCATTTTC
Statistics
Matches: 72, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
34 36 0.50
36 6 0.08
38 6 0.08
40 24 0.33
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (34 bp):
TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
Found at i:9586006 original size:74 final size:74
Alignment explanation
Indices: 9585883--9586094 Score: 325
Period size: 74 Copynumber: 2.8 Consensus size: 74
9585873 TGCGAAATGA
9585883 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGCGA
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGCGA
9585948 TAGTCATTT
66 TAGTCATTT
*
9585957 TTGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGCGA
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGCGA
9586022 TAGTCATTT
66 TAGTCATTT
* ** *
9586031 TCGCATTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGC
1 TCGCATTGCGAT--TC----TCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGC
9586095 GTTTCAGATT
Statistics
Matches: 126, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
74 84 0.67
76 2 0.02
80 40 0.32
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (74 bp):
TCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTGCGA
TAGTCATTT
Found at i:9586097 original size:20 final size:20
Alignment explanation
Indices: 9585902--9586094 Score: 272
Period size: 20 Copynumber: 9.9 Consensus size: 20
9585892 GATTCTCTCG
**
9585902 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
9585922 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
9585942 TTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCA
*
9585962 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
**
9585976 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
9585996 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
9586016 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
9586036 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
9586056 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
9586076 TTGCGATAGTCATTTTCGC
1 TTGCGATAGTCATTTTCGC
9586095 GTTTCAGATT
Statistics
Matches: 157, Mismatches: 10, Indels: 12
0.88 0.06 0.07
Matches are distributed among these distances:
14 7 0.04
16 5 0.03
18 5 0.03
20 140 0.89
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:9586586 original size:18 final size:19
Alignment explanation
Indices: 9586547--9586588 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
9586537 CTCACCTGTC
9586547 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
9586568 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
9586586 ATC
1 ATC
9586589 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:9586616 original size:42 final size:42
Alignment explanation
Indices: 9586570--9586663 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
9586560 CCTCCCCTAT
*
9586570 CGTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCAC
* ** *
9586612 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
*
9586654 CATTCAAGAG
1 CGTTCAAGAG
9586664 CCCGCTTCAC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 43 0.96
43 2 0.04
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.20
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:9586618 original size:21 final size:21
Alignment explanation
Indices: 9586594--9586663 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
9586584 CTATCATCCC
9586594 TCAAGAGTCCCCTCCCACCGT
1 TCAAGAGTCCCCTCCCACCGT
* * ** *
9586615 TCAAGAGGCCACTGTCATCGT
1 TCAAGAGTCCCCTCCCACCGT
* *
9586636 TGAAGAGGT-CCCTCCCACCAT
1 TCAAGA-GTCCCCTCCCACCGT
9586657 TCAAGAG
1 TCAAGAG
9586664 CCCGCTTCAC
Statistics
Matches: 35, Mismatches: 13, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
20 1 0.03
21 33 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.20, T:0.20
Consensus pattern (21 bp):
TCAAGAGTCCCCTCCCACCGT
Found at i:9588041 original size:46 final size:46
Alignment explanation
Indices: 9587991--9588130 Score: 143
Period size: 46 Copynumber: 3.2 Consensus size: 46
9587981 GTTGATTCAA
9587991 TAATTGATGAGGAAATAATAAGAATTATTATTATTTTTTGATTGTT
1 TAATTGATGAGGAAATAATAAGAATTATTATTATTTTTTGATTGTT
** * ** *
9588037 TAATTGAT-TTG---TAA-AAG-ATGATT-TGTAAATGTT-ATTTGTT
1 TAATTGATGAGGAAATAATAAGAATTATTAT-TATTTTTTGA-TTGTT
*
9588077 TAATTGACGAGGAAATAATAAGAATTATTATTATTTTTTGATTGTT
1 TAATTGATGAGGAAATAATAAGAATTATTATTATTTTTTGATTGTT
9588123 TAATTGAT
1 TAATTGAT
9588131 TTGTAAAAGA
Statistics
Matches: 70, Mismatches: 14, Indels: 20
0.67 0.13 0.19
Matches are distributed among these distances:
39 2 0.03
40 22 0.31
41 4 0.06
42 3 0.04
44 3 0.04
45 4 0.06
46 30 0.43
47 2 0.03
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.48
Consensus pattern (46 bp):
TAATTGATGAGGAAATAATAAGAATTATTATTATTTTTTGATTGTT
Found at i:9588136 original size:86 final size:87
Alignment explanation
Indices: 9587991--9588170 Score: 344
Period size: 86 Copynumber: 2.1 Consensus size: 87
9587981 GTTGATTCAA
*
9587991 TAATTGATGAGGAAATAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAAAAGAT
1 TAATTGACGAGGAAATAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAAAAGAT
9588056 GATTTGTAAATGTT-ATTTGTT
66 GATTTGTAAATGTTGATTTGTT
9588077 TAATTGACGAGGAAATAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAAAAGAT
1 TAATTGACGAGGAAATAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAAAAGAT
9588142 GATTTGTAAATGTTGATTTGTT
66 GATTTGTAAATGTTGATTTGTT
9588164 TAATTGA
1 TAATTGA
9588171 TGTGTACATA
Statistics
Matches: 92, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
86 78 0.85
87 14 0.15
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.48
Consensus pattern (87 bp):
TAATTGACGAGGAAATAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTAAAAGAT
GATTTGTAAATGTTGATTTGTT
Found at i:9588146 original size:14 final size:14
Alignment explanation
Indices: 9588127--9588162 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9588117 ATTGTTTAAT
9588127 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
9588141 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
9588155 TGATTTGT
1 TGATTTGT
9588163 TTAATTGATG
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:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:9588325 original size:19 final size:19
Alignment explanation
Indices: 9588301--9588365 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
9588291 GCAACTAGAG
9588301 AATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGGA
*
9588320 AATCGCAA--CGAGA--G-
1 AATCGCAATGCGAAATGGA
*
9588334 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGGA
*
9588353 AATCGCATTGCGA
1 AATCGCAATGCGA
9588366 TTCTCTCGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
14 8 0.22
15 1 0.03
16 4 0.11
17 4 0.11
19 20 0.54
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGGA
Found at i:9588325 original size:33 final size:33
Alignment explanation
Indices: 9588268--9588359 Score: 130
Period size: 33 Copynumber: 2.8 Consensus size: 33
9588258 AAAACAGACT
* ** *
9588268 ATCGCAACGCGGAAATGACTATCGCAACTAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
9588302 ATCGCAATGCGAAATGGAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
9588335 ATCGCAATGCGAAATGAAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCA
9588360 TTGCGATTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 43 0.83
34 9 0.17
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:9588398 original size:52 final size:53
Alignment explanation
Indices: 9588342--9588450 Score: 132
Period size: 52 Copynumber: 2.1 Consensus size: 53
9588332 AGAATCGCAA
*
9588342 TGCGAAAT-GAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCACAT
1 TGCGAAATCGAAAATCGCAATGCGATTCTCTCGTTGCGATTTTCATTTCACAT
* ** ** * *
9588394 TGCG-ATTCTCATTTCGTAATGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
1 TGCGAAATCGAAAATCGCAATGCGATTCTCTCGTTGCGATTTTCATTTCACAT
9588446 TGCGA
1 TGCGA
9588451 TTCTCTCGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
51 2 0.04
52 45 0.96
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.39
Consensus pattern (53 bp):
TGCGAAATCGAAAATCGCAATGCGATTCTCTCGTTGCGATTTTCATTTCACAT
Found at i:9588416 original size:19 final size:19
Alignment explanation
Indices: 9588355--9588455 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 19
9588345 GAAATGAAAA
9588355 TCGCATTGCGATTCTC---
1 TCGCATTGCGATTCTCATT
*
9588371 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTCTCATT
*
9588388 TCACATTGCGATTCTCATT
1 TCGCATTGCGATTCTCATT
* *
9588407 TCGTAATGCGATTCTC---
1 TCGCATTGCGATTCTCATT
*
9588423 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTCTCATT
9588440 TCGCATTGCGATTCTC
1 TCGCATTGCGATTCTC
9588456 TCGTTACGAT
Statistics
Matches: 66, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
14 19 0.29
16 6 0.09
17 5 0.08
19 36 0.55
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTCTCATT
Found at i:9588430 original size:33 final size:33
Alignment explanation
Indices: 9588393--9588474 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
9588383 TCATTTCACA
*
9588393 TTGCGATTCTCATTTCGTAATGCGATTCTCTCG
1 TTGCGATTCTCATTTCGCAATGCGATTCTCTCG
* *
9588426 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTCTCATTTCGCAATGCGATTCTCTCG
* **
9588459 TTACGATAGTCATTTC
1 TTGCGATTCTCATTTC
9588475 CGCGTTGCGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (33 bp):
TTGCGATTCTCATTTCGCAATGCGATTCTCTCG
Found at i:9588485 original size:20 final size:20
Alignment explanation
Indices: 9588457--9588550 Score: 145
Period size: 20 Copynumber: 4.7 Consensus size: 20
9588447 GCGATTCTCT
*
9588457 CGTTACGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
9588477 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
9588497 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
*
9588517 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
9588537 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
9588551 AATGAATGTC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
20 67 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:9591088 original size:24 final size:24
Alignment explanation
Indices: 9591021--9591080 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
9591011 CTGAAACATC
9591021 ATCAAAATTCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
* *
9591045 ATCAAAGTTCGGGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
9591069 ATCAAATTTCGA
1 ATCAAAATTCGA
9591081 ATACTGACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAG
Found at i:9591903 original size:21 final size:20
Alignment explanation
Indices: 9591858--9591906 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
9591848 AACTAAAACC
9591858 TGTTGCGAATTGAGAAATCG
1 TGTTGCGAATTGAGAAATCG
* *
9591878 AGTTGCGAATTTGA-AATTCAG
1 TGTTGCGAA-TTGAGAAATC-G
9591899 TGTTGCGA
1 TGTTGCGA
9591907 TAGTCAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.33
Consensus pattern (20 bp):
TGTTGCGAATTGAGAAATCG
Found at i:9591925 original size:20 final size:20
Alignment explanation
Indices: 9591900--9592027 Score: 211
Period size: 20 Copynumber: 6.4 Consensus size: 20
9591890 GAAATTCAGT
9591900 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
9591920 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
9591940 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
9591960 GTTGCGATAGTCAGTATCGC
1 GTTGCGATAGTCAGAATCGC
* * * *
9591980 GTTACGATAGTAAGTATCTC
1 GTTGCGATAGTCAGAATCGC
9592000 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
9592020 GTTGCGAT
1 GTTGCGAT
9592028 TTATATATTC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 100 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:9592039 original size:20 final size:19
Alignment explanation
Indices: 9592016--9592126 Score: 150
Period size: 20 Copynumber: 5.6 Consensus size: 19
9592006 ATAGTCAGAA
*
9592016 TCGCGTTGCGATTTATATAT
1 TCGCATTGCGATTTAT-TAT
*
9592036 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTA-TTAT
9592056 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTA-TTAT
9592076 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTA-TTAT
*
9592096 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTA-TTAT
9592116 TCGCATTGCGA
1 TCGCATTGCGA
9592127 ATTCGGAAAA
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
20 86 1.00
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (19 bp):
TCGCATTGCGATTTATTAT
Found at i:9592045 original size:40 final size:41
Alignment explanation
Indices: 9591916--9592126 Score: 129
Period size: 40 Copynumber: 5.3 Consensus size: 41
9591906 ATAGTCAGAA
* * * *
9591916 TCGCGTTGCGATAGTCAGAATCGCGTTGCGA--TAGTCAGAA
1 TCGCATTGCGATAGTCAGAATCGCGTTGCGATTTACT-ATAT
* * * *
9591956 TCGCGTTGCGATAGTCAGTATCGCGTTACGA--TAGTAAGTAT
1 TCGCATTGCGATAGTCAGAATCGCGTTGCGATTTACT-A-TAT
9591997 CTCG--TTGCGATAGTCAGAATCGCGTTGCGATTTA-TATAT
1 -TCGCATTGCGATAGTCAGAATCGCGTTGCGATTTACTATAT
* * * *
9592036 TCGCATTGCGAT-TTACATATTCGCATTGCGATTTACT-TAT
1 TCGCATTGCGATAGT-CAGAATCGCGTTGCGATTTACTATAT
* ** * * *
9592076 TCGCATTGCGAT-TTACTTATTCGCATTGCGATTTAC-GTAT
1 TCGCATTGCGATAGT-CAGAATCGCGTTGCGATTTACTATAT
9592116 TCGCATTGCGA
1 TCGCATTGCGA
9592127 ATTCGGAAAA
Statistics
Matches: 150, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
38 3 0.02
39 4 0.03
40 135 0.90
41 3 0.02
42 5 0.03
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (41 bp):
TCGCATTGCGATAGTCAGAATCGCGTTGCGATTTACTATAT
Found at i:9592065 original size:60 final size:60
Alignment explanation
Indices: 9592001--9592126 Score: 166
Period size: 60 Copynumber: 2.1 Consensus size: 60
9591991 AAGTATCTCG
*
9592001 TTGCGATAGT-CAGAATCGCGTTGCGATTTA-TATATTCGCATTGCGATTTACATATTCGCA
1 TTGCGAT-GTACAGAATCGCATTGCGATTTACT-TATTCGCATTGCGATTTACATATTCGCA
* ** * *
9592061 TTGCGATTTACTTATTCGCATTGCGATTTACTTATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATGTACAGAATCGCATTGCGATTTACTTATTCGCATTGCGATTTACATATTCGCA
9592121 TTGCGA
1 TTGCGA
9592127 ATTCGGAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
59 1 0.02
60 56 0.97
61 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (60 bp):
TTGCGATGTACAGAATCGCATTGCGATTTACTTATTCGCATTGCGATTTACATATTCGCA
Found at i:9592147 original size:21 final size:21
Alignment explanation
Indices: 9592123--9592168 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
9592113 TATTCGCATT
9592123 GCGAATTCGGAAAATCGCAAC
1 GCGAATTCGGAAAATCGCAAC
* *
9592144 GCGAATTTGGAAAATCGCAAT
1 GCGAATTCGGAAAATCGCAAC
9592165 GCGA
1 GCGA
9592169 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTCGGAAAATCGCAAC
Found at i:9592381 original size:3 final size:3
Alignment explanation
Indices: 9592346--9592415 Score: 72
Period size: 3 Copynumber: 23.0 Consensus size: 3
9592336 AAGATAATTG
* * *
9592346 TAA TAT TAA TAA AAA TAAA TAA T-A TAA -ATA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
9592391 TAA TAAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA
9592416 ATTAAAAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
2 3 0.05
3 46 0.82
4 7 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9593688 original size:3 final size:3
Alignment explanation
Indices: 9593680--9593740 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
9593670 CCCATTCAAA
9593680 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9593728 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
9593741 TGTGGTCCCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9594456 original size:27 final size:25
Alignment explanation
Indices: 9594397--9594460 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 25
9594387 ATATTAAATT
9594397 AAAATATTTTTATATTAACTTA-TTA
1 AAAATA-TTTTATATTAACTTATTTA
*
9594422 AATATATTTTACTATTAACTTAATTTA
1 AAAATATTTTA-TATTAACTT-ATTTA
9594449 AAAATATTTTAT
1 AAAATATTTTAT
9594461 TTTTATTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 5 0.15
25 14 0.41
26 2 0.06
27 13 0.38
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (25 bp):
AAAATATTTTATATTAACTTATTTA
Found at i:9594499 original size:25 final size:27
Alignment explanation
Indices: 9594441--9594500 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 27
9594431 TACTATTAAC
* *
9594441 TTAATTTAAAAATATTTTATTTTTATT
1 TTAATTTAAAAATATTATATATTTATT
*
9594468 TTCATTTAAAAATA-TATA-ATTTATT
1 TTAATTTAAAAATATTATATATTTATT
9594493 TTAATTTA
1 TTAATTTA
9594501 TTAAAAGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 13 0.45
26 3 0.10
27 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TTAATTTAAAAATATTATATATTTATT
Found at i:9598105 original size:69 final size:70
Alignment explanation
Indices: 9598016--9598154 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 70
9598006 CCCATAGCAA
*
9598016 TATAAAATAAAAAGTAATAAATTTTAGTTTACAATACAACGGAGCTCCTAAATCATCCAAATAAT
1 TATAAAATAAAAAGTAATAAATTTGAGTTTACAATACAACGGAGCTCCTAAATCATCCAAATAAT
9598081 ACACT
66 ACACT
*
9598086 TATAAAAT-AAAAGTAATAAATTTGAGTTTACAATACAAGGGAGCTCCTAAATCATCCAAATAAT
1 TATAAAATAAAAAGTAATAAATTTGAGTTTACAATACAACGGAGCTCCTAAATCATCCAAATAAT
9598150 ACACT
66 ACACT
9598155 GAGTTTAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
69 59 0.88
70 8 0.12
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (70 bp):
TATAAAATAAAAAGTAATAAATTTGAGTTTACAATACAACGGAGCTCCTAAATCATCCAAATAAT
ACACT
Found at i:9598902 original size:20 final size:20
Alignment explanation
Indices: 9598865--9598905 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9598855 TCAGTATTGG
* *
9598865 TACTAACCTATGGGTATCGA
1 TACTAACCCATGGATATCGA
*
9598885 TACTAACCCCTGGATATCGA
1 TACTAACCCATGGATATCGA
9598905 T
1 T
9598906 TATACTAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (20 bp):
TACTAACCCATGGATATCGA
Found at i:9604957 original size:2 final size:2
Alignment explanation
Indices: 9604950--9605000 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
9604940 ATCATTTAAA
9604950 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9604992 AC AC AC AC A
1 AC AC AC AC A
9605001 TATATATATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9605005 original size:2 final size:2
Alignment explanation
Indices: 9605000--9605032 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9604990 ACACACACAC
9605000 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9605033 CTATTCATTC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9610041 original size:26 final size:26
Alignment explanation
Indices: 9610002--9610060 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
9609992 ACCGAAGTGC
*
9610002 TAATACACATAAGGTTGTGCCCACCA
1 TAATACACACAAGGTTGTGCCCACCA
**
9610028 TAATACACACAAGGTTGTGCTTACCA
1 TAATACACACAAGGTTGTGCCCACCA
9610054 T-ATACAC
1 TAATACAC
9610061 TAAGTTTCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 6 0.20
26 24 0.80
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (26 bp):
TAATACACACAAGGTTGTGCCCACCA
Found at i:9614885 original size:21 final size:20
Alignment explanation
Indices: 9614845--9614922 Score: 129
Period size: 20 Copynumber: 3.8 Consensus size: 20
9614835 CAGAATGCTC
9614845 GGAGAGTACCGATACCCCCCA
1 GGAG-GTACCGATACCCCCCA
9614866 GGAGGTACCGATACCTCCCCA
1 GGAGGTACCGATACC-CCCCA
9614887 GGAGGTACCGATACCCCCCA
1 GGAGGTACCGATACCCCCCA
*
9614907 GGTGGTACCGATACCC
1 GGAGGTACCGATACCC
9614923 TCGTGTTATA
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
20 31 0.56
21 24 0.44
ACGTcount: A:0.24, C:0.37, G:0.26, T:0.13
Consensus pattern (20 bp):
GGAGGTACCGATACCCCCCA
Found at i:9620704 original size:23 final size:22
Alignment explanation
Indices: 9620654--9620800 Score: 128
Period size: 23 Copynumber: 6.7 Consensus size: 22
9620644 ATTTTTGTTC
9620654 ATAGAGTATCGATA--CCCTTGA
1 ATAG-GTATCGATACCCCCTTGA
*
9620675 GACAGGTATCGATACCCCCTTTGA
1 -ATAGGTATCGATACCCCC-TTGA
*
9620699 ATAGGTATCGATACCCCCAT-A
1 ATAGGTATCGATACCCCCTTGA
* *
9620720 A-GGGTA-CTGATACCCTCTTTGA
1 ATAGGTATC-GATACCC-CCTTGA
*
9620742 ATAGGTATCGATACCCCCAT-A
1 ATAGGTATCGATACCCCCTTGA
* *
9620763 A-GGGTATCGATACCCTCGTTGA
1 ATAGGTATCGATACCC-CCTTGA
9620785 ATAGGTATCGATACCC
1 ATAGGTATCGATACCC
9620801 ACCTGAGGGT
Statistics
Matches: 101, Mismatches: 13, Indels: 21
0.75 0.10 0.16
Matches are distributed among these distances:
19 1 0.01
20 24 0.24
21 17 0.17
22 10 0.10
23 44 0.44
24 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.27
Consensus pattern (22 bp):
ATAGGTATCGATACCCCCTTGA
Found at i:9620740 original size:43 final size:43
Alignment explanation
Indices: 9620685--9620822 Score: 208
Period size: 43 Copynumber: 3.2 Consensus size: 43
9620675 GACAGGTATC
*
9620685 GATACCCCCTTTGAATAGGTATCGATACCCCCATAAGGGTACT
1 GATACCCTCTTTGAATAGGTATCGATACCCCCATAAGGGTACT
9620728 GATACCCTCTTTGAATAGGTATCGATACCCCCATAAGGGTA-T
1 GATACCCTCTTTGAATAGGTATCGATACCCCCATAAGGGTACT
* * *
9620770 CGATACCCTCGTTGAATAGGTATCGATACCCACC-TGAGGGTACC
1 -GATACCCTCTTTGAATAGGTATCGATACCC-CCATAAGGGTACT
9620814 GATACCCTC
1 GATACCCTC
9620823 CACGGGGTCT
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
42 1 0.01
43 85 0.97
44 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (43 bp):
GATACCCTCTTTGAATAGGTATCGATACCCCCATAAGGGTACT
Found at i:9622851 original size:18 final size:18
Alignment explanation
Indices: 9622828--9622870 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
9622818 GATGTTTATG
*
9622828 GTTTGATTTATTTTGGAT
1 GTTTGATTTATCTTGGAT
*
9622846 GTTTGAATTTGTCTTGGAT
1 GTTTG-ATTTATCTTGGAT
9622865 GTTTGA
1 GTTTGA
9622871 ACTTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.16, C:0.02, G:0.26, T:0.56
Consensus pattern (18 bp):
GTTTGATTTATCTTGGAT
Found at i:9623627 original size:22 final size:21
Alignment explanation
Indices: 9623572--9623668 Score: 117
Period size: 22 Copynumber: 4.6 Consensus size: 21
9623562 TGCTCGGAAA
*
9623572 GTACCGATA-CCCCCCAAGAG
1 GTACCGATACCCCCCCAGGAG
9623592 GTACCGATACCCCCCCAGGAG
1 GTACCGATACCCCCCCAGGAG
*
9623613 GTACCGATACGCCCCTCAGGTA-
1 GTACCGATAC-CCCCCCAGG-AG
*
9623635 GTACCGATACCCCCCTCAGGTG
1 GTACCGATACCCCCC-CAGGAG
*
9623657 GTATCGATACCC
1 GTACCGATACCC
9623669 TCGTGTTATA
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
20 9 0.13
21 24 0.36
22 33 0.49
23 1 0.01
ACGTcount: A:0.24, C:0.39, G:0.22, T:0.15
Consensus pattern (21 bp):
GTACCGATACCCCCCCAGGAG
Found at i:9624917 original size:5 final size:5
Alignment explanation
Indices: 9624760--9624885 Score: 53
Period size: 5 Copynumber: 24.2 Consensus size: 5
9624750 AATAGAGAAG
* * * *
9624760 ATAAA ATAAA A-CAA ATAAA AGAAA GACAAA GAAAAGA ATAATA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA -ATAAA -ATAA-A ATAA-A ATAAA
* * ** *
9624808 ATAACA ATAACA AGT-AA ATTAA ATAAA A-ATAA AGAAA CGAAA AGAAA
1 ATAA-A ATAA-A A-TAAA ATAAA ATAAA ATA-AA ATAAA ATAAA ATAAA
*
9624855 A-ATAA TTAAA ATAAA ATAAA ATAAA ATAAA A
1 ATA-AA ATAAA ATAAA ATAAA ATAAA ATAAA A
9624886 AGTTCATAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
4 6 0.06
5 64 0.65
6 27 0.27
7 2 0.02
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.16
Consensus pattern (5 bp):
ATAAA
Found at i:9626579 original size:35 final size:35
Alignment explanation
Indices: 9626506--9626603 Score: 146
Period size: 33 Copynumber: 2.8 Consensus size: 35
9626496 TGAGGGTTTG
*
9626506 GTGTTTCAAGAGAAACATTTTCAAAGG--TTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
9626539 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
**
9626574 GTGTTTCAAGAGAAACTGTATTCAAAGGTT
1 GTGTTTCAAGAGAAACAAT-TTCAAAGGTT
9626604 GATATGCCCT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
33 26 0.44
35 23 0.39
36 10 0.17
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (35 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
Found at i:9627018 original size:478 final size:479
Alignment explanation
Indices: 9626122--9627084 Score: 1856
Period size: 478 Copynumber: 2.0 Consensus size: 479
9626112 TCTATAATGT
9626122 GGTTGATATGCCCTCGAACTAAATGAAACCGAACTCGAAAAGTCTTCGTTGACAGATAGCTTTTC
1 GGTTGATATGCCCTCGAACTAAATGAAACCGAACTCGAAAAGTCTTCGTTGACAGATAGCTTTTC
9626187 TCGACTTAAGCTATGCTGACGGAAAAAAGGCTTCTTGCTACTAAGGCACGACTAACCTAGACCTT
66 TCGACTTAAGCTATGCTGACGGAAAAAAGGCTTCTTGCTACTAAGGCACGACTAACCTAGACCTT
* *
9626252 CTTCTCGGCTTGAAAACCTCGATTACAGTCGGAAAATAGTGTTATTGAGGTGTCATCGAGCTGAA
131 CTTCTCGGCTTGAAAACCTCGATTACAGCCGAAAAATAGTGTTATTGAGGTGTCATCGAGCTGAA
9626317 TGGAATCAAACTCGACAATTTTATTGACAGATAGCCCTTCTTGCCTTAAGCTATGCTGTAAATGA
196 TGGAATCAAACTCGACAATTTTATTGACAGATAGCCCTTCTTGCCTTAAGCTATGCTGTAAATGA
9626382 TGTGCCTTGGAGCTGAGCATAGTTGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCT
261 TGTGCCTTGGAGCTGAGCATAGTTGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCT
*
9626447 TGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTTTGGTGTTT
326 TGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTTTGGTGTTT
9626512 CAAGAGAAACATTTTCAAAGGTTTTTTGTGTTTCAAGAGAAACAATTTCAAAGG-TTTTTTTTGT
391 CAAGAGAAACATTTTCAAAGGTTTTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTTGT
9626576 GTTTCAAGAGAAACTGTATTCAAA
456 GTTTCAAGAGAAACTGTATTCAAA
*
9626600 GGTTGATATGCCCTCGAACTAAATGAAACTGAACTCGAAAAGTCTTCGTTGACAGATAGCTTTTC
1 GGTTGATATGCCCTCGAACTAAATGAAACCGAACTCGAAAAGTCTTCGTTGACAGATAGCTTTTC
9626665 TCGACTTAAGCTATGCTGACGGAAAAAAGGCTTCTTGCTACTAAGGCACGACTAACCTAGACCTT
66 TCGACTTAAGCTATGCTGACGGAAAAAAGGCTTCTTGCTACTAAGGCACGACTAACCTAGACCTT
*
9626730 CTTCTCGGCTTGAAAACCTCGATTGCAGCCGAAAAATAGTGTTATTGAGGTGTCATCGAGCTGAA
131 CTTCTCGGCTTGAAAACCTCGATTACAGCCGAAAAATAGTGTTATTGAGGTGTCATCGAGCTGAA
9626795 TGGAATCAAACTCGACAATTTTATTGACAGATAGCCCTTCTTGCCTTAAGCTATGCTGTAAATGA
196 TGGAATCAAACTCGACAATTTTATTGACAGATAGCCCTTCTTGCCTTAAGCTATGCTGTAAATGA
9626860 TGTGCCTTGGAGCTGAGCATAGTTGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCT
261 TGTGCCTTGGAGCTGAGCATAGTTGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCT
*
9626925 TGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTTTGGTGTTT
326 TGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTTTGGTGTTT
9626990 CAAGAGAAACATTTTCAAAGGTTTTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTTGT
391 CAAGAGAAACATTTTCAAAGGTTTTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTTGT
9627055 GTTTCAAGAGAAACTGTATTCAAA
456 GTTTCAAGAGAAACTGTATTCAAA
*
9627079 GATTGA
1 GGTTGA
9627085 AGTTTCAAGG
Statistics
Matches: 477, Mismatches: 7, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
478 438 0.92
479 39 0.08
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (479 bp):
GGTTGATATGCCCTCGAACTAAATGAAACCGAACTCGAAAAGTCTTCGTTGACAGATAGCTTTTC
TCGACTTAAGCTATGCTGACGGAAAAAAGGCTTCTTGCTACTAAGGCACGACTAACCTAGACCTT
CTTCTCGGCTTGAAAACCTCGATTACAGCCGAAAAATAGTGTTATTGAGGTGTCATCGAGCTGAA
TGGAATCAAACTCGACAATTTTATTGACAGATAGCCCTTCTTGCCTTAAGCTATGCTGTAAATGA
TGTGCCTTGGAGCTGAGCATAGTTGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCT
TGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTTTGGTGTTT
CAAGAGAAACATTTTCAAAGGTTTTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTTGT
GTTTCAAGAGAAACTGTATTCAAA
Found at i:9627021 original size:33 final size:34
Alignment explanation
Indices: 9626984--9627068 Score: 136
Period size: 33 Copynumber: 2.5 Consensus size: 34
9626974 CGAGGGTTTG
*
9626984 GTGTTTCAAGAGAAACATTTTCAAAGG-TTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
9627017 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGG--TTTTTTT
9627053 GTGTTTCAAGAGAAAC
1 GTGTTTCAAGAGAAAC
9627069 TGTATTCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
33 26 0.54
36 22 0.46
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (34 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
Found at i:9627136 original size:36 final size:36
Alignment explanation
Indices: 9627086--9627196 Score: 120
Period size: 36 Copynumber: 3.1 Consensus size: 36
9627076 AAAGATTGAA
**
9627086 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
1 GTTTCAAGAAAAACTGTCTCAAGAGAGACAAAATTT
*
9627122 GTTTCAAGAAAAACTGTCTCAAGAGAGACAAAA--A
1 GTTTCAAGAAAAACTGTCTCAAGAGAGACAAAATTT
** * *
9627156 ACTTCTAA-AAGAAACTGTCTCAAGGGAGACGAAATTT
1 GTTTC-AAGAA-AAACTGTCTCAAGAGAGACAAAATTT
9627193 GTTT
1 GTTT
9627197 AACGTAAAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
34 5 0.08
35 23 0.38
36 31 0.51
37 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.24
Consensus pattern (36 bp):
GTTTCAAGAAAAACTGTCTCAAGAGAGACAAAATTT
Found at i:9627258 original size:30 final size:30
Alignment explanation
Indices: 9627210--9627266 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
9627200 GTAAAACATA
*
9627210 TTCAAAGATTTTGTTTCAA-AGGAAACTGTT
1 TTCAAAGATTTTGCTTCAAGA-GAAACTGTT
9627240 TTCAAAG-TTTATGCTTCAAGAGAAACT
1 TTCAAAGATTT-TGCTTCAAGAGAAACT
9627267 ATCTCAAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.12
30 20 0.83
31 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (30 bp):
TTCAAAGATTTTGCTTCAAGAGAAACTGTT
Found at i:9627301 original size:36 final size:36
Alignment explanation
Indices: 9627254--9627439 Score: 113
Period size: 36 Copynumber: 5.3 Consensus size: 36
9627244 AAGTTTATGC
9627254 TTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGT
1 TTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGT
* * * * **
9627290 TTCAAGGGAAACTATCTCATGAGAGATAAAATTCAT
1 TTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGT
* * * * *
9627326 TTCAAGGGAAA-TGTTTTCAA---TG-----TTTATGT
1 TTCAAGAGAAACT-ATCTCAAGGGAGACAAAATT-TGT
*
9627355 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAG-
1 TTCAAGAGAAACTATCTCAAGGGAGACAAAATTT-GT
* * * *
9627391 TTCTAAAAGAAAATGTCTCAAGGGAGACGAAATTTGT
1 TTC-AAGAGAAACTATCTCAAGGGAGACAAAATTTGT
*
9627428 TTCAAGGGAAAC
1 TTCAAGAGAAAC
9627440 AGATTCAAAT
Statistics
Matches: 112, Mismatches: 24, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
28 2 0.02
29 16 0.14
30 1 0.01
32 1 0.01
33 1 0.01
35 1 0.01
36 56 0.50
37 34 0.30
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.28
Consensus pattern (36 bp):
TTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGT
Found at i:9627361 original size:101 final size:102
Alignment explanation
Indices: 9627223--9627503 Score: 300
Period size: 102 Copynumber: 2.8 Consensus size: 102
9627213 AAAGATTTTG
* * *
9627223 TTTCAAAGGAAACTGTTTTCAAAGTTTATGCTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
1 TTTCAAGGGAAACTGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
* * *
9627288 GTTTCAAGGGAAACTATCTCATGAGAGATAAAATTCA
66 GTTTCAAGGGAAAATATCTCAAGAGAGACAAAATTCA
*
9627325 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TTTCAAGGGAAACTGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
** * * * **
9627389 AG-TTCTAAAAGAAAATGTCTCAAGGGAGACGAAATTTG
66 -GTTTC-AAGGGAAAATATCTCAAGAGAGACAAAATTCA
* * * * * * *
9627427 TTTCAAGGGAAACAG-ATTCAAATATTT-CGTTTCAAGAAAAACAATCTCAAGAGAGACAAAATT
1 TTTCAAGGGAAACTGTTTTC-AATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATT
**
9627490 CATTTCAAGGGAAA
65 TGTTTCAAGGGAAA
9627504 TGTTTTCAAT
Statistics
Matches: 148, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
101 58 0.39
102 83 0.56
103 7 0.05
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (102 bp):
TTTCAAGGGAAACTGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
GTTTCAAGGGAAAATATCTCAAGAGAGACAAAATTCA
Found at i:9627561 original size:102 final size:102
Alignment explanation
Indices: 9627450--9627643 Score: 307
Period size: 102 Copynumber: 1.9 Consensus size: 102
9627440 AGATTCAAAT
*
9627450 ATTTCGTTTCAAGAAAAACAATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATG
1 ATTTCGTTTCAAGAAAAACAATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAATGTTTTCAATG
*
9627515 TTTATGTTTCAATAGAAACTGTCTCAAGGGAGATAAA
66 TTTATGTTTCAAGAGAAACTGTCTCAAGGGAGATAAA
* ** * * *
9627552 ATTTTGTTTCAAGGGAACCTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAATTTTTTCAATG
1 ATTTCGTTTCAAGAAAAACAATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAATGTTTTCAATG
*
9627617 TTTATGTTTCAGGAGAAACTGTCTCAA
66 TTTATGTTTCAAGAGAAACTGTCTCAA
9627644 AAGAGATGAA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 83 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (102 bp):
ATTTCGTTTCAAGAAAAACAATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAATGTTTTCAATG
TTTATGTTTCAAGAGAAACTGTCTCAAGGGAGATAAA
Found at i:9627579 original size:167 final size:165
Alignment explanation
Indices: 9627280--9627605 Score: 456
Period size: 167 Copynumber: 2.0 Consensus size: 165
9627270 TCAAGGGAGA
** * * *
9627280 CAAAATTTGTTTCAAGGGAAACTATCTCATGAGAGATAAAATTCATTTCAAGGGAAATGTTTTCA
1 CAAAATTTGTTTCAAGAAAAACAATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCA
*
9627345 ATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCTAAAAGAAAATGTCTC
66 ATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCTAAAAGAAAATATCTC
* ** **
9627410 AAGGGAGACGAAATTTGTTTCAAGGGAAACAGATT
131 AAGAGAGAAAAAATTCATTTCAAGGGAAACAGATT
9627445 CAAATATTTCGTTTCAAGAAAAACAATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
1 CAAA-ATTT-GTTTCAAGAAAAACAATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTT
* * * ** **
9627510 CAATGTTTATGTTTCAATAGAAACTGTCTCAAGGGAGATAAAATTTTGTT-TCAAGGGAACCTAT
64 CAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCT-AAAAGAAAATAT
9627574 CTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
128 CTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
9627606 TTTTTTCAAT
Statistics
Matches: 140, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
165 4 0.03
166 5 0.04
167 131 0.94
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.29
Consensus pattern (165 bp):
CAAAATTTGTTTCAAGAAAAACAATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCA
ATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCTAAAAGAAAATATCTC
AAGAGAGAAAAAATTCATTTCAAGGGAAACAGATT
Found at i:9627679 original size:102 final size:102
Alignment explanation
Indices: 9627470--9627681 Score: 282
Period size: 102 Copynumber: 2.1 Consensus size: 102
9627460 AAGAAAAACA
* *
9627470 ATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAATAGAAACT
1 ATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACT
** * * ** **
9627535 GTCTCAAGGGAGATAAAATTTTGTTTCAAGGGAACCT
66 GTCTCAAAAGAGATAAAACTTAGTTTCAAAAGAAAAT
* *
9627572 ATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAATTTTTTCAATGTTTATGTTTCAGGAGAAACT
1 ATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACT
*
9627637 GTCTCAAAAGAGATGAAACTTAG-TTCTAAAAGAAAAT
66 GTCTCAAAAGAGATAAAACTTAGTTTC-AAAAGAAAAT
*
9627674 GTCTCAAG
1 ATCTCAAG
9627682 GGATTGAAGT
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
101 3 0.03
102 92 0.97
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (102 bp):
ATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACT
GTCTCAAAAGAGATAAAACTTAGTTTCAAAAGAAAAT
Found at i:9628253 original size:23 final size:22
Alignment explanation
Indices: 9628203--9628349 Score: 119
Period size: 23 Copynumber: 6.7 Consensus size: 22
9628193 ATTTTTGTTC
9628203 ATAGAGTATCGATA--CCCTTGA
1 ATAG-GTATCGATACCCCCTTGA
*
9628224 GACAGGTATCGATACCCCCTTTGA
1 -ATAGGTATCGATACCCCC-TTGA
*
9628248 ATAGGTATCGATACCCCCAT-A
1 ATAGGTATCGATACCCCCTTGA
* *
9628269 A-GGGTA-CTGATACCCTCTTTGA
1 ATAGGTATC-GATACCC-CCTTGA
*
9628291 ATAGGTATCGATACCCCCAT-A
1 ATAGGTATCGATACCCCCTTGA
* * *
9628312 A-GGGTACCGATACCCTCGTTGA
1 ATAGGTATCGATACCC-CCTTGA
9628334 ATAGGTATCGATACCC
1 ATAGGTATCGATACCC
9628350 ACCTGAGGGT
Statistics
Matches: 99, Mismatches: 15, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
19 1 0.01
20 23 0.23
21 17 0.17
22 10 0.10
23 43 0.43
24 5 0.05
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (22 bp):
ATAGGTATCGATACCCCCTTGA
Found at i:9628280 original size:20 final size:20
Alignment explanation
Indices: 9628257--9628326 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
9628247 AATAGGTATC
9628257 GATACCCCCATAAGGGTACT
1 GATACCCCCATAAGGGTACT
** *
9628277 GATACCCTCTTTGAATAGGTA-T
1 GATACCC-CCAT-AA-GGGTACT
*
9628299 CGATACCCCCATAAGGGTACC
1 -GATACCCCCATAAGGGTACT
9628320 GATACCC
1 GATACCC
9628327 TCGTTGAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
20 18 0.47
21 4 0.11
22 5 0.13
23 11 0.29
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.23
Consensus pattern (20 bp):
GATACCCCCATAAGGGTACT
Found at i:9628289 original size:43 final size:43
Alignment explanation
Indices: 9628228--9628371 Score: 227
Period size: 43 Copynumber: 3.3 Consensus size: 43
9628218 CCTTGAGACA
* *
9628228 GGTATCGATACCCCCTTTGAATAGGTATCGATACCCCCATAAG
1 GGTACCGATACCCTCTTTGAATAGGTATCGATACCCCCATAAG
*
9628271 GGTACTGATACCCTCTTTGAATAGGTATCGATACCCCCATAAG
1 GGTACCGATACCCTCTTTGAATAGGTATCGATACCCCCATAAG
* *
9628314 GGTACCGATACCCTCGTTGAATAGGTATCGATACCCACC-TGAG
1 GGTACCGATACCCTCTTTGAATAGGTATCGATACCC-CCATAAG
9628357 GGTACCGATACCCTC
1 GGTACCGATACCCTC
9628372 CACGGGGTCT
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
43 92 0.98
44 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (43 bp):
GGTACCGATACCCTCTTTGAATAGGTATCGATACCCCCATAAG
Found at i:9630408 original size:18 final size:18
Alignment explanation
Indices: 9630385--9630427 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
9630375 GATGTTTATG
*
9630385 GTTTGATTTATTTTGGAT
1 GTTTGATTTATCTTGGAT
*
9630403 GTTTGAATTTGTCTTGGAT
1 GTTTG-ATTTATCTTGGAT
9630422 GTTTGA
1 GTTTGA
9630428 ACTTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.16, C:0.02, G:0.26, T:0.56
Consensus pattern (18 bp):
GTTTGATTTATCTTGGAT
Found at i:9631162 original size:21 final size:21
Alignment explanation
Indices: 9631127--9631181 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
9631117 TGCTCGGAGA
9631127 GTACCGATA-CCCCCCAAGAG
1 GTACCGATACCCCCCCAAGAG
*
9631147 GTACCGATACCCCCCCAGGAG
1 GTACCGATACCCCCCCAAGAG
*
9631168 ATACCGATACCCCC
1 GTACCGATACCCCC
9631182 GTGTTATAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 9 0.28
21 23 0.72
ACGTcount: A:0.27, C:0.44, G:0.18, T:0.11
Consensus pattern (21 bp):
GTACCGATACCCCCCCAAGAG
Found at i:9632403 original size:5 final size:5
Alignment explanation
Indices: 9632246--9632371 Score: 53
Period size: 5 Copynumber: 24.2 Consensus size: 5
9632236 AATAGAGAAG
* * * *
9632246 ATAAA ATAAA A-CAA ATAAA AGAAA GACAAA GAAAAGA ATAATA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA -ATAAA -ATAA-A ATAA-A ATAAA
* * ** *
9632294 ATAACA ATAACA AGT-AA ATTAA ATAAA A-ATAA AGAAA CGAAA AGAAA
1 ATAA-A ATAA-A A-TAAA ATAAA ATAAA ATA-AA ATAAA ATAAA ATAAA
*
9632341 A-ATAA TTAAA ATAAA ATAAA ATAAA ATAAA A
1 ATA-AA ATAAA ATAAA ATAAA ATAAA ATAAA A
9632372 AGTCCATAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
4 6 0.06
5 64 0.65
6 27 0.27
7 2 0.02
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.16
Consensus pattern (5 bp):
ATAAA
Found at i:9632529 original size:2 final size:2
Alignment explanation
Indices: 9632522--9632567 Score: 58
Period size: 2 Copynumber: 23.0 Consensus size: 2
9632512 ATGAAATGAT
* *
9632522 TA TA TA TA TA TA TA TA TA TA TA TA TA -A AA TA GTA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
9632564 TA TA
1 TA TA
9632568 AATTAATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.92
3 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:9632577 original size:20 final size:20
Alignment explanation
Indices: 9632537--9632577 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
9632527 ATATATATAT
*
9632537 ATATATATATAAAATAGTAA
1 ATATATATATAAAATAATAA
*
9632557 ATATATATATAAATTAATAA
1 ATATATATATAAAATAATAA
9632577 A
1 A
9632578 ACAGATAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
ATATATATATAAAATAATAA
Found at i:9634031 original size:33 final size:34
Alignment explanation
Indices: 9633994--9634077 Score: 143
Period size: 33 Copynumber: 2.5 Consensus size: 34
9633984 CGAGGGTTTG
*
9633994 GTGTTTCAAGAGAAACATTTTCAAAGG-TTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
9634027 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
1 GTGTTTCAAGAGAAACAATTTCAAAGG-TTTTTTT
9634062 GTGTTTCAAGAGAAAC
1 GTGTTTCAAGAGAAAC
9634078 TGTATTCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
33 26 0.54
35 22 0.46
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (34 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTT
Found at i:9634145 original size:36 final size:36
Alignment explanation
Indices: 9634096--9634201 Score: 119
Period size: 36 Copynumber: 3.0 Consensus size: 36
9634086 AAGATTGAAG
**
9634096 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA
1 TTTCAAGAAAAACTGTCTCAAGAGAGACAAAATTTA
*
9634132 TTTCAAGAAAAACTGTCTCAAGAGAGACAAAA--AA
1 TTTCAAGAAAAACTGTCTCAAGAGAGACAAAATTTA
* * *
9634166 CTTCTAA-AAGAAACTGTCTCAAGGGAGACGAAATTT
1 TTTC-AAGAA-AAACTGTCTCAAGAGAGACAAAATTT
9634202 GTTTAACGTA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
34 6 0.10
35 23 0.39
36 30 0.51
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (36 bp):
TTTCAAGAAAAACTGTCTCAAGAGAGACAAAATTTA
Found at i:9634187 original size:35 final size:36
Alignment explanation
Indices: 9634104--9634199 Score: 117
Period size: 35 Copynumber: 2.7 Consensus size: 36
9634094 AGTTTCAAGG
* *
9634104 GAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGAA
1 GAAACTGTCTCAAGAGAGACAAAA-TAACTTCAAGAA
9634141 -AAACTGTCTCAAGAGAGACAAAA-AACTTCTAA-AA
1 GAAACTGTCTCAAGAGAGACAAAATAACTTC-AAGAA
* *
9634175 GAAACTGTCTCAAGGGAGACGAAAT
1 GAAACTGTCTCAAGAGAGACAAAAT
9634200 TTGTTTAACG
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
34 6 0.12
35 23 0.44
36 23 0.44
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.20
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAATAACTTCAAGAA
Found at i:9634267 original size:30 final size:30
Alignment explanation
Indices: 9634219--9634275 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
9634209 GTAAAACATA
*
9634219 TTCAAAGATTTTGTTTCAA-AGGAAACTGTT
1 TTCAAAGATTTTGCTTCAAGA-GAAACTGTT
9634249 TTCAAAG-TTTATGCTTCAAGAGAAACT
1 TTCAAAGATTT-TGCTTCAAGAGAAACT
9634276 ATCTCAAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.12
30 20 0.83
31 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (30 bp):
TTCAAAGATTTTGCTTCAAGAGAAACTGTT
Found at i:9634310 original size:36 final size:36
Alignment explanation
Indices: 9634263--9634345 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 36
9634253 AAGTTTATGC
* * **
9634263 TTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
*
9634299 TTCAAGGGAAACTATCTCATGAGAGACAAAATTCAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
9634335 TTCAAGGGAAA
1 TTCAAGGGAAA
9634346 TGTTTTCAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.24
Consensus pattern (36 bp):
TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
Found at i:9634370 original size:101 final size:102
Alignment explanation
Indices: 9634232--9634512 Score: 300
Period size: 102 Copynumber: 2.8 Consensus size: 102
9634222 AAAGATTTTG
* * *
9634232 TTTCAAAGGAAACTGTTTTCAAAGTTTATGCTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
1 TTTCAAGGGAAACTGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
* *
9634297 GTTTCAAGGGAAACTATCTCATGAGAGACAAAATTCA
66 GTTTCAAGGGAAAATATCTCAAGAGAGACAAAATTCA
* *
9634334 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGATACAAAATTT
1 TTTCAAGGGAAACTGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
** * * * **
9634398 AG-TTCTAAAAGAAAATGTCTCAAGGGAGACGAAATTTG
66 -GTTTC-AAGGGAAAATATCTCAAGAGAGACAAAATTCA
* * * * * * *
9634436 TTTCAAGGGAAACAG-ATTCAAATATTT-CGTTTCAAGAAAAACAATCTCAAGAGAGACAAAATT
1 TTTCAAGGGAAACTGTTTTC-AATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATT
**
9634499 CATTTCAAGGGAAA
65 TGTTTCAAGGGAAA
9634513 TGTTTTCAAT
Statistics
Matches: 147, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
101 57 0.39
102 83 0.56
103 7 0.05
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (102 bp):
TTTCAAGGGAAACTGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
GTTTCAAGGGAAAATATCTCAAGAGAGACAAAATTCA
Found at i:9634521 original size:65 final size:65
Alignment explanation
Indices: 9634415--9634577 Score: 177
Period size: 65 Copynumber: 2.5 Consensus size: 65
9634405 AAAGAAAATG
*
9634415 TCTCAAGGGAGACGAAATTTGTTTCAAGGGAAACAGATTCAAATATTT-CGTTTCAAGAAAAACA
1 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAGATTC-AATATTTACGTTTCAAGAAAAACA
9634479 A
65 A
* ** * * * * * * *
9634480 TCTCAAGAGAGACAAAATTCATTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAATAGAAACT
1 TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAG-ATTCAATATTTACGTTTCAAGAAAAACA
*
9634544 G
65 A
9634545 TCTCAAGGGAGACAAAATTTTGTTTCAAGGGAA
1 TCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAA
9634578 CCTATCTCAA
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
64 7 0.09
65 60 0.75
66 13 0.16
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (65 bp):
TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAGATTCAATATTTACGTTTCAAGAAAAACAA
Found at i:9634570 original size:102 final size:103
Alignment explanation
Indices: 9634454--9634652 Score: 312
Period size: 102 Copynumber: 1.9 Consensus size: 103
9634444 GAAACAGATT
*
9634454 CAAATATTTCGTTTCAAGAAAAACAATCTCAAGAGAGACAAAATTCATTTCAAGGG-AAATGTTT
1 CAAATATTTCGTTTCAAGAAAAACAATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAAAT-TTT
*
9634518 TCAATGTTTATGTTTCAATAGAAACTGTCTCAAGGGAGA
65 TCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA
* ** * *
9634557 CAAA-ATTTTGTTTCAAGGGAACCTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAAATTTTT
1 CAAATATTTCGTTTCAAGAAAAACAATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAAATTTTT
9634621 CAATGTTTATGTTTCAAGAGAAACTGTCTCAA
66 CAATGTTTATGTTTCAAGAGAAACTGTCTCAA
9634653 AAGAGACGAA
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
102 80 0.91
103 8 0.09
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (103 bp):
CAAATATTTCGTTTCAAGAAAAACAATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAAATTTTT
CAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA
Found at i:9634637 original size:167 final size:167
Alignment explanation
Indices: 9634294--9634659 Score: 477
Period size: 167 Copynumber: 2.2 Consensus size: 167
9634284 GGAGACAAAA
* *
9634294 TTTGTTTCAAGGGAAACTATCTCATGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTT
1 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTT
* * *
9634359 TATGTTTCAAGAGAAACTGTCTCAAGGGATACAAAATTTAGTTCTAAAAGAAAATGTCTCAAGGG
66 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCTAAAAGAAAATATCTCAAGAG
** **
9634424 AGACGAAATTTGTTTCAAGGGAAACAGATTCAAATAT
131 AGAAAAAATTCATTTCAAGGGAAACAGATTCAAATAT
* * *
9634461 TTCGTTTCAAGAAAAACAATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTT
1 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTT
* * ** **
9634526 TATGTTTCAATAGAAACTGTCTCAAGGGAGACAAAATTTTGTT-TCAAGGGAACCTATCTCAAGA
66 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCT-AAAAGAAAATATCTCAAGA
** *
9634590 GAGAAAAAATTCATTTCAAGGGAAA-ATTTTTC-AATGT
130 GAGAAAAAATTCATTTCAAGGGAAACA-GATTCAAATAT
* *
9634627 TTATGTTTCAAGAGAAACTGTCTCAAAAGAGAC
1 TT-TGTTTCAAGAGAAACTATCTCAAGAGAGAC
9634660 GAAACTTAGT
Statistics
Matches: 170, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
166 8 0.05
167 162 0.95
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (167 bp):
TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTT
TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCTAAAAGAAAATATCTCAAGAG
AGAAAAAATTCATTTCAAGGGAAACAGATTCAAATAT
Found at i:9634702 original size:102 final size:102
Alignment explanation
Indices: 9634479--9634711 Score: 290
Period size: 102 Copynumber: 2.3 Consensus size: 102
9634469 AAGAAAAACA
*
9634479 ATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAATAGAAACT
1 ATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACT
** * * ** **
9634544 GTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAACCT
66 GTCTCAAAAGAGACAAAACTTAGTTTCAAAAGAAAAT
*
9634581 ATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAAAT-TTTTCAATGTTTATGTTTCAAGAGAAAC
1 ATCTCAAGAGAGACAAAATTCATTTCAAGGG-AAATGTTTTCAATGTTTATGTTTCAAGAGAAAC
*
9634645 TGTCTCAAAAGAGACGAAACTTAG-TTCTAAAAGAAAAT
65 TGTCTCAAAAGAGACAAAACTTAGTTTC-AAAAGAAAAT
* * * **
9634683 GTCTCAAGGGAGACGAAATTTGTTTCAAG
1 ATCTCAAGAGAGACAAAATTCATTTCAAG
9634712 AGAGACAATT
Statistics
Matches: 112, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
101 3 0.03
102 105 0.94
103 4 0.04
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (102 bp):
ATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACT
GTCTCAAAAGAGACAAAACTTAGTTTCAAAAGAAAAT
Found at i:9634714 original size:19 final size:19
Alignment explanation
Indices: 9634699--9634739 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
9634689 AGGGAGACGA
9634699 AATTTGTTTCAAGAGAGAC
1 AATTTGTTTCAAGAGAGAC
*
9634718 AATTTGTTTCAAGAGAAAC
1 AATTTGTTTCAAGAGAGAC
9634737 AAT
1 AAT
9634740 CTCAAGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (19 bp):
AATTTGTTTCAAGAGAGAC
Found at i:9634883 original size:36 final size:36
Alignment explanation
Indices: 9634843--9634967 Score: 112
Period size: 36 Copynumber: 3.5 Consensus size: 36
9634833 TGTTTTAAGA
*
9634843 AAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGT
1 AAAACAATCTTAAGTGAAATAAATCTTCTTTCGAGT
* * * * *
9634879 AAAACAGTCTCAAGTGAGACAAAGTCTGT-TTT-AAG-
1 AAAACAATCTTAAGTGAAATAAA-TCT-TCTTTCGAGT
* *
9634914 AAAAGCAATCTTAAGTAAAATAAATCTTCTTCCGAGT
1 AAAA-CAATCTTAAGTGAAATAAATCTTCTTTCGAGT
* *
9634951 AAAACAGTCTCAAGTGA
1 AAAACAATCTTAAGTGA
9634968 GACAAAGTCT
Statistics
Matches: 67, Mismatches: 16, Indels: 12
0.71 0.17 0.13
Matches are distributed among these distances:
34 1 0.01
35 9 0.13
36 46 0.69
37 10 0.15
38 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (36 bp):
AAAACAATCTTAAGTGAAATAAATCTTCTTTCGAGT
Found at i:9634923 original size:72 final size:72
Alignment explanation
Indices: 9634760--9634981 Score: 293
Period size: 72 Copynumber: 3.0 Consensus size: 72
9634750 ACAAAACTTC
* * * * *
9634760 TTTAAAAAAAACAGTCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCCCAAGAGAG
1 TTTAAGAAAAACAATCTTGAGTGAAAT-AAAT--CTTCTTTCGAGT-AAAACAGTCTCAAGTGAG
* *
9634825 A-AAAATATTGT
62 ACAAAGT-CTGT
9634836 TTTAAGAAAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGTGAGACAA
1 TTTAAGAAAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGTGAGACAA
9634901 AGTCTGT
66 AGTCTGT
* * * *
9634908 TTTAAGAAAAGCAATCTTAAGTAAAATAAATCTTCTTCCGAGTAAAACAGTCTCAAGTGAGACAA
1 TTTAAGAAAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGTGAGACAA
9634973 AGTCTGT
66 AGTCTGT
9634980 TT
1 TT
9634982 GAAATAAATC
Statistics
Matches: 134, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
72 89 0.66
73 16 0.12
75 4 0.03
76 25 0.19
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (72 bp):
TTTAAGAAAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGTGAGACAA
AGTCTGT
Found at i:9634993 original size:52 final size:52
Alignment explanation
Indices: 9634931--9635033 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
9634921 ATCTTAAGTA
*
9634931 AAATAAATCTTCTTCCGAGTAAAACAGTCTCAAGTGAGACAAAGTCTGTTTG
1 AAATAAATCTTCTTCCGAGTAAAACAGTCTCAAGTGAGACAAAGTATGTTTG
*
9634983 AAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGTGAGACAAAGTATGTTT
1 AAATAAATCTTCTTCCGAGTAAAACAGTCTCAAGTGAGACAAAGTATGTTT
9635034 TAAGAAAAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (52 bp):
AAATAAATCTTCTTCCGAGTAAAACAGTCTCAAGTGAGACAAAGTATGTTTG
Found at i:9636534 original size:195 final size:195
Alignment explanation
Indices: 9636202--9636760 Score: 992
Period size: 195 Copynumber: 2.9 Consensus size: 195
9636192 CAGGTTTAAT
* *
9636202 TGAAGGGTTCGTCTCATCACAAAGTATTTGGCCTGACAAAAGTAGTGGAGCAAACACCGAATTGC
1 TGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGC
*
9636267 CAAGTGTCCGAGAAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTT
66 CAAGTGTCCGAGAAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTC
9636332 CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAACTTAGTATTAGAATCAC
131 CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAACTTAGTATTAGAATCAC
*
9636397 TGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAACAGTGGAGCAAACACCGAATTGC
1 TGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGC
* * *
9636462 CAAGTGTCCGAGTAATGTCATGGTTTGAATATAATATATTCATAAAGCCAGGGCTTTCGAGTTTC
66 CAAGTGTCCGAGAAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTC
* * * *
9636527 CTCTATAACCAATTGCCTTAGTGGAATAACTCAGTTTTAGAGGGACAGCTTAGTATTATAATCAC
131 CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAACTTAGTATTAGAATCAC
* *
9636592 TGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGGATTTC
1 TGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGC
*
9636657 CAAGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTC
66 CAAGTGTCCGAGAAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTC
9636722 CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
9636761 CGGATTTAAT
Statistics
Matches: 345, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
195 345 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (195 bp):
TGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGC
CAAGTGTCCGAGAAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTC
CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAACTTAGTATTAGAATCAC
Found at i:9644231 original size:6 final size:6
Alignment explanation
Indices: 9644220--9644253 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
9644210 CTGGTTTAAA
9644220 ATTTTT ATTTTT ATTATTT -TTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATT-TTT ATTTTT ATTTTT ATTT
9644254 AAATTGGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 3 0.12
6 20 0.77
7 3 0.12
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:9658855 original size:21 final size:21
Alignment explanation
Indices: 9658826--9658880 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
9658816 AACAAAGGTA
*
9658826 GTACTGATACCCCTTAAAGGG
1 GTACCGATACCCCTTAAAGGG
9658847 GTACCGATACCCCTTAAAGGG
1 GTACCGATACCCCTTAAAGGG
9658868 GTACCGATACCCC
1 GTACCGATACCCC
9658881 CTGTTATGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (21 bp):
GTACCGATACCCCTTAAAGGG
Found at i:9662610 original size:18 final size:18
Alignment explanation
Indices: 9662589--9662732 Score: 99
Period size: 18 Copynumber: 8.2 Consensus size: 18
9662579 AGGCAGAGAA
*
9662589 AGAGTGAGACAGAGGGAG
1 AGAGTGAGAGAGAGGGAG
* * *
9662607 AGAGGGGGAGAGAGAGAG
1 AGAGTGAGAGAGAGGGAG
9662625 AGAGTGAGAGAGAGCAGGAG
1 AGAGTGAGAGAGAG--GGAG
9662645 AGAGTGAGA-AGGAGGGAG
1 AGAGTGAGAGA-GAGGGAG
* *
9662663 AGAG-CAGGAGAGAGTGAG
1 AGAGTGA-GAGAGAGGGAG
* *
9662681 A-AG-GAGGGAGAGGGGG
1 AGAGTGAGAGAGAGGGAG
*
9662697 AGAG-G-G-G-GAGAGAG
1 AGAGTGAGAGAGAGGGAG
9662711 AGA-TGGAGAGAGAGGGAG
1 AGAGT-GAGAGAGAGGGAG
9662729 AGAG
1 AGAG
9662733 AGATAAAGGG
Statistics
Matches: 98, Mismatches: 16, Indels: 23
0.72 0.12 0.17
Matches are distributed among these distances:
14 8 0.08
15 2 0.02
16 11 0.11
17 8 0.08
18 52 0.53
19 2 0.02
20 15 0.15
ACGTcount: A:0.38, C:0.02, G:0.56, T:0.03
Consensus pattern (18 bp):
AGAGTGAGAGAGAGGGAG
Found at i:9662620 original size:28 final size:27
Alignment explanation
Indices: 9662589--9662732 Score: 132
Period size: 28 Copynumber: 5.1 Consensus size: 27
9662579 AGGCAGAGAA
*
9662589 AGAGTGAGACAGAGGGAGAGAGGGGGAG
1 AGAGTGAGA-AGAGGGAGAGAGCGGGAG
* *
9662617 AGAGAGAG-AGAGTGAGAGAGAGCAGGAG
1 AGAGTGAGAAGAG-G-GAGAGAGCGGGAG
*
9662645 AGAGTGAGAAGGAGGGAGAGAGCAGGAG
1 AGAGTGAGAA-GAGGGAGAGAGCGGGAG
9662673 AGAGTGAGAAGGAGGGAGAG-G-GGGAG
1 AGAGTGAGAA-GAGGGAGAGAGCGGGAG
* * *
9662699 AGGGGGAGAGAGAGATGGAGAGAGAGGGAG
1 AGAGTGAGA-AGAG--GGAGAGAGCGGGAG
9662729 AGAG
1 AGAG
9662733 AGATAAAGGG
Statistics
Matches: 99, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
26 18 0.18
27 3 0.03
28 64 0.65
29 3 0.03
30 11 0.11
ACGTcount: A:0.38, C:0.02, G:0.56, T:0.03
Consensus pattern (27 bp):
AGAGTGAGAAGAGGGAGAGAGCGGGAG
Found at i:9662623 original size:14 final size:14
Alignment explanation
Indices: 9662604--9662769 Score: 71
Period size: 14 Copynumber: 11.3 Consensus size: 14
9662594 GAGACAGAGG
9662604 GAGAGAGGGGGAGA
1 GAGAGAGGGGGAGA
* * *
9662618 GAGAGAGAGAGTGA
1 GAGAGAGGGGGAGA
**
9662632 GAGAGAGCAGGAGA
1 GAGAGAGGGGGAGA
* ** *
9662646 GAGTGAGAAGGAGG
1 GAGAGAGGGGGAGA
*
9662660 GAGAGAGCAGGAGAGA
1 GAGAGAG--GGGGAGA
*
9662676 GTGAGAAGGAGGGAGA
1 GAGAG-AGG-GGGAGA
*
9662692 GGGGGAGAGGGGGAGA
1 --GAGAGAGGGGGAGA
*
9662708 GAGAGATGGAGAGAGA
1 GAGAGA-GG-GGGAGA
* * * *
9662724 GGGAGAGAGAGATA
1 GAGAGAGGGGGAGA
* * *
9662738 AAGGGTGGGGGAGA
1 GAGAGAGGGGGAGA
*
9662752 TAGAGAGGGGGAGA
1 GAGAGAGGGGGAGA
9662766 GAGA
1 GAGA
9662770 TCGAGAGAGA
Statistics
Matches: 110, Mismatches: 34, Indels: 16
0.69 0.21 0.10
Matches are distributed among these distances:
14 69 0.63
15 4 0.04
16 28 0.25
17 5 0.05
18 4 0.04
ACGTcount: A:0.38, C:0.01, G:0.57, T:0.04
Consensus pattern (14 bp):
GAGAGAGGGGGAGA
Found at i:9662628 original size:10 final size:10
Alignment explanation
Indices: 9662564--9662735 Score: 90
Period size: 10 Copynumber: 17.6 Consensus size: 10
9662554 GAGGGGGAAG
*
9662564 GAGAGGGAGA
1 GAGAGAGAGA
*
9662574 GAAAGAG-GCA
1 GAGAGAGAG-A
* *
9662584 GAGAAAGAGT
1 GAGAGAGAGA
* *
9662594 GAGACAGAGG
1 GAGAGAGAGA
* *
9662604 GAGAGAGGGG
1 GAGAGAGAGA
9662614 GAGAGAGAGA
1 GAGAGAGAGA
*
9662624 GAGAGTGAGA
1 GAGAGAGAGA
9662634 GAGAGCAG-GA
1 GAGAG-AGAGA
*
9662644 GAGAGTGAGA
1 GAGAGAGAGA
*
9662654 -AG-GAGGGA
1 GAGAGAGAGA
9662662 GAGAGCAG-GA
1 GAGAG-AGAGA
*
9662672 GAGAGTGAGA
1 GAGAGAGAGA
*
9662682 -AG-GAGGGA
1 GAGAGAGAGA
* *
9662690 GAGGGGGAGA
1 GAGAGAGAGA
* *
9662700 GGGGGAGAGA
1 GAGAGAGAGA
9662710 GAGATG-GAGA
1 GAGA-GAGAGA
*
9662720 GAGAGGGAGA
1 GAGAGAGAGA
9662730 GAGAGA
1 GAGAGA
9662736 TAAAGGGTGG
Statistics
Matches: 124, Mismatches: 26, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
8 8 0.06
9 12 0.10
10 99 0.80
11 5 0.04
ACGTcount: A:0.40, C:0.02, G:0.55, T:0.03
Consensus pattern (10 bp):
GAGAGAGAGA
Found at i:9662742 original size:16 final size:18
Alignment explanation
Indices: 9662605--9662776 Score: 68
Period size: 18 Copynumber: 9.3 Consensus size: 18
9662595 AGACAGAGGG
* *
9662605 AGAGAGGGGGAGAGAGAG
1 AGAGAGGGAGAGAGAGAT
* *
9662623 AGAGAGTGAGAGAGAGCAGG
1 AGAGAGGGAGAGAGAG-A-T
* * *
9662643 AGAGAGTGAGAAGGAGGGAG
1 AGAGAGGGAG-A-GAGAGAT
*
9662663 AGAGCAGGAGAGAGTGAGA-
1 AGAG-AGG-GAGAGAGAGAT
**
9662682 AG-GAGGGAGAG-G-GGG
1 AGAGAGGGAGAGAGAGAT
*
9662697 AGAGGGGGAGAGAGAGAT
1 AGAGAGGGAGAGAGAGAT
9662715 GGAGAGAGAGGGAGAGAGAGAT
1 ----AGAGAGGGAGAGAGAGAT
* * *
9662737 A-A-AGGGTGGGGGAGAT
1 AGAGAGGGAGAGAGAGAT
*
9662753 AGAGAGGGGGAGAGAGAT
1 AGAGAGGGAGAGAGAGAT
*
9662771 CGAGAG
1 AGAGAG
9662777 AGATAGGGAA
Statistics
Matches: 120, Mismatches: 18, Indels: 32
0.71 0.11 0.19
Matches are distributed among these distances:
14 1 0.01
15 3 0.03
16 25 0.21
17 6 0.05
18 33 0.28
19 3 0.03
20 20 0.17
21 5 0.04
22 24 0.20
ACGTcount: A:0.38, C:0.02, G:0.56, T:0.05
Consensus pattern (18 bp):
AGAGAGGGAGAGAGAGAT
Found at i:9662749 original size:22 final size:22
Alignment explanation
Indices: 9662696--9662757 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
9662686 GGGAGAGGGG
**
9662696 GAGAGGGGGAGAGAGAGATGGA
1 GAGAGGGGGAGAGAGAGATAAA
*
9662718 GAGAGAGGGAGAGAGAGATAAA
1 GAGAGGGGGAGAGAGAGATAAA
* * *
9662740 GGGTGGGGGAGATAGAGA
1 GAGAGGGGGAGAGAGAGA
9662758 GGGGGAGAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.55, T:0.06
Consensus pattern (22 bp):
GAGAGGGGGAGAGAGAGATAAA
Found at i:9662778 original size:22 final size:22
Alignment explanation
Indices: 9662753--9662821 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
9662743 TGGGGGAGAT
9662753 AGAGAGGGGGAGAGAG-ATCGAG
1 AGAGAGGGGGAGAGAGAAT-GAG
** *
9662775 AGAGATAGGGAAAGAGAATGAG
1 AGAGAGGGGGAGAGAGAATGAG
9662797 AGAGAAGGGGG-GAGA-AA-GAG
1 AGAG-AGGGGGAGAGAGAATGAG
9662817 AGAGA
1 AGAGA
9662822 TGTTTATACG
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
19 1 0.03
20 7 0.18
21 2 0.05
22 23 0.59
23 6 0.15
ACGTcount: A:0.45, C:0.01, G:0.49, T:0.04
Consensus pattern (22 bp):
AGAGAGGGGGAGAGAGAATGAG
Found at i:9663446 original size:28 final size:28
Alignment explanation
Indices: 9663394--9663448 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
9663384 AGTGTTGTAT
*
9663394 CATTTATGCCACTGAACTTTCATTTTTA
1 CATTTATGCCACTGAACTTACATTTTTA
* * *
9663422 CATTTATGGCATTGAACTTAGATTTTT
1 CATTTATGCCACTGAACTTACATTTTT
9663449 CTTTCAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.47
Consensus pattern (28 bp):
CATTTATGCCACTGAACTTACATTTTTA
Found at i:9666411 original size:20 final size:19
Alignment explanation
Indices: 9666345--9666417 Score: 71
Period size: 20 Copynumber: 3.9 Consensus size: 19
9666335 AGGCATTCAT
*
9666345 GAGGTATCGATACCTTAAG
1 GAGGTATCGATACCATAAG
* *
9666364 AACAGTATCGATACCA-AA-
1 GA-GGTATCGATACCATAAG
*
9666382 G-GGTACCGATACCATAAG
1 GAGGTATCGATACCATAAG
9666400 GATGGTATCGATACCATA
1 GA-GGTATCGATACCATA
9666418 TTTGAAACGA
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
16 11 0.26
17 2 0.05
18 1 0.02
19 3 0.07
20 25 0.60
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (19 bp):
GAGGTATCGATACCATAAG
Found at i:9667832 original size:22 final size:22
Alignment explanation
Indices: 9667802--9667865 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
9667792 AGTAGAGGGT
9667802 TACATAGGTCCTTCGGGACATA
1 TACATAGGTCCTTCGGGACATA
*
9667824 TACAGAGGTCCTTCGGGACATA
1 TACATAGGTCCTTCGGGACATA
*
9667846 TACATAGGTCATTCGGGACA
1 TACATAGGTCCTTCGGGACA
9667866 AATTTCACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (22 bp):
TACATAGGTCCTTCGGGACATA
Found at i:9675550 original size:2 final size:2
Alignment explanation
Indices: 9675543--9675573 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9675533 TCAATATACA
9675543 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9675574 ATTTACGACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9675741 original size:85 final size:85
Alignment explanation
Indices: 9675593--9675758 Score: 208
Period size: 85 Copynumber: 2.0 Consensus size: 85
9675583 ATACAATCAC
* * * * *
9675593 GACACACGAATGTGTGTCATCTTTTTTAATGGCGTATGCTTCAATGACACGCAATGTAAGTCATA
1 GACACACAAATGTGTGTCATCTTATTTAATGACGGAGGCTTCAATGACACGCAATGTAAGTCATA
* *
9675658 ACTGCGTGTCATAAATTTAT
66 AATGCGCGTCATAAATTTAT
* * **
9675678 GACACACAAATGTGTGTCATCTTCATTT-ATGACGGGGGCTTCAATGACGCGCAATGTGCGTCAT
1 GACACACAAATGTGTGTCATCTT-ATTTAATGACGGAGGCTTCAATGACACGCAATGTAAGTCAT
*
9675742 AAATGTGCGTCATAAAT
65 AAATGCGCGTCATAAAT
9675759 GAGTGTCATA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
85 65 0.96
86 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (85 bp):
GACACACAAATGTGTGTCATCTTATTTAATGACGGAGGCTTCAATGACACGCAATGTAAGTCATA
AATGCGCGTCATAAATTTAT
Found at i:9675748 original size:13 final size:13
Alignment explanation
Indices: 9675730--9675794 Score: 78
Period size: 13 Copynumber: 5.0 Consensus size: 13
9675720 AATGACGCGC
9675730 AATGTGCGTCATA
1 AATGTGCGTCATA
9675743 AATGTGCGTCATA
1 AATGTGCGTCATA
* *
9675756 AATGAGTGTCATA
1 AATGTGCGTCATA
*
9675769 AATGT-CTTTCATA
1 AATGTGC-GTCATA
*
9675782 AATGCGCGTCATA
1 AATGTGCGTCATA
9675795 GATTTATGAC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
13 42 0.98
14 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (13 bp):
AATGTGCGTCATA
Found at i:9676993 original size:31 final size:31
Alignment explanation
Indices: 9676955--9677013 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
9676945 CTTTTAAAAC
9676955 TTGCAATATAATCCCCCAACATTTAGTCCGT
1 TTGCAATATAATCCCCCAACATTTAGTCCGT
** *
9676986 TTGCAATATGGTCCCTCAACATTTAGTC
1 TTGCAATATAATCCCCCAACATTTAGTC
9677014 ACTTAAACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (31 bp):
TTGCAATATAATCCCCCAACATTTAGTCCGT
Found at i:9677838 original size:30 final size:31
Alignment explanation
Indices: 9677773--9677839 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 31
9677763 ATATAACTGC
*
9677773 CCGCGAAAGCCGCAACACGTTACAAAATCACGT
1 CCGCGAAAGCCGCAACACGTTAC--AATAACGT
* *
9677806 CCGCGACAGCCGCAACACGTTAC-GTAACGT
1 CCGCGAAAGCCGCAACACGTTACAATAACGT
9677836 CCGC
1 CCGC
9677840 AGTATCCGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 9 0.29
33 22 0.71
ACGTcount: A:0.30, C:0.37, G:0.21, T:0.12
Consensus pattern (31 bp):
CCGCGAAAGCCGCAACACGTTACAATAACGT
Found at i:9678599 original size:31 final size:31
Alignment explanation
Indices: 9678559--9678625 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
9678549 TCCAATATAA
**
9678559 TCCCCCAACATTTAGTCTGTTTGCAATATGG
1 TCCCCCAACATTTAGTCCATTTGCAATATGG
*
9678590 TCCCTCAACATTTAGTCCATTTGCAATATGG
1 TCCCCCAACATTTAGTCCATTTGCAATATGG
9678621 TCCCC
1 TCCCC
9678626 GACGTAACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.34
Consensus pattern (31 bp):
TCCCCCAACATTTAGTCCATTTGCAATATGG
Found at i:9679087 original size:28 final size:29
Alignment explanation
Indices: 9679030--9679102 Score: 139
Period size: 28 Copynumber: 2.6 Consensus size: 29
9679020 AAAAGTCGAA
9679030 AGCAAACGAGAAACTTCCCCCATGAAAGC
1 AGCAAACGAGAAACTTCCCCCATGAAAGC
9679059 AGCAAACGAGAAACTTCCCCC-TGAAAGC
1 AGCAAACGAGAAACTTCCCCCATGAAAGC
9679087 AGCAAACGAGAAACTT
1 AGCAAACGAGAAACTT
9679103 GAGTTGGTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 23 0.52
29 21 0.48
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (29 bp):
AGCAAACGAGAAACTTCCCCCATGAAAGC
Found at i:9680038 original size:31 final size:31
Alignment explanation
Indices: 9679967--9680044 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
9679957 CTTTTAAAAC
** * *
9679967 TTGCAATATAATCCCCCAACATTTAGTCCGT
1 TTGCAATATGGTCCCTCAACATTTAGTCAGT
9679998 TTGCAATATGGTCCCTCAACATTTAGTCAGT
1 TTGCAATATGGTCCCTCAACATTTAGTCAGT
9680029 TTGCAATATGGTCCCT
1 TTGCAATATGGTCCCT
9680045 GACTAACTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.35
Consensus pattern (31 bp):
TTGCAATATGGTCCCTCAACATTTAGTCAGT
Found at i:9681148 original size:14 final size:14
Alignment explanation
Indices: 9681129--9681156 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9681119 TCCGCAGTAT
9681129 CCGCAACCGCGACA
1 CCGCAACCGCGACA
9681143 CCGCAACCGCGACA
1 CCGCAACCGCGACA
9681157 GATGCCGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.50, G:0.21, T:0.00
Consensus pattern (14 bp):
CCGCAACCGCGACA
Found at i:9681904 original size:31 final size:31
Alignment explanation
Indices: 9681864--9681930 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
9681854 TCCAATATAA
**
9681864 TCCCCCAACATTTAGTCTGTTTGCAATATGG
1 TCCCCCAACATTTAGTCCATTTGCAATATGG
*
9681895 TCCCTCAACATTTAGTCCATTTGCAATATGG
1 TCCCCCAACATTTAGTCCATTTGCAATATGG
9681926 TCCCC
1 TCCCC
9681931 GACGTAACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.34
Consensus pattern (31 bp):
TCCCCCAACATTTAGTCCATTTGCAATATGG
Found at i:9682390 original size:28 final size:29
Alignment explanation
Indices: 9682333--9682405 Score: 139
Period size: 28 Copynumber: 2.6 Consensus size: 29
9682323 AAAAGTCGAA
9682333 AGCAAACGAGAAACTTCCCCCATGAAAGC
1 AGCAAACGAGAAACTTCCCCCATGAAAGC
9682362 AGCAAACGAGAAACTTCCCCC-TGAAAGC
1 AGCAAACGAGAAACTTCCCCCATGAAAGC
9682390 AGCAAACGAGAAACTT
1 AGCAAACGAGAAACTT
9682406 GAGTTGGTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 23 0.52
29 21 0.48
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (29 bp):
AGCAAACGAGAAACTTCCCCCATGAAAGC
Found at i:9683341 original size:31 final size:31
Alignment explanation
Indices: 9683270--9683347 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
9683260 CTTTTAAAAC
** * *
9683270 TTGCAATATAATCCCCCAACATTTAGTCCGT
1 TTGCAATATGGTCCCTCAACATTTAGTCAGT
9683301 TTGCAATATGGTCCCTCAACATTTAGTCAGT
1 TTGCAATATGGTCCCTCAACATTTAGTCAGT
9683332 TTGCAATATGGTCCCT
1 TTGCAATATGGTCCCT
9683348 GACTAACTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.35
Consensus pattern (31 bp):
TTGCAATATGGTCCCTCAACATTTAGTCAGT
Found at i:9683392 original size:31 final size:31
Alignment explanation
Indices: 9683348--9683406 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
9683338 TATGGTCCCT
*
9683348 GACTAACTATTGGGGGACTATATTGCAAACA
1 GACTAAATATTGGGGGACTATATTGCAAACA
* *
9683379 GACTAAATGTTGGGGGACTGTATTGCAA
1 GACTAAATATTGGGGGACTATATTGCAA
9683407 GTTTTAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (31 bp):
GACTAAATATTGGGGGACTATATTGCAAACA
Found at i:9684449 original size:14 final size:14
Alignment explanation
Indices: 9684430--9684457 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9684420 TCCGCAGTAT
9684430 CCGCAACCGCGACA
1 CCGCAACCGCGACA
9684444 CCGCAACCGCGACA
1 CCGCAACCGCGACA
9684458 GATGCCGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.50, G:0.21, T:0.00
Consensus pattern (14 bp):
CCGCAACCGCGACA
Found at i:9685203 original size:31 final size:31
Alignment explanation
Indices: 9685163--9685229 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
9685153 TCCAATATAA
**
9685163 TCCCCCAACATTTAGTCTGTTTGCAATATGG
1 TCCCCCAACATTTAGTCCATTTGCAATATGG
*
9685194 TCCCTCAACATTTAGTCCATTTGCAATATGG
1 TCCCCCAACATTTAGTCCATTTGCAATATGG
9685225 TCCCC
1 TCCCC
9685230 GACGTAACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.34
Consensus pattern (31 bp):
TCCCCCAACATTTAGTCCATTTGCAATATGG
Found at i:9685693 original size:28 final size:29
Alignment explanation
Indices: 9685636--9685708 Score: 139
Period size: 28 Copynumber: 2.6 Consensus size: 29
9685626 AAAAGTCGAA
9685636 AGCAAACGAGAAACTTCCCCCATGAAAGC
1 AGCAAACGAGAAACTTCCCCCATGAAAGC
9685665 AGCAAACGAGAAACTTCCCCC-TGAAAGC
1 AGCAAACGAGAAACTTCCCCCATGAAAGC
9685693 AGCAAACGAGAAACTT
1 AGCAAACGAGAAACTT
9685709 GAGTTGGTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 23 0.52
29 21 0.48
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (29 bp):
AGCAAACGAGAAACTTCCCCCATGAAAGC
Found at i:9686642 original size:31 final size:31
Alignment explanation
Indices: 9686571--9686648 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
9686561 CTTTTAAAAC
** * *
9686571 TTGCAATATAATCCCCCAACATTTAGTCCGT
1 TTGCAATATGGTCCCTCAACATTTAGTCAGT
9686602 TTGCAATATGGTCCCTCAACATTTAGTCAGT
1 TTGCAATATGGTCCCTCAACATTTAGTCAGT
9686633 TTGCAATATGGTCCCT
1 TTGCAATATGGTCCCT
9686649 GACTAACTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.35
Consensus pattern (31 bp):
TTGCAATATGGTCCCTCAACATTTAGTCAGT
Found at i:9686693 original size:31 final size:31
Alignment explanation
Indices: 9686649--9686707 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
9686639 TATGGTCCCT
*
9686649 GACTAACTATTGGGGGACTATATTGCAAACA
1 GACTAAATATTGGGGGACTATATTGCAAACA
* *
9686680 GACTAAATGTTGGGGGACTGTATTGCAA
1 GACTAAATATTGGGGGACTATATTGCAA
9686708 GTTTTAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (31 bp):
GACTAAATATTGGGGGACTATATTGCAAACA
Found at i:9688528 original size:31 final size:31
Alignment explanation
Indices: 9688457--9688534 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
9688447 CTTTTAAAAC
**
9688457 TTGCAATATAATCCCCCAACATTTAGTCCGT
1 TTGCAATATGGTCCCCCAACATTTAGTCCGT
*
9688488 TTGCAATATGGTCCCTCAACATTTAGTCCGT
1 TTGCAATATGGTCCCCCAACATTTAGTCCGT
9688519 TTGCAATATGGTCCCC
1 TTGCAATATGGTCCCC
9688535 GACGTAACTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.33
Consensus pattern (31 bp):
TTGCAATATGGTCCCCCAACATTTAGTCCGT
Found at i:9688995 original size:28 final size:29
Alignment explanation
Indices: 9688938--9689010 Score: 139
Period size: 28 Copynumber: 2.6 Consensus size: 29
9688928 AAAAGCCGAA
9688938 AGCAAACGAGAAACTTCCCCCCTGAAAGC
1 AGCAAACGAGAAACTTCCCCCCTGAAAGC
9688967 AGCAAACGAGAAACTT-CCCCCTGAAAGC
1 AGCAAACGAGAAACTTCCCCCCTGAAAGC
9688995 AGCAAACGAGAAACTT
1 AGCAAACGAGAAACTT
9689011 GAGTTGGTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 28 0.64
29 16 0.36
ACGTcount: A:0.41, C:0.30, G:0.18, T:0.11
Consensus pattern (29 bp):
AGCAAACGAGAAACTTCCCCCCTGAAAGC
Found at i:9689914 original size:32 final size:31
Alignment explanation
Indices: 9689875--9689946 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
9689865 CTTTTAAAAC
9689875 TTGCAATATAATCCCCCCAACATTTAGTTC-GT
1 TTGCAATATAAT-CCCCCAACATTTAG-TCAGT
** *
9689907 TTGCAATATGGTCCCTCAACATTTAGTCAGT
1 TTGCAATATAATCCCCCAACATTTAGTCAGT
9689938 TTGCAATAT
1 TTGCAATAT
9689947 GGTCCCTGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.06
31 24 0.67
32 10 0.28
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (31 bp):
TTGCAATATAATCCCCCAACATTTAGTCAGT
Found at i:9689930 original size:31 final size:31
Alignment explanation
Indices: 9689892--9689953 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
9689882 ATAATCCCCC
9689892 CAACATTTAGTTC-GTTTGCAATATGGTCCCT
1 CAACATTTAG-TCAGTTTGCAATATGGTCCCT
9689923 CAACATTTAGTCAGTTTGCAATATGGTCCCT
1 CAACATTTAGTCAGTTTGCAATATGGTCCCT
9689954 GACTAACTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 2 0.07
31 28 0.93
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (31 bp):
CAACATTTAGTCAGTTTGCAATATGGTCCCT
Found at i:9691053 original size:14 final size:14
Alignment explanation
Indices: 9691034--9691061 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9691024 TCCGCAGTAT
9691034 CCGCAACCGCGACA
1 CCGCAACCGCGACA
9691048 CCGCAACCGCGACA
1 CCGCAACCGCGACA
9691062 GATGCCGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.50, G:0.21, T:0.00
Consensus pattern (14 bp):
CCGCAACCGCGACA
Found at i:9691808 original size:31 final size:31
Alignment explanation
Indices: 9691768--9691834 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
9691758 GACAATATAA
9691768 TCCCCCAACATTTAG-TCTGTTTGCAATATGG
1 TCCCCCAACATTTAGTTC-GTTTGCAATATGG
*
9691799 TCCCTCAACATTTAGTTCGTTTGCAATATGG
1 TCCCCCAACATTTAGTTCGTTTGCAATATGG
9691830 TCCCC
1 TCCCC
9691835 GACGTAACTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 31 0.94
32 2 0.06
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (31 bp):
TCCCCCAACATTTAGTTCGTTTGCAATATGG
Found at i:9692271 original size:28 final size:28
Alignment explanation
Indices: 9692237--9692306 Score: 131
Period size: 28 Copynumber: 2.5 Consensus size: 28
9692227 AAAAGCCGAA
*
9692237 AGCAAACGAGAAACTTCCCCCTGAAAGC
1 AGCAAACGAGAAACTTCCCCCTAAAAGC
9692265 AGCAAACGAGAAACTTCCCCCTAAAAGC
1 AGCAAACGAGAAACTTCCCCCTAAAAGC
9692293 AGCAAACGAGAAAC
1 AGCAAACGAGAAAC
9692307 ATGAGTTGGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.44, C:0.30, G:0.17, T:0.09
Consensus pattern (28 bp):
AGCAAACGAGAAACTTCCCCCTAAAAGC
Found at i:9693243 original size:31 final size:31
Alignment explanation
Indices: 9693172--9693249 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
9693162 CTTTTAAAAC
** *
9693172 TTGCAATATAATCCCCCAACATTTAGTTCGT
1 TTGCAATATGGTCCCTCAACATTTAGTTCGT
9693203 TTGCAATATGGTCCCTCAACATTTAG-TCAGT
1 TTGCAATATGGTCCCTCAACATTTAGTTC-GT
9693234 TTGCAATATGGTCCCT
1 TTGCAATATGGTCCCT
9693250 GACTAACTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 2 0.05
31 41 0.95
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (31 bp):
TTGCAATATGGTCCCTCAACATTTAGTTCGT
Done.