Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 82 of 91
Found at i:18524156 original size:39 final size:38
Alignment explanation
Indices: 18524079--18524209 Score: 164
Period size: 39 Copynumber: 3.6 Consensus size: 38
18524069 GAAACCAAAA
*
18524079 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
18524117 TCGCGTTGCGATTTTTATTTCGCAGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * **
18524156 TCGCGTTGCGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
18524189 TCGCGTTGCGATTTTCATTTC
1 TCGCGTTGCGATTTTCATTTC
18524210 AACCAAAAGA
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
33 27 0.34
35 1 0.01
36 2 0.03
38 21 0.26
39 29 0.36
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:18526284 original size:21 final size:21
Alignment explanation
Indices: 18526260--18526326 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
18526250 TCATTCCTCG
18526260 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
18526281 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
18526302 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
18526323 AGAG
1 AGAG
18526327 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:18527695 original size:14 final size:14
Alignment explanation
Indices: 18527676--18527711 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
18527666 ATTGTTTAAT
18527676 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
18527690 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
18527704 TGATTTGT
1 TGATTTGT
18527712 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:18527937 original size:33 final size:32
Alignment explanation
Indices: 18527895--18528020 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
18527885 ATTAAATTTG
18527895 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
18527928 CGTTGCGA-TTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
18527960 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
18527993 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
18528021 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
31 3 0.04
32 25 0.30
33 53 0.63
34 3 0.04
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:18527982 original size:65 final size:66
Alignment explanation
Indices: 18527888--18528019 Score: 239
Period size: 65 Copynumber: 2.0 Consensus size: 66
18527878 ACGCGAAATT
*
18527888 AAATTTGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGA-TTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
18527952 G
66 G
*
18527953 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
18528018 G
66 G
18528019 A
1 A
18528020 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 46 0.72
66 18 0.28
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:18530129 original size:12 final size:12
Alignment explanation
Indices: 18530112--18530136 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18530102 TCTTCGGGGA
18530112 CTTTTTCTTCTT
1 CTTTTTCTTCTT
18530124 CTTTTTCTTCTT
1 CTTTTTCTTCTT
18530136 C
1 C
18530137 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:18531427 original size:20 final size:20
Alignment explanation
Indices: 18531399--18531456 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
18531389 ATTCATTTGA
18531399 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
18531419 CTATTGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
18531439 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
18531457 CGCAATGCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:18531499 original size:14 final size:14
Alignment explanation
Indices: 18531480--18531537 Score: 71
Period size: 14 Copynumber: 3.8 Consensus size: 14
18531470 GAAAATCGCA
18531480 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
18531494 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
18531511 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
18531527 TTGCGATTTTC
1 TTGCGATTTTC
18531538 ATTTCGCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 22 0.56
16 3 0.08
17 3 0.08
19 11 0.28
ACGTcount: A:0.10, C:0.21, G:0.19, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:18531499 original size:33 final size:33
Alignment explanation
Indices: 18531462--18531532 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
18531452 AAAATCGCAA
18531462 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
18531495 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
18531528 TGCGA
1 TGCGA
18531533 TTTTCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:18531516 original size:19 final size:19
Alignment explanation
Indices: 18531475--18531609 Score: 173
Period size: 19 Copynumber: 7.6 Consensus size: 19
18531465 GAAATGAAAA
18531475 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
18531491 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
18531508 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
18531524 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
18531541 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
18531560 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
18531579 TCGCATTGCGATTTCCATT
1 TCGCATTGCGATTTTCATT
* *
18531598 TTGCGTTGCGAT
1 TCGCATTGCGAT
18531610 AGTCTGTTTT
Statistics
Matches: 106, Mismatches: 3, Indels: 17
0.84 0.02 0.13
Matches are distributed among these distances:
14 22 0.21
16 6 0.06
17 6 0.06
19 72 0.68
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:18531598 original size:38 final size:36
Alignment explanation
Indices: 18531475--18531609 Score: 165
Period size: 33 Copynumber: 3.8 Consensus size: 36
18531465 GAAATGAAAA
*
18531475 TCGCATTGCGATTT--TCTCG-TTGCGATTTTCATT
1 TCGCATTGCGATTTCATTTCGCTTGCGATTTTCATT
*
18531508 TCGCATTGCGATTT--TCTCG-TTGCGATTTTCATT
1 TCGCATTGCGATTTCATTTCGCTTGCGATTTTCATT
18531541 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATTTCGC-TTGCGATTTTCATT
*
18531579 TCGCATTGCGATTTCCATTTTGCGTTGCGAT
1 TCGCATTGCGATTT-CATTTCGC-TTGCGAT
18531610 AGTCTGTTTT
Statistics
Matches: 93, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
33 44 0.47
34 3 0.03
36 4 0.04
37 3 0.03
38 39 0.42
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (36 bp):
TCGCATTGCGATTTCATTTCGCTTGCGATTTTCATT
Found at i:18531602 original size:33 final size:33
Alignment explanation
Indices: 18531475--18531592 Score: 191
Period size: 33 Copynumber: 3.4 Consensus size: 33
18531465 GAAATGAAAA
18531475 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
18531508 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
18531541 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTC---TCG--TTGCGATTTTCATT
18531579 TCGCATTGCGATTT
1 TCGCATTGCGATTT
18531593 CCATTTTGCG
Statistics
Matches: 80, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
33 49 0.61
36 3 0.04
38 28 0.35
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
Found at i:18531602 original size:52 final size:49
Alignment explanation
Indices: 18531475--18531602 Score: 136
Period size: 52 Copynumber: 2.5 Consensus size: 49
18531465 GAAATGAAAA
*
18531475 TCGCATTGCGATTTTC-TCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 TCGCATTGCGATTTTCAT-TTTGCGATTTTCATTTCGCATTGCGATTTTC
18531524 TCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 TCGCATTGCGATTTTCA-TT----TTGCGATTTTCATTTCGCATTGCGATTTTC
*
18531576 ATTTCGCATTGCGATTTCCATTTTGCG
1 ---TCGCATTGCGATTTTCATTTTGCG
18531603 TTGCGATAGT
Statistics
Matches: 66, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
47 11 0.17
49 4 0.06
52 35 0.53
55 3 0.05
56 2 0.03
57 11 0.17
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (49 bp):
TCGCATTGCGATTTTCATTTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:18533626 original size:20 final size:19
Alignment explanation
Indices: 18533591--18533657 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
18533581 GAAACTTAAA
18533591 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
18533610 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
18533630 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
18533649 ATCGCAACG
1 ATCGCAACG
18533658 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:18533665 original size:14 final size:14
Alignment explanation
Indices: 18533646--18533703 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
18533636 ATGCGAAATG
18533646 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
18533660 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
18533676 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
18533692 AAAATCGCAACG
1 AAAATCGCAACG
18533704 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:18533688 original size:32 final size:33
Alignment explanation
Indices: 18533630--18533708 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
18533620 GGAAATGGCT
*
18533630 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
18533663 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
18533695 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
18533709 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:18533737 original size:19 final size:17
Alignment explanation
Indices: 18533715--18533810 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 17
18533705 GAAACACAAA
18533715 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
18533734 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
18533750 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
18533766 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
18533782 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
18533799 TCGCATTGCGAT
1 TCGC-TTGCGAT
18533811 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 4 0.06
18 13 0.21
19 16 0.25
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:18533756 original size:14 final size:14
Alignment explanation
Indices: 18533737--18533794 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
18533727 TTTCATTTCG
18533737 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
18533751 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
18533767 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
18533783 CGTTGCGATTTT
1 CGTTGCGATTTT
18533795 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:18533801 original size:33 final size:33
Alignment explanation
Indices: 18533720--18533810 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
18533710 ACAAATCGCA
18533720 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
18533753 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
18533785 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
18533811 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:18533829 original size:20 final size:19
Alignment explanation
Indices: 18533795--18533848 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
18533785 TTGCGATTTT
*
18533795 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
18533814 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
18533834 CATTTCGTGTTGCGA
1 CATTTCGCGTTGCGA
18533849 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:18533847 original size:19 final size:19
Alignment explanation
Indices: 18533783--18533848 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
18533773 GCGATTTTGT
**
18533783 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
18533802 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
18533822 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
18533841 TGTTGCGA
1 CGTTGCGA
18533849 AAGTAAACTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 22 0.56
20 17 0.44
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:18534347 original size:18 final size:18
Alignment explanation
Indices: 18534321--18534365 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
18534311 GTCGATCAGA
* *
18534321 TGATGGCTCTGGGTGGGG
1 TGATGGCTCTGGGCGAGG
*
18534339 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
18534357 TGATGGCTC
1 TGATGGCTC
18534366 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.47, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:18535646 original size:14 final size:14
Alignment explanation
Indices: 18535627--18535663 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
18535617 GAAAATGACT
18535627 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
18535641 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
18535655 ATCGCAACG
1 ATCGCAACG
18535664 CAAAACTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.24, G:0.27, T:0.08
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:18535937 original size:22 final size:22
Alignment explanation
Indices: 18535912--18535955 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
18535902 GATTTAGATA
18535912 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
18535934 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
18535956 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:18536236 original size:20 final size:20
Alignment explanation
Indices: 18536123--18536236 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
18536113 CGCTTTGAAA
18536123 ATCGCATTGCGATTATGTAA--
1 ATCGCATTGCGA-TA-GTAAGT
* * *
18536143 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* *
18536163 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTAAGT
* * * *
18536183 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTAAGT
18536204 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
18536224 ATCGCATTGCGAT
1 ATCGCATTGCGAT
18536237 TTTCCCAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 56 0.73
21 12 0.16
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:18536254 original size:21 final size:21
Alignment explanation
Indices: 18536225--18536317 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
18536215 ATAGTAAGTA
18536225 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
18536246 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
18536266 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
18536287 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
18536307 TCGCATTGCGA
1 TCGCATTGCGA
18536318 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:18536255 original size:41 final size:41
Alignment explanation
Indices: 18536164--18536298 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
18536154 AAAGTCAGTA
* * * ** *
18536164 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
18536204 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
18536246 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
18536287 TCGCGTTGCGAT
1 TCGCGTTGCGAT
18536299 TTACTTATTC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 4 0.05
41 75 0.93
42 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:18536299 original size:41 final size:41
Alignment explanation
Indices: 18536225--18536317 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
18536215 ATAGTAAGTA
18536225 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
18536266 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
18536307 TCGCATTGCGA
1 TCGCATTGCGA
18536318 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:18537648 original size:16 final size:16
Alignment explanation
Indices: 18537608--18537649 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
18537598 CTTTTTGAGA
*
18537608 ATATATTAATAAAAAG
1 ATATAATAATAAAAAG
18537624 ATATAAATAATAAAAAG
1 ATAT-AATAATAAAAAG
18537641 ATATAATAA
1 ATATAATAA
18537650 ATAACATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (16 bp):
ATATAATAATAAAAAG
Found at i:18551144 original size:21 final size:21
Alignment explanation
Indices: 18551120--18551161 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
18551110 AGTTTATTTT
18551120 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
18551141 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
18551162 AACTTGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:18551209 original size:33 final size:33
Alignment explanation
Indices: 18551156--18551254 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
18551146 TTTGTTTCAA
*
18551156 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCAAACTTGGAAGTTTTTAAGTATTTGAAT
18551188 TTATCAAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCAAACTTGGAAGTTTTTAAGTATTTGAAT
* *
18551221 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCAAACTTGGAAGTTTTTAAGTATTTGAAT
18551254 T
1 T
18551255 ATCGTAAACT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 10 0.16
33 53 0.84
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (33 bp):
TTATCAAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:18551471 original size:15 final size:17
Alignment explanation
Indices: 18551445--18551476 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18551435 TTCTATGGGA
18551445 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
18551461 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
18551477 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:18553626 original size:13 final size:13
Alignment explanation
Indices: 18553608--18553678 Score: 79
Period size: 13 Copynumber: 5.5 Consensus size: 13
18553598 GTCATAAATC
18553608 TATGACGCGCATT
1 TATGACGCGCATT
*
18553621 TATGACACGCATT
1 TATGACGCGCATT
** *
18553634 TATGAAACACATT
1 TATGACGCGCATT
* *
18553647 TACGACGCTCATT
1 TATGACGCGCATT
*
18553660 TATGACGCTCATT
1 TATGACGCGCATT
18553673 TATGAC
1 TATGAC
18553679 ACGTAATGCG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:18553847 original size:2 final size:2
Alignment explanation
Indices: 18553840--18553872 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
18553830 TTTCTTAAAT
18553840 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18553873 GATTGACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18557636 original size:16 final size:16
Alignment explanation
Indices: 18557615--18557647 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18557605 TAATAAATAA
*
18557615 ACGAACATAAACGAAC
1 ACGAACATAAACAAAC
18557631 ACGAACATAAACAAAC
1 ACGAACATAAACAAAC
18557647 A
1 A
18557648 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.24, G:0.09, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACAAAC
Found at i:18557728 original size:10 final size:10
Alignment explanation
Indices: 18557713--18557787 Score: 63
Period size: 10 Copynumber: 7.7 Consensus size: 10
18557703 CATTTAATAA
18557713 ATAAACGAAC
1 ATAAACGAAC
18557723 ATAAACGAAC
1 ATAAACGAAC
18557733 ----ACGAAC
1 ATAAACGAAC
18557739 ATAAACGAAC
1 ATAAACGAAC
*
18557749 A-AGAAC-ATAA
1 ATA-AACGA-AC
18557759 ATGAACACGAAC
1 AT-AA-ACGAAC
18557771 ATAAACGAAC
1 ATAAACGAAC
18557781 ATAAACG
1 ATAAACG
18557788 TTGGAGACCC
Statistics
Matches: 53, Mismatches: 2, Indels: 20
0.71 0.03 0.27
Matches are distributed among these distances:
6 6 0.11
9 2 0.04
10 35 0.66
11 3 0.06
12 6 0.11
13 1 0.02
ACGTcount: A:0.59, C:0.20, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:18557738 original size:16 final size:16
Alignment explanation
Indices: 18557717--18557781 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
18557707 TAATAAATAA
18557717 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
18557733 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
18557749 AAGAACATAAATGAAC
1 ACGAACATAAACGAAC
18557765 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
18557781 A
1 A
18557782 TAAACGTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.58, C:0.22, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:18558549 original size:14 final size:14
Alignment explanation
Indices: 18558532--18558587 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
18558522 AATGAACATA
*
18558532 AACGAACATAATCG
1 AACGAACATAACCG
18558546 AACGAACAT-A---
1 AACGAACATAACCG
*
18558556 AACGAACATAACCA
1 AACGAACATAACCG
18558570 AACGAACATAACCG
1 AACGAACATAACCG
18558584 AACG
1 AACG
18558588 TTCACGAACG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 26 0.70
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:18558552 original size:24 final size:24
Alignment explanation
Indices: 18558512--18558586 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
18558502 GATTGTGTTA
*
18558512 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
18558536 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
* * *
18558560 AACATAACCAAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
18558584 AAC
1 AAC
18558587 GTTCACGAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 3 0.07
24 43 0.93
ACGTcount: A:0.56, C:0.21, G:0.11, T:0.12
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:18561290 original size:2 final size:2
Alignment explanation
Indices: 18561283--18561330 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
18561273 TGTGTATTTA
18561283 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18561325 AT AT AT
1 AT AT AT
18561331 GTGAGTAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18570434 original size:13 final size:13
Alignment explanation
Indices: 18570416--18570449 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
18570406 GCACAAGATG
18570416 TAATAA-AACTAAT
1 TAATAATAA-TAAT
18570429 TAATAATAATAAT
1 TAATAATAATAAT
18570442 TAATAATA
1 TAATAATA
18570450 TTTTTTAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 18 0.90
14 2 0.10
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (13 bp):
TAATAATAATAAT
Found at i:18571313 original size:59 final size:59
Alignment explanation
Indices: 18571189--18571313 Score: 151
Period size: 59 Copynumber: 2.1 Consensus size: 59
18571179 TATTTGGATG
* * ** * *
18571189 AATTTGAGGATGAAATTGGAAGGTTCAAAAGTTTGGGGACCAATTAAAAAGAAGGTCAT
1 AATTTGAGGATCAAATTGGAAGATTCAAAAGTTTAAGGACCAATTAAAAAGAAGATAAT
* * * *
18571248 AATTTGAGGATCAAATTGGAATATTCAAAAGTTTAAGGACTAATTTAAAATAAGATAAT
1 AATTTGAGGATCAAATTGGAAGATTCAAAAGTTTAAGGACCAATTAAAAAGAAGATAAT
*
18571307 AGTTTGA
1 AATTTGA
18571314 AGACATTTGA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.30
Consensus pattern (59 bp):
AATTTGAGGATCAAATTGGAAGATTCAAAAGTTTAAGGACCAATTAAAAAGAAGATAAT
Found at i:18572222 original size:24 final size:25
Alignment explanation
Indices: 18572163--18572222 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
18572153 TTATAGATCA
* *
18572163 CTTTCTTAATTTCATCTTTTTCATT
1 CTTTCTTAATGTCATATTTTTCATT
*
18572188 -TTAT-TTTATGTCATATTTTTC-TT
1 CTT-TCTTAATGTCATATTTTTCATT
18572211 CTTTCTTAATGT
1 CTTTCTTAATGT
18572223 AGACCTCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
23 3 0.11
24 24 0.86
25 1 0.04
ACGTcount: A:0.17, C:0.15, G:0.03, T:0.65
Consensus pattern (25 bp):
CTTTCTTAATGTCATATTTTTCATT
Found at i:18575902 original size:14 final size:14
Alignment explanation
Indices: 18575885--18575911 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18575875 TGATACTGTC
18575885 GGTAGGCTTGATTG
1 GGTAGGCTTGATTG
18575899 GGTAGGCTTGATT
1 GGTAGGCTTGATT
18575912 TTCCACAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.41, T:0.37
Consensus pattern (14 bp):
GGTAGGCTTGATTG
Found at i:18577528 original size:16 final size:16
Alignment explanation
Indices: 18577504--18577548 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
18577494 AATTTAAACT
*
18577504 TAAATATAAAATTCGA
1 TAAAAATAAAATTCGA
18577520 TAAAAATAAAA-TCGA
1 TAAAAATAAAATTCGA
*
18577535 TATAAAATTAAATT
1 TA-AAAATAAAATT
18577549 GTACTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 18 0.72
17 1 0.04
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (16 bp):
TAAAAATAAAATTCGA
Found at i:18582147 original size:13 final size:13
Alignment explanation
Indices: 18582129--18582178 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
18582119 TGTGCGTCAT
18582129 AAATTTATGACAC
1 AAATTTATGACAC
*
18582142 AAATTTATGACGC
1 AAATTTATGACAC
** *
18582155 GGATTTATGGCAC
1 AAATTTATGACAC
*
18582168 ACATTTATGAC
1 AAATTTATGAC
18582179 GCGCATTTAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
AAATTTATGACAC
Found at i:18582198 original size:13 final size:13
Alignment explanation
Indices: 18582144--18582192 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
18582134 TATGACACAA
*
18582144 ATTTATGACGCGG
1 ATTTATGACGCGC
* * *
18582157 ATTTATGGCACAC
1 ATTTATGACGCGC
18582170 ATTTATGACGCGC
1 ATTTATGACGCGC
18582183 ATTTATGACG
1 ATTTATGACG
18582193 TTCATTGAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:18582198 original size:26 final size:26
Alignment explanation
Indices: 18582131--18582191 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
18582121 TGCGTCATAA
* *
18582131 ATTTATGACACAAATTTATGACGCGG
1 ATTTATGACACACATTTATGACGCGC
*
18582157 ATTTATGGCACACATTTATGACGCGC
1 ATTTATGACACACATTTATGACGCGC
18582183 ATTTATGAC
1 ATTTATGAC
18582192 GTTCATTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (26 bp):
ATTTATGACACACATTTATGACGCGC
Found at i:18582429 original size:2 final size:2
Alignment explanation
Indices: 18582422--18582456 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
18582412 ATAATACTAA
18582422 AT AT AT AT AT AT AT AT AT AT AT CAT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT A
18582457 AGCAATCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 28 0.90
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18592274 original size:21 final size:21
Alignment explanation
Indices: 18592250--18592295 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
18592240 AGTGTGGCTT
18592250 AATTGGATTAGGATTGAGCCA
1 AATTGGATTAGGATTGAGCCA
18592271 AATTGGATTAGGATTGAGCCA
1 AATTGGATTAGGATTGAGCCA
18592292 AATT
1 AATT
18592296 AACCATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (21 bp):
AATTGGATTAGGATTGAGCCA
Found at i:18595532 original size:24 final size:24
Alignment explanation
Indices: 18595500--18595545 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
18595490 ACTAGGTAGG
* *
18595500 AAAATTATTTGTGTAGAGGATCGA
1 AAAAGTATTCGTGTAGAGGATCGA
18595524 AAAAGTATTCGTGTAGAGGATC
1 AAAAGTATTCGTGTAGAGGATC
18595546 CGAGCGTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (24 bp):
AAAAGTATTCGTGTAGAGGATCGA
Found at i:18602451 original size:22 final size:22
Alignment explanation
Indices: 18602423--18602467 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
18602413 TTTGATGAGC
18602423 CATCCTTTCTTTCGAATCTGCT
1 CATCCTTTCTTTCGAATCTGCT
18602445 CATCCTTTCTTTCGAATCTGCT
1 CATCCTTTCTTTCGAATCTGCT
18602467 C
1 C
18602468 GTGAATGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.33, G:0.09, T:0.44
Consensus pattern (22 bp):
CATCCTTTCTTTCGAATCTGCT
Found at i:18606387 original size:15 final size:15
Alignment explanation
Indices: 18606364--18606398 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
18606354 TAAATGATTC
*
18606364 TGCATAAACAAATTA
1 TGCACAAACAAATTA
18606379 TGCACAAACAAATTA
1 TGCACAAACAAATTA
18606394 TGCAC
1 TGCAC
18606399 TAACTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.23
Consensus pattern (15 bp):
TGCACAAACAAATTA
Found at i:18607604 original size:54 final size:54
Alignment explanation
Indices: 18607530--18607926 Score: 573
Period size: 54 Copynumber: 7.4 Consensus size: 54
18607520 TTCTTTGAGA
* * * ** * *
18607530 TGCATACTTAGTGCCTATACGGTCATCCAAAAACATATTATGAATTCCGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGT
* * *
18607584 TGCACATTTCGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCATGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGT
18607638 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAA-TTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTC-GTGGGT
* * *
18607692 TGCACACTTAGTTCCTATCCGGTCGTTCATCAACACATGATGAATTTCGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGT
* * *
18607746 TGCACACTTAGTGCCTATACGGTCGTTCATCAATATATGATGAATTTTGTGGAT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGT
* * *
18607800 TTCACACTTAGTGCCTATACTGTCGTTCATCAACATAT-ATTGAATTTCATGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGA-TGAATTTCGTGGGT
* *
18607854 TGAACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGT
18607908 TGCACACTTAGTGCCTATA
1 TGCACACTTAGTGCCTATA
18607927 GTACACATAG
Statistics
Matches: 305, Mismatches: 34, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
53 4 0.01
54 297 0.97
55 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (54 bp):
TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGT
Found at i:18616089 original size:54 final size:54
Alignment explanation
Indices: 18616028--18616420 Score: 520
Period size: 54 Copynumber: 7.3 Consensus size: 54
18616018 TTTCATTGAG
* * * * * *
18616028 ACACTTAGTGCCTATACGATCGTCCATAAACACATTATGAATTTCGTGGGTTGT
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTGC
* *
18616082 ATACTTAGTGCCTATACGGTCGTTCATCAAAATATGATGAATTAT-GTGGGTTGC
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATT-TCGTGGGTTGC
* ** *
18616136 ACACTTA-TGCCTATATGGTCGTTCATCAACATATGATGAATTTTATGGATTGC
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTGC
*
18616189 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTTGTGGGTTGC
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTGC
* * * ** * * *
18616243 ACACTTAGTGCCTATATGGCCATTCATCAACGCATGATAAATTCCATGGGTTGC
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTGC
* * *
18616297 ACACTTAATGCCTATACGATCGTCCATCAACATATGATGAATTTCGTGGGTTGC
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTGC
* * *
18616351 ACACTTAGTGCCTATACGATCGTTCATCAACATATGATGAATTTTGTGGGTTGT
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTGC
18616405 ACACTTAGTGCCTATA
1 ACACTTAGTGCCTATA
18616421 GTACACATAG
Statistics
Matches: 296, Mismatches: 40, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
52 1 0.00
53 47 0.16
54 247 0.83
55 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (54 bp):
ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTGC
Found at i:18620822 original size:20 final size:22
Alignment explanation
Indices: 18620789--18620839 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
18620779 AAAATTCAAG
18620789 AAAAAAAGATAACT-ATTAAAT
1 AAAAAAAGATAACTAATTAAAT
*
18620810 AAAAAGAGA-AACTAAATTAAAT
1 AAAAAAAGATAACT-AATTAAAT
18620832 AAATAAAA
1 AAA-AAAA
18620840 ACTAAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 4 0.16
21 8 0.32
22 10 0.40
23 3 0.12
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.20
Consensus pattern (22 bp):
AAAAAAAGATAACTAATTAAAT
Found at i:18623055 original size:54 final size:54
Alignment explanation
Indices: 18622997--18623556 Score: 550
Period size: 54 Copynumber: 10.5 Consensus size: 54
18622987 AGTGCACATG
* * * * * * *
18622997 TAGTGCCGATAAGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGAACACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGAACACT
* * * * * * * *
18623051 TAGTGTCTATATGGTTATTCATCAACATATGATGTATTCTATCGGTTGGACAAT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGAACACT
* * * * *
18623105 TAGTGCCTATATGGTTGTTCATCAATATATGATGAATTATGTTGGTTGCACACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGAACACT
* * * * *
18623159 TAGTGCCTATTCAGTTTTTCATCAACAAATGATGAATTCTGTGGGTTGCACACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGAACACT
*
18623213 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTATGGGTTGAACACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGAACACT
* * *
18623267 TAGTGCCTATACGGTTTTTCATCAACATATGATGAATTATGTGGGTTGAACAAT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGAACACT
* * * * *
18623321 TAGTTCCTATACGGTCGTCCATCAACATATGATGAATTAC-GTGGGTTGTACAAT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATT-CTGTGGGTTGAACACT
* * *
18623375 TAGTGCCTATACGGTCGTTCATCAACATATGATAAATTTTGTGGGTTG--CAC-
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGAACACT
* * * * * *
18623426 -A-----AATACGGTCGTTCATTAACATATGATGAATT-TCATGGGTTGCACAAT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCT-GTGGGTTGAACACT
* * * * * *
18623474 TAGTGCATACACGGTCGTTCATCAATATATGATGAATT-TCGTGGTTTGCACACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCT-GTGGGTTGAACACT
* *
18623528 TAGTGCCTATACAGTCGTTCATCAACATA
1 TAGTGCCTATACGGTTGTTCATCAACATA
18623557 CATCTATAAC
Statistics
Matches: 426, Mismatches: 68, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
44 1 0.00
45 35 0.08
47 2 0.00
49 1 0.00
50 1 0.00
52 2 0.00
54 384 0.90
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (54 bp):
TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGAACACT
Found at i:18623272 original size:162 final size:160
Alignment explanation
Indices: 18622989--18623556 Score: 611
Period size: 162 Copynumber: 3.6 Consensus size: 160
18622979 TTCTCTAAAG
* * * * * * *
18622989 TGCAC-ATGTAGTGCCGATAAGGTCGTTCATAAACACATTATGAATTCCGTGGGTTGAACACTTA
1 TGCACAAT-TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTA
* * ** * * * *
18623053 GTGTCTATATGGTTATTCATCAACATATGATGTATTCTATCGGTTGGACAATTAGTGCCTATATG
65 GTGCCTATACGGTCGTTCATCAACATATGATGAATTCTATGGGTT-GACACTTAGTGCCTATACG
*
18623118 GTTGTTCATCAATATATGATGAATTATGTTGGT
129 GTTGTTCATCAACATATGATGAATTATG-TGGT
* * * ** *
18623151 TGCACACTTAGTGCCTATTCAGTTTTTCATCAACAAATGATGAATTCTGTGGGTTGCACACTTAG
1 TGCACAATTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAG
*
18623216 TGCCTATACGGTTGTTCATCAACATATGATGAATTCTATGGGTTGAACACTTAGTGCCTATACGG
66 TGCCTATACGGTCGTTCATCAACATATGATGAATTCTATGGGTTG-ACACTTAGTGCCTATACGG
*
18623281 TTTTTCATCAACATATGATGAATTATGTGGGT
130 TTGTTCATCAACATATGATGAATTATGT-GGT
* * * * *
18623313 TGAACAATTAGTTCCTATACGGTCGTCCATCAACATATGATGAATTAC-GTGGGTTGTACAATTA
1 TGCACAATTAGTGCCTATACGGTCGTTCATCAACATATGATGAATT-CTGTGGGTTGCACACTTA
* * * *
18623377 GTGCCTATACGGTCGTTCATCAACATATGATAAATTTTGTGGGTTG-CAC--A-----AATACGG
65 GTGCCTATACGGTCGTTCATCAACATATGATGAATTCTATGGGTTGACACTTAGTGCCTATACGG
* *
18623434 TCGTTCATTAACATATGATGAATTTCATG-GGT
130 TTGTTCATCAACATATGATGAA-TT-ATGTGGT
* * * *
18623466 TGCACAATTAGTGCATACACGGTCGTTCATCAATATATGATGAATT-TCGTGGTTTGCACACTTA
1 TGCACAATTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCT-GTGGGTTGCACACTTA
*
18623530 GTGCCTATACAGTCGTTCATCAACATA
65 GTGCCTATACGGTCGTTCATCAACATA
18623557 CATCTATAAC
Statistics
Matches: 348, Mismatches: 50, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
153 107 0.31
154 2 0.01
155 3 0.01
158 1 0.00
160 3 0.01
161 2 0.01
162 228 0.66
163 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (160 bp):
TGCACAATTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAG
TGCCTATACGGTCGTTCATCAACATATGATGAATTCTATGGGTTGACACTTAGTGCCTATACGGT
TGTTCATCAACATATGATGAATTATGTGGT
Found at i:18623447 original size:45 final size:45
Alignment explanation
Indices: 18623383--18623472 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
18623373 ATTAGTGCCT
**
18623383 ATACGGTCGTTCATCAACATATGATAAATTTTGTGGGTTGCACAA
1 ATACGGTCGTTCATCAACATATGATAAATTTCATGGGTTGCACAA
* *
18623428 ATACGGTCGTTCATTAACATATGATGAATTTCATGGGTTGCACAA
1 ATACGGTCGTTCATCAACATATGATAAATTTCATGGGTTGCACAA
18623473 TTAGTGCATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (45 bp):
ATACGGTCGTTCATCAACATATGATAAATTTCATGGGTTGCACAA
Found at i:18623504 original size:99 final size:99
Alignment explanation
Indices: 18623329--18623525 Score: 295
Period size: 99 Copynumber: 2.0 Consensus size: 99
18623319 ATTAGTTCCT
* * * *
18623329 ATACGGTCGTCCATCAACATATGATGAATTACGTGGGTTGTACAATTAGTGCCTATACGGTCGTT
1 ATACGGTCGTCCATCAACATATGATGAATTACATGGGTTGCACAATTAGTGCATACACGGTCGTT
*
18623394 CATCAACATATGATAAATTTTGTGGGTTGCACAA
66 CATCAACATATGATAAATTTCGTGGGTTGCACAA
* * *
18623428 ATACGGTCGTTCATTAACATATGATGAATTTCATGGGTTGCACAATTAGTGCATACACGGTCGTT
1 ATACGGTCGTCCATCAACATATGATGAATTACATGGGTTGCACAATTAGTGCATACACGGTCGTT
* * *
18623493 CATCAATATATGATGAATTTCGTGGTTTGCACA
66 CATCAACATATGATAAATTTCGTGGGTTGCACA
18623526 CTTAGTGCCT
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
99 87 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (99 bp):
ATACGGTCGTCCATCAACATATGATGAATTACATGGGTTGCACAATTAGTGCATACACGGTCGTT
CATCAACATATGATAAATTTCGTGGGTTGCACAA
Found at i:18623553 original size:153 final size:153
Alignment explanation
Indices: 18623275--18623556 Score: 413
Period size: 153 Copynumber: 1.8 Consensus size: 153
18623265 CTTAGTGCCT
** * * * *
18623275 ATACGGTTTTTCATCAACATATGATGAATTATGTGGGTTGAACAATTAGTTCCTATACGGTCGTC
1 ATACGGTCGTTCATCAACATATGATGAATTATATGGGTTGAACAATTAGTGCATACACGGTCGTC
* *
18623340 CATCAACATATGATGAATTACGTGGGTTGTACAATTAGTGCCTATACGGTCGTTCATCAACATAT
66 CATCAACATATGATGAATTACGTGGGTTGCACAATTAGTGCCTATACAGTCGTTCATCAACATAT
18623405 GATAAATTTTGTGGGTTGCACAA
131 GATAAATTTTGTGGGTTGCACAA
* *
18623428 ATACGGTCGTTCATTAACATATGATGAATT-TCATGGGTTGCACAATTAGTGCATACACGGTCGT
1 ATACGGTCGTTCATCAACATATGATGAATTAT-ATGGGTTGAACAATTAGTGCATACACGGTCGT
* * * * *
18623492 TCATCAATATATGATGAATTTCGTGGTTTGCACACTTAGTGCCTATACAGTCGTTCATCAACATA
65 CCATCAACATATGATGAATTACGTGGGTTGCACAATTAGTGCCTATACAGTCGTTCATCAACATA
18623557 CATCTATAAC
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
152 1 0.01
153 112 0.99
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (153 bp):
ATACGGTCGTTCATCAACATATGATGAATTATATGGGTTGAACAATTAGTGCATACACGGTCGTC
CATCAACATATGATGAATTACGTGGGTTGCACAATTAGTGCCTATACAGTCGTTCATCAACATAT
GATAAATTTTGTGGGTTGCACAA
Found at i:18623857 original size:20 final size:22
Alignment explanation
Indices: 18623832--18623884 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
18623822 ATACTCAATA
*
18623832 GTATCGGTAC-TC-CTACTATG
1 GTATCGATACTTCTCTACTATG
18623852 GTATCGATACTTCTCTACTATG
1 GTATCGATACTTCTCTACTATG
18623874 GTA-CAGATACT
1 GTATC-GATACT
18623885 CCCTTACAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.31
21 3 0.10
22 17 0.59
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (22 bp):
GTATCGATACTTCTCTACTATG
Found at i:18629092 original size:54 final size:54
Alignment explanation
Indices: 18629021--18629547 Score: 598
Period size: 54 Copynumber: 10.0 Consensus size: 54
18629011 TAATCACGTT
* * * * * *
18629021 ATGAATT-TCGTGTGTTGCACACTTAGTGTCAATACGATCGTTCATCAACATATA
1 ATGAATTCT-GTGGGTTGCACAATTAGTGCCTATACGGTCGTTCATCAACATATG
* * * ** *
18629075 ATAAATTATGTGGGTTGCAC-A-TAGTGCCTATATGGTTTTTCATTAACATATG
1 ATGAATTCTGTGGGTTGCACAATTAGTGCCTATACGGTCGTTCATCAACATATG
* *
18629127 ATGAATTCTGTGGGTTGCACAATTAGTGCCTATATGGTTGTTCATCAACATATG
1 ATGAATTCTGTGGGTTGCACAATTAGTGCCTATACGGTCGTTCATCAACATATG
* * * * * * *
18629181 ATGACTTATGTGGGTTGCACAGTTAGTGCCCATACGATTGTTCAACAACATATG
1 ATGAATTCTGTGGGTTGCACAATTAGTGCCTATACGGTCGTTCATCAACATATG
* * *
18629235 ATGAATTTTATGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACATATG
1 ATGAATTCTGTGGGTTGCACAATTAGTGCCTATACGGTCGTTCATCAACATATG
18629289 ATGAATTCTGTGGGTTGCACAATTAGTGCCTATACGGTCGTTCATCAACATATG
1 ATGAATTCTGTGGGTTGCACAATTAGTGCCTATACGGTCGTTCATCAACATATG
* *
18629343 ATAAATTCTGTGGGTTGCAC-A--A------ATACGGTCGTTCATTAACATATG
1 ATGAATTCTGTGGGTTGCACAATTAGTGCCTATACGGTCGTTCATCAACATATG
* * * *
18629388 ATGAATT-TCATGGGTTGCACAATTAGTGCATACACGGTCGTTCATCAATATATG
1 ATGAATTCT-GTGGGTTGCACAATTAGTGCCTATACGGTCGTTCATCAACATATG
* * *
18629442 ATGAATTTTGTGGGTTAG-ACAATTAGTTCCTATACGGTCGTTCATCAATATATG
1 ATGAATTCTGTGGGTT-GCACAATTAGTGCCTATACGGTCGTTCATCAACATATG
* *
18629496 ATGAATT-TCATGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACATA
1 ATGAATTCT-GTGGGTTGCACAATTAGTGCCTATACGGTCGTTCATCAACATA
18629548 CATCTATAAC
Statistics
Matches: 408, Mismatches: 48, Indels: 34
0.83 0.10 0.07
Matches are distributed among these distances:
44 1 0.00
45 38 0.09
46 1 0.00
48 1 0.00
51 1 0.00
52 41 0.10
53 4 0.01
54 318 0.78
55 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (54 bp):
ATGAATTCTGTGGGTTGCACAATTAGTGCCTATACGGTCGTTCATCAACATATG
Found at i:18629384 original size:45 final size:45
Alignment explanation
Indices: 18629320--18629409 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
18629310 ATTAGTGCCT
*
18629320 ATACGGTCGTTCATCAACATATGATAAA-TTCTGTGGGTTGCACAA
1 ATACGGTCGTTCATCAACATATGATAAATTTC-ATGGGTTGCACAA
* *
18629365 ATACGGTCGTTCATTAACATATGATGAATTTCATGGGTTGCACAA
1 ATACGGTCGTTCATCAACATATGATAAATTTCATGGGTTGCACAA
18629410 TTAGTGCATA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 38 0.93
46 3 0.07
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (45 bp):
ATACGGTCGTTCATCAACATATGATAAATTTCATGGGTTGCACAA
Found at i:18629495 original size:153 final size:153
Alignment explanation
Indices: 18629227--18629516 Score: 458
Period size: 153 Copynumber: 1.9 Consensus size: 153
18629217 ATTGTTCAAC
* * * *
18629227 AACATATGATGAATTTTATGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATG
1 AACATATGATGAATTTCATGGGTTGCACAATTAGTGCATACACGGTCGTTCATCAACATATGATG
*
18629292 AATTCTGTGGGTTGCACAATTAGTGCCTATACGGTCGTTCATCAACATATGATAAA-TTCTGTGG
66 AATTCTGTGGGTTGCACAATTAGTGCCTATACGGTCGTTCATCAACATATGATAAATTTC-ATGG
18629356 GTTGCACAAATACGGTCGTTCATT
130 GTTGCACAAATACGGTCGTTCATT
*
18629380 AACATATGATGAATTTCATGGGTTGCACAATTAGTGCATACACGGTCGTTCATCAATATATGATG
1 AACATATGATGAATTTCATGGGTTGCACAATTAGTGCATACACGGTCGTTCATCAACATATGATG
* * * *
18629445 AATTTTGTGGGTTAG-ACAATTAGTTCCTATACGGTCGTTCATCAATATATGATGAATTTCATGG
66 AATTCTGTGGGTT-GCACAATTAGTGCCTATACGGTCGTTCATCAACATATGATAAATTTCATGG
18629509 GTTGCACA
130 GTTGCACA
18629517 CTTAGTGCCT
Statistics
Matches: 125, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
153 121 0.97
154 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (153 bp):
AACATATGATGAATTTCATGGGTTGCACAATTAGTGCATACACGGTCGTTCATCAACATATGATG
AATTCTGTGGGTTGCACAATTAGTGCCTATACGGTCGTTCATCAACATATGATAAATTTCATGGG
TTGCACAAATACGGTCGTTCATT
Found at i:18629497 original size:261 final size:263
Alignment explanation
Indices: 18629021--18629547 Score: 713
Period size: 261 Copynumber: 2.0 Consensus size: 263
18629011 TAATCACGTT
* * *
18629021 ATGAATTTCGTGTGTTGCACACTTAGTGTCAATACGATCGTTCATCAACATATAATAAATTATGT
1 ATGAATTTCGTGGGTTGCACAATTAGTGCCAATACGATCGTTCATCAACATATAATAAATTATGT
* ** *
18629086 GGGTTGCACATAGTGCCTATATGGTTTTTCATTAACATATGATGAATTCTGTGGGTTGCACAATT
66 GGGTTGCACATA----C-ATACGGTCGTTCATTAACATATGATGAATTCTATGGGTTGCACAATT
* * * * * *
18629151 AGTGCCTATATGGTTGTTCATCAACATATGATGACTTATGTGGGTTGCACAGTTAGTGCCCATAC
126 AGTGCATACACGGTCGTTCATCAACATATGATGAATTATGTGGGTTGCACAATTAGTGCCCATAC
* *
18629216 GATTGTTCAACAACATATGATGAATTTTATGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
191 GATCGTTCAACAACATATGATGAATTTCATGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
18629281 AACATATG
256 AACATATG
* * * *
18629289 ATGAA-TTCTGTGGGTTGCACAATTAGTGCCTATACGGTCGTTCATCAACATATGATAAATTCTG
1 ATGAATTTC-GTGGGTTGCACAATTAGTGCCAATACGATCGTTCATCAACATATAATAAATTATG
18629353 TGGGTTGCACA-A-ATACGGTCGTTCATTAACATATGATGAATT-TCATGGGTTGCACAATTAGT
65 TGGGTTGCACATACATACGGTCGTTCATTAACATATGATGAATTCT-ATGGGTTGCACAATTAGT
* * * * *
18629415 GCATACACGGTCGTTCATCAATATATGATGAATTTTGTGGGTTAG-ACAATTAGTTCCTATACGG
129 GCATACACGGTCGTTCATCAACATATGATGAATTATGTGGGTT-GCACAATTAGTGCCCATACGA
* *
18629479 TCGTTCATCAATATATGATGAATTTCATGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAA
193 TCGTTCAACAACATATGATGAATTTCATGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAA
18629544 CATA
258 CATA
18629548 CATCTATAAC
Statistics
Matches: 230, Mismatches: 26, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
260 1 0.00
261 160 0.70
262 1 0.00
267 4 0.02
268 64 0.28
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (263 bp):
ATGAATTTCGTGGGTTGCACAATTAGTGCCAATACGATCGTTCATCAACATATAATAAATTATGT
GGGTTGCACATACATACGGTCGTTCATTAACATATGATGAATTCTATGGGTTGCACAATTAGTGC
ATACACGGTCGTTCATCAACATATGATGAATTATGTGGGTTGCACAATTAGTGCCCATACGATCG
TTCAACAACATATGATGAATTTCATGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACAT
ATG
Found at i:18638023 original size:35 final size:35
Alignment explanation
Indices: 18637981--18638050 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
18637971 AATAAATTCT
18637981 AAAATATTTAATATATATCAAATTAACTTGTGTTA
1 AAAATATTTAATATATATCAAATTAACTTGTGTTA
18638016 AAAATATTTAATATATATCAAATTAACTTGTGTTA
1 AAAATATTTAATATATATCAAATTAACTTGTGTTA
18638051 TCAAACTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (35 bp):
AAAATATTTAATATATATCAAATTAACTTGTGTTA
Found at i:18643740 original size:23 final size:23
Alignment explanation
Indices: 18643710--18643761 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
18643700 GAAAGATTCT
18643710 AGAAGAAGGTAGAGTCATAATCC
1 AGAAGAAGGTAGAGTCATAATCC
*
18643733 AGAAGAAGGTGGAGTCATAATCC
1 AGAAGAAGGTAGAGTCATAATCC
18643756 AGAAGA
1 AGAAGA
18643762 TTCGGACCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.15
Consensus pattern (23 bp):
AGAAGAAGGTAGAGTCATAATCC
Found at i:18649787 original size:124 final size:124
Alignment explanation
Indices: 18649460--18649802 Score: 580
Period size: 127 Copynumber: 2.7 Consensus size: 124
18649450 CATATTTTGA
*
18649460 TATTTATTTATTTTTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGCCCTTTTCTGAT
1 TATTTATTTATTTTTAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCCCTTTTCTGAT
18649525 ATTTTTAAATAAATAAATATCTTATTAAAATAAATTTTTATTTTAAGAAAATGTTTTGGT
66 ATTTTTAAATAAATAAATATCTTATTAAAAT-AATTTTTATTTTAAGAAAATGTTTTGGT
18649585 TATTTATTTATTTTTTAAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCCCTTTTCTG
1 TATTTATTTA-TTTTT-AATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCCCTTTTCTG
18649650 ATATTTTTAAATAAATAAATATCTTATTAAAAT-ATTTTTATTTTAAGAAAATGTTTTGGT
64 ATATTTTTAAATAAATAAATATCTTATTAAAATAATTTTTATTTTAAGAAAATGTTTTGGT
* * *
18649710 TATTTATTTATTTTTCAATATCAAAGAAAAGAGTTGTCTTAAGGTACCTAGAAGCTCTTTTCTGA
1 TATTTATTTATTTTT-AATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCCCTTTTCTGA
* * *
18649775 TAGTTTTGAATAAATAAATACCTTATTA
65 TATTTTTAAATAAATAAATATCTTATTA
18649803 TATAAAATAA
Statistics
Matches: 208, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
124 76 0.37
125 47 0.23
126 5 0.02
127 80 0.38
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.43
Consensus pattern (124 bp):
TATTTATTTATTTTTAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCCCTTTTCTGAT
ATTTTTAAATAAATAAATATCTTATTAAAATAATTTTTATTTTAAGAAAATGTTTTGGT
Found at i:18649835 original size:114 final size:114
Alignment explanation
Indices: 18649697--18649915 Score: 291
Period size: 114 Copynumber: 1.9 Consensus size: 114
18649687 TTATTTTAAG
* * * * *
18649697 AAAATGTTTTGGTTATTTATTTATTTTTCAATATCAAAGAAAAGAGTTGTCTTAAGGTACCTAGA
1 AAAATGTTTTGATTATTTATTTATTTTTCAATATCAAAGAAAAGAGCTATCTTAAAGCACCTAGA
* *
18649762 AG-CTCTTTTCTGATAGTTT-TGAATAAATAAATACCTTATTATATAAAAT
66 AGCCT-TTTTATGATA-TTTCTAAATAAATAAATACCTTATTATATAAAAT
* *
18649811 AAAATGTTTTTGATT-TTTTTTTATTTTTTAATATCAAAGAAAAGAGCTATCTTAAAGCACCTAG
1 AAAATG-TTTTGATTATTTATTTATTTTTCAATATCAAAGAAAAGAGCTATCTTAAAGCACCTAG
* *
18649875 AAGCCTTTTTATGATATTTCTAAATAAGTAAATATCTTATT
65 AAGCCTTTTTATGATATTTCTAAATAAATAAATACCTTATT
18649916 TATGTATATT
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
113 3 0.03
114 79 0.87
115 9 0.10
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (114 bp):
AAAATGTTTTGATTATTTATTTATTTTTCAATATCAAAGAAAAGAGCTATCTTAAAGCACCTAGA
AGCCTTTTTATGATATTTCTAAATAAATAAATACCTTATTATATAAAAT
Found at i:18652829 original size:21 final size:22
Alignment explanation
Indices: 18652788--18652856 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 22
18652778 CATGCATTTA
*
18652788 CATTTTGTATCTGTGCATTTT-
1 CATTTTGTATCTGTACATTTTG
*
18652809 CATTTTGTATTCT-TACTTTTTG
1 CATTTTGTA-TCTGTACATTTTG
* * *
18652831 CATCTTTGCAT-TTTTCATTTTG
1 CAT-TTTGTATCTGTACATTTTG
18652853 CATT
1 CATT
18652857 CATACTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
21 17 0.44
22 17 0.44
23 5 0.13
ACGTcount: A:0.14, C:0.16, G:0.10, T:0.59
Consensus pattern (22 bp):
CATTTTGTATCTGTACATTTTG
Found at i:18652841 original size:36 final size:37
Alignment explanation
Indices: 18652785--18652865 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
18652775 ATACATGCAT
* * *
18652785 TTACATTTTGTATCTGTGCA-TTTTCATTTTGTATTC
1 TTACTTTTTGCATCTGTGCATTTTTCATTTTGCATTC
*
18652821 TTACTTTTTGCATCTTTGCATTTTTCATTTTGCATTC
1 TTACTTTTTGCATCTGTGCATTTTTCATTTTGCATTC
*
18652858 ATACTTTT
1 TTACTTTT
18652866 ATGTTTGCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 17 0.44
37 22 0.56
ACGTcount: A:0.16, C:0.16, G:0.09, T:0.59
Consensus pattern (37 bp):
TTACTTTTTGCATCTGTGCATTTTTCATTTTGCATTC
Found at i:18652851 original size:7 final size:7
Alignment explanation
Indices: 18652801--18652856 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
18652791 TTTGTATCTG
18652801 TGCATTT
1 TGCATTT
18652808 T-CATTT
1 TGCATTT
*
18652814 TGTATTCT
1 TGCATT-T
* *
18652822 TACTTTT
1 TGCATTT
18652829 TGCATCTT
1 TGCAT-TT
18652837 TGCATTT
1 TGCATTT
*
18652844 TTCATTT
1 TGCATTT
18652851 TGCATT
1 TGCATT
18652857 CATACTTTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
6 6 0.16
7 21 0.55
8 11 0.29
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.61
Consensus pattern (7 bp):
TGCATTT
Found at i:18655398 original size:7 final size:7
Alignment explanation
Indices: 18655363--18655389 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
18655353 AGCAAAGAAA
18655363 GAAAAAT
1 GAAAAAT
18655370 GAAAAAT
1 GAAAAAT
18655377 GAAAAAT
1 GAAAAAT
18655384 GAAAAA
1 GAAAAA
18655390 AAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (7 bp):
GAAAAAT
Found at i:18657807 original size:115 final size:114
Alignment explanation
Indices: 18657647--18657873 Score: 391
Period size: 115 Copynumber: 2.0 Consensus size: 114
18657637 AAGTGCCATG
18657647 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * *
18657712 TGGTTTGGTATGAACCTCAAAAACCAATCATTGGATTTGAAAGATGAATT
66 TGGTTCGGTAGGAACCAC-AAAACCAATCATTGGAATTAAAAGATGAATT
18657762 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
18657827 TGGTTCGGTAGGAACCACAGAACCAATCATTGGAATTAAAAGATGAA
66 TGGTTCGGTAGGAACCACAAAACCAATCATTGGAATTAAAAGATGAA
18657874 CTGCATGATT
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
114 26 0.25
115 80 0.75
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTCGGTAGGAACCACAAAACCAATCATTGGAATTAAAAGATGAATT
Found at i:18660418 original size:21 final size:22
Alignment explanation
Indices: 18660367--18660420 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
18660357 ATCTACACTC
18660367 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
18660389 TTTAAAGATGATAGATTCTC-T
1 TTCAAAGATGATAGATTCTCTT
18660410 TTCAAAGATGA
1 TTCAAAGATGA
18660421 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:18661242 original size:165 final size:167
Alignment explanation
Indices: 18660935--18661241 Score: 528
Period size: 166 Copynumber: 1.8 Consensus size: 167
18660925 AAAATGAGCA
*
18660935 TTATCTTGAGATTGGGGCATGTTACCTAATCAACATGTTATTTCAAAAAACATAATGAGAAAACG
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAACATAATGAGAAAACG
* ** *
18661000 ATTTTCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
66 ATTTTCATAGTTTCTCAATCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
18661065 CTTAGTTTTTTTACTTAGTAAATTATTTCCAACAGCC
131 CTTAGTTTTTTTACTTAGTAAATTATTTCCAACAGCC
**
18661102 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TTAAAA-ATAATGAGAAAACG
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAACATAATGAGAAAACG
18661165 ATTTTCATAGTTTCTCAATCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
66 ATTTTCATAGTTTCTCAATCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
18661230 CCTTAGTTTTTT
130 CCTTAGTTTTTT
18661242 AATAAACTAT
Statistics
Matches: 132, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
165 41 0.31
166 49 0.37
167 42 0.32
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (167 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAACATAATGAGAAAACG
ATTTTCATAGTTTCTCAATCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
CTTAGTTTTTTTACTTAGTAAATTATTTCCAACAGCC
Found at i:18661353 original size:76 final size:76
Alignment explanation
Indices: 18661258--18661878 Score: 1019
Period size: 76 Copynumber: 8.0 Consensus size: 76
18661248 CTATTTCCCA
* *
18661258 CATCTGTAAGTCCTACAGTGCATGATTTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
18661323 AGCCTTCGGGT
66 AGCCTTCGGGT
*
18661334 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
18661398 AGCCTTTGGGT
66 AGCCTTCGGGT
18661409 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
18661474 AGCCTTCGGGT
66 AGCCTTCGGGT
*
18661485 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
18661550 AGCCTTCGGGT
66 AGCCTTCGGGT
*
18661561 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
18661626 AGCCTTCGGGT
66 AGCCTTCGGGT
18661637 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGGGAGCTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTT--T----G---
18661702 TTTGATGTTTTCAAAGCCTTCGGGT
56 ----ATGTTTTCAAAGCCTTCGGGT
*
18661727 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGACCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
18661792 AAGCCTTCGGGT
65 AAGCCTTCGGGT
* *
18661804 CATCTGTAAGTTCTGCAGTGCATAATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
18661869 AGCCTTCGGG
66 AGCCTTCGGG
18661879 AGCTTTTTGA
Statistics
Matches: 516, Mismatches: 14, Indels: 30
0.92 0.03 0.05
Matches are distributed among these distances:
75 73 0.14
76 294 0.57
77 71 0.14
79 1 0.00
83 1 0.00
84 1 0.00
88 1 0.00
90 74 0.14
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:18661532 original size:151 final size:152
Alignment explanation
Indices: 18661258--18661878 Score: 1019
Period size: 151 Copynumber: 4.0 Consensus size: 152
18661248 CTATTTCCCA
*
18661258 CATCTGTAAGTCCTACAGTGCATGATTTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
18661323 AGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
18661388 GATGTTTT-AAAGCCTTTGGGT
131 GATGTTTTCAAAGCCTTCGGGT
*
18661409 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
18661474 AGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
18661539 GATATTTTCAAAGCCTTCGGGT
131 GATGTTTTCAAAGCCTTCGGGT
18661561 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
18661626 AGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTT------C-----
18661691 GATGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
120 ---GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
* *
18661727 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGACCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
* *
18661792 AAGCCTTCGGGTCATCTGTAAGTTCTGCAGTGCATAATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
18661857 TGATGTTTTCAAAGCCTTCGGG
130 TGATGTTTTCAAAGCCTTCGGG
18661879 AGCTTTTTGA
Statistics
Matches: 443, Mismatches: 11, Indels: 30
0.92 0.02 0.06
Matches are distributed among these distances:
151 134 0.30
152 129 0.29
153 32 0.07
158 1 0.00
161 1 0.00
166 79 0.18
167 67 0.15
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (152 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTCGGGT
Found at i:18661681 original size:47 final size:47
Alignment explanation
Indices: 18661624--18661772 Score: 148
Period size: 45 Copynumber: 3.3 Consensus size: 47
18661614 TGATGTTTTC
18661624 AAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAA
1 AAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAA
* * ** * * *** *
18661671 AAAGCCTTCGGG--AGCTTTTTGAT--GGGAGCTTTTTGATGTTTTC--
1 AAAGCCTTCGGGTCATCTGTAAG-TCCTGCAG-TGCATGATGTTTCCAA
18661714 AAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAA
1 AAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAA
18661761 AAAGCCTTCGGG
1 AAAGCCTTCGGG
18661773 ACCTTTTTTG
Statistics
Matches: 74, Mismatches: 20, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
43 12 0.16
44 4 0.05
45 30 0.41
46 4 0.05
47 24 0.32
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (47 bp):
AAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAA
Found at i:18661699 original size:14 final size:14
Alignment explanation
Indices: 18661680--18661708 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18661670 AAAAGCCTTC
18661680 GGGAGCTTTTTGAT
1 GGGAGCTTTTTGAT
18661694 GGGAGCTTTTTGAT
1 GGGAGCTTTTTGAT
18661708 G
1 G
18661709 TTTTCAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.38, T:0.41
Consensus pattern (14 bp):
GGGAGCTTTTTGAT
Found at i:18661757 original size:90 final size:91
Alignment explanation
Indices: 18661604--18661785 Score: 348
Period size: 90 Copynumber: 2.0 Consensus size: 91
18661594 AAAAGCCTTC
18661604 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCC
1 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCC
*
18661669 AAAAAGCCTTCGGGAGC-TTTTTGAT
66 AAAAAGCCTTCGGGACCTTTTTTGAT
18661694 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCC
1 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCC
18661759 AAAAAGCCTTCGGGACCTTTTTTGAT
66 AAAAAGCCTTCGGGACCTTTTTTGAT
18661785 G
1 G
18661786 TTTTCAAAGC
Statistics
Matches: 90, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
90 81 0.90
91 9 0.10
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (91 bp):
GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCC
AAAAAGCCTTCGGGACCTTTTTTGAT
Found at i:18661832 original size:77 final size:76
Alignment explanation
Indices: 18661694--18661878 Score: 325
Period size: 77 Copynumber: 2.4 Consensus size: 76
18661684 GCTTTTTGAT
* *
18661694 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCC
1 GGGACCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATAATGTTTCC
18661759 AAAAAGCCTTC
66 AAAAAGCCTTC
*
18661770 GGGACCTTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTTCTGCAGTGCATAATGTTTC
1 GGGACC-TTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATAATGTTTC
18661835 CAAAAAGCCTTC
65 CAAAAAGCCTTC
*
18661847 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
1 GGGACCTTTTTGATGTTTTCAAAGCCTTCGGG
18661879 AGCTTTTTGA
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
76 31 0.30
77 73 0.70
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.36
Consensus pattern (76 bp):
GGGACCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATAATGTTTCC
AAAAAGCCTTC
Found at i:18661872 original size:29 final size:29
Alignment explanation
Indices: 18661838--18661907 Score: 140
Period size: 29 Copynumber: 2.4 Consensus size: 29
18661828 ATGTTTCCAA
18661838 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
18661867 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
18661896 AAAGCCTTCGGG
1 AAAGCCTTCGGG
18661908 TCATCTGTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (29 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTC
Found at i:18661944 original size:105 final size:106
Alignment explanation
Indices: 18661761--18661979 Score: 395
Period size: 105 Copynumber: 2.1 Consensus size: 106
18661751 ATGTTTCCAA
*
18661761 AAAGCCTTCGGGACCTTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTTCTGCAGTGCA
1 AAAGCCTTCGGGACCTTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCA
18661826 TAATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
66 TAATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
* *
18661867 AAAGCCTTCGGGAGC-TTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 AAAGCCTTCGGGACCTTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCA
*
18661931 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
66 TAATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
18661972 AAAGCCTT
1 AAAGCCTT
18661980 AGGGTCATCT
Statistics
Matches: 109, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
105 95 0.87
106 14 0.13
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (106 bp):
AAAGCCTTCGGGACCTTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCA
TAATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
Found at i:18661947 original size:76 final size:76
Alignment explanation
Indices: 18661867--18662129 Score: 490
Period size: 76 Copynumber: 3.5 Consensus size: 76
18661857 TGATGTTTTC
* *
18661867 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCAT
18661932 GATGTTTCCAA
66 GATGTTTCCAA
18661943 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCAT
*
18662008 GATGGTTCCAA
66 GATGTTTCCAA
18662019 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCAT
18662084 GATGTTTCCAA
66 GATGTTTCCAA
*
18662095 AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCC
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
18662130 CTTCAGTGCA
Statistics
Matches: 182, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 182 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (76 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCAT
GATGTTTCCAA
Found at i:18662043 original size:181 final size:182
Alignment explanation
Indices: 18661694--18662055 Score: 663
Period size: 181 Copynumber: 2.0 Consensus size: 182
18661684 GCTTTTTGAT
18661694 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCC
1 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCC
* *
18661759 AAAAAGCCTTCGGGACCTTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTTCTGCAGTG
66 AAAAAGCCTTCGGGACCTTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTG
*
18661824 CATAATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTC
131 CATAATGGTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTC
*
18661876 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
1 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCC
*
18661941 AAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTG
66 AAAAAGCCTTCGGGACCTTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTG
*
18662005 CATGATGGTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTT
131 CATAATGGTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTT
18662056 AGGGTCATCT
Statistics
Matches: 174, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
181 94 0.54
182 80 0.46
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (182 bp):
GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCC
AAAAAGCCTTCGGGACCTTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTG
CATAATGGTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTC
Found at i:18662328 original size:21 final size:22
Alignment explanation
Indices: 18662302--18662351 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 22
18662292 TTTTACTTAA
18662302 ATTATTATTAAA-ATTATTATT
1 ATTATTATTAAATATTATTATT
18662323 ATTATTATTAAATATTATTATT
1 ATTATTATTAAATATTATTATT
18662345 A-TATTAT
1 ATTATTAT
18662352 ACTATTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTATTATTAAATATTATTATT
Found at i:18662340 original size:16 final size:16
Alignment explanation
Indices: 18662319--18662372 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
18662309 TTAAAATTAT
18662319 TATTATTATTATTAAA
1 TATTATTATTATTAAA
*
18662335 TATTATTATTA-T-AT
1 TATTATTATTATTAAA
*
18662349 TA-TACTATTATTAAA
1 TATTATTATTATTAAA
18662364 TAATTATTA
1 T-ATTATTA
18662373 CAAGCCCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
13 7 0.23
14 4 0.13
15 3 0.10
16 12 0.40
17 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTATTATTATTAAA
Found at i:18662372 original size:3 final size:3
Alignment explanation
Indices: 18662302--18662361 Score: 61
Period size: 3 Copynumber: 20.3 Consensus size: 3
18662292 TTTTACTTAA
** *
18662302 ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT AAAT ATT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
*
18662347 ATT A-T ACT ATT ATT A
1 ATT ATT ATT ATT ATT A
18662362 AATAATTATT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
2 4 0.09
3 41 0.87
4 2 0.04
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:18664113 original size:127 final size:126
Alignment explanation
Indices: 18663963--18664307 Score: 602
Period size: 127 Copynumber: 2.7 Consensus size: 126
18663953 CATATTTTGA
*
18663963 TATTTATTTATTTTT-AATATCAAAGAAAAGAGCTGTCTTAAGGAACATAGAAGCCCTTTTCTGA
1 TATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGAACCTAGAAGCCCTTTTCTGA
18664027 TATTTTTAAATAAATAAATATCTTATTAAAATAAATTTTTATTTTAAGAAAATGTTTTGGT
66 TATTTTTAAATAAATAAATATCTTATTAAAATAAATTTTTATTTTAAGAAAATGTTTTGGT
*
18664088 TATTTATTTATTTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCCCTTTTCTG
1 TATTTATTTA-TTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGAACCTAGAAGCCCTTTTCTG
18664153 ATATTTTTAAATAAATAAATATCTTATTAAAATAAATTTTTATTTTAAGAAAATGTTTTGGT
65 ATATTTTTAAATAAATAAATATCTTATTAAAATAAATTTTTATTTTAAGAAAATGTTTTGGT
* * *
18664215 TATTTATTTATTTTTCAATATCAAAGAAAATAGCTGTCTTAAGGTACCTAGAAGCTCTTTTCTGA
1 TATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGAACCTAGAAGCCCTTTTCTGA
* * *
18664280 TAGTTTTGAATAAATAAATACCTTATTA
66 TATTTTTAAATAAATAAATATCTTATTA
18664308 TATAAAATAA
Statistics
Matches: 210, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
125 10 0.05
126 82 0.39
127 118 0.56
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.43
Consensus pattern (126 bp):
TATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAGGAACCTAGAAGCCCTTTTCTGA
TATTTTTAAATAAATAAATATCTTATTAAAATAAATTTTTATTTTAAGAAAATGTTTTGGT
Found at i:18664406 original size:114 final size:114
Alignment explanation
Indices: 18664202--18664420 Score: 316
Period size: 114 Copynumber: 1.9 Consensus size: 114
18664192 TTATTTTAAG
* * * *
18664202 AAAATGTTTTGGTTATTTATTTATTTTTCAATATCAAAGAAAATAGCTGTCTTAAGGTACCTAGA
1 AAAATGTTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGA
* *
18664267 AGCTCTTTTCTGATAGTTTTGAATAAATAAATACCTTATTATATAAAAT
66 AGCTCTTTTATGATAGTTTTAAATAAATAAATACCTTATTATATAAAAT
* *
18664316 AAAATGTTTTTGATATTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGA
1 AAAATGTTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGA
* *
18664381 AGC-CTTTTTATGATA-TTTCTAAATAAGTAAATATCTTATT
66 AGCTC-TTTTATGATAGTTT-TAAATAAATAAATACCTTATT
18664421 TATGTATATT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
113 4 0.04
114 89 0.96
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (114 bp):
AAAATGTTTTGGATATTTATTTATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGA
AGCTCTTTTATGATAGTTTTAAATAAATAAATACCTTATTATATAAAAT
Found at i:18666973 original size:35 final size:35
Alignment explanation
Indices: 18666931--18667000 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
18666921 AATAAATTCT
18666931 AAAATATTTAATATATATCAAATTAACTTGTGTTA
1 AAAATATTTAATATATATCAAATTAACTTGTGTTA
18666966 AAAATATTTAATATATATCAAATTAACTTGTGTTA
1 AAAATATTTAATATATATCAAATTAACTTGTGTTA
18667001 TCAAACTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (35 bp):
AAAATATTTAATATATATCAAATTAACTTGTGTTA
Found at i:18672701 original size:23 final size:23
Alignment explanation
Indices: 18672671--18672722 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
18672661 GAAAGATTCT
18672671 AGAAGAAGGTAGAGTCATAATCC
1 AGAAGAAGGTAGAGTCATAATCC
*
18672694 AGAAGAAGGTGGAGTCATAATCC
1 AGAAGAAGGTAGAGTCATAATCC
18672717 AGAAGA
1 AGAAGA
18672723 TTCGGACCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.15
Consensus pattern (23 bp):
AGAAGAAGGTAGAGTCATAATCC
Found at i:18681150 original size:41 final size:42
Alignment explanation
Indices: 18681089--18681201 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
18681079 AACATTTTAA
* *
18681089 AAATAATTAAAATAACATA-TTTATAATTATTTAT-TATATTT
1 AAATAATT-AAATAATATACTTTATAATAATTTATATATATTT
* * * * *
18681130 AAATGATTAAATTAATATATTTTACAATAATTTCTATATTTTT
1 AAATAATTAAA-TAATATACTTTATAATAATTTATATATATTT
*
18681173 TAATAATTAAATAATATACTTTAATAATA
1 AAATAATTAAATAATATACTTT-ATAATA
18681202 TACATAAAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
40 3 0.05
41 13 0.22
42 22 0.38
43 20 0.34
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.48
Consensus pattern (42 bp):
AAATAATTAAATAATATACTTTATAATAATTTATATATATTT
Found at i:18681161 original size:19 final size:19
Alignment explanation
Indices: 18681139--18681182 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
18681129 TAAATGATTA
18681139 AATTAATATATTTTACAAT
1 AATTAATATATTTTACAAT
** **
18681158 AATTTCTATATTTTTTAAT
1 AATTAATATATTTTACAAT
18681177 AATTAA
1 AATTAA
18681183 ATAATATACT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTAATATATTTTACAAT
Found at i:18682330 original size:314 final size:317
Alignment explanation
Indices: 18681739--18682358 Score: 815
Period size: 314 Copynumber: 2.0 Consensus size: 317
18681729 AATACTAAAC
* * *
18681739 GTATAGTTTATCTTTTTCTTTAGGGTAAACTACACATTTGGTAACTGAAATTTACTCTCTCTCTC
1 GTATAATTTATCCTTTTCTTTAGGGTAAACTACACATTTGGTAACTAAAATTTAC-CTCTCTCTC
* * *
18681804 TTATTTCACTCACCGTACTTTCAATTTTTTTTTTAATTTACTCATTGAACTTTATAGATTGATTT
65 TTATTTCACTCACCGTACTTTCAA--TTTTTTTCAATTTACTCACTGAACTTTATAGATTGAATT
** * *** *
18681869 TTTGTCACTCCGTCGTTAAATAATTAATGACGTTATGACATGGTAGTATTATAATCAAAACAATG
128 TTTGTCACTCCACCGTTAAATAATTAACGACGTTATGACATAACAGTATTATAATCAAAACAAAG
*
18681934 TCATTTTAGTATAAAATTTAATCTTTCTAGGAATTCAAAACGATGTCGTTTAGATGTAAATTAGC
193 TCATTTTAGTATAAAATTTAATCTTTCTAGGAATTCAAAACGATGTCGTTTAGATATAAATTAGC
***
18681999 ATGTCATATTGTCGTTTAATTATTTAACAGTA-GAATGACAAAAAAATTTGAAGTAATGAAT
258 ATGTCATAACATCGTTTAATTATTTAAC-G-ACGAATGACAAAAAAATTTGAAGTAATGAAT
*
18682060 GTATAATTTATCCTTTTCTTTAGGGTAAACTACCCATTAT-GTAACTAAAATTTA-CTCTCTC-C
1 GTATAATTTATCCTTTTCTTTAGGGTAAACTACACATT-TGGTAACTAAAATTTACCTCTCTCTC
*
18682122 -TATTTCACTCATCGTACTTTCAA-TTTTTTCAATTTACTCACTGAACTTTATAGATTGAAATTT
65 TTATTTCACTCACCGTACTTTCAATTTTTTTCAATTTACTCACTGAACTTTATAGATTG-AATTT
* ** * * * *
18682185 TTGTCACTCCACCTTTAAATAATTAACGGTGTTATGGCATAACCGTATTTTAATCAAAATAAAGT
129 TTGTCACTCCACCGTTAAATAATTAACGACGTTATGACATAACAGTATTATAATCAAAACAAAGT
** * * * *
18682250 TGTTTTAGTCTAAAATTTAATTTTTC-AGGAATTCAAAACGATGTCGTTTTGATATAAGTT-GTC
194 CATTTTAGTATAAAATTTAATCTTTCTAGGAATTCAAAACGATGTCGTTTAGATATAAATTAG-C
*
18682313 ATGTCATAACATCGTTTAATTATTTAACGACGGATGACAAAAAAAT
258 ATGTCATAACATCGTTTAATTATTTAACGACGAATGACAAAAAAAT
18682359 CAATCTATAA
Statistics
Matches: 262, Mismatches: 33, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
312 1 0.00
313 16 0.06
314 89 0.34
315 77 0.29
317 22 0.08
318 1 0.00
319 7 0.03
321 48 0.18
322 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (317 bp):
GTATAATTTATCCTTTTCTTTAGGGTAAACTACACATTTGGTAACTAAAATTTACCTCTCTCTCT
TATTTCACTCACCGTACTTTCAATTTTTTTCAATTTACTCACTGAACTTTATAGATTGAATTTTT
GTCACTCCACCGTTAAATAATTAACGACGTTATGACATAACAGTATTATAATCAAAACAAAGTCA
TTTTAGTATAAAATTTAATCTTTCTAGGAATTCAAAACGATGTCGTTTAGATATAAATTAGCATG
TCATAACATCGTTTAATTATTTAACGACGAATGACAAAAAAATTTGAAGTAATGAAT
Found at i:18683391 original size:21 final size:21
Alignment explanation
Indices: 18683365--18683414 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
18683355 CTGACTATCA
*
18683365 CATTGCGATTTTTCAAATTCG
1 CATTGCGATTTTCCAAATTCG
*
18683386 CATTGCGATTTTCCTAATTCG
1 CATTGCGATTTTCCAAATTCG
*
18683407 CAATGCGA
1 CATTGCGA
18683415 ATACGTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (21 bp):
CATTGCGATTTTCCAAATTCG
Found at i:18683429 original size:20 final size:20
Alignment explanation
Indices: 18683404--18683476 Score: 137
Period size: 20 Copynumber: 3.6 Consensus size: 20
18683394 TTTTCCTAAT
18683404 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
18683424 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
18683444 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
18683464 TCGCAACGCGAAT
1 TCGCAATGCGAAT
18683477 CTGACTATCG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:18683699 original size:22 final size:22
Alignment explanation
Indices: 18683674--18683739 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
18683664 GGCGACATCC
18683674 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
18683696 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
18683718 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
18683740 TTCACGGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:18684147 original size:20 final size:20
Alignment explanation
Indices: 18684107--18684176 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
18684097 TGCGATTCTT
* **
18684107 GCGTTGCGATAGTAAAATTC
1 GCGTTGCGATAGTCATTTTC
18684127 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCATTTTC
* **
18684147 GTGTTGCGATTTTCATTTTC
1 GCGTTGCGATAGTCATTTTC
*
18684167 GTGTTGCGAT
1 GCGTTGCGAT
18684177 TTAAAGTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.17, C:0.16, G:0.26, T:0.41
Consensus pattern (20 bp):
GCGTTGCGATAGTCATTTTC
Found at i:18684177 original size:20 final size:20
Alignment explanation
Indices: 18684124--18684178 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
18684114 GATAGTAAAA
* **
18684124 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
18684144 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
18684164 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
18684179 AAAGTTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:18684186 original size:20 final size:20
Alignment explanation
Indices: 18684143--18684186 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
18684133 CGATAGTCAT
** *
18684143 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
18684163 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
18684183 TTTC
1 TTTC
18684187 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:18686179 original size:34 final size:34
Alignment explanation
Indices: 18686086--18686179 Score: 82
Period size: 33 Copynumber: 2.8 Consensus size: 34
18686076 GAAAATGACT
* * ** * *
18686086 ATCGCAACGCGAAAATGACTATCACAATGAGAGA
1 ATCGCAACGCGAAAATGAATATCGCAACAACAAA
** * *
18686120 ATCGCATTGCG-AAATGAAAAGCGCAACAACAAA
1 ATCGCAACGCGAAAATGAATATCGCAACAACAAA
*
18686153 ATCGCAACGCGAAAATGATTATCGCAA
1 ATCGCAACGCGAAAATGAATATCGCAA
18686180 TGCGAAAATG
Statistics
Matches: 44, Mismatches: 15, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
33 23 0.52
34 21 0.48
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.15
Consensus pattern (34 bp):
ATCGCAACGCGAAAATGAATATCGCAACAACAAA
Found at i:18686234 original size:21 final size:20
Alignment explanation
Indices: 18686063--18686240 Score: 132
Period size: 20 Copynumber: 9.5 Consensus size: 20
18686053 AGAATAGTTT
18686063 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
18686083 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
18686103 ACTATCACAAT--G-AGA-G
1 ACTATCGCAATGCGAAAATG
*
18686119 A--ATCGCATTGCG-AAATG
1 ACTATCGCAATGCGAAAATG
** *
18686136 AAAAGCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
18686152 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
18686170 ATTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
18686190 ATTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
18686210 ACTATCGCAATGCGAATTTTG
1 ACTATCGCAATGCGAA-AATG
18686231 ACTATCGCAA
1 ACTATCGCAA
18686241 CGAAAGAATC
Statistics
Matches: 129, Mismatches: 14, Indels: 29
0.75 0.08 0.17
Matches are distributed among these distances:
14 12 0.09
16 9 0.07
17 8 0.06
18 4 0.03
19 5 0.04
20 79 0.61
21 12 0.09
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:18686348 original size:40 final size:40
Alignment explanation
Indices: 18686285--18686413 Score: 195
Period size: 40 Copynumber: 3.2 Consensus size: 40
18686275 GCGATTCTCT
**
18686285 CGTTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCG
* *
18686325 CATTGCGATAGTCATTTTTGCATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCG
* **
18686365 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCG
18686405 CGTTGCGAT
1 CGTTGCGAT
18686414 TTTAAGTTTC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (40 bp):
CGTTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCG
Found at i:18686385 original size:60 final size:60
Alignment explanation
Indices: 18686287--18686413 Score: 200
Period size: 60 Copynumber: 2.1 Consensus size: 60
18686277 GATTCTCTCG
*
18686287 TTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCA
* ** * *
18686347 TTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCA
18686407 TTGCGAT
1 TTGCGAT
18686414 TTTAAGTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (60 bp):
TTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCA
Found at i:18686423 original size:20 final size:20
Alignment explanation
Indices: 18686285--18686413 Score: 168
Period size: 20 Copynumber: 6.5 Consensus size: 20
18686275 GCGATTCTCT
**
18686285 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
* **
18686305 CATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
* *
18686325 CATTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCATTTTCG
* **
18686345 CATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
18686365 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
18686385 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
18686405 CGTTGCGAT
1 CGTTGCGAT
18686414 TTTAAGTTTC
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 99 1.00
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:18686989 original size:21 final size:21
Alignment explanation
Indices: 18686898--18687002 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 21
18686888 GACTCACCTG
*
18686898 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
18686920 T-ATCATTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
18686940 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
18686961 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
18686982 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
18687003 CCAACATTCT
Statistics
Matches: 62, Mismatches: 20, Indels: 3
0.73 0.24 0.04
Matches are distributed among these distances:
20 3 0.05
21 58 0.94
22 1 0.02
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:18686995 original size:42 final size:42
Alignment explanation
Indices: 18686925--18687005 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
18686915 TCCCCTATCA
*
18686925 TTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCACCG
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCACCG
* ** *
18686967 TTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
18687006 ACATTCTAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.22, C:0.38, G:0.19, T:0.21
Consensus pattern (42 bp):
TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCACCG
Found at i:18688618 original size:34 final size:33
Alignment explanation
Indices: 18688530--18688625 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
18688520 AAAACAGACT
* **
18688530 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
18688564 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
18688597 ATTGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
18688626 CGAAACTAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:18688681 original size:14 final size:14
Alignment explanation
Indices: 18688662--18688715 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
18688652 CATTTTCGCA
18688662 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
18688676 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
18688693 TATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
18688709 TTGCGAT
1 TTGCGAT
18688716 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.46
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:18688683 original size:34 final size:34
Alignment explanation
Indices: 18688640--18688735 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
18688630 ACTAAATTCG
18688640 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
*
18688674 CGTTGCGATTTTCA-TTTCGTATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
** * *
18688707 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
18688736 AGTCAATTCC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.55
34 25 0.45
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:18688732 original size:20 final size:20
Alignment explanation
Indices: 18688707--18688800 Score: 154
Period size: 20 Copynumber: 4.7 Consensus size: 20
18688697 GCGATTCTCT
18688707 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
18688727 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
18688747 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
18688767 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
18688787 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
18688801 AATGAATTTC
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:0.22, G:0.26, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:18691249 original size:24 final size:24
Alignment explanation
Indices: 18691215--18691268 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
18691205 CTGAAAAATT
18691215 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
18691239 ATCAAAGTCCGGGTATTGAGCAAG
1 ATCAAAATCCGAGTATTGACCAAG
18691263 ATCAAA
1 ATCAAA
18691269 TTTCGAATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:18692169 original size:20 final size:20
Alignment explanation
Indices: 18692107--18692160 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
18692097 AAATTCAGTA
*
18692107 TTGCGATAGTCATAATCTCG
1 TTGCGATAGTCAGAATCTCG
18692127 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
18692147 TTGCGATAGTCAGA
1 TTGCGATAGTCAGA
18692161 TTCGCGTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:18692183 original size:20 final size:20
Alignment explanation
Indices: 18692160--18692292 Score: 221
Period size: 20 Copynumber: 6.7 Consensus size: 20
18692150 CGATAGTCAG
* *
18692160 ATTCGCGTTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
18692180 ATTCGCATTTCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
18692200 ATTCTCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
18692220 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
18692240 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
18692260 ATTCACATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
18692280 ATTCGCATTGCGA
1 ATTCGCATTGCGA
18692293 ATTAGGAAAA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 105 1.00
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:18692393 original size:19 final size:19
Alignment explanation
Indices: 18692361--18692411 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
18692351 CGATACCGGA
* *
18692361 GATCGTATTACGAATTATC
1 GATCGCATTGCGAATTATC
18692380 GATCGCATTGCGAATTATC
1 GATCGCATTGCGAATTATC
18692399 GATCGCATTGCGA
1 GATCGCATTGCGA
18692412 TTTAGTTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (19 bp):
GATCGCATTGCGAATTATC
Found at i:18692717 original size:25 final size:25
Alignment explanation
Indices: 18692670--18692717 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
18692660 CATCAGCAAA
*
18692670 AATAATTTATAATGTATTTTTTTGT
1 AATAATTTATAATGTATTATTTTGT
18692695 AATAATTTATAAT-TGATTATTTT
1 AATAATTTATAATGT-ATTATTTT
18692718 TTAGTTTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (25 bp):
AATAATTTATAATGTATTATTTTGT
Found at i:18693760 original size:11 final size:12
Alignment explanation
Indices: 18693730--18693761 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
18693720 TGTTTGATTG
18693730 AGTTATC-ACTT
1 AGTTATCAACTT
18693741 AGTTATCAAC-T
1 AGTTATCAACTT
18693752 AGTTATCAAC
1 AGTTATCAAC
18693762 GATTCAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 18 0.90
12 2 0.10
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (12 bp):
AGTTATCAACTT
Done.