Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004855.1 Hibiscus syriacus cultivar Beakdansim tig00010945_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: 139161
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:15111 original size:36 final size:35
Alignment explanation
Indices: 15071--15138 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
15061 AGAACTATGA
*
15071 TTCCTAGCAAACACAATTGACTGCCATGGATTATAG
1 TTCCTAGCAAACACAA-TGACTGCCATAGATTATAG
***
15107 TTCCTAGCATTGACAATGACTGCCATAGATTA
1 TTCCTAGCAAACACAATGACTGCCATAGATTA
15139 CATTGAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 15 0.54
36 13 0.46
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (35 bp):
TTCCTAGCAAACACAATGACTGCCATAGATTATAG
Found at i:28097 original size:10 final size:10
Alignment explanation
Indices: 28082--28109 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
28072 AAACTTCAAC
28082 GTGTCTTCAT
1 GTGTCTTCAT
28092 GTGTCTTCAT
1 GTGTCTTCAT
28102 GTGTCTTC
1 GTGTCTTC
28110 TTCGACAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.07, C:0.21, G:0.21, T:0.50
Consensus pattern (10 bp):
GTGTCTTCAT
Found at i:28657 original size:97 final size:97
Alignment explanation
Indices: 28491--28782 Score: 487
Period size: 97 Copynumber: 3.0 Consensus size: 97
28481 GTTTCAGCAT
*
28491 GGTTCTGTCTAAAACTAGAGGGGTCTTTAATGGCAAACCTCTGGTAACTTCACCCCATCTATTAA
1 GGTTCTGTCTAAAACTGGAGGGGTCTTTAATGGCAAACCTCTGGTAACTTCACCCCATCTATTAA
* *
28556 CAAATTCCACGACAGTAATCCCATCTAATATA
66 CAAATTCCATGACAGTAATCCCATCTAACATA
*
28588 GGTTCTGTCTAAAACTGGAGGGGTCTTTAATGGCAAGCCTCTGGTAACTTCACCCCATCTATTAA
1 GGTTCTGTCTAAAACTGGAGGGGTCTTTAATGGCAAACCTCTGGTAACTTCACCCCATCTATTAA
* *
28653 CAAATTTCATTG-CATTAATCCCATCTAACATA
66 CAAATTCCA-TGACAGTAATCCCATCTAACATA
* * *
28685 GGTTCTGTCTAAAACTGGAGGGGTCTTTAATGGCAAACCTCTGGTAACTTCATCCTAACTATTAA
1 GGTTCTGTCTAAAACTGGAGGGGTCTTTAATGGCAAACCTCTGGTAACTTCACCCCATCTATTAA
28750 CAAATTCCATGACAGTAATCCCATCTAACATA
66 CAAATTCCATGACAGTAATCCCATCTAACATA
28782 G
1 G
28783 AGTGGTTCAT
Statistics
Matches: 181, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
96 2 0.01
97 178 0.98
98 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (97 bp):
GGTTCTGTCTAAAACTGGAGGGGTCTTTAATGGCAAACCTCTGGTAACTTCACCCCATCTATTAA
CAAATTCCATGACAGTAATCCCATCTAACATA
Found at i:31359 original size:3 final size:3
Alignment explanation
Indices: 31351--31387 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
31341 ATATTCAAAG
31351 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
31388 TGTGTAGCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:31851 original size:17 final size:17
Alignment explanation
Indices: 31832--31865 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
31822 AGTATGATGA
31832 TTTAATTATTATTTTTAT
1 TTTAATTA-TATTTTTAT
*
31850 TTTGATTATATTTTTA
1 TTTAATTATATTTTTA
31866 AAATTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTAATTATATTTTTAT
Found at i:33564 original size:21 final size:20
Alignment explanation
Indices: 33540--33777 Score: 77
Period size: 21 Copynumber: 11.6 Consensus size: 20
33530 CAGTTCCCAG
33540 AATCGCAACGCGATTATGAA
1 AATCGCAACGCGATTATGAA
*
33560 GAATCGCAATGCGA-TA-GTACA
1 -AATCGCAACGCGATTATG-A-A
** * *
33581 AATTCGCATTGCGATCT-TCCAG
1 AA-TCGCAACGCGAT-TAT-GAA
*
33603 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGATTATGAA
**
33623 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGATTATGA-A
* *
33643 AATCGCAACGCGATTCTGAC
1 AATCGCAACGCGATTATGAA
* * *
33663 TATCGCAA--CAAGTATCCGTAA
1 AATCGCAACGCGATTAT--G-AA
*
33684 AATCGCAACGC-A-TATCCGTA
1 AATCGCAACGCGATTAT--GAA
*
33704 AATCGCAACGAC-AATATGTAA
1 AATCGCAACG-CGATTATG-AA
*
33725 AATCGCAACGC-A-TATCCGTA
1 AATCGCAACGCGATTAT--GAA
*
33745 AATCGCAACGAC-AATATGTAA
1 AATCGCAACG-CGATTATG-AA
33766 AATCGCAACGCG
1 AATCGCAACGCG
33778 TATCCGTAAA
Statistics
Matches: 169, Mismatches: 24, Indels: 48
0.70 0.10 0.20
Matches are distributed among these distances:
18 4 0.02
19 5 0.03
20 73 0.43
21 75 0.44
22 9 0.05
23 3 0.02
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGATTATGAA
Found at i:33628 original size:20 final size:20
Alignment explanation
Indices: 33603--33919 Score: 191
Period size: 20 Copynumber: 15.7 Consensus size: 20
33593 GATCTTCCAG
*
33603 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATATGTA
* *
33623 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATATGTA
* *
33643 AATCGCAACGCGATTCTG-A
1 AATCGCAACGCGAATATGTA
* ** * **
33662 CTATCGCAACAAGTATCCGTAA
1 -AATCGCAACGCGAATATGT-A
33684 AATCGCAACGC--ATATCCGTA
1 AATCGCAACGCGAATAT--GTA
33704 AATCGCAACGAC-AATATGTAA
1 AATCGCAACG-CGAATATGT-A
33725 AATCGCAACGC--ATATCCGTA
1 AATCGCAACGCGAATAT--GTA
33745 AATCGCAACGAC-AATATGTAA
1 AATCGCAACG-CGAATATGT-A
* **
33766 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATATGTA
* * *
33786 AATCACAACGAGAATACGTA
1 AATCGCAACGCGAATATGTA
* * *
33806 AATTGCAACGCGTATCTGTA
1 AATCGCAACGCGAATATGTA
* * *
33826 AATTGCAACGAGAATACGTA
1 AATCGCAACGCGAATATGTA
* * **
33846 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATATGTA
*
33866 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATATGT-A
* *
33887 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCGAATATGTA
*
33907 AATCGCAATGCGA
1 AATCGCAACGCGA
33920 TCGATAATTC
Statistics
Matches: 232, Mismatches: 48, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
19 7 0.03
20 160 0.69
21 56 0.24
22 9 0.04
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATATGTA
Found at i:33827 original size:40 final size:41
Alignment explanation
Indices: 33679--33914 Score: 350
Period size: 41 Copynumber: 5.8 Consensus size: 41
33669 AACAAGTATC
*
33679 CGTAAAATCGCAACGCATATCCGTAAATCGCAACGACAATA
1 CGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATA
* *
33720 TGTAAAATCGCAACGCATATCCGTAAATCGCAACGACAATA
1 CGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATA
* * *
33761 TGTAAAATCGCAACGCGTATCCGTAAATCACAACGAGAATA
1 CGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATA
* * * *
33802 CGT-AAATTGCAACGCGTATCTGTAAATTGCAACGAGAATA
1 CGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATA
*
33842 CGT-AAATCGCAATGCGTATCCGTAAATCGCAACGACAATA
1 CGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATA
*
33882 CGTAAAATCGCAACGCGTATCTGTAAATCGCAA
1 CGTAAAATCGCAACGCGTATCCGTAAATCGCAA
33915 TGCGATCGAT
Statistics
Matches: 178, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 71 0.40
41 107 0.60
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.20
Consensus pattern (41 bp):
CGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATA
Found at i:34821 original size:24 final size:24
Alignment explanation
Indices: 34794--34847 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
34784 GTATTCGAAA
34794 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
34818 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
34842 TTTGAT
1 TTTGAT
34848 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:37285 original size:20 final size:20
Alignment explanation
Indices: 37260--37353 Score: 109
Period size: 20 Copynumber: 4.7 Consensus size: 20
37250 GACATTCATT
37260 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCGGAA-A
* **
37280 TGACTATCACAACATGGAAA
1 TGACTATCGCAACGCGGAAA
* *
37300 TGACTATCGCAATGCGGAAT
1 TGACTATCGCAACGCGGAAA
*
37320 TGACTATCGTAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
*
37340 TGACTATCACAACG
1 TGACTATCGCAACG
37354 AGAGAATCGC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 57 0.95
21 3 0.05
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:37382 original size:19 final size:19
Alignment explanation
Indices: 37358--37445 Score: 105
Period size: 19 Copynumber: 4.8 Consensus size: 19
37348 ACAACGAGAG
*
37358 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
37377 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
37396 AATCGCAA--CG-AGTG--
1 AATCGCAACGCGAAATGAA
*
37410 AATCGCAATGCGAAAATGAA
1 AATCGCAACGCG-AAATGAA
37430 AATCGCAACGCGAAAT
1 AATCGCAACGCGAAAT
37446 TAGTTTCTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
14 8 0.14
16 5 0.08
17 2 0.03
18 3 0.05
19 30 0.51
20 11 0.19
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:37432 original size:53 final size:52
Alignment explanation
Indices: 37305--37445 Score: 183
Period size: 53 Copynumber: 2.7 Consensus size: 52
37295 GGAAATGACT
* ** * **
37305 ATCGCAATGCGGAATTGACTATCGTAACGCGGAAATGACTATCACAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGC-GAAATGAAAATCACAACGAGAGA
* *
37359 ATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAAATCACAACGAGAGA
37411 ATCGCAATGCGAAAATGAAAATCGCAACGCGAAAT
1 ATCGCAATGCG-AAATGAAAATCGCAACGCGAAAT
37446 TAGTTTCTTG
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
52 30 0.38
53 38 0.49
54 10 0.13
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.16
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAAATCACAACGAGAGA
Found at i:37511 original size:33 final size:33
Alignment explanation
Indices: 37455--37549 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 33
37445 TTAGTTTCTT
37455 GTTGCGATTTTCATTTTCGCATTGCGATTCACTC
1 GTTGCGATTTTCA-TTTCGCATTGCGATTCACTC
* *
37489 GTTGTGATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCACTC
** *
37522 GTTGCGATAGTCATTTCTGCGTTGCGAT
1 GTTGCGATTTTCATTTC-GCATTGCGAT
37550 AGTATGTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 33 0.61
34 21 0.39
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCACTC
Found at i:37670 original size:14 final size:14
Alignment explanation
Indices: 37651--37684 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
37641 CATCAATTAA
37651 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
37665 ACAAATCATCTTTT
1 ACAAATCAACATTT
37679 ACAAAT
1 ACAAAT
37685 AAATTAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:39116 original size:21 final size:21
Alignment explanation
Indices: 39068--39125 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
39058 TGATGACAGT
* *
39068 GGCCTCTTGAACGGTGGGAGG
1 GGCCTCTTGAACGATGGGAGA
*
39089 GGACTCTTGAACGATAGGG-GA
1 GGCCTCTTGAACGAT-GGGAGA
*
39110 GGCCTCTTGAATGATG
1 GGCCTCTTGAACGATG
39126 ACAGGTGAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 1 0.03
21 27 0.87
22 3 0.10
ACGTcount: A:0.21, C:0.17, G:0.40, T:0.22
Consensus pattern (21 bp):
GGCCTCTTGAACGATGGGAGA
Found at i:39630 original size:20 final size:20
Alignment explanation
Indices: 39607--39655 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
39597 GAAACTTAAA
39607 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
39627 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
39647 ATCGCAACG
1 ATCGCAACG
39656 AGAGAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:39710 original size:19 final size:19
Alignment explanation
Indices: 39688--39730 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
39678 AAATCGCAAC
39688 GCGATTATAGTTTCGCATT
1 GCGATTATAGTTTCGCATT
* * *
39707 GCGATTTTTGTTTCGCGTT
1 GCGATTATAGTTTCGCATT
39726 GCGAT
1 GCGAT
39731 AGTCATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.16, G:0.26, T:0.44
Consensus pattern (19 bp):
GCGATTATAGTTTCGCATT
Found at i:39964 original size:94 final size:94
Alignment explanation
Indices: 39818--40197 Score: 620
Period size: 94 Copynumber: 4.1 Consensus size: 94
39808 ATGGATTGCA
* *
39818 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
39882 TTAGCAGAATTGGTAGCAACCAAACAAAT
66 TTAGCAGAATTGGCAGCAACCAAACAAAT
39911 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
39976 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCAAACAAAT
* *
40005 TTACTTTCAACTAAAAGTCAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* * *
40070 TTAGCAGAATTGACACCAACCAAATAAAT
66 TTAGCAGAATTGGCAGCAACCAAACAAAT
*
40099 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* * *
40163 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCAAACAAAT
40193 TTACT
1 TTACT
40198 AAGCAATCTA
Statistics
Matches: 267, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
93 21 0.08
94 246 0.92
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCAAACAAAT
Found at i:41717 original size:20 final size:19
Alignment explanation
Indices: 41692--41758 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 19
41682 TGAAATAAAA
41692 ATCGCAA-CGAGAGAATGACT
1 ATCGCAAGCG-GA-AATGACT
41712 ATCGCAATGCGGAAATGACT
1 ATCGCAA-GCGGAAATGACT
41732 ATCGCAATGCGGAAATGACT
1 ATCGCAA-GCGGAAATGACT
41752 ATCGCAA
1 ATCGCAA
41759 CGAGAGAATC
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
20 41 0.91
21 2 0.04
22 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (19 bp):
ATCGCAAGCGGAAATGACT
Found at i:41864 original size:21 final size:20
Alignment explanation
Indices: 41803--41879 Score: 93
Period size: 19 Copynumber: 3.9 Consensus size: 20
41793 GCGATTTTGG
41803 TTTCGCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATTTTCAT
**
41822 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATTTTCAT
*
41842 TTTCGTGTTGCGATTTTTCAT
1 TTTCGCGTTGCGA-TTTTCAT
**
41863 TTTCATGTTGCGATTTT
1 TTTCGCGTTGCGATTTT
41880 AAGTTTAGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
19 17 0.34
20 16 0.32
21 17 0.34
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:42463 original size:20 final size:20
Alignment explanation
Indices: 42438--42630 Score: 174
Period size: 20 Copynumber: 9.6 Consensus size: 20
42428 CTTTAAAAAT
42438 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
42458 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
42478 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * *
42499 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* **
42519 CTCGTTGCGATTTATAGATA
1 CGCGTTGCGATTTACGGATA
* * *
42539 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
42559 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
42579 CGCATTGTGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
42599 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
**
42620 ATCGTTGCGAT
1 CGCGTTGCGAT
42631 AGTCAGAATT
Statistics
Matches: 134, Mismatches: 33, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
20 103 0.77
21 31 0.23
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:42524 original size:40 final size:41
Alignment explanation
Indices: 42440--42619 Score: 292
Period size: 40 Copynumber: 4.4 Consensus size: 41
42430 TTAAAAATCG
* *
42440 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
42481 CGTTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
**
42521 CGTTGCGATTTATAGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
* *
42561 CGTTGCGATTTACGGATACGCATTGTGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
42602 CGTTGCGATTTACGGATA
1 CGTTGCGATTTACGGATA
42620 ATCGTTGCGA
Statistics
Matches: 130, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 74 0.57
41 56 0.43
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
Found at i:47358 original size:23 final size:21
Alignment explanation
Indices: 47332--47408 Score: 68
Period size: 23 Copynumber: 3.6 Consensus size: 21
47322 ATAAAAATCC
47332 TTAAAATATATTTATTAATAATT
1 TTAAAA-ATATTTATTAATAA-T
* *
47355 TTAAAAATATAATATTATTAAT
1 TTAAAAATAT-TTATTAATAAT
*
47377 TTAATAAATATTTAAT-ATAAT
1 TTAA-AAATATTTATTAATAAT
*
47398 TT-ATAATATTT
1 TTAAAAATATTT
47409 TTATTTTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.15
20 1 0.02
21 6 0.13
22 12 0.26
23 20 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAAAATATTTATTAATAAT
Found at i:47418 original size:21 final size:21
Alignment explanation
Indices: 47339--47418 Score: 56
Period size: 21 Copynumber: 3.7 Consensus size: 21
47329 TCCTTAAAAT
*
47339 ATATTTATTAATAATTTTAA-AA
1 ATATTTATT-TTAA-TTTAATAA
*
47361 ATATAATATTATTAATTTAATAA
1 ATAT-TTATT-TTAATTTAATAA
* *
47384 ATATTTAATATAATTT-ATAA
1 ATATTTATTTTAATTTAATAA
*
47404 TATTTTTATTTTAAT
1 -ATATTTATTTTAAT
47419 AGAATATACT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
20 4 0.09
21 17 0.36
22 12 0.26
23 14 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTTATTTTAATTTAATAA
Found at i:56105 original size:22 final size:23
Alignment explanation
Indices: 56077--56126 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
56067 GTCGAGGGTT
*
56077 TCATAGGTCCTTCAGGACATA-C
1 TCATAGGTCCTTCAGGACAAATC
*
56099 TCATAGGTCCTTCGGGACAAATC
1 TCATAGGTCCTTCAGGACAAATC
56122 TCATA
1 TCATA
56127 TGCCACTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (23 bp):
TCATAGGTCCTTCAGGACAAATC
Found at i:57588 original size:22 final size:23
Alignment explanation
Indices: 57551--57593 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
57541 TAGTTTAATT
57551 TTTTAATAAAATAAATAAAATAA
1 TTTTAATAAAATAAATAAAATAA
* *
57574 TTTTAAT-TAATAAATTAAAT
1 TTTTAATAAAATAAATAAAAT
57594 TTTTTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TTTTAATAAAATAAATAAAATAA
Found at i:57599 original size:22 final size:23
Alignment explanation
Indices: 57549--57599 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
57539 GTTAGTTTAA
57549 TTTTTTAATAAAATAAATAAAAT
1 TTTTTTAATAAAATAAATAAAAT
** * *
57572 AATTTTAAT-TAATAAATTAAAT
1 TTTTTTAATAAAATAAATAAAAT
57594 TTTTTT
1 TTTTTT
57600 TAAAAAGTGA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTTTTAATAAAATAAATAAAAT
Found at i:58716 original size:21 final size:20
Alignment explanation
Indices: 58636--58840 Score: 83
Period size: 21 Copynumber: 9.9 Consensus size: 20
58626 CGCAAATCAG
*
58636 TTTCCAGATTCGCAACGCGAT
1 TTTCCA-ATTCGCAATGCGAT
**
58657 TATGACAA-TCGCAATGCGAT
1 T-TTCCAATTCGCAATGCGAT
**
58677 TTTCCAATTTCGCGTTGCGAT
1 TTTCCAA-TTCGCAATGCGAT
*
58698 TTTCCCAATTCGCAATGCGAA
1 TTT-CCAATTCGCAATGCGAT
**** *
58719 TAAGTAAATCGCAATGCGAAT
1 TTTCCAATTCGCAATGCG-AT
*** *
58740 TTAGAAAATCGCAATGCGAT
1 TTTCCAATTCGCAATGCGAT
** * * *
58760 ACT-GACTATCGCAATGCAAT
1 TTTCCAAT-TCGCAATGCGAT
*
58780 TTTCCTAATTCGCATTGCGA-
1 TTTCC-AATTCGCAATGCGAT
* **
58800 TTTACATATTCGCGTTGCGAT
1 TTTCCA-ATTCGCAATGCGAT
*
58821 TTTCATAATTCGCAATGCGA
1 TTTC-CAATTCGCAATGCGA
58841 ATACGTAAAT
Statistics
Matches: 136, Mismatches: 37, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
19 6 0.04
20 54 0.40
21 66 0.49
22 10 0.07
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (20 bp):
TTTCCAATTCGCAATGCGAT
Found at i:58737 original size:41 final size:41
Alignment explanation
Indices: 58692--58855 Score: 120
Period size: 41 Copynumber: 4.0 Consensus size: 41
58682 AATTTCGCGT
*
58692 TGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
* *** * * *
58733 TGCGAATTTAGAAAATCGCAATGCG-AT-ACTGACTATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGT-A-AATCGCAA
* * * * **
58774 TGCAATTTTCCTAATTCGCATTGCGATTTACA-T-ATTCGCGT
1 TGCGATTTTCCTAATTCGCAATGCGA-ATA-AGTAAATCGCAA
* *
58815 TGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
58856 CGCTATTAAG
Statistics
Matches: 88, Mismatches: 27, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
39 2 0.02
40 6 0.07
41 77 0.88
43 1 0.01
44 1 0.01
45 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (41 bp):
TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
Found at i:58812 original size:20 final size:21
Alignment explanation
Indices: 58785--58840 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
58775 GCAATTTTCC
58785 TAATTCGCATTGCGATTTACA
1 TAATTCGCATTGCGATTTACA
* *
58806 T-ATTCGCGTTGCGATTTTCA
1 TAATTCGCATTGCGATTTACA
*
58826 TAATTCGCAATGCGA
1 TAATTCGCATTGCGA
58841 ATACGTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (21 bp):
TAATTCGCATTGCGATTTACA
Found at i:58855 original size:20 final size:20
Alignment explanation
Indices: 58830--58941 Score: 118
Period size: 20 Copynumber: 5.5 Consensus size: 20
58820 TTTTCATAAT
58830 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * * *
58850 TCGCAACGCTATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
58870 TCGAAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
58891 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
58911 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
58931 TCGCAATGCGA
1 TCGCAATGCGA
58942 TTTACATAGC
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
19 3 0.04
20 55 0.73
21 17 0.23
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:58896 original size:41 final size:41
Alignment explanation
Indices: 58834--58923 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
58824 CATAATTCGC
* * *
58834 AATGCGAA-TACGTAAATCGCAACGCTATTAAGTAAATCGA
1 AATGCGAATTACGAAAATCGCAACGCGAATAAGTAAATCGA
* * * *
58874 AATGCGAATTAGGAAAATCGCAATGCGAATACGTAAATCGC
1 AATGCGAATTACGAAAATCGCAACGCGAATAAGTAAATCGA
58915 AATGCGAAT
1 AATGCGAAT
58924 CTTACTATCG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 8 0.19
41 34 0.81
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (41 bp):
AATGCGAATTACGAAAATCGCAACGCGAATAAGTAAATCGA
Found at i:59557 original size:14 final size:14
Alignment explanation
Indices: 59538--59659 Score: 73
Period size: 14 Copynumber: 7.6 Consensus size: 14
59528 TTTCATTTCG
59538 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
59552 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
59571 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
59585 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
59604 CGTTGTGATTCTCT
1 CGTTGCGATTCTCT
*
59618 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
59637 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
59651 CGTTGCGAT
1 CGTTGCGAT
59660 AGTCATTTCC
Statistics
Matches: 85, Mismatches: 8, Indels: 30
0.69 0.07 0.24
Matches are distributed among these distances:
14 39 0.46
16 8 0.09
17 8 0.09
19 30 0.35
ACGTcount: A:0.10, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:59563 original size:33 final size:33
Alignment explanation
Indices: 59521--59680 Score: 266
Period size: 33 Copynumber: 4.8 Consensus size: 33
59511 CAAAATCGCA
59521 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
59554 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
59587 TTGCGATTTTCATTTCGCGTTGTGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
59620 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
59653 TTGCGATAGTCATTTCCGCGTTGCGATT
1 TTGCGATTTTCATTT-CGCGTTGCGATT
59681 TTTATTATCT
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
33 110 0.90
34 12 0.10
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:61859 original size:21 final size:21
Alignment explanation
Indices: 61835--61901 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
61825 TCATTCCTCG
61835 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
61856 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
61877 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
61898 AGAG
1 AGAG
61902 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:61859 original size:42 final size:42
Alignment explanation
Indices: 61808--61901 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
61798 CTACTCCTAT
* *
61808 CGTTGAAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCA-TCCTCGAAGAGGT-CCCTCCCAC
* * *
61850 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
*
61892 CATTCAAGAG
1 CGTTCAAGAG
61902 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 4 0.09
42 38 0.86
43 2 0.05
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.21
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
Found at i:63270 original size:14 final size:14
Alignment explanation
Indices: 63251--63286 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
63241 ATTGTTTAAT
63251 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
63265 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
63279 TGATTTGT
1 TGATTTGT
63287 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:63406 original size:19 final size:19
Alignment explanation
Indices: 63384--63527 Score: 122
Period size: 19 Copynumber: 8.4 Consensus size: 19
63374 AAAAATTACT
63384 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
63403 ATCGCAAT--G--AT-ATA
1 ATCGCAATGCGAAATGAAA
63417 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
63436 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
63450 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
63469 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
* *
63483 ATCGTAACGCGAAACT-AAA
1 ATCGCAATGCGAAA-TGAAA
63502 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
63521 ATCGCAA
1 ATCGCAA
63528 CGACAAAATC
Statistics
Matches: 100, Mismatches: 8, Indels: 34
0.70 0.06 0.24
Matches are distributed among these distances:
14 29 0.29
15 4 0.04
16 5 0.05
17 5 0.05
18 5 0.05
19 52 0.52
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:63426 original size:33 final size:33
Alignment explanation
Indices: 63384--63508 Score: 171
Period size: 33 Copynumber: 3.8 Consensus size: 33
63374 AAAAATTACT
* * *
63384 ATCGCAATGCGAAATGAAAATCGCAATGATATA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
63417 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
63450 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
63483 ATCGTAACGCGAAACT-AAAATCGCAA
1 ATCGCAATGCGAAA-TGAAAATCGCAA
63509 TGCGAAATGA
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
33 83 0.99
34 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:63466 original size:66 final size:66
Alignment explanation
Indices: 63384--63508 Score: 189
Period size: 66 Copynumber: 1.9 Consensus size: 66
63374 AAAAATTACT
* * * *
63384 ATCGCAATGCGAAATGAAAATCGCAATGATATAATCGCAATGCGAAA-TGAAAATCGCAACGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAACT-AAAATCGCAACGAGA
63448 GA
65 GA
*
63450 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGTAACGCGAAACTAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAACTAAAATCGCAA
63509 TGCGAAATGA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
66 52 0.98
67 1 0.02
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.15
Consensus pattern (66 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAACTAAAATCGCAACGAGAG
A
Found at i:63536 original size:33 final size:33
Alignment explanation
Indices: 63499--63561 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
63489 ACGCGAAACT
*
63499 AAAATCGCAATGCGAAA-TGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACT-AAAATCGCAACGAC
*
63532 AAAATCGTAACGCGAAACTAAAATCGCAAC
1 AAAATCGCAACGCGAAACTAAAATCGCAAC
63562 ACGAAACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.13
Consensus pattern (33 bp):
AAAATCGCAACGCGAAACTAAAATCGCAACGAC
Found at i:63556 original size:19 final size:19
Alignment explanation
Indices: 63449--63577 Score: 102
Period size: 19 Copynumber: 7.3 Consensus size: 19
63439 GCAACGAGAG
*
63449 AATCGCAATGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
63468 AATCGCAA--CG--AC-AA
1 AATCGCAACGCGAAACTAA
*
63482 AATCGTAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
63501 AATCGCAATGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
63520 AATCGCAA--CG--AC-AA
1 AATCGCAACGCGAAACTAA
*
63534 AATCGTAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
63553 AATCGCAACACGAAACTAA
1 AATCGCAACGCGAAACTAA
*
63572 ATTCGC
1 AATCGC
63578 GTTGCGATTT
Statistics
Matches: 90, Mismatches: 7, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
14 18 0.20
15 2 0.02
16 4 0.04
17 4 0.04
18 5 0.06
19 57 0.63
ACGTcount: A:0.47, C:0.22, G:0.16, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:63567 original size:52 final size:52
Alignment explanation
Indices: 63449--63560 Score: 224
Period size: 52 Copynumber: 2.2 Consensus size: 52
63439 GCAACGAGAG
63449 AATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGTAACGCGAAACTAA
1 AATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGTAACGCGAAACTAA
63501 AATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGTAACGCGAAACTAA
1 AATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGTAACGCGAAACTAA
63553 AATCGCAA
1 AATCGCAA
63561 CACGAAACTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.48, C:0.21, G:0.17, T:0.13
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGTAACGCGAAACTAA
Found at i:63595 original size:19 final size:19
Alignment explanation
Indices: 63573--63723 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
63563 CGAAACTAAA
63573 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
63592 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
63607 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
63625 TTTGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
63640 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
63658 TTCGCATTGCGA--TT-A-
1 TTCGCGTTGCGATTTTCAT
*
63673 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
63691 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
63710 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
63724 AGACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 25 0.26
16 9 0.09
17 9 0.09
19 42 0.44
20 10 0.11
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:63619 original size:33 final size:33
Alignment explanation
Indices: 63577--63703 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
63567 ACTAAATTCG
* *
63577 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
63610 CGTTGCGATTTTCATTTTGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
63643 CGTTGCGATTTTCATTTCGCATTGCGATTATCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
63676 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
63704 AGTAATTTCC
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:63769 original size:20 final size:20
Alignment explanation
Indices: 63697--63769 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
63687 TCATTTCGCA
* *
63697 TTGCGATAGTAATTTCCGCG
1 TTGCGATAGTCATTTCCGTG
* **
63717 TTGCGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTCCG-TG
63737 ATTGCGA-ATGTCATTTCCGTG
1 -TTGCGATA-GTCATTTCCGTG
63758 TTGCGATAGTCA
1 TTGCGATAGTCA
63770 AACTCAAGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 3 0.08
20 22 0.55
21 12 0.30
22 3 0.08
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGTG
Found at i:65044 original size:15 final size:15
Alignment explanation
Indices: 65024--65052 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
65014 TCTTCGGGTT
65024 GCGAAAGTCAGTATC
1 GCGAAAGTCAGTATC
65039 GCGAAAGTCAGTAT
1 GCGAAAGTCAGTAT
65053 TGAGTTGCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (15 bp):
GCGAAAGTCAGTATC
Found at i:65129 original size:41 final size:41
Alignment explanation
Indices: 65039--65147 Score: 139
Period size: 41 Copynumber: 2.7 Consensus size: 41
65029 AGTCAGTATC
* * ** * *
65039 GCGAAAGTCAGTATTGAGTTGCGAAATT-AAGTATCGAGTT
1 GCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGAGTT
*
65079 GCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGCGTT
1 GCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGAGTT
*
65120 GCGATAGTCAGTATCGCGTTGCGATTTT
1 GCGAAAGTCAGTATCGCGTTGCGATTTT
65148 CCAAATTCGC
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 24 0.40
41 36 0.60
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.34
Consensus pattern (41 bp):
GCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGAGTT
Found at i:65144 original size:20 final size:20
Alignment explanation
Indices: 65021--65143 Score: 105
Period size: 20 Copynumber: 6.3 Consensus size: 20
65011 TTTTCTTCGG
65021 GTTGCGAAAGTCAGTAT--C
1 GTTGCGAAAGTCAGTATCGC
* *
65039 ---GCGAAAGTCAGTATTGA
1 GTTGCGAAAGTCAGTATCGC
* * *
65056 GTTGCGAAATTAAGTATCGA
1 GTTGCGAAAGTCAGTATCGC
65076 GTTGCGAAAGTCAGTATCGC
1 GTTGCGAAAGTCAGTATCGC
** *
65096 GTTGCGATTTTGT-ATTATCGC
1 GTTGCGA--AAGTCAGTATCGC
*
65117 GTTGCGATAGTCAGTATCGC
1 GTTGCGAAAGTCAGTATCGC
65137 GTTGCGA
1 GTTGCGA
65144 TTTTCCAAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 14
0.77 0.11 0.13
Matches are distributed among these distances:
15 14 0.16
19 3 0.04
20 52 0.61
21 14 0.16
22 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (20 bp):
GTTGCGAAAGTCAGTATCGC
Found at i:65162 original size:21 final size:21
Alignment explanation
Indices: 65133--65202 Score: 131
Period size: 21 Copynumber: 3.3 Consensus size: 21
65123 ATAGTCAGTA
*
65133 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
65154 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
65175 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
65196 TCGCATT
1 TCGCATT
65203 TCGAATTGGG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:65163 original size:41 final size:41
Alignment explanation
Indices: 65077--65202 Score: 130
Period size: 41 Copynumber: 3.0 Consensus size: 41
65067 AAGTATCGAG
* ** * *
65077 TTGCGAAAGTCAGTATCGCGTTGCGATTTT-GTATTATCGCG
1 TTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAAT-TCGCA
65118 TTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAATTCGCA
1 TTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAATTCGCA
** * *
65159 TTGCGATTTTCCA-AATTCGCATTGCGATTTTCCAAATTCGCA
1 TTGCGATAGT-CAGTA-TCGCGTTGCGATTTTCCAAATTCGCA
65201 TT
1 TT
65203 TCGAATTGGG
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
41 42 0.58
42 31 0.42
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (41 bp):
TTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAATTCGCA
Found at i:65221 original size:42 final size:42
Alignment explanation
Indices: 65132--65221 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
65122 GATAGTCAGT
* * *
65132 ATCGCGTTGCGATTTTCCAAATTCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTCCAAATTCGCATTGCGAATTGCCAAA
* * **
65174 TTCGCATTGCGATTTTCCAAATTCGCATTTCGAATTGGGAAA
1 ATCGCATTGCGATTTTCCAAATTCGCATTGCGAATTGCCAAA
65216 ATCGCA
1 ATCGCA
65222 ACGCGAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (42 bp):
ATCGCATTGCGATTTTCCAAATTCGCATTGCGAATTGCCAAA
Found at i:65248 original size:21 final size:22
Alignment explanation
Indices: 65192--65248 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
65182 GCGATTTTCC
*
65192 AAATTCGCATTTCG-AATTGGGA
1 AAATT-GCATTGCGAAATTGGGA
* **
65214 AAATCGCAACGCGAAATT-GGA
1 AAATTGCATTGCGAAATTGGGA
65235 AAATTGCATTGCGA
1 AAATTGCATTGCGA
65249 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (22 bp):
AAATTGCATTGCGAAATTGGGA
Found at i:73989 original size:3 final size:3
Alignment explanation
Indices: 73981--74008 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
73971 ACTCACGGTT
73981 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
74009 CTAACTTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:74868 original size:23 final size:23
Alignment explanation
Indices: 74842--74905 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
74832 CAGCTCATAT
74842 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
74865 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
74888 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
74906 TATAATAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:75096 original size:103 final size:103
Alignment explanation
Indices: 74916--75138 Score: 428
Period size: 103 Copynumber: 2.2 Consensus size: 103
74906 TATAATAATG
74916 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
*
74981 CACCAGAGTTCACACATGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
75019 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
1 TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
*
75084 CACCAGACTTCACACCTGTTCCAAAGAATACATATATA
66 CACCAGACTTCACACATGTTCCAAAGAATACATATATA
75122 TCCCGAAGGACCACATA
1 TCCCGAAGGACCACATA
75139 GACCCTCGAC
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 118 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
TCCCGAAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCT
CACCAGACTTCACACATGTTCCAAAGAATACATATATA
Found at i:75998 original size:64 final size:64
Alignment explanation
Indices: 75890--76031 Score: 164
Period size: 64 Copynumber: 2.2 Consensus size: 64
75880 TAATGAAGGT
* * * *
75890 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGTATTCGATGTTGT-ATTATTACTGGG
1 ATGCATCGATGCACTACTGATGCATCGATGCATAAAATGCATTCGATATT-TCATTATTAATGGG
* * * *
75954 ATGCATCGATGCA-TGCCTTATGCATCGATGCACT-AATTGCATTCGATATTTCCTTATTAATGG
1 ATGCATCGATGCACT-ACTGATGCATCGATGCA-TAAAATGCATTCGATATTTCATTATTAATGG
76017 G
64 G
76018 ATGCATCGATGCAC
1 ATGCATCGATGCAC
76032 AAATTGCATT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
63 2 0.03
64 63 0.95
65 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTGATGCATCGATGCATAAAATGCATTCGATATTTCATTATTAATGGG
Found at i:76068 original size:45 final size:45
Alignment explanation
Indices: 75973--76076 Score: 124
Period size: 45 Copynumber: 2.3 Consensus size: 45
75963 TGCATGCCTT
* * * *
75973 ATGCATCGATGCACTAATTGCATTCGATATTTCCTTATTAATGGG
1 ATGCATCGATGCACAAATTGCATTCGATATTTCATTATTAAAGAG
76018 ATGCATCGATGCACAAATTGCATTCGATGTATTT-ATT-TTAAA-AG
1 ATGCATCGATGCACAAATTGCATTCGA--TATTTCATTATTAAAGAG
76062 AGTGCATCGATGCAC
1 A-TGCATCGATGCAC
76077 TACCAATGCA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
44 2 0.04
45 43 0.83
46 2 0.04
47 5 0.10
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (45 bp):
ATGCATCGATGCACAAATTGCATTCGATATTTCATTATTAAAGAG
Found at i:90592 original size:21 final size:21
Alignment explanation
Indices: 90561--90681 Score: 133
Period size: 21 Copynumber: 5.9 Consensus size: 21
90551 CGATTTACAT
*
90561 ATTCGCATTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCCAA
* **
90582 GTTCGCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATAGTCCAA
*
90603 ATT--CGTTGCGATAGTCTAA
1 ATTCGCGTTGCGATAGTCCAA
*
90622 ATTCGCGTTGCGATTTATTCCAA
1 ATTCGCGTTGCGA--TAGTCCAA
90645 ATT--CGTTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCCAA
*
90664 GTTCGCGTTGCGATAGTC
1 ATTCGCGTTGCGATAGTC
90682 TCCAAGTTTA
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
19 25 0.30
21 48 0.59
23 9 0.11
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (21 bp):
ATTCGCGTTGCGATAGTCCAA
Found at i:90611 original size:19 final size:19
Alignment explanation
Indices: 90587--90656 Score: 77
Period size: 19 Copynumber: 3.5 Consensus size: 19
90577 TCCAAGTTCG
90587 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
** *
90606 CGTTGCGATAGTCTAAATT
1 CGTTGCGATTTTCCAAATT
90625 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGA-TT-TTCCAAATT
90648 CGTTGCGAT
1 CGTTGCGAT
90657 AGTCCAAGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 16 0.39
20 1 0.02
21 16 0.39
22 1 0.02
23 7 0.17
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:90644 original size:42 final size:41
Alignment explanation
Indices: 90568--90677 Score: 186
Period size: 42 Copynumber: 2.7 Consensus size: 41
90558 CATATTCGCA
90568 TTGCGATAGTCCAAGTTCGCGTTGCGA-TTTTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTTTCCAAATTCG
* *
90608 TTGCGATAGTCTAAATTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTT-TTCCAAATTCG
90650 TTGCGATAGTCCAAGTTCGCGTTGCGAT
1 TTGCGATAGTCCAAGTTCGCGTTGCGAT
90678 AGTCTCCAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 25 0.39
41 2 0.03
42 37 0.58
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (41 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTTTCCAAATTCG
Found at i:90686 original size:42 final size:40
Alignment explanation
Indices: 90568--90705 Score: 177
Period size: 42 Copynumber: 3.4 Consensus size: 40
90558 CATATTCGCA
*
90568 TTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAATTCG
* *
90608 TTGCGATAGTCTAAATTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAATTCG
* **
90650 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCTCCAAGTTTA
1 TTGCGATAGTCCAAGTTCGCGTTGCGATA-T-TCCAAATTCG
*
90692 TTGCGATAGGCCAA
1 TTGCGATAGTCCAA
90706 AATCGCAATG
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
40 27 0.32
41 1 0.01
42 57 0.67
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (40 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAATTCG
Found at i:91900 original size:42 final size:41
Alignment explanation
Indices: 91837--92013 Score: 202
Period size: 42 Copynumber: 4.3 Consensus size: 41
91827 ATTTTGGCCT
*
91837 ATCGCAA--CGAACTTGGAGACTATCGCAACGAACTTGTAATAA
1 ATCGCAACGCGAACTT-G-GACTATCGCAACGAATTTG-AATAA
91879 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGAAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTG-AATAA
* * *
91921 ATCGCAACGCGAATTTGGACTATCGCAACAAATTTGGA-AA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGAATAA
* *
91961 ATCGCAACGCGAACTTGGATTATCGCAATACGAATATG--TAA
1 ATCGCAACGCGAACTTGGACTATCGC-A-ACGAATTTGAATAA
*
92002 ATCGCAATGCGA
1 ATCGCAACGCGA
92014 TAGTAGAAGT
Statistics
Matches: 120, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
40 26 0.22
41 15 0.12
42 71 0.59
43 1 0.01
44 7 0.06
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (41 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGAATAA
Found at i:91945 original size:21 final size:21
Alignment explanation
Indices: 91879--91988 Score: 102
Period size: 21 Copynumber: 5.3 Consensus size: 21
91869 CTTGTAATAA
* *
91879 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAATTTGGAAT
*
91900 ATCGCAA--CGAATTTGAAAT
1 ATCGCAACGCGAATTTGGAAT
*
91919 AAATCGCAACGCGAATTTGGACT
1 --ATCGCAACGCGAATTTGGAAT
* *
91942 ATCGCAA--CAAATTTGGAAA
1 ATCGCAACGCGAATTTGGAAT
* *
91961 ATCGCAACGCGAACTTGGATT
1 ATCGCAACGCGAATTTGGAAT
91982 ATCGCAA
1 ATCGCAA
91989 TACGAATATG
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
19 25 0.35
21 36 0.51
23 10 0.14
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGAATTTGGAAT
Found at i:91956 original size:19 final size:19
Alignment explanation
Indices: 91836--91988 Score: 99
Period size: 21 Copynumber: 7.4 Consensus size: 19
91826 GATTTTGGCC
*
91836 TATCGCAACGAACTTGGAGA
1 TATCGCAACGAATTTGGA-A
* *
91856 CTATCGCAACGAACTTGTAA
1 -TATCGCAACGAATTTGGAA
* *
91876 TAAATCGCAACGCGAACTTGGAC
1 T--ATCGCAA--CGAATTTGGAA
*
91899 TATCGCAACGAATTTGAAA
1 TATCGCAACGAATTTGGAA
*
91918 TAAATCGCAACGCGAATTTGGAC
1 T--ATCGCAA--CGAATTTGGAA
*
91941 TATCGCAACAAATTTGGAA
1 TATCGCAACGAATTTGGAA
* * *
91960 AATCGCAACGCGAACTTGGAT
1 TATCGCAA--CGAATTTGGAA
91981 TATCGCAA
1 TATCGCAA
91989 TACGAATATG
Statistics
Matches: 107, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
19 26 0.24
20 1 0.01
21 60 0.56
23 20 0.19
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (19 bp):
TATCGCAACGAATTTGGAA
Found at i:97160 original size:20 final size:20
Alignment explanation
Indices: 97137--97204 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
97127 TCGTGCATTG
97137 GATGCACAGCAGGATGCATC
1 GATGCACAGCAGGATGCATC
* **
97157 GATGCACAACCTTGATGCATC
1 GATGCAC-AGCAGGATGCATC
*
97178 GATGCACAGAAGGATGCATC
1 GATGCACAGCAGGATGCATC
97198 GATGCAC
1 GATGCAC
97205 TAATTGCATT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 23 0.57
21 17 0.43
ACGTcount: A:0.31, C:0.25, G:0.26, T:0.18
Consensus pattern (20 bp):
GATGCACAGCAGGATGCATC
Found at i:97277 original size:22 final size:21
Alignment explanation
Indices: 97225--97303 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
97215 CGGTGTTTGA
97225 GTGCATGGATGCAC-TGCATG
1 GTGCATGGATGCACTTGCATG
*
97245 GTGCATCGATGCACTAGTGCAT-
1 GTGCATGGATGCACT--TGCATG
*
97267 GTGCATGGATGCAC-TGCAGGG
1 GTGCATGGATGCACTTGCA-TG
97288 GTGCATGGATGCACTT
1 GTGCATGGATGCACTT
97304 TGACACCCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
19 4 0.08
20 13 0.26
21 14 0.28
22 14 0.28
23 5 0.10
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.25
Consensus pattern (21 bp):
GTGCATGGATGCACTTGCATG
Found at i:97402 original size:29 final size:29
Alignment explanation
Indices: 97381--97438 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
97371 AAACTTTGAA
97381 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
97410 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
97439 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:97428 original size:30 final size:30
Alignment explanation
Indices: 97381--97440 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
97371 AAACTTTGAA
97381 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
97410 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
97441 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:100269 original size:34 final size:32
Alignment explanation
Indices: 100211--100280 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
100201 ACCTTACAAC
* *
100211 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
100243 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
100277 TCCC
1 TCCC
100281 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:100520 original size:20 final size:21
Alignment explanation
Indices: 100495--100533 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
100485 TGTTGTATAT
100495 AGCCGTTGGGGATG-TTTTAG
1 AGCCGTTGGGGATGATTTTAG
*
100515 AGCCGTTTGGGATGATTTT
1 AGCCGTTGGGGATGATTTT
100534 TCTACTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.15, C:0.10, G:0.36, T:0.38
Consensus pattern (21 bp):
AGCCGTTGGGGATGATTTTAG
Found at i:100661 original size:21 final size:21
Alignment explanation
Indices: 100637--100701 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
100627 CTAGCCGTTG
*
100637 CAGCCTTCG-TGCATGGATGCA
1 CAGCCTT-GATGCATCGATGCA
**
100658 CAG-CAGGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCA
100678 CAGCCTTGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCA
100699 CAG
1 CAG
100702 AAGGATGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.03
20 15 0.41
21 21 0.57
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (21 bp):
CAGCCTTGATGCATCGATGCA
Found at i:100675 original size:20 final size:20
Alignment explanation
Indices: 100646--100719 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
100636 GCAGCCTTCG
*
100646 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
**
100666 TGCATCGATGCACAGCCTTGA
1 TGCATCGATGCACAG-CAGGA
*
100687 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGCAGGA
*
100707 TGAATCGATGCAC
1 TGCATCGATGCAC
100720 TAATTGCATT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
20 28 0.61
21 18 0.39
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:100682 original size:41 final size:41
Alignment explanation
Indices: 100637--100719 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
100627 CTAGCCGTTG
* * *
100637 CAGCCTTCG-TGCATGGATGCACAGCAGGATGCATCGATGCA
1 CAGCCTT-GATGCATCGATGCACAGAAGGATGAATCGATGCA
100678 CAGCCTTGATGCATCGATGCACAGAAGGATGAATCGATGCA
1 CAGCCTTGATGCATCGATGCACAGAAGGATGAATCGATGCA
100719 C
1 C
100720 TAATTGCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.19
Consensus pattern (41 bp):
CAGCCTTGATGCATCGATGCACAGAAGGATGAATCGATGCA
Found at i:100787 original size:22 final size:21
Alignment explanation
Indices: 100740--100818 Score: 92
Period size: 22 Copynumber: 3.8 Consensus size: 21
100730 CGGTGTTTGA
100740 GTGCATGGATGCAC-TGCATG
1 GTGCATGGATGCACTTGCATG
100760 GTGCATGGATGCACTAGTGCA-G
1 GTGCATGGATGCACT--TGCATG
*
100782 GTGCATGGATGCAC-TGCAGGG
1 GTGCATGGATGCACTTGCA-TG
*
100803 GTACATGGATGCACTT
1 GTGCATGGATGCACTT
100819 TGACACCCTT
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
19 4 0.08
20 14 0.27
21 14 0.27
22 16 0.31
23 4 0.08
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (21 bp):
GTGCATGGATGCACTTGCATG
Found at i:100918 original size:29 final size:29
Alignment explanation
Indices: 100897--100954 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
100887 AAACTTTGAA
100897 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
*
100926 TAAATTCAATTCAAGTCTAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
100955 TGCCTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 13 0.50
31 2 0.08
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:100948 original size:30 final size:30
Alignment explanation
Indices: 100897--100956 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
100887 AAACTTTGAA
100897 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
*
100926 TAAATTCAATTCAAGTCTAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
100957 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:104377 original size:45 final size:45
Alignment explanation
Indices: 104312--104399 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
104302 GTATTGAGCC
*
104312 AGCAACAGATGTGTGCAGCAG-CTCTGCTGAACCCAATACTGATGA
1 AGCAACAGATGCGTGCAGCAGTC-CTGCTGAACCCAATACTGATGA
* **
104357 AGCAACAGATGCGTGTAGCAGTCCTGCTGAACCTGATACTGAT
1 AGCAACAGATGCGTGCAGCAGTCCTGCTGAACCCAATACTGAT
104400 AATCATCGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 37 0.97
46 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.22
Consensus pattern (45 bp):
AGCAACAGATGCGTGCAGCAGTCCTGCTGAACCCAATACTGATGA
Found at i:111235 original size:21 final size:21
Alignment explanation
Indices: 111211--111271 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 21
111201 CGTTAGACAA
111211 GGGGAATCGGTACCCCCTGGG
1 GGGGAATCGGTACCCCCTGGG
* * *
111232 GGGGAATCTGT-TCCCCTTGG
1 GGGGAATCGGTACCCCCTGGG
*
111252 GGGAAATCGGTACCCCCTGG
1 GGGGAATCGGTACCCCCTGG
111272 ACATTCTGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.15, C:0.28, G:0.38, T:0.20
Consensus pattern (21 bp):
GGGGAATCGGTACCCCCTGGG
Found at i:111570 original size:3 final size:3
Alignment explanation
Indices: 111562--111613 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
111552 GTTTCCAACA
111562 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
111610 AAT A
1 AAT A
111614 TAAATATAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:111640 original size:9 final size:9
Alignment explanation
Indices: 111564--111646 Score: 50
Period size: 9 Copynumber: 8.9 Consensus size: 9
111554 TTCCAACAAA
111564 TAATAATAA-
1 TAATAA-AAT
111573 TAATAATAA-
1 TAATAA-AAT
111582 TAATAATAA-
1 TAATAA-AAT
111591 TAATAATAA-
1 TAATAA-AAT
111600 TAATAATAA-
1 TAATAA-AAT
111609 TAATATAAAT
1 TAATA-AAAT
111619 ATAAATAAAAT
1 -T-AATAAAAT
*
111630 TAATAACAT
1 TAATAAAAT
111639 TAATAAAA
1 TAATAAAA
111647 CATATTTATC
Statistics
Matches: 68, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
9 57 0.84
10 2 0.03
11 5 0.07
12 4 0.06
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (9 bp):
TAATAAAAT
Found at i:112005 original size:24 final size:24
Alignment explanation
Indices: 111957--112141 Score: 271
Period size: 24 Copynumber: 7.6 Consensus size: 24
111947 CAGCATCAAT
* *
111957 GTGCCACGTAGAATAGGCACACAAA
1 GTGCCTCGTAGAAT-TGCACACAAA
*
111982 GTGCCTCGTATAATTGCACACAAA
1 GTGCCTCGTAGAATTGCACACAAA
* *
112006 GTGCCTCGTAAAATATGCATACAAA
1 GTGCCTCGTAGAAT-TGCACACAAA
*
112031 GTGCGTCGTAGAATATGCACACAAA
1 GTGCCTCGTAGAAT-TGCACACAAA
*
112056 GTGCCTCTTAGAATTGCACACAAA
1 GTGCCTCGTAGAATTGCACACAAA
*
112080 GTGCCTCTTAGAATTGCACACAAA
1 GTGCCTCGTAGAATTGCACACAAA
112104 GTGCCTCGTAGAATTGCACACAAA
1 GTGCCTCGTAGAATTGCACACAAA
112128 GTGCCTCGTAGAAT
1 GTGCCTCGTAGAAT
112142 ATACATGTAT
Statistics
Matches: 148, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
24 93 0.63
25 55 0.37
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (24 bp):
GTGCCTCGTAGAATTGCACACAAA
Found at i:112084 original size:74 final size:73
Alignment explanation
Indices: 111957--112141 Score: 282
Period size: 74 Copynumber: 2.5 Consensus size: 73
111947 CAGCATCAAT
* * *
111957 GTGCCACGTAGAATAGGCACACAAAGTGCCTCGTATAATTGCACACAAAGTGCCTCGTAAAATAT
1 GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATTGCACACAAAGTGCCTCGTAAAAT-T
*
112022 GCATACAAA
65 GCACACAAA
* * * *
112031 GTGCGTCGTAGAATATGCACACAAAGTGCCTCTTAGAATTGCACACAAAGTGCCTCTTAGAATTG
1 GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATTGCACACAAAGTGCCTCGTAAAATTG
112096 CACACAAA
66 CACACAAA
112104 GTGCCTCGTAGAAT-TGCACACAAAGTGCCTCGTAGAAT
1 GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAAT
112142 ATACATGTAT
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
72 23 0.23
73 22 0.22
74 56 0.55
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (73 bp):
GTGCCTCGTAGAATATGCACACAAAGTGCCTCGTAGAATTGCACACAAAGTGCCTCGTAAAATTG
CACACAAA
Found at i:112110 original size:48 final size:48
Alignment explanation
Indices: 111957--112141 Score: 271
Period size: 49 Copynumber: 3.8 Consensus size: 48
111947 CAGCATCAAT
* * *
111957 GTGCCACGTAGAATAGGCACACAAAGTGCCTCGTATAATTGCACACAAA
1 GTGCCTCGTAGAAT-TGCACACAAAGTGCCTCGTAGAATTGCACACAAA
* * *
112006 GTGCCTCGTAAAATATGCATACAAAGTGCGTCGTAGAATATGCACACAAA
1 GTGCCTCGTAGAAT-TGCACACAAAGTGCCTCGTAGAAT-TGCACACAAA
* *
112056 GTGCCTCTTAGAATTGCACACAAAGTGCCTCTTAGAATTGCACACAAA
1 GTGCCTCGTAGAATTGCACACAAAGTGCCTCGTAGAATTGCACACAAA
112104 GTGCCTCGTAGAATTGCACACAAAGTGCCTCGTAGAAT
1 GTGCCTCGTAGAATTGCACACAAAGTGCCTCGTAGAAT
112142 ATACATGTAT
Statistics
Matches: 122, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
48 46 0.38
49 54 0.44
50 22 0.18
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (48 bp):
GTGCCTCGTAGAATTGCACACAAAGTGCCTCGTAGAATTGCACACAAA
Found at i:113187 original size:13 final size:13
Alignment explanation
Indices: 113169--113193 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
113159 TCCAAAAAAA
113169 TAATCAAACATTC
1 TAATCAAACATTC
113182 TAATCAAACATT
1 TAATCAAACATT
113194 TAAACATTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
TAATCAAACATTC
Found at i:117406 original size:22 final size:22
Alignment explanation
Indices: 117387--117429 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
117377 GAACTCGATC
117387 CAAGCTCAATTTGAGCTCGACT
1 CAAGCTCAATTTGAGCTCGACT
*
117409 CAAGCTCGATTTGAGCTCGAC
1 CAAGCTCAATTTGAGCTCGAC
117430 AGGTTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (22 bp):
CAAGCTCAATTTGAGCTCGACT
Found at i:120183 original size:7 final size:7
Alignment explanation
Indices: 120152--120229 Score: 86
Period size: 7 Copynumber: 11.3 Consensus size: 7
120142 GTGCATAACT
120152 TAAACCC
1 TAAACCC
*
120159 TAAGCCC
1 TAAACCC
* *
120166 TAAATCA
1 TAAACCC
120173 TAAACCC
1 TAAACCC
120180 TAAA-CC
1 TAAACCC
120186 TAAACCC
1 TAAACCC
120193 TAAACCC
1 TAAACCC
*
120200 TAAACTC
1 TAAACCC
*
120207 TAAACAC
1 TAAACCC
*
120214 TAAACCA
1 TAAACCC
*
120221 TAAATCC
1 TAAACCC
120228 TA
1 TA
120230 TCACATAATT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
6 6 0.10
7 52 0.90
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:120324 original size:14 final size:14
Alignment explanation
Indices: 120305--120334 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
120295 TATAATTATC
*
120305 AATAATGTATTTTT
1 AATAATGTAATTTT
120319 AATAATGTAATTTT
1 AATAATGTAATTTT
120333 AA
1 AA
120335 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:123292 original size:15 final size:16
Alignment explanation
Indices: 123272--123305 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
123262 TCATAGATAA
*
123272 AAATGTAA-TGTAAAT
1 AAATGTAATTGGAAAT
123287 AAATGTAATTGGAAAT
1 AAATGTAATTGGAAAT
123303 AAA
1 AAA
123306 ATATTTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (16 bp):
AAATGTAATTGGAAAT
Found at i:125303 original size:43 final size:40
Alignment explanation
Indices: 125242--125349 Score: 119
Period size: 43 Copynumber: 2.6 Consensus size: 40
125232 TGGTGGGGAA
*
125242 GACACTACTCATACGTGATGAAGAGATCTAGTCTGCTAAGCG-T
1 GACACGACTCATACGTGATGAAGAGATCTAGTC-GCT--G-GAT
* * * * *
125285 GACACGACTCCTACGTGATGAGGAGATTTGGTCGGTGGAT
1 GACACGACTCATACGTGATGAAGAGATCTAGTCGCTGGAT
125325 GACACGACTCATACGTGATGAAGAG
1 GACACGACTCATACGTGATGAAGAG
125350 TTCTGTCCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.02
40 25 0.45
42 2 0.04
43 28 0.50
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (40 bp):
GACACGACTCATACGTGATGAAGAGATCTAGTCGCTGGAT
Found at i:125602 original size:40 final size:42
Alignment explanation
Indices: 125514--125611 Score: 121
Period size: 40 Copynumber: 2.4 Consensus size: 42
125504 ATAACACGGT
125514 TCCTACGTGATGAGGACAACTGGTTATCAGGGGTGACACAAC
1 TCCTACGTGATGAGGACAACTGGTTATCAGGGGTGACACAAC
* * * **
125556 TCCTACGTGATGAGGAGATCTGG-T-T-GGGGGATGACACATG
1 TCCTACGTGATGAGGACAACTGGTTATCAGGGG-TGACACAAC
125596 TCCTACGTGATGAGGA
1 TCCTACGTGATGAGGA
125612 TGTCATGCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
39 4 0.08
40 24 0.48
41 1 0.02
42 21 0.42
ACGTcount: A:0.26, C:0.18, G:0.33, T:0.23
Consensus pattern (42 bp):
TCCTACGTGATGAGGACAACTGGTTATCAGGGGTGACACAAC
Found at i:125626 original size:130 final size:131
Alignment explanation
Indices: 125277--125629 Score: 317
Period size: 130 Copynumber: 2.7 Consensus size: 131
125267 ATCTAGTCTG
* * * * * *
125277 CTAAGCGTGACACGACTCCTACGTGATGAGGAGATTTGGTCGGTGGATGACACGA-CTCATACGT
1 CTAAGGGTGACACGACTCCTACGTGATGAGGAGATCTGGTTGGGGGATGACAC-ATGTCCTACGT
* * * ****
125341 GATGAAGAGTTC-TGTCCATCTTTAGGGAAGGTGATAACATAGTTCCTACGCTATGTGGATGGTT
65 GATGAGGAG-TCATG-CCATCTTTA-GGAA-GTGATAACACAGTTCCTACGCTATGAGGACAACT
125405 AGTTAT
126 AGTTAT
* * * * **
125411 CTAATGGTGACACGACTCCTACGTGATAAGGAGGTCTGGTT-AGGGATG--ACATGGTTCCTATA
1 CTAAGGGTGACACGACTCCTACGTGATGAGGAGATCTGGTTGGGGGATGACACAT-G-TCCTACG
** * * *
125473 TGATGAGGACAACAAGCCATCTTTAGGAA-TGATAACACGGTTCCTACG-TGATGAGGACAACTG
64 TGATGAGGA-GTCATGCCATCTTTAGGAAGTGATAACACAGTTCCTACGCT-ATGAGGACAACTA
125536 GTTAT
127 GTTAT
* *
125541 C-AGGGGTGACACAACTCCTACGTGATGAGGAGATCTGGTTGGGGGATGACACATGTCCTACGTG
1 CTAAGGGTGACACGACTCCTACGTGATGAGGAGATCTGGTTGGGGGATGACACATGTCCTACGTG
*
125605 ATGAGGATGTCATGCCTTCTTTAGG
66 ATGAGGA-GTCATGCCATCTTTAGG
125630 GATAATGGTT
Statistics
Matches: 173, Mismatches: 37, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
129 35 0.20
130 64 0.37
131 3 0.02
132 8 0.05
133 27 0.16
134 36 0.21
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (131 bp):
CTAAGGGTGACACGACTCCTACGTGATGAGGAGATCTGGTTGGGGGATGACACATGTCCTACGTG
ATGAGGAGTCATGCCATCTTTAGGAAGTGATAACACAGTTCCTACGCTATGAGGACAACTAGTTA
T
Found at i:125739 original size:34 final size:35
Alignment explanation
Indices: 125701--125769 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
125691 AGATAAATTC
125701 GTTTCAA-GGAAA-ATGACTCAAAGATAGGTGTTTT
1 GTTTCAAGGGAAACA-GACTCAAAGATAGGTGTTTT
125735 GTTTCAAGGGAAACAGACTCAAAGATAGGTGTTTT
1 GTTTCAAGGGAAACAGACTCAAAGATAGGTGTTTT
125770 TAAAAGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
34 7 0.21
35 25 0.76
36 1 0.03
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (35 bp):
GTTTCAAGGGAAACAGACTCAAAGATAGGTGTTTT
Found at i:125801 original size:66 final size:65
Alignment explanation
Indices: 125731--125958 Score: 221
Period size: 67 Copynumber: 3.4 Consensus size: 65
125721 AAGATAGGTG
* * *
125731 TTTTGTTTCAAGGGAAACAGACTCAAAGATAGGTGTTTTT-AAAAGAAAATGTCTTGAGAGACAA
1 TTTTGTTTCAAGAGAAACA-ACTCAAAGATA-GTTTTTTTAAAAAGAAAATGTCTAGAGAGACAA
125795 AA
64 AA
* * *
125797 TTTTGTTTCAA-AGGAAACAAACTC-AA-ATATTTTTTTCTCAAAAGAAATTGTCTCAAGAGAGA
1 TTTTGTTTCAAGA-GAAAC-AACTCAAAGATAGTTTTTT-TAAAAAGAAAATGTCT--AGAGAGA
125859 CAAAA
61 CAAAA
* * * * * * *
125864 ATTTGTTTCCAGAGAAACATACTCAAAGATTTGTTTTTTTAAAAAGGAAACTATCTCGAGAGGCA
1 TTTTGTTTCAAGAGAAACA-ACTCAAAGA-TAGTTTTTTTAAAAA-GAAAATGTCTAGAGAGACA
125929 AAA
63 AAA
125932 TTTTGTTTCAAGAGAAACAACTCAAAG
1 TTTTGTTTCAAGAGAAACAACTCAAAG
125959 GATACTGATA
Statistics
Matches: 134, Mismatches: 16, Indels: 23
0.77 0.09 0.13
Matches are distributed among these distances:
63 5 0.04
64 4 0.03
65 15 0.11
66 21 0.16
67 38 0.28
68 30 0.22
69 6 0.04
70 15 0.11
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (65 bp):
TTTTGTTTCAAGAGAAACAACTCAAAGATAGTTTTTTTAAAAAGAAAATGTCTAGAGAGACAAAA
Found at i:126082 original size:33 final size:33
Alignment explanation
Indices: 126042--126109 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
126032 TTGAATCCCT
126042 AAAGATACCCCAACATTCGA-TGTTGATTGCTTC
1 AAAGATACCCCAACATTC-ATTGTTGATTGCTTC
*
126075 AAAGATACCCCAATATTCATTGTTGATTGCTTC
1 AAAGATACCCCAACATTCATTGTTGATTGCTTC
126108 AA
1 AA
126110 CACTGATTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.32
Consensus pattern (33 bp):
AAAGATACCCCAACATTCATTGTTGATTGCTTC
Found at i:127075 original size:3 final size:3
Alignment explanation
Indices: 127067--127105 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
127057 CTTTTAATAC
127067 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT AT
127106 ATTTTACAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:127711 original size:17 final size:18
Alignment explanation
Indices: 127670--127711 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
127660 AGGTTTACAA
*
127670 TTTATTTTTCTAATATAT
1 TTTAATTTTCTAATATAT
*
127688 TTT-ATTTTCTAAT-TTT
1 TTTAATTTTCTAATATAT
127704 TTTAATTT
1 TTTAATTT
127712 GAAATAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 13 0.62
18 3 0.14
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTAATTTTCTAATATAT
Done.