Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002896.1 Hibiscus syriacus cultivar Beakdansim tig00005985_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: 109421
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:1484 original size:27 final size:27
Alignment explanation
Indices: 1442--1509 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
1432 GTGTAGGAAT
1442 TATAGAG--ATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
1467 TATAGAGATATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
1494 TATAGAGATATGATTT
1 TATAGAGATATGATTT
1510 TGTAAATAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 7 0.17
27 34 0.83
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCC
Found at i:5594 original size:19 final size:19
Alignment explanation
Indices: 5560--5596 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5550 ATGACCAAAA
* *
5560 AAATCGCAATGTGATCTCT
1 AAATCGCAACGCGATCTCT
5579 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
5597 CATTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:5707 original size:20 final size:20
Alignment explanation
Indices: 5682--5734 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
5672 AATTTTAGAT
5682 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
5702 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
*
5722 AATCGCAACGCGA
1 AATCGCAATGCGA
5735 CAACACTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (20 bp):
AATCGCAATGCGAATATGTA
Found at i:5749 original size:21 final size:21
Alignment explanation
Indices: 5723--5773 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
5713 GAATATGTAA
*
5723 ATCGCAACGCGACAACACTTG
1 ATCGCAACGCGACAACACGTG
* *
5744 ATCGCAACGCGATAATACGTG
1 ATCGCAACGCGACAACACGTG
5765 ATCGCAACG
1 ATCGCAACG
5774 TGATTCTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (21 bp):
ATCGCAACGCGACAACACGTG
Found at i:5790 original size:20 final size:20
Alignment explanation
Indices: 5765--5805 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
5755 ATAATACGTG
*
5765 ATCGCAACGTGATTCTGACT
1 ATCGCAACGCGATTCTGACT
5785 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
5805 A
1 A
5806 ACACATCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:6684 original size:24 final size:24
Alignment explanation
Indices: 6626--6672 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
6616 AGTCGGTATT
*
6626 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
6650 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
6673 TCGGATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:6902 original size:14 final size:14
Alignment explanation
Indices: 6873--6909 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
6863 AAAAGAAGAA
6873 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
6888 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
6902 GAAGAAAA
1 GAAGAAAA
6910 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:8979 original size:18 final size:18
Alignment explanation
Indices: 8947--8981 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8937 AGCAAAAGGC
**
8947 AATCAAAATTGCAATCAA
1 AATCAAAATCCCAATCAA
8965 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
8982 CAACCGGCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:9184 original size:20 final size:20
Alignment explanation
Indices: 9159--9413 Score: 197
Period size: 20 Copynumber: 13.7 Consensus size: 20
9149 CACATTCATT
9159 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
*
9179 TGACTATCACAACGCGAATA
1 TGACTATCGCAACGCGAATA
* * *
9199 TGACTATCACAACGTGAATT
1 TGACTATCGCAACGCGAATA
* *
9219 TGAATATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
9236 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
* *
9253 TAACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
9273 TGACTATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
9290 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
9307 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
9327 TGACTATCACAA--CG-AGA
1 TGACTATCGCAACGCGAATA
9344 T-A--ATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
*
9360 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
9380 TGATTATCGCAACGGGAATT
1 TGACTATCGCAACGCGAATA
9400 TGACTATCGCAACG
1 TGACTATCGCAACG
9414 AGAAAATCGC
Statistics
Matches: 188, Mismatches: 28, Indels: 38
0.74 0.11 0.15
Matches are distributed among these distances:
14 22 0.12
15 2 0.01
16 7 0.04
17 10 0.05
18 4 0.02
19 15 0.08
20 128 0.68
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:9274 original size:54 final size:54
Alignment explanation
Indices: 9192--9396 Score: 322
Period size: 54 Copynumber: 3.8 Consensus size: 54
9182 CTATCACAAC
* * * *
9192 GCGAATATGACTATCACAACGTGAATTTGAATATCGCAACGGGATAATCGCAAT
1 GCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAAT
*
9246 GCGAAAATAACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAAT
1 GCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAAT
* * *
9300 GCGAAAATGACTATCGCAACGCGAATTTGACTATCACAACGAGATAATCGCAAC
1 GCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAAT
*
9354 GCG-AAATGACTATCGCAACGCGAATTTGATTATCGCAACGGGA
1 GCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGA
9397 ATTTGACTAT
Statistics
Matches: 139, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 37 0.27
54 102 0.73
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (54 bp):
GCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAAT
Found at i:9333 original size:74 final size:74
Alignment explanation
Indices: 9159--9340 Score: 190
Period size: 74 Copynumber: 2.5 Consensus size: 74
9149 CACATTCATT
* * *
9159 TGACTATCGCAACGCGAATATGACTATCACAACGCGAATATGACTATCACAACGTGAATTTGAAT
1 TGACTATCGCAACGCGAATATGACTATCACAACGCGAATATGACTATCACAACGGGAAATCGAAT
* **
9224 ATCGCAACG
66 AGCGCAAAA
* * * * * * *
9233 GGA-TAATCGCAATGCGAAAATAACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGC
1 TGACT-ATCGCAACGCGAATATGACTATCACAACGCGAATATGACTATCACAACGGGA-AATCG-
9297 AAT-GCG-AAAA
63 AATAGCGCAAAA
*
9307 TGACTATCGCAACGCGAATTTGACTATCACAACG
1 TGACTATCGCAACGCGAATATGACTATCACAACG
9341 AGATAATCGC
Statistics
Matches: 85, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
73 1 0.01
74 75 0.88
75 6 0.07
76 3 0.04
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (74 bp):
TGACTATCGCAACGCGAATATGACTATCACAACGCGAATATGACTATCACAACGGGAAATCGAAT
AGCGCAAAA
Found at i:9350 original size:34 final size:34
Alignment explanation
Indices: 9312--9446 Score: 119
Period size: 34 Copynumber: 3.8 Consensus size: 34
9302 GAAAATGACT
9312 ATCGCAACGCGAATTTGACTATCACAACGAGATA
1 ATCGCAACGCGAATTTGACTATCACAACGAGATA
* * *
9346 ATCGCAACGCGAA-ATGACTATCGCAACGCGAATTTGATT
1 ATCGCAACGCGAATTTGACTATCACAA--CG-A---GATA
* * *
9385 ATCGCAACGGGAATTTGACTATCGCAACGAGAAA
1 ATCGCAACGCGAATTTGACTATCACAACGAGATA
* * * *
9419 ATCGCAAAGTGTATTAGACTATCACAAC
1 ATCGCAACGCGAATTTGACTATCACAAC
9447 ACGAATATGA
Statistics
Matches: 82, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
33 11 0.13
34 38 0.46
35 2 0.02
36 1 0.01
37 1 0.01
38 2 0.02
39 15 0.18
40 12 0.15
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.21
Consensus pattern (34 bp):
ATCGCAACGCGAATTTGACTATCACAACGAGATA
Found at i:9600 original size:30 final size:30
Alignment explanation
Indices: 9566--9623 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
9556 AAACAAGCAC
9566 AAATAAGAATTATTTACACATCAATTAAGA
1 AAATAAGAATTATTTACACATCAATTAAGA
*
9596 AAATAAGAATTGTTTACACATCAATTAA
1 AAATAAGAATTATTTACACATCAATTAA
9624 ACAAATCAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (30 bp):
AAATAAGAATTATTTACACATCAATTAAGA
Found at i:11045 original size:21 final size:22
Alignment explanation
Indices: 11000--11078 Score: 76
Period size: 21 Copynumber: 3.7 Consensus size: 22
10990 GAATGTTGGG
* * *
11000 AGGGACCTCTTCAAC-GATGAC
1 AGGGGCCTCTTGAACGGATGAT
11021 AGGGGCCTCTTGAACGG-TG-T
1 AGGGGCCTCTTGAACGGATGAT
* *
11041 AAGGGGACTCTTG-AGGGATGAT
1 -AGGGGCCTCTTGAACGGATGAT
11063 AGGGGCCTCTTGAACG
1 AGGGGCCTCTTGAACG
11079 ATAGGAGAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
20 3 0.07
21 39 0.85
22 4 0.09
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.22
Consensus pattern (22 bp):
AGGGGCCTCTTGAACGGATGAT
Found at i:11103 original size:42 final size:42
Alignment explanation
Indices: 11006--11107 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
10996 TGGGAGGGAC
* * *
11006 CTCTTCAACGATGACAGGGGCCTCTTGAACGGTGTAAGGGGA
1 CTCTTGAACGATGACAGGGGCCTCTTGAACGATGTAAGAGGA
** * * *
11048 CTCTTGAGGGATGATAGGGGCCTCTTGAACGATAG-GAGAGGC
1 CTCTTGAACGATGACAGGGGCCTCTTGAACGAT-GTAAGAGGA
*
11090 CTTTTGAACGATGACAGG
1 CTCTTGAACGATGACAGG
11108 TGAGTCGGGC
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGATGACAGGGGCCTCTTGAACGATGTAAGAGGA
Found at i:11603 original size:20 final size:20
Alignment explanation
Indices: 11578--11621 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
11568 AATAGTTTCT
11578 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
11598 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
11618 GAAA
1 GAAA
11622 ATGATTATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.23, G:0.11, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:11631 original size:20 final size:20
Alignment explanation
Indices: 11588--11661 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 20
11578 GAAACTTAAA
* * *
11588 ATCGCAACACGAAACTTAAA
1 ATCGCAACACGAAAATGAAT
*
11608 ATCGCAACACGAAAATGATT
1 ATCGCAACACGAAAATGAAT
* ** *
11628 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGAAT
*
11648 ATCGCAACATGAAA
1 ATCGCAACACGAAA
11662 CCAAAATCGC
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (20 bp):
ATCGCAACACGAAAATGAAT
Found at i:11750 original size:20 final size:20
Alignment explanation
Indices: 11724--11776 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
11714 GCGATTATCC
11724 CGTTGCGATAGTCAAATT-CG
1 CGTTGCGATAGTC-AATTCCG
* *
11744 TGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCAATTCCG
11764 CGTTGCGATAGTC
1 CGTTGCGATAGTC
11777 GTTTTCGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTCCG
Found at i:11750 original size:34 final size:34
Alignment explanation
Indices: 11695--11826 Score: 138
Period size: 34 Copynumber: 3.7 Consensus size: 34
11685 ATTCGTGTTA
**
11695 CGATAGTCATTTTCGCATTGCGATTATCCCGTTG
1 CGATAGTCAAATTCGCATTGCGATTATCCCGTTG
**
11729 CGATAGTCAAATTCGTGTTGCGATAGTCATTTCCGCGTTG
1 CGATAGTCAAATTCGCATTGCGAT--T-A--TCC-CGTTG
*** *
11769 CGATAGTCGTTTTCGCATTGCGATTATCCCGTTA
1 CGATAGTCAAATTCGCATTGCGATTATCCCGTTG
11803 CGATAGTCAAATTCGCATTGCGAT
1 CGATAGTCAAATTCGCATTGCGAT
11827 AATCATTTTC
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
34 45 0.57
35 3 0.04
36 1 0.01
37 2 0.03
38 1 0.01
39 3 0.04
40 24 0.30
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (34 bp):
CGATAGTCAAATTCGCATTGCGATTATCCCGTTG
Found at i:11789 original size:20 final size:20
Alignment explanation
Indices: 11746--11792 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
11736 CAAATTCGTG
*
11746 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGCA
* *
11766 TTGCGATAGTCGTTTTCGCA
1 TTGCGATAGTCATTTCCGCA
11786 TTGCGAT
1 TTGCGAT
11793 TATCCCGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCA
Found at i:11816 original size:74 final size:74
Alignment explanation
Indices: 11695--11845 Score: 239
Period size: 74 Copynumber: 2.0 Consensus size: 74
11685 ATTCGTGTTA
* ** *
11695 CGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGTGTTGCGATAGTCATT
1 CGATAGTCATTTTCGCATTGCGATTATCCCGTTACGATAGTCAAATTCGCATTGCGATAATCATT
11760 TCCGCGTTG
66 TCCGCGTTG
*
11769 CGATAGTCGTTTTCGCATTGCGATTATCCCGTTACGATAGTCAAATTCGCATTGCGATAATCATT
1 CGATAGTCATTTTCGCATTGCGATTATCCCGTTACGATAGTCAAATTCGCATTGCGATAATCATT
* *
11834 TTCGTGTTG
66 TCCGCGTTG
11843 CGA
1 CGA
11846 CTATTCTTCT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (74 bp):
CGATAGTCATTTTCGCATTGCGATTATCCCGTTACGATAGTCAAATTCGCATTGCGATAATCATT
TCCGCGTTG
Found at i:12017 original size:32 final size:31
Alignment explanation
Indices: 11958--12019 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
11948 CTACTACCGA
11958 ATGAATTTACTAAGCAATCCAAAAGACAAAT
1 ATGAATTTACTAAGCAATCCAAAAGACAAAT
*
11989 ATGAATTTACTAACTTCAA-CCAAAAGACAAA
1 ATGAATTTACTAA--GCAATCCAAAAGACAAA
12020 ACAAAGACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 13 0.46
32 12 0.43
33 3 0.11
ACGTcount: A:0.52, C:0.18, G:0.08, T:0.23
Consensus pattern (31 bp):
ATGAATTTACTAAGCAATCCAAAAGACAAAT
Found at i:12254 original size:21 final size:22
Alignment explanation
Indices: 12208--12254 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
12198 TGCTACCATA
* *
12208 TCACGTAGAGCAGCTACCTCAC
1 TCACGTAAAGCAGATACCTCAC
*
12230 -CACGTAAAGTAGATACCTC-C
1 TCACGTAAAGCAGATACCTCAC
12250 TCACG
1 TCACG
12255 CCATTCACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (22 bp):
TCACGTAAAGCAGATACCTCAC
Found at i:13864 original size:20 final size:20
Alignment explanation
Indices: 13841--13896 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
13831 TCTGAAACTT
13841 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
13861 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
13881 ATTATCGCAACGCGAA
1 AAAATCGCAACACGAA
13897 TTTGACTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:13906 original size:20 final size:20
Alignment explanation
Indices: 13844--13919 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
13834 GAAACTTAAA
* **
13844 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
* *
13864 ATCGCAACACGAAAATGATT
1 ATCGCAACGCGAAAATGACT
**
13884 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
13904 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
13920 CGCAACGCGA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:13944 original size:33 final size:34
Alignment explanation
Indices: 13884--13964 Score: 128
Period size: 33 Copynumber: 2.4 Consensus size: 34
13874 GAAAATGATT
*
13884 ATCGCAACGCGAATTTGACTATCGCAACGAGAAA
1 ATCGCAACGCGAATATGACTATCGCAACGAGAAA
* *
13918 ATCGCAACGCGAA-ATGGCTATCGCAACGAGATA
1 ATCGCAACGCGAATATGACTATCGCAACGAGAAA
13951 ATCGCAACGCGAAT
1 ATCGCAACGCGAAT
13965 TTTGTCGTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 30 0.70
34 13 0.30
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (34 bp):
ATCGCAACGCGAATATGACTATCGCAACGAGAAA
Found at i:14323 original size:20 final size:21
Alignment explanation
Indices: 14298--14342 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
14288 TCTGAGAGAT
*
14298 GGAGAT-AGATGGATTTCGTC
1 GGAGATGAGACGGATTTCGTC
*
14318 GGAGATGGGGACGGATTTCGTC
1 GGAGAT-GAGACGGATTTCGTC
14340 GGA
1 GGA
14343 AATGGGGACG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
22 15 0.71
ACGTcount: A:0.22, C:0.11, G:0.42, T:0.24
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGTC
Found at i:14335 original size:22 final size:22
Alignment explanation
Indices: 14308--14355 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
14298 GGAGATAGAT
*
14308 GGATTTCGTCGGAGATGGGGAC
1 GGATTTCGTCGGAAATGGGGAC
14330 GGATTTCGTCGGAAATGGGGAC
1 GGATTTCGTCGGAAATGGGGAC
14352 GGAT
1 GGAT
14356 GTCGCCGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.12, G:0.44, T:0.23
Consensus pattern (22 bp):
GGATTTCGTCGGAAATGGGGAC
Found at i:14550 original size:20 final size:20
Alignment explanation
Indices: 14525--14569 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
14515 TTATCGCAAC
* *
14525 GCGATAGTCAGAATCTCGTT
1 GCGATAGCCAGAATCGCGTT
14545 GCGATAGCCAGAATCGCGTT
1 GCGATAGCCAGAATCGCGTT
14565 GCGAT
1 GCGAT
14570 CAAGTGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (20 bp):
GCGATAGCCAGAATCGCGTT
Found at i:14629 original size:21 final size:20
Alignment explanation
Indices: 14599--14652 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
14589 ATTTACATAT
* *
14599 TCGCATTGCGATTATCTAAAA
1 TCGCAATGCGATT-TCAAAAA
14620 TCGCAATGCGGATTTCAAAAA
1 TCGCAATGC-GATTTCAAAAA
14641 TCGCAATGCGAT
1 TCGCAATGCGAT
14653 GGTCAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 3 0.10
21 23 0.77
22 4 0.13
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (20 bp):
TCGCAATGCGATTTCAAAAA
Found at i:14662 original size:20 final size:21
Alignment explanation
Indices: 14616--14664 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
14606 GCGATTATCT
*
14616 AAAATCGCAATGCGGATTTCA
1 AAAATCGCAATGCGGATGTCA
14637 AAAATCGCAATGC-GATGGTC-
1 AAAATCGCAATGCGGAT-GTCA
14657 AAAATCGC
1 AAAATCGC
14665 GTTGCGAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (21 bp):
AAAATCGCAATGCGGATGTCA
Found at i:14721 original size:19 final size:19
Alignment explanation
Indices: 14697--14733 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14687 TGCGATAATG
*
14697 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
*
14716 GAGATCGCATTGTGATTT
1 GAGATCGCATTGCGATTT
14734 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:15938 original size:2 final size:2
Alignment explanation
Indices: 15931--15967 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15921 TGCAAAACAA
15931 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15968 ATCAGGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16873 original size:25 final size:24
Alignment explanation
Indices: 16844--16894 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
16834 GAGTTTAATT
16844 ATATTTAATGTTAAAATCCACCTTA
1 ATATTTAATGTTAAAAT-CACCTTA
* * *
16869 ATATTTGATTTTAAAATCACTTTA
1 ATATTTAATGTTAAAATCACCTTA
16893 AT
1 AT
16895 TTTTTAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (24 bp):
ATATTTAATGTTAAAATCACCTTA
Found at i:17440 original size:11 final size:11
Alignment explanation
Indices: 17426--17484 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
17416 TTATATATGC
17426 TAATTATAATA
1 TAATTATAATA
17437 TAATTATAAATA
1 TAATTAT-AATA
* * *
17449 TTATAAAAATA
1 TAATTATAATA
*
17460 TACTTATAATA
1 TAATTATAATA
*
17471 TTAATTAAAATA
1 -TAATTATAATA
17483 TA
1 TA
17485 TTAATTTTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
11 20 0.54
12 17 0.46
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATTATAATA
Found at i:17466 original size:23 final size:23
Alignment explanation
Indices: 17433--17484 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
17423 TGCTAATTAT
17433 AATATAATTATAAATATT-ATAAA
1 AATATAATTAT-AATATTAATAAA
* *
17456 AATATACTTATAATATTAATTAA
1 AATATAATTATAATATTAATAAA
17479 AATATA
1 AATATA
17485 TTAATTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AATATAATTATAATATTAATAAA
Found at i:18321 original size:23 final size:22
Alignment explanation
Indices: 18290--18339 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
18280 TAATTTATAT
*
18290 TATAATTAATACATTTTTATAAA
1 TATAGTTAAT-CATTTTTATAAA
*
18313 TATAGTTAATTATTTTTATAAA
1 TATAGTTAATCATTTTTATAAA
18335 -ATAGT
1 TATAGT
18340 ATATTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.20
22 11 0.44
23 9 0.36
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (22 bp):
TATAGTTAATCATTTTTATAAA
Found at i:18577 original size:20 final size:20
Alignment explanation
Indices: 18552--18591 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
18542 CAAATCATCA
18552 AGAATAAAAATACTAGATGC
1 AGAATAAAAATACTAGATGC
*
18572 AGAATAAAAATATTAGATGC
1 AGAATAAAAATACTAGATGC
18592 GGAAGCATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.07, G:0.15, T:0.23
Consensus pattern (20 bp):
AGAATAAAAATACTAGATGC
Found at i:20858 original size:6 final size:6
Alignment explanation
Indices: 20849--20875 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20839 TTGATTTTTC
20849 ATATAA ATATAA ATATAA ATATAA ATA
1 ATATAA ATATAA ATATAA ATATAA ATA
20876 AAAGAAGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:31710 original size:16 final size:17
Alignment explanation
Indices: 31686--31718 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
31676 TCTCTTTAAA
*
31686 GTTTTGGAT-AAAATGG
1 GTTTCGGATCAAAATGG
31702 GTTTCGGATCAAAATGG
1 GTTTCGGATCAAAATGG
31719 TGTAGCTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.06, G:0.30, T:0.33
Consensus pattern (17 bp):
GTTTCGGATCAAAATGG
Found at i:53081 original size:20 final size:20
Alignment explanation
Indices: 53056--53094 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
53046 AAATTATATG
53056 TAATTTGAAATATTATGTTA
1 TAATTTGAAATATTATGTTA
53076 TAATTTGAAATATTATGTT
1 TAATTTGAAATATTATGTT
53095 TTTATTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (20 bp):
TAATTTGAAATATTATGTTA
Found at i:58356 original size:11 final size:11
Alignment explanation
Indices: 58340--58367 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
58330 AAAATTACAT
58340 TATTAAAAATA
1 TATTAAAAATA
58351 TATTAAAAATA
1 TATTAAAAATA
58362 TATTAA
1 TATTAA
58368 TGATGAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:58506 original size:7 final size:7
Alignment explanation
Indices: 58494--58702 Score: 101
Period size: 7 Copynumber: 30.3 Consensus size: 7
58484 TTTCCAATGA
58494 TAGGGTT
1 TAGGGTT
58501 TAGGGTT
1 TAGGGTT
*
58508 TAGAGTT
1 TAGGGTT
* *
58515 TA-TGTGA
1 TAGGGT-T
*
58522 TAAGGTT
1 TAGGGTT
*
58529 TA-GGTA
1 TAGGGTT
*
58535 TATGGTT
1 TAGGGTT
58542 TAGGGTT
1 TAGGGTT
*
58549 TA-GGTGA
1 TAGGGT-T
*
58556 TAGGATT
1 TAGGGTT
58563 TAGGGTT
1 TAGGGTT
***
58570 TATAATT
1 TAGGGTT
58577 TAGGGTT
1 TAGGGTT
** *
58584 TA-TATGA
1 TAGGGT-T
*
58591 TAGGATT
1 TAGGGTT
*
58598 TAAGGTT
1 TAGGGTT
58605 TAGGGTT
1 TAGGGTT
58612 TAGGGTT
1 TAGGGTT
* *
58619 TA-TGTG
1 TAGGGTT
*
58625 TA-GATGT
1 TAGGGT-T
*
58632 CAGGGTT
1 TAGGGTT
58639 TAGGGTT
1 TAGGGTT
*
58646 TAGAGTT
1 TAGGGTT
*
58653 TA-TGTGT
1 TAGGGT-T
58660 TAGGG-T
1 TAGGGTT
58666 TAGGGTT
1 TAGGGTT
58673 TAGGGTT
1 TAGGGTT
58680 TAGGGTT
1 TAGGGTT
**
58687 TATAGTT
1 TAGGGTT
58694 TAGGGTT
1 TAGGGTT
58701 TA
1 TA
58703 AGTTATACAC
Statistics
Matches: 149, Mismatches: 41, Indels: 24
0.70 0.19 0.11
Matches are distributed among these distances:
6 24 0.16
7 116 0.78
8 9 0.06
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (7 bp):
TAGGGTT
Found at i:58550 original size:34 final size:34
Alignment explanation
Indices: 58494--58689 Score: 216
Period size: 34 Copynumber: 5.7 Consensus size: 34
58484 TTTCCAATGA
*
58494 TAGGGTTTAGGGTTTAGAGTTTATGTGATAAGGTT
1 TAGGGTTTAGGGTTTAGGGTTTATGTGAT-AGGTT
* * *
58529 TA-GGTATATGGTTTAGGGTTTAGGTGATAGGATT
1 TAGGGTTTAGGGTTTAGGGTTTATGTGATAGG-TT
*** *
58563 TAGGGTTTATAATTTAGGGTTTATATGATAGGATT
1 TAGGGTTTAGGGTTTAGGGTTTATGTGATAGG-TT
* *
58598 TAAGGTTTAGGGTTTAGGGTTTATGTG-TAGATGT
1 TAGGGTTTAGGGTTTAGGGTTTATGTGATAGGT-T
* * * *
58632 CAGGGTTTAGGGTTTAGAGTTTATGTGTTAGGGT
1 TAGGGTTTAGGGTTTAGGGTTTATGTGATAGGTT
58666 TAGGGTTTAGGGTTTAGGGTTTAT
1 TAGGGTTTAGGGTTTAGGGTTTAT
58690 AGTTTAGGGT
Statistics
Matches: 135, Mismatches: 22, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
33 4 0.03
34 77 0.57
35 54 0.40
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.43
Consensus pattern (34 bp):
TAGGGTTTAGGGTTTAGGGTTTATGTGATAGGTT
Found at i:62095 original size:21 final size:21
Alignment explanation
Indices: 62044--62096 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
62034 ATTATTACTA
62044 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
62065 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
62086 TCGCAATGCGA
1 TCGCAATGCGA
62097 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:62129 original size:21 final size:21
Alignment explanation
Indices: 62086--62199 Score: 74
Period size: 21 Copynumber: 5.5 Consensus size: 21
62076 TTTTCCCAAT
* *
62086 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTAGAAAA
*
62106 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTAGAAAA
* **
62127 TCGCAATGCG-ATACT-GACTA
1 TCGCAATGCGAAT-TTAGAAAA
* * *
62147 TCGCAACGCG-ATAATACAAAA
1 TCGCAATGCGAAT-TTAGAAAA
** *
62168 TCGCAATGAAAATTTGGAAAA
1 TCGCAATGCGAATTTAGAAAA
62189 TCGCAATGCGA
1 TCGCAATGCGA
62200 TACTGACTAT
Statistics
Matches: 71, Mismatches: 19, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
20 30 0.42
21 39 0.55
22 2 0.03
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTTAGAAAA
Found at i:62137 original size:62 final size:60
Alignment explanation
Indices: 62086--62221 Score: 157
Period size: 62 Copynumber: 2.2 Consensus size: 60
62076 TTTTCCCAAT
* ** * *
62086 TCGCAATGCGAATAAGT-AAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACTGACTA
1 TCGCAACGCG-ATAA-TAAAATCGCAATGAAAATTTGGAAAATCGCAATGCGATACTCACAA
* *
62147 TCGCAACGCGATAATACAAAATCGCAATGAAAATTTGGAAAATCGCAATGCGATACTGACTA
1 TCGCAACGCGATAAT--AAAATCGCAATGAAAATTTGGAAAATCGCAATGCGATACTCACAA
*
62209 TCGCAATGCGATA
1 TCGCAACGCGATA
62222 CTGACTATCG
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
59 1 0.01
60 4 0.06
61 9 0.13
62 54 0.79
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (60 bp):
TCGCAACGCGATAATAAAATCGCAATGAAAATTTGGAAAATCGCAATGCGATACTCACAA
Found at i:62150 original size:41 final size:41
Alignment explanation
Indices: 62123--62281 Score: 180
Period size: 41 Copynumber: 3.9 Consensus size: 41
62113 GCGAATTTGG
62123 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
* * * ** * *
62164 AAAATCGCAATG-AAAATTTGGAAAATCGCAATGCGATACTGAC
1 AAAATCGCAATGCGATA-CT-GACTATCGCAACGCGATAAT-AC
*
62207 --TATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
* *
62246 AAAATCGCAACGCGATACTGACTTTCGCAACGCGAT
1 AAAATCGCAATGCGATACTGACTATCGCAACGCGAT
62282 TCTGACTTTC
Statistics
Matches: 94, Mismatches: 18, Indels: 12
0.76 0.15 0.10
Matches are distributed among these distances:
39 2 0.02
40 18 0.19
41 54 0.57
42 18 0.19
43 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
Found at i:62158 original size:82 final size:82
Alignment explanation
Indices: 62098--62255 Score: 237
Period size: 82 Copynumber: 1.9 Consensus size: 82
62088 GCAATGCGAA
* *
62098 TAAGTAAATCGCAATGCGA-ATTTGGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAAT
1 TAAGAAAATCGCAATGCGATA-CT-GAAAATCGCAATGCGATACTGACTATCGCAACGCGATAAT
62162 ACAAAATCGCAATGAAAAT
64 ACAAAATCGCAATGAAAAT
** **
62181 TTGGAAAATCGCAATGCGATACTGACTATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 TAAGAAAATCGCAATGCGATACTGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
62246 AAAATCGCAA
66 AAAATCGCAA
62256 CGCGATACTG
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
82 50 0.74
83 17 0.25
84 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (82 bp):
TAAGAAAATCGCAATGCGATACTGAAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
AAAATCGCAATGAAAAT
Found at i:62213 original size:20 final size:20
Alignment explanation
Indices: 62188--62342 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
62178 AATTTGGAAA
*
62188 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
62208 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
62228 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
62249 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
62269 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
62289 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * *
62309 TTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
62329 ATCACAACGAGATA
1 ATCGCAACGCGATA
62343 ATACAGAATC
Statistics
Matches: 121, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
19 2 0.02
20 102 0.84
21 15 0.12
22 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:62262 original size:61 final size:61
Alignment explanation
Indices: 62123--62301 Score: 193
Period size: 61 Copynumber: 2.9 Consensus size: 61
62113 GCGAATTTGG
* * * * * **
62123 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAAT-ACAAAATCGCAA--TGAAAATTTGG
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATACTGAC--TATCGCAACGCGATAA--TAC
* *
62185 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
62246 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
62302 TCTGACTTTC
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
61 59 0.58
62 37 0.36
63 6 0.06
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (61 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:63110 original size:24 final size:24
Alignment explanation
Indices: 63083--63136 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
63073 GTATTCGAAA
*
63083 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
63107 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
63131 TTTGAT
1 TTTGAT
63137 GATGTTTCAG
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:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:63328 original size:12 final size:12
Alignment explanation
Indices: 63311--63335 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63301 ATATAATCCT
63311 GAAGAAGAAAAA
1 GAAGAAGAAAAA
63323 GAAGAAGAAAAA
1 GAAGAAGAAAAA
63335 G
1 G
63336 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:65677 original size:19 final size:20
Alignment explanation
Indices: 65635--65678 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
65625 CAATCATCTT
*
65635 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGCGGA
*
65655 AATGACTATCGCAATGC-GA
1 AATGACTATCGCAACGCGGA
65674 AATGA
1 AATGA
65679 AAATTGCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (20 bp):
AATGACTATCGCAACGCGGA
Found at i:65687 original size:19 final size:19
Alignment explanation
Indices: 65642--65792 Score: 89
Period size: 19 Copynumber: 8.7 Consensus size: 19
65632 CTTAATGTCT
* **
65642 ATCGCAACGCGGAAATGACT
1 ATCGCAATGC-GAAATGAAA
65662 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
65681 ATTGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
65695 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
65714 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
65728 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
65747 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
65761 ATCGCAAAGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
65780 ATCGCAACGCGAA
1 ATCGCAATGCGAA
65793 TTTAGTTTCG
Statistics
Matches: 102, Mismatches: 14, Indels: 31
0.69 0.10 0.21
Matches are distributed among these distances:
14 28 0.27
15 3 0.03
16 6 0.06
17 6 0.06
18 3 0.03
19 47 0.46
20 9 0.09
ACGTcount: A:0.44, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:65704 original size:33 final size:33
Alignment explanation
Indices: 65662--65788 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
65652 GGAAATGACT
*
65662 ATCGCAATGCGAAATGAAAATTGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
65695 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
65728 ATCGCAACGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
65761 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
65789 CGAATTTAGT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 90 1.00
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:65732 original size:14 final size:14
Alignment explanation
Indices: 65684--65736 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
65674 AATGAAAATT
65684 GCAACGAGAGAATC
1 GCAACGAGAGAATC
*
65698 GCAATGCGAAATGAAAATC
1 GCAA--CG--A-GAGAATC
65717 GCAACGAGAGAATC
1 GCAACGAGAGAATC
65731 GCAACG
1 GCAACG
65737 CGAAATGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.50
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.31
ACGTcount: A:0.43, C:0.21, G:0.26, T:0.09
Consensus pattern (14 bp):
GCAACGAGAGAATC
Found at i:65845 original size:33 final size:33
Alignment explanation
Indices: 65803--65896 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
65793 TTTAGTTTCG
65803 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
65836 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
65869 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
65897 AGTCATTTTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:65896 original size:19 final size:19
Alignment explanation
Indices: 65798--65896 Score: 101
Period size: 19 Copynumber: 5.7 Consensus size: 19
65788 GCGAATTTAG
65798 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
65817 TTTCGCGTTGCGA--TTC-
1 TTTCGCGTTGCGATTTTCA
*
65833 --TCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
65850 TTTCGCGTTGCGA--TTC-
1 TTTCGCGTTGCGATTTTCA
*
65866 --TCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
65883 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
65897 AGTCATTTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
16 6 0.09
17 6 0.09
19 33 0.51
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.45
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:66022 original size:14 final size:15
Alignment explanation
Indices: 66003--66040 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
65993 CATCAATTAA
66003 ACAAATCAA-CTTTT
1 ACAAATCAATCTTTT
66017 ACAAAT-AATCTTTT
1 ACAAATCAATCTTTT
66031 ACAAATCAAT
1 ACAAATCAAT
66041 TAAACAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 17 0.77
15 3 0.14
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (15 bp):
ACAAATCAATCTTTT
Found at i:67455 original size:21 final size:21
Alignment explanation
Indices: 67389--67455 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
67379 GTAAATCGGG
*
67389 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
67409 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
67431 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
67452 CTCT
1 CTCT
67456 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:67827 original size:19 final size:19
Alignment explanation
Indices: 67803--67841 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
67793 TCGAATGCAT
67803 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
67822 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
67841 T
1 T
67842 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:67966 original size:64 final size:65
Alignment explanation
Indices: 67789--67951 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
67779 GAATTAATTG
* * * *
67789 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
67854 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
67917 A
65 A
67918 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
67952 TGGTGCACCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:73638 original size:20 final size:21
Alignment explanation
Indices: 73609--73664 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
73599 TTTGTGCTTC
*
73609 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
73629 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
73651 ATGCATCGATGCAT
1 ATGCATCGATGCAT
73665 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:75235 original size:21 final size:21
Alignment explanation
Indices: 75193--75236 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
75183 ACCCCGGGAG
*
75193 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
75214 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
75235 CT
1 CT
75237 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:76291 original size:19 final size:19
Alignment explanation
Indices: 76267--76305 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
76257 TCGAATGCAT
76267 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
76286 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
76305 T
1 T
76306 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:76430 original size:64 final size:65
Alignment explanation
Indices: 76253--76415 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
76243 GAATTAATTG
* * * *
76253 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
76318 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
76381 A
65 A
76382 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
76416 TGGTGCACCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:77713 original size:94 final size:94
Alignment explanation
Indices: 77552--77856 Score: 512
Period size: 94 Copynumber: 3.3 Consensus size: 94
77542 GAATAGTTTT
**
77552 AATTGGCAGCAAATGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
77617 ACAGTGTTAAAGAATACACAGTTTAGCAG
66 ACAGTGTTAAAGAATACACAGTTTAGCAG
77646 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
77711 ACAGTGTTAAAGAATACACAGTTTAGCAG
66 ACAGTGTTAAAGAATACACAGTTTAGCAG
*
77740 AATTGGCAGCAACCGAATAAATTTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTT
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTT
*
77804 CACAGTGTT----AATAAACAGTTTAGCAG
65 CACAGTGTTAAAGAATACACAGTTTAGCAG
* *
77830 TATTGGCAGCAACCGAATAAATTTACT
1 AATTGGCAGCAACCGAACAAATTTACT
77857 AAGCAATCTA
Statistics
Matches: 204, Mismatches: 5, Indels: 7
0.94 0.02 0.03
Matches are distributed among these distances:
90 41 0.20
93 19 0.09
94 144 0.71
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (94 bp):
AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
ACAGTGTTAAAGAATACACAGTTTAGCAG
Found at i:79576 original size:20 final size:20
Alignment explanation
Indices: 79551--79613 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
79541 TTTTGGTTGA
*
79551 AATGAAAATAGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
79571 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
**
79590 AAATGACTATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
79611 AAT
1 AAT
79614 CGTAACGCGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.03
20 34 0.94
21 1 0.03
ACGTcount: A:0.48, C:0.16, G:0.24, T:0.13
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:79635 original size:33 final size:33
Alignment explanation
Indices: 79577--79670 Score: 143
Period size: 33 Copynumber: 2.8 Consensus size: 33
79567 AGAGAATGAA
* **
79577 AATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGTAACGC-GAAATGAAAATCGCAACGAGAG
79611 AATCGTAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGTAACGCGAAATGAAAATCGCAACGAGAG
*
79644 AATCGTAACACGAAATGAAAATCGCAA
1 AATCGTAACGCGAAATGAAAATCGCAA
79671 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
33 46 0.82
34 10 0.18
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (33 bp):
AATCGTAACGCGAAATGAAAATCGCAACGAGAG
Found at i:80302 original size:20 final size:20
Alignment explanation
Indices: 80279--80391 Score: 172
Period size: 20 Copynumber: 5.7 Consensus size: 20
80269 CGATAGTCAG
80279 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
80299 ATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACGT
* *
80319 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
80339 ATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACGT
* *
80359 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
80379 ATTCGCATTGCGA
1 ATTCGCATTGCGA
80392 ATTATGAAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:80330 original size:40 final size:40
Alignment explanation
Indices: 80281--80391 Score: 213
Period size: 40 Copynumber: 2.8 Consensus size: 40
80271 ATAGTCAGAT
*
80281 TCGCATTGCGATTTACGTATTCGCATTGCGATTTACTTAA
1 TCGCGTTGCGATTTACGTATTCGCATTGCGATTTACTTAA
80321 TCGCGTTGCGATTTACGTATTCGCATTGCGATTTACTTAA
1 TCGCGTTGCGATTTACGTATTCGCATTGCGATTTACTTAA
80361 TCGCGTTGCGATTTACGTATTCGCATTGCGA
1 TCGCGTTGCGATTTACGTATTCGCATTGCGA
80392 ATTATGAAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGTATTCGCATTGCGATTTACTTAA
Found at i:80414 original size:21 final size:21
Alignment explanation
Indices: 80388--80443 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
80378 TATTCGCATT
* *
80388 GCGAATTATGAAAATCGTAAC
1 GCGAATTACGAAAATCGCAAC
* *
80409 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
80429 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
80444 TGCGTTGCGA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.21
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:80507 original size:20 final size:21
Alignment explanation
Indices: 80463--80514 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
80453 ATAGTCAGTA
*
80463 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
80484 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
80504 TCGCATTGCGA
1 TCGCATTGCGA
80515 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:80529 original size:41 final size:41
Alignment explanation
Indices: 80281--80517 Score: 191
Period size: 40 Copynumber: 5.8 Consensus size: 41
80271 ATAGTCAGAT
**
80281 TCGCATTGCGATTTACGTATTCGCATTGCG-ATTTACTTAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGAATTTACAAAA
* **
80321 TCGCGTTGCGATTTACGTATTCGCATTGCG-ATTTACTTAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGAATTTACAAAA
* *
80361 TCGCGTTGCGATTTACGTATTCGCATTGCGAA-TTATGAAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGAATTTA-CAAAA
* ** * * * *
80402 TCGTAACGCGA-ATACGTAAATCGCAATGCGAA-TTAGGAAAA
1 TCGCATTGCGATTTACGT-ATTCGCATTGCGAATTTA-CAAAA
* * * * * *
80443 TTGCGTTGCGATAGT-CAGTA-TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGAT-TTAC-GTATTCGCATTGCGAATTTACAAAA
*
80484 TCGCATTGCGATTTACTTATTCGCATTGCGAATT
1 TCGCATTGCGATTTACGTATTCGCATTGCGAATT
80518 GGGAAAATCG
Statistics
Matches: 160, Mismatches: 28, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
40 80 0.50
41 73 0.46
42 4 0.03
43 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (41 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGAATTTACAAAA
Found at i:88096 original size:85 final size:85
Alignment explanation
Indices: 87990--88203 Score: 333
Period size: 85 Copynumber: 2.5 Consensus size: 85
87980 TATAACGTGC
87990 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTAAAGCCCCCGTCATAAAT-TAAG-AT
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTAAAGCCCCCGTCATAAATCT--GTAT
88053 GACACACATTTGTGCGTCATAA
64 GACACACATTTGTGCGTCATAA
* * *
88075 ATTTATGACACGCATGTATGACTTACATTACGCGTCATTGAAGCCCCCGTCATAAATCTGTTTGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTAAAGCCCCCGTCATAAATCTGTATGA
* *
88140 CATACATTTGTGTGTCATAA
66 CACACATTTGTGCGTCATAA
* *
88160 ATTTATGACACGCATATATGACTTACATTGCGTGTCATTAAAGC
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTAAAGC
88204 ACACGCCATT
Statistics
Matches: 118, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
84 1 0.01
85 116 0.98
86 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (85 bp):
ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTAAAGCCCCCGTCATAAATCTGTATGA
CACACATTTGTGCGTCATAA
Found at i:88267 original size:2 final size:2
Alignment explanation
Indices: 88260--88308 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
88250 TTTCGGAAAT
* *
88260 TA TA TA TA TA TA TA AA TA TA GA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
88302 TA TA TA T
1 TA TA TA T
88309 TGTATATTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:94336 original size:15 final size:15
Alignment explanation
Indices: 94311--94352 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
94301 GATGCTTTCT
*
94311 TTTTCCTTCTTTGACG
1 TTTT-CTTCTTAGACG
94327 TTTTCTTCTTAGACG
1 TTTTCTTCTTAGACG
*
94342 TTGTCTTCTTA
1 TTTTCTTCTTA
94353 CCCCCATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.10, C:0.21, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTTCTTCTTAGACG
Found at i:98794 original size:21 final size:21
Alignment explanation
Indices: 98770--98815 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
98760 CATGTAAAAA
*
98770 TTTACCTAAAACATTATTATT
1 TTTACCTAAAACATTAATATT
* *
98791 TTTACCTAAAATATTAATGTT
1 TTTACCTAAAACATTAATATT
98812 TTTA
1 TTTA
98816 ACATTTTCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTACCTAAAACATTAATATT
Found at i:104386 original size:7 final size:7
Alignment explanation
Indices: 104343--104371 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
104333 ACATAATATC
104343 TATATTT
1 TATATTT
104350 TATATTT
1 TATATTT
104357 TATATTT
1 TATATTT
104364 TATATTT
1 TATATTT
104371 T
1 T
104372 CAAATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATATTT
Done.