Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000897.1 Hibiscus syriacus cultivar Beakdansim tig00001760_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: 126768
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:381 original size:25 final size:26
Alignment explanation
Indices: 316--373 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
306 CCCGCCCCGA
316 TTATA-TAA-TATAATATATAATATTTT
1 TTATATTAATTAT-ATATATAATA-TTT
342 TTATATTAATTATATATATAATA-TT
1 TTATATTAATTATATATATAATATTT
367 TTATATT
1 TTATATT
374 TTTTATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
25 9 0.30
26 5 0.17
27 13 0.43
28 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TTATATTAATTATATATATAATATTT
Found at i:400 original size:34 final size:34
Alignment explanation
Indices: 315--402 Score: 149
Period size: 34 Copynumber: 2.6 Consensus size: 34
305 CCCCGCCCCG
* *
315 ATTATATAATATAATATATAATATTTTTTATATTA
1 ATTATAT-ATATAATATTTTATATTTTTTATATTA
350 ATTATATATATAATATTTTATATTTTTTATATTA
1 ATTATATATATAATATTTTATATTTTTTATATTA
384 ATTATATATATAATATTTT
1 ATTATATATATAATATTTT
403 TGGGTTTGGG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
34 44 0.86
35 7 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (34 bp):
ATTATATATATAATATTTTATATTTTTTATATTA
Found at i:421 original size:12 final size:12
Alignment explanation
Indices: 404--432 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
394 TAATATTTTT
404 GGGTTTGGGTTC
1 GGGTTTGGGTTC
416 GGGTTTGGGTTC
1 GGGTTTGGGTTC
428 GGGTT
1 GGGTT
433 CGGGGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.52, T:0.41
Consensus pattern (12 bp):
GGGTTTGGGTTC
Found at i:424 original size:18 final size:18
Alignment explanation
Indices: 401--436 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
391 ATATAATATT
*
401 TTTGGGTTTGGGTTCGGG
1 TTTGGGTTCGGGTTCGGG
419 TTTGGGTTCGGGTTCGGG
1 TTTGGGTTCGGGTTCGGG
437 GAAAAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.50, T:0.42
Consensus pattern (18 bp):
TTTGGGTTCGGGTTCGGG
Found at i:3939 original size:2 final size:2
Alignment explanation
Indices: 3932--3961 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3922 TGAAGAGACA
3932 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3962 GAATAGTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8429 original size:20 final size:20
Alignment explanation
Indices: 8404--8448 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
8394 AAATTTTTTA
*
8404 AAATTTTAAG-TTGCTATCTC
1 AAATTTGAAGTTTG-TATCTC
*
8424 AAATTTGAAGTTTGTCTCTC
1 AAATTTGAAGTTTGTATCTC
8444 AAATT
1 AAATT
8449 CTATCACCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (20 bp):
AAATTTGAAGTTTGTATCTC
Found at i:8486 original size:26 final size:26
Alignment explanation
Indices: 8437--8487 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
8427 TTTGAAGTTT
**
8437 GTCTCTCAAATTCTATCACCAAATTG
1 GTCTCTCAAATTCTATCAAAAAATTG
*
8463 GTCTCTTAAATTCTATCAAAAAATT
1 GTCTCTCAAATTCTATCAAAAAATT
8488 CCAACACTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (26 bp):
GTCTCTCAAATTCTATCAAAAAATTG
Found at i:9108 original size:6 final size:6
Alignment explanation
Indices: 9097--9121 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9087 CATCATCTCC
9097 TTCCCT TTCCCT TTCCCT TTCCCT T
1 TTCCCT TTCCCT TTCCCT TTCCCT T
9122 GTTTATTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCCCT
Found at i:11805 original size:42 final size:41
Alignment explanation
Indices: 11746--11991 Score: 123
Period size: 41 Copynumber: 5.9 Consensus size: 41
11736 GCCACAAAAT
* *
11746 GATACTTTAGTGGCGTTTTTTAAACAAACGCCGCAATAGAGA
1 GATAATTTAGCGGCG-TTTTTAAACAAACGCCGCAATAGAGA
* * * * *
11788 GATAATTTAACGGCGTTTAT-AGCTAAAATGTCGCAATAGAGA
1 GATAATTTAGCGGCGTTTTTAAAC--AAACGCCGCAATAGAGA
* * *
11830 TG-T--TTATAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTG
1 -GATAATT-TAGCGGCG-TTTTTAAACAAACGCCGCAATAGAG-A
* * * *
11872 GA-AATTTAGCGGCGTTTTTACACAAACGCCGCGATAGTGTT
1 GATAATTTAGCGGCGTTTTTAAACAAACGCCGCAATAGAG-A
* * * * *
11913 G-T--TTATAGTGGCGTTTTTTCAACAAACGACACTATAGAGA
1 GATAATT-TAGCGGCG-TTTTTAAACAAACGCCGCAATAGAGA
* * *
11953 -AGTAATTTCGCGGCATTTATCAAACAAACGCCGCAATAG
1 GA-TAATTTAGCGGCGTTT-TTAAACAAACGCCGCAATAG
11992 TATTGTTTAT
Statistics
Matches: 150, Mismatches: 36, Indels: 36
0.68 0.16 0.16
Matches are distributed among these distances:
39 2 0.01
40 11 0.07
41 71 0.47
42 59 0.39
43 7 0.05
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (41 bp):
GATAATTTAGCGGCGTTTTTAAACAAACGCCGCAATAGAGA
Found at i:11847 original size:83 final size:82
Alignment explanation
Indices: 11753--12094 Score: 289
Period size: 83 Copynumber: 4.1 Consensus size: 82
11743 AATGATACTT
*
11753 TAGTGGCGTTTTTTAAACAAACGCCGCAATAGAG-AGATAATTTAACGGCGTTTATAGCTA-AAA
1 TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTAGA-AATTTAACGGCGTTTATA-C-ACAAA
* *
11816 TGTCGCAATAGAGATGTTTA
63 CGCCGCAATAGAGATGTTTA
* * *
11836 TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTGGAAATTTAGCGGCGTTTTTACACAAACGC
1 TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTAGAAATTTAACGGCGTTTATACACAAACGC
* * *
11901 CGCGATAGTGTTGTTTA
66 CGCAATAGAGATGTTTA
* * * * * ** * *
11918 TAGTGGCGTTTTTTCAACAAACGACACTATAGAGAAGTAATTTCGCGGCATTTATCAAACAAACG
1 TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTAGAAATTTAACGGCGTTTAT-ACACAAACG
*
11983 CCGCAATAGTA-TTGTTTA
65 CCGCAATAG-AGATGTTTA
* * * * * * * * *
12001 TAGTGGTGTTTGTGCAAAAAAACACCGCAATAGAGTA-ATAATATAGCGGCATTTATCCTACAAA
1 TAGTGGCGTTTTTTC-AACAAACGCCGCAATAGAGTAGA-AATTTAACGGCGTTTATAC-ACAAA
* * *
12065 CGTCGCAATA-TGTTGTTTA
63 CGCCGCAATAGAGATGTTTA
*
12084 TCGTGGCGTTT
1 TAGTGGCGTTT
12095 ATATTAAAAC
Statistics
Matches: 212, Mismatches: 39, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
81 1 0.00
82 65 0.31
83 100 0.47
84 46 0.22
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (82 bp):
TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTAGAAATTTAACGGCGTTTATACACAAACGC
CGCAATAGAGATGTTTA
Found at i:11864 original size:41 final size:41
Alignment explanation
Indices: 11751--11940 Score: 149
Period size: 41 Copynumber: 4.6 Consensus size: 41
11741 AAAATGATAC
*
11751 TTTAGTGGCGTTTTTTAAACAAACGCCGCAATAGAGA-GAT
1 TTTAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGATGAT
** ** * * *
11791 AATTTAACGGCGTTTATAGCTA-AAATGTCGCAATAGAGATG-T
1 --TTTAGTGGCGTTT-TTTCAACAAACGCCGCAATAGAGATGAT
*
11833 TTATAGTGGCGTTTTTTCAACAAACGCCGCAATAGAG-TGGAAA
1 TT-TAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGAT-G-AT
* * * * *
11876 TTTAGCGGCGTTTTTAC-ACAAACGCCGCGATAGTGTTG-T
1 TTTAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGATGAT
11915 TTATAGTGGCGTTTTTTCAACAAACG
1 TT-TAGTGGCGTTTTTTCAACAAACG
11941 ACACTATAGA
Statistics
Matches: 115, Mismatches: 23, Indels: 21
0.72 0.14 0.13
Matches are distributed among these distances:
39 2 0.02
40 19 0.17
41 48 0.42
42 41 0.36
43 5 0.04
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGATGAT
Found at i:19869 original size:59 final size:57
Alignment explanation
Indices: 19734--19873 Score: 138
Period size: 58 Copynumber: 2.4 Consensus size: 57
19724 GAACATACAA
* * * ** * *
19734 TATAATCAGGTGACTATTTTGTAATTTTAATAGTTGGGGACTCAACAAAGTAACACCC
1 TATAATC-GGAGACCATTTTGTAACTTTAATAGCCGGGGACTAAACAAAGCAACACCC
* * * *
19792 TATAATCGAATGATCATTTTGTAACTTTAATAGCCGAGGGATTAAACAAAGCATCACCC
1 TATAATCGGA-GACCATTTTGTAACTTTAATAGCCG-GGGACTAAACAAAGCAACACCC
19851 TATAATCGGGAGACCA-TTTGTAA
1 TATAATC-GGAGACCATTTTGTAA
19874 AATTTACCCT
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
57 1 0.02
58 34 0.52
59 29 0.44
60 2 0.03
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (57 bp):
TATAATCGGAGACCATTTTGTAACTTTAATAGCCGGGGACTAAACAAAGCAACACCC
Found at i:19872 original size:58 final size:58
Alignment explanation
Indices: 19744--19858 Score: 140
Period size: 59 Copynumber: 2.0 Consensus size: 58
19734 TATAATCAGG
* * ** * *
19744 TGACTATTTTGTAATTTTAATAGTTGGGGACTCAACAAAGTAACACCCTATAATCGAA
1 TGACCATTTTGTAACTTTAATAGCCGGGGACTAAACAAAGCAACACCCTATAATCGAA
* * *
19802 TGATCATTTTGTAACTTTAATAGCCGAGGGATTAAACAAAGCATCACCCTATAATCG
1 TGACCATTTTGTAACTTTAATAGCCG-GGGACTAAACAAAGCAACACCCTATAATCG
19859 GGAGACCATT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
58 21 0.45
59 26 0.55
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (58 bp):
TGACCATTTTGTAACTTTAATAGCCGGGGACTAAACAAAGCAACACCCTATAATCGAA
Found at i:20959 original size:24 final size:24
Alignment explanation
Indices: 20925--20971 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
20915 GTAAAAAGTA
*
20925 ATTTTATTTTTATCTTTAATTAAG
1 ATTTTAATTTTATCTTTAATTAAG
*
20949 ATTTTAATTTTATTTTTAATTAA
1 ATTTTAATTTTATCTTTAATTAA
20972 ACTATCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
ATTTTAATTTTATCTTTAATTAAG
Found at i:20981 original size:24 final size:24
Alignment explanation
Indices: 20932--20981 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
20922 GTAATTTTAT
* *
20932 TTTTATCTTTAATTAAGATTTTAA
1 TTTTATCTTTAATTAAGATATCAA
*
20956 TTTTATTTTTAATTAA-ACTATCAA
1 TTTTATCTTTAATTAAGA-TATCAA
20980 TT
1 TT
20982 AATATTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (24 bp):
TTTTATCTTTAATTAAGATATCAA
Found at i:21432 original size:22 final size:22
Alignment explanation
Indices: 21375--21433 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
21365 ACGCGATTCT
*
21375 GACTATCGCATTGCGATTTTCT
1 GACTATCGCATTGCGATTTTCC
* * *
21397 AAAT-TCGCGTTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
*
21418 GACTATCGCAATGCGA
1 GACTATCGCATTGCGA
21434 ATATGTAAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (22 bp):
GACTATCGCATTGCGATTTTCC
Found at i:21465 original size:20 final size:20
Alignment explanation
Indices: 21418--21631 Score: 152
Period size: 20 Copynumber: 10.8 Consensus size: 20
21408 GCGATTTTCC
*
21418 GACTATCGCAATGCGAATAT
1 GACTATCGCAACGCGAATAT
* * *
21438 GTA-AATCGCAATGCGAGTAT
1 G-ACTATCGCAACGCGAATAT
* * *
21458 GACTATCGTAACGCGATTCT
1 GACTATCGCAACGCGAATAT
* * * *
21478 GACTATCACAACGAGATTCT
1 GACTATCGCAACGCGAATAT
* *
21498 GACTATCGCAACGCGATTCT
1 GACTATCGCAACGCGAATAT
** *
21518 GACTGCCGCAACGCG-ATGCT
1 GACTATCGCAACGCGAAT-AT
*
21538 GACTATCGCAA-GCGCCAT-T
1 GACTATCGCAACGCG-AATAT
* * *
21557 -ATTATCGCAACACGAAAAT
1 GACTATCGCAACGCGAATAT
*
21576 GACTATCGCAACGCGAATTT
1 GACTATCGCAACGCGAATAT
21596 GACTATCGCAACGCGAA-AT
1 GACTATCGCAACGCGAATAT
**
21615 GAAAATCGCAACGCGAA
1 GACTATCGCAACGCGAA
21632 ACTAAATCGC
Statistics
Matches: 158, Mismatches: 28, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
18 10 0.06
19 25 0.16
20 120 0.76
21 3 0.02
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (20 bp):
GACTATCGCAACGCGAATAT
Found at i:21640 original size:18 final size:18
Alignment explanation
Indices: 21600--21642 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
21590 GAATTTGACT
21600 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAAT-AAA
21619 ATCGCAACGCGAAACT-AA
1 ATCGCAACGCGAAA-TAAA
21637 ATCGCA
1 ATCGCA
21643 TTGCGATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.35
19 14 0.61
20 1 0.04
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.12
Consensus pattern (18 bp):
ATCGCAACGCGAAATAAA
Found at i:22273 original size:20 final size:20
Alignment explanation
Indices: 22216--22329 Score: 138
Period size: 20 Copynumber: 5.7 Consensus size: 20
22206 GCGCTTTGAA
*
22216 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* * *
22236 CATCGCGTTGTGACAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
22256 AATCGCGTTGCGATAGTCAA
1 AATCGCGTTGCGATAGTCAG
**
22276 AATTTCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
22296 AATCGCGTTGCGATAGTCAT
1 AATCGCGTTGCGATAGTCAG
* *
22316 ACTCGCATTGCGAT
1 AATCGCGTTGCGAT
22330 TTACATATTC
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 78 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:22347 original size:60 final size:62
Alignment explanation
Indices: 22218--22353 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 62
22208 GCTTTGAAAA
* * *
22218 TCGCATTGCGATAGTCAGCATCGCGTTGTGACAGTCAGAATCGCGTTGCGATAGTCAAAATT
1 TCGCATTGCGATAGTCAGAATCGCGTTGCGACAGTCAGAATCGCATTGCGATAGTCAAAATT
* * * * *
22280 TCG--TTGCGATAGTCAGAATCGCGTTGCGATAGTCATACTCGCATTGCGAT--T-TACATAT
1 TCGCATTGCGATAGTCAGAATCGCGTTGCGACAGTCAGAATCGCATTGCGATAGTCAAAAT-T
22338 TCGCATTGCGATAGTC
1 TCGCATTGCGATAGTC
22354 GGAAAATCGC
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
57 3 0.05
58 5 0.08
60 52 0.83
62 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (62 bp):
TCGCATTGCGATAGTCAGAATCGCGTTGCGACAGTCAGAATCGCATTGCGATAGTCAAAATT
Found at i:22402 original size:20 final size:20
Alignment explanation
Indices: 22214--22404 Score: 125
Period size: 20 Copynumber: 9.4 Consensus size: 20
22204 TGGCGCTTTG
22214 AAAATCGCATTGCGATAGTC
1 AAAATCGCATTGCGATAGTC
** * * *
22234 AGCATCGCGTTGTGACAGTC
1 AAAATCGCATTGCGATAGTC
* *
22254 AGAATCGCGTTGCGATAGTC
1 AAAATCGCATTGCGATAGTC
** *
22274 AAAATTTCGTTGCGATAGTC
1 AAAATCGCATTGCGATAGTC
* *
22294 AGAATCGCGTTGCGATAGTC
1 AAAATCGCATTGCGATAGTC
* * *
22314 ATACTCGCATTGCGAT-TTAC
1 AAAATCGCATTGCGATAGT-C
* *
22334 ATATTCGCATTGCGATAGTC
1 AAAATCGCATTGCGATAGTC
** * *
22354 GGAAAATCGCAACGCGA-ATTTGG
1 --AAAATCGCATTGCGATA-GT-C
*
22377 AAAATCGCAATGCGATAGTC
1 AAAATCGCATTGCGATAGTC
22397 AAAATCGC
1 AAAATCGC
22405 GTTGTGAATC
Statistics
Matches: 135, Mismatches: 29, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
19 1 0.01
20 104 0.77
21 17 0.13
22 13 0.10
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (20 bp):
AAAATCGCATTGCGATAGTC
Found at i:22723 original size:60 final size:59
Alignment explanation
Indices: 22659--22777 Score: 152
Period size: 59 Copynumber: 2.0 Consensus size: 59
22649 TTACATCATA
* * *
22659 TATCCTCAAACTAT-AGGTCTCATTTTAAATT-GATCCTTAAACTTTTAAATATTCCAATTT
1 TATCCTCAAACTATGA-CTCTCATTCT-AATTAG-TCCTTAAACTTTTAAACATTCCAATTT
* *
22719 TATCCTCAAACTATGACTCTCATTCTAATTAGTCCTTAAACTTTTGAACATTCTAATTT
1 TATCCTCAAACTATGACTCTCATTCTAATTAGTCCTTAAACTTTTAAACATTCCAATTT
22778 CATTCCTAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
59 28 0.54
60 23 0.44
61 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (59 bp):
TATCCTCAAACTATGACTCTCATTCTAATTAGTCCTTAAACTTTTAAACATTCCAATTT
Found at i:22791 original size:59 final size:60
Alignment explanation
Indices: 22660--22837 Score: 168
Period size: 60 Copynumber: 3.0 Consensus size: 60
22650 TACATCATAT
* ** * * *
22660 ATCCTCAAACTATAGGT-CTCATTTTAAATT-GATCCTTAAACTTTTAAATATTCCAATTTT
1 ATCCTCAAACTAT-GATCCTCATTCAAAATTAG-TCCTTAAACTTTTGAATATTCTAATTTC
* *
22720 ATCCTCAAACTATGA-CTCTCATTC-TAATTAGTCCTTAAACTTTTGAACATTCTAATTTC
1 ATCCTCAAACTATGATC-CTCATTCAAAATTAGTCCTTAAACTTTTGAATATTCTAATTTC
* * * **
22779 ATTCCT-AGACTATGATCCTCTTTCAAAATTGGTCCCCAAACTTTTGAATATTCTAATTT
1 A-TCCTCAAACTATGATCCTCATTCAAAATTAGTCCTTAAACTTTTGAATATTCTAATTT
22838 TCCCCCCAAA
Statistics
Matches: 98, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
59 44 0.45
60 54 0.55
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (60 bp):
ATCCTCAAACTATGATCCTCATTCAAAATTAGTCCTTAAACTTTTGAATATTCTAATTTC
Found at i:23057 original size:60 final size:60
Alignment explanation
Indices: 22958--23074 Score: 141
Period size: 60 Copynumber: 1.9 Consensus size: 60
22948 AGTACAATTT
* * * * *
22958 GGATAAAATTGGATTGTTCAAAAAGTTTGGGGGCGATTTAGAATGA-AGGTCATAGTTTAG
1 GGATAAAATTGAATTGTTCAAAAAGTTTGAGGACAATTTAAAATGATA-GTCATAGTTTAG
23018 GGATAAAATTGAAATT-TT-AAAAAGTTTGAGGACTAATTTAAAATGATAGTCATAGTT
1 GGATAAAATTG-AATTGTTCAAAAAGTTTGAGGAC-AATTTAAAATGATAGTCATAGTT
23075 AAGGATGAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
59 13 0.27
60 32 0.65
61 4 0.08
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.33
Consensus pattern (60 bp):
GGATAAAATTGAATTGTTCAAAAAGTTTGAGGACAATTTAAAATGATAGTCATAGTTTAG
Found at i:27270 original size:2 final size:2
Alignment explanation
Indices: 27263--27288 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27253 TAATAATTTA
27263 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
27289 GGGGAGGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27659 original size:20 final size:20
Alignment explanation
Indices: 27614--27660 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
27604 TGAATATTAT
27614 TAAAAATACAAAGAAAATATC
1 TAAAAATAC-AAGAAAATATC
*
27635 T-AAAATAC-AGTAAAATTTC
1 TAAAAATACAAG-AAAATATC
27654 TAAAAAT
1 TAAAAAT
27661 TAATAATGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.09
19 8 0.35
20 12 0.52
21 1 0.04
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.26
Consensus pattern (20 bp):
TAAAAATACAAGAAAATATC
Found at i:28501 original size:65 final size:66
Alignment explanation
Indices: 28350--28509 Score: 186
Period size: 65 Copynumber: 2.4 Consensus size: 66
28340 AAATTAACAA
* * * *
28350 TCAAAT-AATTTCGGTTCGATTAATGGTTAAAGAAAAAATTTGGTTAATTCGATTCGGTTAATAA
1 TCAAATAAATTTCGATTCGATTAACGGTTAAAGAAAAAATTTGATT-ATTC-ATTCGGCTAATAA
*
28414 TTT
64 ATT
*
28417 TCAAATAAATTTC-AGTTCGATTAACGGTTAAGGAAAAATAATTT-ATT-TT-ATTCGGCTAATA
1 TCAAATAAATTTCGA-TTCGATTAACGGTTAAAG-AAAA-AATTTGATTATTCATTCGGCTAATA
28478 AATT
63 AATT
28482 TCAAATAAATTTCGATTCGATTAACGGT
1 TCAAATAAATTTCGATTCGATTAACGGT
28510 CAAATAATTT
Statistics
Matches: 82, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
65 40 0.49
66 1 0.01
67 8 0.10
68 22 0.27
69 6 0.07
70 5 0.06
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (66 bp):
TCAAATAAATTTCGATTCGATTAACGGTTAAAGAAAAAATTTGATTATTCATTCGGCTAATAAAT
T
Found at i:28718 original size:92 final size:93
Alignment explanation
Indices: 28467--28743 Score: 421
Period size: 94 Copynumber: 3.0 Consensus size: 93
28457 ATTTATTTTA
* * * *
28467 TTCGGCTAATAAATTTCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCAATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAA
* * * *
28532 TGGTTAAACAAATAAATCGGTTGATTTGG
66 T-GTTAAAGAAAAAAATTGGTTAATTTGG
*
28561 TTCGGTTAATAATTTTCAAATGAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAA
28626 TGTTAAAGAAAAAAATTGGTTAATTTGG
66 TGTTAAAGAAAAAAATTGGTTAATTTGG
* *
28654 TTTGGTTAATAATTTTCAAAT-AATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAA
28718 TGTTAAAGAAATAAAATTCGGTTAAT
66 TGTTAAAGAAA-AAAATT-GGTTAAT
28744 AATTTTCAAA
Statistics
Matches: 170, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
92 53 0.31
93 49 0.29
94 68 0.40
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (93 bp):
TTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAA
TGTTAAAGAAAAAAATTGGTTAATTTGG
Found at i:30690 original size:6 final size:6
Alignment explanation
Indices: 30679--30716 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
30669 TCGATATATT
30679 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TT
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TT
30717 GTCTATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
TTAAAA
Found at i:36544 original size:10 final size:10
Alignment explanation
Indices: 36531--36608 Score: 57
Period size: 10 Copynumber: 7.2 Consensus size: 10
36521 GTGTTGTTTG
36531 TTTATGTTCA
1 TTTATGTTCA
**
36541 TTTATTGTGTTTG
1 TTTA---TGTTCA
*
36554 TTTATGTTCG
1 TTTATGTTCA
*
36564 TTTATATTCA
1 TTTATGTTCA
36574 TTTATTATGTTCA
1 --T-TTATGTTCA
*
36587 TTTATGTTCG
1 TTTATGTTCA
36597 TTTATGTTCA
1 TTTATGTTCA
36607 TT
1 TT
36609 CGTTTGTGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
10 36 0.67
11 1 0.02
12 1 0.02
13 16 0.30
ACGTcount: A:0.17, C:0.08, G:0.13, T:0.63
Consensus pattern (10 bp):
TTTATGTTCA
Found at i:36554 original size:23 final size:22
Alignment explanation
Indices: 36524--36608 Score: 86
Period size: 23 Copynumber: 3.9 Consensus size: 22
36514 TGTGTTTGTG
36524 TTGTTTGTTTATGTTCATTTAT
1 TTGTTTGTTTATGTTCATTTAT
*
36546 TGTGTTTGTTTATGTTCGTTTAT
1 T-TGTTTGTTTATGTTCATTTAT
* *
36569 ATTCATTT-ATTATGTTCATTTA-
1 -TT-GTTTGTTTATGTTCATTTAT
*
36591 -TGTTCGTTTATGTTCATT
1 TTGTTTGTTTATGTTCATT
36609 CGTTTGTGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
19 2 0.04
20 12 0.23
22 1 0.02
23 33 0.63
24 4 0.08
ACGTcount: A:0.15, C:0.07, G:0.14, T:0.64
Consensus pattern (22 bp):
TTGTTTGTTTATGTTCATTTAT
Found at i:36574 original size:33 final size:33
Alignment explanation
Indices: 36525--36665 Score: 137
Period size: 33 Copynumber: 4.3 Consensus size: 33
36515 GTGTTTGTGT
* * *
36525 TGTTTGTTTATGTTCATTTATTGTGTTTGTTTA
1 TGTTCGTTTATATTCATTTATTGTGTTCGTTTA
* *
36558 TGTTCGTTTATATTCATTTATTATGTTCATTTA
1 TGTTCGTTTATATTCATTTATTGTGTTCGTTTA
*
36591 TGTTCGTTTATGTTCATTCGT-TTGTGTTCGTTTA
1 TGTTCGTTTATATTCATT--TATTGTGTTCGTTTA
* * * * *
36625 CGTTCGTTTGTATTCGTTTA---CGTTCGTTTG
1 TGTTCGTTTATATTCATTTATTGTGTTCGTTTA
36655 TGTTCGTTTAT
1 TGTTCGTTTAT
36666 CATTTAAATG
Statistics
Matches: 89, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
30 17 0.19
32 1 0.01
33 45 0.51
34 25 0.28
35 1 0.01
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.60
Consensus pattern (33 bp):
TGTTCGTTTATATTCATTTATTGTGTTCGTTTA
Found at i:36603 original size:20 final size:20
Alignment explanation
Indices: 36525--36665 Score: 75
Period size: 20 Copynumber: 6.5 Consensus size: 20
36515 GTGTTTGTGT
*
36525 TGTTTGTTTATGTTCATTTA
1 TGTTCGTTTATGTTCATTTA
* *
36545 TTGTGTTTGTTTATGTTCGTTTA
1 ---TGTTCGTTTATGTTCATTTA
* *
36568 TATTCATTTATTATGTTCATTTA
1 TGTTC--GT-TTATGTTCATTTA
*
36591 TGTTCGTTTATGTTCATTCGTTTG
1 TGTTCGTTTATGTTCA----TTTA
* * *
36615 TGTTCGTTTACGTTCGTTTG
1 TGTTCGTTTATGTTCATTTA
* * * *
36635 TATTCGTTTACGTTCGTTTG
1 TGTTCGTTTATGTTCATTTA
36655 TGTTCGTTTAT
1 TGTTCGTTTAT
36666 CATTTAAATG
Statistics
Matches: 98, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
20 44 0.45
21 1 0.01
22 1 0.01
23 35 0.36
24 17 0.17
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.60
Consensus pattern (20 bp):
TGTTCGTTTATGTTCATTTA
Found at i:36620 original size:10 final size:10
Alignment explanation
Indices: 36607--36663 Score: 69
Period size: 10 Copynumber: 5.7 Consensus size: 10
36597 TTTATGTTCA
36607 TTCGTTTGTG
1 TTCGTTTGTG
**
36617 TTCGTTTACG
1 TTCGTTTGTG
*
36627 TTCGTTTGTA
1 TTCGTTTGTG
**
36637 TTCGTTTACG
1 TTCGTTTGTG
36647 TTCGTTTGTG
1 TTCGTTTGTG
36657 TTCGTTT
1 TTCGTTT
36664 ATCATTTAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 37 1.00
ACGTcount: A:0.05, C:0.14, G:0.23, T:0.58
Consensus pattern (10 bp):
TTCGTTTGTG
Found at i:36642 original size:30 final size:30
Alignment explanation
Indices: 36606--36663 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
36596 GTTTATGTTC
**
36606 ATTCGTTTGTGTTCGTTTACGTTCGTTTGT
1 ATTCGTTTACGTTCGTTTACGTTCGTTTGT
**
36636 ATTCGTTTACGTTCGTTTGTGTTCGTTT
1 ATTCGTTTACGTTCGTTTACGTTCGTTT
36664 ATCATTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.07, C:0.14, G:0.22, T:0.57
Consensus pattern (30 bp):
ATTCGTTTACGTTCGTTTACGTTCGTTTGT
Found at i:36741 original size:16 final size:16
Alignment explanation
Indices: 36720--36750 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
36710 AAAAAAAATT
36720 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
36736 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
36751 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:37378 original size:59 final size:59
Alignment explanation
Indices: 37286--37397 Score: 163
Period size: 59 Copynumber: 1.9 Consensus size: 59
37276 ATAATTCTCA
* ** *
37286 TTTTAAATTGATTCCTAAACTTTTAAATGTTTCAATTTCATCCTTAAACTATGGCTATG
1 TTTTAAATTGAGTCCTAAACTTTTAAACATTTCAATTTCATCCTCAAACTATGGCTATG
*
37345 TTTTAAATT-AGTCCTCAAACTTTTAAGCATTTCAATTTCATCCTCAAACTATG
1 TTTTAAATTGAGTCCT-AAACTTTTAAACATTTCAATTTCATCCTCAAACTATG
37398 ACCGTCATTC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
58 5 0.11
59 42 0.89
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (59 bp):
TTTTAAATTGAGTCCTAAACTTTTAAACATTTCAATTTCATCCTCAAACTATGGCTATG
Found at i:37682 original size:60 final size:59
Alignment explanation
Indices: 37588--37747 Score: 169
Period size: 60 Copynumber: 2.7 Consensus size: 59
37578 TTTGGGGATC
* * * ** * * * *
37588 AAATTGGAAGATTTAAAAGTTTTGGGACCAATTTAGAATGATGGTCCTAGTTTGAGGATG
1 AAATTAGAATATTCAAAAGTTTAAGGACCAATTTAAAATGAT-ATCATAGTTTGAAGATG
* * *
37648 CAATT-GAAATATTCAAAAGTTTAAGGACTAATTTAAAATAAATATCATAGTTTGAAGATG
1 AAATTAG-AATATTCAAAAGTTTAAGGACCAATTTAAAAT-GATATCATAGTTTGAAGATG
*
37708 AAATTAGAATATTCAAAAGTTTAAGAACCAATTTAAAATG
1 AAATTAGAATATTCAAAAGTTTAAGGACCAATTTAAAATG
37748 TGGATCATGA
Statistics
Matches: 82, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
59 1 0.01
60 78 0.95
61 3 0.04
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (59 bp):
AAATTAGAATATTCAAAAGTTTAAGGACCAATTTAAAATGATATCATAGTTTGAAGATG
Found at i:44090 original size:42 final size:42
Alignment explanation
Indices: 44012--44218 Score: 215
Period size: 42 Copynumber: 5.0 Consensus size: 42
44002 GTTTGTCAAT
*
44012 AAAACGCCGCAATAGAG--GCAACTTAGTGGCGTTTGTTATA
1 AAAACGCCGCAATAGAGTCGCACCTTAGTGGCGTTTGTTATA
* *
44052 AAAACGCCGCTATAGAGTCGTACCTTAGTGGCGTTTGTTATA
1 AAAACGCCGCAATAGAGTCGCACCTTAGTGGCGTTTGTTATA
* * * * * * * *
44094 AAAACACCGCAAGAGAGGCGAATCTTAGTGGTGTTTGGTATT
1 AAAACGCCGCAATAGAGTCGCACCTTAGTGGCGTTTGTTATA
* * *
44136 AAAACGCCGCAATAGA-TCCGTACCTTAGTGGCGTTTGTTGTT
1 AAAACGCCGCAATAGAGT-CGCACCTTAGTGGCGTTTGTTATA
* * *
44178 GAAACGCCGCAGTAGAGGT-GCACGTTAGTGGCGTTTGTTAT
1 AAAACGCCGCAATAGA-GTCGCACCTTAGTGGCGTTTGTTAT
44219 TGCAATGCCG
Statistics
Matches: 137, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
40 16 0.12
42 120 0.88
44 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (42 bp):
AAAACGCCGCAATAGAGTCGCACCTTAGTGGCGTTTGTTATA
Found at i:44229 original size:84 final size:82
Alignment explanation
Indices: 44012--44219 Score: 242
Period size: 84 Copynumber: 2.5 Consensus size: 82
44002 GTTTGTCAAT
* * *
44012 AAAACGCCGCAATAGA-GGCAACTTAGTGGCGTTTGTTATAAAAACGCCGCTATAGAGTCGTACC
1 AAAACGCCGCAGTAGAGGGC-ACTTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGTCGTACC
44076 TTAGTGGCGTTTGTTATA
65 TTAGTGGCGTTTGTTATA
* * * *
44094 AAAACACCGCAAG-AGAGGCGAATCTTAGTGGTGTTTGGTATTAAAACGCCGCAATAGA-TCCGT
1 AAAACGCCGC-AGTAGAGG-GCA-CTTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGT-CGT
* *
44157 ACCTTAGTGGCGTTTGTTGTT
62 ACCTTAGTGGCGTTTGTTATA
*
44178 GAAACGCCGCAGTAGAGGTGCACGTTAGTGGCGTTTGTTATT
1 AAAACGCCGCAGTAGAGG-GCAC-TTAGTGGCGTTTGTTATT
44220 GCAATGCCGC
Statistics
Matches: 104, Mismatches: 15, Indels: 12
0.79 0.11 0.09
Matches are distributed among these distances:
82 12 0.12
83 7 0.07
84 85 0.82
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (82 bp):
AAAACGCCGCAGTAGAGGGCACTTAGTGGCGTTTGTTATTAAAACGCCGCAATAGAGTCGTACCT
TAGTGGCGTTTGTTATA
Found at i:44344 original size:21 final size:21
Alignment explanation
Indices: 44318--44365 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
44308 TCGGCACGCT
* *
44318 AGTCACCACCGTCGCTCCGCC
1 AGTCACCACCGTCACACCGCC
*
44339 AGTCACCACCGTCACACTGCC
1 AGTCACCACCGTCACACCGCC
44360 AGTCAC
1 AGTCAC
44366 TCCTCAAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.48, G:0.17, T:0.15
Consensus pattern (21 bp):
AGTCACCACCGTCACACCGCC
Found at i:48653 original size:20 final size:21
Alignment explanation
Indices: 48602--48653 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
48592 ATAATGGTAA
*
48602 TAATATAAATAAATAAAATGAC
1 TAATATAAA-AAATAAAAGGAC
** *
48624 TACGAAAAAAAAT-AAAGGAC
1 TAATATAAAAAATAAAAGGAC
48644 TAATATAAAA
1 TAATATAAAA
48654 GAAAAAATAA
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 13 0.57
21 4 0.17
22 6 0.26
ACGTcount: A:0.65, C:0.06, G:0.08, T:0.21
Consensus pattern (21 bp):
TAATATAAAAAATAAAAGGAC
Found at i:48653 original size:21 final size:22
Alignment explanation
Indices: 48602--48653 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
48592 ATAATGGTAA
* *
48602 TAATATAAATAAATAAAATGAC
1 TAATATAAAAAAATAAAAGGAC
**
48624 TACGA-AAAAAAAT-AAAGGAC
1 TAATATAAAAAAATAAAAGGAC
48644 TAATATAAAA
1 TAATATAAAA
48654 GAAAAAATAA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
20 9 0.39
21 11 0.48
22 3 0.13
ACGTcount: A:0.65, C:0.06, G:0.08, T:0.21
Consensus pattern (22 bp):
TAATATAAAAAAATAAAAGGAC
Found at i:50948 original size:65 final size:65
Alignment explanation
Indices: 50812--50974 Score: 231
Period size: 65 Copynumber: 2.5 Consensus size: 65
50802 CGGTGCACCA
*
50812 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGG
** * **
50876 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-GTGCATCGATGCATG
50940 G
65 G
* *
50941 AGTGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
50975 CAATTAATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 37 0.43
65 49 0.57
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (65 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGG
Found at i:51014 original size:65 final size:64
Alignment explanation
Indices: 50814--51023 Score: 223
Period size: 65 Copynumber: 3.2 Consensus size: 64
50804 GTGCACCAAG
* * ** *
50814 TGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-C
1 TGTGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC
* * *
50877 TTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA
1 -TGTGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGA
*
50942 G
64 C
* *
50943 TGTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGG
1 TGTGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGG
51005 AC
63 AC
51007 TGATGCATCGGTGCATG
1 TG-TGCATCGGTGCATG
51024 CCTTTGAATA
Statistics
Matches: 127, Mismatches: 12, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
62 3 0.02
63 7 0.06
64 55 0.43
65 62 0.49
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (64 bp):
TGTGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGAC
Found at i:51214 original size:20 final size:21
Alignment explanation
Indices: 51191--51230 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
51181 GAATCGAATA
51191 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
51211 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
51231 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:56428 original size:22 final size:21
Alignment explanation
Indices: 56386--56425 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
56376 GAGTTTGTTT
*
56386 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
56407 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
56426 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:58506 original size:65 final size:65
Alignment explanation
Indices: 58355--58532 Score: 234
Period size: 64 Copynumber: 2.8 Consensus size: 65
58345 GAACACTTGA
*** *
58355 TGCATCGATGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGG
1 TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGG
** * **
58419 TGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGA
1 TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-
58483 G
65 G
* *
58484 TGCATCGATGCATGGAGTGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
58533 CAATTAATTC
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 49 0.50
65 49 0.50
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (65 bp):
TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGG
Found at i:58572 original size:65 final size:64
Alignment explanation
Indices: 58372--58581 Score: 223
Period size: 65 Copynumber: 3.2 Consensus size: 64
58362 ATGCACCAAG
* * ** *
58372 TGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-C
1 TGTGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC
* * *
58435 TTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA
1 -TGTGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGA
*
58500 G
64 C
* *
58501 TGTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGG
1 TGTGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGG
58563 AC
63 AC
58565 TGATGCATCGGTGCATG
1 TG-TGCATCGGTGCATG
58582 CCTTTGAATA
Statistics
Matches: 127, Mismatches: 12, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
62 3 0.02
63 7 0.06
64 55 0.43
65 62 0.49
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (64 bp):
TGTGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGAC
Found at i:58772 original size:20 final size:21
Alignment explanation
Indices: 58749--58788 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
58739 GAATCGAATA
58749 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
58769 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
58789 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:59095 original size:98 final size:98
Alignment explanation
Indices: 58926--59110 Score: 316
Period size: 98 Copynumber: 1.9 Consensus size: 98
58916 TTGGAACTGG
*
58926 GAAATTATTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGGGTCC
1 GAAATTATTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCC
*
58991 AATATCCTTCGCCGTGGAGTTGAGATTGGTTCC
66 AATATCCTTCGCCGTGAAGTTGAGATTGGTTCC
* * *
59024 GAAATTGTTTTTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCC
1 GAAATTATTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCC
*
59089 AATATCCTTCGCTGTGAAGTTG
66 AATATCCTTCGCCGTGAAGTTG
59111 TTTGTTGACA
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 81 1.00
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (98 bp):
GAAATTATTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCC
AATATCCTTCGCCGTGAAGTTGAGATTGGTTCC
Found at i:59374 original size:109 final size:109
Alignment explanation
Indices: 59178--59505 Score: 541
Period size: 109 Copynumber: 3.0 Consensus size: 109
59168 CAATATCTTT
* * *
59178 GGCTTTGAAATTGGGAAA-TTATTCATTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
1 GGCTCTGAAATT-GGAAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
* * *
59242 TGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGGAGTTGAAATC
65 TGTTGTCTTGAGTGGCACGATATCCTCCGTCGTGGAGTTGAAATC
*
59287 GGCTCTGAAATTGGAAAGTTGTTCGTAGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGT
1 GGCTCTGAAATTGGAAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGT
* *
59352 GTTGTCTTGAGTGGCACGATATCTTCCGTCATGGAGTTGAAATC
66 GTTGTCTTGAGTGGCACGATATCCTCCGTCGTGGAGTTGAAATC
*
59396 GGCTCTGAAATTGGAAAGTTGTTCGTTGACAACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGT
1 GGCTCTGAAATTGGAAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGT
*
59461 GTTTTCTTGAGTGGCACGATATCCTCCGTCGTGGAGTTGAAATC
66 GTTGTCTTGAGTGGCACGATATCCTCCGTCGTGGAGTTGAAATC
59505 G
1 G
59506 TGGATGTTTG
Statistics
Matches: 204, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
108 5 0.02
109 199 0.98
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (109 bp):
GGCTCTGAAATTGGAAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGT
GTTGTCTTGAGTGGCACGATATCCTCCGTCGTGGAGTTGAAATC
Found at i:60301 original size:63 final size:63
Alignment explanation
Indices: 60194--60314 Score: 156
Period size: 63 Copynumber: 1.9 Consensus size: 63
60184 CTTTTTTTTC
* *
60194 TTTTTCTTTTTTTTTTAATTTTTTCAATTTAGGGCGCCCTTTCGGGTTTTCACCCTAAACGTTT
1 TTTTTCTTTTTTTTTT-ATTTTTTCAACTTAGGACGCCCTTTCGGGTTTTCACCCTAAACGTTT
* * *
60258 TTTTTGTTTTTTGTTTT-TTTTTTCGACTTAGGACGTCCC-TTCGGGTTTTCATCCTAA
1 TTTTTCTTTTTT-TTTTATTTTTTCAACTTAGGACG-CCCTTTCGGGTTTTCACCCTAA
60315 GCGAAGTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
63 32 0.64
64 14 0.28
65 4 0.08
ACGTcount: A:0.12, C:0.18, G:0.14, T:0.55
Consensus pattern (63 bp):
TTTTTCTTTTTTTTTTATTTTTTCAACTTAGGACGCCCTTTCGGGTTTTCACCCTAAACGTTT
Found at i:70982 original size:21 final size:22
Alignment explanation
Indices: 70930--70982 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
70920 ATAATGGTAA
* *
70930 TAATATAAATAAATAAAATGAC
1 TAATATAAAAAAATAAAAGGAC
** *
70952 TACGAAAAAAAAAT-AAAGGAC
1 TAATATAAAAAAATAAAAGGAC
70973 TAATATAAAA
1 TAATATAAAA
70983 GAAAAAATAA
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.66, C:0.06, G:0.08, T:0.21
Consensus pattern (22 bp):
TAATATAAAAAAATAAAAGGAC
Found at i:73877 original size:41 final size:41
Alignment explanation
Indices: 73820--73902 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
73810 GAAAAAATTA
73820 CTCTTAGGTCCTTGTAGATTACGCGTGTTTTGTATTTCAGT
1 CTCTTAGGTCCTTGTAGATTACGCGTGTTTTGTATTTCAGT
*
73861 CTCTTAGGTCCTTGTAGATTACGCTTGTTTTGTATTTCAGT
1 CTCTTAGGTCCTTGTAGATTACGCGTGTTTTGTATTTCAGT
73902 C
1 C
73903 ACTAGTTTGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.14, C:0.18, G:0.20, T:0.47
Consensus pattern (41 bp):
CTCTTAGGTCCTTGTAGATTACGCGTGTTTTGTATTTCAGT
Found at i:77013 original size:21 final size:21
Alignment explanation
Indices: 76987--77031 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
76977 GATTTCTGGG
* *
76987 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
77008 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
77029 CAA
1 CAA
77032 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:77628 original size:18 final size:18
Alignment explanation
Indices: 77605--77639 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
77595 CTAGGAGATT
77605 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
77623 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
77640 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:77725 original size:21 final size:22
Alignment explanation
Indices: 77696--77739 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
77686 GTTGTATGAT
77696 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
77717 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
77739 A
1 A
77740 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:78800 original size:149 final size:149
Alignment explanation
Indices: 78610--78912 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 149
78600 GAGTCGATGG
78610 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
* *
78675 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
78740 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
78759 TCTATGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
78824 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
*
78889 TATGGCACTATGGTGCAA-
131 TATGGCACTACGGTGCAAT
78907 TCTACG
1 TCTACG
78913 GGGCACTTCG
Statistics
Matches: 149, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
148 5 0.03
149 144 0.97
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:82080 original size:21 final size:21
Alignment explanation
Indices: 82054--82098 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
82044 GATTTCTGGG
* *
82054 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
82075 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
82096 CAA
1 CAA
82099 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:82700 original size:18 final size:18
Alignment explanation
Indices: 82677--82711 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
82667 CTAGGAGATT
82677 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
82695 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
82712 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:82797 original size:21 final size:22
Alignment explanation
Indices: 82768--82811 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
82758 GTTGTATGAT
82768 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
82789 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
82811 A
1 A
82812 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:83876 original size:149 final size:149
Alignment explanation
Indices: 83691--83994 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
83681 GAGTCGATGG
83691 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
* *
83756 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
83821 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
83840 TCTATGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
83905 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
*
83970 TATGGCACTATGGTGCAAT
131 TATGGCACTACGGTGCAAT
83989 TCTACG
1 TCTACG
83995 GGGCACTTCG
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:84017 original size:23 final size:23
Alignment explanation
Indices: 83973--84017 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
83963 ATCATTATAT
*
83973 GGCACTATGGTGCAATTCTACGG
1 GGCACTATGGTGCAATTATACGG
*
83996 GGCACT-TCGGTGCATTTATACG
1 GGCACTAT-GGTGCAATTATACG
84018 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (23 bp):
GGCACTATGGTGCAATTATACGG
Found at i:87177 original size:21 final size:21
Alignment explanation
Indices: 87151--87195 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
87141 GATTTCTGGG
* *
87151 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
87172 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
87193 CAA
1 CAA
87196 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:87796 original size:18 final size:18
Alignment explanation
Indices: 87773--87807 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
87763 CTAGGAGATT
87773 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
87791 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
87808 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:87893 original size:21 final size:22
Alignment explanation
Indices: 87864--87907 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
87854 GTTGTATGAT
87864 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
87885 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
87907 A
1 A
87908 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:88968 original size:149 final size:149
Alignment explanation
Indices: 88783--89086 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
88773 GAGTCGATGG
88783 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
* *
88848 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
88913 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
88932 TCTATGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
88997 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
*
89062 TATGGCACTATGGTGCAAT
131 TATGGCACTACGGTGCAAT
89081 TCTACG
1 TCTACG
89087 GGGCACTTCG
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:89109 original size:23 final size:23
Alignment explanation
Indices: 89065--89109 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
89055 ATCATTATAT
*
89065 GGCACTATGGTGCAATTCTACGG
1 GGCACTATGGTGCAATTATACGG
*
89088 GGCACT-TCGGTGCATTTATACG
1 GGCACTAT-GGTGCAATTATACG
89110 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (23 bp):
GGCACTATGGTGCAATTATACGG
Found at i:92269 original size:21 final size:21
Alignment explanation
Indices: 92243--92287 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
92233 GATTTCTGGG
* *
92243 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
92264 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
92285 CAA
1 CAA
92288 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:92889 original size:18 final size:18
Alignment explanation
Indices: 92866--92900 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
92856 CTAGGAGATT
92866 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
92884 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
92901 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:92986 original size:21 final size:22
Alignment explanation
Indices: 92957--93000 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
92947 GTTGTATGAT
92957 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
92978 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
93000 A
1 A
93001 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:94058 original size:149 final size:149
Alignment explanation
Indices: 93878--94181 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
93868 GAGTCGAGGG
93878 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
* *
93943 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
94008 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
94027 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
94092 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
94157 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
94176 TCTACG
1 TCTACG
94182 GGGCACTTCG
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:94204 original size:23 final size:23
Alignment explanation
Indices: 94160--94204 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
94150 ATCATTATAT
* *
94160 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGCTGCAATTATACGG
* *
94183 GGCACTTCGCTGCATTTATACG
1 GGCACTACGCTGCAATTATACG
94205 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGCTGCAATTATACGG
Found at i:95267 original size:20 final size:20
Alignment explanation
Indices: 95244--95307 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
95234 TAGTATTTAG
95244 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
* *
95264 AT-AATCTTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
*
95284 ATAAGTATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
*
95303 TTAAA
1 ATAAA
95308 CTTTATTGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
19 16 0.46
20 13 0.37
21 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Found at i:95277 original size:19 final size:20
Alignment explanation
Indices: 95253--95302 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
95243 GATAAATTTA
*
95253 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
95272 TTAATAAATTTAATAAGTATT
1 TTAAT-AATTTTATAAGTATT
95293 TT-ATAATTTT
1 TTAATAATTTT
95303 TTAAACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:95305 original size:31 final size:30
Alignment explanation
Indices: 95220--95306 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
95210 TTCGATAATA
* *
95220 TAATAATTATTTTAT-AGTATTTAGATAAATT
1 TAATAA-TATTTTATAATTTTTTA-ATAAATT
* *
95251 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATTTTTTAATAAATT
95282 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATTTTTTAA
95307 ACTTTATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 40 0.85
32 6 0.13
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
TAATAATATTTTATAATTTTTTAATAAATT
Found at i:95860 original size:31 final size:30
Alignment explanation
Indices: 95825--95911 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
95815 TCAATAAAGT
95825 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAAATTATAAAATA-TTATTAAATTTA
* *
95856 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAAATTATAAAA-TATTATTAAATTTA
* *
95887 -TATAAATACTATAAAATAATTATTA
1 TTA-AAAAATTATAAAAT-ATTATTA
95912 TATTATCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 3 0.06
31 43 0.90
32 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (30 bp):
TTAAAAAATTATAAAATATTATTAAATTTA
Found at i:95887 original size:20 final size:20
Alignment explanation
Indices: 95820--95893 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
95810 TTTCGTCAAT
*
95820 AAAG-TTTAAAAAATTA-TA
1 AAAGATTTATAAAATTATTA
* * *
95838 AAATACTTATTAAATTTATTA
1 AAAGATTTA-TAAAATTATTA
95859 AAAGA-TTATAAAATTATTA
1 AAAGATTTATAAAATTATTA
95878 ATAA-ATTTATATAAAT
1 A-AAGATTTATA-AAAT
95894 ACTATAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 3 0.07
19 15 0.34
20 16 0.36
21 10 0.23
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAGATTTATAAAATTATTA
Found at i:104000 original size:21 final size:21
Alignment explanation
Indices: 103974--104013 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
103964 AATTTAATCC
103974 TTTTTATTATTA-TTTATTATT
1 TTTTTATT-TTATTTTATTATT
103995 TTTTTATTTTATTTTATTA
1 TTTTTATTTTATTTTATTA
104014 CTTATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTATTTTATTTTATTATT
Found at i:104006 original size:13 final size:14
Alignment explanation
Indices: 103990--104032 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
103980 TTATTATTTA
*
103990 TTATTTTTTTA-TT
1 TTATTTTATTACTT
104003 TTATTTTATTACTT
1 TTATTTTATTACTT
*
104017 ATATTTTATATACTT
1 TTATTTTAT-TACTT
104032 T
1 T
104033 GTTTATACGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 10 0.40
14 10 0.40
15 5 0.20
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (14 bp):
TTATTTTATTACTT
Found at i:104050 original size:2 final size:2
Alignment explanation
Indices: 104043--104073 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
104033 GTTTATACGT
104043 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
104074 TATTTTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104272 original size:26 final size:26
Alignment explanation
Indices: 104254--104310 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
104244 TTCTATTTCC
104254 TTTATATTTATTTTGTTTCTTATTTA
1 TTTATATTTATTTTGTTTCTTATTTA
*
104280 TTTTTATTTATTTT-TATT-TTATTTTA
1 TTTATATTTATTTTGT-TTCTTA-TTTA
104306 TTTAT
1 TTTAT
104311 TTATTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (26 bp):
TTTATATTTATTTTGTTTCTTATTTA
Found at i:104288 original size:10 final size:10
Alignment explanation
Indices: 104254--104323 Score: 70
Period size: 10 Copynumber: 6.6 Consensus size: 10
104244 TTCTATTTCC
*
104254 TTTATATTTA
1 TTTATTTTTA
*
104264 TTTTGTTTCTTA
1 -TTTATTT-TTA
104276 TTTATTTTTA
1 TTTATTTTTA
104286 TTTATTTTTA
1 TTTATTTTTA
104296 TTT-TATTTTA
1 TTTAT-TTTTA
104306 TTTATTTATTA
1 TTTATTT-TTA
104317 TATTATT
1 T-TTATT
104324 ATTAGGTTCT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
9 1 0.02
10 26 0.51
11 16 0.31
12 8 0.16
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.76
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:104317 original size:16 final size:15
Alignment explanation
Indices: 104258--104323 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
104248 ATTTCCTTTA
104258 TATTTATTTTGT-TTCT
1 TATTTATTTT-TATT-T
104274 TATTTATTTTTA-TT
1 TATTTATTTTTATTT
*
104288 TATTTTTATTTTATTT
1 TATTTAT-TTTTATTT
*
104304 TATTTATTTATTATAT
1 TATTTATTT-TTATTT
104320 TATT
1 TATT
104324 ATTAGGTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
14 7 0.16
15 9 0.21
16 27 0.63
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (15 bp):
TATTTATTTTTATTT
Found at i:104423 original size:30 final size:32
Alignment explanation
Indices: 104358--104429 Score: 87
Period size: 30 Copynumber: 2.3 Consensus size: 32
104348 TTTTATTCCT
104358 TTTATTTTCTTATTTTTTATCTCATCTTGTTTA
1 TTTATTTT-TTATTTTTTATCTCATCTTGTTTA
*
104391 TTTATTTTTT-TCTTTTTAT-TC-TCTTTTTTA
1 TTTATTTTTTAT-TTTTTATCTCATCTTGTTTA
*
104421 TTTACTTTT
1 TTTATTTTT
104430 ATTACCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
30 16 0.44
31 3 0.08
32 9 0.25
33 8 0.22
ACGTcount: A:0.12, C:0.11, G:0.01, T:0.75
Consensus pattern (32 bp):
TTTATTTTTTATTTTTTATCTCATCTTGTTTA
Found at i:104439 original size:33 final size:32
Alignment explanation
Indices: 104371--104440 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 32
104361 ATTTTCTTAT
*
104371 TTTTTATCTCATCTTGTTTATTTATTTTTTTC
1 TTTTTATCTCATCTTGTTTATTTATTTTTTCC
*
104403 TTTTTAT-TC-TCTTTTTTATTTACTTTTATTACC
1 TTTTTATCTCATCTTGTTTATTTA-TTTT-TT-CC
104436 TTTTT
1 TTTTT
104441 CCTCTAACGC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 12 0.36
31 6 0.18
32 9 0.27
33 6 0.18
ACGTcount: A:0.13, C:0.13, G:0.01, T:0.73
Consensus pattern (32 bp):
TTTTTATCTCATCTTGTTTATTTATTTTTTCC
Found at i:105205 original size:23 final size:23
Alignment explanation
Indices: 105174--105265 Score: 139
Period size: 23 Copynumber: 4.0 Consensus size: 23
105164 CACCACAGCT
* * *
105174 CGTATAATTGCATCGAAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
*
105197 CGTAGAATTGCACCGGAGTGCCT
1 CGTAGAATTGCACCGGAGTGCCA
105220 CGTAGAATTGCACCGGAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
*
105243 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
105266 TATAATAATG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGGAGTGCCA
Found at i:106002 original size:56 final size:55
Alignment explanation
Indices: 105899--106004 Score: 149
Period size: 56 Copynumber: 1.9 Consensus size: 55
105889 CATAAATCCT
** * *
105899 ATTCGATGTTTGTATTTAATGGGGTGCATCGATGCACTCCTTATGCATCGATGGC
1 ATTCGATGTTTGTATTTAAAAGAGTGCATCGATGCACTCCATATGCATCGATGGC
* *
105954 ATTCGATGTTTGTATTTTAAAAGAGTGCATCGATGCACTTCATGTGCATCG
1 ATTCGATGTTTGTA-TTTAAAAGAGTGCATCGATGCACTCCATATGCATCG
106005 GTACACCTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
55 14 0.32
56 30 0.68
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (55 bp):
ATTCGATGTTTGTATTTAAAAGAGTGCATCGATGCACTCCATATGCATCGATGGC
Found at i:110166 original size:23 final size:23
Alignment explanation
Indices: 110135--110203 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
110125 TTGTCACCAT
*
110135 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * * *
110158 CGTAGAATTACACCGGAGTACCG
1 CGTAGAATTGCACCGAAGTGCCA
*
110181 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
110204 TATAATAATG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:117744 original size:23 final size:23
Alignment explanation
Indices: 117718--117786 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
117708 CACCACAGCT
*
117718 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* **
117741 CGTAGAATTACACCGAAGTGCTG
1 CGTAGAATTGCACCGAAGTGCCA
* *
117764 TGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
117787 TATAATAATG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:120957 original size:2 final size:2
Alignment explanation
Indices: 120946--120981 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
120936 AGACTATTCA
120946 AT AT -T 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
120982 CGTACATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123715 original size:25 final size:25
Alignment explanation
Indices: 123682--123732 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
123672 AACTCTACAC
123682 ATATATATAAAGGAAGACATAAATT
1 ATATATATAAAGGAAGACATAAATT
*
123707 ATATATATAAAGGGAGACATAAATT
1 ATATATATAAAGGAAGACATAAATT
123732 A
1 A
123733 AGTGAAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.55, C:0.04, G:0.14, T:0.27
Consensus pattern (25 bp):
ATATATATAAAGGAAGACATAAATT
Done.