Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001118.1 Hibiscus syriacus cultivar Beakdansim tig00002214_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: 151052
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:3421 original size:20 final size:19
Alignment explanation
Indices: 3383--3421 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
3373 CAAAATGACC
* *
3383 CAATTTCACATTTTAACAT
1 CAATTTCACAATCTAACAT
3402 CAATTTCAACAATCTAACAT
1 CAATTTC-ACAATCTAACAT
3422 AAATATCCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (19 bp):
CAATTTCACAATCTAACAT
Found at i:4632 original size:31 final size:31
Alignment explanation
Indices: 4594--4654 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
4584 ACATAAATTT
*
4594 GAAAATTAAAC-TTTTGGTCCCTAAGCTTTTG
1 GAAAATT-AACTTTTTGGTCCCTAAACTTTTG
* *
4625 GAAAATTACCTTTTTGGTCCTTAAACTTTT
1 GAAAATTAACTTTTTGGTCCCTAAACTTTT
4655 CTAATCTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (31 bp):
GAAAATTAACTTTTTGGTCCCTAAACTTTTG
Found at i:10845 original size:2 final size:2
Alignment explanation
Indices: 10840--10865 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10830 TTAATCATTA
10840 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
10866 TAACGATATA
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:24956 original size:20 final size:21
Alignment explanation
Indices: 24931--24982 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
24921 TTTTCCCAAT
*
24931 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
24951 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
24972 TCGCAATGCGA
1 TCGCAATGCGA
24983 TACTATCGCA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:24992 original size:16 final size:16
Alignment explanation
Indices: 24971--25002 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24961 AATTGGGAAA
24971 ATCGCAATGCGATACT
1 ATCGCAATGCGATACT
24987 ATCGCAATGCGATACT
1 ATCGCAATGCGATACT
25003 TACTATCGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (16 bp):
ATCGCAATGCGATACT
Found at i:25008 original size:20 final size:20
Alignment explanation
Indices: 24983--25020 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
24973 CGCAATGCGA
24983 TACTATCGCAATGCGATACT
1 TACTATCGCAATGCGATACT
25003 TACTATCGCAATGCGATA
1 TACTATCGCAATGCGATA
25021 ATACAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (20 bp):
TACTATCGCAATGCGATACT
Found at i:25625 original size:19 final size:20
Alignment explanation
Indices: 25580--25627 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
25570 TTCGAGAATG
*
25580 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGCGGAAACA
**
25600 ACTATCGCAACGC-GAAACA
1 AAAATCGCAACGCGGAAACA
25619 AAAATCGCA
1 AAAATCGCA
25628 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.48, C:0.25, G:0.17, T:0.10
Consensus pattern (20 bp):
AAAATCGCAACGCGGAAACA
Found at i:25669 original size:20 final size:19
Alignment explanation
Indices: 25623--25693 Score: 115
Period size: 19 Copynumber: 3.7 Consensus size: 19
25613 GAAACAAAAA
*
25623 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
25642 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
25661 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
25681 TCGCGTTGCGATT
1 TCGCGTTGCGATT
25694 GTCTGGTCGC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
19 30 0.62
20 18 0.38
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:25704 original size:39 final size:39
Alignment explanation
Indices: 25628--25704 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
25618 AAAAATCGCA
* **
25628 TTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
25667 TTGCGATTTTCATTTCGCGTTGCGATTGTCT-GGTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
25705 ATAGTCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 32 0.94
40 2 0.06
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.45
Consensus pattern (39 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
Found at i:25779 original size:20 final size:20
Alignment explanation
Indices: 25745--25802 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
25735 GTGATTCTAT
**
25745 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
25765 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
25785 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
25803 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:27888 original size:21 final size:21
Alignment explanation
Indices: 27864--27930 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
27854 TCATTCCTCG
27864 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
27885 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
27906 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
27927 AGAG
1 AGAG
27931 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:27888 original size:42 final size:42
Alignment explanation
Indices: 27812--27930 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
27802 GACTCGCCTG
* * * * * * *
27812 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
27854 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
27896 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
27931 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:29298 original size:14 final size:14
Alignment explanation
Indices: 29279--29314 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
29269 ATTGTTTAAT
29279 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
29293 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
29307 TGATTTGT
1 TGATTTGT
29315 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:29465 original size:19 final size:19
Alignment explanation
Indices: 29441--29499 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
29431 GAAATTAGCG
29441 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
29460 TTGCGA--TT-ATCTCG--
1 TTGCGATTTTCATTTCGCA
29474 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
29493 TTGCGAT
1 TTGCGAT
29500 AGTAATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 6 0.18
16 7 0.21
17 7 0.21
19 13 0.39
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:29465 original size:33 final size:33
Alignment explanation
Indices: 29422--29498 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 33
29412 AAAAGTACTA
*
29422 TCGCAATGCGAAATTA-GCGTTGCGATTTTCATT
1 TCGCATTGCG-AATTACGCGTTGCGATTTTCATT
*
29455 TCGCATTGCG-ATTATCTCGTTGCGATTTTCATT
1 TCGCATTGCGAATTA-CGCGTTGCGATTTTCATT
29488 TCGCATTGCGA
1 TCGCATTGCGA
29499 TAGTAATTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
31 4 0.10
33 35 0.90
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (33 bp):
TCGCATTGCGAATTACGCGTTGCGATTTTCATT
Found at i:31804 original size:12 final size:12
Alignment explanation
Indices: 31787--31811 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31777 TCTTCGGGGA
31787 CTTTTTCTTCTT
1 CTTTTTCTTCTT
31799 CTTTTTCTTCTT
1 CTTTTTCTTCTT
31811 C
1 C
31812 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:32020 original size:24 final size:24
Alignment explanation
Indices: 31986--32039 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
31976 CTGAAACATC
* *
31986 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
* *
32010 ATCAAAGTCCGGGTATTTACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
32034 ATCAAA
1 ATCAAA
32040 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:33116 original size:20 final size:20
Alignment explanation
Indices: 33091--33128 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33081 ATTCATTTGA
*
33091 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
33111 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
33129 CGCAATGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:33171 original size:14 final size:14
Alignment explanation
Indices: 33152--33205 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
33142 GAAAATCGCA
33152 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
33166 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
33183 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
33199 TTGCGAT
1 TTGCGAT
33206 AGTCTGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:33171 original size:33 final size:33
Alignment explanation
Indices: 33134--33204 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
33124 AAAATCGCAA
33134 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
33167 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
33200 TGCGA
1 TGCGA
33205 TAGTCTGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:33312 original size:14 final size:14
Alignment explanation
Indices: 33293--33329 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
33283 CATCAATTAA
33293 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
33307 ACAAATCATCTTTT
1 ACAAATCAACATTT
33321 ACAAATCAA
1 ACAAATCAA
33330 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:35295 original size:19 final size:19
Alignment explanation
Indices: 35199--35304 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 19
35189 CACGAAACTT
*
35199 AAAATCGCAACGCGAAATG
1 AAAATCGCAATGCGAAATG
** *
35218 ACTATCGCAACGCGGAAATG
1 AAAATCGCAATGC-GAAATG
***
35238 GCTATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
*
35257 AAAATCGCAA--CG--A-C
1 AAAATCGCAATGCGAAATG
35271 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
35290 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
35305 TTTGTGTTTC
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.54
20 17 0.24
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.14
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:35345 original size:19 final size:19
Alignment explanation
Indices: 35330--35414 Score: 82
Period size: 19 Copynumber: 4.4 Consensus size: 19
35320 GCGATTTTGT
35330 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
35348 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
35367 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
35387 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
35407 TGTTGCGA
1 CGTTGCGA
35415 AAGTAAACTA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
18 8 0.14
19 23 0.40
20 23 0.40
21 3 0.05
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.40
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:35394 original size:20 final size:19
Alignment explanation
Indices: 35330--35414 Score: 91
Period size: 20 Copynumber: 4.4 Consensus size: 19
35320 GCGATTTTGT
*
35330 CGTTGCGAT-TTCATTTCG
1 CGTTGCGATAGTCATTTCG
**
35348 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
35367 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
35387 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
*
35407 TGTTGCGA
1 CGTTGCGA
35415 AAGTAAACTA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
18 9 0.16
19 22 0.39
20 23 0.40
21 3 0.05
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.40
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:35921 original size:18 final size:18
Alignment explanation
Indices: 35895--35939 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
35885 GTCGATCAGA
**
35895 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCAAGG
*
35913 TGATAGCTCTGGGCAAGG
1 TGATGGCTCTGGGCAAGG
35931 TGATGGCTC
1 TGATGGCTC
35940 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCAAGG
Found at i:37306 original size:20 final size:20
Alignment explanation
Indices: 37258--37316 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
37248 AATAGTTTCT
** *
37258 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
37278 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
37298 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
37317 AGATAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:37609 original size:22 final size:22
Alignment explanation
Indices: 37579--37622 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
37569 GATGGAGATA
*
37579 GACGGATTTCGCCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
*
37601 GACGAATTTCGTCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
37623 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGAATTTCGCCGGAGATGGG
Found at i:37836 original size:20 final size:20
Alignment explanation
Indices: 37810--37923 Score: 131
Period size: 20 Copynumber: 5.7 Consensus size: 20
37800 GATTATGTAT
37810 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
37830 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
37850 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
** *
37870 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
37891 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
37911 TATCGCATTGCGA
1 TATCGCGTTGCGA
37924 TTTTCCCAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.04
20 64 0.78
21 13 0.16
22 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:37927 original size:41 final size:41
Alignment explanation
Indices: 37790--37925 Score: 168
Period size: 41 Copynumber: 3.3 Consensus size: 41
37780 CGCTTTGAAA
*
37790 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * * *
37831 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * * *
37871 ATCGCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
37912 ATCGCATTGCGATT
1 ATCGCATTGCGATT
37926 TTCCCAATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.04
40 32 0.40
41 43 0.54
42 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:37942 original size:21 final size:21
Alignment explanation
Indices: 37913--38005 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
37903 ATAGTCAGTA
37913 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
37934 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
37954 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
37975 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
37995 TCGCATTGCGA
1 TCGCATTGCGA
38006 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:37943 original size:41 final size:41
Alignment explanation
Indices: 37852--37986 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
37842 AAAGTCAGTA
* * ** *
37852 TCGCGTTGCGAAAGTAAGTATCGCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
37892 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
37934 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
37975 TCGCGTTGCGAT
1 TCGCGTTGCGAT
37987 TTACTTATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 3 0.04
41 75 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:37987 original size:41 final size:41
Alignment explanation
Indices: 37913--38005 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
37903 ATAGTCAGTA
37913 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
37954 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
37995 TCGCATTGCGA
1 TCGCATTGCGA
38006 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:41351 original size:25 final size:25
Alignment explanation
Indices: 41317--41369 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
41307 CCTGCTTCAA
41317 TCTATTGTTTCTAGATCTGAATTTT
1 TCTATTGTTTCTAGATCTGAATTTT
41342 TCTATTGTTTCTAGATCTGAATTTT
1 TCTATTGTTTCTAGATCTGAATTTT
41367 TCT
1 TCT
41370 TACATTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.19, C:0.13, G:0.11, T:0.57
Consensus pattern (25 bp):
TCTATTGTTTCTAGATCTGAATTTT
Found at i:42432 original size:21 final size:21
Alignment explanation
Indices: 42408--42448 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
42398 AAAGACTTAA
42408 TATAC-TTTTAGGTGCTTAAAT
1 TATACATTTT-GGTGCTTAAAT
42429 TATACATTTTGGTGCTTAAA
1 TATACATTTTGGTGCTTAAA
42449 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (21 bp):
TATACATTTTGGTGCTTAAAT
Found at i:42750 original size:18 final size:17
Alignment explanation
Indices: 42723--42784 Score: 81
Period size: 18 Copynumber: 3.6 Consensus size: 17
42713 TTTATGAGGA
*
42723 AATTGAAATCTGTGAAAG
1 AATTGGAATCTGTG-AAG
42741 AATTGGAATCTGTGAAG
1 AATTGGAATCTGTGAAG
*
42758 AAATTGGAATCTGT-AGG
1 -AATTGGAATCTGTGAAG
42775 AATTGGAATC
1 AATTGGAATC
42785 CAATTCCATA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.24
17 5 0.12
18 26 0.63
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (17 bp):
AATTGGAATCTGTGAAG
Found at i:43368 original size:38 final size:37
Alignment explanation
Indices: 43309--43398 Score: 139
Period size: 38 Copynumber: 2.4 Consensus size: 37
43299 TTTTCACCCT
43309 AAACCCGAACCCGACCTGACCCGAATATCACACTTAAAA
1 AAACCCG-ACCCGACCTGACCCGAATATCACACTT-AAA
43348 AAACCCGACCCGA-CTCGACCCGAATATCACACTTAAA
1 AAACCCGACCCGACCT-GACCCGAATATCACACTTAAA
43385 AAACCCGA-CCGACC
1 AAACCCGACCCGACC
43399 CGAACAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
36 4 0.08
37 14 0.29
38 24 0.49
39 7 0.14
ACGTcount: A:0.39, C:0.39, G:0.11, T:0.11
Consensus pattern (37 bp):
AAACCCGACCCGACCTGACCCGAATATCACACTTAAA
Found at i:43644 original size:32 final size:33
Alignment explanation
Indices: 43569--43652 Score: 134
Period size: 32 Copynumber: 2.5 Consensus size: 33
43559 CCTAAACCCG
43569 AACCCGAACCCGACCCGAATAGCACACTTAAAAA
1 AACCCG-ACCCGACCCGAATAGCACACTTAAAAA
*
43603 AACCCGACCCGACCCGAATATCACACTT-AAAA
1 AACCCGACCCGACCCGAATAGCACACTTAAAAA
*
43635 AACCTGACCCGACCCGAA
1 AACCCGACCCGACCCGAA
43653 AAAAATAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 21 0.44
33 21 0.44
34 6 0.12
ACGTcount: A:0.40, C:0.38, G:0.12, T:0.10
Consensus pattern (33 bp):
AACCCGACCCGACCCGAATAGCACACTTAAAAA
Found at i:43876 original size:37 final size:37
Alignment explanation
Indices: 43835--43905 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
43825 ACCTGACCCG
43835 ACCCGAATATCACACTTAAAAAAACCGACCCGACTCA
1 ACCCGAATATCACACTTAAAAAAACCGACCCGACTCA
*
43872 ACCCGAATATCACACTTAAAAAACCCGACCCGAC
1 ACCCGAATATCACACTTAAAAAAACCGACCCGAC
43906 CCGAACAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.42, C:0.37, G:0.08, T:0.13
Consensus pattern (37 bp):
ACCCGAATATCACACTTAAAAAAACCGACCCGACTCA
Found at i:43898 original size:32 final size:34
Alignment explanation
Indices: 43829--43910 Score: 96
Period size: 37 Copynumber: 2.4 Consensus size: 34
43819 ACCCGAACCT
*
43829 GACCCGACCCGAATATCACACTTAAAAAAACCGACCC
1 GACCCAACCCGAATATCACACTT-AAAAAA-C-ACCC
*
43866 GACTCAACCCGAATATCACACTT-AAAAA-ACCC
1 GACCCAACCCGAATATCACACTTAAAAAACACCC
*
43898 GACCCGACCCGAA
1 GACCCAACCCGAA
43911 CAAAATAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
32 15 0.37
35 5 0.12
37 21 0.51
ACGTcount: A:0.40, C:0.38, G:0.11, T:0.11
Consensus pattern (34 bp):
GACCCAACCCGAATATCACACTTAAAAAACACCC
Found at i:43977 original size:258 final size:256
Alignment explanation
Indices: 43269--44091 Score: 1317
Period size: 258 Copynumber: 3.2 Consensus size: 256
43259 TATAAGGTAA
* * *
43269 AATTATATATTTTTTCGGGTCGGTCCAG-TTTTTTCACCCTAAACCCGAACCCGACCTGACCCGA
1 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGA
43333 ATATCACACTTAAAAAAACCCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGA-CCGA
66 ATATCACACTTAAAAAAACCCGACCCGACTC-ACCCGAATATCACACTTAAAAAACCCGACCCGA
*
43397 CCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAAT----CCGACCCG
130 CCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCAACCCGACCCA
* *
43458 ACCCGAAATAATAAAAAATTATTTTTATTTAATACAAACAATGACTTAATCCGACCCAACCTG
195 ACCCGAAATAATAAAAAATTATTTTTATTTAATA-AAAAAATGACTTAATCCGACCCGACCTG
43521 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGAACCCGACCCG
1 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCG-ACCCGACCCG
* *
43586 AATAGCACACTTAAAAAAACCCGACCCG----ACCCGAATATCACACTTAAAAAACCTGACCCGA
65 AATATCACACTTAAAAAAACCCGACCCGACTCACCCGAATATCACACTTAAAAAACCCGACCCGA
* *
43647 CCCGAAAAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGAACC
130 CCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAAT-CAACCCGACCC
* * *
43712 TACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAAAATTGACTTAATCCGACCCGACCCG
194 AACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAAAA-TGACTTAATCCGACCCGACCTG
*
43776 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCTGACCCGACCCGA
1 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGA
43841 ATATCACACTTAAAAAAA-CCGACCCGACTCAACCCGAATATCACACTTAAAAAACCCGACCCGA
66 ATATCACACTTAAAAAAACCCGACCCGACTC-ACCCGAATATCACACTTAAAAAACCCGACCCGA
43905 CCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATACAACCCGACCC
130 CCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAAT-CAACCCGACCC
* * * *
43970 AACCCGAAATAATAAAAAATTATTTTTATTTAATCAAAACAGTGATTTAATCCAACCCGACCTG
194 AACCCGAAATAATAAAAAATTATTTTTATTTAAT-AAAAAAATGACTTAATCCGACCCGACCTG
*
44034 AATTATATATATTTTTCGGGTTGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACC
1 AATTATATATA-TTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACC
44092 AAAATAAAGT
Statistics
Matches: 528, Mismatches: 27, Indels: 25
0.91 0.05 0.04
Matches are distributed among these distances:
249 27 0.05
250 56 0.11
252 26 0.05
253 33 0.06
254 69 0.13
255 112 0.21
258 156 0.30
259 49 0.09
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.24
Consensus pattern (256 bp):
AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGA
ATATCACACTTAAAAAAACCCGACCCGACTCACCCGAATATCACACTTAAAAAACCCGACCCGAC
CCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCAACCCGACCCAA
CCCGAAATAATAAAAAATTATTTTTATTTAATAAAAAAATGACTTAATCCGACCCGACCTG
Found at i:44475 original size:18 final size:19
Alignment explanation
Indices: 44440--44476 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
44430 GATGGAATGT
44440 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
44460 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
44477 GGATTATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:45953 original size:21 final size:21
Alignment explanation
Indices: 45924--45990 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
45914 ATTCTGACTA
*
45924 TCGCATTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
45945 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
*
45966 TCGCGTTGCGATTTTCCTAAT
1 TCGCGTTGCGATTTTCCAAAT
45987 TCGC
1 TCGC
45991 AATGCGAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCAAAT
Found at i:46019 original size:20 final size:20
Alignment explanation
Indices: 45987--46100 Score: 138
Period size: 20 Copynumber: 5.7 Consensus size: 20
45977 TTTTCCTAAT
45987 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * ** *
46007 TCACAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
46028 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
46048 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
46068 TCGCAATGCAAATACATAAA
1 TCGCAATGCGAATACGTAAA
*
46088 TCGCAACGCGAAT
1 TCGCAATGCGAAT
46101 CTGACTATCG
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
20 63 0.82
21 14 0.18
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:46110 original size:20 final size:20
Alignment explanation
Indices: 46087--46133 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
46077 AAATACATAA
* *
46087 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGAATCTAACT
*
46107 ATCGCAACGAGATTCTAACT
1 ATCGCAACGAGAATCTAACT
46127 ATCGCAA
1 ATCGCAA
46134 TACTGAATTT
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:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (20 bp):
ATCGCAACGAGAATCTAACT
Found at i:46111 original size:40 final size:39
Alignment explanation
Indices: 45987--46113 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
45977 TTTTCCTAAT
* *
45987 TCGCAATGCGAATACGTAAATCACAACGCGAATTTGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATCT-G-AAA
* *
46028 TCGCAATGCGATTACGTAAATCGCAATGCGAATAC-GTAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAAT-CTG-AAA
* * *
46068 TCGCAATGCAAATACATAAATCGCAACGCGAATCTGACTA
1 TCGCAATGCGAATACGTAAATCGCAACGCGAATCTGA-AA
46108 TCGCAA
1 TCGCAA
46114 CGAGATTCTA
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.03
40 41 0.56
41 30 0.41
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.20
Consensus pattern (39 bp):
TCGCAATGCGAATACGTAAATCGCAACGCGAATCTGAAA
Found at i:47028 original size:24 final size:24
Alignment explanation
Indices: 46970--47016 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
46960 AGTAAGTATT
*
46970 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
46994 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
47017 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:49520 original size:40 final size:41
Alignment explanation
Indices: 49471--49549 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 41
49461 ATCGCAACGT
*
49471 GAATATGACTATCGCAACACGGAAATGACTATCGCAATGCA
1 GAATATGACTATCGCAACACGAAAATGACTATCGCAATGCA
**
49512 GAAT-TGACTATCGCAATGCGAAAATGACTATCGCAATG
1 GAATATGACTATCGCAACACGAAAATGACTATCGCAATG
49550 AGAGAATCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 31 0.89
41 4 0.11
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (41 bp):
GAATATGACTATCGCAACACGAAAATGACTATCGCAATGCA
Found at i:49548 original size:20 final size:20
Alignment explanation
Indices: 49461--49549 Score: 99
Period size: 20 Copynumber: 4.5 Consensus size: 20
49451 CAACGCGGAA
* * *
49461 ATCGCAACGTGAATATGACT
1 ATCGCAATGCGAAAATGACT
** *
49481 ATCGCAACACGGAAATGACT
1 ATCGCAATGCGAAAATGACT
*
49501 ATCGCAATGC-AGAATTGACT
1 ATCGCAATGCGA-AAATGACT
49521 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
49541 ATCGCAATG
1 ATCGCAATG
49550 AGAGAATCGC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
20 57 0.98
21 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:49612 original size:20 final size:19
Alignment explanation
Indices: 49554--49622 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
49544 GCAATGAGAG
49554 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
49573 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
49587 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
49607 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
49623 TAGTTTCACG
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
14 8 0.20
16 5 0.12
17 2 0.05
18 3 0.07
19 12 0.29
20 11 0.27
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:49615 original size:34 final size:34
Alignment explanation
Indices: 49521--49616 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 34
49511 AGAATTGACT
** *
49521 ATCGCAATGCGAAAATGACTATCGCAATGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
*
49555 ATCGCAATGCG-AAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
49588 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCGAAAATGAAAATCGCAACG
49617 CGAAATTAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 29 0.51
34 28 0.49
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
Found at i:49682 original size:33 final size:33
Alignment explanation
Indices: 49633--49719 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 33
49623 TAGTTTCACG
*
49633 TTTCATTTTCGTATTGCGATTCACTCGTTGCGAT
1 TTTCA-TTTCGCATTGCGATTCACTCGTTGCGAT
*
49667 TTTCATTTCGCATTGCGATTCTCTCGTTGCGAT
1 TTTCATTTCGCATTGCGATTCACTCGTTGCGAT
** *
49700 AGTCATTTCCGCGTTGCGAT
1 TTTCATTT-CGCATTGCGAT
49720 AGTCTGTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 32 0.68
34 15 0.32
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.44
Consensus pattern (33 bp):
TTTCATTTCGCATTGCGATTCACTCGTTGCGAT
Found at i:49844 original size:14 final size:14
Alignment explanation
Indices: 49825--49861 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
49815 CATCAATTAA
49825 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
49839 ACAAATCATCTTTT
1 ACAAATCAACATTT
49853 ACAAATCAA
1 ACAAATCAA
49862 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:51902 original size:20 final size:20
Alignment explanation
Indices: 51830--51896 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
51820 GAAACTTAAA
51830 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
51850 ATCGCAACGTGAAAATGACT
1 ATCGCAACGCGAAAATGACT
51870 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
51890 ATCGCAA
1 ATCGCAA
51897 TACGAATTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:51908 original size:20 final size:20
Alignment explanation
Indices: 51830--51917 Score: 104
Period size: 20 Copynumber: 4.4 Consensus size: 20
51820 GAAACTTAAA
*
51830 ATCGCAACGCGAAAATGACT
1 ATCGCAACACGAAAATGACT
**
51850 ATCGCAACGTGAAAATGACT
1 ATCGCAACACGAAAATGACT
*
51870 ATCGCAACGCGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
51890 ATCGCAATACGAATTTGACT
1 ATCGCAACACGAAAATGACT
*
51910 ATCACAAC
1 ATCGCAAC
51918 GAGAGAATCG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:51909 original size:40 final size:40
Alignment explanation
Indices: 51830--51918 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
51820 GAAACTTAAA
**
51830 ATCGCAACGCGAAAATGACTATCGCAACGTGAAAATGACT
1 ATCGCAACGCGAAAATGACTATCGCAACACGAAAATGACT
* **
51870 ATCGCAACGCGAAAATGACTATCGCAATACGAATTTGACT
1 ATCGCAACGCGAAAATGACTATCGCAACACGAAAATGACT
*
51910 ATCACAACG
1 ATCGCAACG
51919 AGAGAATCGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (40 bp):
ATCGCAACGCGAAAATGACTATCGCAACACGAAAATGACT
Found at i:51982 original size:34 final size:34
Alignment explanation
Indices: 51941--52096 Score: 154
Period size: 34 Copynumber: 4.4 Consensus size: 34
51931 TGCGATTTTC
*
51941 ATTTCGCATTGTGATTCTTTCGTTGCGATAGTCA
1 ATTTCGCATTGCGATTCTTTCGTTGCGATAGTCA
* *
51975 AATTCGCATTGCGATAGTCATTTTCACATTGCGATAGTCA
1 ATTTCGCATTGCGAT--TC--TTT--CGTTGCGATAGTCA
* * **
52015 TTTTCGCATTGCGATT-TTGTTGTTGCGATTTTC-
1 ATTTCGCATTGCGATTCTT-TCGTTGCGATAGTCA
*
52048 ATTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
1 ATTTCGCATTGCGATTCTTTCGTTGCGATAGTCA
*
52082 TTTTCGCATTGCGAT
1 ATTTCGCATTGCGAT
52097 AGTAAACTAT
Statistics
Matches: 98, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
33 26 0.27
34 37 0.38
35 2 0.02
36 3 0.03
38 4 0.04
40 26 0.27
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.43
Consensus pattern (34 bp):
ATTTCGCATTGCGATTCTTTCGTTGCGATAGTCA
Found at i:51988 original size:20 final size:20
Alignment explanation
Indices: 51963--52099 Score: 113
Period size: 20 Copynumber: 7.5 Consensus size: 20
51953 GATTCTTTCG
**
51963 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
51983 TTGCGATAGTCATTTTCACA
1 TTGCGATAGTCATTTTCGCA
52003 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
52023 TTGCGAT--T--TTGTT-G--
1 TTGCGATAGTCATT-TTCGCA
**
52037 TTGCGATTTTCA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
52056 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
52070 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
52090 TTGCGATAGT
1 TTGCGATAGT
52100 AAACTATTCT
Statistics
Matches: 97, Mismatches: 6, Indels: 28
0.74 0.05 0.21
Matches are distributed among these distances:
14 14 0.14
16 12 0.12
17 6 0.06
18 5 0.05
19 7 0.07
20 53 0.55
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:53996 original size:20 final size:20
Alignment explanation
Indices: 53973--54012 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
53963 CTGAAACTTT
*
53973 AAATCGCAACACGAAAATGA
1 AAATCGCAACACAAAAATGA
53993 AAATCGCAACACAAAAATGA
1 AAATCGCAACACAAAAATGA
54013 CTACCGCACG
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:0.57, C:0.20, G:0.12, T:0.10
Consensus pattern (20 bp):
AAATCGCAACACAAAAATGA
Found at i:54473 original size:22 final size:22
Alignment explanation
Indices: 54411--54476 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
54401 TGACAGTGAA
* *
54411 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
* *
54433 TTATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
*
54455 TGATTTCGTCGAAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
54477 GGATGTCGCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.26
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:54697 original size:20 final size:20
Alignment explanation
Indices: 54656--54767 Score: 109
Period size: 20 Copynumber: 5.5 Consensus size: 20
54646 GCTATGTAAA
* *
54656 TCGCATTGCGATAGT-CAGAT
1 TCGCATTGCGAT-TTACATAT
54676 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* * *
54696 TCACATTGCGATTTACGTAA
1 TCGCATTGCGATTTACATAT
* * *
54716 TCGCATTGCAATTTTCCAAAT
1 TCGCATTGCGA-TTTACATAT
* *
54737 CCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACATAT
54757 TCGCATTGCGA
1 TCGCATTGCGA
54768 ATTAGGAAAA
Statistics
Matches: 73, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
19 1 0.01
20 58 0.79
21 14 0.19
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:54788 original size:21 final size:21
Alignment explanation
Indices: 54764--54809 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
54754 TATTCGCATT
54764 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
54785 GCGAATTTGGTAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
54806 GCGA
1 GCGA
54810 TAGTCAGAAT
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:0.17, G:0.26, T:0.20
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:58402 original size:19 final size:19
Alignment explanation
Indices: 58369--58479 Score: 96
Period size: 19 Copynumber: 5.7 Consensus size: 19
58359 AATATGTAAA
*
58369 TCGCAACACATAAGTCAAAT
1 TCGCAACACA-AATTCAAAT
*
58389 TCGCAACACAAAGTCAAAT
1 TCGCAACACAAATTCAAAT
* * *
58408 TCGCAACGCGGAATTTAAAAT
1 TCGCAACAC--AAATTCAAAT
** *
58429 TCGCAACTGAATTTCAAAT
1 TCGCAACACAAATTCAAAT
** *
58448 TCGCAACTGAATTTCAAAT
1 TCGCAACACAAATTCAAAT
58467 TCGCAACACAAAT
1 TCGCAACACAAAT
58480 GTTTTGGGTA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
19 55 0.70
20 10 0.13
21 14 0.18
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.23
Consensus pattern (19 bp):
TCGCAACACAAATTCAAAT
Found at i:58429 original size:40 final size:38
Alignment explanation
Indices: 58385--58478 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 38
58375 CACATAAGTC
58385 AAATTCGCAACACAAAGTCAAATTCGCAACGCGGAATTTA
1 AAATTCGCAACACAAAGTCAAATTCGCAA--CGGAATTTA
** ** * *
58425 AAATTCGCAACTGAATTTCAAATTCGCAACTGAATTTC
1 AAATTCGCAACACAAAGTCAAATTCGCAACGGAATTTA
58463 AAATTCGCAACACAAA
1 AAATTCGCAACACAAA
58479 TGTTTTGGGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 20 0.44
40 25 0.56
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.23
Consensus pattern (38 bp):
AAATTCGCAACACAAAGTCAAATTCGCAACGGAATTTA
Found at i:58631 original size:14 final size:15
Alignment explanation
Indices: 58612--58649 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
58602 TCCCCATTTC
58612 TAATTTTTTT-TAAA
1 TAATTTTTTTCTAAA
*
58626 TAATTTTATTTCTATA
1 TAATTTT-TTTCTAAA
58642 TAATTTTT
1 TAATTTTT
58650 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTAAA
Found at i:59843 original size:28 final size:29
Alignment explanation
Indices: 59760--59868 Score: 168
Period size: 28 Copynumber: 3.8 Consensus size: 29
59750 TTTTATATGT
59760 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
* * *
59788 TCATATAGTTCATATCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
59817 TCATGTAGCTCATG-CATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
59845 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
59869 ATATCACATA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 34 0.47
29 33 0.46
30 5 0.07
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:59848 original size:57 final size:58
Alignment explanation
Indices: 59760--59868 Score: 168
Period size: 57 Copynumber: 1.9 Consensus size: 58
59750 TTTTATATGT
*
59760 TCATGTACTCATGTCATTTCTCTTGTGATCATATAGTTCATATCAT-TTCTCTTGTGA
1 TCATGTACTCATGTCATTTCTCTTGTGATCATATAGCTCATATCATGTTCTCTTGTGA
* *
59817 TCATGTAGCTCATG-CATTTCTCTTGTGATCATGTAGCTCATGTCATGTTCTC
1 TCATGTA-CTCATGTCATTTCTCTTGTGATCATATAGCTCATATCATGTTCTC
59869 ATATCACATA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
57 36 0.77
58 11 0.23
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (58 bp):
TCATGTACTCATGTCATTTCTCTTGTGATCATATAGCTCATATCATGTTCTCTTGTGA
Found at i:59884 original size:12 final size:12
Alignment explanation
Indices: 59867--59891 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59857 TGTCATGTTC
59867 TCATATCACATA
1 TCATATCACATA
59879 TCATATCACATA
1 TCATATCACATA
59891 T
1 T
59892 GTATTTGAAT
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:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (12 bp):
TCATATCACATA
Found at i:60314 original size:64 final size:63
Alignment explanation
Indices: 60245--60401 Score: 176
Period size: 64 Copynumber: 2.5 Consensus size: 63
60235 TAATGAAGGT
* **
60245 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGAT-GTTTTATTATTAATGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCGATCGTTTTATT-TTAA-AA
60308 G
63 G
* * * *
60309 ATGCATCGATGCA-TGCCTTTTGCATCGATGCACTAATTGCATTCGATCTTTTTATTTTAAAAG
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
*
60372 AGTGCATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
60402 ACACCTTCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
63 3 0.04
64 66 0.85
65 9 0.12
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
Found at i:61626 original size:24 final size:24
Alignment explanation
Indices: 61575--61628 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
61565 GTATTCGAAA
* *
61575 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGGCAATACCCAGAC
* * *
61599 TTTGATCTTGGGGAATACTCAGAT
1 TTTGATCTTGGGCAATACCCAGAC
61623 TTTGAT
1 TTTGAT
61629 GATGTGATGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (24 bp):
TTTGATCTTGGGCAATACCCAGAC
Found at i:64690 original size:18 final size:18
Alignment explanation
Indices: 64669--64705 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
64659 GTAATTGGAG
64669 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
64687 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
64705 T
1 T
64706 ATAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:64712 original size:24 final size:24
Alignment explanation
Indices: 64661--64713 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
64651 TTTCATATGT
* * *
64661 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
64685 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
64709 AATTT
1 AATTT
64714 TGACTCAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:65058 original size:39 final size:39
Alignment explanation
Indices: 65015--65101 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
65005 TCCGATGCTC
*
65015 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAACGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
65054 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
65093 ATCAAAATC
1 ATCAAAATC
65102 TATAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:65326 original size:20 final size:20
Alignment explanation
Indices: 65277--65319 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
65267 ATGTTGCGAT
65277 CAACGCGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
*
65297 CAACGCGAAAGTTAAATTCG
1 CAACGCGAAAGTCAAATTCG
65317 CAA
1 CAA
65320 ACCGAAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:65488 original size:14 final size:14
Alignment explanation
Indices: 65471--65507 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
65461 ATCAAATTAA
65471 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
65485 ACAACTCAACTTTT
1 ACAAATCAACTTTT
*
65499 ATAAATCAA
1 ACAAATCAA
65508 TTAATCAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:67003 original size:21 final size:21
Alignment explanation
Indices: 66930--67027 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
66920 GCGGGCAGGA
* * *
66930 CCTCTTGAACGATGACAGAGG
1 CCTCTTGAATGATGAGAGGGG
* * *
66951 CCTCTTGAACGGTG-GGGGGG
1 CCTCTTGAATGATGAGAGGGG
*
66971 CTTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAATGATGAGAGGGG
*
66992 CCTCTTGAATGAT-AGGAGGCG
1 CCTCTTGAATGATGA-GAGGGG
67013 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
67028 TAGGTGCATC
Statistics
Matches: 62, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
20 14 0.23
21 47 0.76
22 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.35, T:0.24
Consensus pattern (21 bp):
CCTCTTGAATGATGAGAGGGG
Found at i:67190 original size:12 final size:12
Alignment explanation
Indices: 67171--67212 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
67161 GGGCCGTTGA
67171 AAATAAATTAAT
1 AAATAAATTAAT
* *
67183 ACATAAATTAGT
1 AAATAAATTAAT
*
67195 AAATAAATAAAT
1 AAATAAATTAAT
67207 AAATAA
1 AAATAA
67213 TGTCGAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (12 bp):
AAATAAATTAAT
Found at i:67460 original size:21 final size:21
Alignment explanation
Indices: 67436--67485 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
67426 ACCATTATCT
*
67436 TCACGTAAAGTACCGACCTCA
1 TCACGTAAAGCACCGACCTCA
*
67457 TCACGCAAAGCACCGACCTCA
1 TCACGTAAAGCACCGACCTCA
*
67478 TTACGTAA
1 TCACGTAA
67486 TTCCCCTAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.18
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:69245 original size:14 final size:14
Alignment explanation
Indices: 69226--69257 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
69216 TGCGATTTTC
*
69226 ATTTTCGCGTTGCG
1 ATTTTCGCATTGCG
69240 ATTTTCGCATTGCG
1 ATTTTCGCATTGCG
69254 ATTT
1 ATTT
69258 AGGGTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (14 bp):
ATTTTCGCATTGCG
Found at i:69767 original size:20 final size:20
Alignment explanation
Indices: 69742--69788 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
69732 TGACTTCTGT
69742 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
69762 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
69782 GTTGCGA
1 GTTGCGA
69789 ATTTGACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:69805 original size:20 final size:20
Alignment explanation
Indices: 69782--69883 Score: 134
Period size: 20 Copynumber: 5.2 Consensus size: 20
69772 ACAAATTCGC
69782 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * *
69802 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
69822 GTTGCGAATTTGAC-TTTGT
1 GTTGCGAATTTGACTTTTGT
* * *
69841 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
*
69861 GTTGCGAATTTGACTTATGT
1 GTTGCGAATTTGACTTTTGT
69881 GTT
1 GTT
69884 ACGATTTACA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
19 16 0.24
20 52 0.76
ACGTcount: A:0.18, C:0.14, G:0.25, T:0.43
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTTGT
Found at i:69806 original size:79 final size:79
Alignment explanation
Indices: 69710--69883 Score: 189
Period size: 79 Copynumber: 2.2 Consensus size: 79
69700 GCGTAAAAAC
* * *
69710 ATTTGACTTTCGCGTTGCGAA-TTGACT-TCTGTGTTGCG-ATTT-ACAAATTCGCGTTGCG-AT
1 ATTTGACTTTTGTGTTGCGAATTTGACTATC-GCGTTGCGAATTTGAC---TTCGCGTTGCGAAT
69770 TT-ACAAATTCGCGTTGCGA
62 TTGAC-AA-TCGCGTTGCGA
* *
69789 ATTTGACTTTTGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTGTGTTGCGAATTTGA
1 ATTTGACTTTTGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCGCGTTGCGAATTTGA
*
69854 CTATCGCGTTGCGA
66 CAATCGCGTTGCGA
*
69868 ATTTGACTTATGTGTT
1 ATTTGACTTTTGTGTT
69884 ACGATTTACA
Statistics
Matches: 82, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
79 54 0.66
80 18 0.22
81 8 0.10
82 2 0.02
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41
Consensus pattern (79 bp):
ATTTGACTTTTGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCGCGTTGCGAATTTGA
CAATCGCGTTGCGA
Found at i:69851 original size:39 final size:39
Alignment explanation
Indices: 69778--69883 Score: 194
Period size: 39 Copynumber: 2.7 Consensus size: 39
69768 ATTTACAAAT
69778 TCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGAC-TTTGTGTTGCGAATTTGACTA
69818 TCGCGTTGCGAATTTGACTTTGTGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTTTGTGTTGCGAATTTGACTA
69857 TCGCGTTGCGAATTTGACTTATGTGTT
1 TCGCGTTGCGAATTTGACTT-TGTGTT
69884 ACGATTTACA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
39 41 0.63
40 24 0.37
ACGTcount: A:0.17, C:0.15, G:0.25, T:0.42
Consensus pattern (39 bp):
TCGCGTTGCGAATTTGACTTTGTGTTGCGAATTTGACTA
Found at i:69944 original size:20 final size:20
Alignment explanation
Indices: 69921--69968 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
69911 TGAAAACTGA
69921 GTTGCGAAATTAGAGTTCGC
1 GTTGCGAAATTAGAGTTCGC
*
69941 GTTGCGAAATTGGAGTTCGC
1 GTTGCGAAATTAGAGTTCGC
69961 GTTGCGAA
1 GTTGCGAA
69969 TTTGTTGATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.29
Consensus pattern (20 bp):
GTTGCGAAATTAGAGTTCGC
Found at i:84447 original size:3 final size:3
Alignment explanation
Indices: 84441--84485 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
84431 TAATATTTAT
84441 TAA TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
84486 AAAATGAGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:84466 original size:20 final size:19
Alignment explanation
Indices: 84441--84485 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
84431 TAATATTTAT
84441 TAATAATAATAAAATAATAA
1 TAATAATAATAAAAT-ATAA
*
84461 TAATAATAATAATATATAA
1 TAATAATAATAAAATATAA
84480 TAATAA
1 TAATAA
84486 AAAATGAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATAATAATAAAATATAA
Found at i:84876 original size:113 final size:112
Alignment explanation
Indices: 84698--85561 Score: 1037
Period size: 113 Copynumber: 7.7 Consensus size: 112
84688 TAGAGTCATT
* ** * *
84698 CAAAAGGTTGAATAAGCTCTTCTTATTATGAAC-T-TTC-T-CTTCTTCAAATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * *
84759 TTATGAACTTTCTCTGTAAAGGTTGATCCATTAAGTGATGAATTTGAA
66 TTATGAACTTTCTCTGGAAA-GCTGATCCATCAAATGATGAATTTCAA
* *
84807 CAAAGGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** * * * * *
84872 TTATGAACTCAAACTGGAAAAGCTGATCCATCAAGTGGTGGATTTGAG
66 TTATGAACTTTCTCTGG-AAAGCTGATCCATCAAATGATGAATTTCAA
84920 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ***
84985 TTATGAACTTTCTTTGGCGCTGCTGATCCATCAAATGATGAA-TTCAA
66 TTATGAACTTTCTCTGG-AAAGCTGATCCATCAAATGATGAATTTCAA
* * * * *
85032 GCAAAGGGTTGAACAAGTTCTACGT-ATTATGAACTTCCTCTTCCTTGTTCAGATGAGTTCTTCT
1 -CAAAAGGTTGAACAAATTCTTC-TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
*
85096 CATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAATGATGAA-TTCAA
64 CATTATGAACTTTCTCTGG-AAAGCTGATCCATCAAATGATGAATTTCAA
* *
85145 GCAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 -CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* ** ** * * *
85209 ATTATGAACTCTAACTGGGAAAAGCTGATCCATTGAATGATGGATTTGAG
65 ATTATGAACTTTCTCT-GG-AAAGCTGATCCATCAAATGATGAATTTCAA
*
85259 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
85324 TTATGAACTTTCTCTGGCAAAGTTAATCCATCAAATGATGAA-TTCAA
66 TTATGAACTTTCTCTGG-AAAGCTGATCCATCAAATGATGAATTTCAA
* * *
85371 GCAAAA-GTTGAACAAGTTCTTCTTATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 -CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * *
85435 ATTATGAACTTTTTTCTGGCAATGTTAATCCATCAATTGATGAATTTAAA
65 ATTATGAAC-TTTCTCTGG-AAAGCTGATCCATCAAATGATGAATTTCAA
85485 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTC
85550 TCATTATGAACT
63 TCATTATGAACT
85562 CTACCTGGCA
Statistics
Matches: 655, Mismatches: 82, Indels: 29
0.86 0.11 0.04
Matches are distributed among these distances:
109 27 0.04
110 1 0.00
111 4 0.01
112 136 0.21
113 343 0.52
114 119 0.18
116 2 0.00
117 23 0.04
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (112 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAGCTGATCCATCAAATGATGAATTTCAA
Found at i:85026 original size:226 final size:225
Alignment explanation
Indices: 84698--85596 Score: 1157
Period size: 226 Copynumber: 4.0 Consensus size: 225
84688 TAGAGTCATT
* * *
84698 CAAAAGGTTGAATAAGCTCTTCTTATTATGAAC-T-TTC-T-CTTCTTCAAATGAGTTCTTCTCA
1 CAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * * * *
84759 TTATGAACTTTCTCTGTAAAGGTTGATCCATTAAGTGATGAATTTGAACAAAGGGTTAAACAAAT
65 TTATGAACTTTCTTTGGAAATGCTGATCCATCAAATGATGAATTTGAACAAAAGGTTGAACAAAT
***
84824 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACTGG
130 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGG
* * * * * **
84889 AAAAGCTGATCCATCAAGTGGTGGATTTGAG
195 CAAAGCTAATCCATCAAATGATGAATTCAAG
* *
84920 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*** * * *
84985 TTATGAACTTTCTTTGGCGCTGCTGATCCATCAAATGATGAA-TTCAAGCAAAGGGTTGAACAAG
65 TTATGAACTTTCTTTGGAAATGCTGATCCATCAAATGATGAATTTGAA-CAAAAGGTTGAACAAA
* * * *
85049 TTCTACGT-ATTATGAACTTCCTCTTCCTTGTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
129 TTCTTC-TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCT
85113 GGCAAAGCTAATCCATCAAATGATGAATTCAAG
193 GGCAAAGCTAATCCATCAAATGATGAATTCAAG
85146 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * ** * *
85211 TATGAACTCTAAC-TGGGAAAAGCTGATCCATTGAATGATGGATTTGAGCAAAAGGTTGAACAAA
66 TATGAACT-T-TCTTTGGAAATGCTGATCCATCAAATGATGAATTTGAACAAAAGGTTGAACAAA
* *
85275 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
129 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTG
*
85340 GCAAAGTTAATCCATCAAATGATGAATTCAAG
194 GCAAAGCTAATCCATCAAATGATGAATTCAAG
*
85372 CAAAAGTTGAACAAGTTCTTCTTATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * *
85437 TATGAACTTTTTTCTGGCAATGTTAATCCATCAATTGATGAATTTAAACAAAAGGTTGAACAAAT
66 TATGAACTTTCTT-TGGAAATGCTGATCCATCAAATGATGAATTTGAACAAAAGGTTGAACAAAT
85502 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTAC-
130 TCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTATGAACTCT-CT
* * * *
85566 CTGGCAATGTTAATCCAACAATTGATGAATT
191 CTGGCAAAGCTAATCCATCAAATGATGAATT
85597 TGAATCTTTG
Statistics
Matches: 591, Mismatches: 70, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
222 29 0.05
223 1 0.00
224 3 0.01
225 74 0.13
226 424 0.72
227 5 0.01
228 1 0.00
229 53 0.09
230 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (225 bp):
CAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTTTGGAAATGCTGATCCATCAAATGATGAATTTGAACAAAAGGTTGAACAAATT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGC
AAAGCTAATCCATCAAATGATGAATTCAAG
Found at i:85255 original size:339 final size:336
Alignment explanation
Indices: 84700--85569 Score: 1275
Period size: 339 Copynumber: 2.6 Consensus size: 336
84690 GAGTCATTCA
* * *
84700 AAAGGTTGAATAAGCTCTTCTTATTATGAACTT-TC-T-CTTCTTCAAATGAGTTCTTCTCATTA
1 AAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * * * * *
84762 TGAACTTTCTCT-GTAAAGGTTGATCCATTAAGTGATGAATTTGAACAAAGGGTTAAACAAATTC
66 TGAACTTTCTCTGGCAAA-GTTAATCCATCAAATGATGAA-TTCAACAAA-AGTTGAACAAATTC
*
84826 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAACT-GGA
128 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGGGA
*
84890 AAAGCTGATCCATCAAGTGGTGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
193 AAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
* *** *
84955 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTTTGGCGCTGCTGATCCATCAAA
258 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAA
85020 TGATGAATTCAAGC
323 TGATGAATTCAAGC
* * *
85034 AAAGGGTTGAACAAGTTCTACGTATTATGAACTTCCTCTTCCTTGTTCAGATGAGTTCTTCTCAT
1 AAA-GGTTGAACAAGTTCTTCTTATTATGAACTT-CTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
85099 TATGAACTTTCTCTGGCAAAGCTAATCCATCAAATGATGAATTCAAGCAAAAGTTGAACAAGTTC
64 TATGAACTTTCTCTGGCAAAGTTAATCCATCAAATGATGAATTCAA-CAAAAGTTGAACAAATTC
*
85164 TTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGGGA
128 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGGGA
*
85229 AAAGCTGATCCATTGAA-TGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACT
193 AAAGCTGATCCA-TCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACT
* *
85293 TTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGTTAATCCATCAA
257 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTAATCCATCAA
85358 ATGATGAATTCAAGC
322 ATGATGAATTCAAGC
* *
85373 AAAAGTTGAACAAGTTCTTCTTATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTTATTATGAACTTC-TCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
85438 ATGAACTTTTTTCTGGCAATGTTAATCCATCAATTGATGAATTTAAACAAAAGGTTGAACAAATT
65 ATGAAC-TTTCTCTGGCAAAGTTAATCCATCAAATGATGAA-TTCAACAAAA-GTTGAACAAATT
*
85503 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTACCT
127 CTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTATGAACTCTAACT
85568 GG
189 GG
85570 CAATGTTAAT
Statistics
Matches: 481, Mismatches: 39, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
334 3 0.01
335 26 0.05
337 3 0.01
338 136 0.28
339 229 0.48
340 52 0.11
342 1 0.00
343 31 0.06
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (336 bp):
AAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTTCTCTGGCAAAGTTAATCCATCAAATGATGAATTCAACAAAAGTTGAACAAATTCTTC
TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGGGAAAA
GCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTT
CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAATGA
TGAATTCAAGC
Found at i:87536 original size:16 final size:16
Alignment explanation
Indices: 87500--87537 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
87490 TGGATTTTCG
87500 AAAATAAATTGAATCT
1 AAAATAAATTGAATCT
*
87516 CAAATAAATTGAA-CTT
1 AAAATAAATTGAATC-T
87532 AAAATA
1 AAAATA
87538 GATAGAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 1 0.05
16 18 0.95
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (16 bp):
AAAATAAATTGAATCT
Found at i:87883 original size:15 final size:14
Alignment explanation
Indices: 87858--87927 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 14
87848 TTGACCCCCC
87858 TTTTTCTTTTCTCTT
1 TTTTTCTTTTCT-TT
87873 TTTTT-TCTTTCTTT
1 TTTTTCT-TTTCTTT
*
87887 TTTCTCTTTTTCTTCT
1 TTTTTC-TTTTCTT-T
87903 TTTTTCTTTTCTTTT
1 TTTTTCTTTTC-TTT
87918 TTTTTCTTTT
1 TTTTTCTTTT
87928 TTCTTCAAGC
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
14 7 0.15
15 32 0.67
16 9 0.19
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTTTTCTTT
Found at i:87889 original size:22 final size:23
Alignment explanation
Indices: 87857--87932 Score: 104
Period size: 22 Copynumber: 3.4 Consensus size: 23
87847 CTTGACCCCC
87857 CTTT-TTCTTTTCTCTTTTTTTT
1 CTTTCTTCTTTTCTCTTTTTTTT
*
87879 CTTTCTT-TTTTCTCTTTTTCTT
1 CTTTCTTCTTTTCTCTTTTTTTT
*
87901 CTTTTTTCTTTTCT-TTTTTTTT
1 CTTTCTTCTTTTCTCTTTTTTTT
*
87923 CTTTTTTCTT
1 CTTTCTTCTT
87933 CAAGCATAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
22 41 0.84
23 8 0.16
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
CTTTCTTCTTTTCTCTTTTTTTT
Found at i:99066 original size:3 final size:3
Alignment explanation
Indices: 99042--99101 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
99032 CCATATTAAT
* * *
99042 TTA TTA TATA TAA TTA TAA TTA TTA TTA TTA TAA TTA TTA -TA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
99087 TATA TTA -TA TTA TTA
1 T-TA TTA TTA TTA TTA
99102 AAATACATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:99074 original size:15 final size:15
Alignment explanation
Indices: 99044--99101 Score: 75
Period size: 15 Copynumber: 3.9 Consensus size: 15
99034 ATATTAATTT
*
99044 ATTATATATAATTATA
1 ATTAT-TATTATTATA
99060 ATTATTATTATTATA
1 ATTATTATTATTATA
99075 ATTATTA-TATTATA
1 ATTATTATTATTATA
99089 TATTA-TATTATTA
1 -ATTATTATTATTA
99102 AAATACATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
14 9 0.23
15 25 0.64
16 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTATTATTATTATA
Found at i:99078 original size:12 final size:11
Alignment explanation
Indices: 99042--99101 Score: 68
Period size: 12 Copynumber: 5.3 Consensus size: 11
99032 CCATATTAAT
99042 TTATTATA-TA
1 TTATTATATTA
*
99052 TAATTATAATTA
1 TTATTAT-ATTA
*
99064 TTATTATTATAA
1 TTATTA-TATTA
99076 TTATTATATTA
1 TTATTATATTA
99087 TATATTATATTA
1 T-TATTATATTA
99099 TTA
1 TTA
99102 AAATACATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
10 6 0.14
11 8 0.19
12 27 0.64
13 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTATTATATTA
Found at i:111821 original size:1 final size:1
Alignment explanation
Indices: 111815--111866 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
111805 ATGCTTGAAG
* * * * * *
111815 AAAAAAAGAAAAAGAAAAAAAAAGAAAAAGAAGAAAAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
111867 GGGGGTCAAG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:111828 original size:6 final size:6
Alignment explanation
Indices: 111817--111867 Score: 65
Period size: 6 Copynumber: 9.0 Consensus size: 6
111807 GCTTGAAGAA
111817 AAAAAG AAAAAG -AAAA- AAAAAG AAAAAG AAGAAA- AAAAAG AAAAA-
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA-AAAG AAAAAG AAAAAG
111862 AAAAAG
1 AAAAAG
111868 GGGGTCAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
5 16 0.40
6 21 0.52
7 3 0.08
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:111835 original size:9 final size:9
Alignment explanation
Indices: 111815--111864 Score: 68
Period size: 9 Copynumber: 5.8 Consensus size: 9
111805 ATGCTTGAAG
111815 AAAAAAAG-
1 AAAAAAAGA
*
111823 AAAAAGA-A
1 AAAAAAAGA
111831 AAAAAAAGA
1 AAAAAAAGA
*
111840 AAAAGAAGA
1 AAAAAAAGA
111849 AAAAAAAGA
1 AAAAAAAGA
111858 AAAAAAA
1 AAAAAAA
111865 AAGGGGGTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
8 12 0.33
9 24 0.67
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:111836 original size:16 final size:16
Alignment explanation
Indices: 111815--111866 Score: 79
Period size: 16 Copynumber: 3.2 Consensus size: 16
111805 ATGCTTGAAG
111815 AAAAAAAGAAAAAGAA
1 AAAAAAAGAAAAAGAA
111831 AAAAAAAGAAAAAGAAGA
1 AAAAAAAGAAAAAG-A-A
111849 AAAAAAAGAAAAA-AA
1 AAAAAAAGAAAAAGAA
111864 AAA
1 AAA
111867 GGGGGTCAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.12
16 15 0.44
17 1 0.03
18 14 0.41
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAAGAA
Found at i:112204 original size:16 final size:16
Alignment explanation
Indices: 112178--112222 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
112168 TTTGAATACA
*
112178 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
112195 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
112210 ATTCAATTTATTT
1 ATTCAATTTATTT
112223 TTGAAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:113142 original size:83 final size:83
Alignment explanation
Indices: 113003--113231 Score: 406
Period size: 83 Copynumber: 2.8 Consensus size: 83
112993 AACATTATCT
* *
113003 GGAAGATGAATTTGAC-AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
1 GGAAGATGAATGTG-CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
*
113067 AGAACCAATCATTGAATTG
65 AGAACCAATCATTGAATTA
113086 GGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
1 GGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
113151 GAACCAATCATTGAATTA
66 GAACCAATCATTGAATTA
*
113169 GGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGG
1 GGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
113232 TAGGAACTAC
Statistics
Matches: 141, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
82 1 0.01
83 140 0.99
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.36
Consensus pattern (83 bp):
GGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
GAACCAATCATTGAATTA
Found at i:113344 original size:114 final size:114
Alignment explanation
Indices: 113186--113395 Score: 393
Period size: 114 Copynumber: 1.8 Consensus size: 114
113176 GAATGTGCTC
113186 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTAGGAACTACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTAGGAACTACAGAACCAAT
*
113251 CATTGAATTTGGAAGATAAATTTGCTCATAGTAGAAATAAGGAAACTCA
66 CATTGAATTTGGAAGATAAATTTGCTAATAGTAGAAATAAGGAAACTCA
*
113300 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTAGGAACTACAGAACCAAT
*
113365 CATTGAATTTGGAAGATGAATTTGCTAATAG
66 CATTGAATTTGGAAGATAAATTTGCTAATAG
113396 CATCTTCTGG
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 93 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (114 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTAGGAACTACAGAACCAAT
CATTGAATTTGGAAGATAAATTTGCTAATAGTAGAAATAAGGAAACTCA
Found at i:113448 original size:206 final size:197
Alignment explanation
Indices: 113103--113487 Score: 626
Period size: 206 Copynumber: 1.9 Consensus size: 197
113093 GAATGTGCTC
113103 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
*
113168 AGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGT
66 AGGAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGT
* *
113233 AGGAACTACAGAACCAATCATTGAATTTGGAAGATAAATTTGCTCATAGTAGAAATAAGGAAACT
131 AGGAACTACAAAACCAATCATTGAATTTGGAAGATAAATTTGCTAATAGTAGAAATAAGGAAACT
113298 CA
196 CA
113300 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TT--T-GG-----CAGAACCAAT
* * *
113365 CATTGAATTTGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
57 CATTGAATTAGGAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATC
*
113430 TGGTTTGGTAGGAACTACAAAACCAATCATTGAATTTGGAAGATGAATTTGCTAATAG
122 TGGTTTGGTAGGAACTACAAAACCAATCATTGAATTTGGAAGATAAATTTGCTAATAG
113488 CATCTTCTGG
Statistics
Matches: 172, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
197 41 0.24
198 2 0.01
200 1 0.01
201 2 0.01
206 126 0.73
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (197 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
AGGAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGT
AGGAACTACAAAACCAATCATTGAATTTGGAAGATAAATTTGCTAATAGTAGAAATAAGGAAACT
CA
Found at i:113456 original size:92 final size:92
Alignment explanation
Indices: 113299--113579 Score: 544
Period size: 92 Copynumber: 3.1 Consensus size: 92
113289 AAGGAAACTC
113299 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCAA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCAA
113364 TCATTGAATTTGGAAGATGAATTTGCT
66 TCATTGAATTTGGAAGATGAATTTGCT
*
113391 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAAAACCAA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCAA
113456 TCATTGAATTTGGAAGATGAATTTGCT
66 TCATTGAATTTGGAAGATGAATTTGCT
113483 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCAA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCAA
113548 TCATTGAATTTGGAAGATGAATTTGCT
66 TCATTGAATTTGGAAGATGAATTTGCT
*
113575 CATAG
1 AATAG
113580 TAGAAATAAG
Statistics
Matches: 186, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 186 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (92 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCAA
TCATTGAATTTGGAAGATGAATTTGCT
Found at i:113599 original size:298 final size:289
Alignment explanation
Indices: 113018--113672 Score: 1067
Period size: 298 Copynumber: 2.3 Consensus size: 289
113008 ATGAATTTGA
113018 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TT--T-GG-----CAGAACCA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCA
*
113074 ATCATTGAATTGGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
66 ATCATTGAATTGGGAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
* *
113139 TCTGGTTTGGCAGAACCAATCATTGAATTAGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGT
131 TCTGGTTTGGCAAAACCAATCATTGAATTAGGAAGATGAATGTGCTAATAGCATCTTCTGGAAGT
113204 GTTCTTTGAGTTATCTAATCTGGTTTGGTAGGAACTACAGAACCAATCATTGAATTTGGAAGATA
196 GTTCTTTGAGTTATCTAATCTGGTTTGGTAGGAACTACAGAACCAATCATTGAATTTGGAAGATA
113269 AATTTGCTCATAGTAGAAATAAGGAAACT
261 AATTTGCTCATAGTAGAAATAAGGAAACT
113298 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCA
* *
113363 ATCATTGAATTTGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
66 ATCATTGAATTGGGAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
* *
113428 TCTGGTTTGGTAGGAACTACAAAACCAATCATTGAATTTGGAAGATGAATTTGCTAATAGCATCT
131 TCTGG-TT--T-GG-----CAAAACCAATCATTGAATTAGGAAGATGAATGTGCTAATAGCATCT
*
113493 TCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCAATCATTGAATT
187 TCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTAGGAACTACAGAACCAATCATTGAATT
* *
113558 TGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACT
252 TGGAAGATAAATTTGCTCATAGTAGAAATAAGGAAACT
113596 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCA
113661 ATCATTGGAATT
66 ATCATT-GAATT
113673 AAAAGATGAA
Statistics
Matches: 346, Mismatches: 10, Indels: 19
0.92 0.03 0.05
Matches are distributed among these distances:
280 43 0.12
281 2 0.01
283 1 0.00
284 2 0.01
289 75 0.22
290 2 0.01
292 1 0.00
293 2 0.01
298 213 0.62
299 5 0.01
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (289 bp):
CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCA
ATCATTGAATTGGGAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
TCTGGTTTGGCAAAACCAATCATTGAATTAGGAAGATGAATGTGCTAATAGCATCTTCTGGAAGT
GTTCTTTGAGTTATCTAATCTGGTTTGGTAGGAACTACAGAACCAATCATTGAATTTGGAAGATA
AATTTGCTCATAGTAGAAATAAGGAAACT
Found at i:114513 original size:113 final size:113
Alignment explanation
Indices: 114373--114930 Score: 884
Period size: 113 Copynumber: 4.9 Consensus size: 113
114363 CAAAGATTCA
*
114373 AATCTATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
114438 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
114486 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
114551 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
114599 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
114664 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * * * * **
114712 AATTCATCAAATTGATGGATTAGCTTTTCCAGAGAGGGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATC-ATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
114777 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
* * * *
114826 AATTCATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AATCCATCATTTGATGGATCATCATTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTG
* *
114890 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
62 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
114931 TAATTCTATC
Statistics
Matches: 419, Mismatches: 21, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
112 1 0.00
113 267 0.64
114 103 0.25
115 1 0.00
116 47 0.11
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (113 bp):
AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
Found at i:114867 original size:227 final size:226
Alignment explanation
Indices: 114373--114930 Score: 884
Period size: 227 Copynumber: 2.5 Consensus size: 226
114363 CAAAGATTCA
*
114373 AATCTATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
** *
114438 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTTGAATCCATCATTTGATGG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCAATTGATGG
*
114503 ATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
131 ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
114568 AATGAGAAGAATTTGTTCAACCTTTTATTTG
196 AATGAGAAGAACTTGTTCAACCTTTTACTTG
114599 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
114664 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATC-AATTGATG
* * **
114729 GATTAGCTTTTCCAGAGAGGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
130 GATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* *
114794 TAATGAGAAGAACTTGTTCAATCTTTTGCTTG
195 TAATGAGAAGAACTTGTTCAACCTTTTACTTG
* * * *
114826 AATTCATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AATCCATCATTTGATGGATCATCATTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTG
* *
114890 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
62 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
114931 TAATTCTATC
Statistics
Matches: 307, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
226 118 0.38
227 142 0.46
229 1 0.00
230 46 0.15
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (226 bp):
AATCCATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCAATTGATGG
ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTTACTTG
Found at i:115169 original size:3 final size:3
Alignment explanation
Indices: 115161--115215 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
115151 ATATTAATTA
* *
115161 ATT ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
115209 ATT ATT A
1 ATT ATT A
115216 AATATATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:116669 original size:13 final size:13
Alignment explanation
Indices: 116653--116699 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
116643 ATATAATAAA
116653 TAAATATTTATTT
1 TAAATATTTATTT
*
116666 TAAATAAATTATTT
1 TAAAT-ATTTATTT
116680 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
116693 TCAATAT
1 TAAATAT
116700 CAAAGAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:129912 original size:60 final size:60
Alignment explanation
Indices: 129836--129973 Score: 150
Period size: 60 Copynumber: 2.3 Consensus size: 60
129826 ATAAATGGGC
* * * * *
129836 AAAGTATATAAAATAGTCCCCCGATTATATAATGTTACTTTATTGAGTCTCTCAACTGTTA
1 AAAGT-TATAAAATAGTCACCCGATTATAGAACGTTACTTTATTCAGTCTCTCAACTATTA
** ** * * * *
129897 AAAGTTATAAAATAGTCATTCGATTATAGGGCGTTGCTTTGTTCAGTCTTTCGACTATTA
1 AAAGTTATAAAATAGTCACCCGATTATAGAACGTTACTTTATTCAGTCTCTCAACTATTA
129957 AAAGTTATAAAATAGTC
1 AAAGTTATAAAATAGTC
129974 GTATGACTAT
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 59 0.92
61 5 0.08
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (60 bp):
AAAGTTATAAAATAGTCACCCGATTATAGAACGTTACTTTATTCAGTCTCTCAACTATTA
Found at i:131550 original size:97 final size:97
Alignment explanation
Indices: 131384--131577 Score: 388
Period size: 97 Copynumber: 2.0 Consensus size: 97
131374 TGAACACCCC
131384 TATGACTAATGACTAGTGGTTGGCAAGCAACGATTGGGGTAATTGTTGGTTGCCGGATTTTGGGC
1 TATGACTAATGACTAGTGGTTGGCAAGCAACGATTGGGGTAATTGTTGGTTGCCGGATTTTGGGC
131449 AACCTTTAGAATTCTGGGTTTAGATGAACATG
66 AACCTTTAGAATTCTGGGTTTAGATGAACATG
131481 TATGACTAATGACTAGTGGTTGGCAAGCAACGATTGGGGTAATTGTTGGTTGCCGGATTTTGGGC
1 TATGACTAATGACTAGTGGTTGGCAAGCAACGATTGGGGTAATTGTTGGTTGCCGGATTTTGGGC
131546 AACCTTTAGAATTCTGGGTTTAGATGAACATG
66 AACCTTTAGAATTCTGGGTTTAGATGAACATG
131578 AATAACAAGA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (97 bp):
TATGACTAATGACTAGTGGTTGGCAAGCAACGATTGGGGTAATTGTTGGTTGCCGGATTTTGGGC
AACCTTTAGAATTCTGGGTTTAGATGAACATG
Found at i:132644 original size:35 final size:36
Alignment explanation
Indices: 132575--132649 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
132565 CAATTTTCGC
*
132575 CTAACTCAGGGTTCTTACTTCTTTTTTTTTATTAAG
1 CTAACTCAGGGTTCTTACTTCTTTTTTTTGATTAAG
132611 CTAACTCAGGGTTCTTACTTC-TTTTTTTGATTAAG
1 CTAACTCAGGGTTCTTACTTCTTTTTTTTGATTAAG
132646 CTAA
1 CTAA
132650 GGTAATTACA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 17 0.45
36 21 0.55
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.49
Consensus pattern (36 bp):
CTAACTCAGGGTTCTTACTTCTTTTTTTTGATTAAG
Found at i:135172 original size:17 final size:17
Alignment explanation
Indices: 135150--135182 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
135140 AATATTAAAT
*
135150 AAAATATTAATATTTTA
1 AAAATAATAATATTTTA
135167 AAAATAATAATATTTT
1 AAAATAATAATATTTT
135183 TAGTTAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAATAATAATATTTTA
Found at i:144455 original size:24 final size:24
Alignment explanation
Indices: 144401--144448 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
144391 TTTGAACTTG
144401 AAATTTAGATAAATCATTAATTTA
1 AAATTTAGATAAATCATTAATTTA
144425 AAATTTAGATAAAAT-ATTAATTTA
1 AAATTTAGAT-AAATCATTAATTTA
144449 TTTTTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (24 bp):
AAATTTAGATAAATCATTAATTTA
Found at i:144456 original size:31 final size:31
Alignment explanation
Indices: 144421--144479 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
144411 AAATCATTAA
144421 TTTAA-AATTTAGATAAAATATTAATTTATTT
1 TTTAATAATTTA-ATAAAATATTAATTTATTT
** *
144452 TTTAATTTTTTAATTAAATATTAATTTA
1 TTTAATAATTTAATAAAATATTAATTTA
144480 ATCACTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 20 0.83
32 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (31 bp):
TTTAATAATTTAATAAAATATTAATTTATTT
Found at i:147629 original size:34 final size:34
Alignment explanation
Indices: 147571--147644 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
147561 AGGTCAGAAG
* *
147571 TCGCGTTTTGCAAAAGACGTATTCCATGCATTTC
1 TCGCGTTCTGCAAAAGACGAATTCCATGCATTTC
147605 TCGCGTTCTGCAGAAAG-CGAATTCCATGCATTTC
1 TCGCGTTCTGCA-AAAGACGAATTCCATGCATTTC
147639 TCGCGT
1 TCGCGT
147645 CCAAGTTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 33 0.89
35 4 0.11
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (34 bp):
TCGCGTTCTGCAAAAGACGAATTCCATGCATTTC
Found at i:148208 original size:59 final size:58
Alignment explanation
Indices: 148145--148281 Score: 150
Period size: 59 Copynumber: 2.3 Consensus size: 58
148135 AAAAGTACAT
* *
148145 AAATGGTCCCCCAACTATTGG-GTCTACTATATTGAGTCCCCTGACTATTAAAAGTTATA
1 AAATGGTCACCCGACTATTGGAGT-TACT-TATTGAGTCCCCTGACTATTAAAAGTTATA
* ** * * * **
148204 AAATGGTCTCTTGACTATAGGATGTTGCTTGTTGAGTCCTTTGACTATTAAAAGTTATA
1 AAATGGTCACCCGACTATTGGA-GTTACTTATTGAGTCCCCTGACTATTAAAAGTTATA
148263 AAATGGTCACCCGACTATT
1 AAATGGTCACCCGACTATT
148282 CATTTTTTTC
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
59 58 0.92
60 3 0.05
61 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (58 bp):
AAATGGTCACCCGACTATTGGAGTTACTTATTGAGTCCCCTGACTATTAAAAGTTATA
Found at i:148580 original size:59 final size:60
Alignment explanation
Indices: 148478--148621 Score: 143
Period size: 59 Copynumber: 2.4 Consensus size: 60
148468 CATAATGAAT
* * * *
148478 AGTCG-GGTAATCATTT-TGTAGCTTTTAATAGTCGGAGAACTCAATAAAGCAACATCATAA
1 AGTCGAGG-AATCATTTATATA-CTTTTAATAGTCAGAGAACTCAACAAAGCAACACCATAA
* * * * *
148538 AGTCGAGGGATCATTTATA-ACTTTTTATAGTCA-AGAGACTCAACAAAGTAACACCCTAT
1 AGTCGAGGAATCATTTATATACTTTTAATAGTCAGAGA-ACTCAACAAAGCAACACCATAA
*
148597 AGTCGATGAATCATTTATATACTTT
1 AGTCGAGGAATCATTTATATACTTT
148622 ATTCTTTTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
58 3 0.04
59 45 0.65
60 18 0.26
61 3 0.04
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (60 bp):
AGTCGAGGAATCATTTATATACTTTTAATAGTCAGAGAACTCAACAAAGCAACACCATAA
Done.