Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003571.1 Hibiscus syriacus cultivar Beakdansim tig00007538_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: 77684
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 2
Found at i:340 original size:20 final size:20
Alignment explanation
Indices: 251--342 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
241 TACGAATTTG
* *
251 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
271 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* *
291 ACAAAATCGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
312 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
332 GAAAATCGCAA
1 GAAAATCGCAA
343 TCATCTTTAA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:645 original size:20 final size:20
Alignment explanation
Indices: 549--637 Score: 99
Period size: 20 Copynumber: 4.4 Consensus size: 20
539 CAACGGGGAA
*
549 ATCGCAACGCAAAAAATGGCT
1 ATCGCAACGC-GAAAATGGCT
570 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
590 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
610 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
630 ATCGCAAC
1 ATCGCAAC
638 TAGAAAATCG
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
19 5 0.09
20 35 0.64
21 15 0.27
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:2760 original size:20 final size:20
Alignment explanation
Indices: 2737--2790 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
2727 GAAACTTAAA
2737 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
2757 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGAAAATGACT
* *
2777 ATCACAATGCGAAA
1 ATCGCAACGCGAAA
2791 TGCAAATCGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:2813 original size:14 final size:14
Alignment explanation
Indices: 2794--2916 Score: 75
Period size: 14 Copynumber: 7.8 Consensus size: 14
2784 TGCGAAATGC
2794 AAATCGCAACGACA
1 AAATCGCAACGACA
*
2808 AAATCGCAATGCGAAATGA
1 AAATCGCAA--CG--A-CA
2827 AAATCGCAACGACA
1 AAATCGCAACGACA
*
2841 AAATCGCAATGCGAAATGA
1 AAATCGCAA--CG--A-CA
*
2860 AAATCGCAATGACA
1 AAATCGCAACGACA
*
2874 AAATCGCAATGCGAAA
1 AAATCGCAA--CGACA
2890 TGAAATCGCAACGACA
1 --AAATCGCAACGACA
*
2906 AAATTGCAACG
1 AAATCGCAACG
2917 CGAAACACAA
Statistics
Matches: 86, Mismatches: 9, Indels: 28
0.70 0.07 0.23
Matches are distributed among these distances:
14 39 0.45
15 2 0.02
16 11 0.13
17 3 0.03
18 11 0.13
19 20 0.23
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.13
Consensus pattern (14 bp):
AAATCGCAACGACA
Found at i:2823 original size:33 final size:33
Alignment explanation
Indices: 2781--2921 Score: 239
Period size: 33 Copynumber: 4.3 Consensus size: 33
2771 ATGGCTATCA
*
2781 CAATGCGAAATGCAAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
2814 CAATGCGAAATGAAAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
*
2847 CAATGCGAAATGAAAATCGCAATGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
*
2880 CAATGCGAAATG-AAATCGCAACGACAAAATTG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
*
2912 CAACGCGAAA
1 CAATGCGAAA
2922 CACAAATCGC
Statistics
Matches: 103, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 27 0.26
33 76 0.74
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.13
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACGACAAAATCG
Found at i:2950 original size:19 final size:19
Alignment explanation
Indices: 2928--3024 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
2918 GAAACACAAA
2928 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* * *
2947 TCGCGTTACGA-TTT--TG
1 TCGCATTGCGATTTTCATT
2963 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2980 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
2996 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3013 TCGCATTGCGAT
1 TCGCATTGCGAT
3025 AGCCATTTCC
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 11 0.18
15 6 0.10
16 8 0.13
17 8 0.13
18 6 0.10
19 22 0.36
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2972 original size:14 final size:14
Alignment explanation
Indices: 2950--3008 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
2940 TTTCATTTCG
*
2950 CGTTACGATTTTGT
1 CGTTGCGATTTTGT
*
2964 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
2981 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
2997 CGTTGCGATTTT
1 CGTTGCGATTTT
3009 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 17 0.46
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2975 original size:33 final size:33
Alignment explanation
Indices: 2933--3024 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
2923 ACAAATCGCA
*
2933 TTGCGATTTTCATTTCGCGTTACGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTACGATTTTGTCG
*
2966 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTACGATTTTGTCG
*
2999 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTACGAT
3025 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTACGATTTTGTCG
Found at i:3031 original size:19 final size:20
Alignment explanation
Indices: 3009--3052 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2999 TTGCGATTTT
*
3009 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTACGATAGC
* *
3028 CATTTCCGCGTTACGATAGT
1 CATTTCCGCATTACGATAGC
3048 CATTT
1 CATTT
3053 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTACGATAGC
Found at i:3570 original size:18 final size:18
Alignment explanation
Indices: 3544--3588 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
3534 GTCGATCAGA
*
3544 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
3562 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
3580 TGATGGCTC
1 TGATGGCTC
3589 CCGAAGTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:4948 original size:20 final size:20
Alignment explanation
Indices: 4900--4958 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
4890 AATAGTTTCT
** *
4900 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
4920 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
4940 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
4959 AGAGAATCGC
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:5249 original size:22 final size:22
Alignment explanation
Indices: 5222--5265 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
5212 GATGGAGATA
5222 GACGGATTTCACCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
**
5244 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
5266 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):
GACGGATTTCACCGGAGATGGG
Found at i:5510 original size:41 final size:41
Alignment explanation
Indices: 5465--5578 Score: 156
Period size: 41 Copynumber: 2.8 Consensus size: 41
5455 GAAAGTTAGA
* * *
5465 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGAAAGTAAGTATCGCGTTGCGATTATGTATT
* * *
5506 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTATGTATT
1 ATCGCGTTGCGAAAGTAAGTATCGCGTTGCGATTATGTATT
* *
5547 ATCGCGTTGCGAAAGTTAGAATCGCGTTGCGA
1 ATCGCGTTGCGAAAGTAAGTATCGCGTTGCGA
5579 AAGTCAGTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (41 bp):
ATCGCGTTGCGAAAGTAAGTATCGCGTTGCGATTATGTATT
Found at i:5600 original size:102 final size:102
Alignment explanation
Indices: 5424--5640 Score: 434
Period size: 102 Copynumber: 2.1 Consensus size: 102
5414 CGCTTTGAAA
5424 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTTAGAATCGCGTTGCGAAAGTCAGTATCT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTTAGAATCGCGTTGCGAAAGTCAGTATCT
5489 CGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
66 CGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
5526 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTTAGAATCGCGTTGCGAAAGTCAGTATCT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTTAGAATCGCGTTGCGAAAGTCAGTATCT
5591 CGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
66 CGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
5628 ATCGCATTGCGAT
1 ATCGCATTGCGAT
5641 AGTTAGTATC
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 115 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (102 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTTAGAATCGCGTTGCGAAAGTCAGTATCT
CGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
Found at i:5660 original size:20 final size:20
Alignment explanation
Indices: 5424--5660 Score: 172
Period size: 20 Copynumber: 11.7 Consensus size: 20
5414 CGCTTTGAAA
*
5424 ATCGCATTGCGATTA-TGTATT
1 ATCGCATTGCGA-TAGT-TAGT
* * *
5445 ATCGCGTTGCGAAAGTTAGA
1 ATCGCATTGCGATAGTTAGT
* * *
5465 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTTAGT
* * ** *
5485 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGATAGT-TAGT
*
5506 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTTAGT
*
5526 ATCGCATTGCGATTA-TGTATT
1 ATCGCATTGCGA-TAGT-TAGT
* * *
5547 ATCGCGTTGCGAAAGTTAGA
1 ATCGCATTGCGATAGTTAGT
* * *
5567 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTTAGT
* * ** *
5587 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGATAGT-TAGT
*
5608 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTTAGT
5628 ATCGCATTGCGATAGTTAGT
1 ATCGCATTGCGATAGTTAGT
5648 ATCGCATTGCGAT
1 ATCGCATTGCGAT
5661 TTTCCCAATT
Statistics
Matches: 171, Mismatches: 39, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
20 115 0.67
21 56 0.33
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTTAGT
Found at i:5681 original size:61 final size:61
Alignment explanation
Indices: 5505--5663 Score: 219
Period size: 61 Copynumber: 2.6 Consensus size: 61
5495 GATTTTGTAT
* * *
5505 TATCGCATTGCGATAGTAAGTATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTTAG
1 TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTAAG
* * * * * * *
5566 AATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTAAG
*
5627 TATCGCATTGCGATAGTTAGTATCGCATTGCGATTTT
1 TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTT
5664 CCCAATTCGC
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 82 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.36
Consensus pattern (61 bp):
TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTAAG
Found at i:6711 original size:23 final size:23
Alignment explanation
Indices: 6692--6743 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
6682 AAGAAATGTA
6692 TCACAA-AATCAGAGAAAAATATG
1 TCACAAGAAT-AGAGAAAAATATG
*
6715 CCACAAGAATAGAGAAAAATATG
1 TCACAAGAATAGAGAAAAATATG
6738 TCACAA
1 TCACAA
6744 TGACATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (23 bp):
TCACAAGAATAGAGAAAAATATG
Found at i:7739 original size:19 final size:19
Alignment explanation
Indices: 7696--7766 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
7686 AAATGACCAA
*
7696 CAAATTCACAACACAATCT
1 CAAATTCGCAACACAATCT
7715 CAAATTCGCAACACGAAT-T
1 CAAATTCGCAACAC-AATCT
* * * *
7734 CCAATTTCGCAACCCAGTTT
1 -CAAATTCGCAACACAATCT
7754 CCAAATTCGCAAC
1 -CAAATTCGCAAC
7767 GCGAATATGT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.36
20 28 0.64
ACGTcount: A:0.38, C:0.32, G:0.07, T:0.23
Consensus pattern (19 bp):
CAAATTCGCAACACAATCT
Found at i:7821 original size:21 final size:21
Alignment explanation
Indices: 7760--7824 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
7750 GTTTCCAAAT
* *
7760 TCGCAACGCGAATAT-GTAAA
1 TCGCAACGCGAATTTAGAAAA
*
7780 TCGCAACGCCAATTTAGAAAA
1 TCGCAACGCGAATTTAGAAAA
7801 TCGCAACGCGAATTTAGAAAA
1 TCGCAACGCGAATTTAGAAAA
7822 TCG
1 TCG
7825 TAACAAAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 13 0.32
21 27 0.68
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (21 bp):
TCGCAACGCGAATTTAGAAAA
Found at i:8105 original size:14 final size:15
Alignment explanation
Indices: 8086--8123 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
8076 TCCCCATCTC
8086 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
8100 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
8116 TAATTTTT
1 TAATTTTT
8124 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:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:8920 original size:24 final size:24
Alignment explanation
Indices: 8862--8908 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
8852 AGTCAGTATT
*
8862 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
8886 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
8909 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:11205 original size:18 final size:18
Alignment explanation
Indices: 11182--11217 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11172 AAGCAAAAGG
11182 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
*
11200 AAATCAAAATCTCAATCA
1 AAATCAAAATCGCAATCA
11218 CAACCGGCTT
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:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCGCAATCA
Found at i:11575 original size:20 final size:20
Alignment explanation
Indices: 11512--11575 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
11502 AAACTGAAAA
11512 TCGCAACGCAAATTTGACTT
1 TCGCAACGCAAATTTGACTT
* *** * *
11532 TTGCGTTGCGAATTTGACTA
1 TCGCAACGCAAATTTGACTT
*
11552 TCGCAACGCAAATTTAACTT
1 TCGCAACGCAAATTTGACTT
11572 TCGC
1 TCGC
11576 GTTGCGAAAG
Statistics
Matches: 31, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (20 bp):
TCGCAACGCAAATTTGACTT
Found at i:11717 original size:64 final size:64
Alignment explanation
Indices: 11638--11795 Score: 280
Period size: 64 Copynumber: 2.5 Consensus size: 64
11628 TTGAATAAAC
11638 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
* *
11702 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
*
11766 AAAAAATCAACTTTTACAAATCAATGTAAA
1 AACAAATCAACTTTTACAAATCAAT-TAAA
11796 ATTCAATTAA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
64 86 0.96
65 4 0.04
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
Found at i:12305 original size:613 final size:612
Alignment explanation
Indices: 11456--12674 Score: 2321
Period size: 613 Copynumber: 2.0 Consensus size: 612
11446 AACGCGATAA
* * * *
11456 TCGCGTTGCGATTGTTGCGAAAGTCAAATTCGAAATGTGAAATCGTAAACTGAAAATCGCAACGC
1 TCGCGTTGCGATTGTTGCGAAAGTCAAATTCGAAACGCGAAATCGCAAACCGAAAATCGCAACGC
*
11521 AAATTTGACTTTTGCGTTGCGAATTTGACTATCGCAACGCAAATTTAACTTTCGCGTTGCGAAAG
66 AAATTTGACTTTTGCGTTGCGAATTTGACTATCGCAACGCAAATTTAACTTTCGCGTTGAGAAAG
11586 TGTACCTTTAACAGGTCTTTTTTGCCTTCAACATAATGCAGATTGAATAAACAACAAATCAACTT
131 TGTACCTTTAACAGGTCTTTTTTGCCTTCAACATAATGCAGATTGAATAAACAACAAATCAACTT
11651 TTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTAAACAAATCAACTTT
196 TTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTAAACAAATCAACTTT
11716 TACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTAAAAAAATCAACTTTT
261 TACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTAAAAAAATCAACTTTT
11781 ACAAATCAATGTAAAATTCAATTAAACAAGCAAAAAAAGTGTACCCCAGACAGTTGTTTATGCAC
326 ACAAATCAATGTAAAATTCAATTAAACAAGCAAAAAAA-TGTACCCCAGACAGTTGTTTATGCAC
* *
11846 AAATACATCAATTTCACGCAGTTCACTTCAGGATTAACATGCAGAAACTAAACATTTGCTCAAAC
390 AAATACATCAATTTCACGCAGTTCACTTCAGGATTAACATACAGAAACCAAACATTTGCTCAAAC
11911 AACACTTTCTACACATCTAAAACCAACAAAAAACAAATTATTGAATTCTAGGTATTTAACCAAAC
455 AACACTTTCTACACATCTAAAACCAACAAAAAACAAATTATTGAATTCTAGGTATTTAACCAAAC
*
11976 ATTTTCAAACCAACAAAGAGTATATATGTTGACAACACTTGCTCAAACTTACCAATTGTTTATGC
520 ATTTTCAAACCAACAAAGAGTATATATGTTAACAACACTTGCTCAAACTTACCAATTGTTTATGC
*
12041 ACACTTTTAGCACGCTGATGCAAGTAGG
585 ACACTTTCAGCACGCTGATGCAAGTAGG
12069 TCGCGTTGCGATTGTTGCGAAAGTCAAATTCGAAACGCGAAATCGCAAACCGAAAATCGCAACGC
1 TCGCGTTGCGATTGTTGCGAAAGTCAAATTCGAAACGCGAAATCGCAAACCGAAAATCGCAACGC
*
12134 AAATTTGACTTTTGTGTTGCGAATTTGACTATCGCAACGCAAATTTAACTTTCGCGTTGAGAAAG
66 AAATTTGACTTTTGCGTTGCGAATTTGACTATCGCAACGCAAATTTAACTTTCGCGTTGAGAAAG
12199 TGTACCTTTAACAGGTCTTTTTTGCCTTCAACATAATGCAGATTGAATAAACAACAAATCAACTT
131 TGTACCTTTAACAGGTCTTTTTTGCCTTCAACATAATGCAGATTGAATAAACAACAAATCAACTT
12264 TTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTAAACAAATCAACTTT
196 TTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTAAACAAATCAACTTT
*
12329 TACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTAAACAAATCAACTTTT
261 TACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTAAAAAAATCAACTTTT
12394 ACAAATCAATGTAAAATTCAATTAAACAAGCAAAAAAATGTACCCCAGACAGTTGTTTATGCACA
326 ACAAATCAATGTAAAATTCAATTAAACAAGCAAAAAAATGTACCCCAGACAGTTGTTTATGCACA
*
12459 AATACATCAATTTCACGCAGTTCACTTCAGGATTAACATACAGAAACCAAATATTTGCTCAAACA
391 AATACATCAATTTCACGCAGTTCACTTCAGGATTAACATACAGAAACCAAACATTTGCTCAAACA
12524 ACACTTTCTACACATCTAAAACCAACAAAAAACAAATTATTGAATTCTAGGTATTTAACCAAACA
456 ACACTTTCTACACATCTAAAACCAACAAAAAACAAATTATTGAATTCTAGGTATTTAACCAAACA
12589 TTTTCAAACCAACAAAGAGTATATATGTTAACAACACTTGCTCAAACTTACCAATTGTTTATGCA
521 TTTTCAAACCAACAAAGAGTATATATGTTAACAACACTTGCTCAAACTTACCAATTGTTTATGCA
12654 CACTTTCAGCACGCTGATGCA
586 CACTTTCAGCACGCTGATGCA
12675 GGTAAGCAGC
Statistics
Matches: 594, Mismatches: 12, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
612 238 0.40
613 356 0.60
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (612 bp):
TCGCGTTGCGATTGTTGCGAAAGTCAAATTCGAAACGCGAAATCGCAAACCGAAAATCGCAACGC
AAATTTGACTTTTGCGTTGCGAATTTGACTATCGCAACGCAAATTTAACTTTCGCGTTGAGAAAG
TGTACCTTTAACAGGTCTTTTTTGCCTTCAACATAATGCAGATTGAATAAACAACAAATCAACTT
TTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTAAACAAATCAACTTT
TACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTAAAAAAATCAACTTTT
ACAAATCAATGTAAAATTCAATTAAACAAGCAAAAAAATGTACCCCAGACAGTTGTTTATGCACA
AATACATCAATTTCACGCAGTTCACTTCAGGATTAACATACAGAAACCAAACATTTGCTCAAACA
ACACTTTCTACACATCTAAAACCAACAAAAAACAAATTATTGAATTCTAGGTATTTAACCAAACA
TTTTCAAACCAACAAAGAGTATATATGTTAACAACACTTGCTCAAACTTACCAATTGTTTATGCA
CACTTTCAGCACGCTGATGCAAGTAGG
Found at i:12330 original size:64 final size:64
Alignment explanation
Indices: 12251--12408 Score: 289
Period size: 64 Copynumber: 2.5 Consensus size: 64
12241 TTGAATAAAC
12251 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
* *
12315 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
12379 AACAAATCAACTTTTACAAATCAATGTAAA
1 AACAAATCAACTTTTACAAATCAAT-TAAA
12409 ATTCAATTAA
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
64 87 0.96
65 4 0.04
ACGTcount: A:0.51, C:0.18, G:0.02, T:0.30
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
Found at i:13845 original size:42 final size:42
Alignment explanation
Indices: 13779--13914 Score: 175
Period size: 42 Copynumber: 3.2 Consensus size: 42
13769 GTGAATCGGG
* * *
13779 CTCTTGAACAGTGGAAGGGACCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGAAGGGGCCTCTTGAACGATGAGAGGGGC
* * *
13821 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGGTGGAAGGGGCCTCTTGAACGATGAGAGGGGC
* * *
13863 CTCTTGAACGATGAAAGGGGCCTCTTGAACGAT-AGGAGGTGC
1 CTCTTGAACGGTGGAAGGGGCCTCTTGAACGATGA-GAGGGGC
13905 CTCTTGAACG
1 CTCTTGAACG
13915 ATGATAGGTG
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 81 1.00
ACGTcount: A:0.22, C:0.21, G:0.37, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGGTGGAAGGGGCCTCTTGAACGATGAGAGGGGC
Found at i:13882 original size:63 final size:63
Alignment explanation
Indices: 13779--13914 Score: 209
Period size: 63 Copynumber: 2.2 Consensus size: 63
13769 GTGAATCGGG
* * * *
13779 CTCTTGAACAGTGGAAGGGACCTCTTGAACGATGACAGGGGCCTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGGTGGAAGGGACCTCTTGAACGATGAAAGGGGCCTCTTGAACGATAGGAGGGGC
* * *
13842 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAAAGGGGCCTCTTGAACGATAGGAGGTGC
1 CTCTTGAACGGTGGAAGGGACCTCTTGAACGATGAAAGGGGCCTCTTGAACGATAGGAGGGGC
13905 CTCTTGAACG
1 CTCTTGAACG
13915 ATGATAGGTG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.22, C:0.21, G:0.37, T:0.21
Consensus pattern (63 bp):
CTCTTGAACGGTGGAAGGGACCTCTTGAACGATGAAAGGGGCCTCTTGAACGATAGGAGGGGC
Found at i:13915 original size:21 final size:20
Alignment explanation
Indices: 13779--13917 Score: 154
Period size: 21 Copynumber: 6.7 Consensus size: 20
13769 GTGAATCGGG
*
13779 CTCTTGAAC-AGTGGAAGGGAC
1 CTCTTGAACGA-TGG-AGGGGC
*
13800 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATG-GAGGGGC
*
13821 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGAT-GGAGGGGC
*
13842 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGAT-GGAGGGGC
*
13863 CTCTTGAACGATGAAAGGGGC
1 CTCTTGAACGATG-GAGGGGC
*
13884 CTCTTGAACGATAGGAGGTGC
1 CTCTTGAACGAT-GGAGGGGC
13905 CTCTTGAACGATG
1 CTCTTGAACGATG
13918 ATAGGTGCAT
Statistics
Matches: 105, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
20 2 0.02
21 100 0.95
22 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.37, T:0.21
Consensus pattern (20 bp):
CTCTTGAACGATGGAGGGGC
Found at i:13925 original size:21 final size:21
Alignment explanation
Indices: 13794--13918 Score: 162
Period size: 21 Copynumber: 6.0 Consensus size: 21
13784 GAACAGTGGA
* *
13794 AGGGACCTCTTGAACGATGAC
1 AGGGGCCTCTTGAACGATGAG
* *
13815 AGGGGCCTCTTGAACGGTGGG
1 AGGGGCCTCTTGAACGATGAG
* *
13836 AGGGGCCTCTTGAACGGTGGG
1 AGGGGCCTCTTGAACGATGAG
*
13857 AGGGGCCTCTTGAACGATGAA
1 AGGGGCCTCTTGAACGATGAG
13878 AGGGGCCTCTTGAACGAT-AGG
1 AGGGGCCTCTTGAACGATGA-G
*
13899 AGGTGCCTCTTGAACGATGA
1 AGGGGCCTCTTGAACGATGA
13919 TAGGTGCATC
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
20 1 0.01
21 91 0.98
22 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.38, T:0.20
Consensus pattern (21 bp):
AGGGGCCTCTTGAACGATGAG
Found at i:14239 original size:21 final size:21
Alignment explanation
Indices: 14201--14242 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14191 TGAAATAATC
* *
14201 TCACGTAAAGCGGCTACCTCA
1 TCACGTAAAGCAGATACCTCA
*
14222 TCACGTAAAGTAGATACCTCA
1 TCACGTAAAGCAGATACCTCA
14243 CCATATAGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (21 bp):
TCACGTAAAGCAGATACCTCA
Found at i:16166 original size:20 final size:20
Alignment explanation
Indices: 16123--16166 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
16113 GCGTTGCGAT
* * *
16123 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGAATTTAAG
16143 TTTCGTGTTGCGAATTTAAG
1 TTTCGTGTTGCGAATTTAAG
16163 TTTC
1 TTTC
16167 AAAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGAATTTAAG
Found at i:16517 original size:22 final size:22
Alignment explanation
Indices: 16492--16560 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
16482 GAGATAGACA
*
16492 GATTTCGTCGAAGATGGGGACG
1 GATTTCGTCGGAGATGGGGACG
**
16514 GATTTCGTCGGAGATGGGGATA
1 GATTTCGTCGGAGATGGGGACG
16536 GATTTCGTCGGAGATGGGGACG
1 GATTTCGTCGGAGATGGGGACG
16558 GAT
1 GAT
16561 GTCGCCGTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.22, C:0.12, G:0.42, T:0.25
Consensus pattern (22 bp):
GATTTCGTCGGAGATGGGGACG
Found at i:16736 original size:20 final size:20
Alignment explanation
Indices: 16713--16761 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
16703 TTTGACTTCT
*
16713 GTGTTGCGATTTACAAATTC
1 GTGTTGCGATTCACAAATTC
*
16733 GTGTTGCGATTCACATATTC
1 GTGTTGCGATTCACAAATTC
*
16753 ATGTTGCGA
1 GTGTTGCGA
16762 ATTTGGAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.39
Consensus pattern (20 bp):
GTGTTGCGATTCACAAATTC
Found at i:19125 original size:93 final size:93
Alignment explanation
Indices: 18966--19201 Score: 454
Period size: 93 Copynumber: 2.5 Consensus size: 93
18956 AATATGTTAG
* *
18966 ATGGCGGGAATAGGAGGAATGGCAGGTCAAGTGTACTTCAATCCACTTTTGGAGATTGCTTTGCT
1 ATGGCGGGAATAGGAGGAATGGCAGATCAAGTGTACTTCAATCCACTTTTGGAGATTGCTTCGCT
19031 TCTGCAGTTGGATTGTGATGGTCTAGGA
66 TCTGCAGTTGGATTGTGATGGTCTAGGA
19059 ATGGCGGGAATAGGAGGAATGGCAGATCAAGTGTACTTCAATCCACTTTTGGAGATTGCTTCGCT
1 ATGGCGGGAATAGGAGGAATGGCAGATCAAGTGTACTTCAATCCACTTTTGGAGATTGCTTCGCT
19124 TCTGCAGTTGGATTGTGATGGTCTAGGA
66 TCTGCAGTTGGATTGTGATGGTCTAGGA
19152 ATGGCGGGAATAGGAGGAATGGCAGATCAAGTGTACTTCAATCCACTTTT
1 ATGGCGGGAATAGGAGGAATGGCAGATCAAGTGTACTTCAATCCACTTTT
19202 AGAGTGGATC
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 141 1.00
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.30
Consensus pattern (93 bp):
ATGGCGGGAATAGGAGGAATGGCAGATCAAGTGTACTTCAATCCACTTTTGGAGATTGCTTCGCT
TCTGCAGTTGGATTGTGATGGTCTAGGA
Found at i:20860 original size:16 final size:16
Alignment explanation
Indices: 20839--20870 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
20829 AATAAATAAG
20839 CGAACATAAACGAACA
1 CGAACATAAACGAACA
20855 CGAACATAAACGAACA
1 CGAACATAAACGAACA
20871 AAAAATTTTT
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:0.56, C:0.25, G:0.12, T:0.06
Consensus pattern (16 bp):
CGAACATAAACGAACA
Found at i:20964 original size:16 final size:16
Alignment explanation
Indices: 20943--21009 Score: 80
Period size: 16 Copynumber: 4.2 Consensus size: 16
20933 TAAATAAACG
*
20943 AACATAAACGAACACA
1 AACATAAACAAACACA
* *
20959 AACATAAACGAACACG
1 AACATAAACAAACACA
* *
20975 AACATAAATAAACACG
1 AACATAAACAAACACA
*
20991 AACATAAACAAACATA
1 AACATAAACAAACACA
21007 AAC
1 AAC
21010 GTTGGAGACC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.63, C:0.22, G:0.06, T:0.09
Consensus pattern (16 bp):
AACATAAACAAACACA
Found at i:20975 original size:22 final size:22
Alignment explanation
Indices: 20950--21010 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
20940 ACGAACATAA
20950 ACGAACACAAACATAAACGAAC
1 ACGAACACAAACATAAACGAAC
* *
20972 ACGAACATAAATA-AACACGAAC
1 ACGAACACAAACATAA-ACGAAC
*
20994 A-TAA-ACAAACATAAACG
1 ACGAACACAAACATAAACG
21011 TTGGAGACCC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 8 0.25
21 6 0.19
22 18 0.56
ACGTcount: A:0.61, C:0.23, G:0.08, T:0.08
Consensus pattern (22 bp):
ACGAACACAAACATAAACGAAC
Found at i:20976 original size:32 final size:32
Alignment explanation
Indices: 20940--21004 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
20930 TAATAAATAA
* *
20940 ACGAACATAAACGAACACAAACATAAACGAAC
1 ACGAACATAAACAAACACAAACATAAACAAAC
* *
20972 ACGAACATAAATAAACACGAACATAAACAAAC
1 ACGAACATAAACAAACACAAACATAAACAAAC
21004 A
1 A
21005 TAAACGTTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.62, C:0.23, G:0.08, T:0.08
Consensus pattern (32 bp):
ACGAACATAAACAAACACAAACATAAACAAAC
Found at i:21570 original size:7 final size:7
Alignment explanation
Indices: 21558--21584 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
21548 ACCAAATTCA
21558 ATAAAAC
1 ATAAAAC
21565 ATAAAAC
1 ATAAAAC
21572 ATAAAAC
1 ATAAAAC
21579 ATAAAA
1 ATAAAA
21585 ATACATTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (7 bp):
ATAAAAC
Found at i:22566 original size:24 final size:24
Alignment explanation
Indices: 22529--22582 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
22519 TATTAGGTTA
*
22529 AACATAAATGAACGCACATAAACG
1 AACATAAATAAACGCACATAAACG
* *
22553 AACATAACTAAACGCATATAAACG
1 AACATAAATAAACGCACATAAACG
22577 AACATA
1 AACATA
22583 GCCGAACGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.56, C:0.20, G:0.09, T:0.15
Consensus pattern (24 bp):
AACATAAATAAACGCACATAAACG
Found at i:22590 original size:24 final size:24
Alignment explanation
Indices: 22529--22590 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
22519 TATTAGGTTA
**
22529 AACATAAATGAACGCACATAAACG
1 AACATAACCGAACGCACATAAACG
** *
22553 AACATAACTAAACGCATATAAACG
1 AACATAACCGAACGCACATAAACG
*
22577 AACATAGCCGAACG
1 AACATAACCGAACG
22591 TTCACGAACG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.52, C:0.23, G:0.13, T:0.13
Consensus pattern (24 bp):
AACATAACCGAACGCACATAAACG
Found at i:27372 original size:60 final size:62
Alignment explanation
Indices: 27308--27519 Score: 203
Period size: 60 Copynumber: 3.5 Consensus size: 62
27298 AGTTTCCAGT
* *
27308 TTCGCAACGC-GAATTTGT-AAA-TCGCAACACAGAAGTCAAATTCGCAACACGATAGTCAAA
1 TTCGCAACACAGAA-TTGTCAAATTCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAA
* * * *
27368 TTCGCAACACA-AA-AGTCAAATTCGCAACGC-GATAGTCAAATGCGCAACGCGAATTTGT-AAA
1 TTCGCAACACAGAATTGTCAAATTCGCAACACAGA-AGTCAAATTCGCAACGCG-A-TAGTCAAA
* * *
27429 -TCGCAACACAGAA--GTCAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAAATTTCAAA
1 TTCGCAACACAGAATTGTCAAATTCGCAACACAGAAGTCAAATTCGCAACGCGATA-GTCAAA
* *
27489 TTCGCAACGCGGAATT-TCAAATTCGCAACAC
1 TTCGCAACACAGAATTGTCAAATTCGCAACAC
27520 GAATTTAATT
Statistics
Matches: 125, Mismatches: 14, Indels: 24
0.77 0.09 0.15
Matches are distributed among these distances:
58 2 0.02
59 7 0.06
60 80 0.64
61 18 0.14
62 18 0.14
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (62 bp):
TTCGCAACACAGAATTGTCAAATTCGCAACACAGAAGTCAAATTCGCAACGCGATAGTCAAA
Found at i:27525 original size:20 final size:20
Alignment explanation
Indices: 27308--27523 Score: 178
Period size: 20 Copynumber: 10.7 Consensus size: 20
27298 AGTTTCCAGT
*
27308 TTCGCAACGCGAATTTGT-AAA
1 TTCGCAACACGAA--TGTCAAA
27329 -TCGCAACACAGAA-GTCAAA
1 TTCGCAACAC-GAATGTCAAA
27348 TTCGCAACACG-ATAGTCAAA
1 TTCGCAACACGAAT-GTCAAA
* *
27368 TTCGCAACACAAAAGTCAAA
1 TTCGCAACACGAATGTCAAA
*
27388 TTCGCAACGCG-ATAGTCAAA
1 TTCGCAACACGAAT-GTCAAA
* *
27408 TGCGCAACGCGAATTTGT-AAA
1 TTCGCAACACGAA--TGTCAAA
27429 -TCGCAACACAGAA-GTCAAA
1 TTCGCAACAC-GAATGTCAAA
* *
27448 TTCGCAACACAAAAGTCAAA
1 TTCGCAACACGAATGTCAAA
* *
27468 TTCGCAACGCGAAATTTCAAA
1 TTCGCAACACG-AATGTCAAA
* *
27489 TTCGCAACGCGGAATTTCAAA
1 TTCGCAACAC-GAATGTCAAA
27510 TTCGCAACACGAAT
1 TTCGCAACACGAAT
27524 TTAATTTCGC
Statistics
Matches: 164, Mismatches: 15, Indels: 33
0.77 0.07 0.16
Matches are distributed among these distances:
18 5 0.03
19 10 0.06
20 99 0.60
21 46 0.28
22 3 0.02
23 1 0.01
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.19
Consensus pattern (20 bp):
TTCGCAACACGAATGTCAAA
Found at i:27644 original size:18 final size:18
Alignment explanation
Indices: 27621--27659 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
27611 AAATCGCAAC
27621 TCATTCCATCTCCATCTA
1 TCATTCCATCTCCATCTA
27639 TCATTCCATCTCCATCTA
1 TCATTCCATCTCCATCTA
27657 TCA
1 TCA
27660 CTCTCTCCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (18 bp):
TCATTCCATCTCCATCTA
Found at i:28520 original size:24 final size:24
Alignment explanation
Indices: 28493--28546 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
28483 GTATTCGAAA
28493 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
28517 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
28541 TTTGAT
1 TTTGAT
28547 GATGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:30830 original size:18 final size:18
Alignment explanation
Indices: 30807--30842 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30797 AAGCAAAAGG
30807 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
*
30825 AAATCAAAATCTCAATCA
1 AAATCAAAATCGCAATCA
30843 CAACCGGCTT
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:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCGCAATCA
Found at i:31157 original size:20 final size:20
Alignment explanation
Indices: 31128--31176 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
31118 ATGTTGCGAT
* *
31128 CAACGCGAAAGTCAAATTTG
1 CAACGCGAAAGTAAAATTCG
*
31148 CAACGTGAAAGTAAAATTCG
1 CAACGCGAAAGTAAAATTCG
31168 CAACGCGAA
1 CAACGCGAA
31177 TTTGATTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.16
Consensus pattern (20 bp):
CAACGCGAAAGTAAAATTCG
Found at i:31780 original size:24 final size:24
Alignment explanation
Indices: 31728--31780 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
31718 TTTCATATGT
* *
31728 AATTGGAGTTTGAATTTAAATTTA
1 AATTTGAGTTTGAATTTAAATATA
*
31752 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
31776 AATTT
1 AATTT
31781 CGGTTCCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:33006 original size:65 final size:66
Alignment explanation
Indices: 32865--33041 Score: 261
Period size: 66 Copynumber: 2.6 Consensus size: 66
32855 AATTCAAAAC
32865 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACATATCAAATT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACATATCAAATT
32930 A
66 A
*
32931 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTT-CCTCATC-AAT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAT-ATCAAAT
32994 TA
65 TA
32996 AACAAATCAACTTTCAATGTA-AAATTCAATTAAACAAGCAAAAAAA
1 AACAAATCAAC-TT---T-TACAAA-TCAATTAAACAAGCAAAAAAA
33042 GTGTACCCCA
Statistics
Matches: 103, Mismatches: 1, Indels: 10
0.90 0.01 0.09
Matches are distributed among these distances:
65 18 0.17
66 58 0.56
69 4 0.04
70 23 0.22
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.28
Consensus pattern (66 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACATATCAAATT
A
Found at i:33160 original size:24 final size:24
Alignment explanation
Indices: 33133--33185 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
33123 TTTGCTCAAA
33133 CAACACTTTCTACACATAAAAAAC
1 CAACACTTTCTACACATAAAAAAC
* **
33157 CAACACTTTCTACACGTCTAAAAC
1 CAACACTTTCTACACATAAAAAAC
33181 CAACA
1 CAACA
33186 AACAACAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.21
Consensus pattern (24 bp):
CAACACTTTCTACACATAAAAAAC
Found at i:34434 original size:21 final size:21
Alignment explanation
Indices: 34410--34508 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
34400 GCGGACGGGA
* *
34410 CCTCTTGAACGATGACAAGGG
1 CCTCTTGAACGATGAGAGGGG
* *
34431 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
34452 CTTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAACGATGAGAGGGG
**
34473 CCTCTTGAACGAT-AGGAGACG
1 CCTCTTGAACGATGA-GAGGGG
*
34494 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
34509 TAGGTACATC
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
20 2 0.03
21 57 0.93
22 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.23
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:34506 original size:42 final size:42
Alignment explanation
Indices: 34410--34508 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 42
34400 GCGGACGGGA
* * * **
34410 CCTCTTGAACGATGACAAGGGCCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAATGATGACAAGGGCCTCTTGAACGATAGGAGACG
* * *
34452 CTTCTTCG-ATGATGAGAGGGGCCTCTTGAACGATAGGAGACG
1 CCTCTT-GAATGATGACAAGGGCCTCTTGAACGATAGGAGACG
34494 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
34509 TAGGTACATC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.23
Consensus pattern (42 bp):
CCTCTTGAATGATGACAAGGGCCTCTTGAACGATAGGAGACG
Found at i:34962 original size:42 final size:41
Alignment explanation
Indices: 34866--34965 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 41
34856 CGTAAAAAAT
* * *
34866 CCACCTCACCACGTAAAGACCGAACCTCATCACGCCATGCA
1 CCACCTCATCACGTAAAGACCGAACCTCATCACGCAAAGCA
** * *
34907 CCATTATCTTCACGTAAAGTACCG-ACCTCATGACGCAAAGCA
1 CCA-CCTCATCACGTAAAG-ACCGAACCTCATCACGCAAAGCA
34949 CCGACCTCATCACGTAA
1 CC-ACCTCATCACGTAA
34966 CTCCCCTAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
41 3 0.07
42 38 0.83
43 5 0.11
ACGTcount: A:0.32, C:0.38, G:0.13, T:0.17
Consensus pattern (41 bp):
CCACCTCATCACGTAAAGACCGAACCTCATCACGCAAAGCA
Found at i:36697 original size:20 final size:20
Alignment explanation
Indices: 36674--36726 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
36664 AAACTTAAAT
*
36674 TCGCAACGTGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
36694 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
36714 TCGCAACGCGAAA
1 TCGCAACGCGAAA
36727 TTAAAACCGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:36760 original size:14 final size:14
Alignment explanation
Indices: 36743--36776 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
36733 CCGCGTTACA
36743 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
36757 ATTTTGGTGTTGCG
1 ATTTTCGCGTTGCG
36771 ATTTTC
1 ATTTTC
36777 ATTTTCGTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.15, G:0.26, T:0.50
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:36802 original size:20 final size:20
Alignment explanation
Indices: 36763--36802 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
36753 TGCGATTTTG
* * *
36763 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGAATTTAAGTTTC
36783 GTGTTGCGAATTTAAGTTTC
1 GTGTTGCGAATTTAAGTTTC
36803 AAAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (20 bp):
GTGTTGCGAATTTAAGTTTC
Found at i:37154 original size:22 final size:23
Alignment explanation
Indices: 37126--37176 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
37116 GATGGAGATA
37126 GACGGATTTTGC-T-GGAGATGGG
1 GACGGATTTT-CATCGGAGATGGG
37148 GACGGA-TTTCATCGGAGATGGG
1 GACGGATTTTCATCGGAGATGGG
37170 GACGGAT
1 GACGGAT
37177 GTCGCCGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.04
21 4 0.15
22 21 0.81
ACGTcount: A:0.22, C:0.12, G:0.43, T:0.24
Consensus pattern (23 bp):
GACGGATTTTCATCGGAGATGGG
Found at i:37395 original size:20 final size:20
Alignment explanation
Indices: 37292--37398 Score: 146
Period size: 20 Copynumber: 5.3 Consensus size: 20
37282 TGTGTTTCGC
37292 GTTGCGAATTTGACTATC-GT
1 GTTGCGAATTTGACT-TCTGT
*
37312 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTCTGT
*
37332 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTCTGT
*
37352 GTTGCGAATTTGACTATC-GC
1 GTTGCGAATTTGACT-TCTGT
*
37372 GTTGCGAATTTGACTTCTAT
1 GTTGCGAATTTGACTTCTGT
37392 GTTGCGA
1 GTTGCGA
37399 TTTACAATTT
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
19 3 0.04
20 75 0.95
21 1 0.01
ACGTcount: A:0.18, C:0.14, G:0.25, T:0.43
Consensus pattern (20 bp):
GTTGCGAATTTGACTTCTGT
Found at i:37412 original size:40 final size:40
Alignment explanation
Indices: 37286--37414 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
37276 TAATATTGTG
37286 TTTCGCGTTGCGAATTTGACTATC-GTGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGACT-TCTGTGTTGCGAATTTGAC
* * *
37326 TTTTGTGTTGCGAATTTGACTTTTGTGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGAC
* *
37366 TATCGCGTTGCGAATTTGACTTCTATGTTGCG-ATTT-AC
1 TTTCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGAC
37404 AATTTCGCGTT
1 --TTTCGCGTT
37415 ACGATTTAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
38 2 0.03
39 5 0.06
40 70 0.91
ACGTcount: A:0.17, C:0.16, G:0.23, T:0.44
Consensus pattern (40 bp):
TTTCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGAC
Found at i:42433 original size:64 final size:64
Alignment explanation
Indices: 42354--42493 Score: 174
Period size: 64 Copynumber: 2.2 Consensus size: 64
42344 CGGATCTTGG
* * *
42354 CAGGTCGGGTAAAATCAGATACATGTCA-ATTCAGGTTAATTTGACACTAGATCCAGATCGGGTT
1 CAGGTCGGGTCAAATCAG-TACAGGTCATATTCAGGTTAATTTGACACCAGATCCAGATCGGGTT
* * * * * * *
42418 CAGGTCAGGTCAAATCAGTTCGGGTTATTTTCAGGTTGATTTGACACCAGATCCAGATTGGGTT
1 CAGGTCGGGTCAAATCAGTACAGGTCATATTCAGGTTAATTTGACACCAGATCCAGATCGGGTT
42482 CAGGTCGGGTCA
1 CAGGTCGGGTCA
42494 TTTTCAGTTC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 5 0.08
64 59 0.92
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (64 bp):
CAGGTCGGGTCAAATCAGTACAGGTCATATTCAGGTTAATTTGACACCAGATCCAGATCGGGTT
Found at i:43332 original size:21 final size:21
Alignment explanation
Indices: 43308--43370 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
43298 TTATTAATGC
43308 ATGCATGTATGTATAATATGT
1 ATGCATGTATGTATAATATGT
*
43329 ATGCATATATGTATAAT-T-T
1 ATGCATGTATGTATAATATGT
** * *
43348 ATTAATGCATGTATGATATGT
1 ATGCATGTATGTATAATATGT
43369 AT
1 AT
43371 ATTAATGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 13 0.38
20 2 0.06
21 19 0.56
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (21 bp):
ATGCATGTATGTATAATATGT
Found at i:43373 original size:23 final size:23
Alignment explanation
Indices: 43299--43377 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 23
43289 ATATATAATT
*
43299 TATTAATGCATGCATG-TATGTA
1 TATTAATGCATGTATGATATGTA
* *
43321 TAATATGTATGCATATATGTATAAT-T-
1 T-AT-T-AATGCATGTATG-AT-ATGTA
43347 TATTAATGCATGTATGATATGTA
1 TATTAATGCATGTATGATATGTA
43370 TATTAATG
1 TATTAATG
43378 TAATATGCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
21 2 0.05
22 4 0.09
23 20 0.45
24 2 0.05
25 11 0.25
26 1 0.02
27 2 0.05
28 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.44
Consensus pattern (23 bp):
TATTAATGCATGTATGATATGTA
Found at i:43445 original size:40 final size:40
Alignment explanation
Indices: 43396--43473 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 40
43386 ATAGTGTTTC
*
43396 TATAAACTATAT-AAGTAATTTACTTTATATAGTTTATATA
1 TATAAACTATATAAAGTAAATTAC-TTATATAGTTTATATA
*
43436 TATATACTATATAAAGTAAATTACTTATATAGTTTATA
1 TATAAACTATATAAAGTAAATTACTTATATAGTTTATA
43474 GAAATACTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 25 0.71
41 10 0.29
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (40 bp):
TATAAACTATATAAAGTAAATTACTTATATAGTTTATATA
Found at i:43490 original size:40 final size:41
Alignment explanation
Indices: 43396--43483 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 41
43386 ATAGTGTTTC
* * *
43396 TATAAACTATAT-AAGTAATTTACTTTATATAGTTTATATA
1 TATATACTATATAAAGTAAATTACTTTATATAGTTTATAGA
43436 TATATACTATATAAAGTAAATTAC-TTATATAGTTTATAGA
1 TATATACTATATAAAGTAAATTACTTTATATAGTTTATAGA
43476 -A-ATACTAT
1 TATATACTAT
43484 TCATAAATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
38 7 0.16
39 1 0.02
40 26 0.59
41 10 0.23
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (41 bp):
TATATACTATATAAAGTAAATTACTTTATATAGTTTATAGA
Found at i:43533 original size:7 final size:7
Alignment explanation
Indices: 43523--43593 Score: 63
Period size: 7 Copynumber: 10.3 Consensus size: 7
43513 TAGTTTATAG
43523 AAACCCT
1 AAACCCT
43530 AAACCCT
1 AAACCCT
*
43537 AAACCAT
1 AAACCCT
*
43544 ACACCCT
1 AAACCCT
**
43551 -AACTTT
1 AAACCCT
*
43557 AAACCAT
1 AAACCCT
*
43564 AAACACT
1 AAACCCT
*
43571 AAACACT
1 AAACCCT
*
43578 AAACCAT
1 AAACCCT
43585 AAACCCT
1 AAACCCT
43592 AA
1 AA
43594 TATAAATGAA
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
6 3 0.06
7 47 0.94
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:43609 original size:41 final size:41
Alignment explanation
Indices: 43523--43613 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
43513 TAGTTTATAG
* * * * * *
43523 AAACCCTAAACCCTAAACCATACACCCTAACTTTAAACCAT
1 AAACACTAAACACTAAACCATAAACCCTAACTATAAACAAC
*
43564 AAACACTAAACACTAAACCATAAACCCTAA-TATAAATGAAC
1 AAACACTAAACACTAAACCATAAACCCTAACTATAAA-CAAC
43605 AAACACTAA
1 AAACACTAA
43614 TATGACATGT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 5 0.12
41 37 0.88
ACGTcount: A:0.52, C:0.30, G:0.01, T:0.18
Consensus pattern (41 bp):
AAACACTAAACACTAAACCATAAACCCTAACTATAAACAAC
Found at i:43740 original size:13 final size:13
Alignment explanation
Indices: 43708--43734 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43698 TAATTTACAT
43708 TTAAATAATTTTA
1 TTAAATAATTTTA
43721 TTAAATAATTTTA
1 TTAAATAATTTTA
43734 T
1 T
43735 ATAATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:43789 original size:21 final size:22
Alignment explanation
Indices: 43755--43799 Score: 83
Period size: 21 Copynumber: 2.1 Consensus size: 22
43745 TGTATAAACC
43755 ATGTATAGTATATATAAACTAT
1 ATGTATAGTATATATAAACTAT
43777 ATGTATA-TATATATAAACTAT
1 ATGTATAGTATATATAAACTAT
43798 AT
1 AT
43800 AAAGTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (22 bp):
ATGTATAGTATATATAAACTAT
Found at i:43878 original size:48 final size:49
Alignment explanation
Indices: 43784--43892 Score: 148
Period size: 49 Copynumber: 2.2 Consensus size: 49
43774 TATATGTATA
* * **
43784 TATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
1 TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
*
43833 TATACATAAACTATATAAAGT-AATAAAATATATAGTTTATAGAAACCC
1 TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
*
43881 TAAATCATAAAC
1 TATA-CATAAAC
43893 CATAAACTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 26 0.49
49 27 0.51
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (49 bp):
TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
Found at i:43899 original size:21 final size:22
Alignment explanation
Indices: 43875--43939 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 22
43865 TAGTTTATAG
*
43875 AAACCCTAAATCATAAACCA-T
1 AAACACTAAATCATAAACCACT
** *
43896 AAACTTTAAATCACAAA-CACT
1 AAACACTAAATCATAAACCACT
*
43917 AAATACTAAATCATAAACC-CT
1 AAACACTAAATCATAAACCACT
43938 AA
1 AA
43940 TGTAAATGGA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.06
21 32 0.91
22 1 0.03
ACGTcount: A:0.54, C:0.25, G:0.00, T:0.22
Consensus pattern (22 bp):
AAACACTAAATCATAAACCACT
Found at i:44318 original size:20 final size:19
Alignment explanation
Indices: 44286--44344 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 19
44276 ATTTTATATA
*
44286 ATAT-GTATGTATAAACCAT
1 ATATAGTATATATAAACC-T
*
44305 GTATAGTATATATAAA-CT
1 ATATAGTATATATAAACCT
44323 ATATA-TATATATAAA-CT
1 ATATAGTATATATAAACCT
44340 ATATA
1 ATATA
44345 AAGTAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 17 0.47
18 5 0.14
19 4 0.11
20 10 0.28
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (19 bp):
ATATAGTATATATAAACCT
Found at i:44325 original size:9 final size:9
Alignment explanation
Indices: 44313--44346 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
44303 ATGTATAGTA
44313 TATATAAAC
1 TATATAAAC
*
44322 TATATATA-
1 TATATAAAC
44330 TATATAAAC
1 TATATAAAC
44339 TATATAAA
1 TATATAAA
44347 GTAAATTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (9 bp):
TATATAAAC
Found at i:44333 original size:17 final size:18
Alignment explanation
Indices: 44306--44344 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
44296 ATAAACCATG
44306 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
44324 TATA-TATATATAAACTA
1 TATAGTATATATAAACTA
44341 TATA
1 TATA
44345 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (18 bp):
TATAGTATATATAAACTA
Found at i:44421 original size:48 final size:49
Alignment explanation
Indices: 44328--44422 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 49
44318 AAACTATATA
* * **
44328 TATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
1 TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
*
44377 TATACATAAACTATATAAAGT-AGTAAAATATATAGTTTATAGAAAC
1 TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAAC
44423 CTTAAATCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 21 0.51
49 20 0.49
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (49 bp):
TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
Found at i:44434 original size:49 final size:49
Alignment explanation
Indices: 44333--44435 Score: 129
Period size: 48 Copynumber: 2.1 Consensus size: 49
44323 ATATATATAT
* ** *
44333 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATAC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
*
44382 ATAAACTATATAAAGT-AGTAAAATATATAGTTTATAGAAAC-CTTAAATC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC-TAAA-C
44431 ATAAA
1 ATAAA
44436 TCATGAACCC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.02
48 24 0.51
49 22 0.47
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
Found at i:44456 original size:21 final size:21
Alignment explanation
Indices: 44419--44490 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
44409 TAGTTTATAG
*
44419 AAACCTTAAATCA-TAAATCAT
1 AAACCCTAAA-CACTAAATCAT
* ** * *
44440 GAACCCTAAACTTTAAACCAC
1 AAACCCTAAACACTAAATCAT
*
44461 AAACACTAAACACTAAATCAT
1 AAACCCTAAACACTAAATCAT
44482 AAACCCTAA
1 AAACCCTAA
44491 TGTAAATAGA
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 1 0.03
21 37 0.97
ACGTcount: A:0.51, C:0.26, G:0.01, T:0.21
Consensus pattern (21 bp):
AAACCCTAAACACTAAATCAT
Found at i:45733 original size:13 final size:13
Alignment explanation
Indices: 45701--45727 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45691 TAATTTACAT
45701 TTAAATAATTTTA
1 TTAAATAATTTTA
45714 TTAAATAATTTTA
1 TTAAATAATTTTA
45727 T
1 T
45728 ATAATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:45763 original size:20 final size:20
Alignment explanation
Indices: 45731--45785 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
45721 ATTTTATATA
*
45731 ATAT-GTATGTATAAACCAC
1 ATATAGTATATATAAACCAC
* * *
45750 GTATAGTATATATAAACTAT
1 ATATAGTATATATAAACCAC
45770 ATATA-TATATATAAAC
1 ATATAGTATATATAAAC
45786 TATATAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.36
Consensus pattern (20 bp):
ATATAGTATATATAAACCAC
Found at i:45778 original size:17 final size:19
Alignment explanation
Indices: 45751--45827 Score: 61
Period size: 18 Copynumber: 4.1 Consensus size: 19
45741 ATAAACCACG
45751 TATAGTATATATAAACTATA
1 TATAGTATATATAAAC-ATA
45771 TATA-TATATATAAAC-TA
1 TATAGTATATATAAACATA
** * * *
45788 TATAAAATAAAT-TACTTA
1 TATAGTATATATAAACATA
*
45806 TATAGTTTATATAAACACTA
1 TATAGTATATATAAACA-TA
45826 TA
1 TA
45828 CATAAACTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
17 8 0.18
18 15 0.34
19 13 0.30
20 8 0.18
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (19 bp):
TATAGTATATATAAACATA
Found at i:45780 original size:19 final size:20
Alignment explanation
Indices: 45751--45791 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
45741 ATAAACCACG
45751 TATAGTATATATAAACTATA
1 TATAGTATATATAAACTATA
45771 TATA-TATATATAAACTATA
1 TATAGTATATATAAACTATA
45790 TA
1 TA
45792 AAATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (20 bp):
TATAGTATATATAAACTATA
Found at i:45881 original size:49 final size:49
Alignment explanation
Indices: 45780--45883 Score: 122
Period size: 48 Copynumber: 2.1 Consensus size: 49
45770 ATATATATAT
* ** * *
45780 ATAAACTATATAAAATAAATTACTTATATAGTTTATATAAACACTATAC
1 ATAAACTATATAAAATAAATAAAATATATAGTTTATAGAAACACTAAAC
*
45829 ATAAACTATATAAAGT-AATAAAATATATAGTTTATAGAAATC-CTAAATC
1 ATAAACTATATAAAATAAATAAAATATATAGTTTATAGAAA-CACTAAA-C
45878 ATAAAC
1 ATAAAC
45884 CCTAAACTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 24 0.51
49 23 0.49
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.34
Consensus pattern (49 bp):
ATAAACTATATAAAATAAATAAAATATATAGTTTATAGAAACACTAAAC
Found at i:46325 original size:20 final size:20
Alignment explanation
Indices: 46273--46325 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
46263 TTAAATATTT
*
46273 TATATAATATGTATGTATAAAC
1 TATATAA-A-GTATATATAAAC
* * *
46295 CATGTATAGTATATATAAAC
1 TATATAAAGTATATATAAAC
46315 TATATAAAGTA
1 TATATAAAGTA
46326 AATTACTTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 19 0.79
21 1 0.04
22 4 0.17
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (20 bp):
TATATAAAGTATATATAAAC
Found at i:46404 original size:7 final size:7
Alignment explanation
Indices: 46394--46464 Score: 54
Period size: 7 Copynumber: 10.3 Consensus size: 7
46384 TAGTTTATAG
46394 AAACCCT
1 AAACCCT
46401 AAACCCT
1 AAACCCT
* *
46408 AAATCAT
1 AAACCCT
46415 AAACCCT
1 AAACCCT
**
46422 -AATTCT
1 AAACCCT
**
46428 AAACTTT
1 AAACCCT
*
46435 AAACCAT
1 AAACCCT
*
46442 AAACACT
1 AAACCCT
*
46449 AAACCAT
1 AAACCCT
46456 AAACCCT
1 AAACCCT
46463 AA
1 AA
46465 TTTAAATAGA
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
6 4 0.08
7 44 0.92
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (7 bp):
AAACCCT
Found at i:46419 original size:14 final size:14
Alignment explanation
Indices: 46394--46464 Score: 72
Period size: 14 Copynumber: 5.1 Consensus size: 14
46384 TAGTTTATAG
*
46394 AAACCCTAAACCCT
1 AAACCATAAACCCT
*
46408 AAATCATAAACCCT
1 AAACCATAAACCCT
** **
46422 AATTC-TAAACTTT
1 AAACCATAAACCCT
*
46435 AAACCATAAACACT
1 AAACCATAAACCCT
46449 AAACCATAAACCCT
1 AAACCATAAACCCT
46463 AA
1 AA
46465 TTTAAATAGA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
13 9 0.20
14 37 0.80
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:46439 original size:41 final size:40
Alignment explanation
Indices: 46394--46470 Score: 118
Period size: 41 Copynumber: 1.9 Consensus size: 40
46384 TAGTTTATAG
* * *
46394 AAACCCTAAACCCTAAATCATAAACCCTAATTCTAAACTTT
1 AAACCATAAACACTAAACCATAAACCCTAATT-TAAACTTT
46435 AAACCATAAACACTAAACCATAAACCCTAATTTAAA
1 AAACCATAAACACTAAACCATAAACCCTAATTTAAA
46471 TAGACTAGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 4 0.12
41 29 0.88
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.23
Consensus pattern (40 bp):
AAACCATAAACACTAAACCATAAACCCTAATTTAAACTTT
Found at i:46648 original size:14 final size:14
Alignment explanation
Indices: 46629--46675 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
46619 ATTTTTTCTT
46629 TATATAAATTAAAC
1 TATATAAATTAAAC
46643 TATAT-AATT----
1 TATATAAATTAAAC
46652 TATATAAATTAAAC
1 TATATAAATTAAAC
*
46666 TATATTAATT
1 TATATAAATT
46676 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:46654 original size:23 final size:24
Alignment explanation
Indices: 46627--46676 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
46617 TTATTTTTTC
46627 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
46650 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
46674 TTT
1 TTT
46677 TCCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:46965 original size:16 final size:16
Alignment explanation
Indices: 46944--47030 Score: 120
Period size: 16 Copynumber: 5.4 Consensus size: 16
46934 TGGATCATTT
*
46944 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTGAAA
46960 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
* *
46976 ACATGTCAGGTTAAAA
1 ACAGGTCAGGTTGAAA
* *
46992 ACAAGTCAGGATGAAA
1 ACAGGTCAGGTTGAAA
*
47008 ACAAGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
47024 ACAGGTC
1 ACAGGTC
47031 GGGTAATACC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 63 1.00
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.18
Consensus pattern (16 bp):
ACAGGTCAGGTTGAAA
Found at i:52090 original size:39 final size:39
Alignment explanation
Indices: 52047--52183 Score: 148
Period size: 41 Copynumber: 3.4 Consensus size: 39
52037 TACATATTGG
* *
52047 GTAAGCACTTCGGTGCAAAGGATCGATGCAGCCTTATGC
1 GTAAGCACTTCGGTGCAAAGGATCGACGCAACCTTATGC
** * *
52086 GTAAGCACTTCGGTGCAAAGGATAAAAACACATCCTTATGC
1 GTAAGCACTTCGGTGCAAAGGAT--CGACGCAACCTTATGC
* * *
52127 GTAAGCACTTCGGTGAAAAAAGGGTCGACGTAACCTTATGC
1 GTAAGCACTTCGGTG--CAAAGGATCGACGCAACCTTATGC
*
52168 GTAAGCACTTTGGTGC
1 GTAAGCACTTCGGTGC
52184 GACTCAAATA
Statistics
Matches: 80, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
39 23 0.29
41 51 0.64
43 6 0.08
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (39 bp):
GTAAGCACTTCGGTGCAAAGGATCGACGCAACCTTATGC
Found at i:52647 original size:21 final size:20
Alignment explanation
Indices: 52613--52664 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
52603 AAGAAATGTC
52613 TACAAACTATTAATATAGT-TAG
1 TACAAA-TA-TAATATAGTAT-G
*
52635 TATCAAATATAATTTAGTATG
1 TA-CAAATATAATATAGTATG
52656 TACAAATAT
1 TACAAATAT
52665 TATGATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 7 0.26
21 11 0.41
22 5 0.19
23 4 0.15
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (20 bp):
TACAAATATAATATAGTATG
Found at i:53741 original size:20 final size:20
Alignment explanation
Indices: 53718--53755 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53708 ATCATCCTAA
53718 TTCATCCAATATCAATATTG
1 TTCATCCAATATCAATATTG
* *
53738 TTCATCTAGTATCAATAT
1 TTCATCCAATATCAATAT
53756 CCTAACCCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.42
Consensus pattern (20 bp):
TTCATCCAATATCAATATTG
Found at i:58203 original size:16 final size:16
Alignment explanation
Indices: 58166--58206 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
58156 AAAAATGAAG
*
58166 AATAAA-AATAAGTAAA
1 AATAAATAA-AAGGAAA
58182 AA-AAATAAAAGGAAA
1 AATAAATAAAAGGAAA
58197 AATAAATAAA
1 AATAAATAAA
58207 TAAATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (16 bp):
AATAAATAAAAGGAAA
Found at i:58229 original size:2 final size:2
Alignment explanation
Indices: 58214--58266 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
58204 AAATAAATAA
58214 AT AT -T AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58254 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
58267 AATGAGAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 47 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:58333 original size:18 final size:18
Alignment explanation
Indices: 58284--58337 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
58274 AAAATAGAAA
*
58284 AATAATAATCATAACAATAAT
1 AATAGTAAT-ATAA-AAT-AT
58305 AATAGTAATATGAAAATAT
1 AATAGTAATAT-AAAATAT
58324 AATA-TAATATAAAA
1 AATAGTAATATAAAA
58338 AAAACTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 6 0.19
19 6 0.19
20 5 0.16
21 10 0.32
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (18 bp):
AATAGTAATATAAAATAT
Found at i:58612 original size:23 final size:24
Alignment explanation
Indices: 58584--58632 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
58574 ACCAAATGAA
58584 TATAAATAAATAA-AAAATATA-TG
1 TATAAAT-AATAATAAAATATAGTG
*
58607 TATAAATAATAATAATATATAGTG
1 TATAAATAATAATAAAATATAGTG
58631 TA
1 TA
58633 AAGAATCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 14 0.61
24 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (24 bp):
TATAAATAATAATAAAATATAGTG
Found at i:59175 original size:37 final size:37
Alignment explanation
Indices: 59090--59183 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
59080 GGATCCTATC
* * * * *
59090 TTTAGGAGTTTAAATCATAGTAGAACTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGCAAAACTCTATCATATT
*
59127 TTTAGGAGTTTGAATCCTAGCAAAATTCTATCATATT
1 TTTAGGAGTTTGAATCCTAGCAAAACTCTATCATATT
*
59164 TTTAGGAGTTTGAATTCTAG
1 TTTAGGAGTTTGAATCCTAG
59184 TAGGACGAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGCAAAACTCTATCATATT
Found at i:60072 original size:99 final size:102
Alignment explanation
Indices: 59877--60224 Score: 353
Period size: 106 Copynumber: 3.4 Consensus size: 102
59867 GTAAGTAGCA
* * *
59877 TTGTTTCGAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTT
1 TTGTCTCGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCT-GAA-C-TGAAA-TGTTT
* * *
59941 GTTGACAACCAGCTGTCCCTTCGTTGTGAAGTTGAACTTATG
61 GTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTG
* *
59983 TTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTG-AATTGACTCTGAA-TGAAAT-TTTGTTGA
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAACTGAAATGTTTGTTGA
* * * **
60045 CAATCAACCGCCCCTTCGTCGTGAAGTTGGGCTTGTG
66 CAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTG
* * * * * * * *
60082 TTGTGTTGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTA
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG-AACT--GAA-ATGTTTG
* * *
60147 TTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCG
62 TTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTG
* *
60188 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
1 TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAA
60225 CTTGTGTTGT
Statistics
Matches: 198, Mismatches: 36, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
99 66 0.33
100 11 0.06
101 6 0.03
102 1 0.01
104 6 0.03
105 10 0.05
106 97 0.49
107 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (102 bp):
TTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAACTGAAATGTTTGTTGA
CAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTG
Found at i:60224 original size:43 final size:43
Alignment explanation
Indices: 60171--60267 Score: 167
Period size: 43 Copynumber: 2.3 Consensus size: 43
60161 TCCCTTCATC
*
60171 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTT
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
* *
60214 GTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCT
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
60257 GTGAAGTTGAA
1 GTGAAGTTGAA
60268 ATTGGCTCTG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (43 bp):
GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
Found at i:60327 original size:149 final size:149
Alignment explanation
Indices: 60057--60373 Score: 499
Period size: 149 Copynumber: 2.1 Consensus size: 149
60047 ATCAACCGCC
* ** * *
60057 CCTTCGTCGTGAAGTTGGGCTTGTGTTGTGTTGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATT
1 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAAGATCCTTCGCTGAGAAGTTGAAATT
* *
60122 GGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGC
66 GGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCATCATGAAGTTGAACTTGC
60187 GTTGTCTGGAGTCCAATAT
131 GTTGTCTGGAGTCCAATAT
* *
60206 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAAGATCCTTCGCTGAGAAGTTGAAATT
* * * *
60271 GGCTCTGGAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGT
66 GGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCATCATGAAGTTGAACTTGC
60336 GTTGTCTGGAGTCCAATAT
131 GTTGTCTGGAGTCCAATAT
* *
60355 CCTTCGCTATGAAGTTGAA
1 CCTTCGTTGTGAAGTTGAA
60374 TTTGGCTCTG
Statistics
Matches: 153, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (149 bp):
CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAAGATCCTTCGCTGAGAAGTTGAAATT
GGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCATCATGAAGTTGAACTTGC
GTTGTCTGGAGTCCAATAT
Found at i:60395 original size:106 final size:106
Alignment explanation
Indices: 60206--60725 Score: 808
Period size: 106 Copynumber: 4.9 Consensus size: 106
60196 AGTCCAATAT
* *
60206 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* * * *
60271 GGCTCTGGAATTGAGAAGTTGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
* * *
60312 CCTTCGTCATGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTATGAAGTTGAATTT
1 CCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* *
60377 GGCTCTGAAATTGGGAAGTTGTTTATTGACAACTAGCGGTC
66 GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
*
60418 CCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTAAAATT
1 CCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
60483 GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
* *
60524 TCTTCGTCGTGAAGTTGAACTTGCT-TTGTCTGGAGTCCAATATCCTTCGCTGTGATGTTGAAAT
1 CCTTCGTCGTGAAGTTGAACTTG-TGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
* * * *
60588 TGGCTATGAAATTTGGAAATTGTTTCTTGACAACCAACGGTC
65 TGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
* * * *
60630 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCTAATATTCTTCGCTGTGAAATTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* *
60695 GGCTCTGAAATTGGGAACTTGTTTGTTGACA
66 GGCTCTGAAATTGGGAAATTGTTTATTGACA
60726 TTCGTCGTGA
Statistics
Matches: 380, Mismatches: 32, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
106 379 1.00
107 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (106 bp):
CCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
GGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTC
Found at i:60402 original size:255 final size:248
Alignment explanation
Indices: 59958--60476 Score: 781
Period size: 255 Copynumber: 2.1 Consensus size: 248
59948 ACCAGCTGTC
59958 CCTTCGTTGTGAAGTTGAACTTATGTTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTGAATTG
1 CCTTCGTTGTGAAGTTGAACTTATGTTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTGAATTG
* * ** *
60023 ACTCTGAATGAAATTTTGTTGACAATCAACCGCCCCTTCGTCGTGAAGTTGGGCTTGTGTTGTGT
66 ACTCTGAATGAAATTTTGTTGACAACCAACCGCCCCTTCGTCATGAAGTTGAACTTGTGTTGTGC
60088 TGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
131 TGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
60153 ACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
196 ACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * *
60206 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTTGTGAAGTTGAACTTATGTTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTG-AATT
* * * *
60271 GGCTCTGGAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGT
65 GACTCT-GAA-TGA-AA--T-TTTGTTGACAACCAACCGCCCCTTCGTCATGAAGTTGAACTTGT
* *
60336 GTTGT-CTGGAGTCCAATATCCTTCGCT-ATGAAGTTGAATTTGGCTCTGAAATTGGGAAGTTGT
124 GTTGTGCTGG-GTCCAAGATCCTTCGCTGA-GAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGT
* * *
60399 TTATTGACAACTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATAT
187 TTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
60461 CCTTCGCTGTGAAGTT
1 CCTTCGTTGTGAAGTT
60477 AAAATTGGCT
Statistics
Matches: 244, Mismatches: 18, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
248 57 0.23
249 9 0.04
250 3 0.01
251 3 0.01
252 2 0.01
254 5 0.02
255 165 0.68
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.35
Consensus pattern (248 bp):
CCTTCGTTGTGAAGTTGAACTTATGTTGTCTCGAGTCCAATATCCTTCACTGTGAAGTTGAATTG
ACTCTGAATGAAATTTTGTTGACAACCAACCGCCCCTTCGTCATGAAGTTGAACTTGTGTTGTGC
TGGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
ACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:62295 original size:20 final size:20
Alignment explanation
Indices: 62258--62334 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
62248 TTTTTGTCCC
*
62258 TTTTTCTTTTTGAT-TTTTGT
1 TTTTTCTTTTT-TTCTTTTGT
62278 TTTTTCTTTTTTTCTTTTG-
1 TTTTTCTTTTTTTCTTTTGT
* *
62297 TTTCTC-TTTTTTCTTTGGTT
1 TTTTTCTTTTTTTCTTTTG-T
*
62317 TTTTTCTTCTTTTCTTTT
1 TTTTTCTTTTTTTCTTTT
62335 TTGTTCTTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 11 0.23
19 6 0.13
20 21 0.45
21 9 0.19
ACGTcount: A:0.01, C:0.12, G:0.06, T:0.81
Consensus pattern (20 bp):
TTTTTCTTTTTTTCTTTTGT
Found at i:62300 original size:9 final size:8
Alignment explanation
Indices: 62277--62342 Score: 55
Period size: 8 Copynumber: 8.1 Consensus size: 8
62267 TTGATTTTTG
62277 TTTTTTCT
1 TTTTTTCT
62285 TTTTTTCT
1 TTTTTTCT
62293 TTTGTTTCT
1 TTT-TTTCT
62302 CTTTTTTCT
1 -TTTTTTCT
*
62311 TTGGTTT-T
1 TT-TTTTCT
*
62319 TTTCTTCT
1 TTTTTTCT
*
62327 TTTCTT-T
1 TTTTTTCT
*
62334 TTTGTTCT
1 TTTTTTCT
62342 T
1 T
62343 GATTGGATCT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
7 8 0.16
8 25 0.51
9 13 0.27
10 3 0.06
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (8 bp):
TTTTTTCT
Found at i:62306 original size:26 final size:28
Alignment explanation
Indices: 62258--62312 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
62248 TTTTTGTCCC
* *
62258 TTTTTCTTTTTGATTTTTGTTTTTTCTT
1 TTTTTCTTTTTGATTTCTCTTTTTTCTT
62286 TTTTTC-TTTTG-TTTCTCTTTTTTCTT
1 TTTTTCTTTTTGATTTCTCTTTTTTCTT
62312 T
1 T
62313 GGTTTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.56
27 5 0.20
28 6 0.24
ACGTcount: A:0.02, C:0.11, G:0.05, T:0.82
Consensus pattern (28 bp):
TTTTTCTTTTTGATTTCTCTTTTTTCTT
Found at i:62322 original size:31 final size:31
Alignment explanation
Indices: 62284--62342 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
62274 TTGTTTTTTC
*
62284 TTTTTTTCTTTTGTTTCTCTTTT-TTCTTTGG
1 TTTTTTTCTTCT-TTTCTCTTTTGTTCTTTGG
*
62315 TTTTTTTCTTCTTTTCTTTTTTGTTCTT
1 TTTTTTTCTTCTTTTCTCTTTTGTTCTT
62343 GATTGGATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.80
Consensus pattern (31 bp):
TTTTTTTCTTCTTTTCTCTTTTGTTCTTTGG
Found at i:62336 original size:18 final size:17
Alignment explanation
Indices: 62258--62342 Score: 62
Period size: 18 Copynumber: 4.5 Consensus size: 17
62248 TTTTTGTCCC
*
62258 TTTTTCTTTTTGATTTTTGT
1 TTTTTCTTTTT--TCTTT-T
62278 TTTTTCTTTTTTTCTTTT
1 TTTTTC-TTTTTTCTTTT
*
62296 GTTTCTCTTTTTTCTTTGGTT
1 -TTTTTCTTTTTTC-TT--TT
62317 TTTTTCTTCTTTTCTTTT
1 TTTTTCTT-TTTTCTTTT
*
62335 TTGTTCTT
1 TTTTTCTT
62343 GATTGGATCT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
18 17 0.31
19 11 0.20
20 15 0.27
21 12 0.22
ACGTcount: A:0.01, C:0.12, G:0.07, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTTTTCTTTT
Found at i:63502 original size:8 final size:8
Alignment explanation
Indices: 63489--63524 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
63479 GTAGATGAAG
63489 ATGCAAAA
1 ATGCAAAA
63497 ATGCAAAA
1 ATGCAAAA
63505 ATGC-AAA
1 ATGCAAAA
*
63512 ATGCAAGA
1 ATGCAAAA
63520 ATGCA
1 ATGCA
63525 TGAAATGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (8 bp):
ATGCAAAA
Found at i:63514 original size:15 final size:15
Alignment explanation
Indices: 63489--63524 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
63479 GTAGATGAAG
63489 ATGCAAAAATGCAAAA
1 ATGC-AAAATGCAAAA
*
63505 ATGCAAAATGCAAGA
1 ATGCAAAATGCAAAA
63520 ATGCA
1 ATGCA
63525 TGAAATGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
ATGCAAAATGCAAAA
Found at i:66839 original size:4 final size:4
Alignment explanation
Indices: 66832--66865 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
66822 ATAAAAGGAA
66832 AAAT AAAT AAAT AAAT AAAT AAAT AAAT GAAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A
66866 TTAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:66839 original size:16 final size:16
Alignment explanation
Indices: 66802--66842 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
66792 AAAAATGAAT
*
66802 AATAAA-AATAAGTAAA
1 AATAAATAA-AAGGAAA
66818 AA-AAATAAAAGGAAA
1 AATAAATAAAAGGAAA
66833 AATAAATAAA
1 AATAAATAAA
66843 TAAATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (16 bp):
AATAAATAAAAGGAAA
Found at i:67180 original size:19 final size:19
Alignment explanation
Indices: 67149--67186 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
67139 AAAAGTATAT
*
67149 ATATATATATAAATAATAA
1 ATATATATATAAAAAATAA
67168 ATATAGTAT-TAAAAAATAA
1 ATATA-TATATAAAAAATAA
67187 TCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
ATATATATATAAAAAATAA
Found at i:67227 original size:19 final size:20
Alignment explanation
Indices: 67149--67241 Score: 64
Period size: 22 Copynumber: 4.5 Consensus size: 20
67139 AAAAGTATAT
*
67149 ATATATATATAAATAATAAA
1 ATATATGTATAAATAATAAA
* *
67169 TATAGTAT-TAAAAAATAATCAA
1 -ATA-TATGT-ATAAATAATAAA
*
67191 ATGAATATGAATAAATAA-AAA
1 AT--ATATGTATAAATAATAAA
* *
67212 ATATATGTATATATAATAAT
1 ATATATGTATAAATAATAAA
67232 ATATAGTGTA
1 ATATA-TGTA
67242 AAAAATCAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
19 12 0.21
20 7 0.12
21 14 0.25
22 23 0.40
23 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.34
Consensus pattern (20 bp):
ATATATGTATAAATAATAAA
Found at i:67797 original size:37 final size:37
Alignment explanation
Indices: 67704--67800 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
67694 GTGCTTGTGG
* * * *
67704 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGCAAAACTCT
* *
67741 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGCAAAACTCT
67778 ATCCTATTTTTAGGAGTTTGAAT
1 ATCCTATTTTTAGGAGTTTGAAT
67801 TCAAGTAGGA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGCAAAACTCT
Found at i:68816 original size:106 final size:106
Alignment explanation
Indices: 68507--69555 Score: 1553
Period size: 106 Copynumber: 10.0 Consensus size: 106
68497 GCATTGTTCC
* * * ** *
68507 GAGTCTAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGCAA-CCGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* * * *
68570 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
68612 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * ** *
68671 TCAGCCGCCCCTTCGTCGTGAAGTTGGGCTTGTGTTGTCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * *
68713 G-GTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
68777 CCAGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
**
68818 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
68883 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
68924 GAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
68988 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
69029 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
69094 CCAGCGGTCTCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
69135 GAGTCCAATATCCTTCGCTGTTAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
69200 CCAGCGGTCCCATCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
69241 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
69306 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
69347 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
69412 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * *
69453 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGGGAACTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
69518 CCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
69556 GTCGAGTGGC
Statistics
Matches: 866, Mismatches: 66, Indels: 23
0.91 0.07 0.02
Matches are distributed among these distances:
100 79 0.09
101 5 0.01
102 5 0.01
104 5 0.01
105 136 0.16
106 636 0.73
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:69293 original size:423 final size:421
Alignment explanation
Indices: 68528--69548 Score: 1615
Period size: 423 Copynumber: 2.4 Consensus size: 421
68518 CCTCCGTCGT
* **
68528 GAAGTTGAAATTGGCTCTGCAA-CCGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGA
1 GAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTGTTGACAACCAG-CGTCCCTTCGTTGTGA
* *
68592 AGTTGAACTTGTGTTGTCTCGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T
64 AGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
* * ** **
68655 GA-AA-T-TTTGTTGACAATCAGCCGCCCCTTCGTCGTGAAGTTGGGCTTGTGTTGTCTTGGGTC
129 GAGAATTGTTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTTGGGTC
68717 CAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGC
194 CAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGC
* ** *
68782 GGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGA
259 GGTCCCATCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCACTGTGAAGTTGA
* *
68847 AATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
324 AATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAAC
68912 TTGCGTTGTCTGGAGTCCAATATCCTTCGCTGC
389 TTGCGTTGTCTGGAGTCCAATATCCTTCGCTGC
68945 GAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGTCGTCCCTTCGTTGTGAA
1 GAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAG-CGTCCCTTCGTTGTGAA
* *
69010 GTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTG
65 GTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG
* *
69075 AGAAGTTGTTTGTTGACAACCAGCGGTCTCTTCGTCGTGAAGTTGAACTTACGTTGTC-TGGAGT
130 AGAA-TTGTTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTTGG-GT
* **
69139 CCAATATCCTTCGCTGTTAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
193 CCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
*
69204 CGGTCCCATCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
258 CGGTCCCATCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCACTGTGAAGTTG
69269 AAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAA
323 AAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAA
*
69334 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGT
388 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGC
* * *
69368 GAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGA
1 GAAGTTGAAATTGGCTCTGAAATTGGGAAATT-GTTGTTGACAACCAGC-GTCCCTTCGTTGTGA
* * **
69433 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATT
64 AGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
*
69498 GGGAACTTGTTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTT
129 GAGAA-TTGTTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTT
69549 GTGTTGTGTC
Statistics
Matches: 555, Mismatches: 39, Indels: 13
0.91 0.06 0.02
Matches are distributed among these distances:
417 107 0.19
418 10 0.02
419 3 0.01
420 2 0.00
422 4 0.01
423 295 0.53
424 134 0.24
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (421 bp):
GAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCGTCCCTTCGTTGTGAAG
TTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA
GAATTGTTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTTGGGTCCA
AGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGG
TCCCATCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCACTGTGAAGTTGAAA
TTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTT
GCGTTGTCTGGAGTCCAATATCCTTCGCTGC
Found at i:71131 original size:16 final size:15
Alignment explanation
Indices: 71132--71197 Score: 64
Period size: 15 Copynumber: 4.3 Consensus size: 15
71122 TTTTTGTTCT
71132 TTCTTTTTTTCTTTTG
1 TTCTTTTTTT-TTTTG
* *
71148 TTTCTCTTTTCTTTTG
1 -TTCTTTTTTTTTTTG
71164 TT-TTTTGTTTTTTT-
1 TTCTTTT-TTTTTTTG
*
71178 TTCTTTTTATTTTTG
1 TTCTTTTTTTTTTTG
71193 TTCTT
1 TTCTT
71198 GATTGGATCT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
14 11 0.27
15 17 0.41
16 5 0.12
17 8 0.20
ACGTcount: A:0.02, C:0.11, G:0.06, T:0.82
Consensus pattern (15 bp):
TTCTTTTTTTTTTTG
Found at i:71159 original size:28 final size:27
Alignment explanation
Indices: 71109--71184 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 27
71099 TTTTTGTCCC
*
71109 TTTTTCTTTTTTAT-TTTTGTTCTTTCT-T
1 TTTTTCTTTTTT-TCTCTT-TTCTTT-TGT
71137 TTTTTCTTTTGTTTCTCTTTTCTTTTGT
1 TTTTTCTTTT-TTTCTCTTTTCTTTTGT
* *
71165 TTTTTGTTTTTTTTTCTTTT
1 TTTTTCTTTTTTTCTCTTTT
71185 TATTTTTGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 10 0.24
28 27 0.64
29 5 0.12
ACGTcount: A:0.01, C:0.11, G:0.05, T:0.83
Consensus pattern (27 bp):
TTTTTCTTTTTTTCTCTTTTCTTTTGT
Found at i:71168 original size:11 final size:11
Alignment explanation
Indices: 71110--71190 Score: 51
Period size: 11 Copynumber: 7.4 Consensus size: 11
71100 TTTTGTCCCT
71110 TTTTCTTTTT-
1 TTTTCTTTTTC
*
71120 TATTT-TTGTTC
1 T-TTTCTTTTTC
*
71131 TTTCTTTTTTTC
1 TTT-TCTTTTTC
* *
71143 TTTTGTTTCTC
1 TTTTCTTTTTC
*
71154 TTTTCTTTTGTT
1 TTTTCTTTT-TC
*
71166 TTTTGTTTTT-
1 TTTTCTTTTTC
*
71176 TTTTCTTTTTA
1 TTTTCTTTTTC
71187 TTTT
1 TTTT
71191 TGTTCTTGAT
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
10 16 0.29
11 23 0.41
12 17 0.30
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:75666 original size:16 final size:16
Alignment explanation
Indices: 75634--75681 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
75624 TGAATAAATG
* *
75634 AAAAAATGAAGAATAA
1 AAAAAATAAATAATAA
*
75650 AAATAAGTAAA-AATAA
1 AAA-AAATAAATAATAA
75666 AAAAAATAAATAATAA
1 AAAAAATAAATAATAA
75682 TGAAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (16 bp):
AAAAAATAAATAATAA
Done.