Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008831.1 Hibiscus syriacus cultivar Beakdansim tig00112022_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: 69496
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3554 original size:14 final size:14
Alignment explanation
Indices: 3534--3570 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
3524 TCTGTCTATA
3534 TGCAGAGATTT-TT
1 TGCAGAGATTTATT
3547 TCGCAGAGATTTATT
1 T-GCAGAGATTTATT
3562 TGCAG-GATT
1 TGCAGAGATT
3571 ATTGCCCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.23
14 14 0.64
15 3 0.14
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (14 bp):
TGCAGAGATTTATT
Found at i:4280 original size:12 final size:12
Alignment explanation
Indices: 4263--4287 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4253 ACATATGTCG
4263 TTGATTTACATT
1 TTGATTTACATT
4275 TTGATTTACATT
1 TTGATTTACATT
4287 T
1 T
4288 AGTCATTAAA
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:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TTGATTTACATT
Found at i:18420 original size:16 final size:15
Alignment explanation
Indices: 18385--18414 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18375 ATTTGTTGAC
18385 TTAAAAACATAAATA
1 TTAAAAACATAAATA
18400 TTAAACAACATAAAT
1 TTAAA-AACATAAAT
18415 TATAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (15 bp):
TTAAAAACATAAATA
Found at i:18927 original size:4 final size:4
Alignment explanation
Indices: 18918--18983 Score: 82
Period size: 4 Copynumber: 17.0 Consensus size: 4
18908 TTCTCATTCC
* * *
18918 ATGT ATGT ATGT ATGT A--T ATAT ATGT ATGT ACGT ATGT ACGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
18964 ACGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT
18984 TAATGTTGGC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.04
4 51 0.96
ACGTcount: A:0.27, C:0.05, G:0.23, T:0.45
Consensus pattern (4 bp):
ATGT
Found at i:19561 original size:2 final size:2
Alignment explanation
Indices: 19554--19578 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19544 ATTAATTCAA
19554 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
19579 ATAATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22837 original size:2 final size:2
Alignment explanation
Indices: 22830--22885 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
22820 TTTTACGGTT
* *
22830 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
22872 TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA
22886 AGGATGGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22845 original size:10 final size:10
Alignment explanation
Indices: 22830--22885 Score: 94
Period size: 10 Copynumber: 5.6 Consensus size: 10
22820 TTTTACGGTT
*
22830 TATATATATA
1 TATATATATG
*
22840 TATATATATA
1 TATATATATG
22850 TATATATATG
1 TATATATATG
22860 TATATATATG
1 TATATATATG
22870 TATATATATG
1 TATATATATG
22880 TATATA
1 TATATA
22886 AGGATGGATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
10 45 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (10 bp):
TATATATATG
Found at i:24653 original size:18 final size:18
Alignment explanation
Indices: 24630--24665 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24620 AATAGTCCTC
24630 TCATATCCATACCCATAT
1 TCATATCCATACCCATAT
24648 TCATATCCATACCCATAT
1 TCATATCCATACCCATAT
24666 GCATTCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (18 bp):
TCATATCCATACCCATAT
Found at i:28730 original size:21 final size:21
Alignment explanation
Indices: 28693--28735 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
28683 CAGCCTCACC
* *
28693 ACAGTTGAAACCTAAATGATT
1 ACAGTTGAAACCAAAATCATT
28714 ACAGTTAGAAA-CAAAATCATT
1 ACAGTT-GAAACCAAAATCATT
28735 A
1 A
28736 ACTCTGAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.26
Consensus pattern (21 bp):
ACAGTTGAAACCAAAATCATT
Found at i:34837 original size:16 final size:16
Alignment explanation
Indices: 34813--34843 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34803 TGATTTTTAG
*
34813 AAATTATTTTACGTAA
1 AAATAATTTTACGTAA
34829 AAATAATTTTACGTA
1 AAATAATTTTACGTA
34844 TAATATATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (16 bp):
AAATAATTTTACGTAA
Found at i:35584 original size:22 final size:22
Alignment explanation
Indices: 35556--35608 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
35546 TTCCATTTCG
35556 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
35578 TGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
35600 CGTTGCGAT
1 CGTTGCGAT
35609 TTTCCAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:35699 original size:41 final size:41
Alignment explanation
Indices: 35654--35793 Score: 239
Period size: 41 Copynumber: 3.5 Consensus size: 41
35644 ATTCGCGTTG
* * *
35654 CATTTCGCATTACGATAGTTGAAAATCGCATTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
35695 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
35736 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
35777 CATTT--CGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
35794 CTACAGTTGT
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
39 12 0.12
41 84 0.88
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:35725 original size:21 final size:21
Alignment explanation
Indices: 35666--35772 Score: 101
Period size: 21 Copynumber: 5.2 Consensus size: 21
35656 TTTCGCATTA
*
35666 CGATAGTTGAAAATCGCATTG
1 CGATAGTTGAAAATCGCGTTG
* ** **
35687 CGAT-TTTCCATTTCGCGTTG
1 CGATAGTTGAAAATCGCGTTG
35707 CGATAGTTGAAAATCGCGTTG
1 CGATAGTTGAAAATCGCGTTG
* ** **
35728 CGAT-TTTCCATTTCGCGTTG
1 CGATAGTTGAAAATCGCGTTG
35748 CGATAGTTGAAAATCGCGTTG
1 CGATAGTTGAAAATCGCGTTG
35769 CGAT
1 CGAT
35773 TTTCCATTTC
Statistics
Matches: 63, Mismatches: 21, Indels: 4
0.72 0.24 0.05
Matches are distributed among these distances:
20 29 0.46
21 34 0.54
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (21 bp):
CGATAGTTGAAAATCGCGTTG
Found at i:35808 original size:22 final size:22
Alignment explanation
Indices: 35781--35834 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
35771 ATTTTCCATT
35781 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
*
35803 TTGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
35825 TCGTTGCGAT
1 TCGTTGCGAT
35835 TTTCCAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.39
Consensus pattern (22 bp):
TCGTTGCGATAGTCTACAGTTG
Found at i:35961 original size:6 final size:6
Alignment explanation
Indices: 35950--36009 Score: 120
Period size: 6 Copynumber: 10.0 Consensus size: 6
35940 ACGTATTACT
35950 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
35998 ACGACC ACGACC
1 ACGACC ACGACC
36010 CGAGACGAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:36506 original size:5 final size:5
Alignment explanation
Indices: 36491--36521 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
36481 CCGCCGCCGC
36491 CGTCT -GTCT CGTCT CGTCT CGTCT CGTCT CG
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CG
36522 GGTCGTGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.00, C:0.39, G:0.23, T:0.39
Consensus pattern (5 bp):
CGTCT
Found at i:36640 original size:21 final size:21
Alignment explanation
Indices: 36614--36685 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
36604 AAACGAATTT
36614 TCGCAACGAATTTGTAAACTA
1 TCGCAACGAATTTGTAAACTA
* ** *
36635 TCGCAACAACAACTGTAGACTA
1 TCGCAACGA-ATTTGTAAACTA
* *
36657 TCGCAACGCGATTT-TCAACTA
1 TCGCAACG-AATTTGTAAACTA
36678 TCGCAACG
1 TCGCAACG
36686 CGAAATGGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
21 21 0.54
22 18 0.46
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (21 bp):
TCGCAACGAATTTGTAAACTA
Found at i:36686 original size:21 final size:21
Alignment explanation
Indices: 36653--36729 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
36643 ACAACTGTAG
36653 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
** **
36674 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGATTTTCA
*
36695 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
36715 ACTATCGCAACGCGA
1 ACTATCGCAACGCGA
36730 AATGGAAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (21 bp):
ACTATCGCAACGCGATTTTCA
Found at i:36702 original size:20 final size:20
Alignment explanation
Indices: 36677--36753 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
36667 ATTTTCAACT
36677 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
36697 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
36718 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
36738 ATCGCAATGCGAAATG
1 ATCGCAACGCGAAATG
36754 CAATTCGAAT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:36708 original size:41 final size:41
Alignment explanation
Indices: 36656--36749 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
36646 ACTGTAGACT
36656 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
36697 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
*
36738 ATCGCAATGCGA
1 ATCGCAACGCGA
36750 AATGCAATTC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
Found at i:37187 original size:13 final size:12
Alignment explanation
Indices: 37161--37194 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
37151 TCATGCATAT
*
37161 AAAATTTTTAA-
1 AAAATATTTAAG
37172 AAAATATTTAAG
1 AAAATATTTAAG
37184 AAAATATTTAA
1 AAAATATTTAA
37195 TATTATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (12 bp):
AAAATATTTAAG
Found at i:43435 original size:76 final size:76
Alignment explanation
Indices: 43234--43437 Score: 279
Period size: 75 Copynumber: 2.7 Consensus size: 76
43224 CGTTGTACAA
* * * *
43234 GGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGC-ATACTGGAATTCTCGGAAC
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAAT-CTGGAAATCTCGGAAC
** *
43297 AAAACTGTTTAG
65 AAAACCATTCAG
* * *
43309 GGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCC
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGAACA
43373 AAACCATTCAG
66 AAACCATTCAG
*
43384 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCAATCTGGAA
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAA
43438 TTTTTGTCTT
Statistics
Matches: 114, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
75 82 0.72
76 32 0.28
ACGTcount: A:0.21, C:0.25, G:0.32, T:0.23
Consensus pattern (76 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGAACA
AAACCATTCAG
Found at i:44049 original size:17 final size:17
Alignment explanation
Indices: 44027--44070 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
44017 ATTAAAAATC
44027 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
44044 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
44061 -AAATATCCAA
1 CAAA-ATCCAA
44071 AAGTTGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:44062 original size:9 final size:8
Alignment explanation
Indices: 44020--44072 Score: 56
Period size: 9 Copynumber: 6.5 Consensus size: 8
44010 TCACACTATT
44020 AAAAATCC
1 AAAAATCC
44028 -AAAATCC
1 AAAAATCC
*
44035 AACAATCC
1 AAAAATCC
44043 ACAAAAT-C
1 A-AAAATCC
44051 AAACAATCC
1 AAA-AATCC
44060 AAAATATCC
1 AAAA-ATCC
44069 AAAA
1 AAAA
44073 GTTGAAACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 9 0.24
8 13 0.34
9 16 0.42
ACGTcount: A:0.60, C:0.26, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAATCC
Found at i:46027 original size:22 final size:21
Alignment explanation
Indices: 45993--46053 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
45983 AACAGAACCC
*
45993 CAGGGGGGTATCGATTCCCCT
1 CAGGGGGGGATCGATTCCCCT
** *
46014 GTGGGGGGGAATCGGTT-CCCT
1 CAGGGGGGG-ATCGATTCCCCT
46035 CAGGGGGGGATCGATTCCC
1 CAGGGGGGGATCGATTCCC
46054 TCTGCACCAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 6 0.19
21 19 0.61
22 6 0.19
ACGTcount: A:0.13, C:0.25, G:0.41, T:0.21
Consensus pattern (21 bp):
CAGGGGGGGATCGATTCCCCT
Found at i:46042 original size:20 final size:20
Alignment explanation
Indices: 45993--46055 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
45983 AACAGAACCC
*
45993 CAGGGGGGTATCGATTCCCCT
1 CAGGGGGGAATCGATT-CCCT
** *
46014 GTGGGGGGGAATCGGTTCCCT
1 -CAGGGGGGAATCGATTCCCT
*
46035 CAGGGGGGGATCGATTCCCT
1 CAGGGGGGAATCGATTCCCT
46055 C
1 C
46056 TGCACCAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
20 17 0.52
21 4 0.12
22 12 0.36
ACGTcount: A:0.13, C:0.25, G:0.40, T:0.22
Consensus pattern (20 bp):
CAGGGGGGAATCGATTCCCT
Found at i:51890 original size:73 final size:76
Alignment explanation
Indices: 51811--52004 Score: 256
Period size: 73 Copynumber: 2.6 Consensus size: 76
51801 CCGTTGTACA
* * *
51811 AGGGGGGAATCGGTACC-CCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAA
** *
51874 CAAAACTGTTT
66 CAAAACCATTC
* *
51885 A-GGGGGAATCGGTTCCTCCTAT-GGGGGAATC-GTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAA
*
51947 CCAAACCATTC
66 CAAAACCATTC
*
51958 AGGGGGGAATC-GTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCA
52005 ATCTGAATTT
Statistics
Matches: 105, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
73 61 0.58
74 30 0.29
75 14 0.13
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAA
CAAAACCATTC
Found at i:57734 original size:75 final size:75
Alignment explanation
Indices: 57576--57748 Score: 217
Period size: 75 Copynumber: 2.3 Consensus size: 75
57566 ATTAACAAGA
** * * *
57576 AGCAAATGTTGGGGCATACTAAAAGCCCCTCTTAATCAGAATCATGAATGTTGATGTATTTTGAA
1 AGCAAATGTTGGGGCATGTTGAAAGCCCCTCTTAATCAGAATCAAGAATGTTGACGTATTTTGAA
57641 CATCTATATC
66 CATCTATATC
*
57651 AGCAAATGTTGGGGCATGTTGAAAGCCCCT-TTCAATCAGAATGAAGAATGTTGACGTATTTTG-
1 AGCAAATGTTGGGGCATGTTGAAAGCCCCTCTT-AATCAGAATCAAGAATGTTGACGTATTTTGA
* *
57714 A-ATGCTTGTATT
65 ACAT-C-TATATC
*
57726 AGCCAATGTTGGGGCATGTTGAA
1 AGCAAATGTTGGGGCATGTTGAA
57749 GGCCTATATC
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
73 2 0.02
74 4 0.05
75 80 0.93
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (75 bp):
AGCAAATGTTGGGGCATGTTGAAAGCCCCTCTTAATCAGAATCAAGAATGTTGACGTATTTTGAA
CATCTATATC
Found at i:59118 original size:22 final size:22
Alignment explanation
Indices: 59093--59166 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 22
59083 TATACTTTTT
* * *
59093 AAAGACGATAGACTCTTTCTTC
1 AAAGATGATAGACTATCTCTTC
* *
59115 AAAGATGATAGCCTATCTCTTT
1 AAAGATGATAGACTATCTCTTC
* *
59137 AAAGATGATAGATTATCTTTTC
1 AAAGATGATAGACTATCTCTTC
59159 AAAGATGA
1 AAAGATGA
59167 AAGCTTTATG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (22 bp):
AAAGATGATAGACTATCTCTTC
Found at i:60027 original size:46 final size:46
Alignment explanation
Indices: 59832--60432 Score: 917
Period size: 46 Copynumber: 13.0 Consensus size: 46
59822 CTATTTCTCA
*
59832 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTTGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGT
59880 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGT
*
59928 CATCTGTAAGTCCTTCAGTACATGATGTTTTC-AAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
*
59973 CATTTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
*
60019 CATCTGTAATTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGT
60067 CAT-TGTAAGTCCTTCAGTGCATGATGTTTT-AAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
* *
60111 CATCTTTAAGTCCTTCAGTGCATGATGTTTTTAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
60157 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
60203 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC--AAAAACCTTCGGGT
* * * *
60251 CATCTGTAAGTCCTTTAGTGCATTATG-TTTCAAAAGCCTTCGGTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
*
60296 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAAACCTTCGGGT
*
60343 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
* * * * *
60387 CATCCGTAAGCCCTGCAGTGCAGGATGTTTTGAAAAAGCCTTCGGG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAA-CCTTCGGG
60433 GAGCTTTTTG
Statistics
Matches: 518, Mismatches: 23, Indels: 25
0.92 0.04 0.04
Matches are distributed among these distances:
44 57 0.11
45 105 0.20
46 140 0.27
47 82 0.16
48 134 0.26
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (46 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
Found at i:60193 original size:184 final size:184
Alignment explanation
Indices: 59832--60542 Score: 1001
Period size: 184 Copynumber: 3.9 Consensus size: 184
59822 CTATTTCTCA
*
59832 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTTGGGTCATCTGTAAGTCCTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCA
* * *
59897 GTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTACATGATGTTTTCAA
66 GTGCATGATGTTTT---AAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTAAA
* *
59962 AACCTTCGGGTCATTTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
128 AACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
*
60019 CATCTGTAATTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCAT-TGTAAGTCCTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCA
* *
60083 GTGCATGATGTTTTAAAAACCTTCGGGTCATCTTTAAGTCCTTCAGTGCATGATGTTTTTAAAAA
66 GTGCATGATGTTTTAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG-TTTTAAAAA
*
60148 CCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
130 CCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
*
60203 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTTA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCA
* * * *
60268 GTGCATTATGTTTCAAAAGCCTTCGGTTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAA
66 GTGCATGATGTTTTAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTT--AAAA
60333 ACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAACCTTCGGGT
129 ACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
* * * * * *
60387 CATCCGTAAGCCCTGCAGTGCAGGATGTTTT-GAAAAAGCCTTCGGG------G--AG--CTT--
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCA
* * * * *
60439 -T--TTGATATTATCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAC
66 GTGCATGATGTTTTAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTAAAAAC
60501 CTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
131 CTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAA
60543 CATTTCCATC
Statistics
Matches: 488, Mismatches: 30, Indels: 31
0.89 0.05 0.06
Matches are distributed among these distances:
166 45 0.09
168 47 0.10
170 1 0.00
173 3 0.01
175 2 0.00
177 1 0.00
183 52 0.11
184 155 0.32
185 61 0.12
186 72 0.15
187 49 0.10
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (184 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAAACCTTCGGGTCATCTGTAAGTCCTTCA
GTGCATGATGTTTTAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTAAAAAC
CTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
Found at i:60500 original size:45 final size:45
Alignment explanation
Indices: 60449--60542 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
60439 TTTGATATTA
60449 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
1 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
60494 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
1 TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
60539 TCAA
1 TCAA
60543 CATTTCCATC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (45 bp):
TCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
Found at i:62305 original size:17 final size:19
Alignment explanation
Indices: 62269--62305 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
62259 CATGAAATAC
62269 AATATTATAATTTTATAAT
1 AATATTATAATTTTATAAT
*
62288 AATATT-TATTTTTA-AAT
1 AATATTATAATTTTATAAT
62305 A
1 A
62306 TCAAAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATATTATAATTTTATAAT
Found at i:63889 original size:24 final size:24
Alignment explanation
Indices: 63839--63889 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
63829 ACTATTGTAA
63839 ATTAGAAGATAATTTTAATTTGAAT
1 ATTAGAAGATAA-TTTAATTTGAAT
*
63864 ATTAGTAAGATAA-TTACTTTGAAT
1 ATTAG-AAGATAATTTAATTTGAAT
63888 AT
1 AT
63890 GTCAATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 12 0.50
25 5 0.21
26 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (24 bp):
ATTAGAAGATAATTTAATTTGAAT
Found at i:64983 original size:2 final size:2
Alignment explanation
Indices: 64976--65015 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
64966 TAAAAGGTAC
64976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65016 AACCAAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:67994 original size:3 final size:3
Alignment explanation
Indices: 67986--68097 Score: 124
Period size: 3 Copynumber: 38.0 Consensus size: 3
67976 ATATTTATTA
* *
67986 AAT AAT AAT AAT TAT AAT ATT ATAT AAT AAT AAT AAT AAT -AT AA-
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* * *
68030 AAT AAT AAT AAT TAT AAT AAT AAT AAT ACT AAT ACT AAT -AT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
*
68078 AAT AAT -TT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
68098 TTTAAATGAA
Statistics
Matches: 91, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
2 7 0.08
3 79 0.87
4 5 0.05
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:68004 original size:12 final size:12
Alignment explanation
Indices: 67987--68094 Score: 91
Period size: 11 Copynumber: 8.9 Consensus size: 12
67977 TATTTATTAA
67987 ATAATAATAATT
1 ATAATAATAATT
*
67999 ATAAT-ATTA-T
1 ATAATAATAATT
*
68009 ATAATAATAATA
1 ATAATAATAATT
*
68021 ATAAT-ATAA-A
1 ATAATAATAATT
68031 ATAATAATAATT
1 ATAATAATAATT
68043 ATAATAATAATAAT
1 ATAATAATAAT--T
*
68057 ACTAATACTAATAT
1 A-TAATAATAAT-T
68071 AATAAATAATAATT
1 -AT-AATAATAATT
68085 -TAATAATAAT
1 ATAATAATAAT
68095 AATTTTAAAT
Statistics
Matches: 81, Mismatches: 6, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
10 12 0.15
11 23 0.28
12 22 0.27
14 6 0.07
15 18 0.22
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAATAATAATT
Found at i:68571 original size:76 final size:76
Alignment explanation
Indices: 68226--69069 Score: 1398
Period size: 76 Copynumber: 11.4 Consensus size: 76
68216 TGGAAACGTT
68226 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
68291 AAGGCTTTTTG
66 AAGGCTTTTTG
*
68302 GAAACATCATGCACTGAA-GACTTAC--A-GA-CCGAAAGGCTTTG-AAACATCAAAAAGCTCCC
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCG-AAGGTTTTGAAAACATCAAAAAGCTCCC
*
68361 GACGGC-TTTTG
65 GAAGGCTTTTTG
68372 G-AACATCATGCACT---GG-CTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
*
68432 AAAGC-TTTTG
66 AAGGCTTTTTG
68442 G-AA-ATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
68505 AAGGCTTTTTG
66 AAGGCTTTTTG
68516 GAAACATCATGCACTGAAGGACTTACAGATGACCCG-AGGTTTTTGAAAACATCAAAAAGCTCCC
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTTGAAAACATCAAAAAGCTCCC
68580 GAAGGCTTTTTG
65 GAAGGCTTTTTG
*
68592 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATC-AAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
68655 -AGGC-TTTTG
66 AAGGCTTTTTG
68664 GAAACATCAT-CACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
68728 AAGGCTTTTTG
66 AAGGCTTTTTG
*
68739 GAAACATCATGCATTGAAGGACTTACA-ATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
68803 AAGGCTTTTTG
66 AAGGCTTTTTG
* *
68814 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAAACCTCAAAAAGCTCCC
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG-AAAACATCAAAAAGCTCCC
68879 GAAGGCTTTTTG
65 GAAGGCTTTTTG
68891 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG-AAA-ATC-AAAAGCT-CCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
68952 AAGGCTTTTTG
66 AAGGCTTTTTG
* *
68963 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACCTCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
69028 AAGGCTTTTTG
66 AAGGCTTTTTG
69039 GAAACATCATGCACTGAAGGACTTACAGATG
1 GAAACATCATGCACTGAAGGACTTACAGATG
69070 TGAGAAATAG
Statistics
Matches: 725, Mismatches: 16, Indels: 54
0.91 0.02 0.07
Matches are distributed among these distances:
66 5 0.01
67 1 0.00
68 1 0.00
69 33 0.05
70 39 0.05
71 59 0.08
72 92 0.13
73 74 0.10
74 25 0.03
75 118 0.16
76 201 0.28
77 77 0.11
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (76 bp):
GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
AAGGCTTTTTG
Found at i:68938 original size:299 final size:300
Alignment explanation
Indices: 68226--69069 Score: 1436
Period size: 299 Copynumber: 2.9 Consensus size: 300
68216 TGGAAACGTT
68226 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
68291 AAGGCTTTTTGGAAACATCATGCACTGAA-GACTTAC--A-GA-CCGAAAGGCTTTGAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG-AAGGCTTTGAAACATC-
68351 AAAAGCTCCCGACGGCTTTTGG-AACATCATGCACT---GG-CTTACAGATGACCCGAAGGTTTT
129 AAAAGCTCCCGA-GGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTT
*
68411 GAAAACATCAAAAAGCTCCCGAAAGC-TTTTGG-AA-ATCATGCACTGAAGGACTTACAGATGAC
193 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
68473 CCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
258 CCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
68516 GAAACATCATGCACTGAAGGACTTACAGATGACCCG-AGGTTTTTGAAAACATCAAAAAGCTCCC
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTTGAAAACATCAAAAAGCTCCC
68580 GAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACATCA
65 GAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACATCA
68645 AAAGCTCCCGAGGCTTTTGGAAACATCAT-CACTGAAGGACTTACAGATGACCCGAAGGTTTTGA
130 AAAGCTCCCGAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGA
*
68709 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCATTGAAGGACTTACA-ATGACCC
195 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
68773 GAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
260 GAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
* *
68814 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAAACCTCAAAAAGCTCCC
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG-AAAACATCAAAAAGCTCCC
*
68879 GAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAA-ATCA
65 GAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACATCA
*
68943 AAAGCT-CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTT
130 AAAGCTCCCG-AGGC-TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTT
*
69007 GAAAACCTCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
193 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
69070 TGAGAAATAG
Statistics
Matches: 526, Mismatches: 8, Indels: 29
0.93 0.01 0.05
Matches are distributed among these distances:
289 3 0.01
290 90 0.17
291 7 0.01
292 13 0.02
293 21 0.04
294 18 0.03
295 5 0.01
296 48 0.09
297 9 0.02
298 104 0.20
299 116 0.22
300 89 0.17
301 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (300 bp):
GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACATCAA
AAGCTCCCGAGGCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAA
AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG
AAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
Found at i:69061 original size:447 final size:438
Alignment explanation
Indices: 68226--69069 Score: 1423
Period size: 447 Copynumber: 1.9 Consensus size: 438
68216 TGGAAACGTT
68226 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
68291 AAGGCTTTTTGGAAACATCATGCACTGAAGACTTACAGACCGAAAGGCTTTGAAACATCAAAAAG
66 AAGGCTTTTTGGAAACATCATGCACTGAAGACTTACAGACCGAAAGGCTTTGAAACATCAAAAAG
* *
68356 CTCCCGACGGCTTTTGGAACATCATGCACTGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
131 CTCCCGAAGGCTTTTGGAACATCATGCACTGGCTTACAGATGACCCGAAGGATTTGAAAACATCA
68421 AAAAGCTCCCGAAAGCTTTTGGAAATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGA
196 AAAAGCTCCCGAAAGCTTTTGGAAATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGA
68486 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
261 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
*
68551 GAGGTTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
326 GAGGTATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
68616 ACAGATGACCCGAAGGCTTTGAAACATCAAAAGCTCCCGAGGCTTTTG
391 ACAGATGACCCGAAGGCTTTGAAACATCAAAAGCTCCCGAGGCTTTTG
68664 GAAACATCAT-CACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
* *
68728 AAGGCTTTTTGGAAACATCATGCATTGAAGGACTTACAATGACCCG-AAGGTTTTGAAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAA-GACTTAC-A-GA-CCGAAAGGCTTTG-AAACATCA
68792 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATT
126 AAAAGCTCCCGAAGGC-TTTTGG-AACATCATGCACT---GG-CTTACAGATGACCCGAAGGATT
* *
68857 TGAAAAACCTCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
185 TG-AAAACATCAAAAAGCTCCCGAAAGC-TTTTGG-AA-ATCATGCACTGAAGGACTTACAGATG
68922 ACCCGAAGGTTTTG-AAA-ATC-AAAAGCT-CCGAAGGCTTTTTGGAAACATCATGCACTGAAGG
246 ACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGG
*
68983 ACTTACAGATGACCCGAAGG-ATTTGAAAACCTCAAAAAGCTCCCGAAGGCTTTTTGGAAACATC
311 ACTTACAGATGACCCG-AGGTATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATC
69047 ATGCACTGAAGGACTTACAGATG
375 ATGCACTGAAGGACTTACAGATG
69070 TGAGAAATAG
Statistics
Matches: 382, Mismatches: 8, Indels: 23
0.92 0.02 0.06
Matches are distributed among these distances:
437 82 0.21
438 17 0.04
439 1 0.00
440 10 0.03
441 26 0.07
442 6 0.02
443 13 0.03
446 2 0.01
447 138 0.36
448 33 0.09
449 9 0.02
450 5 0.01
451 40 0.10
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (438 bp):
GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
AAGGCTTTTTGGAAACATCATGCACTGAAGACTTACAGACCGAAAGGCTTTGAAACATCAAAAAG
CTCCCGAAGGCTTTTGGAACATCATGCACTGGCTTACAGATGACCCGAAGGATTTGAAAACATCA
AAAAGCTCCCGAAAGCTTTTGGAAATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGA
AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCC
GAGGTATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT
ACAGATGACCCGAAGGCTTTGAAACATCAAAAGCTCCCGAGGCTTTTG
Done.