Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003219.1 Hibiscus syriacus cultivar Beakdansim tig00006780_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: 51539
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:1933 original size:20 final size:20
Alignment explanation
Indices: 1910--2181 Score: 191
Period size: 20 Copynumber: 13.7 Consensus size: 20
1900 CGATTTCCAG
* *
1910 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* **
1930 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATACGTA
* *
1950 AATCGCAACACG-ATTC-TGA
1 AATCGCAACGCGAATACGT-A
* * * *
1969 CTATCGCAACGAGTATCCGTAA
1 -AATCGCAACGCGAATACGT-A
* * *
1991 AATCGCATCGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
2011 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
* *
2032 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
**
2052 AATCGCAACAAGAATACGTA
1 AATCGCAACGCGAATACGTA
* *
2072 AATTGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
*
2092 AATCGCAA-GAGAATACGTA
1 AATCGCAACGCGAATACGTA
* * *
2111 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
2131 AATCGCAACGAC-AATACGTA
1 AATCGCAACG-CGAATACGTA
* *
2151 AATCGCAA--CGTATCCGTA
1 AATCGCAACGCGAATACGTA
2169 AATCGCAACGCGA
1 AATCGCAACGCGA
2182 TTTTTAAAGC
Statistics
Matches: 198, Mismatches: 40, Indels: 28
0.74 0.15 0.11
Matches are distributed among these distances:
17 1 0.01
18 15 0.08
19 18 0.09
20 125 0.63
21 37 0.19
22 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:2016 original size:41 final size:40
Alignment explanation
Indices: 1971--2178 Score: 296
Period size: 41 Copynumber: 5.2 Consensus size: 40
1961 GATTCTGACT
* * *
1971 ATCGCAACGAGTATCCGTAAAATCGCATCGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
*
2012 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
* * *
2053 ATCGCAACAAGAATACGTAAATTGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
*
2093 ATCGCAA-GAGAATACGTAAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
*
2132 ATCGCAACGACAATACGTAAATCGCAA--CGTATCCGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
2170 ATCGCAACG
1 ATCGCAACG
2179 CGATTTTTAA
Statistics
Matches: 153, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
38 20 0.13
39 35 0.23
40 45 0.29
41 53 0.35
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (40 bp):
ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
Found at i:2129 original size:79 final size:81
Alignment explanation
Indices: 1971--2178 Score: 298
Period size: 79 Copynumber: 2.6 Consensus size: 81
1961 GATTCTGACT
* * *
1971 ATCGCAACGAGTATCCGTAAAATCGCATCGCGTATCCGTAAATCGCAACGACAATACGTAAAATC
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATC
2036 GCAACGCGTATCCGTAA
65 GCAACGCGTATCCGTAA
* * * *
2053 ATCGCAACAAGAATACGTAAATTGCAACGCGTATCTGTAAATCGCAA-GAGAATACGT-AAATCG
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATCG
*
2116 CAATGCGTATCCGTAA
66 CAACGCGTATCCGTAA
*
2132 ATCGCAACGACAATACGTAAATCGCAA--CGTATCCGTAAATCGCAACG
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAAATCGCAACG
2179 CGATTTTTAA
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
77 17 0.15
78 1 0.01
79 45 0.40
80 9 0.08
81 26 0.23
82 15 0.13
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (81 bp):
ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATCG
CAACGCGTATCCGTAA
Found at i:2771 original size:20 final size:20
Alignment explanation
Indices: 2732--2809 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
2722 TTCTAAACTT
*
2732 AAAATCGCAAC-ATGAAAATG
1 AAAATCGCAACGA-GAGAATG
*
2752 AAAATTGCAACGAGAGAATG
1 AAAATCGCAACGAGAGAATG
** * *
2772 ACTATCGTAACGCGA-AATG
1 AAAATCGCAACGAGAGAATG
*
2791 AAAATGGCAACGAGAGAAT
1 AAAATCGCAACGAGAGAAT
2810 CACAACGCGA
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 14 0.32
20 29 0.66
21 1 0.02
ACGTcount: A:0.49, C:0.14, G:0.22, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGAGAGAATG
Found at i:2822 original size:33 final size:33
Alignment explanation
Indices: 2747--2863 Score: 108
Period size: 33 Copynumber: 3.4 Consensus size: 33
2737 CGCAACATGA
*
2747 AAATGAAAATTGCAACGAGAGAATGACTATCGTAACGCG
1 AAATGAAAATCGCAACGAGAGAAT--C-A-C--AACGCG
*
2786 AAATGAAAATGGCAACGAGAGAATCACAACGCG
1 AAATGAAAATCGCAACGAGAGAATCACAACGCG
* * * *
2819 AAATTAAAATCGTAACGAGATAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCACAACGCG
**
2852 AAACCAAAATCG
1 AAATGAAAATCG
2864 TATTGTGATT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
33 44 0.63
35 1 0.01
36 1 0.01
37 1 0.01
39 23 0.33
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCACAACGCG
Found at i:2864 original size:33 final size:33
Alignment explanation
Indices: 2775--2865 Score: 110
Period size: 33 Copynumber: 2.8 Consensus size: 33
2765 GAGAATGACT
* * * *
2775 ATCGTAACGCGAAATGAAAATGGCAACGAGAGA
1 ATCGCAACGCGAAATCAAAATCGTAACGAGAGA
* * *
2808 ATCACAACGCGAAATTAAAATCGTAACGAGATA
1 ATCGCAACGCGAAATCAAAATCGTAACGAGAGA
*
2841 ATCGCAACGCGAAACCAAAATCGTA
1 ATCGCAACGCGAAATCAAAATCGTA
2866 TTGTGATTCT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (33 bp):
ATCGCAACGCGAAATCAAAATCGTAACGAGAGA
Found at i:2902 original size:19 final size:19
Alignment explanation
Indices: 2878--2967 Score: 91
Period size: 19 Copynumber: 4.9 Consensus size: 19
2868 GTGATTCTCT
*
2878 CGTTGCGATTTTAATTTCG
1 CGTTGCGATTTTCATTTCG
*
2897 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
2911 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
** *
2930 CGTTGCGATAGTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
2950 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
2968 AACCAAAAGA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
14 10 0.18
16 3 0.05
17 2 0.04
19 26 0.46
20 16 0.28
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:2958 original size:39 final size:33
Alignment explanation
Indices: 2870--2967 Score: 133
Period size: 33 Copynumber: 2.8 Consensus size: 33
2860 ATCGTATTGT
*
2870 GATTCTCTCGTTGCGATTTTAATTTCGCGTTGC
1 GATTCTCTCGTTGCGATTTTCATTTCGCGTTGC
2903 GATTCTCTCGTTGCGATTTTCATTTCGCGTTGC
1 GATTCTCTCGTTGCGATTTTCATTTCGCGTTGC
2936 GATAGTCATTCTCTCGTTGCGATTTTCATTTC
1 ----G--ATTCTCTCGTTGCGATTTTCATTTC
2968 AACCAAAAGA
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
33 32 0.55
37 1 0.02
39 25 0.43
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.46
Consensus pattern (33 bp):
GATTCTCTCGTTGCGATTTTCATTTCGCGTTGC
Found at i:2964 original size:20 final size:20
Alignment explanation
Indices: 2904--2965 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
2894 TCGCGTTGCG
2904 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
* **
2924 ATT-TCGCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATTTTC
2943 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
2963 ATT
1 ATT
2966 TCAACCAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 16 0.46
20 19 0.54
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:4846 original size:93 final size:92
Alignment explanation
Indices: 4593--4853 Score: 404
Period size: 90 Copynumber: 2.9 Consensus size: 92
4583 TAGATTGCTT
* * *
4593 AGTAAATTTATTTGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTA-TCTTTAACACTGTGAAGTTAGT
*
4658 ATTTCT-TTTG-TTTGTCTTTTGGTTGA
65 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
*
4684 AGT-AATTTATTCGGTTGCTGCCAATTCTGCTAAA-TGTGTATTTTTAACACTGTGAAGTTAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATCTTTAACACTGTGAAGTTAGTA
4747 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * *
4775 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATCTTTAATACTCTGAAGTTAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATCTTTAACACTGTGAAGTTAGTA
4840 TTTGTCTTTGTTTT
66 TTTGTCTTTGTTTT
4854 CACTGTTTAA
Statistics
Matches: 156, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
88 26 0.17
89 9 0.06
90 44 0.28
91 7 0.04
92 30 0.19
93 40 0.26
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.48
Consensus pattern (92 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATCTTTAACACTGTGAAGTTAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:6523 original size:13 final size:14
Alignment explanation
Indices: 6498--6532 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
6488 ATTGTTTAAT
6498 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
6512 TGATTTGT-AAAGT
1 TGATTTGTAAAAGA
6525 TGATTTGT
1 TGATTTGT
6533 TTAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:6700 original size:19 final size:19
Alignment explanation
Indices: 6638--6717 Score: 57
Period size: 19 Copynumber: 4.5 Consensus size: 19
6628 AAAAATGACT
*
6638 ATCGCAATGCGAAATG-AA
1 ATCGCAACGCGAAATGAAA
*
6656 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
* *
6670 ATCGTAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
6689 ATCGCAACGCGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
*
6708 ATCACAACGC
1 ATCGCAACGC
6718 AAAACTAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
13 1 0.02
14 8 0.16
16 4 0.08
18 8 0.16
19 27 0.55
20 1 0.02
ACGTcount: A:0.45, C:0.21, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:6722 original size:19 final size:19
Alignment explanation
Indices: 6686--6726 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
6676 ATGCGAAATG
* *
6686 AAAATCGCAACGCGAAACT
1 AAAATCACAACGCAAAACT
6705 AAAATCACAACGCAAAACT
1 AAAATCACAACGCAAAACT
6724 AAA
1 AAA
6727 TTCGCGTTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.24, G:0.10, T:0.10
Consensus pattern (19 bp):
AAAATCACAACGCAAAACT
Found at i:6776 original size:33 final size:33
Alignment explanation
Indices: 6731--6877 Score: 159
Period size: 33 Copynumber: 4.3 Consensus size: 33
6721 ACTAAATTCG
* *
6731 CGTTGCGGTTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
6764 CGTTGCGATTTTCATTTCGCATTGCGATAGTCTTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC---CCT
* * ** *
6802 CGTTGCGATATTCATATTCGCGTTGCGATTTTCA
1 CGTTGCGATTTTCAT-TTCGCATTGCGATTCCCT
*
6836 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
6869 CGTTGCGAT
1 CGTTGCGAT
6878 AGTAATTTCC
Statistics
Matches: 96, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
33 50 0.52
34 15 0.16
35 2 0.02
37 1 0.01
38 16 0.17
39 12 0.12
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:6790 original size:19 final size:19
Alignment explanation
Indices: 6766--6864 Score: 93
Period size: 19 Copynumber: 5.4 Consensus size: 19
6756 GATTCCCTCG
6766 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
** *
6785 TTGCGATAGTC-TTTCCGCG
1 TTGCGATTTTCATTT-CGCA
* *
6804 TTGCGATATTCATATTCGCG
1 TTGCGATTTTCAT-TTCGCA
6824 TTGCGATTTTCA---CG--
1 TTGCGATTTTCATTTCGCA
6838 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
6857 TTGCGATT
1 TTGCGATT
6865 CTCTCGTTGC
Statistics
Matches: 67, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
14 12 0.18
16 2 0.03
17 2 0.03
18 3 0.04
19 30 0.45
20 16 0.24
21 2 0.03
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:6841 original size:14 final size:14
Alignment explanation
Indices: 6822--6849 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6812 TTCATATTCG
6822 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
6836 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
6850 TTTCGCATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTTTCA
Found at i:6845 original size:72 final size:71
Alignment explanation
Indices: 6729--6863 Score: 207
Period size: 72 Copynumber: 1.9 Consensus size: 71
6719 AAACTAAATT
* * * *
6729 CGCGTTGCGGTTTTCATTTCGCTTTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATAG
1 CGCGTTGCGATATTCATTTCGCGTTGCGATTCCCACGTTGCGATTTTCATTTCGCATTGCGATAG
6794 TCTTTC
66 TCTTTC
**
6800 CGCGTTGCGATATTCATATTCGCGTTGCGATTTTCACGTTGCGATTTTCATTTCGCATTGCGAT
1 CGCGTTGCGATATTCAT-TTCGCGTTGCGATTCCCACGTTGCGATTTTCATTTCGCATTGCGAT
6864 TCTCTCGTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
71 15 0.26
72 42 0.74
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.42
Consensus pattern (71 bp):
CGCGTTGCGATATTCATTTCGCGTTGCGATTCCCACGTTGCGATTTTCATTTCGCATTGCGATAG
TCTTTC
Found at i:6943 original size:20 final size:20
Alignment explanation
Indices: 6870--6943 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 20
6860 CGATTCTCTC
* **
6870 GTTGCGATAGTAATTTCCAC
1 GTTGCGATAGTCATTTCCGT
* **
6890 GTTGCGATAGACA-TTAAGAT
1 GTTGCGATAGTCATTTCCG-T
6910 GATTGCGA-ACGTCATTTCCGT
1 G-TTGCGATA-GTCATTTCCGT
6931 GTTGCGATAGTCA
1 GTTGCGATAGTCA
6944 AATGAATGCC
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
19 2 0.05
20 23 0.57
21 12 0.30
22 3 0.08
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGT
Found at i:9423 original size:23 final size:23
Alignment explanation
Indices: 9392--9436 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
9382 ATAATCAAAA
9392 TCCGAGTATTGACCAAGATCAAG
1 TCCGAGTATTGACCAAGATCAAG
*
9415 TCCGGGTATTGACCAAGATCAA
1 TCCGAGTATTGACCAAGATCAA
9437 ATTTTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (23 bp):
TCCGAGTATTGACCAAGATCAAG
Found at i:10294 original size:20 final size:20
Alignment explanation
Indices: 10271--10500 Score: 241
Period size: 20 Copynumber: 11.4 Consensus size: 20
10261 CAGAATCTCG
*
10271 TTGCAATTTACAG-ATTCGCA
1 TTGCGATTTAC-GTATTCGCA
*
10291 TTGCGATTTACGTATTTGCA
1 TTGCGATTTACGTATTCGCA
*
10311 TTGTGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
10331 TTGCAATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
10351 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* *
10371 TTGCGATTTACGTATTCTCG
1 TTGCGATTTACGTATTCGCA
* *
10391 TTGCGATTTACAG-ATACGCG
1 TTGCGATTTAC-GTATTCGCA
* *
10411 TTGCGATTTACGTATTCTCG
1 TTGCGATTTACGTATTCGCA
* * *
10431 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGTATTCGCA
* *
10451 TTACGATTTTACGTATT-GTCG
1 TTGCGA-TTTACGTATTCG-CA
* * *
10472 TTGCGATTTACGAATACGCG
1 TTGCGATTTACGTATTCGCA
10492 TTGCGATTT
1 TTGCGATTT
10501 TACGGATACT
Statistics
Matches: 182, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.01
20 163 0.90
21 17 0.09
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:10514 original size:41 final size:41
Alignment explanation
Indices: 10266--10541 Score: 255
Period size: 40 Copynumber: 6.8 Consensus size: 41
10256 ATAGTCAGAA
* * *
10266 TCTCGTTGCAATTTAC-AGATTCGCATTGCGA-TTTACGTAT
1 TCTCGTTGCGATTTACGA-ATACGCGTTGCGATTTTACGTAT
* * * * * *
10306 T-TGCATTGTGATTTACGTATTCGCATTGC-AATTTACGTAT
1 TCT-CGTTGCGATTTACGAATACGCGTTGCGATTTTACGTAT
* * * * *
10346 TCGCATTGCGATTTACGTATTCGCATTGCGA-TTTACGTAT
1 TCTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGTAT
10386 TCTCGTTGCGATTTAC-AGATACGCGTTGCGA-TTTACGTAT
1 TCTCGTTGCGATTTACGA-ATACGCGTTGCGATTTTACGTAT
* *
10426 TCTCGTTGCGATTTACGGATACGCGTTACGATTTTACGTAT
1 TCTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGTAT
* *
10467 TGTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGGAT
1 TCTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGTAT
* * *
10508 ACTCGTTGTGATAGT-CAGAAT-CGCGTTGCGATTT
1 TCTCGTTGCGAT-TTAC-GAATACGCGTTGCGATTT
10542 ATATGTTCGC
Statistics
Matches: 205, Mismatches: 21, Indels: 19
0.84 0.09 0.08
Matches are distributed among these distances:
39 2 0.01
40 128 0.62
41 70 0.34
42 5 0.02
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (41 bp):
TCTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGTAT
Found at i:10551 original size:20 final size:20
Alignment explanation
Indices: 10528--10580 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
10518 ATAGTCAGAA
*
10528 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
*
10548 TCGCGTTGCAATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
*
10568 TCGCATTGCGATT
1 TCGCGTTGCGATT
10581 CTGGAAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:10592 original size:21 final size:21
Alignment explanation
Indices: 10568--10647 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
10558 ATTTTCATAT
10568 TCGCATTGCGATTCTGGAAAA
1 TCGCATTGCGATTCTGGAAAA
* * **
10589 TCGCAATGCGAATT-TGTACTA
1 TCGCATTGCG-ATTCTGGAAAA
** *
10610 TCGCATTGCGATTCTTCATAA
1 TCGCATTGCGATTCTGGAAAA
*
10631 TCGCGTTGCGATTCTGG
1 TCGCATTGCGATTCTGG
10648 GAACTGATTT
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
20 3 0.07
21 39 0.87
22 3 0.07
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTCTGGAAAA
Found at i:10641 original size:42 final size:42
Alignment explanation
Indices: 10548--10641 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
10538 ATTTATATGT
*
10548 TCGCGTTGC-AATTTTCATATTCGCATTGCGATTCTGGAAAA
1 TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGCAAAA
** * *
10589 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTCTTCATAA
1 TCGCGTTGCGAATTT-TCA-TATTCGCATTGCGATTCTGCAAAA
10631 TCGCGTTGCGA
1 TCGCGTTGCGA
10642 TTCTGGGAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
41 7 0.16
42 33 0.77
43 3 0.07
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (42 bp):
TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGCAAAA
Found at i:13876 original size:94 final size:91
Alignment explanation
Indices: 13777--13982 Score: 207
Period size: 84 Copynumber: 2.3 Consensus size: 91
13767 ACTAAAAATC
* * *
13777 CAACGTACACAACATAAAAATACTCAACAAAAAATTCTAAAGCAAATTAATGTTTCAAAGTTCAA
1 CAACGTACATAACATAAAAATACTCAACAAAAAAGT-T-AAGCAAATTAATGTTTCAAAGTCCAA
13842 CAAACTA-AAACCATTACAATTTTAATAT
64 CAAACTAGAAA-CATTACAATTTTAATAT
* * * * *
13870 ACAACGTATATAACA-AAGAA-A-T-----AAAAAGTTAAGTAAATTAATGTTTTAATGTCCAAC
1 -CAACGTACATAACATAAAAATACTCAACAAAAAAGTTAAGCAAATTAATGTTTCAAAGTCCAAC
*
13927 AAACTAGAAACATTACAATTTTAGTAT
65 AAACTAGAAACATTACAATTTTAATAT
* *
13954 -AACATACATAACATATAAATACTCAACAA
1 CAACGTACATAACATAAAAATACTCAACAA
13983 TTTTTTTTAA
Statistics
Matches: 90, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
82 11 0.12
83 3 0.03
84 46 0.51
85 5 0.06
86 6 0.07
90 1 0.01
91 1 0.01
92 1 0.01
93 4 0.04
94 12 0.13
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.27
Consensus pattern (91 bp):
CAACGTACATAACATAAAAATACTCAACAAAAAAGTTAAGCAAATTAATGTTTCAAAGTCCAACA
AACTAGAAACATTACAATTTTAATAT
Found at i:18013 original size:63 final size:64
Alignment explanation
Indices: 17889--18032 Score: 173
Period size: 63 Copynumber: 2.2 Consensus size: 64
17879 AGAAGCAGAG
* * * * * *
17889 ATGTGATAGCATGTGTATTTATTTATGCACTTTTTTGTATGTTAGCATGTTTATTAAATTTTGAC
1 ATGTGAT-TCATGTGTGTTTATTTATGCACTTTATTGGATGTTACCATATTTATTAAATTTTGAC
* * *
17954 ATGTGATTCATGTGTGTTTATTTGTGCA-TTTATTGGCTGTTACCATATTTGTTAAATTTTGAC
1 ATGTGATTCATGTGTGTTTATTTATGCACTTTATTGGATGTTACCATATTTATTAAATTTTGAC
* *
18017 ATGTGTTTCATATGTG
1 ATGTGATTCATGTGTG
18033 CATCAGTATG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
63 43 0.63
64 18 0.26
65 7 0.10
ACGTcount: A:0.22, C:0.08, G:0.19, T:0.51
Consensus pattern (64 bp):
ATGTGATTCATGTGTGTTTATTTATGCACTTTATTGGATGTTACCATATTTATTAAATTTTGAC
Found at i:18571 original size:23 final size:24
Alignment explanation
Indices: 18539--18588 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
18529 TGGGTTGTTG
*
18539 GTGTACGTGGGCTAGGGGCTA-TA
1 GTGTACGTGGGCTAAGGGCTACTA
*
18562 GTGTAGGTGGGCTAAGGGCTACTA
1 GTGTACGTGGGCTAAGGGCTACTA
18586 GTG
1 GTG
18589 GGTTAGGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.18, C:0.12, G:0.44, T:0.26
Consensus pattern (24 bp):
GTGTACGTGGGCTAAGGGCTACTA
Found at i:19069 original size:3 final size:3
Alignment explanation
Indices: 19054--19093 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
19044 GGTTAAAGAA
*
19054 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
19094 AGTGTGTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 33 0.97
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:20448 original size:14 final size:16
Alignment explanation
Indices: 20424--20456 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
20414 GTTTATTTTG
20424 TTTTAAGTATTT-TAT
1 TTTTAAGTATTTATAT
20439 TTTTAA-TATTTATAT
1 TTTTAAGTATTTATAT
20454 TTT
1 TTT
20457 AGTCACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTAAGTATTTATAT
Found at i:22659 original size:8 final size:8
Alignment explanation
Indices: 22646--22733 Score: 72
Period size: 8 Copynumber: 10.5 Consensus size: 8
22636 AACCCGACCC
22646 GACCCGTT
1 GACCCGTT
**
22654 GACCCGACC
1 GACCCG-TT
22663 GACCCGTT
1 GACCCGTT
**
22671 GACCCGACC
1 GACCCG-TT
22680 GACCCGTT
1 GACCCGTT
22688 GA-CCGTT
1 GACCCGTT
22695 GACCCGTT
1 GACCCGTT
22703 GA-CCGTT
1 GACCCGTT
22710 GACCGGCGTT
1 GACC--CGTT
22720 GACCACTGTT
1 GACC-C-GTT
22730 GACC
1 GACC
22734 AAAACTTTGA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
7 14 0.22
8 22 0.34
9 13 0.20
10 15 0.23
ACGTcount: A:0.16, C:0.39, G:0.26, T:0.19
Consensus pattern (8 bp):
GACCCGTT
Found at i:22666 original size:17 final size:17
Alignment explanation
Indices: 22637--22691 Score: 101
Period size: 17 Copynumber: 3.2 Consensus size: 17
22627 ACCGGTCACA
22637 ACCCGACCCGACCCGTTG
1 ACCCGA-CCGACCCGTTG
22655 ACCCGACCGACCCGTTG
1 ACCCGACCGACCCGTTG
22672 ACCCGACCGACCCGTTG
1 ACCCGACCGACCCGTTG
22689 ACC
1 ACC
22692 GTTGACCCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 31 0.84
18 6 0.16
ACGTcount: A:0.18, C:0.49, G:0.22, T:0.11
Consensus pattern (17 bp):
ACCCGACCGACCCGTTG
Found at i:22695 original size:7 final size:7
Alignment explanation
Indices: 22683--22714 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
22673 CCCGACCGAC
22683 CCGTTGA
1 CCGTTGA
22690 CCGTTGA
1 CCGTTGA
22697 CCCGTTGA
1 -CCGTTGA
22705 CCGTTGA
1 CCGTTGA
22712 CCG
1 CCG
22715 GCGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:22700 original size:15 final size:15
Alignment explanation
Indices: 22680--22723 Score: 70
Period size: 15 Copynumber: 2.8 Consensus size: 15
22670 TGACCCGACC
22680 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
22695 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
22710 GACCGGCGTTGACC
1 GACC--CGTTGACC
22724 ACTGTTGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 19 0.70
17 8 0.30
ACGTcount: A:0.14, C:0.34, G:0.30, T:0.23
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:25213 original size:23 final size:23
Alignment explanation
Indices: 25187--25269 Score: 96
Period size: 23 Copynumber: 3.6 Consensus size: 23
25177 TCCGACTTGA
* *
25187 ATTCTGTTATGATCCTGACCTGG
1 ATTCTGATATGATCATGACCTGG
* *
25210 ATTCTGATCTGAT-ATTGACATGG
1 ATTCTGATATGATCA-TGACCTGG
*
25233 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGAT-CATGACCTGG
25257 ATTCTGATATGAT
1 ATTCTGATATGAT
25270 ACTTGACTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 31 0.61
24 19 0.37
25 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (23 bp):
ATTCTGATATGATCATGACCTGG
Found at i:25257 original size:24 final size:24
Alignment explanation
Indices: 25202--25276 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
25192 GTTATGATCC
25202 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
25225 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
25249 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
25273 TGAC
1 TGAC
25277 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:27477 original size:8 final size:8
Alignment explanation
Indices: 27464--27559 Score: 70
Period size: 8 Copynumber: 11.5 Consensus size: 8
27454 AACCCGACCC
27464 GACCCGTT
1 GACCCGTT
**
27472 GACCCGACC
1 GACCCG-TT
27481 GACCCGTT
1 GACCCGTT
**
27489 GACCCGACC
1 GACCCG-TT
*
27498 GACCCGTA
1 GACCCGTT
*
27506 GACCTGTT
1 GACCCGTT
27514 GA-CCGTT
1 GACCCGTT
27521 GACCCGTT
1 GACCCGTT
27529 GA-CCGTT
1 GACCCGTT
27536 GACCGGCGTT
1 GACC--CGTT
27546 GACCACTGTT
1 GACC-C-GTT
27556 GACC
1 GACC
27560 AAAACTTTGA
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
7 13 0.19
8 28 0.41
9 13 0.19
10 15 0.22
ACGTcount: A:0.17, C:0.38, G:0.26, T:0.20
Consensus pattern (8 bp):
GACCCGTT
Found at i:27484 original size:17 final size:17
Alignment explanation
Indices: 27455--27509 Score: 92
Period size: 17 Copynumber: 3.2 Consensus size: 17
27445 ACCGGTCACA
27455 ACCCGACCCGACCCGTTG
1 ACCCGA-CCGACCCGTTG
27473 ACCCGACCGACCCGTTG
1 ACCCGACCGACCCGTTG
*
27490 ACCCGACCGACCCGTAG
1 ACCCGACCGACCCGTTG
27507 ACC
1 ACC
27510 TGTTGACCGT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
17 30 0.83
18 6 0.17
ACGTcount: A:0.20, C:0.49, G:0.22, T:0.09
Consensus pattern (17 bp):
ACCCGACCGACCCGTTG
Found at i:27523 original size:7 final size:7
Alignment explanation
Indices: 27501--27540 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
27491 CCCGACCGAC
*
27501 CCGTAGA
1 CCGTTGA
27508 CCTGTTGA
1 CC-GTTGA
27516 CCGTTGA
1 CCGTTGA
27523 CCCGTTGA
1 -CCGTTGA
27531 CCGTTGA
1 CCGTTGA
27538 CCG
1 CCG
27541 GCGTTGACCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 17 0.57
8 13 0.43
ACGTcount: A:0.15, C:0.33, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:27524 original size:15 final size:15
Alignment explanation
Indices: 27501--27549 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
27491 CCCGACCGAC
* *
27501 CCGTAGACCTGTTGA
1 CCGTTGACCCGTTGA
27516 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
27531 CCGTTGACCGGCGTTGA
1 CCGTTGACC--CGTTGA
27548 CC
1 CC
27550 ACTGTTGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 22 0.73
17 8 0.27
ACGTcount: A:0.14, C:0.33, G:0.29, T:0.24
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:30043 original size:23 final size:23
Alignment explanation
Indices: 30017--30099 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
30007 TCCGACTTGA
* *
30017 ATTCTGTTATGATCCTGACCTGG
1 ATTCTGATATGATCATGACCTGG
* *
30040 ATTCTGATCTGAT-ATTGACATGG
1 ATTCTGATATGATCA-TGACCTGG
* *
30063 ATTCTGATCTGATACATGACCTGT
1 ATTCTGATATGAT-CATGACCTGG
30087 ATTCTGATATGAT
1 ATTCTGATATGAT
30100 ACTTGACTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 31 0.62
24 18 0.36
25 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (23 bp):
ATTCTGATATGATCATGACCTGG
Found at i:30090 original size:24 final size:24
Alignment explanation
Indices: 30032--30106 Score: 107
Period size: 24 Copynumber: 3.2 Consensus size: 24
30022 GTTATGATCC
30032 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
30055 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
* *
30079 TGACCTGTATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
30103 TGAC
1 TGAC
30107 TTGAATTATG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
23 21 0.47
24 24 0.53
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:31973 original size:22 final size:22
Alignment explanation
Indices: 31947--31989 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
31937 TAATAAATTA
31947 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
31969 TTTAAAATAAATGAATCCATA
1 TTTAAAATAAATCAATCCATA
31990 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:31998 original size:22 final size:22
Alignment explanation
Indices: 31949--31997 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
31939 ATAAATTATT
**
31949 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
31971 TAAAATAAATGAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
31994 TAAA
1 TAAA
31998 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:32078 original size:22 final size:22
Alignment explanation
Indices: 32005--32078 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
31995 AAATTATTTA
32005 AAATAAATCAATCCATAC-AACT
1 AAATAAATCAATCCATACTAA-T
**
32027 ACAATAATATATCAATCCATA-TTTT
1 A-AAT-A-A-ATCAATCCATACTAAT
32052 AAAATAAATCAATCCATACTAAT
1 -AAATAAATCAATCCATACTAAT
32075 AAAT
1 AAAT
32079 TATTTAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
22 16 0.39
23 6 0.15
24 2 0.05
25 5 0.12
26 12 0.29
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.30
Consensus pattern (22 bp):
AAATAAATCAATCCATACTAAT
Found at i:32087 original size:134 final size:134
Alignment explanation
Indices: 31937--32429 Score: 792
Period size: 134 Copynumber: 3.6 Consensus size: 134
31927 ACAACTACAA
*
31937 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATGAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
32002 TTAAAATAAATCAATCCATACAACTACAATAATATATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATATATCAATCCATATTTTAAAATAAATCAATCC
32067 ATAC
131 ATAC
*
32071 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
32136 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATATATCAATCCATATTTTAAAATAAATCAATCC
32201 ATAC
131 ATAC
*
32205 TAATAAATTATTTAAAATAAACCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
** * * *
32270 TTAAAATAAATCAATCCATA-ATTTAAAATAA-ATCAATCCATACTAATAAATTATTTAAAATAA
66 TTAAAATAAATCAATCCATACAACTACAATAATAT--ATCAAT-C-CAT--A-T-TTTAAAATAA
32333 ATCAATCCATAC
123 ATCAATCCATAC
* * *
32345 TAAAAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAAATCCATACTAATAATTTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
32410 TTAAAATAAATCAATCCATA
66 TTAAAATAAATCAATCCATA
32430 TTTTTAAACA
Statistics
Matches: 336, Mismatches: 15, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
132 1 0.00
133 8 0.02
134 219 0.65
135 1 0.00
136 2 0.01
138 1 0.00
139 1 0.00
140 103 0.31
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (134 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATATATCAATCCATATTTTAAAATAAATCAATCC
ATAC
Found at i:32088 original size:32 final size:32
Alignment explanation
Indices: 32049--32624 Score: 444
Period size: 32 Copynumber: 20.6 Consensus size: 32
32039 CAATCCATAT
32049 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
32081 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
32103 TTTAAAATAAATCAATCAATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
32135 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
32165 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
32183 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
32215 TTTAAAATAAACCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
32237 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
32269 TTTAAAATAAATCAAT-C---C--AT--A--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
32291 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
32323 TTTAAAATAAATCAATCCATACTAAAAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
32355 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
32377 TTTAAAATAAATAAATCCATACTAATAATTTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
32409 TTTAAAATAAATCAAT-C---C--AT--ATT-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
32432 TTT-AAACAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
32463 TCTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
32485 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
32517 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
32539 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
32571 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATACTAATAAATTA
32604 TTTTAAAATAAATCAATCCAT
1 -TTTAAAATAAATCAATCCAT
32625 TGGTGTTTAT
Statistics
Matches: 442, Mismatches: 15, Indels: 173
0.70 0.02 0.27
Matches are distributed among these distances:
20 1 0.00
22 119 0.27
23 15 0.03
24 10 0.02
25 1 0.00
26 35 0.08
28 22 0.05
30 9 0.02
31 16 0.04
32 161 0.36
33 53 0.12
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:32132 original size:22 final size:22
Alignment explanation
Indices: 32083--32131 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
32073 ATAAATTATT
* **
32083 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCAATATAA
32105 TAAAATAAATCAATCAATACTAA
1 TAAAATAAATCAATCAATA-TAA
32128 TAAA
1 TAAA
32132 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCAATATAA
Found at i:32212 original size:22 final size:23
Alignment explanation
Indices: 32137--32211 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
32127 ATAAATTATT
32137 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
32159 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
32185 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
32208 TAAA
1 TAAA
32212 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:32241 original size:22 final size:22
Alignment explanation
Indices: 32215--32257 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
32205 TAATAAATTA
32215 TTTAAAATAAACCAATCCATAT
1 TTTAAAATAAACCAATCCATAT
*
32237 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAACCAATCCATA
32258 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAATAAACCAATCCATAT
Found at i:32266 original size:22 final size:22
Alignment explanation
Indices: 32217--32265 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
32207 ATAAATTATT
**
32217 TAAAATAAACCAATCCATATTT
1 TAAAATAAACCAATCCATATAA
*
32239 TAAAATAAATCAATCCATACTAA
1 TAAAATAAACCAATCCATA-TAA
32262 TAAA
1 TAAA
32266 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAATAAACCAATCCATATAA
Found at i:32295 original size:22 final size:22
Alignment explanation
Indices: 32268--32311 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
32258 CTAATAAATT
32268 ATTTAAAATAAATCAATCCATA
1 ATTTAAAATAAATCAATCCATA
32290 ATTTAAAATAAATCAATCCATA
1 ATTTAAAATAAATCAATCCATA
32312 CTAATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (22 bp):
ATTTAAAATAAATCAATCCATA
Found at i:32352 original size:54 final size:54
Alignment explanation
Indices: 31937--32343 Score: 381
Period size: 54 Copynumber: 7.6 Consensus size: 54
31927 ACAACTACAA
*
31937 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATGAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
31991 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATATATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
32048 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
** * ** * * **
32102 TTTTAAAATAAAT-CAATCAATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
*
32157 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
32205 TAATAAATTATTTAAAATAAACCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
32259 TAATAAATTATTTAAAATAAATCAATCCATAATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
32313 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
32344 CTAAAAAATT
Statistics
Matches: 306, Mismatches: 30, Indels: 34
0.83 0.08 0.09
Matches are distributed among these distances:
48 30 0.10
49 4 0.01
50 7 0.02
51 1 0.00
52 1 0.00
53 1 0.00
54 219 0.72
55 6 0.02
56 5 0.02
57 13 0.04
58 19 0.06
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:32381 original size:22 final size:22
Alignment explanation
Indices: 32355--32397 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
32345 TAAAAAATTA
*
32355 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATAAATCCATAT
32377 TTTAAAATAAATAAATCCATA
1 TTTAAAATAAATAAATCCATA
32398 CTAATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATAAATCCATAT
Found at i:32381 original size:54 final size:54
Alignment explanation
Indices: 32323--32592 Score: 477
Period size: 54 Copynumber: 5.0 Consensus size: 54
32313 TAATAAATTA
*
32323 TTTAAAATAAATCAATCCATACTAAAAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* *
32377 TTTAAAATAAATAAATCCATACTAATAATTTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* * *
32431 TTTTAAACAAATCAATCCATACTAATAAATTATCTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
32485 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
32539 TTTAAAATAAATCAATCCATACTAATAAATTATTTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCATA
32593 CTAATAAATT
Statistics
Matches: 204, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
54 183 0.90
55 21 0.10
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:32381 original size:108 final size:107
Alignment explanation
Indices: 31947--32592 Score: 502
Period size: 108 Copynumber: 6.0 Consensus size: 107
31937 TAATAAATTA
* * *
31947 TTTAAAATAAATCAATCCAT-ATTTTAAAATAAATGAATCCATACTAATAAATTATTTAAAATAA
1 TTTAAAATAAATCAATCCATAATATTAAAATAAATAAATCAAT-C-AATAAATTATTTAAAATAA
* *
32011 ATCAATCCATAC-AACTACA--A--T--AATATATCAATCCATAT
64 ATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATAT
* * * ** * **
32049 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA-TATTTTAAAATAA
1 TTTAAAATAAATCAATCCATAATATTAAAATAAAT-AAATCAATCAATAAATTA-TTTAAAATAA
* *
32113 ATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCATACAAC
64 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---AT
** * * *
32160 TACAATAATAAATCAATCCAT-ATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATA
1 TTTAA-AATAAATCAATCCATAATATTAAAATAAATAAATCAAT-C-AATAAATTATTTAAAATA
* ** * ** * ** **
32224 AACCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAAT-T
63 AATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCATAT
* *
32268 ATTTAAAATAAATCAATCCATAAT-TTAAAATAAATCAATCCATACTAATAAATTATTTAAAATA
1 -TTTAAAATAAATCAATCCATAATATTAAAATAAATAAATCAAT-C-AATAAATTATTTAAAATA
*
32332 AATCAATCCATACTAAAAAATTATTTAAAATAAATCAATCCATAT
63 AATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* * ** *
32377 TTTAAAATAAATAAATCCATACTAATAATTTATTTAAAATAAATCAATCCAT--ATT-TTT-AAA
1 TTTAAAATAAATCAATCC--A-TAAT-ATTAAAAT-AAATAAATCAATCAATAAATTATTTAAAA
* *
32438 CAAATCAATCCATACTAATAAATTATCTAAAATAAATCAATCCATAT
61 TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* * * ** * **
32485 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCA-TATTTTAAAATAA
1 TTTAAAATAAATCAATCCATAATATTAAAATAAAT-AAATCAATCAATAAATTA-TTTAAAATAA
32549 ATCAATCCATACTAATAAATTATTTTAAAATAAATCAATCCATA
64 ATCAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCATA
32593 CTAATAAATT
Statistics
Matches: 431, Mismatches: 76, Indels: 67
0.75 0.13 0.12
Matches are distributed among these distances:
101 2 0.00
102 48 0.11
103 13 0.03
104 21 0.05
105 4 0.01
106 3 0.01
107 3 0.01
108 193 0.45
109 37 0.09
110 19 0.04
111 26 0.06
112 45 0.10
113 7 0.02
114 10 0.02
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (107 bp):
TTTAAAATAAATCAATCCATAATATTAAAATAAATAAATCAATCAATAAATTATTTAAAATAAAT
CAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:32459 original size:22 final size:22
Alignment explanation
Indices: 32417--32459 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
32407 TATTTAAAAT
* **
32417 AAATCAATCCATATTTTTAAAC
1 AAATCAATCCATACTAATAAAC
32439 AAATCAATCCATACTAATAAA
1 AAATCAATCCATACTAATAAA
32460 TTATCTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (22 bp):
AAATCAATCCATACTAATAAAC
Found at i:32514 original size:22 final size:22
Alignment explanation
Indices: 32465--32513 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
32455 ATAAATTATC
**
32465 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
32487 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
32510 TAAA
1 TAAA
32514 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:32543 original size:22 final size:22
Alignment explanation
Indices: 32517--32559 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
32507 TAATAAATTA
32517 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
32539 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
32560 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:32568 original size:22 final size:22
Alignment explanation
Indices: 32519--32567 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
32509 ATAAATTATT
**
32519 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
32541 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
32564 TAAA
1 TAAA
32568 TTATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:35761 original size:11 final size:12
Alignment explanation
Indices: 35742--35770 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
35732 TTTGGTCAAG
35742 GCAAAAAAATAT
1 GCAAAAAAATAT
35754 GCAAAAAAATAT
1 GCAAAAAAATAT
35766 GCAAA
1 GCAAA
35771 GGTGAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.66, C:0.10, G:0.10, T:0.14
Consensus pattern (12 bp):
GCAAAAAAATAT
Found at i:36587 original size:21 final size:24
Alignment explanation
Indices: 36554--36597 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 24
36544 TGATTTGGTC
36554 TTATCTCAATTAAA-T-GAATATT
1 TTATCTCAATTAAAGTGGAATATT
*
36576 TTAT-TCATTTAAAGTGGAATAT
1 TTATCTCAATTAAAGTGGAATAT
36598 AATGTAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (24 bp):
TTATCTCAATTAAAGTGGAATATT
Found at i:38250 original size:45 final size:45
Alignment explanation
Indices: 38185--38358 Score: 287
Period size: 45 Copynumber: 3.9 Consensus size: 45
38175 AATGATAAGC
* *
38185 TGGT-AAATAAGCGTACGAGCTTATGGAATAAATGGTAATTATAT
1 TGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAT
*
38229 TGGTAAAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATAT
1 TGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAT
* *
38274 TGGTAAAATAAGCTTACGATCTTATAGAATAAATGGTAAGTATAT
1 TGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAT
*
38319 TGGTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 TGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
38359 AAATTTTATA
Statistics
Matches: 120, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
44 4 0.03
45 116 0.97
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (45 bp):
TGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATAT
Found at i:38283 original size:24 final size:24
Alignment explanation
Indices: 38256--38329 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 24
38246 GAGCTTATGG
38256 AATAAATGGTAAGTATATTGGTAA
1 AATAAATGGTAAGTATATTGGTAA
* * * * *
38280 AAT-AA-GCTTACG-ATCTT-ATAG
1 AATAAATG-GTAAGTATATTGGTAA
38301 AATAAATGGTAAGTATATTGGTAA
1 AATAAATGGTAAGTATATTGGTAA
38325 AATAA
1 AATAA
38330 GCTTACGAGC
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
21 5 0.14
22 10 0.29
23 10 0.29
24 10 0.29
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.32
Consensus pattern (24 bp):
AATAAATGGTAAGTATATTGGTAA
Found at i:45955 original size:3 final size:3
Alignment explanation
Indices: 45947--45972 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
45937 CCAGTTGTTA
45947 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
45973 AATAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:50931 original size:18 final size:18
Alignment explanation
Indices: 50904--50943 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
50894 ATCAGGTGAT
50904 AATT-GAAACTATGAATC
1 AATTAGAAACTATGAATC
50921 AATTAGAAACTATGAATC
1 AATTAGAAACTATGAATC
50939 AATTA
1 AATTA
50944 AGCGGTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (18 bp):
AATTAGAAACTATGAATC
Done.