Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005334.1 Hibiscus syriacus cultivar Beakdansim tig00012079_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: 253824
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 1 of 2
Found at i:655 original size:24 final size:24
Alignment explanation
Indices: 557--655 Score: 85
Period size: 24 Copynumber: 4.2 Consensus size: 24
547 AATATTTATC
* *
557 TGATTTCTGATTTGAATTCTG-TT
1 TGATATCTGATCTGAATTCTGTTT
* * *
580 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTCTGTTT
* * * *
604 TGAT-TCCTAACCTGGATTCTGTTA
1 TGATAT-CTGATCTGAATTCTGTTT
*
628 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
652 TGAT
1 TGAT
656 TTTTGATATC
Statistics
Matches: 57, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
23 18 0.32
24 38 0.67
25 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.46
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:2792 original size:13 final size:13
Alignment explanation
Indices: 2774--2826 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
2764 TCACAACCCG
2774 ACCCGACCCGTTT
1 ACCCGACCCGTTT
2787 ACCCGACCCACCCGTTT
1 ACCCG----ACCCGTTT
* *
2804 ACCCGACCTGTTG
1 ACCCGACCCGTTT
2817 ACCCGACCCG
1 ACCCGACCCG
2827 ACCCGTTGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
13 20 0.61
17 13 0.39
ACGTcount: A:0.17, C:0.49, G:0.17, T:0.17
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:2792 original size:18 final size:18
Alignment explanation
Indices: 2769--2858 Score: 84
Period size: 18 Copynumber: 5.2 Consensus size: 18
2759 ACCGGTCACA
*
2769 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
2787 ACCCGACCC-ACCCGTT-
1 ACCCGACCCGACCCGTTG
* *
2803 ----TACCCGACCTGTTG
1 ACCCGACCCGACCCGTTG
2817 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
2835 ACCCGACCCGTTGACCCGTTG
1 ACCCGACCC---GACCCGTTG
2856 ACC
1 ACC
2859 GTTGACCCGT
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
12 4 0.07
13 6 0.10
17 7 0.12
18 30 0.51
21 12 0.20
ACGTcount: A:0.17, C:0.48, G:0.19, T:0.17
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:2837 original size:8 final size:8
Alignment explanation
Indices: 2826--2880 Score: 75
Period size: 8 Copynumber: 7.5 Consensus size: 8
2816 GACCCGACCC
2826 GACCCGTT
1 GACCCGTT
2834 GACCC---
1 GACCCGTT
2839 GACCCGTT
1 GACCCGTT
2847 GACCCGTT
1 GACCCGTT
2855 GA-CCGTT
1 GACCCGTT
2862 GACCCGTT
1 GACCCGTT
2870 GA-CCGTT
1 GACCCGTT
2877 GACC
1 GACC
2881 GGAGTTGACC
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.12
7 14 0.33
8 23 0.55
ACGTcount: A:0.15, C:0.38, G:0.25, T:0.22
Consensus pattern (8 bp):
GACCCGTT
Found at i:2837 original size:13 final size:13
Alignment explanation
Indices: 2821--2852 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
2811 CTGTTGACCC
2821 GACCCGACCCGTT
1 GACCCGACCCGTT
2834 GACCCGACCCGTT
1 GACCCGACCCGTT
2847 GACCCG
1 GACCCG
2853 TTGACCGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.47, G:0.25, T:0.12
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:2839 original size:31 final size:30
Alignment explanation
Indices: 2773--2852 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 30
2763 GTCACAACCC
*
2773 GACCCGACCCGTTTACCCGACCCACCCGTT
1 GACCCGACCCGTTGACCCGACCCACCCGTT
* *
2803 TACCCGACCTGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCC-ACCCGTT
2834 GACCCGACCCGTTGACCCG
1 GACCCGACCCGTTGACCCG
2853 TTGACCGTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 20 0.45
31 24 0.55
ACGTcount: A:0.16, C:0.47, G:0.20, T:0.16
Consensus pattern (30 bp):
GACCCGACCCGTTGACCCGACCCACCCGTT
Found at i:2862 original size:7 final size:7
Alignment explanation
Indices: 2842--2881 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
2832 TTGACCCGAC
2842 CCGTTGA
1 CCGTTGA
2849 CCCGTTGA
1 -CCGTTGA
2857 CCGTTGA
1 CCGTTGA
2864 CCCGTTGA
1 -CCGTTGA
2872 CCGTTGA
1 CCGTTGA
2879 CCG
1 CCG
2882 GAGTTGACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.12, C:0.35, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:2862 original size:15 final size:15
Alignment explanation
Indices: 2842--2880 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
2832 TTGACCCGAC
2842 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
2857 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
2872 CCGTTGACC
1 CCGTTGACC
2881 GGAGTTGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.13, C:0.36, G:0.26, T:0.26
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:5438 original size:24 final size:24
Alignment explanation
Indices: 5344--5443 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
5334 ATATTTTATC
* *
5344 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTT
* * *
5368 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTCTGTTT
* * * *
5392 TGAT-TCCTAACCTGGATTCTGTTA
1 TGATAT-CTGATCTGAATTCTGTTT
*
5416 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
5440 TGAT
1 TGAT
5444 TTTTGATATC
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 56 0.97
25 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:8089 original size:24 final size:24
Alignment explanation
Indices: 8062--8115 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
8052 GTATTCGAAA
* *
8062 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
8086 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
8110 TTTGAT
1 TTTGAT
8116 GATGTTTCAG
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:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:10332 original size:23 final size:23
Alignment explanation
Indices: 10306--10350 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10296 CACCACAGCT
*
10306 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
10329 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
10351 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:10599 original size:149 final size:149
Alignment explanation
Indices: 10329--10632 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
10319 CGAAGTGCCC
10329 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
*
10394 CATATACATATACTATGGATCAAGTATGTGTCTTCCAAGACTTCACACATGTTCCAAAGGATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTCCAAGACTTCACACATGTTCCAAAGGATATA
10459 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
10478 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
*
10543 CATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGGATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTCCAAGACTTCACACATGTTCCAAAGGATATA
10608 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
10627 CGTAGA
1 CGTAGA
10633 CCCTCTACCC
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTCCAAGACTTCACACATGTTCCAAAGGATATA
CATATGTCCTAAAGAACCG
Found at i:11100 original size:15 final size:14
Alignment explanation
Indices: 11076--11107 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
11066 AATAGCTTAG
11076 TCTTTCTTTTTTTT
1 TCTTTCTTTTTTTT
11090 TCTTCTCTTTTTTTT
1 TCTT-TCTTTTTTTT
11105 TCT
1 TCT
11108 CATGGGGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TCTTTCTTTTTTTT
Found at i:11228 original size:68 final size:68
Alignment explanation
Indices: 11111--11263 Score: 234
Period size: 68 Copynumber: 2.2 Consensus size: 68
11101 TTTTTCTCAT
* *
11111 GGGGGAATCGGTTCCCCCCCTAGGGGTATCGATTCCCCTCAAGCATTCTGGAATTTCATATACGA
1 GGGGGTATCGGTTCCCCCCCTAGGGGTATCGATTCCCCTCAAGCATTCTGGAAATTCATATACGA
11176 TGA
66 TGA
* * * * *
11179 GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCTAGCCTTCTGGAAATTCATATTCGT
1 GGGGGTATCGGTTCCCCCCCTAGGGGTATCGATTCCCCTCAAGCATTCTGGAAATTCATATACGA
11244 TGA
66 TGA
*
11247 GGGGGTATCGATTCCCC
1 GGGGGTATCGGTTCCCC
11264 TTGAATGGGT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 77 1.00
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.28
Consensus pattern (68 bp):
GGGGGTATCGGTTCCCCCCCTAGGGGTATCGATTCCCCTCAAGCATTCTGGAAATTCATATACGA
TGA
Found at i:11267 original size:21 final size:21
Alignment explanation
Indices: 11243--11285 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11233 TTCATATTCG
* *
11243 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
11264 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
11285 T
1 T
11286 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:12926 original size:33 final size:33
Alignment explanation
Indices: 12884--13010 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
12874 GGAAATTACT
**
12884 ATCGCAATGCGAAATGAAAATCATAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
12917 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
12949 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
12983 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
13011 CGAATTTAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:12991 original size:66 final size:66
Alignment explanation
Indices: 12885--13017 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
12875 GAAATTACTA
* *
12885 TCGCAATGCGAAATGAAAATCATAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
12950 T
66 T
* *
12951 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
13016 T
66 T
13017 T
1 T
13018 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:16713 original size:20 final size:19
Alignment explanation
Indices: 16668--16789 Score: 66
Period size: 20 Copynumber: 6.8 Consensus size: 19
16658 TCTTTTGGTT
*
16668 GAAATGAAAATCGCAATGA
1 GAAATGAAAATCGCAACGA
* *
16687 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
16708 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
16727 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
16741 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
*
16760 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
16774 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
16790 TGCGATTTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
14 19 0.25
16 4 0.05
17 4 0.05
19 20 0.26
20 28 0.36
21 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:16750 original size:33 final size:33
Alignment explanation
Indices: 16693--16789 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
16683 ATGAGATAAT
16693 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
16727 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
16760 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA
16790 TGCGATTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:16812 original size:19 final size:19
Alignment explanation
Indices: 16790--16834 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
16780 AAAATCGCAA
* *
16790 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGAGT
*
16809 TGCGTTTTTTATTTCGAGT
1 TGCGATTTTTATTTCGAGT
16828 TGCGATT
1 TGCGATT
16835 CTCTCGTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.09, C:0.13, G:0.24, T:0.53
Consensus pattern (19 bp):
TGCGATTTTTATTTCGAGT
Found at i:17416 original size:20 final size:20
Alignment explanation
Indices: 17391--17443 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
17381 GCGCTATGTA
*
17391 AATCGCTTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
17411 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
17431 TATCTCGTTGCGA
1 AATCGCGTTGCGA
17444 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:17477 original size:20 final size:20
Alignment explanation
Indices: 17452--17505 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
17442 GATTTTGTAT
17452 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
17472 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
17492 TATCGCATTGCGAT
1 TATCGCATTGCGAT
17506 TTTTCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:17490 original size:61 final size:61
Alignment explanation
Indices: 17392--17508 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
17382 CGCTATGTAA
* * * * *
17392 ATCGCTTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
17453 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
17509 TCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:18224 original size:39 final size:39
Alignment explanation
Indices: 18181--18266 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 39
18171 GTGTTTTACG
* * *
18181 CGTCTTCAAGTTAAAT-ATGAAGACTCCACGATTGCATGA
1 CGTCTTCAAG-TAAATGAAGAAGACTCCACAACTGCATGA
*
18220 CGTCTTCAAGTAAATGAAGAAGACTCCACAACTGCATGG
1 CGTCTTCAAGTAAATGAAGAAGACTCCACAACTGCATGA
*
18259 TGTCTTCA
1 CGTCTTCA
18267 GGGAAATTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
38 5 0.12
39 36 0.88
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (39 bp):
CGTCTTCAAGTAAATGAAGAAGACTCCACAACTGCATGA
Found at i:18280 original size:39 final size:39
Alignment explanation
Indices: 18181--18286 Score: 99
Period size: 39 Copynumber: 2.7 Consensus size: 39
18171 GTGTTTTACG
* * * *
18181 CGTCTTCAAGTTAAAT-ATGAAGACTCCACGATTGCATGA
1 CGTCTTCAAG-GAAATGAAGAAGACTCCACAACTGCATGA
* *
18220 CGTCTTCAAGTAAATGAAGAAGACTCCACAACTGCATGG
1 CGTCTTCAAGGAAATGAAGAAGACTCCACAACTGCATGA
* * *
18259 TGTCTTCAGGGAAATTG-AGAAGATTCCA
1 CGTCTTCAAGGAAA-TGAAGAAGACTCCA
18287 GAAATGTACT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
38 5 0.09
39 50 0.88
40 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (39 bp):
CGTCTTCAAGGAAATGAAGAAGACTCCACAACTGCATGA
Found at i:19263 original size:54 final size:54
Alignment explanation
Indices: 19187--19333 Score: 267
Period size: 54 Copynumber: 2.7 Consensus size: 54
19177 AGCATTTTAA
*
19187 GCTCATCTTATGGTGATCGAGTTTAGAGTGTTAACTCCTCCACCTGTAGCATCT
1 GCTCATCTTATGGTGATAGAGTTTAGAGTGTTAACTCCTCCACCTGTAGCATCT
19241 GCTCATCTTATGGTGATAGAGTTTAGAGTGTTAACTCCTCCACCTGTAGCATCT
1 GCTCATCTTATGGTGATAGAGTTTAGAGTGTTAACTCCTCCACCTGTAGCATCT
*
19295 GCTCATCTTATGGTAATAGAGTTTAGAGTGTTACACTCC
1 GCTCATCTTATGGTGATAGAGTTTAGAGTGTTA-ACTCC
19334 ACGTAATTCT
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
54 85 0.94
55 5 0.06
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (54 bp):
GCTCATCTTATGGTGATAGAGTTTAGAGTGTTAACTCCTCCACCTGTAGCATCT
Found at i:21851 original size:30 final size:30
Alignment explanation
Indices: 21815--21916 Score: 195
Period size: 30 Copynumber: 3.4 Consensus size: 30
21805 GAGGCAAATC
*
21815 ACAATAACAATAACCATATCTGAATTATGA
1 ACAATAACAATAAGCATATCTGAATTATGA
21845 ACAATAACAATAAGCATATCTGAATTATGA
1 ACAATAACAATAAGCATATCTGAATTATGA
21875 ACAATAACAATAAGCATATCTGAATTATGA
1 ACAATAACAATAAGCATATCTGAATTATGA
21905 ACAATAACAATA
1 ACAATAACAATA
21917 TATAAAGGAG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 71 1.00
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.25
Consensus pattern (30 bp):
ACAATAACAATAAGCATATCTGAATTATGA
Found at i:31038 original size:17 final size:19
Alignment explanation
Indices: 31012--31049 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
31002 GAAAAAGATT
31012 ATTTGAAA-TTATTA-ATA
1 ATTTGAAATTTATTATATA
*
31029 ATTTGGAATTTATTATATA
1 ATTTGAAATTTATTATATA
31048 AT
1 AT
31050 ATGTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 6 0.33
19 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (19 bp):
ATTTGAAATTTATTATATA
Found at i:32442 original size:2 final size:2
Alignment explanation
Indices: 32437--32467 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
32427 GTATTTAAAT
*
32437 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32468 TATTTAAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:35525 original size:113 final size:117
Alignment explanation
Indices: 35251--35578 Score: 417
Period size: 113 Copynumber: 2.8 Consensus size: 117
35241 CTTTTAAAAG
* ** * * *
35251 TGCTTT-TAA-GGGCCAAAGCAACGCGGAACACATTGCCTTCAGGTTTGAGTCAAATGCTCATCC
1 TGCTTTATAATGGGCCAAAGCAACGCCGAATGCATTGTCGTCAGGTTTGAGTCAAATGTTCATCC
*
35314 TTACTTCCAAGCAGTATTTGAGTCAAATGCA-T-C-ACGCATTGCTGTTGGCCT
66 -T-CTTCCAAGCAGTATTTGAGTCAAATGCATTGCAACGCACTGCTGTTGGCCT
*
35365 TGCCTTTATAAT-GGCCAAAGCAACGCCTAATGCATTGTCGTCAGGTTTGAGTCAAATGTTCAT-
1 TG-CTTTATAATGGGCCAAAGCAACGCCGAATGCATTGTCGTCAGGTTTGAGTCAAATGTTCATC
35428 C-CTTCCAAGCAGTATTTGAGTCAAATGCATTGCAACGCACTGCTGTTGGCCT
65 CTCTTCCAAGCAGTATTTGAGTCAAATGCATTGCAACGCACTGCTGTTGGCCT
* *
35480 TG-TTCT-T-ATGGGCCAGAGCAACGCCGAATGCATTGTCGTCGGGTTTGAGTCAAATGTTCATC
1 TGCTT-TATAATGGGCCAAAGCAACGCCGAATGCATTGTCGTCAGGTTTGAGTCAAATGTTCATC
* *
35542 CTTACTTCCGAGCAGGATTTGAGTCAAATGCATTGCA
65 C-T-CTTCCAAGCAGTATTTGAGTCAAATGCATTGCA
35579 GTCCGCCAAA
Statistics
Matches: 189, Mismatches: 13, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
112 30 0.16
113 52 0.28
114 5 0.03
115 24 0.13
116 47 0.25
117 31 0.16
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (117 bp):
TGCTTTATAATGGGCCAAAGCAACGCCGAATGCATTGTCGTCAGGTTTGAGTCAAATGTTCATCC
TCTTCCAAGCAGTATTTGAGTCAAATGCATTGCAACGCACTGCTGTTGGCCT
Found at i:40838 original size:2 final size:2
Alignment explanation
Indices: 40831--40902 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
40821 ATACTAACCC
40831 AT AT AT AT AT AT 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
40873 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
40903 GAGCTCTGCA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42688 original size:40 final size:35
Alignment explanation
Indices: 42643--42716 Score: 94
Period size: 35 Copynumber: 2.0 Consensus size: 35
42633 TTTAAATTTT
42643 AATTTTAAATAATTAATAATTTATTATTTATAATTTTGAC
1 AATTTT-AAT-ATT-ATAATTT-TTATTTA-AATTTTGAC
*
42683 AATTTTAATATTATAATTTTTATTTAATTTTTGA
1 AATTTTAATATTATAATTTTTATTTAAATTTTGA
42717 ATTTGAATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
35 7 0.21
36 7 0.21
37 7 0.21
38 3 0.09
39 3 0.09
40 6 0.18
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (35 bp):
AATTTTAATATTATAATTTTTATTTAAATTTTGAC
Found at i:42749 original size:17 final size:18
Alignment explanation
Indices: 42722--42774 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 18
42712 TTTGAATTTG
*
42722 AATAGTATTTTTATTTTT
1 AATAGTATTTTAATTTTT
42740 AATAGT-TTTTAATTTTT
1 AATAGTATTTTAATTTTT
* *
42757 -TTAATATTTTAATATTTT
1 AATAGTATTTTAAT-TTTT
42775 TTCTTAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 3 0.10
17 17 0.57
18 10 0.33
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (18 bp):
AATAGTATTTTAATTTTT
Found at i:42750 original size:10 final size:9
Alignment explanation
Indices: 42733--42775 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
42723 ATAGTATTTT
42733 TATTTTTAA
1 TATTTTTAA
42742 TAGTTTTTAA
1 TA-TTTTTAA
*
42752 TTTTTTTAA
1 TATTTTTAA
42761 TA-TTTTAA
1 TATTTTTAA
42769 TATTTTT
1 TATTTTT
42776 TCTTAAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 8 0.27
9 14 0.47
10 8 0.27
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (9 bp):
TATTTTTAA
Found at i:42759 original size:19 final size:18
Alignment explanation
Indices: 42735--42776 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
42725 AGTATTTTTA
42735 TTTTTAATAGTTTTTAAT-T
1 TTTTTAATA--TTTTAATAT
42754 TTTTTAATATTTTAATAT
1 TTTTTAATATTTTAATAT
42772 TTTTT
1 TTTTT
42777 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 6 0.27
19 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTTAATATTTTAATAT
Found at i:42775 original size:17 final size:18
Alignment explanation
Indices: 42733--42775 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
42723 ATAGTATTTT
42733 TATTTTTAATAGTTTTTAA
1 TATTTTTAATAG-TTTTAA
*
42752 TTTTTTTAATA-TTTTAA
1 TATTTTTAATAGTTTTAA
42769 TATTTTT
1 TATTTTT
42776 TCTTAAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 12 0.55
19 10 0.45
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (18 bp):
TATTTTTAATAGTTTTAA
Found at i:42776 original size:10 final size:10
Alignment explanation
Indices: 42735--42776 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
42725 AGTATTTTTA
*
42735 TTTTTAATAG
1 TTTTTAATAT
42745 TTTTTAAT-T
1 TTTTTAATAT
42754 TTTTTAATA-
1 TTTTTAATAT
42763 -TTTTAATAT
1 TTTTTAATAT
42772 TTTTT
1 TTTTT
42777 CTTAAAGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
8 8 0.29
9 8 0.29
10 12 0.43
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTTAATAT
Found at i:47391 original size:9 final size:9
Alignment explanation
Indices: 47377--47417 Score: 64
Period size: 9 Copynumber: 4.3 Consensus size: 9
47367 GTCCTTGAAC
47377 TTTCAAAAA
1 TTTCAAAAA
47386 TTTCAAAAA
1 TTTCAAAAA
47395 TTTCAAAAA
1 TTTCAAAAA
47404 TTTCCATAAAA
1 TTT-CA-AAAA
47415 TTT
1 TTT
47418 TGAGAATCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 21 0.70
10 2 0.07
11 7 0.23
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (9 bp):
TTTCAAAAA
Found at i:47934 original size:46 final size:46
Alignment explanation
Indices: 47833--47934 Score: 125
Period size: 46 Copynumber: 2.2 Consensus size: 46
47823 AACAAGGGGA
* *
47833 TATGGATATCCCATATCCCACATCAGCAAGAAAATTAATAAGAGGT
1 TATGGATATCCCATATCCCACATAAGCAAGAAAATTAATAAGAGGC
* * * * *
47879 TGTGAATATCCCATATCCCACATAAGGAA-ATGAATTAGTAAGAGGC
1 TATGGATATCCCATATCCCACATAAGCAAGA-AAATTAATAAGAGGC
47925 TATGGATATC
1 TATGGATATC
47935 ATTTATAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
45 1 0.02
46 45 0.98
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (46 bp):
TATGGATATCCCATATCCCACATAAGCAAGAAAATTAATAAGAGGC
Found at i:48072 original size:32 final size:32
Alignment explanation
Indices: 48030--48111 Score: 121
Period size: 32 Copynumber: 2.6 Consensus size: 32
48020 TATTTCTTTA
*
48030 TTTAT-GTATTTTTATTTAGCTCTAATTAATG
1 TTTATGGTATTTTTATTTAGCTATAATTAATG
* *
48061 TTTCTGGTATTTTTATTTAGCTATGATTAATG
1 TTTATGGTATTTTTATTTAGCTATAATTAATG
*
48093 TTTATGGTATTTTCATTTA
1 TTTATGGTATTTTTATTTA
48112 TTTGCTTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 4 0.09
32 41 0.91
ACGTcount: A:0.23, C:0.06, G:0.12, T:0.59
Consensus pattern (32 bp):
TTTATGGTATTTTTATTTAGCTATAATTAATG
Found at i:49468 original size:162 final size:165
Alignment explanation
Indices: 49270--49592 Score: 490
Period size: 170 Copynumber: 1.9 Consensus size: 165
49260 TATGATTGTA
49270 ATATAACATTTTAAATAAAAAACGCAGATACAATATGCACAAATTTC-AA-TTT-CATGACGAAA
1 ATATAACATTTTAAATAAAAAACGCAGATACAATATGCACAAATTTCAAATTTTCCATGACGAAA
*
49332 TTTATATTCTAAAACTGCTTTTAACTATTACTTTAAATTGGTTCATCTTTCCATTTGCTTTTAAC
66 TTTATATTCTAAAACTGCTTTCAACTATTACTTTAAATTGGTTCATCTTTCCATTTGCTTTTAAC
*
49397 TAGTAGTTTAAATTTGTCCTAGTTGTGAATGTAAT
131 TAGTAGTTTAAATTTGTCATAGTTGTGAATGTAAT
* * *
49432 ATATAACATTTTAAATAAAAAACGCATATGCAATATGTACAAATTTCAAATGAAATTTTCCATGA
1 ATATAACATTTTAAATAAAAAACGCAGATACAATATGCACAAATTTC-----AAATTTTCCATGA
* * *
49497 TGAAATTTATATTCTAAAATTGCTTTCATCTATTACTTTAAATTGGTTCATCTTTCCATTTGCTT
61 CGAAATTTATATTCTAAAACTGCTTTCAACTATTACTTTAAATTGGTTCATCTTTCCATTTGCTT
**
49562 TTAGTTAGTAGTTTAAATTTGTCATAGTTGT
126 TTAACTAGTAGTTTAAATTTGTCATAGTTGT
49593 ATTCATAATG
Statistics
Matches: 143, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
162 44 0.31
168 2 0.01
169 3 0.02
170 94 0.66
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (165 bp):
ATATAACATTTTAAATAAAAAACGCAGATACAATATGCACAAATTTCAAATTTTCCATGACGAAA
TTTATATTCTAAAACTGCTTTCAACTATTACTTTAAATTGGTTCATCTTTCCATTTGCTTTTAAC
TAGTAGTTTAAATTTGTCATAGTTGTGAATGTAAT
Found at i:54254 original size:17 final size:18
Alignment explanation
Indices: 54230--54270 Score: 75
Period size: 17 Copynumber: 2.3 Consensus size: 18
54220 GTGTGGTTCG
54230 TGCCAAGTACTATCCAGA
1 TGCCAAGTACTATCCAGA
54248 T-CCAAGTACTATCCAGA
1 TGCCAAGTACTATCCAGA
54265 TGCCAA
1 TGCCAA
54271 TTTACTTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (18 bp):
TGCCAAGTACTATCCAGA
Found at i:57926 original size:5 final size:5
Alignment explanation
Indices: 57916--57951 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
57906 CATGGTATTC
57916 TTGTT TTGTT TTGTT TTGTT TTGTT TTGTT TT-TT TT
1 TTGTT TTGTT TTGTT TTGTT TTGTT TTGTT TTGTT TT
57952 AACTTTCTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (5 bp):
TTGTT
Found at i:59743 original size:16 final size:16
Alignment explanation
Indices: 59698--59736 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
59688 TTCAGAACTT
**
59698 GAAATGACATGAATCC
1 GAAATGACACAAATCC
59714 GAAATGACACAAATCC
1 GAAATGACACAAATCC
59730 GAAATGA
1 GAAATGA
59737 TTTAAATGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.15
Consensus pattern (16 bp):
GAAATGACACAAATCC
Found at i:66313 original size:24 final size:22
Alignment explanation
Indices: 66268--66313 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
66258 TCATGATTCG
* *
66268 ATTATAAATATCAACAATTTAA
1 ATTATAAAAATCAACAAATTAA
66290 ATTATAAAAATCAATTCAAATTAA
1 ATTATAAAAATCAA--CAAATTAA
66314 TACGTAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
24 7 0.35
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.35
Consensus pattern (22 bp):
ATTATAAAAATCAACAAATTAA
Found at i:71458 original size:20 final size:21
Alignment explanation
Indices: 71422--71469 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
71412 GAATTAACAC
71422 AGAACCGGTAAAGAACC-GGA
1 AGAACCGGTAAAGAACCGGGA
*
71442 AGAACCGGCTGAA-AACCGGGA
1 AGAACCGG-TAAAGAACCGGGA
71463 A-AACCGG
1 AGAACCGG
71470 GGTGAACCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.42, C:0.23, G:0.31, T:0.04
Consensus pattern (21 bp):
AGAACCGGTAAAGAACCGGGA
Found at i:71709 original size:24 final size:24
Alignment explanation
Indices: 71680--71735 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
71670 TAGAAGTTTG
* *
71680 ATTGAAGGCTAAAATTTGAGGTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
71704 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
71728 ATTGAAGC
1 ATTGAAGC
71736 GAAAGAATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (24 bp):
ATTGAAGCCTAAAATTTGAGCTCA
Found at i:80692 original size:2 final size:2
Alignment explanation
Indices: 80685--80719 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
80675 CAGCACCTCG
80685 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
80720 ATTTCTTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:81907 original size:2 final size:2
Alignment explanation
Indices: 81900--81944 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
81890 TTTCAAACCC
*
81900 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
81942 AT A
1 AT A
81945 AAATCTTGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:86329 original size:24 final size:24
Alignment explanation
Indices: 86267--86348 Score: 121
Period size: 24 Copynumber: 3.5 Consensus size: 24
86257 AATTTTGTTA
86267 TGATACATGACCTGGATTCTGATC
1 TGATACATGACCTGGATTCTGATC
* *
86291 TGATA-TTGACATGGATTCTGATC
1 TGATACATGACCTGGATTCTGATC
*
86314 TGATACATGACCTGGATTCTGATA
1 TGATACATGACCTGGATTCTGATC
*
86338 TGATACTTGAC
1 TGATACATGAC
86349 TTGAATTATG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
23 21 0.41
24 30 0.59
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (24 bp):
TGATACATGACCTGGATTCTGATC
Found at i:86568 original size:2 final size:2
Alignment explanation
Indices: 86561--86591 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
86551 CGGATGGGGG
86561 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
86592 GTTTTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89138 original size:21 final size:21
Alignment explanation
Indices: 89111--89180 Score: 113
Period size: 21 Copynumber: 3.3 Consensus size: 21
89101 TAGCACGGTC
89111 CTCCGCAGCATCAGCTCGCTG
1 CTCCGCAGCATCAGCTCGCTG
* *
89132 TTCCGCAGCATCAGCTCGCTC
1 CTCCGCAGCATCAGCTCGCTG
*
89153 CTCTGCAGCATCAGCTCGCTG
1 CTCCGCAGCATCAGCTCGCTG
89174 CTCCGCA
1 CTCCGCA
89181 TCACAAGCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.14, C:0.43, G:0.21, T:0.21
Consensus pattern (21 bp):
CTCCGCAGCATCAGCTCGCTG
Found at i:90130 original size:193 final size:191
Alignment explanation
Indices: 89756--90139 Score: 624
Period size: 193 Copynumber: 2.0 Consensus size: 191
89746 GTGGATGCCA
* * *
89756 TGGAAGCTTTAATTAAACCGAAATGTAATTAACGATATTACTTAATCACCCTACACTGTTTAGCT
1 TGGAAGCTTTAATTAAACCGAAATATAATTAACAATATTACTTAATCACCCTAAACTGTTTAGCT
* * * *
89821 ATTGCTTATTTAAACATTGGTTTTGAATTGAAAATTGATCATCTTTTACATCATTGAATTTCAAT
66 ATTGCTTATTTAAACACTGGTTTTGAATTGAAAATTGATCATATTTTAAATCATTCAATTTCAAT
* *
89886 TAATATACATATACATGCAAATTTGGATGCCAAAACTCATTATTCAGTAGGTTCCATAATT
131 GAATATACATATACATGCAAATTTGGATGCCAAAACTCATTATTCAGTAGGTTCCACAATT
* * *
89947 TGGAAGCTTTAATTCAACCGAAATATAATTAACAATATTACTTACTTCACCCTAAATTGTTTAGC
1 TGGAAGCTTTAATTAAACCGAAATATAATTAACAATATTACTTA-ATCACCCTAAACTGTTTAGC
90012 TATTGCTTATTTAAACACTGGTTTTGAATTGAAAATTGATCATATTTCTAAATCATTCAATTTCA
65 TATTGCTTATTTAAACACTGGTTTTGAATTGAAAATTGATCATATTT-TAAATCATTCAATTTCA
* *
90077 ATGAATATACATATTCATGCAATTTTGGATGCCAAAACTCATTATTCAGTAGGTTCCACAATT
129 ATGAATATACATATACATGCAAATTTGGATGCCAAAACTCATTATTCAGTAGGTTCCACAATT
90140 ACATTTTACA
Statistics
Matches: 177, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
191 41 0.23
192 62 0.35
193 74 0.42
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (191 bp):
TGGAAGCTTTAATTAAACCGAAATATAATTAACAATATTACTTAATCACCCTAAACTGTTTAGCT
ATTGCTTATTTAAACACTGGTTTTGAATTGAAAATTGATCATATTTTAAATCATTCAATTTCAAT
GAATATACATATACATGCAAATTTGGATGCCAAAACTCATTATTCAGTAGGTTCCACAATT
Found at i:93318 original size:21 final size:21
Alignment explanation
Indices: 93288--93327 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
93278 CAGATGATAT
93288 AGCTCGCTGCTCCGCAGCATC
1 AGCTCGCTGCTCCGCAGCATC
* *
93309 AGCTCTCTGCTCTGCAGCA
1 AGCTCGCTGCTCCGCAGCA
93328 CAAGCCCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.40, G:0.23, T:0.23
Consensus pattern (21 bp):
AGCTCGCTGCTCCGCAGCATC
Found at i:93337 original size:21 final size:21
Alignment explanation
Indices: 93294--93337 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
93284 ATATAGCTCG
*
93294 CTGCTCCGCAGCATCAGCTCT
1 CTGCTCCGCAGCATCAGCCCT
*
93315 CTGCTCTGCAGCA-CAAGCCCT
1 CTGCTCCGCAGCATC-AGCCCT
93336 CT
1 CT
93338 TAATCGCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.16, C:0.43, G:0.18, T:0.23
Consensus pattern (21 bp):
CTGCTCCGCAGCATCAGCCCT
Found at i:94340 original size:189 final size:189
Alignment explanation
Indices: 93899--94466 Score: 996
Period size: 189 Copynumber: 3.0 Consensus size: 189
93889 GTGGATCCCA
* *
93899 TGGAAGCTTTAATTCAACCGAAATGTAATTAACAATATTACTGAATCACCCTACATTGTTTACCT
1 TGGAAGCTTTAATTCAACCGAAATATAATTAACAATATTACT---TCACCCTACATTGTTTAGCT
*
93964 ATTGCTTATTTAAACACTAGTTTTTAATTGAAAATTGATCATCTTTTAAATCATTCAATTTCAAT
63 ATTGCTTATTTAAACACTAGTTTTGAATTGAAAATTGATCATCTTTTAAATCATTCAATTTCAAT
94029 GAATATACATATTCATGCAAATTTGGATGCC-AAACTCATTATTCAGTAGGTTCCATAATTT
128 GAATATACATATTCATGCAAATTTGGATGCCAAAACTCATTATTCAGTAGGTTCCATAATTT
94090 TGGAAGCTTTAATTCAACCGAAATATAATTAACAATATTACTTCACCCTACATTGTTTAGCTATT
1 TGGAAGCTTTAATTCAACCGAAATATAATTAACAATATTACTTCACCCTACATTGTTTAGCTATT
**
94155 GCTTATTTAAACACCGGTTTTGAATTGAAAATTGATCATCTTTTAAATCATTCAATTTCAATGAA
66 GCTTATTTAAACACTAGTTTTGAATTGAAAATTGATCATCTTTTAAATCATTCAATTTCAATGAA
*
94220 TATACATAGTCATGCAAATTTGGATGCCAAAACTCATTATTCAGTAGGTTCCATAATTT
131 TATACATATTCATGCAAATTTGGATGCCAAAACTCATTATTCAGTAGGTTCCATAATTT
94279 TGGAAGCTTTAATTCAACCGAAATATAATTAACAATATTACTTCACCCTACATTGTTTAGCTATT
1 TGGAAGCTTTAATTCAACCGAAATATAATTAACAATATTACTTCACCCTACATTGTTTAGCTATT
*
94344 GCTTATTTAAACACTAGTTTTGAATTGAAAATTGATCATATTTCTAAATCATTCAATTTCAATGA
66 GCTTATTTAAACACTAGTTTTGAATTGAAAATTGATCATCTTT-TAAATCATTCAATTTCAATGA
* * *
94409 ATATACATATTCATTC-ATTTTGGATGCCAAAACTCATTATTCAGTAGGTTCCACAATT
130 ATATACATATTCATGCAAATTTGGATGCCAAAACTCATTATTCAGTAGGTTCCATAATT
94467 ACATTTTACA
Statistics
Matches: 362, Mismatches: 13, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
188 111 0.31
189 175 0.48
190 35 0.10
191 41 0.11
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (189 bp):
TGGAAGCTTTAATTCAACCGAAATATAATTAACAATATTACTTCACCCTACATTGTTTAGCTATT
GCTTATTTAAACACTAGTTTTGAATTGAAAATTGATCATCTTTTAAATCATTCAATTTCAATGAA
TATACATATTCATGCAAATTTGGATGCCAAAACTCATTATTCAGTAGGTTCCATAATTT
Found at i:100073 original size:80 final size:80
Alignment explanation
Indices: 99941--100102 Score: 308
Period size: 80 Copynumber: 2.0 Consensus size: 80
99931 GAGGTGGCGG
99941 ATGCCGTCGTGTCTGCCAACACCAAACTGAAACAGGTGGTTTACATGAAGAGGCAGCCGTCGAGG
1 ATGCCGTCGTGTCTGCCAACACCAAACTGAAACAGGTGGTTTACATGAAGAGGCAGCCGTCGAGG
100006 AATAGG-TCTTCTGT
66 AATAGGTTCTTCTGT
100020 ATGCCGTCGTGTCTGCCAACACCAAAACTGAAACAGGTGGTTTACATGAAGAGGCAGCCGTCGAG
1 ATGCCGTCGTGTCTGCCAACACC-AAACTGAAACAGGTGGTTTACATGAAGAGGCAGCCGTCGAG
100085 GAATAGGTTCTTCTGT
65 GAATAGGTTCTTCTGT
100101 AT
1 AT
100103 ACATATGTTC
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
79 23 0.28
80 48 0.59
81 10 0.12
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (80 bp):
ATGCCGTCGTGTCTGCCAACACCAAACTGAAACAGGTGGTTTACATGAAGAGGCAGCCGTCGAGG
AATAGGTTCTTCTGT
Found at i:108157 original size:27 final size:27
Alignment explanation
Indices: 108127--108187 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
108117 CAACGTTAAG
*
108127 CAATCCCCAAACAGTATAAAAAATAAA
1 CAATCCCCAAACAATATAAAAAATAAA
* * * *
108154 CAATCCACAAACAATATTAAAAGTAAG
1 CAATCCCCAAACAATATAAAAAATAAA
108181 CAATCCC
1 CAATCCC
108188 ACCAGTAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.54, C:0.25, G:0.05, T:0.16
Consensus pattern (27 bp):
CAATCCCCAAACAATATAAAAAATAAA
Found at i:108362 original size:21 final size:21
Alignment explanation
Indices: 108336--108447 Score: 143
Period size: 21 Copynumber: 5.3 Consensus size: 21
108326 GTTTTAACAA
* *
108336 GCTCCTCCGCAGAACAAGCAT
1 GCTCCTCCGCAGAACGAGCAC
108357 GCTCCTCCGCAGAACGAGCAC
1 GCTCCTCCGCAGAACGAGCAC
*
108378 GTTCCTCCGCAGAACGAGCAC
1 GCTCCTCCGCAGAACGAGCAC
*
108399 GCTCCTCCGCAGAACGAGCAA
1 GCTCCTCCGCAGAACGAGCAC
* * ** *
108420 GCTCCACTGTGGAACGAGCAA
1 GCTCCTCCGCAGAACGAGCAC
108441 GCTCCTC
1 GCTCCTC
108448 TGTGGAACGA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 81 1.00
ACGTcount: A:0.25, C:0.38, G:0.23, T:0.13
Consensus pattern (21 bp):
GCTCCTCCGCAGAACGAGCAC
Found at i:108435 original size:42 final size:42
Alignment explanation
Indices: 108333--108489 Score: 131
Period size: 42 Copynumber: 3.7 Consensus size: 42
108323 ATTGTTTTAA
* ** * *
108333 CAAGCTCCTCCGCAGAACAAGCATGCTCCTCCGCAGAACGAG
1 CAAGCTCCTCTGTGGAACGAGCACGCTCCTCCGCAGAACGAG
* * * **
108375 CACGTTCCTCCGCAGAACGAGCACGCTCCTCCGCAGAACGAG
1 CAAGCTCCTCTGTGGAACGAGCACGCTCCTCCGCAGAACGAG
* * * **
108417 CAAGCTCCACTGTGGAACGAGCAAGCTCCTCTGTGGAACGAAG
1 CAAGCTCCTCTGTGGAACGAGCACGCTCCTCCGCAGAACG-AG
108460 -ACA-CTCCTCTGTGGAACGAAG-ACGCTCCTC
1 CA-AGCTCCTCTGTGGAACG-AGCACGCTCCTC
108490 AAAAGAACGA
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 91 0.95
43 5 0.05
ACGTcount: A:0.26, C:0.36, G:0.24, T:0.15
Consensus pattern (42 bp):
CAAGCTCCTCTGTGGAACGAGCACGCTCCTCCGCAGAACGAG
Found at i:108450 original size:21 final size:21
Alignment explanation
Indices: 108389--108478 Score: 103
Period size: 21 Copynumber: 4.3 Consensus size: 21
108379 TTCCTCCGCA
* * **
108389 GAACGAGCACGCTCCTCCGCA
1 GAACGAGCAAGCTCCTCTGTG
*
108410 GAACGAGCAAGCTCCACTGTG
1 GAACGAGCAAGCTCCTCTGTG
108431 GAACGAGCAAGCTCCTCTGTG
1 GAACGAGCAAGCTCCTCTGTG
108452 GAACGAAG-ACA-CTCCTCTGTG
1 GAACG-AGCA-AGCTCCTCTGTG
108473 GAACGA
1 GAACGA
108479 AGACGCTCCT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
20 1 0.02
21 57 0.93
22 3 0.05
ACGTcount: A:0.28, C:0.31, G:0.27, T:0.14
Consensus pattern (21 bp):
GAACGAGCAAGCTCCTCTGTG
Found at i:108479 original size:21 final size:21
Alignment explanation
Indices: 108421--108489 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
108411 AACGAGCAAG
*
108421 CTCCACTGTGGAACG-AG-CAA
1 CTCCTCTGTGGAACGAAGAC-A
108441 GCTCCTCTGTGGAACGAAGACA
1 -CTCCTCTGTGGAACGAAGACA
*
108463 CTCCTCTGTGGAACGAAGACG
1 CTCCTCTGTGGAACGAAGACA
108484 CTCCTC
1 CTCCTC
108490 AAAAGAACGA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 40 0.91
22 3 0.07
23 1 0.02
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.19
Consensus pattern (21 bp):
CTCCTCTGTGGAACGAAGACA
Found at i:108582 original size:21 final size:21
Alignment explanation
Indices: 108529--108589 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
108519 GAAGAAGCGT
* ***
108529 CTCCAAAGAACAAAGACTTTC
1 CTCCAAAGAACGAAGACGCCC
*
108550 CTCCAGAGAACGAAGACGCCC
1 CTCCAAAGAACGAAGACGCCC
*
108571 CTCCAAAGAACGAGGACGC
1 CTCCAAAGAACGAAGACGC
108590 TTCTTAGCAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.33, G:0.20, T:0.10
Consensus pattern (21 bp):
CTCCAAAGAACGAAGACGCCC
Found at i:116045 original size:22 final size:23
Alignment explanation
Indices: 116007--116055 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
115997 GTAAATCATA
*
116007 CATTAATTTAATTATAA-AATAT
1 CATTAATTTAATAATAATAATAT
116029 CATT-ATTTAAATAATAATTAATAT
1 CATTAATTT-AATAATAA-TAATAT
116053 CAT
1 CAT
116056 CATAGTATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
24 8 0.35
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (23 bp):
CATTAATTTAATAATAATAATAT
Found at i:117069 original size:27 final size:27
Alignment explanation
Indices: 117028--117080 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
117018 ATCTACTCAC
*
117028 CAAACAGTATAAAAAATAAACAATCCA
1 CAAACAATATAAAAAATAAACAATCCA
* * *
117055 CAAACAATATTAAAAGTAAGCAATCC
1 CAAACAATATAAAAAATAAACAATCC
117081 CACCAGTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.58, C:0.19, G:0.06, T:0.17
Consensus pattern (27 bp):
CAAACAATATAAAAAATAAACAATCCA
Found at i:117256 original size:21 final size:21
Alignment explanation
Indices: 117230--117312 Score: 148
Period size: 21 Copynumber: 4.0 Consensus size: 21
117220 GTTTTAACAA
*
117230 GCTCCTCCGCAGAACGAGCAT
1 GCTCCTCCGCAGAACGAGCAC
117251 GCTCCTCCGCAGAACGAGCAC
1 GCTCCTCCGCAGAACGAGCAC
*
117272 GTTCCTCCGCAGAACGAGCAC
1 GCTCCTCCGCAGAACGAGCAC
117293 GCTCCTCCGCAGAACGAGCA
1 GCTCCTCCGCAGAACGAGCA
117313 AGCTTCACTG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.24, C:0.40, G:0.24, T:0.12
Consensus pattern (21 bp):
GCTCCTCCGCAGAACGAGCAC
Found at i:117328 original size:21 final size:21
Alignment explanation
Indices: 117304--117372 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
117294 CTCCTCCGCA
*
117304 GAACGAGCAAGCTTCACTGTG
1 GAACGAGCAAGCTCCACTGTG
*
117325 GAACGAGCAAGCTCCTCTGTG
1 GAACGAGCAAGCTCCACTGTG
*
117346 GAACGAAGGC-A-CTCCTCTGTG
1 GAACG-A-GCAAGCTCCACTGTG
117367 GAACGA
1 GAACGA
117373 AGACGCTCCT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
20 1 0.02
21 39 0.89
22 2 0.05
23 2 0.05
ACGTcount: A:0.28, C:0.26, G:0.29, T:0.17
Consensus pattern (21 bp):
GAACGAGCAAGCTCCACTGTG
Found at i:117329 original size:42 final size:41
Alignment explanation
Indices: 117227--117341 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 41
117217 AATGTTTTAA
* *
117227 CAAGCTCCTCCGCAGAACGAGCATGCTCCTCCGCAGAACGAG
1 CAAGTTCCT-CGCAGAACGAGCAAGCTCCTCCGCAGAACGAG
* *
117269 CACGTTCCTCCGCAGAACGAGCACGCTCCTCCGCAGAACGAG
1 CAAGTTCCT-CGCAGAACGAGCAAGCTCCTCCGCAGAACGAG
**
117311 CAAGCTTCACT-GTGGAACGAGCAAGCTCCTC
1 CAAG-TTC-CTCGCAGAACGAGCAAGCTCCTC
117342 TGTGGAACGA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
42 59 0.92
43 3 0.05
44 2 0.03
ACGTcount: A:0.25, C:0.37, G:0.23, T:0.14
Consensus pattern (41 bp):
CAAGTTCCTCGCAGAACGAGCAAGCTCCTCCGCAGAACGAG
Found at i:117373 original size:21 final size:21
Alignment explanation
Indices: 117320--117383 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 21
117310 GCAAGCTTCA
117320 CTGTGGAACG-A-GCAAGCTCCT
1 CTGTGGAACGAAGGC-A-CTCCT
117341 CTGTGGAACGAAGGCACTCCT
1 CTGTGGAACGAAGGCACTCCT
* *
117362 CTGTGGAACGAAGACGCTCCT
1 CTGTGGAACGAAGGCACTCCT
117383 C
1 C
117384 AAAAGAACGA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 35 0.90
22 2 0.05
23 2 0.05
ACGTcount: A:0.23, C:0.30, G:0.28, T:0.19
Consensus pattern (21 bp):
CTGTGGAACGAAGGCACTCCT
Found at i:117467 original size:21 final size:21
Alignment explanation
Indices: 117423--117483 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
117413 GAAGAAGCGT
* ***
117423 CTCCAAAGAACAAAGACTTTC
1 CTCCAAAGAACGAAGACGCCC
* *
117444 CTCCAGAGAATGAAGACGCCC
1 CTCCAAAGAACGAAGACGCCC
*
117465 CTCCAAAGAACGAGGACGC
1 CTCCAAAGAACGAAGACGC
117484 TTCTTAGCAG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.31, G:0.20, T:0.11
Consensus pattern (21 bp):
CTCCAAAGAACGAAGACGCCC
Found at i:121179 original size:21 final size:21
Alignment explanation
Indices: 121149--121188 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
121139 CAGATGATAT
121149 AGCTCGCTGCTCCGCAGCATC
1 AGCTCGCTGCTCCGCAGCATC
* *
121170 AGCTCTCTGCTCTGCAGCA
1 AGCTCGCTGCTCCGCAGCA
121189 CAAGCCCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.40, G:0.23, T:0.23
Consensus pattern (21 bp):
AGCTCGCTGCTCCGCAGCATC
Found at i:121198 original size:21 final size:21
Alignment explanation
Indices: 121155--121198 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
121145 ATATAGCTCG
*
121155 CTGCTCCGCAGCATCAGCTCT
1 CTGCTCCGCAGCATCAGCCCT
*
121176 CTGCTCTGCAGCA-CAAGCCCT
1 CTGCTCCGCAGCATC-AGCCCT
121197 CT
1 CT
121199 TAATCGCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.16, C:0.43, G:0.18, T:0.23
Consensus pattern (21 bp):
CTGCTCCGCAGCATCAGCCCT
Found at i:122085 original size:189 final size:189
Alignment explanation
Indices: 121762--122331 Score: 1005
Period size: 189 Copynumber: 3.0 Consensus size: 189
121752 GTGGATCCCA
* *
121762 TGGAAGCTTTAATTCAACCGAAATGTAATTAACAATATTACTGAATCACCCTACATTGTTTACCT
1 TGGAAGCTTTAATTCAACCGAAATATAATTAACAATATTACT---TCACCCTACATTGTTTAGCT
*
121827 ATTGCTTATTTAAACACTAGTTTTTAATTGAAAATTGATCATCTTTTAAATCATTCAATTTCAAT
63 ATTGCTTATTTAAACACTAGTTTTGAATTGAAAATTGATCATCTTTTAAATCATTCAATTTCAAT
*
121892 GAATATACATATTCATGCAAATTTGGATCCCAAAACTCATTATTCAGTAGGTTCCATAATTT
128 GAATATACATATTCATGCAAATTTGGATGCCAAAACTCATTATTCAGTAGGTTCCATAATTT
121954 TGGAAGCTTTAATTCAACCGAAATATAATTAACAATATTACTTCACCCTACATTGTTTAGCTATT
1 TGGAAGCTTTAATTCAACCGAAATATAATTAACAATATTACTTCACCCTACATTGTTTAGCTATT
**
122019 GCTTATTTAAACACCGGTTTTGAATTGAAAATTGATCATCTTTTAAATCATTCAATTTCAATGAA
66 GCTTATTTAAACACTAGTTTTGAATTGAAAATTGATCATCTTTTAAATCATTCAATTTCAATGAA
*
122084 TATACATAGTCATGCAAATTTGGATGCCAAAACTCATTATTCAGTAGGTTCCATAATTT
131 TATACATATTCATGCAAATTTGGATGCCAAAACTCATTATTCAGTAGGTTCCATAATTT
122143 TGGAAGCTTTAATTCAACCGAAATATAATTAACAATATTACTTCACCCTACATTGTTTAGCTATT
1 TGGAAGCTTTAATTCAACCGAAATATAATTAACAATATTACTTCACCCTACATTGTTTAGCTATT
*
122208 GCTTATTTAAACACTAGTTTTGAATTGAAAATTGATCATATTTCTAAATCATTCAATTTCAATGA
66 GCTTATTTAAACACTAGTTTTGAATTGAAAATTGATCATCTTT-TAAATCATTCAATTTCAATGA
* * *
122273 ATATACATATTCATTCAATTTTGGATGCCAAAACTCATTATTCAGTAGGTTCCACAATT
130 ATATACATATTCATGCAAATTTGGATGCCAAAACTCATTATTCAGTAGGTTCCATAATT
122332 ACATTTTACA
Statistics
Matches: 363, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
189 246 0.68
190 76 0.21
192 41 0.11
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (189 bp):
TGGAAGCTTTAATTCAACCGAAATATAATTAACAATATTACTTCACCCTACATTGTTTAGCTATT
GCTTATTTAAACACTAGTTTTGAATTGAAAATTGATCATCTTTTAAATCATTCAATTTCAATGAA
TATACATATTCATGCAAATTTGGATGCCAAAACTCATTATTCAGTAGGTTCCATAATTT
Found at i:126767 original size:22 final size:23
Alignment explanation
Indices: 126729--126777 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
126719 GTAAATCATA
*
126729 CATTAATTTAATTATAA-AATAT
1 CATTAATTTAATAATAATAATAT
126751 CATT-ATTTAAATAATAATTAATAT
1 CATTAATTT-AATAATAA-TAATAT
126775 CAT
1 CAT
126778 CATAGTATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
24 8 0.35
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (23 bp):
CATTAATTTAATAATAATAATAT
Found at i:136128 original size:27 final size:27
Alignment explanation
Indices: 136098--136158 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
136088 CAACGTTAAG
*
136098 CAATCCCCAAACAGTATAAAAAATAAA
1 CAATCCCCAAACAATATAAAAAATAAA
* * * *
136125 CAATCCACAAACAATATTAAAAGTAAG
1 CAATCCCCAAACAATATAAAAAATAAA
136152 CAATCCC
1 CAATCCC
136159 ACCAGTAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.54, C:0.25, G:0.05, T:0.16
Consensus pattern (27 bp):
CAATCCCCAAACAATATAAAAAATAAA
Found at i:136335 original size:21 final size:21
Alignment explanation
Indices: 136309--136420 Score: 143
Period size: 21 Copynumber: 5.3 Consensus size: 21
136299 GTTTTAACAA
* *
136309 GCTCCTCCGCAGAACAAGCAT
1 GCTCCTCCGCAGAACGAGCAC
136330 GCTCCTCCGCAGAACGAGCAC
1 GCTCCTCCGCAGAACGAGCAC
*
136351 GTTCCTCCGCAGAACGAGCAC
1 GCTCCTCCGCAGAACGAGCAC
*
136372 GCTCCTCCGCAGAACGAGCAA
1 GCTCCTCCGCAGAACGAGCAC
* * ** *
136393 GCTCCACTGTGGAACGAGCAA
1 GCTCCTCCGCAGAACGAGCAC
136414 GCTCCTC
1 GCTCCTC
136421 TGTGGAACGA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 81 1.00
ACGTcount: A:0.25, C:0.38, G:0.23, T:0.13
Consensus pattern (21 bp):
GCTCCTCCGCAGAACGAGCAC
Found at i:136408 original size:42 final size:42
Alignment explanation
Indices: 136306--136462 Score: 131
Period size: 42 Copynumber: 3.7 Consensus size: 42
136296 ATTGTTTTAA
* ** * *
136306 CAAGCTCCTCCGCAGAACAAGCATGCTCCTCCGCAGAACGAG
1 CAAGCTCCTCTGTGGAACGAGCACGCTCCTCCGCAGAACGAG
* * * **
136348 CACGTTCCTCCGCAGAACGAGCACGCTCCTCCGCAGAACGAG
1 CAAGCTCCTCTGTGGAACGAGCACGCTCCTCCGCAGAACGAG
* * * **
136390 CAAGCTCCACTGTGGAACGAGCAAGCTCCTCTGTGGAACGAAG
1 CAAGCTCCTCTGTGGAACGAGCACGCTCCTCCGCAGAACG-AG
136433 -ACA-CTCCTCTGTGGAACGAAG-ACGCTCCTC
1 CA-AGCTCCTCTGTGGAACG-AGCACGCTCCTC
136463 AAAAGAACGA
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 91 0.95
43 5 0.05
ACGTcount: A:0.26, C:0.36, G:0.24, T:0.15
Consensus pattern (42 bp):
CAAGCTCCTCTGTGGAACGAGCACGCTCCTCCGCAGAACGAG
Found at i:136423 original size:21 final size:21
Alignment explanation
Indices: 136362--136451 Score: 103
Period size: 21 Copynumber: 4.3 Consensus size: 21
136352 TTCCTCCGCA
* * **
136362 GAACGAGCACGCTCCTCCGCA
1 GAACGAGCAAGCTCCTCTGTG
*
136383 GAACGAGCAAGCTCCACTGTG
1 GAACGAGCAAGCTCCTCTGTG
136404 GAACGAGCAAGCTCCTCTGTG
1 GAACGAGCAAGCTCCTCTGTG
136425 GAACGAAG-ACA-CTCCTCTGTG
1 GAACG-AGCA-AGCTCCTCTGTG
136446 GAACGA
1 GAACGA
136452 AGACGCTCCT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
20 1 0.02
21 57 0.93
22 3 0.05
ACGTcount: A:0.28, C:0.31, G:0.27, T:0.14
Consensus pattern (21 bp):
GAACGAGCAAGCTCCTCTGTG
Found at i:136452 original size:21 final size:21
Alignment explanation
Indices: 136394--136462 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
136384 AACGAGCAAG
*
136394 CTCCACTGTGGAACG-AG-CAA
1 CTCCTCTGTGGAACGAAGAC-A
136414 GCTCCTCTGTGGAACGAAGACA
1 -CTCCTCTGTGGAACGAAGACA
*
136436 CTCCTCTGTGGAACGAAGACG
1 CTCCTCTGTGGAACGAAGACA
136457 CTCCTC
1 CTCCTC
136463 AAAAGAACGA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 40 0.91
22 3 0.07
23 1 0.02
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.19
Consensus pattern (21 bp):
CTCCTCTGTGGAACGAAGACA
Found at i:136555 original size:21 final size:21
Alignment explanation
Indices: 136502--136562 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
136492 GAAGAAGCGT
* ***
136502 CTCCAAAGAACAAAGACTTTC
1 CTCCAAAGAACGAAGACGCCC
*
136523 CTCCAGAGAACGAAGACGCCC
1 CTCCAAAGAACGAAGACGCCC
*
136544 CTCCAAAGAACGAGGACGC
1 CTCCAAAGAACGAAGACGC
136563 TTCTTAGCAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.33, G:0.20, T:0.10
Consensus pattern (21 bp):
CTCCAAAGAACGAAGACGCCC
Found at i:144029 original size:22 final size:23
Alignment explanation
Indices: 143991--144039 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
143981 GTAAATCATA
*
143991 CATTAATTTAATTATAA-AATAT
1 CATTAATTTAATAATAATAATAT
144013 CATT-ATTTAAATAATAATTAATAT
1 CATTAATTT-AATAATAA-TAATAT
144037 CAT
1 CAT
144040 CATAGTATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
24 8 0.35
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (23 bp):
CATTAATTTAATAATAATAATAT
Found at i:145064 original size:27 final size:27
Alignment explanation
Indices: 145023--145075 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
145013 ATCTACTCAC
*
145023 CAAACAGTATAAAAAATAAACAATCCA
1 CAAACAATATAAAAAATAAACAATCCA
* * *
145050 CAAACAATATTAAAAGTAAGCAATCC
1 CAAACAATATAAAAAATAAACAATCC
145076 CACCAGTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.58, C:0.19, G:0.06, T:0.17
Consensus pattern (27 bp):
CAAACAATATAAAAAATAAACAATCCA
Found at i:145252 original size:21 final size:21
Alignment explanation
Indices: 145226--145308 Score: 148
Period size: 21 Copynumber: 4.0 Consensus size: 21
145216 GTTTTAACAA
*
145226 GCTCCTCCGCAGAACGAGCAT
1 GCTCCTCCGCAGAACGAGCAC
145247 GCTCCTCCGCAGAACGAGCAC
1 GCTCCTCCGCAGAACGAGCAC
*
145268 GTTCCTCCGCAGAACGAGCAC
1 GCTCCTCCGCAGAACGAGCAC
145289 GCTCCTCCGCAGAACGAGCA
1 GCTCCTCCGCAGAACGAGCA
145309 AGCTTCACTG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.24, C:0.40, G:0.24, T:0.12
Consensus pattern (21 bp):
GCTCCTCCGCAGAACGAGCAC
Found at i:145324 original size:21 final size:21
Alignment explanation
Indices: 145300--145368 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
145290 CTCCTCCGCA
*
145300 GAACGAGCAAGCTTCACTGTG
1 GAACGAGCAAGCTCCACTGTG
*
145321 GAACGAGCAAGCTCCTCTGTG
1 GAACGAGCAAGCTCCACTGTG
*
145342 GAACGAAGGC-A-CTCCTCTGTG
1 GAACG-A-GCAAGCTCCACTGTG
145363 GAACGA
1 GAACGA
145369 AGACGCTCCT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
20 1 0.02
21 39 0.89
22 2 0.05
23 2 0.05
ACGTcount: A:0.28, C:0.26, G:0.29, T:0.17
Consensus pattern (21 bp):
GAACGAGCAAGCTCCACTGTG
Found at i:145325 original size:42 final size:41
Alignment explanation
Indices: 145223--145337 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 41
145213 ATTGTTTTAA
* *
145223 CAAGCTCCTCCGCAGAACGAGCATGCTCCTCCGCAGAACGAG
1 CAAGTTCCT-CGCAGAACGAGCAAGCTCCTCCGCAGAACGAG
* *
145265 CACGTTCCTCCGCAGAACGAGCACGCTCCTCCGCAGAACGAG
1 CAAGTTCCT-CGCAGAACGAGCAAGCTCCTCCGCAGAACGAG
**
145307 CAAGCTTCACT-GTGGAACGAGCAAGCTCCTC
1 CAAG-TTC-CTCGCAGAACGAGCAAGCTCCTC
145338 TGTGGAACGA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
42 59 0.92
43 3 0.05
44 2 0.03
ACGTcount: A:0.25, C:0.37, G:0.23, T:0.14
Consensus pattern (41 bp):
CAAGTTCCTCGCAGAACGAGCAAGCTCCTCCGCAGAACGAG
Found at i:145369 original size:21 final size:21
Alignment explanation
Indices: 145316--145379 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 21
145306 GCAAGCTTCA
145316 CTGTGGAACG-A-GCAAGCTCCT
1 CTGTGGAACGAAGGC-A-CTCCT
145337 CTGTGGAACGAAGGCACTCCT
1 CTGTGGAACGAAGGCACTCCT
* *
145358 CTGTGGAACGAAGACGCTCCT
1 CTGTGGAACGAAGGCACTCCT
145379 C
1 C
145380 AAAAGAACGA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 35 0.90
22 2 0.05
23 2 0.05
ACGTcount: A:0.23, C:0.30, G:0.28, T:0.19
Consensus pattern (21 bp):
CTGTGGAACGAAGGCACTCCT
Found at i:145463 original size:21 final size:21
Alignment explanation
Indices: 145419--145479 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
145409 GAAGAAGCGT
* ***
145419 CTCCAAAGAACAAAGACTTTC
1 CTCCAAAGAACGAAGACGCCC
* *
145440 CTCCAGAGAATGAAGACGCCC
1 CTCCAAAGAACGAAGACGCCC
*
145461 CTCCAAAGAACGAGGACGC
1 CTCCAAAGAACGAAGACGC
145480 TTCTTAGCAG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.31, G:0.20, T:0.11
Consensus pattern (21 bp):
CTCCAAAGAACGAAGACGCCC
Found at i:150649 original size:21 final size:21
Alignment explanation
Indices: 150622--150715 Score: 134
Period size: 21 Copynumber: 4.5 Consensus size: 21
150612 TAGCACGGTC
*
150622 CTCCGCAGCATCAGCTCGTTG
1 CTCCGCAGCATCAGCTCGCTG
* *
150643 TTCCGCAACATCAGCTCGCTG
1 CTCCGCAGCATCAGCTCGCTG
* *
150664 TTCCGCAGCATCAGCTCGCTC
1 CTCCGCAGCATCAGCTCGCTG
*
150685 CTCTGCAGCATCAGCTCGCTG
1 CTCCGCAGCATCAGCTCGCTG
150706 CTCCGCAGCA
1 CTCCGCAGCA
150716 CAAGCCATCT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.16, C:0.40, G:0.21, T:0.22
Consensus pattern (21 bp):
CTCCGCAGCATCAGCTCGCTG
Found at i:152857 original size:18 final size:18
Alignment explanation
Indices: 152828--152864 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
152818 TATCATTGAA
152828 TTTTATTCACT-AACTTT
1 TTTTATTCACTAAACTTT
152845 TTTTATATCACTAAACTTT
1 TTTTAT-TCACTAAACTTT
152864 T
1 T
152865 AATTTTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 5 0.28
19 7 0.39
ACGTcount: A:0.27, C:0.16, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTATTCACTAAACTTT
Found at i:164990 original size:115 final size:114
Alignment explanation
Indices: 164788--165037 Score: 446
Period size: 115 Copynumber: 2.2 Consensus size: 114
164778 AATATTTAAG
*
164788 ACATCCCGTAAGCCAAAAAATTATTTAAGAATATTTATGAGTGATCAATGTCAAATGGTTGAAAG
1 ACATCCCGTAAGCCAAAAAATTATTTAAGAATATTTACGAGTGATCAATGTCAAATGGTTGAAAG
164853 TGTTCTTTGAACAGATATTATATTCTGCTTACCCAGATTAATTAAAAAAA
66 TGTTCTTTGAACAGATATTATATTCTGCTTACCCAGATTAATT-AAAAAA
164903 ACATCCCGTAAGCCAAAAAATTATTTAAGAATATTTACGAGTGATCAATGTCAAATGGTTGAAAG
1 ACATCCCGTAAGCCAAAAAATTATTTAAGAATATTTACGAGTGATCAATGTCAAATGGTTGAAAG
* * * *
164968 TGTTCTTTGAACATATATTATATTTTGCTTACCCATATTAATTAGAAAA
66 TGTTCTTTGAACAGATATTATATTCTGCTTACCCAGATTAATTAAAAAA
165017 ACATCCCGTAAGCCAAAAAAT
1 ACATCCCGTAAGCCAAAAAAT
165038 AATATTTTGG
Statistics
Matches: 130, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
114 26 0.20
115 104 0.80
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (114 bp):
ACATCCCGTAAGCCAAAAAATTATTTAAGAATATTTACGAGTGATCAATGTCAAATGGTTGAAAG
TGTTCTTTGAACAGATATTATATTCTGCTTACCCAGATTAATTAAAAAA
Found at i:171944 original size:37 final size:38
Alignment explanation
Indices: 171897--171980 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
171887 TTAAAATATG
171897 TTAAAATATAAATAT-AGATAGA-TACTTATAACAAAAA
1 TTAAAATATAAATATCAGATA-ACTACTTATAACAAAAA
* * *
171934 TTAAACTATAAATTTCATATAACTACTTATAACAAAAA
1 TTAAAATATAAATATCAGATAACTACTTATAACAAAAA
171972 TTATAAATA
1 TTA-AAATA
171981 ATATGTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
37 14 0.35
38 22 0.55
39 4 0.10
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.33
Consensus pattern (38 bp):
TTAAAATATAAATATCAGATAACTACTTATAACAAAAA
Found at i:175077 original size:21 final size:21
Alignment explanation
Indices: 175045--175086 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
175035 GAATATATAT
* *
175045 AATATATTATTAGATAAAATA
1 AATATATTATTAAAAAAAATA
175066 AATAT-TTAATTAAAAAAAATA
1 AATATATT-ATTAAAAAAAATA
175087 CATGAGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AATATATTATTAAAAAAAATA
Found at i:175465 original size:19 final size:20
Alignment explanation
Indices: 175450--175487 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
175440 CATCAAATTT
175450 ATTAAAT-ATAATCAAAATA
1 ATTAAATCATAATCAAAATA
*
175469 ATTTAATCATAATCAAAAT
1 ATTAAATCATAATCAAAAT
175488 TCAATATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
ATTAAATCATAATCAAAATA
Found at i:178218 original size:32 final size:30
Alignment explanation
Indices: 178173--178288 Score: 128
Period size: 32 Copynumber: 3.8 Consensus size: 30
178163 ATTATAAAAG
*
178173 TTGATAAATTTAATGATTATTTTGTAACAT
1 TTGATAAATTTAATGATCATTTTGTAACAT
178203 GTTGATAAAATTTAATGATCATTTTGTAACAAT
1 -TTGAT-AAATTTAATGATCATTTTGTAAC-AT
* * *
178236 TTGA-AAAATTAATGA-CTATTTTATAATCGT
1 TTGATAAATTTAATGATC-ATTTTGTAA-CAT
*
178266 TTGATAAGTTTAATGATCATTTT
1 TTGATAAATTTAATGATCATTTT
178289 ATAATTTCTT
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
29 1 0.01
30 23 0.32
31 20 0.27
32 27 0.37
33 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (30 bp):
TTGATAAATTTAATGATCATTTTGTAACAT
Found at i:178293 original size:31 final size:30
Alignment explanation
Indices: 178164--178292 Score: 127
Period size: 30 Copynumber: 4.2 Consensus size: 30
178154 TTTATAATAA
* * *
178164 TTATAAAAGTTGATAAATTTAATGATTATT
1 TTATAACATTTGATAAATTTAATGATCATT
*
178194 TTGTAACATGTTGATAAAATTTAATGATCATT
1 TTATAACAT-TTGAT-AAATTTAATGATCATT
* *
178226 TTGTAACAATTTGA-AAAATTAATGA-CTATT
1 TTATAAC-ATTTGATAAATTTAATGATC-ATT
* *
178256 TTATAATCGTTTGATAAGTTTAATGATCATT
1 TTATAA-CATTTGATAAATTTAATGATCATT
178287 TTATAA
1 TTATAA
178293 TTTCTTGAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
29 1 0.01
30 29 0.35
31 24 0.29
32 27 0.33
33 2 0.02
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.45
Consensus pattern (30 bp):
TTATAACATTTGATAAATTTAATGATCATT
Found at i:178303 original size:61 final size:62
Alignment explanation
Indices: 178164--178292 Score: 156
Period size: 62 Copynumber: 2.1 Consensus size: 62
178154 TTTATAATAA
* * * *
178164 TTATAA-AAGTTGATAAATTTAATGATTATTTTGTAACATGTTGATAAAATTTAATGATCATT
1 TTATAACAATTTGA-AAAATTAATGACTATTTTATAACATGTTGATAAAATTTAATGATCATT
* * *
178226 TTGTAACAATTTGAAAAATTAATGACTATTTTATAATCGT-TTGAT-AAGTTTAATGATCATT
1 TTATAACAATTTGAAAAATTAATGACTATTTTATAA-CATGTTGATAAAATTTAATGATCATT
178287 TTATAA
1 TTATAA
178293 TTTCTTGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
61 20 0.35
62 29 0.51
63 8 0.14
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.45
Consensus pattern (62 bp):
TTATAACAATTTGAAAAATTAATGACTATTTTATAACATGTTGATAAAATTTAATGATCATT
Found at i:179277 original size:21 final size:21
Alignment explanation
Indices: 179253--179349 Score: 72
Period size: 20 Copynumber: 4.7 Consensus size: 21
179243 TATCGCAAAT
179253 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
179274 TCGCATTGCGAT-TTTTCATT
1 TCGCGTTGCGATAGTTGAAAA
* ** **
179294 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
179314 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
179335 TCGCGTTGCAATAGT
1 TCGCGTTGCGATAGT
179350 CTACAGTTGT
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 33 0.54
21 28 0.46
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.37
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:179302 original size:20 final size:20
Alignment explanation
Indices: 179274--179325 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
179264 TAGTTGAAAA
* *
179274 TCGCATTGCGATTTTTCATT
1 TCGCGTTGCGATTTTCCATT
179294 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
179314 TCGCGTTGCGAT
1 TCGCGTTGCGAT
179326 AGTTGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:179891 original size:17 final size:17
Alignment explanation
Indices: 179869--179901 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
179859 CTTGAAATTT
*
179869 TATGAATATTTAAAATA
1 TATGAAGATTTAAAATA
179886 TATGAAGATTTAAAAT
1 TATGAAGATTTAAAAT
179902 TTTTATGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
TATGAAGATTTAAAATA
Found at i:180462 original size:20 final size:20
Alignment explanation
Indices: 180437--180475 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
180427 GCAACGAATT
180437 TGGAAAATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAAA
*
180457 TGGAAATTCGCAACGCGAA
1 TGGAAAATCGCAACGCGAA
180476 CTTGGACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.21, G:0.26, T:0.13
Consensus pattern (20 bp):
TGGAAAATCGCAACGCGAAA
Found at i:184838 original size:17 final size:18
Alignment explanation
Indices: 184816--184851 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
184806 TAACGACACC
184816 GTTTTTACTTA-TTTTTT
1 GTTTTTACTTACTTTTTT
*
184833 GTTTTTGCTTACTTTTTT
1 GTTTTTACTTACTTTTTT
184851 G
1 G
184852 AATAATTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.08, C:0.08, G:0.11, T:0.72
Consensus pattern (18 bp):
GTTTTTACTTACTTTTTT
Found at i:189014 original size:22 final size:23
Alignment explanation
Indices: 188981--189028 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
188971 TTAATTTATA
188981 AAACATTAAATTATAAAGTA-TT
1 AAACATTAAATTATAAAGTAGTT
*
189003 AAACA-TATAATTATAAATTAGTT
1 AAACATTA-AATTATAAAGTAGTT
189026 AAA
1 AAA
189029 ACTCTAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 2 0.09
22 16 0.70
23 5 0.22
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (23 bp):
AAACATTAAATTATAAAGTAGTT
Found at i:190568 original size:22 final size:21
Alignment explanation
Indices: 190542--190629 Score: 63
Period size: 23 Copynumber: 4.0 Consensus size: 21
190532 TAAATGTTGT
190542 ATTTTAATTAAATTATATTTAA
1 ATTTTAA-TAAATTATATTTAA
* * *
190564 ATTTTTAACTAATTTATAATTAT
1 A-TTTTAA-TAAATTATATTTAA
**
190587 ATATTTAATATTTTATAATTTAA
1 AT-TTTAATAAATTAT-ATTTAA
190610 CATTTT-ATAAATTA-ATTTAA
1 -ATTTTAATAAATTATATTTAA
190630 TAATATTTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
20 6 0.11
22 15 0.28
23 30 0.57
24 2 0.04
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTAATAAATTATATTTAA
Found at i:190609 original size:15 final size:15
Alignment explanation
Indices: 190583--190625 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
190573 TAATTTATAA
190583 TTATATATTTAATATT
1 TTATA-ATTTAATATT
*
190599 TTATAATTTAACATT
1 TTATAATTTAATATT
*
190614 TTATAAATTAAT
1 TTATAATTTAAT
190626 TTAATAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATAATTTAATATT
Found at i:198276 original size:2 final size:2
Alignment explanation
Indices: 198269--198363 Score: 190
Period size: 2 Copynumber: 47.5 Consensus size: 2
198259 AATCTTGAGA
198269 AT AT AT AT AT AT 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
198311 AT AT AT AT AT AT 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
198353 AT AT AT AT AT A
1 AT AT AT AT AT A
198364 GATGGATATG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 93 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:198444 original size:2 final size:2
Alignment explanation
Indices: 198437--198475 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
198427 TGAACATGTG
198437 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
198476 GTCTAAGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:199320 original size:149 final size:149
Alignment explanation
Indices: 199132--199446 Score: 560
Period size: 149 Copynumber: 2.1 Consensus size: 149
199122 GAGTCGAGGG
* *
199132 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACAAGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACAAGTGTGAAGTCTTGAAAGACACAT
*
199197 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
199262 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* * *
199281 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACAAGTGTGAAGTCTTGAAAGACACAT
199346 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
199411 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
199430 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
199447 TGCAATTATA
Statistics
Matches: 159, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
148 1 0.01
149 158 0.99
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACAAGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:199447 original size:23 final size:23
Alignment explanation
Indices: 199414--199458 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
199404 ATCATTATAT
*
199414 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
199437 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
199459 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:201135 original size:17 final size:17
Alignment explanation
Indices: 201115--201167 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
201105 ATTTCTTAAT
201115 AACATTTATTTAA-ATGA
1 AACATTTA-TTAACATGA
*
201132 AACAATTTACTAACATGA
1 AAC-ATTTATTAACATGA
201150 AA-ATTTAGTTAACATGA
1 AACATTTA-TTAACATGA
201167 A
1 A
201168 TTACCCTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 5 0.16
17 15 0.48
18 11 0.35
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.34
Consensus pattern (17 bp):
AACATTTATTAACATGA
Found at i:204240 original size:26 final size:25
Alignment explanation
Indices: 204191--204240 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
204181 TTTAAAATTA
204191 TAAATTTTATAAAAAAATATAAAAT
1 TAAATTTTATAAAAAAATATAAAAT
204216 TAAATTATTA-AAATAAAATATAAAA
1 TAAATT-TTATAAA-AAAATATAAAA
204241 ATAATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
TAAATTTTATAAAAAAATATAAAAT
Found at i:204241 original size:13 final size:13
Alignment explanation
Indices: 204204--204244 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
204194 ATTTTATAAA
*
204204 AAAATATAAAATT
1 AAAATATAAAAAT
* *
204217 AAATTATTAAAAT
1 AAAATATAAAAAT
204230 AAAATATAAAAAT
1 AAAATATAAAAAT
204243 AA
1 AA
204245 TTAAATTATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATATAAAAAT
Found at i:206073 original size:27 final size:27
Alignment explanation
Indices: 206035--206101 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
206025 CAAAACAGTG
206035 CTGAATGATTCAGCATAGAAGTACATT
1 CTGAATGATTCAGCATAGAAGTACATT
*
206062 CTGAATGATTCAACATAGAAGTACATT
1 CTGAATGATTCAGCATAGAAGTACATT
206089 CTGAATGATTCAG
1 CTGAATGATTCAG
206102 AGCCATTATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (27 bp):
CTGAATGATTCAGCATAGAAGTACATT
Found at i:207354 original size:27 final size:31
Alignment explanation
Indices: 207323--207394 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
207313 ATTGTATTGT
207323 TTATACCATTGAA-TTTAATTTT-G-TT-AA
1 TTATACCATTGAACTTTAATTTTCGTTTCAA
* * *
207350 TTATAACACTGAACTTTGATTTTCGTTTCAA
1 TTATACCATTGAACTTTAATTTTCGTTTCAA
207381 TTATACCATTGAAC
1 TTATACCATTGAAC
207395 CGTTAAATCG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 11 0.31
28 8 0.22
29 1 0.03
30 2 0.06
31 14 0.39
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (31 bp):
TTATACCATTGAACTTTAATTTTCGTTTCAA
Found at i:207456 original size:19 final size:19
Alignment explanation
Indices: 207418--207457 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
207408 ACGACATGAT
*
207418 GATGTGGTTGAATACTGTC
1 GATGTGGTTGAATACCGTC
* *
207437 GATGTGGTTGACTTCCGTC
1 GATGTGGTTGAATACCGTC
207456 GA
1 GA
207458 CGTAGACACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.17, C:0.15, G:0.33, T:0.35
Consensus pattern (19 bp):
GATGTGGTTGAATACCGTC
Found at i:210836 original size:60 final size:60
Alignment explanation
Indices: 210763--210899 Score: 147
Period size: 60 Copynumber: 2.3 Consensus size: 60
210753 TAATTAGGGT
* *
210763 AAAGTATAC-AAATGATCTCC-TGATTATA-ATATATTATTTTGTTGAAT-CCTCTAACTATTA
1 AAAGT-TACAAAATGATCTCCAT-ACTATAGAGAT-TTATTTTGTTGAATCCCT-TAACTATTA
* * * *
210823 AAAGTTACAAAATGATCTCCATACTATAGGGATTTGTTTTGTTGAGTCCCTTGACTATTA
1 AAAGTTACAAAATGATCTCCATACTATAGAGATTTATTTTGTTGAATCCCTTAACTATTA
*
210883 GAAGTTACAAAATGATC
1 AAAGTTACAAAATGATC
210900 ACTCGACTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
59 3 0.05
60 57 0.86
61 6 0.09
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (60 bp):
AAAGTTACAAAATGATCTCCATACTATAGAGATTTATTTTGTTGAATCCCTTAACTATTA
Found at i:211495 original size:60 final size:60
Alignment explanation
Indices: 211395--211511 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 60
211385 GACTTTTTTA
* * *
211395 AACTTTTAATAGTTAAGAGACTCAACAAAGCAACTCCCTATAATCGGGGGATCATTTTGT
1 AACTCTTAATAGTTAAGAGACTCAACAAAGCAAATCCCTATAATCAGGGGATCATTTTGT
* * *
211455 AACTCTTAATAGTTGAGAGACTCAACAAAG-AAATATCCTATAATTAGGGGATCATTT
1 AACTCTTAATAGTTAAGAGACTCAACAAAGCAAAT-CCCTATAATCAGGGGATCATTT
211512 ATGCACTTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
59 3 0.06
60 47 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (60 bp):
AACTCTTAATAGTTAAGAGACTCAACAAAGCAAATCCCTATAATCAGGGGATCATTTTGT
Found at i:214128 original size:18 final size:18
Alignment explanation
Indices: 214102--214140 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
214092 CTTTGATTGA
214102 TTGACTCAAAATGTCACT
1 TTGACTCAAAATGTCACT
*
214120 TTGAGTCAAAATGTCACT
1 TTGACTCAAAATGTCACT
214138 TTG
1 TTG
214141 TCTAGTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (18 bp):
TTGACTCAAAATGTCACT
Found at i:218977 original size:117 final size:118
Alignment explanation
Indices: 218834--219067 Score: 389
Period size: 118 Copynumber: 2.0 Consensus size: 118
218824 TATTACATGA
* *
218834 AATCCATATCATATTTTCAAACATTTGACATTATAAATATAGGTACCAAATGTGTAACA-TTTAT
1 AATCCATATAATATTTTCAAACATTTGACATTATAAATACAGGTACCAAATGTGTAACATTTTAT
* *
218898 AAATATATGTACCAAATTGGTTAAAAGAACATAGGTACCACATTTGTAAGTGG
66 AAATATATGCACCAAATTGGTTAAAAGAACATAGGTACCACATTCGTAAGTGG
* * * *
218951 AATCCATATAATATTTTTAAGCATTTGACTTTATAAATACATGTACCAAATGTGTAACATTTTAT
1 AATCCATATAATATTTTCAAACATTTGACATTATAAATACAGGTACCAAATGTGTAACATTTTAT
219016 AAATATATGCACCAAATTGGTTAAAAGAACATAGGTACCACATTCGTAAGTG
66 AAATATATGCACCAAATTGGTTAAAAGAACATAGGTACCACATTCGTAAGTG
219068 ACAAAATTGG
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
117 53 0.49
118 55 0.51
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (118 bp):
AATCCATATAATATTTTCAAACATTTGACATTATAAATACAGGTACCAAATGTGTAACATTTTAT
AAATATATGCACCAAATTGGTTAAAAGAACATAGGTACCACATTCGTAAGTGG
Found at i:221812 original size:149 final size:148
Alignment explanation
Indices: 221562--221875 Score: 495
Period size: 149 Copynumber: 2.1 Consensus size: 148
221552 TATAATTACA
*
221562 CCGAAGTG-CCGCGTAGAATTGCATCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
* * * * * *
221626 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAAGGACCAAGTATGTGCCTCA-AAGACCTCACAAATGTT
* *
221691 CCACAGAATATATATATATC
129 CCAAAGAATATACATATATC
*
221711 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCCTAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
*
221776 TCCTTAAGAATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCATAAATGTTCC
66 TCCTTAAGAATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCACAAATGTTCC
*
221841 AAAGAATATACATATGTC
131 AAAGAATATACATATATC
221859 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
221876 CCCTCGACTC
Statistics
Matches: 152, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
148 49 0.32
149 103 0.68
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (148 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCACAAATGTTCC
AAAGAATATACATATATC
Found at i:222421 original size:2 final size:2
Alignment explanation
Indices: 222414--222459 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
222404 TCTCTTAGAC
222414 AT AT AT AT AT AT 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
222456 AT AT
1 AT AT
222460 TCACATGTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.