Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005816.1 Hibiscus syriacus cultivar Beakdansim tig00013630_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: 141465
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:5782 original size:21 final size:21
Alignment explanation
Indices: 5753--5846 Score: 127
Period size: 21 Copynumber: 4.5 Consensus size: 21
5743 ATTCTAACTA
*
5753 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCTAAT
*
5774 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
* *
5795 TCGCATTGCGATTTACGT-AT
1 TCGCATTGCGATTTTCCTAAT
*
5815 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
*
5836 TCGCAATGCGA
1 TCGCATTGCGA
5847 ATAGTAAATC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
20 17 0.27
21 45 0.73
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCTAAT
Found at i:5785 original size:41 final size:39
Alignment explanation
Indices: 5740--5846 Score: 108
Period size: 41 Copynumber: 2.6 Consensus size: 39
5730 GATTCGCAAC
*
5740 GCGATT-CTAACTATCGCATTGCGATTTTCCAAATTCGCGTT
1 GCGATTCCTAA-T-TCGCATTGCGA-TTTACAAATTCGCGTT
**
5781 GCGATTTTCCTAATTCGCATTGCGATTTACGTATTCGCGTT
1 GCGA--TTCCTAATTCGCATTGCGATTTACAAATTCGCGTT
*
5822 GCGATTTTCCTAATTCGCAATGCGA
1 GCGA--TTCCTAATTCGCATTGCGA
5847 ATAGTAAATC
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
41 41 0.69
42 11 0.19
43 3 0.05
44 4 0.07
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (39 bp):
GCGATTCCTAATTCGCATTGCGATTTACAAATTCGCGTT
Found at i:5918 original size:20 final size:20
Alignment explanation
Indices: 5836--5908 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
5826 TTTTCCTAAT
5836 TCGCAATGCGAATA-GTAAA
1 TCGCAATGCGAATACGTAAA
* * *
5855 TCGCAATGTGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
5876 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
5896 TCGCAATGCGAAT
1 TCGCAATGCGAAT
5909 CTAACTATCG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
19 11 0.23
20 21 0.45
21 15 0.32
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:6182 original size:27 final size:27
Alignment explanation
Indices: 6126--6183 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
6116 CCATCGCGGC
**
6126 GAAATCCCTCACAACCATTCACGGTAA
1 GAAATCCCTCACAACCATTCACGAAAA
*
6153 GAAATCCCTCACAATCATTCA-GAAATA
1 GAAATCCCTCACAACCATTCACGAAA-A
6180 GAAA
1 GAAA
6184 ATTAACCTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (27 bp):
GAAATCCCTCACAACCATTCACGAAAA
Found at i:8441 original size:94 final size:93
Alignment explanation
Indices: 8242--8617 Score: 544
Period size: 94 Copynumber: 4.1 Consensus size: 93
8232 CTTATTGCTT
* * * *
8242 AGTAAATTTATTCGGTTGCTGTCAATACTGCTAAAC--TGT-TT-ATTAATACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
8303 ATTTGTCTTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
* *
8332 AGTAAATTTATTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTAACATTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
8397 ATTTGTCTTTATTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * *
8426 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTTTTTATCACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
8491 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * * * *
8520 AGTAAATTTGTTCGTTTGCTACCAATTCTGTTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
8585 CTTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
8613 AGTAA
1 AGTAA
8618 TGCAATCCAT
Statistics
Matches: 262, Mismatches: 19, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
90 35 0.13
92 3 0.01
93 27 0.10
94 197 0.75
ACGTcount: A:0.21, C:0.11, G:0.19, T:0.49
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:8756 original size:39 final size:39
Alignment explanation
Indices: 8708--8799 Score: 105
Period size: 39 Copynumber: 2.4 Consensus size: 39
8698 TCGTTTGGTT
* ** *
8708 GAAATGAAAATCGCAACGAGAGAA-TGAAAATTGCAACGC
1 GAAACGAAAATCGCAACGAGA-AACCAAAAATCGCAACGC
*
8747 GAAACGAAAATCGCAACGCGAAACCAAAAATCGCAACGC
1 GAAACGAAAATCGCAACGAGAAACCAAAAATCGCAACGC
* *
8786 GAAACTATAATCGC
1 GAAACGAAAATCGC
8800 GTTGCGATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 2 0.04
39 43 0.96
ACGTcount: A:0.48, C:0.22, G:0.20, T:0.11
Consensus pattern (39 bp):
GAAACGAAAATCGCAACGAGAAACCAAAAATCGCAACGC
Found at i:8757 original size:19 final size:19
Alignment explanation
Indices: 8708--8790 Score: 103
Period size: 20 Copynumber: 4.3 Consensus size: 19
8698 TCGTTTGGTT
* *
8708 GAAATGAAAATCGCAACGA
1 GAAACGAAAATCGCAACGC
* *
8727 GAGAATGAAAATTGCAACGC
1 GA-AACGAAAATCGCAACGC
8747 GAAACGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGC
*
8766 GAAACCAAAAATCGCAACGC
1 GAAA-CGAAAATCGCAACGC
8786 GAAAC
1 GAAAC
8791 TATAATCGCG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
19 22 0.39
20 35 0.61
ACGTcount: A:0.49, C:0.22, G:0.20, T:0.08
Consensus pattern (19 bp):
GAAACGAAAATCGCAACGC
Found at i:8818 original size:19 final size:19
Alignment explanation
Indices: 8796--8945 Score: 96
Period size: 19 Copynumber: 8.6 Consensus size: 19
8786 GAAACTATAA
8796 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
8815 TCGCTTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
8829 CCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
8848 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
8862 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
8881 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
8895 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* **
8914 TCGCATTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
8933 TCCGCGTTGCGAT
1 T-CGCGTTGCGAT
8946 AGACATTAAA
Statistics
Matches: 97, Mismatches: 18, Indels: 31
0.66 0.12 0.21
Matches are distributed among these distances:
14 26 0.27
16 9 0.09
17 9 0.09
19 43 0.44
20 10 0.10
ACGTcount: A:0.12, C:0.25, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:8841 original size:33 final size:33
Alignment explanation
Indices: 8799--8925 Score: 236
Period size: 33 Copynumber: 3.8 Consensus size: 33
8789 ACTATAATCG
* *
8799 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
8832 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
8865 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
8898 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
8926 AGTCATTTCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 92 1.00
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:8872 original size:14 final size:14
Alignment explanation
Indices: 8820--8907 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
8810 TCATTTCGCT
*
8820 TTGCGATTCCCTCG
1 TTGCGATTCTCTCG
*
8834 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
8851 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
*
8867 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
8884 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
8900 TTGCGATT
1 TTGCGATT
8908 TTCATTTCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 20 0.34
16 14 0.24
17 13 0.22
19 12 0.20
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:8944 original size:20 final size:19
Alignment explanation
Indices: 8898--8952 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
8888 GCGATTCTCT
**
8898 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
8917 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
*
8937 CGTTGCGATAGACATT
1 CGTTGCGATAGTCATT
8953 AAAATGATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:8991 original size:20 final size:20
Alignment explanation
Indices: 8919--8991 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
8909 TCATTTCGCA
**
8919 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCATG
* ***
8939 TTGCGATAGACATTAAAATG
1 TTGCGATAGTCATTTCCATG
8959 ATTGCGA-ACGTCATTTCCATG
1 -TTGCGATA-GTCATTTCCATG
8980 TTGCGATAGTCA
1 TTGCGATAGTCA
8992 AATGAATGCC
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
20 25 0.62
21 15 0.38
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCATG
Found at i:11253 original size:3 final size:3
Alignment explanation
Indices: 11245--11269 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11235 CTTTGGGGAT
11245 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
11270 ATGAATTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:11471 original size:24 final size:24
Alignment explanation
Indices: 11438--11490 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
11428 GAAAAATCAT
11438 TCAAAATCCGAGTATTGACCAAGA
1 TCAAAATCCGAGTATTGACCAAGA
* *
11462 TCAAAGTCCGGGTATTGACCAAGA
1 TCAAAATCCGAGTATTGACCAAGA
11486 TCAAA
1 TCAAA
11491 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (24 bp):
TCAAAATCCGAGTATTGACCAAGA
Found at i:11504 original size:24 final size:24
Alignment explanation
Indices: 11438--11504 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
11428 GAAAAATCAT
* * *
11438 TCAAAATCCGAGTATTGACCAAGA
1 TCAAAGTCCGAATACTGACCAAGA
** *
11462 TCAAAGTCCGGGTATTGACCAAGA
1 TCAAAGTCCGAATACTGACCAAGA
* *
11486 TCAAATTTCGAATACTGAC
1 TCAAAGTCCGAATACTGAC
11505 TAGTACTCAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
TCAAAGTCCGAATACTGACCAAGA
Found at i:12357 original size:20 final size:20
Alignment explanation
Indices: 12334--12404 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
12324 AGAATCTCGT
12334 TGCGATTTACTAAATCGCAA
1 TGCGATTTACTAAATCGCAA
*
12354 TGCGA-TTACGTAAATAGCAA
1 TGCGATTTAC-TAAATCGCAA
* ** *
12374 TGCGAATTAGGAAAATCGCAT
1 TGCGATTTA-CTAAATCGCAA
12395 TGCGATTTAC
1 TGCGATTTAC
12405 GTATTCGCGT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 4 0.10
20 19 0.46
21 18 0.44
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (20 bp):
TGCGATTTACTAAATCGCAA
Found at i:12389 original size:21 final size:21
Alignment explanation
Indices: 12345--12405 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
12335 GCGATTTACT
*
12345 AAATCGCAATGCG-ATTACGT
1 AAATCGCAATGCGAATTACGA
* *
12365 AAATAGCAATGCGAATTAGGA
1 AAATCGCAATGCGAATTACGA
* *
12386 AAATCGCATTGCGATTTACG
1 AAATCGCAATGCGAATTACG
12406 TATTCGCGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 12 0.36
21 21 0.64
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (21 bp):
AAATCGCAATGCGAATTACGA
Found at i:12454 original size:21 final size:21
Alignment explanation
Indices: 12430--12475 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
12420 ATTTCGCATT
12430 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
12451 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
12472 GCGA
1 GCGA
12476 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:19935 original size:20 final size:19
Alignment explanation
Indices: 19892--19935 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
19882 GAGGGCTATA
*
19892 TTCAACTTCTCAACTCACT
1 TTCAACTTCACAACTCACT
* *
19911 CTCAACATTCACAATTCACT
1 TTCAAC-TTCACAACTCACT
19931 TTCAA
1 TTCAA
19936 AGTGTTTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (19 bp):
TTCAACTTCACAACTCACT
Found at i:26191 original size:16 final size:16
Alignment explanation
Indices: 26172--26203 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26162 TTAATTTTTT
*
26172 TTATTTATTCTTTTAA
1 TTATTTATTCGTTTAA
26188 TTATTTATTCGTTTAA
1 TTATTTATTCGTTTAA
26204 ATTTTACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (16 bp):
TTATTTATTCGTTTAA
Found at i:34658 original size:35 final size:35
Alignment explanation
Indices: 34609--34718 Score: 114
Period size: 35 Copynumber: 3.1 Consensus size: 35
34599 TGTGTATTTT
* * *
34609 AAGTAGAACAGAAGGAATCATCACACTTTCGATTC
1 AAGTAAAACGGAAGGAATCATCGCACTTTCGATTC
* * *
34644 AAGTAAAATGGAAGGAAGT-ATCGCACTTTCGGTTT
1 AAGTAAAACGGAAGGAA-TCATCGCACTTTCGATTC
* * * *
34679 AAGTAGAACGAAAGGAAGCATCGTACTTTCGATTC
1 AAGTAAAACGGAAGGAATCATCGCACTTTCGATTC
34714 AAGTA
1 AAGTA
34719 TTCATATTTT
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
35 59 0.98
36 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (35 bp):
AAGTAAAACGGAAGGAATCATCGCACTTTCGATTC
Found at i:43801 original size:81 final size:82
Alignment explanation
Indices: 43654--43815 Score: 281
Period size: 81 Copynumber: 2.0 Consensus size: 82
43644 TGACAAAAAC
* * *
43654 ATACATAAATCATAAATAAACTATATGAACATAATAAAGTTTTAAAGTTAATTTTTTCAACAAAA
1 ATACACAAATCATAAATAAACTATATGAACATAATAAAGTCTTAAAGTTAATTTGTTCAACAAAA
*
43719 CAATCTTCTTGAAATCG
66 CAATCTTCTTAAAATCG
43736 ATACACAAATCATAAATAAACTATATGAACAT-ATAAAGTCTTAAAGTTAATTTGTTCAACAAAA
1 ATACACAAATCATAAATAAACTATATGAACATAATAAAGTCTTAAAGTTAATTTGTTCAACAAAA
43800 CAATCTTCTTAAAATC
66 CAATCTTCTTAAAATC
43816 CAAACAACTT
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
81 45 0.59
82 31 0.41
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.33
Consensus pattern (82 bp):
ATACACAAATCATAAATAAACTATATGAACATAATAAAGTCTTAAAGTTAATTTGTTCAACAAAA
CAATCTTCTTAAAATCG
Found at i:47867 original size:35 final size:35
Alignment explanation
Indices: 47821--47896 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
47811 AAAACAGTCC
* * *
47821 TCAATTGCATTCTAAACCCCAATTTCCATAGTAAT
1 TCAATTGCATTCTAAACCCCAAATTCCAAAATAAT
* *
47856 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTGCATTCTAAACCCCAAATTCCAAAATAAT
47891 TCAATT
1 TCAATT
47897 AAATTCAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.36
Consensus pattern (35 bp):
TCAATTGCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:48439 original size:130 final size:130
Alignment explanation
Indices: 48293--48540 Score: 406
Period size: 130 Copynumber: 1.9 Consensus size: 130
48283 TATTTATATA
* **
48293 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
48358 TTAGCACATAATCATGACACGTGTCATTGGTGACACATGTCACAACCTAATTATTTATATATGCT
66 TTAACACATAATCATGACACATGTCATTGGTGACACATGTCACAACCTAATTATTTATATATGCT
48423 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * * * *
48488 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATAATCATGACACATGTCATTGGTGACACATGTCACAACCTAATTA
48541 GAAGAAAATT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATAATCATGACACATGTCATTGGTGACACATGTCACAACCTAATTATTTATATATGCT
Found at i:48571 original size:130 final size:129
Alignment explanation
Indices: 48307--48571 Score: 291
Period size: 130 Copynumber: 2.0 Consensus size: 129
48297 ATTTGGTCCT
* ** *
48307 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATAATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATAATCA
* *** * * **** *
48372 TGACACGTGTCATTGGTGACACATGTCACAACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACAACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
*
48437 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATAATCA
* * * * *
48502 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACAACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
48566 -A
128 CA
48567 AAATT
1 AAATT
48572 TGGGTCTTGG
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
130 98 0.88
132 8 0.07
133 5 0.05
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATAATCA
TGACACATGTCATTGGTGACACATGTCACAACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:48899 original size:28 final size:26
Alignment explanation
Indices: 48868--48928 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
48858 AGTTGATACA
*
48868 ATATTTTCAAAGAATAAATTTAAGATTT
1 ATATTTT-AAA-AATAAATTTAAGAATT
* * *
48896 ATATTTTTAAACTAAATTTAATAATT
1 ATATTTTAAAAATAAATTTAAGAATT
48922 ATATTTT
1 ATATTTT
48929 TCATATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 20 0.69
27 2 0.07
28 7 0.24
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (26 bp):
ATATTTTAAAAATAAATTTAAGAATT
Found at i:50254 original size:24 final size:24
Alignment explanation
Indices: 50227--50277 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
50217 TTTTATGTTA
*
50227 AAGGATGCG-AACGTATAAAAATTT
1 AAGGATGAGTAACGTAT-AAAATTT
* *
50251 AAGGGTGAGTAACTTATAAAATTT
1 AAGGATGAGTAACGTATAAAATTT
50275 AAG
1 AAG
50278 AGACGAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.45, C:0.06, G:0.22, T:0.27
Consensus pattern (24 bp):
AAGGATGAGTAACGTATAAAATTT
Found at i:53755 original size:20 final size:20
Alignment explanation
Indices: 53727--54018 Score: 164
Period size: 20 Copynumber: 14.5 Consensus size: 20
53717 GATTTTCCAG
* *
53727 AATCACAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
* *
53747 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
* ** *
53767 AATCGCAACGCGATTTTGAC
1 AATCGCAACGCGAATACGAA
* * * *
53787 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* * *
53808 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
53828 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
* * *
53849 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* *
53869 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* * *
53889 AATCACAACGCGTAT-CTATA
1 AATCGCAACGCGAATACGA-A
* *
53909 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* * *
53929 AATCGCAATGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
* *
53949 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGAA
* *
53969 AATCGTAATGCGAATAC-ATA
1 AATCGCAACGCGAATACGA-A
* *
53989 AATCGCAATGCGAAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
54009 AATCGCAACG
1 AATCGCAACG
54019 AGATTCTGAC
Statistics
Matches: 213, Mismatches: 46, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
19 4 0.02
20 173 0.81
21 36 0.17
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:53833 original size:41 final size:40
Alignment explanation
Indices: 53788--54018 Score: 275
Period size: 40 Copynumber: 5.7 Consensus size: 40
53778 GATTTTGACT
* *
53788 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
*
53829 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
* **
53870 ATCGCAACGAGAATACGTAAATCACAACGCGTATCTATAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* *
53910 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* * * * * * *
53950 ATCGCAATGCGAATACGTAAATCGTAATGCGAATACATAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* *
53990 ATCGCAATGCGAAT-CTGTAAATCGCAACG
1 ATCGCAACGAGAATAC-GTAAATCGCAACG
54019 AGATTCTGAC
Statistics
Matches: 170, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 114 0.67
41 55 0.32
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (40 bp):
ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
Found at i:53950 original size:60 final size:61
Alignment explanation
Indices: 53727--54018 Score: 224
Period size: 60 Copynumber: 4.8 Consensus size: 61
53717 GATTTTCCAG
* * * * * *
53727 AATCACAACGCGAATATGAAAATCGCAACGCGAA-CATATAAATCGCAACGCG-AT--TTTGA
1 AATCGCAACGAGAATACGTAAATCGCAACGCGAATC-TGTAAATCGCAACGCGAATACTAT-A
* * * * *
53786 CTATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAC-AATACGTA-A
1 -AATCGCAACGAGAATACGT-AAATCGCAACGCGAATCTGTAAATCGCAACG-CGAATAC-TATA
* * * * * *
53849 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATAC-GTAAATCACAACGCGTAT-CTATA
1 AATCGCAACGAGAATACGTAAATCGCAACGCGAAT-CTGTAAATCGCAACGCGAATACTATA
* * * *
53909 AATCGCAACGAGAATACGTAAATCGCAATGCGTATCTGTAAATCGCAATGCGAATAC-GTA
1 AATCGCAACGAGAATACGTAAATCGCAACGCGAATCTGTAAATCGCAACGCGAATACTATA
* * * * *
53969 AATCGTAATGCGAATACATAAATCGCAATGCGAATCTGTAAATCGCAACG
1 AATCGCAACGAGAATACGTAAATCGCAACGCGAATCTGTAAATCGCAACG
54019 AGATTCTGAC
Statistics
Matches: 187, Mismatches: 33, Indels: 24
0.77 0.14 0.10
Matches are distributed among these distances:
59 3 0.02
60 105 0.56
61 55 0.29
62 22 0.12
63 1 0.01
65 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (61 bp):
AATCGCAACGAGAATACGTAAATCGCAACGCGAATCTGTAAATCGCAACGCGAATACTATA
Found at i:54928 original size:24 final size:24
Alignment explanation
Indices: 54877--54930 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
54867 GTATTCAAAA
*
54877 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGAAC
* *
54901 TTTGATCTTGGTCAATACTCGAAT
1 TTTGATCTTGGTCAATACCCGAAC
54925 TTTGAT
1 TTTGAT
54931 GATTTTTCAA
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:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGAAC
Found at i:57506 original size:33 final size:33
Alignment explanation
Indices: 57469--57615 Score: 195
Period size: 33 Copynumber: 4.3 Consensus size: 33
57459 GGAAATTACT
57469 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
*
57502 ATCGCAACGCGGAAATGACTATCGCAATGCGAAATGAAA
1 ATCGCAA--C-GAGA-GA--ATCGCAATGCGAAATGAAA
*
57541 ATCGCAATGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
* *
57574 ATCGCAACGAGGGAATCGCAATACGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
*
57607 ATCGAAACG
1 ATCGCAACG
57616 TGAATTTAGT
Statistics
Matches: 101, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
33 64 0.63
35 3 0.03
36 6 0.06
37 2 0.02
39 26 0.26
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
Found at i:57518 original size:20 final size:19
Alignment explanation
Indices: 57482--57580 Score: 118
Period size: 19 Copynumber: 5.4 Consensus size: 19
57472 GCAACGAGAG
57482 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
57501 AATCGCAACGCGGAAATGAC
1 AATCGCAATGC-GAAATGAA
*
57521 TATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
57540 AATCGCAAT--G--A-GAG
1 AATCGCAATGCGAAATGAA
57554 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
57573 AATCGCAA
1 AATCGCAA
57581 CGAGGGAATC
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
14 11 0.17
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 35 0.53
20 16 0.24
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:57553 original size:72 final size:73
Alignment explanation
Indices: 57442--57582 Score: 221
Period size: 72 Copynumber: 1.9 Consensus size: 73
57432 CAATCATCTT
* * **
57442 AATGTCTATCGCAACGCGGAAATTACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGC
1 AATGACTATCGCAACGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGC
57507 AACGCGGA
66 AACGCGGA
* *
57515 AATGACTATCGCAATGC-GAAATGAAAATCGCAATGAGAGAATCGCAATGCGAAATGAAAATCGC
1 AATGACTATCGCAACGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGC
57579 AACG
66 AACG
57583 AGGGAATCGC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 47 0.76
73 15 0.24
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (73 bp):
AATGACTATCGCAACGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGC
AACGCGGA
Found at i:57644 original size:19 final size:19
Alignment explanation
Indices: 57620--57691 Score: 91
Period size: 19 Copynumber: 4.1 Consensus size: 19
57610 GAAACGTGAA
57620 TTTAGTTTCGCGTTGCGAT
1 TTTAGTTTCGCGTTGCGAT
57639 TTTAGTTTCGCGTTGCGAT
1 TTTAGTTTCGCGTTGCGAT
57658 TTT-G--T--CGTTGCGAT
1 TTTAGTTTCGCGTTGCGAT
* *
57672 TTTAATTTCGCATTGCGAT
1 TTTAGTTTCGCGTTGCGAT
57691 T
1 T
57692 CACTCGTTGC
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
14 12 0.26
16 1 0.02
17 1 0.02
18 1 0.02
19 31 0.67
ACGTcount: A:0.12, C:0.15, G:0.24, T:0.49
Consensus pattern (19 bp):
TTTAGTTTCGCGTTGCGAT
Found at i:57672 original size:33 final size:32
Alignment explanation
Indices: 57630--57723 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 32
57620 TTTAGTTTCG
* ***
57630 CGTTGCGATTTTAGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTA-TTTCGCATTGCGATTCACT
57663 CGTTGCGATTTTAATTTCGCATTGCGATTCACT
1 CGTTGCGATTTT-ATTTCGCATTGCGATTCACT
57696 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTT-ATTTCGCATTGCGAT
57724 AGTCATTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 54 0.98
34 1 0.02
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.45
Consensus pattern (32 bp):
CGTTGCGATTTTATTTCGCATTGCGATTCACT
Found at i:57722 original size:19 final size:17
Alignment explanation
Indices: 57620--57723 Score: 67
Period size: 19 Copynumber: 6.0 Consensus size: 17
57610 GAAACGTGAA
57620 TTTAGTTTCGCGTTGCGAT
1 TTTA-TTTCGC-TTGCGAT
57639 TTTAGTTTCGCGTTGCGA-
1 TTTA-TTTCGC-TTGCGAT
*
57657 TTT-TGTCG-TTGCGAT
1 TTTATTTCGCTTGCGAT
57672 TTTAATTTCGCATTGCGA-
1 TTT-ATTTCGC-TTGCGAT
* *
57690 TTCA-CTCG-TTGCGAT
1 TTTATTTCGCTTGCGAT
57705 TTTCATTTCGCATTGCGAT
1 TTT-ATTTCGC-TTGCGAT
57724 AGTCATTTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
14 12 0.17
15 5 0.07
16 8 0.12
17 8 0.12
18 5 0.07
19 31 0.45
ACGTcount: A:0.13, C:0.18, G:0.22, T:0.46
Consensus pattern (17 bp):
TTTATTTCGCTTGCGAT
Found at i:57856 original size:14 final size:14
Alignment explanation
Indices: 57839--57865 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57829 AACAAACCAA
57839 CTTTTACAAATCAT
1 CTTTTACAAATCAT
57853 CTTTTACAAATCA
1 CTTTTACAAATCA
57866 ATTAAACAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (14 bp):
CTTTTACAAATCAT
Found at i:59248 original size:21 final size:21
Alignment explanation
Indices: 59182--59248 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
59172 GTGAATCGGG
*
59182 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
59202 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
59224 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
59245 CTCT
1 CTCT
59249 CGAGGAACGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:61316 original size:19 final size:19
Alignment explanation
Indices: 61252--61350 Score: 144
Period size: 19 Copynumber: 5.1 Consensus size: 19
61242 TCTTTTGGTT
*
61252 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
61271 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
61291 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
61311 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
61330 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
61349 GA
1 GA
61351 TTTTGGTTTC
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 39 0.54
20 31 0.43
21 2 0.03
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:61394 original size:33 final size:33
Alignment explanation
Indices: 61346--61438 Score: 123
Period size: 33 Copynumber: 2.8 Consensus size: 33
61336 AAAATCGCAA
**
61346 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
* *
61379 TGCGATTTTCATTTCGCGTTGTGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
**
61412 TGCGATAGTCATTTCCGCGTTGCGATT
1 TGCGATTTTCATTT-CGCGTTGCGATT
61439 TTCATTCTCT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
33 41 0.79
34 11 0.21
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:61453 original size:20 final size:19
Alignment explanation
Indices: 61430--61482 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
61420 TCATTTCCGC
* *
61430 GTTGCGATTTTCATTCTCTT
1 GTTGCGATTTTAATT-TCAT
61450 GTTGCGATTTTTAATTTCAT
1 GTTGCGA-TTTTAATTTCAT
61470 GTTGCGATTTTAA
1 GTTGCGATTTTAA
61483 GTTTAGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 6 0.20
20 17 0.57
21 7 0.23
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (19 bp):
GTTGCGATTTTAATTTCAT
Found at i:62102 original size:40 final size:41
Alignment explanation
Indices: 62042--62255 Score: 251
Period size: 40 Copynumber: 5.3 Consensus size: 41
62032 CTTTAAAAAT
*
62042 CGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
* *
62083 CGCTTTGCGA-TTTACGTATTCTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
62123 CGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
* * * *
62163 CGCGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGA-A
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGAT-TTACGGATA
* * ** *
62203 TCGCGTTGCGATTTATA--TATTCGCGTTGCGATTTTCATATT
1 -CGCGTTGCGATTT-TACGTATTCTCGTTGCGATTTACGGATA
62244 CGCGTTGCGATT
1 CGCGTTGCGATT
62256 ATGGAAAATC
Statistics
Matches: 152, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 104 0.68
41 44 0.29
42 3 0.02
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.38
Consensus pattern (41 bp):
CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATA
Found at i:62193 original size:81 final size:81
Alignment explanation
Indices: 62039--62255 Score: 278
Period size: 81 Copynumber: 2.7 Consensus size: 81
62029 GCGCTTTAAA
* * * *
62039 AATCGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCTTTGCGA-TTTACGTATT
1 AATCGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATA
*
62103 CTCGTTGCGAT-TTACAG
65 CTCGTTGCGATAGT-CAG
62120 -ATACGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATA
1 AAT-CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATA
62184 CTCGTTGCGATAGTCAG
65 CTCGTTGCGATAGTCAG
** * * ** *
62201 AATCGCGTTGCGATTTATATATTCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 AATCGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGCGATT
62256 ATGGAAAATC
Statistics
Matches: 120, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
80 40 0.33
81 77 0.64
82 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (81 bp):
AATCGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATAC
TCGTTGCGATAGTCAG
Found at i:62226 original size:20 final size:20
Alignment explanation
Indices: 62041--62255 Score: 137
Period size: 20 Copynumber: 10.7 Consensus size: 20
62031 GCTTTAAAAA
*
62041 TCGCGTTGCGATTTTACGTAT
1 TCGCGTTGCGATTTT-CATAT
* **
62062 T-GTCGTTGCGATTTACGGAT
1 TCG-CGTTGCGATTTTCATAT
* * * *
62082 ACGCTTTGCGATTTACGTAT
1 TCGCGTTGCGATTTTCATAT
* * *
62102 TCTCGTTGCGATTTACAGAT
1 TCGCGTTGCGATTTTCATAT
* * *
62122 ACGCGTTGCGATTTACGTAT
1 TCGCGTTGCGATTTTCATAT
* * **
62142 TCTCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTTCATAT
* **
62162 ACGCGTTGCGATTTTACGGAT
1 TCGCGTTGCGATTTT-CATAT
* * ** * *
62183 ACTCGTTGCGATAGTCAGAA
1 TCGCGTTGCGATTTTCATAT
62203 TCGCGTTGCGATTTAT-ATAT
1 TCGCGTTGCGATTT-TCATAT
62223 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
62243 TCGCGTTGCGATT
1 TCGCGTTGCGATT
62256 ATGGAAAATC
Statistics
Matches: 158, Mismatches: 31, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
19 1 0.01
20 126 0.80
21 31 0.20
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:62354 original size:20 final size:19
Alignment explanation
Indices: 62305--62358 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
62295 ATTCTTCATA
*
62305 ATCGCGTTGCGATTCTGGG
1 ATCGTGTTGCGATTCTGGG
*
62324 AAC-TGATTTGCGATTCTGGAG
1 ATCGTG--TTGCGATTCTGG-G
62345 ATCGTGTTGCGATT
1 ATCGTGTTGCGATT
62359 TTTATTTCGC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 1 0.04
19 2 0.07
20 20 0.71
21 3 0.11
22 2 0.07
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.35
Consensus pattern (19 bp):
ATCGTGTTGCGATTCTGGG
Found at i:63255 original size:14 final size:14
Alignment explanation
Indices: 63236--63290 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
63226 AAATTTTAAA
63236 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
63250 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
63269 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
63283 CGTTGCGA
1 CGTTGCGA
63291 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:63453 original size:33 final size:33
Alignment explanation
Indices: 63411--63481 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
63401 AATACTAACT
*
63411 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
63444 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
63477 TGAAA
1 TGAAA
63482 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:63715 original size:22 final size:22
Alignment explanation
Indices: 63663--63717 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
63653 TGGTTGTGAG
**
63663 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
63685 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
63707 GGATTTCTTCG
1 GGATTTCTTCG
63718 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:63888 original size:20 final size:20
Alignment explanation
Indices: 63863--64056 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
63853 CTTTAAATAT
63863 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
63883 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
63905 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
63924 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
63944 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
63964 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
63984 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
64004 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
64024 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
64044 CGCGTTGCGATTT
1 CGCGTTGCGATTT
64057 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:64050 original size:60 final size:60
Alignment explanation
Indices: 63863--64056 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
63853 CTTTAAATAT
**
63863 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
63924 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
63984 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
64044 CGCGTTGCGATTT
1 CGCGTTGCGATTT
64057 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:64073 original size:21 final size:20
Alignment explanation
Indices: 64049--64125 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
64039 ATATTCGCGT
64049 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
64070 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
64090 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
64112 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
64126 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:64136 original size:20 final size:20
Alignment explanation
Indices: 64111--64162 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
64101 AAGAATCGCG
*
64111 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
64131 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
64151 TTGCGATTCTGG
1 TTGCGATTCTGG
64163 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:65554 original size:9 final size:9
Alignment explanation
Indices: 65505--65555 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
65495 ACCCTGACAA
65505 AAATAATAAT
1 AAATAA-AAT
*
65515 -AATAAATT
1 AAATAAAAT
*
65523 AAATTAAAT
1 AAATAAAAT
*
65532 TAATAAAAT
1 AAATAAAAT
65541 GAAATAAAAT
1 -AAATAAAAT
65551 AAATA
1 AAATA
65556 TTAATAATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
8 2 0.06
9 23 0.70
10 8 0.24
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (9 bp):
AAATAAAAT
Found at i:65627 original size:31 final size:31
Alignment explanation
Indices: 65592--65651 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
65582 TATGTTTCAA
** * *
65592 AAAAACATTTTTTAAACTATGTATTATATTT
1 AAAAACATTTTCAAAAATATATATTATATTT
*
65623 AAAAACGTTTTCAAAAATATATATTATAT
1 AAAAACATTTTCAAAAATATATATTATAT
65652 AGTTTTCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (31 bp):
AAAAACATTTTCAAAAATATATATTATATTT
Found at i:65717 original size:34 final size:32
Alignment explanation
Indices: 65643--65815 Score: 111
Period size: 34 Copynumber: 5.0 Consensus size: 32
65633 TCAAAAATAT
65643 ATATTATATAGTTTTCAAAAATGATTTTAAAA
1 ATATTATATAGTTTTCAAAAATGATTTTAAAA
* *
65675 ATATTATATAAGTTTTCCAAAATGTTTTGTTAAAACTA
1 ATATTATAT-AGTTTTCAAAAATG-ATT-TT-AAA--A
* *
65713 TATATTATATAAATTTTTCAAAAATGTTTTTAAAAA
1 -ATATTATAT--AGTTTTCAAAAATGATTTT-AAAA
*
65749 ATTATATATTATA-TTTTC-AAAATGATTTCAAAACTA
1 A-TAT-TA-TATAGTTTTCAAAAATGATTT-TAAA--A
*
65785 TATATTATATAATTTTC-AAAATG-TTTTAAAA
1 -ATATTATATAGTTTTCAAAAATGATTTTAAAA
65816 CTTATATATT
Statistics
Matches: 118, Mismatches: 7, Indels: 33
0.75 0.04 0.21
Matches are distributed among these distances:
31 1 0.01
32 9 0.08
33 16 0.14
34 21 0.18
35 21 0.18
36 12 0.10
37 3 0.03
38 10 0.08
39 12 0.10
40 13 0.11
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (32 bp):
ATATTATATAGTTTTCAAAAATGATTTTAAAA
Found at i:65766 original size:35 final size:35
Alignment explanation
Indices: 65616--65888 Score: 165
Period size: 35 Copynumber: 7.6 Consensus size: 35
65606 AACTATGTAT
* *
65616 TATA-TTT-AAAAACGTTTTCAAAAA-TATATATTA
1 TATATTTTCAAAAATGTTTTTAAAAATTATATA-TA
*
65649 TATAGTTTTCAAAAATGATTTTAAAAA-TAT-TATA
1 TATA-TTTTCAAAAATGTTTTTAAAAATTATATATA
* *
65683 TA-AGTTTTCCAAAATGTTTTGTTAAAACTATATATTATA
1 TATA-TTTTCAAAAATG-TTT-TTAAAAAT-TATA-TATA
*
65722 TAAATTTTTCAAAAATGTTTTTAAAAAATTATATAT-
1 TATA-TTTTCAAAAATGTTTTT-AAAAATTATATATA
* * *
65758 TATATTTTC-AAAATG-ATTTCAAAACTATATATTA
1 TATATTTTCAAAAATGTTTTTAAAAATTATATA-TA
*
65792 TATAATTTTC-AAAATG-TTTTAAAACTTATATATTGTA
1 TAT-ATTTTCAAAAATGTTTTTAAAAATTATATA---TA
* * **
65829 CATAAGTTTTCAAAAACGTTTTTAAAAACCATATA-A
1 TAT-A-TTTTCAAAAATGTTTTTAAAAATTATATATA
65865 TATATATTTCAAAAAATGTATTTT
1 TATAT-TTTC-AAAAATGT-TTTT
65889 TCAAAAACAT
Statistics
Matches: 193, Mismatches: 25, Indels: 40
0.75 0.10 0.16
Matches are distributed among these distances:
32 10 0.05
33 21 0.11
34 16 0.08
35 45 0.23
36 30 0.16
37 16 0.08
38 11 0.06
39 19 0.10
40 25 0.13
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (35 bp):
TATATTTTCAAAAATGTTTTTAAAAATTATATATA
Found at i:65805 original size:109 final size:104
Alignment explanation
Indices: 65623--65878 Score: 277
Period size: 107 Copynumber: 2.4 Consensus size: 104
65613 TATTATATTT
* *
65623 AAAAACGTTTTCAAAAATATATATTATATAGTTTTCAAAAATGATTTTAAAAATATTATATAAGT
1 AAAAACGTTTTTAAAAATATATA-T-TATA-TTTTC-AAAATGATTTAAAAAATATTATATAAGT
* *
65688 TTTCCAAAATGTTTTGTTAAAAC-TATATATTATATA-AATTTTTC
62 TTTCCAAAATG--TT-TTAAAACTTATATATTATACATAAGTTTTC
*
65732 AAAAATGTTTTTAAAAAATTATATATTATATTTTCAAAATGATTTCAAAACTATATATTATATAA
1 AAAAACGTTTTT-AAAAA-TATATATTATATTTTCAAAATGATTT-AAAA--A-ATATTATATAA
*
65797 -TTTT-CAAAATGTTTTAAAACTTATATATTGTACATAAGTTTTC
60 GTTTTCCAAAATGTTTTAAAACTTATATATTATACATAAGTTTTC
* *
65840 AAAAACGTTTTTAAAAACCATATAATATATATTTCAAAA
1 AAAAACGTTTTTAAAAA-TATATATTATAT-TTTCAAAA
65879 AATGTATTTT
Statistics
Matches: 128, Mismatches: 10, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
106 7 0.05
107 38 0.30
108 34 0.27
109 21 0.16
110 11 0.09
111 17 0.13
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (104 bp):
AAAAACGTTTTTAAAAATATATATTATATTTTCAAAATGATTTAAAAAATATTATATAAGTTTTC
CAAAATGTTTTAAAACTTATATATTATACATAAGTTTTC
Found at i:71685 original size:50 final size:51
Alignment explanation
Indices: 71634--71729 Score: 126
Period size: 50 Copynumber: 1.9 Consensus size: 51
71624 AGATTTTTAT
*
71634 TTTAATAAT-ATATAATAA-ATTATTAATA-ATGAATAATAATATTTATGTA
1 TTTAATAATAATATAATAATA-TATTAATATATGAATAAAAATATTTATGTA
* * *
71683 TTTAATATTAATATAATAATATATTAATATTTTAATAAAAATATTTA
1 TTTAATAATAATATAATAATATATTAATATATGAATAAAAATATTTA
71730 AAATATATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
49 8 0.20
50 17 0.43
51 15 0.38
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (51 bp):
TTTAATAATAATATAATAATATATTAATATATGAATAAAAATATTTATGTA
Found at i:71713 original size:29 final size:30
Alignment explanation
Indices: 71636--71741 Score: 78
Period size: 31 Copynumber: 3.5 Consensus size: 30
71626 ATTTTTATTT
**
71636 TAATAATATA-TAATAAATTATTAATAATGA-A
1 TAATAATATATTAAT--ATT-TTAATAAAAATA
* **
71667 TAATAATAT-TT-ATGTATTTAATATTAATA
1 TAATAATATATTAATAT-TTTAATAAAAATA
71696 TAATAATATATTAATATTTTAATAAAAATA
1 TAATAATATATTAATATTTTAATAAAAATA
71726 TTTAA-AATATATTAAT
1 --TAATAATATATTAAT
71742 TAATACTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
28 9 0.15
29 11 0.18
30 15 0.24
31 24 0.39
32 3 0.05
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (30 bp):
TAATAATATATTAATATTTTAATAAAAATA
Found at i:71717 original size:24 final size:23
Alignment explanation
Indices: 71681--71773 Score: 72
Period size: 22 Copynumber: 4.2 Consensus size: 23
71671 AATATTTATG
71681 TATTTAATA--TTAATATAATAA
1 TATTTAATATTTTAATATAATAA
71702 TATATTAATATTTTAATA-AA-AA
1 TAT-TTAATATTTTAATATAATAA
* *
71724 TATTTAAAATATATTAAT-TAATAC
1 TATTT--AATATTTTAATATAATAA
* * *
71748 TTTTTAA-AATTTAATATAATAC
1 TATTTAATATTTTAATATAATAA
71770 TATT
1 TATT
71774 ATTTTAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
21 11 0.19
22 22 0.38
23 14 0.24
24 11 0.19
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTTAATATTTTAATATAATAA
Found at i:77072 original size:22 final size:22
Alignment explanation
Indices: 77044--77087 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
77034 GAGCCAGAAC
77044 CAGAAAGGT-GGGGAAGGGGAGG
1 CAGAAA-GTCGGGGAAGGGGAGG
*
77066 CAGAAAGTCGGGGAGGGGGAGG
1 CAGAAAGTCGGGGAAGGGGAGG
77088 GGTGATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.30, C:0.07, G:0.59, T:0.05
Consensus pattern (22 bp):
CAGAAAGTCGGGGAAGGGGAGG
Found at i:80996 original size:11 final size:11
Alignment explanation
Indices: 80976--81013 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
80966 TATATTACTA
80976 AATATAAAAAT
1 AATATAAAAAT
*
80987 AATTTAAAAAT
1 AATATAAAAAT
*
80998 AATAAAAAAAT
1 AATATAAAAAT
81009 AATAT
1 AATAT
81014 TTTTTTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:81318 original size:35 final size:35
Alignment explanation
Indices: 81272--81347 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
81262 AAAACAATCA
* *
81272 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
81307 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
81342 TCAATT
1 TCAATT
81348 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:81885 original size:130 final size:130
Alignment explanation
Indices: 81744--81991 Score: 397
Period size: 130 Copynumber: 1.9 Consensus size: 130
81734 TATTTATATA
* **
81744 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATATGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATGTG
* * *
81809 TTAGCACATGATTATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
*
81874 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATGTG
* * * *
81939 TTAACACATGATCATGATATATGTTATTGGTGACACGTGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
81992 GAAGAAAATT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
130 107 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:82022 original size:130 final size:129
Alignment explanation
Indices: 81758--82022 Score: 282
Period size: 130 Copynumber: 2.0 Consensus size: 129
81748 ATTTGGTCCT
* ** * *
81758 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATATGACATGTGTTAGCACATGATTA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATGTGTTAACACATGATCA
* *** * * **** *
81823 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
*
81888 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATGTGTTAACACATGATCA
* * * * *
81953 TGATATATGTTATTGGTGACACGTGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
82017 -A
128 CA
82018 AAATT
1 AAATT
82023 TGGGTCTTGG
Statistics
Matches: 110, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
130 97 0.88
132 8 0.07
133 5 0.05
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:82343 original size:28 final size:27
Alignment explanation
Indices: 82312--82374 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
82302 AGTCGATACA
*
82312 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
82340 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
82368 ATATTTT
1 ATATTTT
82375 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:82475 original size:16 final size:18
Alignment explanation
Indices: 82454--82487 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
82444 ATTTCTTATT
82454 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
82470 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
82488 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:83040 original size:18 final size:17
Alignment explanation
Indices: 83000--83034 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
82990 TGATCTATGT
83000 TTAATTTTATATTTTAAA
1 TTAATTTTATA-TTTAAA
83018 TTAATTTTATA-TTAAA
1 TTAATTTTATATTTAAA
83034 T
1 T
83035 AATAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTAATTTTATATTTAAA
Found at i:83814 original size:7 final size:7
Alignment explanation
Indices: 83802--83831 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
83792 TTATTTATTG
83802 AAAATAT
1 AAAATAT
83809 AAAATAT
1 AAAATAT
83816 AAAATAT
1 AAAATAT
*
83823 AAAACAT
1 AAAATAT
83830 AA
1 AA
83832 TAAATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAATAT
Found at i:83870 original size:22 final size:23
Alignment explanation
Indices: 83836--83878 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
83826 ACATAATAAA
83836 TAATATTATTTATTATAAAAACT
1 TAATATTATTTATTATAAAAACT
*
83859 TAATATTA-TTATTTTAAAAA
1 TAATATTATTTATTATAAAAA
83879 TATTAGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATATTATTTATTATAAAAACT
Found at i:84046 original size:21 final size:23
Alignment explanation
Indices: 84021--84067 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
84011 TCTATAAAAA
*
84021 TAAAAATATT-AT-ATTATATTT
1 TAAAAATATTAATAAATATATTT
*
84042 TAAAATTATTAATAAATATATTT
1 TAAAAATATTAATAAATATATTT
84065 TAA
1 TAA
84068 GGATTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAAATATTAATAAATATATTT
Found at i:84082 original size:23 final size:22
Alignment explanation
Indices: 84021--84083 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 22
84011 TCTATAAAAA
* *
84021 TAAAAATA-TTATATTATATTT
1 TAAAATTATTTATAATATATTT
*
84042 TAAAATTATTAATAAATATATTT
1 TAAAATTATTTAT-AATATATTT
* *
84065 TAAGGATTTTTTATAATAT
1 TAA-AATTATTTATAATAT
84084 TATTAGACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 7 0.21
22 3 0.09
23 16 0.48
24 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (22 bp):
TAAAATTATTTATAATATATTT
Found at i:84263 original size:26 final size:26
Alignment explanation
Indices: 84217--84272 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
84207 TTAAAATAAG
84217 AATATAATAGTATCATATATTATTAT
1 AATATAATAGTATCATATATTATTAT
*
84243 AATATAATTGAGTAT-AT-TATTGTTAT
1 AATATAA-T-AGTATCATATATTATTAT
84269 AATA
1 AATA
84273 ATATTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 19 0.70
27 3 0.11
28 5 0.19
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (26 bp):
AATATAATAGTATCATATATTATTAT
Found at i:84278 original size:17 final size:16
Alignment explanation
Indices: 84256--84297 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
84246 ATAATTGAGT
*
84256 ATATTATTGTTATAATA
1 ATATTATTATTAT-ATA
*
84273 ATATTATTATTATATT
1 ATATTATTATTATATA
84289 ATATTATTA
1 ATATTATTA
84298 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
ATATTATTATTATATA
Found at i:84303 original size:28 final size:29
Alignment explanation
Indices: 84232--84306 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 29
84222 AATAGTATCA
*
84232 TATATTATT-ATAATATAATTGAGTATAT
1 TATATTATTAATAATATTATTGAGTATAT
* *
84260 TATTGTTA-TAATAATATTATT-ATTATAT
1 TA-TATTATTAATAATATTATTGAGTATAT
*
84288 TATATTATTAAAAATATTA
1 TATATTATTAATAATATTA
84307 ATAAATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 4 0.10
28 21 0.54
29 14 0.36
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
TATATTATTAATAATATTATTGAGTATAT
Found at i:84330 original size:23 final size:23
Alignment explanation
Indices: 84288--84342 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
84278 ATTATTATAT
84288 TATATTATTAAAAATATTAATAAA
1 TATATT-TTAAAAATATTAATAAA
* * *
84312 TATATTTTAAACATGTTAATAAT
1 TATATTTTAAAAATATTAATAAA
*
84335 TAAATTTT
1 TATATTTT
84343 TATTAAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATAAA
Found at i:84576 original size:14 final size:14
Alignment explanation
Indices: 84557--84588 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
84547 GAAAAGTGAG
*
84557 GAAAACATTTTCCT
1 GAAAACATTTTACT
84571 GAAAACATTTTACT
1 GAAAACATTTTACT
84585 GAAA
1 GAAA
84589 CAAACGAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (14 bp):
GAAAACATTTTACT
Found at i:84858 original size:51 final size:50
Alignment explanation
Indices: 84781--84931 Score: 239
Period size: 51 Copynumber: 3.0 Consensus size: 50
84771 TATTATTGAT
84781 GAGGCATATCGAAGGAGACCCAAAAAAACGACGGATTTTGTACGATAGGAC
1 GAGGCATATCGAAGGAGACCC-AAAAAACGACGGATTTTGTACGATAGGAC
*
84832 GAGGCATATCGAAGGAGACCCTAAAAAACGACGGATTTTGTACGATAGGAT
1 GAGGCATATCGAAGGAGACCC-AAAAAACGACGGATTTTGTACGATAGGAC
* * * *
84883 GAGGCATATCGAAGGACACCCAATAAACGAAGGATTTTGTTCGATAGGA
1 GAGGCATATCGAAGGAGACCCAAAAAACGACGGATTTTGTACGATAGGA
84932 ATGGATTGAG
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 25 0.27
51 69 0.73
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.19
Consensus pattern (50 bp):
GAGGCATATCGAAGGAGACCCAAAAAACGACGGATTTTGTACGATAGGAC
Found at i:86494 original size:20 final size:21
Alignment explanation
Indices: 86469--86511 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
86459 TCATAAAATC
*
86469 ATTTATGAGTA-CAAAATAAA
1 ATTTATCAGTATCAAAATAAA
86489 ATTTATCAGTATTCAAAATAAA
1 ATTTATCAGTA-TCAAAATAAA
86511 A
1 A
86512 CAGATTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
22 10 0.50
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (21 bp):
ATTTATCAGTATCAAAATAAA
Found at i:90983 original size:9 final size:11
Alignment explanation
Indices: 90961--90986 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
90951 TAAAAATTTT
90961 TATAAATAATA
1 TATAAATAATA
90972 TATAAATAATA
1 TATAAATAATA
90983 TATA
1 TATA
90987 TTAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TATAAATAATA
Found at i:92501 original size:22 final size:23
Alignment explanation
Indices: 92467--92509 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
92457 ACATAATAAA
92467 TAATATTATTTATTATAAAAACT
1 TAATATTATTTATTATAAAAACT
*
92490 TAATATTA-TTATTTTAAAAA
1 TAATATTATTTATTATAAAAA
92510 TATTAGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATATTATTTATTATAAAAACT
Found at i:92716 original size:23 final size:22
Alignment explanation
Indices: 92663--92717 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
92653 AATAAATATA
*
92663 TTATATTATATTTTAAAATTAT
1 TTATAATATATTTTAAAATTAT
*
92685 TAATAAATATATTTTAAGGAATT-T
1 TTAT-AATATATTTTAA--AATTAT
92709 TTATAATAT
1 TTATAATAT
92718 TATTAGACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 3 0.11
23 16 0.59
24 4 0.15
25 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
TTATAATATATTTTAAAATTAT
Found at i:92913 original size:17 final size:16
Alignment explanation
Indices: 92889--92931 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
92879 TATAATTGAG
*
92889 TATATTATTGTAATAT
1 TATATTATTATAATAT
*
92905 TATTATTATTATTATAT
1 TA-TATTATTATAATAT
92922 TATATTATTA
1 TATATTATTA
92932 AAAATATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TATATTATTATAATAT
Found at i:93299 original size:21 final size:21
Alignment explanation
Indices: 93270--93309 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
93260 TCCATCATGT
93270 ACTACCACAACAACATTGTGA
1 ACTACCACAACAACATTGTGA
* * *
93291 ACTATCACATCAATATTGT
1 ACTACCACAACAACATTGT
93310 ATATTGTCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.25, G:0.07, T:0.28
Consensus pattern (21 bp):
ACTACCACAACAACATTGTGA
Found at i:93640 original size:38 final size:38
Alignment explanation
Indices: 93590--93669 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
93580 TAGCAATAAT
93590 TGAATAAAACCAACATACATGTGATTATATATTATTGA
1 TGAATAAAACCAACATACATGTGATTATATATTATTGA
*
93628 TGAATAAGACCAACATACATGTGATTATATATTATTGA
1 TGAATAAAACCAACATACATGTGATTATATATTATTGA
93666 TGAA
1 TGAA
93670 GCATCTCGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (38 bp):
TGAATAAAACCAACATACATGTGATTATATATTATTGA
Found at i:93729 original size:50 final size:50
Alignment explanation
Indices: 93664--93765 Score: 168
Period size: 50 Copynumber: 2.0 Consensus size: 50
93654 ATATATTATT
* *
93664 GATGAAGCATCTCGAAGGAGACCCAAAAAACGACGGATTTTGTTCGATAG
1 GATGAAGCATATCGAAGGACACCCAAAAAACGACGGATTTTGTTCGATAG
* *
93714 GATGAGGCATATCGAAGGACACCCAATAAACGACGGATTTTGTTCGATAG
1 GATGAAGCATATCGAAGGACACCCAAAAAACGACGGATTTTGTTCGATAG
93764 GA
1 GA
93766 ATGGATTGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (50 bp):
GATGAAGCATATCGAAGGACACCCAAAAAACGACGGATTTTGTTCGATAG
Found at i:100444 original size:19 final size:20
Alignment explanation
Indices: 100420--100470 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
100410 AATGACCAAT
100420 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
100439 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
100459 AAAATCGCAACG
1 AAAATCGCAACG
100471 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:100464 original size:20 final size:20
Alignment explanation
Indices: 100420--100697 Score: 130
Period size: 20 Copynumber: 13.6 Consensus size: 20
100410 AATGACCAAT
* *
100420 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
100439 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
100459 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
100479 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* * **
100499 AAAATCGCAACGTGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
100520 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
100543 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
** * *
100563 TGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
100583 AGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
100606 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * * *
100626 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
100646 AGAATCGCAACGCGACTGAG
1 AAAATCGCAACGCGATTTAG
*
100666 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
*
100686 AGAATCGCAACG
1 AAAATCGCAACG
100698 TTAAAAAGAA
Statistics
Matches: 206, Mismatches: 41, Indels: 23
0.76 0.15 0.09
Matches are distributed among these distances:
19 17 0.08
20 147 0.71
21 13 0.06
23 29 0.14
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:100607 original size:63 final size:63
Alignment explanation
Indices: 100524--100695 Score: 233
Period size: 63 Copynumber: 2.8 Consensus size: 63
100514 GCTTCCAAGT
* ** * *
100524 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATTGAATCGCAATGCGATTGAGAGAG
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAA
100587 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAA
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAA
* * * * *
100650 TCGCAACGCGA-CT-G-AGAGAATCGCAACGCGATTTAGAGAATCGCAA
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAA
100696 CGTTAAAAAG
Statistics
Matches: 99, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
60 28 0.28
61 1 0.01
62 1 0.01
63 69 0.70
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (63 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAA
Found at i:100688 original size:40 final size:40
Alignment explanation
Indices: 100545--100697 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
100535 TTTAGAAGAA
* ** * *
100545 AATCGCAATGCGATTGATTGAATCGCAATGCGATTGAGAG
1 AATCGCAACGCGATTGAGAGAATCGCAACGCGACTGAGAG
* * *
100585 AGTCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAG
1 AATCGCAACGCGA-TT-G-AGAGAATCGCAACGCGACTGAGAG
* *
100628 AATCGCAATGCGACTGAGAGAATCGCAACGCGACTGAGAG
1 AATCGCAACGCGATTGAGAGAATCGCAACGCGACTGAGAG
*
100668 AATCGCAACGCGATTTAGAGAATCGCAACG
1 AATCGCAACGCGATTGAGAGAATCGCAACG
100698 TTAAAAAGAA
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
40 60 0.62
41 3 0.03
42 2 0.02
43 31 0.32
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (40 bp):
AATCGCAACGCGATTGAGAGAATCGCAACGCGACTGAGAG
Found at i:100711 original size:20 final size:20
Alignment explanation
Indices: 100688--100727 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
100678 CGATTTAGAG
*
100688 AATCGCAACGTTAAAAAGAA
1 AATCGCAACGGTAAAAAGAA
*
100708 AATCGCAACGGTCAAAAGAA
1 AATCGCAACGGTAAAAAGAA
100728 TAGTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.17, G:0.17, T:0.12
Consensus pattern (20 bp):
AATCGCAACGGTAAAAAGAA
Found at i:100816 original size:6 final size:6
Alignment explanation
Indices: 100805--100855 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
100795 GACACGTATT
100805 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
100853 ACC
1 ACC
100856 CGAGACGAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:101669 original size:20 final size:20
Alignment explanation
Indices: 101644--101687 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
101634 TTTTTAACTA
*
101644 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
101664 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
101684 TTCT
1 TTCT
101688 AAATCGCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:101697 original size:20 final size:20
Alignment explanation
Indices: 101674--101931 Score: 126
Period size: 20 Copynumber: 12.6 Consensus size: 20
101664 TTCTTTTTAA
101674 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
101694 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * * * *
101714 CATTGCGATTCTCTCAGTCA
1 CGTTGCGATTTTCTAAATCG
* * * * *
101734 CATTGCGATTCTCTCAGTCT
1 CGTTGCGATTTTCTAAATCG
*
101754 CATTGCGATTCTCTTCTAAATCG
1 CGTTGCGA-T-T-TTCTAAATCG
*** *
101777 CGTTGCGATTCAATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
101797 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
101820 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
101841 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
101859 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
101881 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
101901 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
101920 CGTTGCGATTTT
1 CGTTGCGATTTT
101932 ATTGGTCATT
Statistics
Matches: 186, Mismatches: 41, Indels: 23
0.74 0.16 0.09
Matches are distributed among these distances:
18 2 0.01
19 17 0.09
20 120 0.65
21 15 0.08
22 6 0.03
23 26 0.14
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:101801 original size:43 final size:43
Alignment explanation
Indices: 101684--101827 Score: 195
Period size: 43 Copynumber: 3.4 Consensus size: 43
101674 CGTTGCGATT
101684 TTCTAAATCGCGTTGCGATTCTCTCAATCGCATTGCGATTCTC
1 TTCTAAATCGCGTTGCGATTCTCTCAATCGCATTGCGATTCTC
* * * * *
101727 -TC--AGTCACATTGCGATTCTCTCAGTCTCATTGCGATTCTC
1 TTCTAAATCGCGTTGCGATTCTCTCAATCGCATTGCGATTCTC
** *
101767 TTCTAAATCGCGTTGCGATTCAATCAATCGCATTGCGATTTTC
1 TTCTAAATCGCGTTGCGATTCTCTCAATCGCATTGCGATTCTC
101810 TTCTAAATCGCGTTGCGA
1 TTCTAAATCGCGTTGCGA
101828 ACTTGGAAGC
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
40 33 0.39
41 2 0.02
42 2 0.02
43 48 0.56
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (43 bp):
TTCTAAATCGCGTTGCGATTCTCTCAATCGCATTGCGATTCTC
Found at i:101921 original size:19 final size:20
Alignment explanation
Indices: 101881--101931 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
101871 TTCTTTTTAA
*
101881 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
101901 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
101920 CGTTGCGATTTT
1 CGTTGCGATTTT
101932 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:102021 original size:2 final size:2
Alignment explanation
Indices: 102014--102073 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
102004 CGATTTTCTC
102014 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
102056 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
102074 CACATGGCCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102262 original size:24 final size:22
Alignment explanation
Indices: 102230--102274 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 22
102220 TCTTTTAAAA
102230 ATTTTATAAATTTGATATCTCTTG
1 ATTTTATAAATTT-ATAT-TCTTG
102254 ATTTTATAAATTTATATTCTT
1 ATTTTATAAATTTATATTCTT
102275 AATGTATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.19
23 4 0.19
24 13 0.62
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (22 bp):
ATTTTATAAATTTATATTCTTG
Found at i:102913 original size:31 final size:33
Alignment explanation
Indices: 102854--102917 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
102844 ATTATTAATT
*
102854 TTTAGTATAAATATAATTCTTTTTTTATCAAAC
1 TTTAGTATAAATATAATTCTATTTTTATCAAAC
*
102887 TTTATTATAAATATAA-T-TATTTTTATCAAAC
1 TTTAGTATAAATATAATTCTATTTTTATCAAAC
102918 CTGCATTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 13 0.45
32 1 0.03
33 15 0.52
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.52
Consensus pattern (33 bp):
TTTAGTATAAATATAATTCTATTTTTATCAAAC
Found at i:106092 original size:20 final size:20
Alignment explanation
Indices: 106055--106092 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
106045 TAATAGAGTG
**
106055 AAGTATCGATACTTAAGGAA
1 AAGTATCGATACCCAAGGAA
106075 AAGTATCGATACCCAAGG
1 AAGTATCGATACCCAAGG
106093 GGTCAATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (20 bp):
AAGTATCGATACCCAAGGAA
Found at i:109066 original size:41 final size:40
Alignment explanation
Indices: 109012--109370 Score: 326
Period size: 41 Copynumber: 8.7 Consensus size: 40
109002 GGTTCATCGA
* *
109012 TAGTGGCGTTTTT-TCAACAAACGCCGCAAAAGAGTAGTACTT
1 TAGTGGCGTTTTTAT--ACAAACGCCGCTAAAGACTA-TACTT
* *
109054 TAGTGGCGTTTTTACACAAACGCCGCTAAAGACTCATAATT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACT-ATACTT
* * * * * * *
109095 TAGTGGCATTTTTATAAAAACTCCACTATAGAATTGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAG-ACTATACTT
* * * *
109136 TAGTGGCATTTTTATACAAACGCCGTTATACATA-TATACTA
1 TAGTGGCGTTTTTATACAAACGCCGCTA-A-AGACTATACTT
* *
109177 TAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAATT
1 TAGTGGCGTTT-T-TATACAAACGCCGCTAAAGACT-ATACTT
109220 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACT-ATACTT
** * *
109261 TAACGGCGTTTTTATAAAAACGCCGCTAAAGACTCGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACT-ATACTT
* * * * *
109302 TAGTGGCGTTTTTATTCAAACGCCGCTATACACTTGTACTA
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGAC-TATACTT
*
109343 TAGTGGCGTTTGTGTTTACAAACGCCGC
1 TAGTGGCGTTT-T-TATACAAACGCCGC
109371 AAGTTTACAA
Statistics
Matches: 263, Mismatches: 42, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
41 198 0.75
42 23 0.09
43 42 0.16
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (40 bp):
TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTATACTT
Found at i:109075 original size:82 final size:82
Alignment explanation
Indices: 108978--109353 Score: 368
Period size: 82 Copynumber: 4.6 Consensus size: 82
108968 ACTTTAGCAA
* ** * *
108978 CGTTTTTATAAAAACGCCGC-AATAGGTTCAT-CGATAGTGGCGTTTTT-TCAACAAACGCCGCA
1 CGTTTTTATACAAACGCCGCTAA-AGACTCATACTATAGTGGCGTTTTTAT-AA-AAACGCCGCT
*
109040 AAAGAGTAGTACTTTAGTGG
63 AAAGACTAGTACTTTAGTGG
* * * * * * *
109060 CGTTTTTACACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATAAAAACTCCACTATA
1 CGTTTTTATACAAACGCCGCTAAAGACTCATACTATAGTGGCGTTTTTATAAAAACGCCGCTAAA
* *
109125 GAATTGTACTTTAGTGG
66 GACTAGTACTTTAGTGG
* * * * *
109142 CATTTTTATACAAACGCCGTTATACATA-T-ATACTATAGTGGCGTTTGTGTTTACAAACGCCGC
1 CGTTTTTATACAAACGCCGCTA-A-AGACTCATACTATAGTGGCGTTT-T-TATAAAAACGCCGC
*
109205 TAAAGACTCA-TAATTTAGTGG
62 TAAAGACT-AGTACTTTAGTGG
* **
109226 CGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAACGGCGTTTTTATAAAAACGCCGCTAAA
1 CGTTTTTATACAAACGCCGCTAAAGACTCATACTATAGTGGCGTTTTTATAAAAACGCCGCTAAA
*
109291 GACTCGTACTTTAGTGG
66 GACTAGTACTTTAGTGG
* * * **
109308 CGTTTTTATTCAAACGCCGCTATACACTTGTACTATAGTGGCGTTT
1 CGTTTTTATACAAACGCCGCTAAAGACTCATACTATAGTGGCGTTT
109354 GTGTTTACAA
Statistics
Matches: 236, Mismatches: 47, Indels: 22
0.77 0.15 0.07
Matches are distributed among these distances:
82 151 0.64
83 22 0.09
84 63 0.27
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (82 bp):
CGTTTTTATACAAACGCCGCTAAAGACTCATACTATAGTGGCGTTTTTATAAAAACGCCGCTAAA
GACTAGTACTTTAGTGG
Found at i:109241 original size:166 final size:166
Alignment explanation
Indices: 109011--109372 Score: 507
Period size: 166 Copynumber: 2.2 Consensus size: 166
109001 AGGTTCATCG
* * *
109011 ATAGTGGCGTTT-T-TTCAACAAACGCCGCAAAAGAGTAGTACTTTAGTGGCGTTTTTACACAAA
1 ATAGTGGCGTTTGTGTT-TACAAACGCCGCAAAAGACTAGTAATTTAGTGGCGTTTTTACACAAA
** * * *
109074 CGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATAAAAACTCCACTATAGAATTGTACTTTAG
65 CGCCGCTAAAGACTCATAATTTAACGGCATTTTTATAAAAACGCCACTAAAGAATCGTACTTTAG
*
109139 TGGCATTTTTATACAAACGCCGTTATACA-TATATACT
130 TGGCATTTTTATACAAACGCCGCTATACACT-TATACT
* *
109176 ATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCA-TAATTTAGTGGCGTTTTTATACAAA
1 ATAGTGGCGTTTGTGTTTACAAACGCCGCAAAAGACT-AGTAATTTAGTGGCGTTTTTACACAAA
* * * *
109240 CGCCGCTAAAGACTCATACTTTAACGGCGTTTTTATAAAAACGCCGCTAAAGACTCGTACTTTAG
65 CGCCGCTAAAGACTCATAATTTAACGGCATTTTTATAAAAACGCCACTAAAGAATCGTACTTTAG
* * *
109305 TGGCGTTTTTATTCAAACGCCGCTATACACTTGTACT
130 TGGCATTTTTATACAAACGCCGCTATACACTTATACT
109342 ATAGTGGCGTTTGTGTTTACAAACGCCGCAA
1 ATAGTGGCGTTTGTGTTTACAAACGCCGCAA
109373 GTTTACAAAT
Statistics
Matches: 174, Mismatches: 19, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
165 12 0.07
166 158 0.91
167 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (166 bp):
ATAGTGGCGTTTGTGTTTACAAACGCCGCAAAAGACTAGTAATTTAGTGGCGTTTTTACACAAAC
GCCGCTAAAGACTCATAATTTAACGGCATTTTTATAAAAACGCCACTAAAGAATCGTACTTTAGT
GGCATTTTTATACAAACGCCGCTATACACTTATACT
Found at i:109492 original size:12 final size:12
Alignment explanation
Indices: 109469--109499 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
109459 ATAGTTAATA
109469 TTATTA-AATTT
1 TTATTATAATTT
109480 TTATTATAATTT
1 TTATTATAATTT
109492 TTATTATA
1 TTATTATA
109500 TTAATTAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATTATAATTT
Found at i:111509 original size:30 final size:30
Alignment explanation
Indices: 111466--111566 Score: 94
Period size: 33 Copynumber: 3.1 Consensus size: 30
111456 CCCATCTTTT
* *
111466 GTAAACTTGGACATGTTGCAATCTTTTGTAA
1 GTAAAATT-GACATGTTGCCATCTTTTGTAA
* *
111497 GTAAAATTGACATGTTGCTGCCATATTCTGTAA
1 GTAAAATTGACATG-T--TGCCATCTTTTGTAA
*
111530 GTAAAATTGACATATTGCTGCCATCTTTTGTAA
1 GTAAAATTGAC--A-TGTTGCCATCTTTTGTAA
111563 GTAA
1 GTAA
111567 GCTTAATTGG
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
30 6 0.11
31 8 0.14
33 40 0.70
35 1 0.02
36 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.38
Consensus pattern (30 bp):
GTAAAATTGACATGTTGCCATCTTTTGTAA
Found at i:111534 original size:33 final size:33
Alignment explanation
Indices: 111492--111566 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
111482 TGCAATCTTT
*
111492 TGTAAGTAAAATTGACATGTTGCTGCCATATTC
1 TGTAAGTAAAATTGACATATTGCTGCCATATTC
* *
111525 TGTAAGTAAAATTGACATATTGCTGCCATCTTT
1 TGTAAGTAAAATTGACATATTGCTGCCATATTC
111558 TGTAAGTAA
1 TGTAAGTAA
111567 GCTTAATTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.37
Consensus pattern (33 bp):
TGTAAGTAAAATTGACATATTGCTGCCATATTC
Found at i:112983 original size:21 final size:21
Alignment explanation
Indices: 112959--113017 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
112949 TGATTTATTA
** *
112959 TTATGGATTTCATTTTTTTTG
1 TTATGGATTTCAAGTTTGTTG
*
112980 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
*
113001 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
113018 ATTGGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.03, G:0.20, T:0.58
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTGTTG
Found at i:113205 original size:43 final size:43
Alignment explanation
Indices: 113140--113551 Score: 648
Period size: 43 Copynumber: 9.6 Consensus size: 43
113130 CGGCGTTTGT
* *
113140 ATCTCAAGACCTATTGCGGCGTTTGTGGAAAAAACGCCGCTCA
1 ATCTCAACACCTATTGCGGCGTTTGTGGAAAAAACGCCGCTAA
*
113183 ATCTCAACACCTATTGCTGCGTTTGTGGAAAAAACGCCGCTAA
1 ATCTCAACACCTATTGCGGCGTTTGTGGAAAAAACGCCGCTAA
* *
113226 ATCTCAACACCTATTACGGCGTTTGTGGGAAAAACGCCGCTAA
1 ATCTCAACACCTATTGCGGCGTTTGTGGAAAAAACGCCGCTAA
* *
113269 ATCTCAACACCTATTGCGGCGTTTGTTGG-AAAAATGCCGCCAA
1 ATCTCAACACCTATTGCGGCGTTTG-TGGAAAAAACGCCGCTAA
* * *
113312 ATATCAACACCTATTACGGCGTTTGTGGAAAAAACGTCGCTAA
1 ATCTCAACACCTATTGCGGCGTTTGTGGAAAAAACGCCGCTAA
* *
113355 ATCTCAAGACCTATTGCGGCGTTTGTGGAAAAAACGCCGCTCA
1 ATCTCAACACCTATTGCGGCGTTTGTGGAAAAAACGCCGCTAA
*
113398 ATCTCAACACCTATTGCTGCGTTTGTGGAAAAAACGCCGCTAA
1 ATCTCAACACCTATTGCGGCGTTTGTGGAAAAAACGCCGCTAA
113441 ATCTCAACACCTATTGCGGCGTTTGTGGAAAAAACGCCGCTAA
1 ATCTCAACACCTATTGCGGCGTTTGTGGAAAAAACGCCGCTAA
* *
113484 ATCTCAACACCTATTGCGGCGTTTGTTGG-AAAAATGCCGCCAA
1 ATCTCAACACCTATTGCGGCGTTTG-TGGAAAAAACGCCGCTAA
*
113527 ATATCAACACCTATTGCGGCGTTTG
1 ATCTCAACACCTATTGCGGCGTTTG
113552 AAACGCCGCT
Statistics
Matches: 340, Mismatches: 26, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
42 3 0.01
43 331 0.97
44 6 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (43 bp):
ATCTCAACACCTATTGCGGCGTTTGTGGAAAAAACGCCGCTAA
Found at i:115355 original size:364 final size:364
Alignment explanation
Indices: 114686--115409 Score: 1421
Period size: 364 Copynumber: 2.0 Consensus size: 364
114676 CAGGTTTAAA
114686 GTGCCATTTGTAGGGAATTTCATTCGGTTAATCTAGTAGTCTGCTCTTTTAATTATTTGATCTTT
1 GTGCCATTTGTAGGGAATTTCATTCGGTTAATCTAGTAGTCTGCTCTTTTAATTATTTGATCTTT
* *
114751 GCATCAGGTTGCACTCCTCTCCATTGGGCAGCTATTAGGGGTAATCTAGAAGCTTGCACAGTCCT
66 GCACCAGGTTGCACTCCTCTCCATTGGGCAGCTATTAGGAGTAATCTAGAAGCTTGCACAGTCCT
114816 AGTAAAGGCGGGTAAGATGGAGGACTTGTTGGTCACTGATAGTAGTGGCCTTACACCTGAACAGC
131 AGTAAAGGCGGGTAAGATGGAGGACTTGTTGGTCACTGATAGTAGTGGCCTTACACCTGAACAGC
114881 TTGCTTCTGATCAAAATCACAGACAAGTTGTTTTTCTCCTTGTAGGTGCCTTAACATATTTACTT
196 TTGCTTCTGATCAAAATCACAGACAAGTTGTTTTTCTCCTTGTAGGTGCCTTAACATATTTACTT
114946 TGGTAATAATTATTCTTCTGATATTTATTTGTTTTTGTTTTCAATCTTGCACTGTTCCAGCTCTT
261 TGGTAATAATTATTCTTCTGATATTTATTTGTTTTTGTTTTCAATCTTGCACTGTTCCAGCTCTT
115011 TCTTTTTAGTGATGACTGATAAACGCCCTGTGCAGGACT
326 TCTTTTTAGTGATGACTGATAAACGCCCTGTGCAGGACT
*
115050 GTGCCATTTGTAGGGAATTTCATTCGGTTAATCTAGTATTCTGCTCTTTTAATTATTTGATCTTT
1 GTGCCATTTGTAGGGAATTTCATTCGGTTAATCTAGTAGTCTGCTCTTTTAATTATTTGATCTTT
115115 GCACCAGGTTGCACTCCTCTCCATTGGGCAGCTATTAGGAGTAATCTAGAAGCTTGCACAGTCCT
66 GCACCAGGTTGCACTCCTCTCCATTGGGCAGCTATTAGGAGTAATCTAGAAGCTTGCACAGTCCT
115180 AGTAAAGGCGGGTAAGATGGAGGACTTGTTGGTCACTGATAGTAGTGGCCTTACACCTGAACAGC
131 AGTAAAGGCGGGTAAGATGGAGGACTTGTTGGTCACTGATAGTAGTGGCCTTACACCTGAACAGC
115245 TTGCTTCTGATCAAAATCACAGACAAGTTGTTTTTCTCCTTGTAGGTGCCTTAACATATTTACTT
196 TTGCTTCTGATCAAAATCACAGACAAGTTGTTTTTCTCCTTGTAGGTGCCTTAACATATTTACTT
115310 TGGTAATAATTATTCTTCTGATATTTATTTGTTTTTGTTTTCAATCTTGCACTGTTCCAGCTCTT
261 TGGTAATAATTATTCTTCTGATATTTATTTGTTTTTGTTTTCAATCTTGCACTGTTCCAGCTCTT
115375 TCTTTTTAGTGATGACTGATAAACGCCCTGTGCAG
326 TCTTTTTAGTGATGACTGATAAACGCCCTGTGCAG
115410 AATGAAAGAC
Statistics
Matches: 357, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
364 357 1.00
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (364 bp):
GTGCCATTTGTAGGGAATTTCATTCGGTTAATCTAGTAGTCTGCTCTTTTAATTATTTGATCTTT
GCACCAGGTTGCACTCCTCTCCATTGGGCAGCTATTAGGAGTAATCTAGAAGCTTGCACAGTCCT
AGTAAAGGCGGGTAAGATGGAGGACTTGTTGGTCACTGATAGTAGTGGCCTTACACCTGAACAGC
TTGCTTCTGATCAAAATCACAGACAAGTTGTTTTTCTCCTTGTAGGTGCCTTAACATATTTACTT
TGGTAATAATTATTCTTCTGATATTTATTTGTTTTTGTTTTCAATCTTGCACTGTTCCAGCTCTT
TCTTTTTAGTGATGACTGATAAACGCCCTGTGCAGGACT
Found at i:125877 original size:22 final size:23
Alignment explanation
Indices: 125859--125912 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
125849 AGAGGGAATT
125859 GATACCCCC-TTGAAGGGGAACC
1 GATACCCCCTTTGAAGGGGAACC
* *
125881 GATTCCCCCTTTGTAGGGGAACC
1 GATACCCCCTTTGAAGGGGAACC
125904 GATACCCCC
1 GATACCCCC
125913 ATGGGGTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 8 0.29
23 20 0.71
ACGTcount: A:0.22, C:0.35, G:0.24, T:0.19
Consensus pattern (23 bp):
GATACCCCCTTTGAAGGGGAACC
Found at i:138408 original size:20 final size:20
Alignment explanation
Indices: 138385--138450 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
138375 ATCTCCAATT
138385 TCGCAAAGCGAATATGTAAA
1 TCGCAAAGCGAATATGTAAA
** * * **
138405 TCGCATTGCGATTTTCCAAA
1 TCGCAAAGCGAATATGTAAA
*
138425 TTCGCAACGCGAATATGTAAA
1 -TCGCAAAGCGAATATGTAAA
138446 TCGCA
1 TCGCA
138451 TTGCGATTTC
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (20 bp):
TCGCAAAGCGAATATGTAAA
Found at i:138429 original size:41 final size:41
Alignment explanation
Indices: 138378--138518 Score: 189
Period size: 41 Copynumber: 3.5 Consensus size: 41
138368 CAACGCGATC
* *
138378 TCCAATTTCGCAAAGCGAATATGTAAATCGCATTGCGATTT
1 TCCAAATTCGCAACGCGAATATGTAAATCGCATTGCGATTT
138419 TCCAAATTCGCAACGCGAATATGTAAATCGCATTGCGATTT
1 TCCAAATTCGCAACGCGAATATGTAAATCGCATTGCGATTT
* * * * *
138460 CCCAAATTCGCAACGTGAATTTGTAAATCGCA--ACTGAATT
1 TCCAAATTCGCAACGCGAATATGTAAATCGCATTGC-GATTT
138500 T-CAAATTCGCAACGCGAAT
1 TCCAAATTCGCAACGCGAAT
138519 TTAATTTCGC
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 18 0.20
40 4 0.04
41 68 0.76
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (41 bp):
TCCAAATTCGCAACGCGAATATGTAAATCGCATTGCGATTT
Found at i:138456 original size:20 final size:20
Alignment explanation
Indices: 138392--138456 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
138382 ATTTCGCAAA
138392 GCGAATATGTAAATCGCATT
1 GCGAATATGTAAATCGCATT
* * ** **
138412 GCGATTTTCCAAATTCGCAAC
1 GCGAATATGTAAA-TCGCATT
138433 GCGAATATGTAAATCGCATT
1 GCGAATATGTAAATCGCATT
138453 GCGA
1 GCGA
138457 TTTCCCAAAT
Statistics
Matches: 32, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (20 bp):
GCGAATATGTAAATCGCATT
Found at i:138466 original size:20 final size:20
Alignment explanation
Indices: 138405--138471 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
138395 AATATGTAAA
138405 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTCCAAAT
** * **
138426 TCGCAACGCGAATATGTAAA-
1 TCGCATTGCG-ATTTCCAAAT
138446 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTT-CCAAAT
138467 TCGCA
1 TCGCA
138472 ACGTGAATTT
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
19 3 0.09
20 11 0.33
21 18 0.55
22 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (20 bp):
TCGCATTGCGATTTCCAAAT
Found at i:138509 original size:19 final size:20
Alignment explanation
Indices: 138462--138531 Score: 83
Period size: 19 Copynumber: 3.6 Consensus size: 20
138452 TGCGATTTCC
138462 CAAATTCGCAACGTGAATTT
1 CAAATTCGCAACGTGAATTT
*
138482 GTAAA-TCGCAAC-TGAATTT
1 -CAAATTCGCAACGTGAATTT
*
138501 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGTGAATTT
*
138521 -AATTTCGCAAC
1 CAAATTCGCAAC
138532 AGGTTTTAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
18 3 0.07
19 24 0.56
20 13 0.30
21 3 0.07
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (20 bp):
CAAATTCGCAACGTGAATTT
Done.