Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008515.1 Hibiscus syriacus cultivar Beakdansim tig00111378_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: 337978
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:657 original size:17 final size:17
Alignment explanation
Indices: 628--666 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
618 TTTGCTAACT
*
628 TTATTTATCTTTATTTA
1 TTATTTATCTTTAATTA
645 TCTATTT-TCTTTAATTA
1 T-TATTTATCTTTAATTA
662 TTATT
1 TTATT
667 ATTATACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 11 0.55
18 5 0.25
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATTTATCTTTAATTA
Found at i:1770 original size:15 final size:17
Alignment explanation
Indices: 1740--1771 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1730 ATCTCACTAA
1740 CTCTATTTACTTTTGTT
1 CTCTATTTACTTTTGTT
1757 CTCT-TTTA-TTTTGTT
1 CTCTATTTACTTTTGTT
1772 TTCATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.09, C:0.16, G:0.06, T:0.69
Consensus pattern (17 bp):
CTCTATTTACTTTTGTT
Found at i:3688 original size:27 final size:25
Alignment explanation
Indices: 3658--3707 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
3648 AAAAGGGCAC
3658 AAAAAAAAGAAGCAATAAACAAAAACA
1 AAAAAAAAGAA-CAA-AAACAAAAACA
*
3685 AAAAAAAAGAACAAAAAGAAAAA
1 AAAAAAAAGAACAAAAACAAAAA
3708 AGAAAAAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.36
26 3 0.14
27 11 0.50
ACGTcount: A:0.82, C:0.08, G:0.08, T:0.02
Consensus pattern (25 bp):
AAAAAAAAGAACAAAAACAAAAACA
Found at i:3699 original size:13 final size:13
Alignment explanation
Indices: 3658--3706 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
3648 AAAAGGGCAC
3658 AAAAAAAAGAAGCA
1 AAAAAAAAGAA-CA
*
3672 ATAAACAAA-AACA
1 A-AAAAAAAGAACA
3685 AAAAAAAAGAACA
1 AAAAAAAAGAACA
3698 AAAAGAAAA
1 AAAA-AAAA
3707 AAGAAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 6 0.20
13 11 0.37
14 7 0.23
15 6 0.20
ACGTcount: A:0.82, C:0.08, G:0.08, T:0.02
Consensus pattern (13 bp):
AAAAAAAAGAACA
Found at i:3707 original size:26 final size:27
Alignment explanation
Indices: 3658--3714 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
3648 AAAAGGGCAC
*
3658 AAAAAAAAGAAGCAATAAACAAAAACA
1 AAAAAAAAGAAGCAATAAAAAAAAACA
*
3685 AAAAAAAAGAA-CAA-AAAGAAAAAAGA
1 AAAAAAAAGAAGCAATAAA-AAAAAACA
3711 AAAA
1 AAAA
3715 GGGACAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 3 0.11
26 13 0.48
27 11 0.41
ACGTcount: A:0.82, C:0.07, G:0.09, T:0.02
Consensus pattern (27 bp):
AAAAAAAAGAAGCAATAAAAAAAAACA
Found at i:3713 original size:13 final size:13
Alignment explanation
Indices: 3678--3715 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
3668 AGCAATAAAC
3678 AAAAACAAAAA-A
1 AAAAACAAAAAGA
3690 AAAGAACAAAAAGA
1 AAA-AACAAAAAGA
*
3704 AAAAAGAAAAAG
1 AAAAACAAAAAG
3716 GGACAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 3 0.13
13 16 0.70
14 4 0.17
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAGA
Found at i:3714 original size:27 final size:27
Alignment explanation
Indices: 3658--3714 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
3648 AAAAGGGCAC
* *
3658 AAAAAAAAGAAGCAATAAACAAAAACA
1 AAAAAAAAGAAGCAATAAAAAAAAAAA
* *
3685 AAAAAAAAGAA-CAA-AAAGAAAAAAG
1 AAAAAAAAGAAGCAATAAAAAAAAAAA
3710 AAAAA
1 AAAAA
3715 GGGACAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 13 0.48
26 3 0.11
27 11 0.41
ACGTcount: A:0.82, C:0.07, G:0.09, T:0.02
Consensus pattern (27 bp):
AAAAAAAAGAAGCAATAAAAAAAAAAA
Found at i:4342 original size:22 final size:22
Alignment explanation
Indices: 4314--4356 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4304 GCTACCCCAG
*
4314 CAAACCTTTGAGCATCCAATGC
1 CAAACCTTTGAGCATCAAATGC
4336 CAAACCTTTGAGCATCAAATG
1 CAAACCTTTGAGCATCAAATG
4357 AACAAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:4600 original size:12 final size:12
Alignment explanation
Indices: 4585--4609 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4575 ACTCTTGATT
4585 AAACATTTTTTG
1 AAACATTTTTTG
4597 AAACATTTTTTG
1 AAACATTTTTTG
4609 A
1 A
4610 TATTTTTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (12 bp):
AAACATTTTTTG
Found at i:4824 original size:18 final size:18
Alignment explanation
Indices: 4789--4824 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4779 TCAACATCAA
**
4789 ATATTGGGGCATTTTTGG
1 ATATTGGGGCATCGTTGG
4807 ATATTGGGGCATCGTTGG
1 ATATTGGGGCATCGTTGG
4825 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.08, G:0.36, T:0.39
Consensus pattern (18 bp):
ATATTGGGGCATCGTTGG
Found at i:4998 original size:29 final size:29
Alignment explanation
Indices: 4965--5023 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
4955 TACAGCTTTT
4965 AGAGTCAAGTTTCGACTTTAAGACGAAGG
1 AGAGTCAAGTTTCGACTTTAAGACGAAGG
4994 AGAGTCAAGTTTCGACTTTAAGACGAAGG
1 AGAGTCAAGTTTCGACTTTAAGACGAAGG
5023 A
1 A
5024 TACTCGATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.24
Consensus pattern (29 bp):
AGAGTCAAGTTTCGACTTTAAGACGAAGG
Found at i:5244 original size:36 final size:36
Alignment explanation
Indices: 5197--5320 Score: 92
Period size: 36 Copynumber: 3.5 Consensus size: 36
5187 CAGATGATTA
* *
5197 TCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTG
1 TCTCGCTTGAGATAGTTTTTCTTAAAACAAGATTTG
** ** * *
5233 TCTCGCTTGAGACCG-TTTTC--ACTAGAAGATTTTA
1 TCTCGCTTGAGATAGTTTTTCTTAAAACAAGA-TTTG
* * **
5267 TCTCGCTTGAGATAGTTTCTCTTGAAACAATCTTTG
1 TCTCGCTTGAGATAGTTTTTCTTAAAACAAGATTTG
* *
5303 TCTCCCTTGAGACAGTTT
1 TCTCGCTTGAGATAGTTT
5321 CTCTGAAACA
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
33 6 0.09
34 16 0.25
35 9 0.14
36 31 0.48
37 3 0.05
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.41
Consensus pattern (36 bp):
TCTCGCTTGAGATAGTTTTTCTTAAAACAAGATTTG
Found at i:5458 original size:36 final size:36
Alignment explanation
Indices: 5383--5460 Score: 111
Period size: 36 Copynumber: 2.2 Consensus size: 36
5373 TGTTTCCTTA
* ** *
5383 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTG
1 AAACAAATTTTGTCTCCCATGAGACAGTTTCGCTCG
*
5419 AAACAAATTTTGTCTCCCATGAGGCAGTTTCGCTCG
1 AAACAAATTTTGTCTCCCATGAGACAGTTTCGCTCG
5455 AAACAA
1 AAACAA
5461 CACAATGTGC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (36 bp):
AAACAAATTTTGTCTCCCATGAGACAGTTTCGCTCG
Found at i:5902 original size:64 final size:64
Alignment explanation
Indices: 5801--6021 Score: 297
Period size: 63 Copynumber: 3.5 Consensus size: 64
5791 TTGGAACTCA
* *
5801 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTTAACAAAATTTCCCAGTATC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
* *
5865 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAAC-AAATTTCCTAGTTTA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
* * * * *
5928 AGACAGCATAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAAC-AA-AATTTCCCAGTTT
5993 C
64 C
* *
5994 AG--AGC-CAATTTCAACTTCACAACGAAGG
1 AGACAACACAAGTTCAACTTCACAACGAAGG
6022 ATATTGGACT
Statistics
Matches: 141, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
63 78 0.55
64 50 0.35
65 1 0.01
66 12 0.09
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (64 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
Found at i:6113 original size:65 final size:66
Alignment explanation
Indices: 6033--6163 Score: 212
Period size: 65 Copynumber: 2.0 Consensus size: 66
6023 TATTGGACTC
* *
6033 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAA-AA-TTCCCCAGT
1 AAGACAACACAAGTTCAACTTCACAACAAAGGGGCCGCTGGCTGTCAACAAACAACTT-CCCAGT
6096 TT
65 TT
*
6098 AAGACAGCACAAGTTCAACTTCACAACAAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAGTT
1 AAGACAACACAAGTTCAACTTCACAACAAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAGTT
6163 T
66 T
6164 CAGAGTCAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
65 49 0.80
66 10 0.16
67 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.19
Consensus pattern (66 bp):
AAGACAACACAAGTTCAACTTCACAACAAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAGTT
T
Found at i:6132 original size:234 final size:226
Alignment explanation
Indices: 5702--6149 Score: 702
Period size: 234 Copynumber: 1.9 Consensus size: 226
5692 GTGCCACTCG
*
5702 AGACAGCTCAAGTTCAACTTCACAACGAAGGGCCGCTGACTGTCAACAAACAATTTCCCAATCCA
1 AGACAGCTCAAGTTCAACTTCACAACGAAGGGCCGCTGACTGTCAACAAACAACTTCCCAATCCA
*
5767 ATTTCAACTTCACAGCGAAGGATATTGGAACTCAAGACAACACAAGTTCAACTTCACAACGAAGG
66 ATTTCAACTTCACAACGAAGGATATTGGAACTCAAGACAACACAAGTTCAACTTCACAACGAAGG
* * * *
5832 GGCCGCTGGTTGTTAACAAAATTTCCCAGTATCAGACAACACAAGTTCAACTTCACAACGAAGGG
131 GGCCGCTGGTTGTCAACAAAATTCCCCAGTATAAGACAACACAAGTTCAACTTCACAACAAAGGG
*
5897 GCCGCTGGTTGTCAACAAATTTCCTAGTTTA
196 GCCGCTGGCTGTCAACAAATTTCCTAGTTTA
*
5928 AGACAGCAT-AAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATT
1 AGACAGC-TCAAGTTCAACTTCACAACGAA-GGGCCGCTGACTGTCAACAAACAACTTCCCAA--
5992 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG-ACTCAAGACAACACAAGTTCAACTTCA
62 T-----CCAATTTCAACTTCACAACGAAGGATATTGGAACTCAAGACAACACAAGTTCAACTTCA
* *
6056 CAACGAAGGGGCCGCTGGTTGTCAACAAAAATTCCCCAGTTTAAGACAGCACAAGTTCAACTTCA
122 CAACGAAGGGGCCGCTGGTTGTCAAC-AAAATTCCCCAGTATAAGACAACACAAGTTCAACTTCA
6121 CAACAAAGGGGCCGCTGGCTGTCAACAAA
186 CAACAAAGGGGCCGCTGGCTGTCAACAAA
6150 CAACTTCCCA
Statistics
Matches: 202, Mismatches: 10, Indels: 12
0.90 0.04 0.05
Matches are distributed among these distances:
226 27 0.13
227 31 0.15
229 1 0.00
233 52 0.26
234 91 0.45
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (226 bp):
AGACAGCTCAAGTTCAACTTCACAACGAAGGGCCGCTGACTGTCAACAAACAACTTCCCAATCCA
ATTTCAACTTCACAACGAAGGATATTGGAACTCAAGACAACACAAGTTCAACTTCACAACGAAGG
GGCCGCTGGTTGTCAACAAAATTCCCCAGTATAAGACAACACAAGTTCAACTTCACAACAAAGGG
GCCGCTGGCTGTCAACAAATTTCCTAGTTTA
Found at i:6147 original size:106 final size:104
Alignment explanation
Indices: 5928--6129 Score: 255
Period size: 106 Copynumber: 1.9 Consensus size: 104
5918 TCCTAGTTTA
* *
5928 AGACAGCATAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTT
* * * * *
5993 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
66 AAGAGCCAAGTTCAACTTCACAACAAAGGACACTGGACT
* *
6032 CAAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAA-AA-TTCCCCAG
1 --AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTT-CCCAA
6095 TTTAAGACAGCACAAGTTCAACTTCACAACAAAGG
63 TTTAAG--AGC-CAAGTTCAACTTCACAACAAAGG
6130 GGCCGCTGGC
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
104 2 0.02
105 11 0.13
106 48 0.56
107 3 0.04
108 21 0.25
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (104 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTT
AAGAGCCAAGTTCAACTTCACAACAAAGGACACTGGACT
Found at i:6148 original size:171 final size:169
Alignment explanation
Indices: 5865--6199 Score: 571
Period size: 171 Copynumber: 2.0 Consensus size: 169
5855 TCCCAGTATC
* *
5865 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAATTTCCTAGTTTAAG
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAATTCCCCAGTTTAAG
* *
5930 ACAGCATAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTTCA
66 ACAGCACAAGTTCAACTTCACAACAAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTTCA
5995 GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCA
131 GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCA
6034 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAAATTCCCCAGTTTA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAAC--AAATTCCCCAGTTTA
*
6099 AGACAGCACAAGTTCAACTTCACAACAAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAGTTT
64 AGACAGCACAAGTTCAACTTCACAACAAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTT
* * **
6164 CAGAGTCAATTTCAACTTGACAGTGAAGGATATTGG
129 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
6200 CCTCGAAACA
Statistics
Matches: 155, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
169 48 0.31
171 107 0.69
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.21
Consensus pattern (169 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAATTCCCCAGTTTAAG
ACAGCACAAGTTCAACTTCACAACAAAGGGGCCGCTGGCTGTCAACAAACAACTTCCCAATTTCA
GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCA
Found at i:11024 original size:12 final size:12
Alignment explanation
Indices: 11007--11058 Score: 77
Period size: 12 Copynumber: 4.3 Consensus size: 12
10997 AACCAACCAT
11007 TAATATTCAATC
1 TAATATTCAATC
**
11019 TAATATTTGATC
1 TAATATTCAATC
*
11031 TAATATTCAACC
1 TAATATTCAATC
11043 TAATATTCAATC
1 TAATATTCAATC
11055 TAAT
1 TAAT
11059 GTTGATAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.42
Consensus pattern (12 bp):
TAATATTCAATC
Found at i:11108 original size:12 final size:12
Alignment explanation
Indices: 11091--11121 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11081 ATTTTCTTTC
11091 AATTATAAAAAT
1 AATTATAAAAAT
11103 AATTATAAAAAT
1 AATTATAAAAAT
*
11115 AGTTATA
1 AATTATA
11122 TATTTCTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (12 bp):
AATTATAAAAAT
Found at i:11714 original size:18 final size:17
Alignment explanation
Indices: 11673--11714 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
11663 AAAATTTATA
11673 AAAAAATATTTAAAAAT
1 AAAAAATATTTAAAAAT
*
11690 ACTAAAATATTTAAAATAT
1 A-AAAAATATTTAAAA-AT
11709 AAAAAA
1 AAAAAA
11715 ATTATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 17 0.81
19 3 0.14
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAAATATTTAAAAAT
Found at i:22711 original size:27 final size:29
Alignment explanation
Indices: 22681--22743 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
22671 TAATAAAAAA
22681 TAATAAGT-T-AACTAATCTATTAGTTTT
1 TAATAAGTATAAACTAATCTATTAGTTTT
*
22708 TAATAAGTAATAAACTAATCTATTATTTTT
1 TAATAAGT-ATAAACTAATCTATTAGTTTT
22738 TAATAA
1 TAATAA
22744 ATAATAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 8 0.25
29 1 0.03
30 23 0.72
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (29 bp):
TAATAAGTATAAACTAATCTATTAGTTTT
Found at i:22724 original size:30 final size:30
Alignment explanation
Indices: 22690--22751 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
22680 ATAATAAGTT
*
22690 AACTAATCTATTAGTTTTTAATAAGTAATA
1 AACTAATCTATTAGTTTTTAATAAATAATA
*
22720 AACTAATCTATTATTTTTTAATAAATAATA
1 AACTAATCTATTAGTTTTTAATAAATAATA
22750 AA
1 AA
22752 AAATAATAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (30 bp):
AACTAATCTATTAGTTTTTAATAAATAATA
Found at i:22747 original size:74 final size:74
Alignment explanation
Indices: 22649--22826 Score: 322
Period size: 74 Copynumber: 2.4 Consensus size: 74
22639 ATCTAAATAA
*
22649 TAAT-TATTAATTTATTAATAAATAATAAAAAATAATAAGTTAACTAATCTATTAGTTTTTAATA
1 TAATCTATT-ATTTTTTAATAAATAATAAAAAATAATAAGTTAACTAATCTATTAGTTTTTAATA
*
22713 AGTAATAAAC
65 AATAATAAAC
22723 TAATCTATTATTTTTTAATAAATAATAAAAAATAATAAGTTAACTAATCTATTAGTTTTTAATAA
1 TAATCTATTATTTTTTAATAAATAATAAAAAATAATAAGTTAACTAATCTATTAGTTTTTAATAA
22788 ATAATAAAC
66 ATAATAAAC
22797 TAATCTATTATTTTTTAATAAATAATAAAA
1 TAATCTATTATTTTTTAATAAATAATAAAA
22827 TATTATTAAT
Statistics
Matches: 101, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
74 97 0.96
75 4 0.04
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (74 bp):
TAATCTATTATTTTTTAATAAATAATAAAAAATAATAAGTTAACTAATCTATTAGTTTTTAATAA
ATAATAAAC
Found at i:22757 original size:44 final size:44
Alignment explanation
Indices: 22709--22795 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
22699 ATTAGTTTTT
*
22709 AATAAGTAA-TAAACTAATCTATTATTTTTTAATAAATAATAAAA
1 AATAA-TAAGTAAACTAATCTATTAGTTTTTAATAAATAATAAAA
*
22753 AATAATAAGTTAACTAATCTATTAGTTTTTAATAAATAATAAA
1 AATAATAAGTAAACTAATCTATTAGTTTTTAATAAATAATAAA
22796 CTAATCTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 3 0.08
44 37 0.93
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (44 bp):
AATAATAAGTAAACTAATCTATTAGTTTTTAATAAATAATAAAA
Found at i:22798 original size:30 final size:30
Alignment explanation
Indices: 22764--22825 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
22754 ATAATAAGTT
22764 AACTAATCTATTAGTTTTTAATAAATAATA
1 AACTAATCTATTAGTTTTTAATAAATAATA
*
22794 AACTAATCTATTATTTTTTAATAAATAATA
1 AACTAATCTATTAGTTTTTAATAAATAATA
22824 AA
1 AA
22826 ATATTATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (30 bp):
AACTAATCTATTAGTTTTTAATAAATAATA
Found at i:34851 original size:11 final size:11
Alignment explanation
Indices: 34835--34862 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
34825 TTAGCTACTG
34835 TTCTTCTAAAA
1 TTCTTCTAAAA
34846 TTCTTCTAAAA
1 TTCTTCTAAAA
34857 TTCTTC
1 TTCTTC
34863 ATCTGTCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (11 bp):
TTCTTCTAAAA
Found at i:36835 original size:34 final size:34
Alignment explanation
Indices: 36785--36882 Score: 169
Period size: 34 Copynumber: 2.9 Consensus size: 34
36775 GGGAAATGAA
*
36785 TTCTGCGTTGTTGTTATTGTGGAAGTATTATTAG
1 TTCTGCGCTGTTGTTATTGTGGAAGTATTATTAG
*
36819 TTCTGCGCTGTAGTTATTGTGGAAGTATTATTAG
1 TTCTGCGCTGTTGTTATTGTGGAAGTATTATTAG
*
36853 TTCTGCTCTGTTGTTATTGTGGAAGTATTA
1 TTCTGCGCTGTTGTTATTGTGGAAGTATTA
36883 GTGTTTGTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.18, C:0.08, G:0.26, T:0.48
Consensus pattern (34 bp):
TTCTGCGCTGTTGTTATTGTGGAAGTATTATTAG
Found at i:57004 original size:2 final size:2
Alignment explanation
Indices: 56997--57045 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
56987 ATATTTTCAT
56997 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57037 TA TA TA TA T
1 TA TA TA TA T
57046 TACCATATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:58382 original size:17 final size:17
Alignment explanation
Indices: 58345--58378 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
58335 ACGATTAACC
58345 ATTAATTTGTATAATAA
1 ATTAATTTGTATAATAA
*
58362 ATTAATTT-TTTAATAA
1 ATTAATTTGTATAATAA
58378 A
1 A
58379 ATTATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTAATTTGTATAATAA
Found at i:73416 original size:2 final size:2
Alignment explanation
Indices: 73404--73479 Score: 145
Period size: 2 Copynumber: 38.5 Consensus size: 2
73394 TTTCTTATCT
73404 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
73445 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 T
73480 CCACCCTACA
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 72 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:80132 original size:20 final size:20
Alignment explanation
Indices: 80107--80149 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
80097 TTAATGTCAG
*
80107 ATATTTATA-AATTTATTTTT
1 ATATTTATATAATAT-TTTTT
80127 ATATTTATATAATATTTTTT
1 ATATTTATATAATATTTTTT
80147 ATA
1 ATA
80150 GTGTTGGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATATTTATATAATATTTTTT
Found at i:82508 original size:3 final size:3
Alignment explanation
Indices: 82500--82529 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
82490 CACCTTAATT
82500 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
82530 AAAGATAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:83891 original size:23 final size:23
Alignment explanation
Indices: 83841--83918 Score: 57
Period size: 26 Copynumber: 3.0 Consensus size: 23
83831 AAATACAATA
* *
83841 AATAATATTATTTTTCATAAAAACTT
1 AATATTATTATTTTT-A-AAATA-TT
83867 AATATTATTATTTTTAAAATATT
1 AATATTATTATTTTTAAAATATT
*
83890 AAAATAATTTATTTATTATTAAAATATT
1 --AAT-A-TTA-TTATTTTTAAAATATT
83918 A
1 A
83919 TTAGATTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
23 2 0.05
24 4 0.09
25 4 0.09
26 16 0.36
27 3 0.07
28 15 0.34
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (23 bp):
AATATTATTATTTTTAAAATATT
Found at i:83934 original size:22 final size:20
Alignment explanation
Indices: 83884--83934 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
83874 TTATTTTTAA
*
83884 AATATTAAAATAATTTATTT
1 AATATTAAAATAATTTAATT
* *
83904 ATTATTAAAATATTATTAGATT
1 AATATTAAAATAAT-TTA-ATT
83926 AATATTAAA
1 AATATTAAA
83935 TACATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 12 0.48
21 3 0.12
22 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AATATTAAAATAATTTAATT
Found at i:84094 original size:8 final size:8
Alignment explanation
Indices: 84081--84157 Score: 54
Period size: 8 Copynumber: 9.5 Consensus size: 8
84071 ATTGATTTTT
84081 TATTATAA
1 TATTATAA
*
84089 TATTATAT
1 TATTATAA
84097 TATTACTAA
1 TATTA-TAA
84106 TA-T-TAA
1 TATTATAA
84112 TA-TATATA
1 TATTATA-A
84120 TATATATATA
1 TAT-TATA-A
84130 TATTATAAA
1 TATTAT-AA
*
84139 TATTTTAA
1 TATTATAA
*
84147 TAAT-TAA
1 TATTATAA
84154 TATT
1 TATT
84158 TTGATTAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
6 6 0.10
7 8 0.14
8 21 0.36
9 13 0.22
10 10 0.17
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (8 bp):
TATTATAA
Found at i:88089 original size:12 final size:11
Alignment explanation
Indices: 88055--88107 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
88045 CATGACATGA
88055 ATTCTGTTCTG
1 ATTCTGTTCTG
**
88066 ATTTCTAATCTGG
1 A-TTCTGTTCT-G
88079 ATTCTGTTCTG
1 ATTCTGTTCTG
88090 ATATCTGTTCTG
1 AT-TCTGTTCTG
88102 AATTCT
1 -ATTCT
88108 ATTTTGATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
11 4 0.12
12 26 0.76
13 4 0.12
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.51
Consensus pattern (11 bp):
ATTCTGTTCTG
Found at i:88120 original size:24 final size:24
Alignment explanation
Indices: 88014--88122 Score: 98
Period size: 24 Copynumber: 4.5 Consensus size: 24
88004 AATTATTTTA
*
88014 TCTGATTTCCGA-CTTGAATTCTGT
1 TCTGATTTCTGATC-TGAATTCTGT
*
88038 TCTGA-TACATGA-CATGAATTCTGT
1 TCTGATTTC-TGATC-TGAATTCTGT
* *
88062 TCTGATTTCTAATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
* * *
88086 TCTGATATCTGTTCTGAATTCTAT
1 TCTGATTTCTGATCTGAATTCTGT
*
88110 TTTGATTTCTGAT
1 TCTGATTTCTGAT
88123 ATCTCCGTTT
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
23 2 0.03
24 63 0.93
25 3 0.04
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.48
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:98220 original size:28 final size:28
Alignment explanation
Indices: 98189--98263 Score: 150
Period size: 28 Copynumber: 2.7 Consensus size: 28
98179 AGAGAATGTG
98189 AATTTAAATTTATAAAATTTTAAGAATA
1 AATTTAAATTTATAAAATTTTAAGAATA
98217 AATTTAAATTTATAAAATTTTAAGAATA
1 AATTTAAATTTATAAAATTTTAAGAATA
98245 AATTTAAATTTATAAAATT
1 AATTTAAATTTATAAAATT
98264 CTAAAGGATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (28 bp):
AATTTAAATTTATAAAATTTTAAGAATA
Found at i:101650 original size:23 final size:22
Alignment explanation
Indices: 101624--101670 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
101614 ATAAAGTACA
*
101624 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAG-GCTTAT
**
101647 ATAATGTAATAGGTAGGCTTAT
1 ATAACATAATAGGTAGGCTTAT
101669 AT
1 AT
101671 TTACCTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (22 bp):
ATAACATAATAGGTAGGCTTAT
Found at i:102180 original size:23 final size:23
Alignment explanation
Indices: 102150--102208 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
102140 TACAACTACC
*
102150 TATTACATTATATAAACGATACT
1 TATTACATTATATAAACGATACA
* *
102173 TATTACATTATATAAGCGCTACA
1 TATTACATTATATAAACGATACA
*
102196 TATTACATCATAT
1 TATTACATTATAT
102209 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:102353 original size:477 final size:482
Alignment explanation
Indices: 101744--103878 Score: 3915
Period size: 477 Copynumber: 4.5 Consensus size: 482
101734 TTATAATATG
* * * *
101744 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATAATTTTTTTTAAAGTTATTTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGA-CACTTTTTTTAAAGTTATGTAATTTATGT
*
101809 TTCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
* *
101874 ACAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
101938 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATATAATAAT-A-ATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATATAATAATAATATA
102001 TATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
*
102065 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
*
102130 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACTTATTACATTATATAAGCGCTAC
390 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
*
102195 ATATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
102223 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
*
102288 TCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
102352 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAAAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
102417 TAACCAAAGATAATAAT-AATATGT-A-ATATATGTTTATTGTTTTTAATATAATAAT-A-ATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATATAATAATAATATAT
102477 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
102542 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
102607 TAGATACTTTACAACTACCTATTACATTATATAAACGAAACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
102672 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
* *
102699 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
102764 TCAATTTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
66 TCAA-TTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
102829 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
* * *
102894 TTAACCAAAGATAATAATAAATATGTAATATATATTTTTATTATTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATATAATAATAATATA
102959 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
103024 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
103089 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
390 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
103154 CTATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
*
103182 TTGAAAGTATCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
*
103247 TCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
103311 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
103376 TAACCAAAGATAATAAT-AA-ATGTAATATATATGTTTATTG-TTTTAATATAAT-ATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATATAATAATAATATAT
103437 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
103502 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
103567 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
103632 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
* *
103659 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC-TTTTTTTAAAGTTATGTAATTTATGT
103724 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
* *
103789 ACAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
103853 TTAACCAAAGATAATAATAAATATGT
195 TTAACCAAAGATAATAATAAATATGT
103879 TTTCCACAGT
Statistics
Matches: 1609, Mismatches: 34, Indels: 25
0.96 0.02 0.01
Matches are distributed among these distances:
475 45 0.03
476 275 0.17
477 348 0.22
478 336 0.21
479 138 0.09
480 7 0.00
481 168 0.10
482 1 0.00
483 291 0.18
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (482 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATATAATAATAATATAT
ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
TATTACATCATATTTTTACCTATTATA
Found at i:102653 original size:23 final size:23
Alignment explanation
Indices: 102623--102684 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
102613 CTTTACAACT
102623 ACCTATTACATTATATAAACGAA
1 ACCTATTACATTATATAAACGAA
* **
102646 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAACGAA
*
102669 ACCTATTACATCATAT
1 ACCTATTACATTATAT
102685 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (23 bp):
ACCTATTACATTATATAAACGAA
Found at i:103135 original size:23 final size:23
Alignment explanation
Indices: 103105--103167 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
103095 ACTTTACAAC
103105 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
103128 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
103151 TACCTATTACATCATAT
1 TACCTATTACATTATAT
103168 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:103271 original size:959 final size:955
Alignment explanation
Indices: 101744--103878 Score: 4010
Period size: 959 Copynumber: 2.2 Consensus size: 955
101734 TTATAATATG
* *
101744 TTGAAAGTGTCCATACTTTTTATAAAAATG-ATCGATAATTTTTTTTAAAGTTATTTAATTTATG
1 TTGAAAGTGTCCATACTTTTTATAAAAA-GAATCGAT-ACTTTTTTTAAAGTTATGTAATTTATG
*
101808 TTTCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTA
64 TTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTA
101873 CACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATA
129 CACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATA
*
101938 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATATAATAATAATATA
194 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATATAATAATAATATA
102003 TCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCA
259 TCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCA
*
102068 AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATA
324 AAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATA
*
102133 GATACTTTACAACTACCTATTACATTATATAAACGATACTTATTACATTATATAAGCGCTACATA
389 GATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACATA
*
102198 TTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTT
454 TTACATCATATTTTTACCTATTATATTGAAAGTATCCATACTTTTTATAAAAAGGATCGACACTT
102263 TTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACAAT
519 TTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACAAT
102328 ATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATA
584 ATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATA
102393 TTTAAAATTTAAATTTAACAATATTAACCAAAGATAATAATAATATGT-A-ATATATGTTTATTG
649 TTTAAAATTTAAATTTAACAATATTAACCAAAGATAATAATAA-ATGTAATATATATGTTTATTG
102456 TTTTTAATAT-A-ATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
713 -TTTTAATATAATATAAT-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
102519 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAG
776 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAG
102584 TATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGAAACC
841 TATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGAAACC
102649 TATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
906 TATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
102699 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
102764 TCAATTTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
66 TCAA-TTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
* *
102829 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATA
* *
102894 TTAACCAAAGATAATAATAAATATGTAATATATATTTTTATTATTTTTAATTTAATAATAATATA
194 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATATAATAAT-A-ATA
102959 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
257 TATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
103024 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
321 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
103089 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
386 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
*
103154 CTATTACATCATATTTTTACCTATTATATTGAAAGTATCCATACTTTTTATAAAAAGGATCGACA
451 ATATTACATCATATTTTTACCTATTATATTGAAAGTATCCATACTTTTTATAAAAAGGATCGACA
103219 CTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTAC
516 CTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTAC
103284 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
581 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
*
103349 ATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATGTAATATATATGTTTAT
646 ATATTTAAAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATGTAATATATATGTTTAT
103414 TGTTTTAATATAATATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
711 TGTTTTAATATAATATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
103479 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAG
776 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAG
*
103544 TATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGATACC
841 TATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGAAACC
103609 TATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
906 TATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
103659 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
103724 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
103789 ACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
130 ACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
103854 TAACCAAAGATAATAATAAATATGT
195 TAACCAAAGATAATAATAAATATGT
103879 TTTCCACAGT
Statistics
Matches: 1153, Mismatches: 16, Indels: 18
0.97 0.01 0.02
Matches are distributed among these distances:
954 32 0.03
955 111 0.10
956 100 0.09
957 1 0.00
958 18 0.02
959 499 0.43
960 356 0.31
961 36 0.03
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (955 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATATAATAATAATATATC
GTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
AGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
TACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACATATT
ACATCATATTTTTACCTATTATATTGAAAGTATCCATACTTTTTATAAAAAGGATCGACACTTTT
TTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATAT
TAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATT
TAAAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATGTAATATATATGTTTATTGTTT
TAATATAATATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGG
ACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGAAACCTATTA
CATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:103612 original size:23 final size:23
Alignment explanation
Indices: 103582--103644 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
103572 ACTTTACAAC
103582 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
103605 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
103628 TACCTATTACATCATAT
1 TACCTATTACATTATAT
103645 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:104283 original size:960 final size:946
Alignment explanation
Indices: 101744--104323 Score: 3397
Period size: 959 Copynumber: 2.7 Consensus size: 946
101734 TTATAATATG
* *
101744 TTGAAAGTGTCCATACTTTTTATAAAAATG-ATCGATAATTTTTTTTAAAGTTATTTAATTTATG
1 TTGAAAGTGTCCATACTTTTTATAAAAA-GAATCGAT-ACTTTTTTTAAAGTTATGTAATTTATG
*
101808 TTTCAA-TTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTT
64 TTTCAATTTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTT
*
101872 ACACAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAA
129 ACACAAAAAATTATTTGATTGATTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAA
* * * * **
101936 TATTAACCAAAGATAATAATAAATATGTAATATATA-TG--TTTAT-TG-TTTTTAATATAATAA
194 TATTAACCAAAGATAATAATAAATATGTAATACACAGTGAAATAATATGAAATTTAATA-AA-AA
*
101996 TAATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
257 T-ATATATCGTAACGTAAAAAATAAATAATTAGACGCCTATAATTACTAAATTAATATCTTAAAA
* *
102060 CTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAA
321 CTCACTCAAAAGATAA-CTTAAATTAATGTTTTCCACAATCAAAAAAGTATGGA-ACTTTTAT--
* ** *
102125 AAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGATACTTATTACATTATATAAGC
382 -----ATAGATACTTTACAAC-ACATATTA-ATTATATAAACGATAAATATTACAATATATAAGC
* * * * * * * *
102190 GCTACATATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGAT
440 GCAACATAATACATAATATTTTTACCCATGATAAT-AAAGTAT-CACACTTTTTATAAAAAGGAT
* *
102255 CGACACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCA
503 AGACACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCA
102320 CCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATA
568 CCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATA
102385 AAATAATATTTAAAATTTAAATTTAACAATATTAACCAAAGATAATAATAATATGTAATATATGT
633 AAATAATATTTAAAATTTAAATTTAACAATATTAACCAAAGATAATAATAATATGTAATATATGT
102450 TTATTGTTTTTAATATAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAAT
698 TTATTGTTTTTAATATAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAAT
102515 TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAA
763 TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAA
102580 AAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGA
828 AAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGA
102645 AACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
893 AACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
102699 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
102764 TCAATTTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
66 TCAATTTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
*
102829 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
131 ACAAAAAATTATTTGATTGATTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
* * * *** * * ** *
102894 TTAACCAAAGATAATAATAAATATGTAATATATATTTTTATTATTTTTAATTTAATAATAATATA
196 TTAACCAAAGATAATAATAAATATGTAATACACAGTGAAATAATATGAAATTTAATAAAAATATA
*
102959 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
261 TATCGTAACGTAAAAAATAAATAATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
*
103024 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
326 TCAAAAGATAA-CTTAAATTAATGTTTTCCACAATCAAAAAAGTATGGA-ACTTTTAT-------
* ** * *
103089 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
382 ATAGATACTTTACAAC-ACATATTA-ATTATATAAACGATAAATATTACAATATATAAGCGCAAC
* * * * * * * *
103154 CTATTACATCATATTTTTACCTATTATATTGAAAGTATCCATACTTTTTATAAAAAGGATCGACA
445 ATAATACATAATATTTTTACCCATGATAAT-AAAGTAT-CACACTTTTTATAAAAAGGATAGACA
*
103219 CTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTAC
508 CTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTAC
103284 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
573 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
*
103349 ATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA-ATGTAATATATATGTTTA
638 ATATTTAAAATTTAAATTTAACAATATTAACCAAAGATAATAATAATATGT-A-ATATATGTTTA
103413 TTG-TTTTAATATAAT-ATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
701 TTGTTTTTAATATAATAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
103476 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAA
764 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAA
*
103541 AAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGAT
829 AAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGAA
103606 ACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
894 ACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
103659 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
103724 TTCAA-TTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTA
65 TTCAATTTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTA
*
103788 CACAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAAT
130 CACAAAAAATTATTTGATTGATTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAAT
** * *
103852 ATTAACCAAAGATAATAATAAATATGTTTTCCACAGTGAAATAAGTATGAACACTTTTATAAAAA
195 ATTAACCAAAGATAATAATAAATATGTAATACACAGTGAAATAA-TATGAA-A-TTTAATAAAAA
**** * ** ** * * ** ** * * *
103917 TGATATATAC-TTTTTTTAAAGTTATGTAATT-TATGTTTCA-AATTTTTTAA-TAGTGT-TTCA
257 T-ATATAT-CGTAACGTAAAAAATAAATAATTAGACGCCT-ATAATTACTAAATTAATATCTT-A
**** * * * * * *
103977 TGTTTTCCACCTACAATA-TTAA-TTTAA-TAAT-TTCATT-TAC-A-CAAAAAATTATTG-A-T
318 -AAACT-CA-CT-CAAAAGATAACTTAAATTAATGTT--TTCCACAATCAAAAAAGTATGGAACT
* * * **
104033 TTT-T-T-GATATTTTATAA-A-ATATT-ATT-TA-GAA-TTTAAAT-TTAACAATAT-TAA-C-
377 TTTATATAGATACTTTACAACACATATTAATTATATAAACGATAAATATT-ACAATATATAAGCG
* *
104085 CAAAGATAATA-ATAAATATGTTTT-CCACAGTGA-AAT-AAGTAT-ACAC-TTTTATAAAAATG
441 C-AACATAATACAT-AATAT-TTTTACC-CA-TGATAATAAAGTATCACACTTTTTATAAAAAGG
* *
104144 ATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTC
501 ATAGACACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTC
*
104209 CACCTACAATATTAATTTAATAATTTCATTTACACACAAAA-TA-TTGATTGTTTTGATA-TTTA
566 CACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTA
* *
104271 TAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
631 TAAAATAATATTTAAAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
104324 ATATATTTTC
Statistics
Matches: 1503, Mismatches: 89, Indels: 92
0.89 0.05 0.05
Matches are distributed among these distances:
929 56 0.04
930 15 0.01
931 2 0.00
932 113 0.08
933 3 0.00
935 9 0.01
936 12 0.01
937 12 0.01
938 11 0.01
939 2 0.00
940 2 0.00
941 3 0.00
943 4 0.00
944 1 0.00
946 10 0.01
947 1 0.00
954 32 0.02
955 112 0.07
956 82 0.05
957 2 0.00
958 20 0.01
959 527 0.35
960 365 0.24
961 50 0.03
962 27 0.02
963 20 0.01
964 6 0.00
965 4 0.00
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (946 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
ACAAAAAATTATTTGATTGATTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
TTAACCAAAGATAATAATAAATATGTAATACACAGTGAAATAATATGAAATTTAATAAAAATATA
TATCGTAACGTAAAAAATAAATAATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
TCAAAAGATAACTTAAATTAATGTTTTCCACAATCAAAAAAGTATGGAACTTTTATATAGATACT
TTACAACACATATTAATTATATAAACGATAAATATTACAATATATAAGCGCAACATAATACATAA
TATTTTTACCCATGATAATAAAGTATCACACTTTTTATAAAAAGGATAGACACTTTTTTTAAAGT
TATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAA
TAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAAAATTT
AAATTTAACAATATTAACCAAAGATAATAATAATATGTAATATATGTTTATTGTTTTTAATATAA
TAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTA
TAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGAAACCTATTACATTATATA
AGCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:104310 original size:224 final size:226
Alignment explanation
Indices: 103676--104379 Score: 1240
Period size: 225 Copynumber: 3.1 Consensus size: 226
103666 TGTCCATACT
103676 TTTTATAAAAA-GA-ATCGATACTTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAA
1 TTTTATAAAAATGATAT--ATAC-TTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAA
103739 TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTG
62 TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTA-TTG
*
103804 ATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATA
126 ATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATA
103869 ATAAATATGTTTTCCACAGTGAAATAAGTATGAACAC
191 ATAAATATGTTTTCCACAGTGAAATAAGTATG-ACAC
*
103906 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAAATTTTTTAATAGT
1 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
103971 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTGATTTT
66 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTGATTTT
104036 TTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAA
131 TTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAA
104101 TATGTTTTCCACAGTGAAATAAGTAT-ACAC
196 TATGTTTTCCACAGTGAAATAAGTATGACAC
104131 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
1 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
*
104196 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA-TATTGATTGT
66 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTGATT-T
104260 TTTGATA-TTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
130 TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
*
104324 ATATATTTT-CACAGTGAAATAAGTATGGACAC
195 ATATGTTTTCCACAGTGAAATAAGTAT-GACAC
* *
104356 TTTTATAAAAAGGATAGATACTTT
1 TTTTATAAAAATGATATATACTTT
104380 ACAATATAAC
Statistics
Matches: 462, Mismatches: 7, Indels: 15
0.95 0.01 0.03
Matches are distributed among these distances:
223 17 0.04
224 73 0.16
225 155 0.34
227 98 0.21
228 69 0.15
229 31 0.07
230 15 0.03
231 2 0.00
232 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.44
Consensus pattern (226 bp):
TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTGATTTT
TTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAA
TATGTTTTCCACAGTGAAATAAGTATGACAC
Found at i:113435 original size:11 final size:10
Alignment explanation
Indices: 113408--113441 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
113398 GATCTAAGAA
113408 TTTAAAAAAT
1 TTTAAAAAAT
*
113418 GTTAAAAAAT
1 TTTAAAAAAT
113428 TTTAAAAATAT
1 TTTAAAAA-AT
113439 TTT
1 TTT
113442 TCCAACAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 16 0.76
11 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (10 bp):
TTTAAAAAAT
Found at i:113824 original size:35 final size:35
Alignment explanation
Indices: 113785--113860 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
113775 AAAACAATCC
* *
113785 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
113820 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
113855 TCAATT
1 TCAATT
113861 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:114398 original size:131 final size:131
Alignment explanation
Indices: 114257--114504 Score: 406
Period size: 131 Copynumber: 1.9 Consensus size: 131
114247 TATTTATATA
* **
114257 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAAGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAAGATCTGACATGTG
* *
114322 TTAGCACATGATCATGACACGTGTCATTGGTGACACATATCACCACCTAATTTATTTATATATGC
66 TTAACACATGATCATGACACATGTCATTGGTGACACATATCACCACCTAATTTATTTATATATGC
114387 T
131 T
*
114388 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAAGATCTGACATGTG
* * * *
114453 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATATCACCACCTAATT
114505 AGAAGAAAAT
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 107 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (131 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAAGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATATCACCACCTAATTTATTTATATATGC
T
Found at i:114993 original size:17 final size:19
Alignment explanation
Indices: 114971--115005 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
114961 ATTTCTTATT
114971 AAAAATA-AAAT-ATTCAA
1 AAAAATATAAATGATTCAA
114988 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
115006 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.26
Consensus pattern (19 bp):
AAAAATATAAATGATTCAA
Found at i:116561 original size:60 final size:59
Alignment explanation
Indices: 116424--116561 Score: 134
Period size: 60 Copynumber: 2.3 Consensus size: 59
116414 AATATAATGA
* * *
116424 ATAGTCAAGTGACCATTTTGTAACTTTTAATAGTCAGGGTACTCAACAAAGCAACACTCT
1 ATAGTCAAG-GACCATTTTATAACTTTTAATAGTCAGGATACTCAACAAAGCAACACCCT
* * * * * * **
116484 ATAGTCGAAGTATCATTTTATAATTTTTAATAGTC-GAGATACTTAATAAAGTAGTACCCT
1 ATAGTC-AAGGACCATTTTATAACTTTTAATAGTCAG-GATACTCAACAAAGCAACACCCT
116544 ATAGTCAAGAGACCATTT
1 ATAGTCAAG-GACCATTT
116562 ATGTACTTAA
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
59 4 0.06
60 55 0.89
61 3 0.05
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (59 bp):
ATAGTCAAGGACCATTTTATAACTTTTAATAGTCAGGATACTCAACAAAGCAACACCCT
Found at i:120689 original size:15 final size:15
Alignment explanation
Indices: 120669--120750 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
120659 TTTCGGAAAA
*
120669 TGAATTACTGGAGTT
1 TGAATTACTGGAATT
120684 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
120699 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
120714 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
120729 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
120743 TGAATTAC
1 TGAATTAC
120751 ATTTCTGGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
14 12 0.20
15 47 0.80
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:120714 original size:45 final size:44
Alignment explanation
Indices: 120663--120750 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 44
120653 TTGGTTTTTC
* **
120663 GGAAAATGAATTACTGGAGTTTGAATTACTGGAATTTGAATTACT
1 GGAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACT
120708 GGAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GGAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
120751 ATTTCTGGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.33
Consensus pattern (44 bp):
GGAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACT
Found at i:120748 original size:29 final size:30
Alignment explanation
Indices: 120669--120750 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
120659 TTTCGGAAAA
***
120669 TGAATTACTGGAGTTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
120699 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
120729 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
120751 ATTTCTGGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 16 0.33
30 33 0.67
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:120756 original size:20 final size:20
Alignment explanation
Indices: 120733--120782 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
120723 GGAATTTGAA
120733 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
120753 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
120773 TTCTGGAAAA
1 TTCTGGAAAA
120783 CATCTGGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:121017 original size:30 final size:27
Alignment explanation
Indices: 120983--121046 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 27
120973 TTACTAAAAT
120983 ATTATTGAAATATATAAAATAATATTATTC
1 ATTATT-AAATATATAAAA-AAT-TTATTC
121013 ATTATTAAATATATAAAAAATTTATT-
1 ATTATTAAATATATAAAAAATTTATTC
121039 ATATATTA
1 AT-TATTA
121047 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
26 2 0.06
27 10 0.30
28 3 0.09
29 12 0.36
30 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
ATTATTAAATATATAAAAAATTTATTC
Found at i:121047 original size:30 final size:30
Alignment explanation
Indices: 120981--121148 Score: 100
Period size: 30 Copynumber: 5.5 Consensus size: 30
120971 CTTTACTAAA
120981 ATATTATTGAAATATATAAAATAA--TATTAT
1 ATATTATT-AAATATATAAAA-AATTTATTAT
121011 -TCATTATTAAATATATAAAAAATTTATTAT
1 AT-ATTATTAAATATATAAAAAATTTATTAT
*
121041 ATATTATTAAA-ATA-AAATAAA-ATATCT-T
1 ATATTATTAAATATATAAA-AAATTTAT-TAT
* *** *
121069 ATATTATTATA-ATATAATTGATTATTTTAT
1 ATATTATTAAATATATAAAAAATT-TATTAT
* * *
121099 ATAATATTAAAAATATAATATAATATTATTAT
1 ATATTATTAAATATATAA-AAAAT-TTATTAT
*
121131 AAATATTAATAAATATAT
1 --ATATTATTAAATATAT
121149 TTTAAATATT
Statistics
Matches: 108, Mismatches: 15, Indels: 26
0.72 0.10 0.17
Matches are distributed among these distances:
28 23 0.21
29 23 0.21
30 33 0.31
31 7 0.06
32 8 0.07
33 1 0.01
34 13 0.12
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (30 bp):
ATATTATTAAATATATAAAAAATTTATTAT
Found at i:121098 original size:28 final size:28
Alignment explanation
Indices: 121013--121128 Score: 81
Period size: 28 Copynumber: 3.9 Consensus size: 28
121003 AATATTATTC
*
121013 ATTATTAAATATATAAA-AAATTTATTATAT
1 ATTATTAAA-ATA-AAATAAA-TTATTTTAT
* *
121043 ATTATTAAAATAAAATAAAATATCTTAT
1 ATTATTAAAATAAAATAAATTATTTTAT
* * **
121071 ATTATTATAATATAATTGATTATTTTAT
1 ATTATTAAAATAAAATAAATTATTTTAT
121099 ATAATATTAAAAATATAATATAATATTATT
1 AT--TATT-AAAATA-AA-ATAA-ATTATT
121129 ATAAATATTA
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
28 33 0.50
29 6 0.09
30 13 0.20
31 5 0.08
32 1 0.02
33 2 0.03
34 6 0.09
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.47
Consensus pattern (28 bp):
ATTATTAAAATAAAATAAATTATTTTAT
Found at i:121107 original size:15 final size:16
Alignment explanation
Indices: 121069--121132 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 16
121059 AAAATATCTT
121069 ATATTATTATAATATA
1 ATATTATTATAATATA
*
121085 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
121102 ATATTAAAAATATAATATA
1 ATATT---ATTATAATATA
121121 ATATTATTATAA
1 ATATTATTATAA
121133 ATATTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
15 3 0.08
16 8 0.21
17 8 0.21
18 8 0.21
19 11 0.29
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:121142 original size:10 final size:10
Alignment explanation
Indices: 121101--121146 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
121091 TATTTTATAT
121101 AATATTAA-A
1 AATATTAATA
121110 AATA-TAATA
1 AATATTAATA
121119 TAATATTATTATA
1 -AATATTA--ATA
121132 AATATTAATA
1 AATATTAATA
121142 AATAT
1 AATAT
121147 ATTTTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 3 0.09
9 5 0.16
10 12 0.38
11 2 0.06
12 7 0.22
13 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AATATTAATA
Found at i:121149 original size:21 final size:22
Alignment explanation
Indices: 121102--121158 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
121092 ATTTTATATA
*
121102 ATATTAAAAATA-TAATATAAT
1 ATATTATAAATATTAATATAAT
121123 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
121145 ATATTTTAAATATT
1 ATATTATAAATATT
121159 TTAATAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 13 0.41
22 14 0.44
23 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:121163 original size:23 final size:21
Alignment explanation
Indices: 121109--121158 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
121099 ATAATATTAA
*
121109 AAATA-TAATATAATATTATTAT
1 AAATATTAATA-AATA-TATTTT
121131 AAATATTAATAAATATATTTT
1 AAATATTAATAAATATATTTT
121152 AAATATT
1 AAATATT
121159 TTAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.46
22 9 0.35
23 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATATTAATAAATATATTTT
Found at i:121409 original size:42 final size:42
Alignment explanation
Indices: 121350--121466 Score: 189
Period size: 42 Copynumber: 2.8 Consensus size: 42
121340 AATTACATTC
* *
121350 CGGAAAACGAATTACGTGAAACAAATACGGGAAAACGTTTTA
1 CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTA
* *
121392 CGGAAAACGAATTACGTGAAACAAACACGGGGAAACATTTTC
1 CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTA
*
121434 CGGAAAACGAATTACGTGAAACAAACACTGGAA
1 CGGAAAACGAATTACGTGAAACAAACACGGGAA
121467 TTCGGGGAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.16
Consensus pattern (42 bp):
CGGAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTA
Found at i:121413 original size:14 final size:15
Alignment explanation
Indices: 121352--121412 Score: 65
Period size: 14 Copynumber: 4.3 Consensus size: 15
121342 TTACATTCCG
121352 GAAAACGAATTACGT
1 GAAAACGAATTACGT
* *
121367 G-AAAC-AAATACGG
1 GAAAACGAATTACGT
**
121380 GAAAACGTTTTACG-
1 GAAAACGAATTACGT
121394 GAAAACGAATTACGT
1 GAAAACGAATTACGT
121409 GAAA
1 GAAA
121413 CAAACACGGG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
13 7 0.19
14 20 0.56
15 9 0.25
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.18
Consensus pattern (15 bp):
GAAAACGAATTACGT
Found at i:135308 original size:16 final size:17
Alignment explanation
Indices: 135289--135326 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
135279 AGTAAAATAT
135289 TTTTTA-AATAATTAC-A
1 TTTTTACAATAA-TACTA
135305 TTTTTACAATAATACTA
1 TTTTTACAATAATACTA
135322 TTTTT
1 TTTTT
135327 TTCATCCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTTACAATAATACTA
Found at i:135309 original size:17 final size:18
Alignment explanation
Indices: 135286--135327 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 18
135276 GGTAGTAAAA
135286 TATTTTTTA-AATAATTAC
1 TATTTTTTACAATAA-TAC
135304 -A-TTTTTACAATAATAC
1 TATTTTTTACAATAATAC
135320 TATTTTTT
1 TATTTTTT
135328 TCATCCCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
16 9 0.43
17 7 0.33
18 5 0.24
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTTTTACAATAATAC
Found at i:136056 original size:75 final size:75
Alignment explanation
Indices: 135954--136094 Score: 219
Period size: 75 Copynumber: 1.9 Consensus size: 75
135944 GATAAAAATA
* * * *
135954 AATAAAATTTTAGAGTGGTCGCCTTCAATAAAATGAGCAACTAATATAAATAAATTCGAATTTCA
1 AATAAAATTTTAGAGTGGACACCTTCAATAAAATGAACAACTAATATAAAGAAATTCGAATTTCA
136019 GGTTAGGCAT
66 GGTTAGGCAT
* * *
136029 AATAAAATTTTAGGGTGGACACTTTCAATAAAATGAACAACTAGTATAAAGAAATTCGAATTTCA
1 AATAAAATTTTAGAGTGGACACCTTCAATAAAATGAACAACTAATATAAAGAAATTCGAATTTCA
136094 G
66 G
136095 TGTGGACACG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 59 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (75 bp):
AATAAAATTTTAGAGTGGACACCTTCAATAAAATGAACAACTAATATAAAGAAATTCGAATTTCA
GGTTAGGCAT
Found at i:136535 original size:16 final size:17
Alignment explanation
Indices: 136514--136552 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
136504 TATTTTAAAG
*
136514 AAAATATT-TTGAGAGT
1 AAAATATTGATGAGAGT
136530 AAAATATTGATGAGAGT
1 AAAATATTGATGAGAGT
136547 ATAAAT
1 A-AAAT
136553 GAATCAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 8 0.40
18 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (17 bp):
AAAATATTGATGAGAGT
Found at i:136956 original size:157 final size:159
Alignment explanation
Indices: 136723--137092 Score: 460
Period size: 157 Copynumber: 2.3 Consensus size: 159
136713 AGCATGTCAT
** *
136723 TTAAATTTGGTAAAAAAATGAACTTAAAATAAATAACAAATTGAATTAATAAGGAGATTATGAAA
1 TTAAATTTGGTAAAAAAATGAACTTAAAATAAATAACAAATTGAAGAAATAAGGACATTATGAAA
** * * *
136788 AATTGAAGGACTAAATTGAAAAATAAAAAGTTTGTTGTC-AAAAAGAGGAATTGAAAGTACACAT
66 AATTGAAGGACTAAATTGAAAAATAAAAAAATTATTATCAAAAAAGAGAAATTGAAAGTACACAT
**
136852 GTATTCTACTATGGTTTAGGAGCATGTGG
131 GTATTCTACTATACTTTAGGAGCATGTGG
* * * *
136881 CTTAAATTTGGTAAAAATA-G-ATTTAAAATAAATGACGAATTGAAGAAATAAGGACATTATGAA
1 -TTAAATTTGGTAAAAAAATGAACTTAAAATAAATAACAAATTGAAGAAATAAGGACATTATGAA
* **
136944 AAATTGAAGGACTAAATTGAAAAATAAAAAAATTATTATCAAAAAAGAGAAATTGAAAGTATATG
65 AAATTGAAGGACTAAATTGAAAAATAAAAAAATTATTATCAAAAAAGAGAAATTGAAAGTACACA
*
137009 TGTATTCTACTATACTTTAGGATCATGTGG
130 TGTATTCTACTATACTTTAGGAGCATGTGG
* * * ** *
137039 TTCAAATTTAGTAAAAGAAA-CAGACTTAAAATGAAGGAGAAATTGAAGAAATAA
1 TT-AAATTTGGTAAAA-AAATGA-ACTTAAAATAAATAACAAATTGAAGAAATAA
137093 TTAAATCAAT
Statistics
Matches: 180, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
157 75 0.42
158 60 0.33
159 19 0.11
161 26 0.14
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.28
Consensus pattern (159 bp):
TTAAATTTGGTAAAAAAATGAACTTAAAATAAATAACAAATTGAAGAAATAAGGACATTATGAAA
AATTGAAGGACTAAATTGAAAAATAAAAAAATTATTATCAAAAAAGAGAAATTGAAAGTACACAT
GTATTCTACTATACTTTAGGAGCATGTGG
Found at i:138737 original size:2 final size:2
Alignment explanation
Indices: 138730--138762 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
138720 GAAAGTGAAT
138730 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 T
138763 TTACTTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:139375 original size:16 final size:16
Alignment explanation
Indices: 139354--139386 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
139344 TAATAAATAG
139354 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
139370 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
139386 A
1 A
139387 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:139477 original size:16 final size:16
Alignment explanation
Indices: 139456--139516 Score: 113
Period size: 16 Copynumber: 3.8 Consensus size: 16
139446 TAATAAATAA
139456 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
139472 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
139488 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
139504 ACGAACATAAACG
1 ACGAACATAAACG
139517 TTGGAGACCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.56, C:0.23, G:0.13, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:140282 original size:14 final size:14
Alignment explanation
Indices: 140265--140320 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
140255 AATGAACATA
*
140265 AACGAACATAATCG
1 AACGAACATAACCG
140279 AACGAACAT-A---
1 AACGAACATAACCG
140289 AACGAACATAACCG
1 AACGAACATAACCG
140303 AACGAACATAACCG
1 AACGAACATAACCG
140317 AACG
1 AACG
140321 TTCACGAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.52, C:0.25, G:0.14, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:140285 original size:24 final size:24
Alignment explanation
Indices: 140245--140319 Score: 107
Period size: 24 Copynumber: 3.1 Consensus size: 24
140235 GATTGGGTTA
*
140245 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
140269 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
* *
140293 AACATAACCGAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
140317 AAC
1 AAC
140320 GTTCACGAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 3 0.06
24 44 0.94
ACGTcount: A:0.55, C:0.21, G:0.12, T:0.12
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:140319 original size:10 final size:10
Alignment explanation
Indices: 140258--140305 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
140248 ATAAATGAAT
140258 GAACATAAAC
1 GAACATAAAC
140268 GAACATAATCGAAC
1 GAACAT-A---AAC
140282 GAACATAAAC
1 GAACATAAAC
*
140292 GAACATAACC
1 GAACATAAAC
140302 GAAC
1 GAAC
140306 GAACATAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.10
Consensus pattern (10 bp):
GAACATAAAC
Found at i:142531 original size:66 final size:66
Alignment explanation
Indices: 142413--142566 Score: 227
Period size: 66 Copynumber: 2.3 Consensus size: 66
142403 GAGTCAATGA
* ** * * * **
142413 TGCACGAGGTGGAGTGATTGTTGAATACTGTACATATCACTCAATGTGACTCATGTACCTTTGTG
1 TGCATGAGGTGGAGTGATAATTGAATACTGCACAAATCACTCAACGAAACTCATGTACCTTTGTG
142478 G
66 G
142479 TGCATGAGGTGGAGTGATAATTGAATACTGCACAAATCACTCAACGAAACTCATGTACCTTTGTG
1 TGCATGAGGTGGAGTGATAATTGAATACTGCACAAATCACTCAACGAAACTCATGTACCTTTGTG
142544 G
66 G
*
142545 TGTATGAGGTGGAGTGATAATT
1 TGCATGAGGTGGAGTGATAATT
142567 AGGGTCTGTT
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 79 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (66 bp):
TGCATGAGGTGGAGTGATAATTGAATACTGCACAAATCACTCAACGAAACTCATGTACCTTTGTG
G
Found at i:142626 original size:15 final size:15
Alignment explanation
Indices: 142606--142677 Score: 119
Period size: 15 Copynumber: 4.9 Consensus size: 15
142596 TTCCAGAAAA
142606 TGAATTACTGGAATT
1 TGAATTACTGGAATT
142621 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
142636 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
142651 TGAATTACTGGAATT
1 TGAATTACTGGAATT
142666 TGAATT-CTGGAA
1 TGAATTACTGGAA
142678 AATGAATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.11
15 47 0.89
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:142640 original size:30 final size:30
Alignment explanation
Indices: 142606--142686 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
142596 TTCCAGAAAA
**
142606 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
142636 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
142666 TGAATT-CTGGAAAATGAATTA
1 TGAATTACTGGAAAATGAATTA
142687 TATTTCTGTA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 15 0.31
30 34 0.69
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:142652 original size:45 final size:44
Alignment explanation
Indices: 142601--142686 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 44
142591 TGGTTTTCCA
**
142601 GAAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTG
142646 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTA
1 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTA
142687 TATTTCTGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 13 0.33
45 26 0.67
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.34
Consensus pattern (44 bp):
GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACTG
Found at i:142693 original size:20 final size:20
Alignment explanation
Indices: 142670--142739 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
142660 GGAATTTGAA
*
142670 TTCTGGAAAATGAATTATAT
1 TTCTGGAAAATGAATTACAT
*
142690 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
142710 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
142730 TTCTGGAAAA
1 TTCTGGAAAA
142740 CATCTGGAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:142940 original size:29 final size:29
Alignment explanation
Indices: 142905--143007 Score: 99
Period size: 29 Copynumber: 3.5 Consensus size: 29
142895 CTTTACTAAA
*
142905 ATATTATTGAAATATATAAATAA-TATTAT
1 ATATTATT-AAATATATAAAAAATTATTAT
142934 -TCATTATTAAATATATAAAAAATTATTAT
1 AT-ATTATTAAATATATAAAAAATTATTAT
*
142963 ATATTATTAAA-ATA-AAAATATAATATCT-T
1 ATATTATTAAATATATAAAA-A-ATTAT-TAT
142992 ATATTATTATAATATA
1 ATATTATTA-AATATA
143008 ATTGATTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
27 4 0.06
28 18 0.28
29 35 0.55
30 4 0.06
31 3 0.05
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (29 bp):
ATATTATTAAATATATAAAAAATTATTAT
Found at i:142958 original size:26 final size:27
Alignment explanation
Indices: 142906--143072 Score: 94
Period size: 29 Copynumber: 5.9 Consensus size: 27
142896 TTTACTAAAA
142906 TATTATTGAAATATATAAATAATATTAT
1 TATTATT-AAATATATAAATAATATTAT
*
142934 TCATTATTAAATATATAAAAAATTATTAT
1 T-ATTATTAAATATATAAATAA-TATTAT
*
142963 ATATTATTAAA-ATAAAAATATAATATCT-T
1 -TATTATTAAATAT-ATAA-ATAATAT-TAT
** * *
142992 ATATTATTATAATATAATTGATTATTTTAT
1 -TATTATTA-AATAT-ATAAATAATATTAT
* * *
143022 ATAATATTAAAAATAT-AATATTA-TAT
1 -TATTATTAAATATATAAATAATATTAT
143048 TATTA-TAAATATTAATAAAT-ATATT
1 TATTATTAAATA-T-ATAAATAATATT
143073 TTAAATATTT
Statistics
Matches: 109, Mismatches: 17, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
24 5 0.05
25 5 0.05
26 7 0.06
27 7 0.06
28 18 0.17
29 42 0.39
30 21 0.19
31 4 0.04
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
TATTATTAAATATATAAATAATATTAT
Found at i:143046 original size:22 final size:23
Alignment explanation
Indices: 143021--143064 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
143011 GATTATTTTA
143021 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
143043 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
143065 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:143069 original size:22 final size:22
Alignment explanation
Indices: 143025--143081 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
143015 ATTTTATATA
* *
143025 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
143046 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
143068 ATATTTTAAATATT
1 ATATTATAAATATT
143082 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:143080 original size:52 final size:51
Alignment explanation
Indices: 142961--143081 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 51
142951 AAAAATTATT
**
142961 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATATAATA-CTTATATTATTATAATATAATAA
143012 AT-TATTTTATATAATATTAAAAATATAATA-TTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAATACTTATATTATTAT-AATA-TAATAA
143066 ATATATTTTAAATATT
1 ATATATTTTAAATATT
143082 TTAATAATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 20 0.33
53 7 0.12
54 22 0.37
55 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (51 bp):
ATATATTTTAAATATTAAAAATATAATACTTATATTATTATAATATAATAA
Found at i:143332 original size:42 final size:42
Alignment explanation
Indices: 143273--143389 Score: 216
Period size: 42 Copynumber: 2.8 Consensus size: 42
143263 AATTACATTT
* *
143273 CGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTTTTC
1 CGGAAAATGAATTACGTGAAACAAACACGGGAAAACATTTTC
143315 CGGAAAATGAATTACGTGAAACAAACACGGGAAAACATTTTC
1 CGGAAAATGAATTACGTGAAACAAACACGGGAAAACATTTTC
143357 CGGAAAATGAATTACGTGAAACAAACACGGGAA
1 CGGAAAATGAATTACGTGAAACAAACACGGGAA
143390 TTCGGGGAAA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.16
Consensus pattern (42 bp):
CGGAAAATGAATTACGTGAAACAAACACGGGAAAACATTTTC
Found at i:143553 original size:66 final size:66
Alignment explanation
Indices: 143443--143568 Score: 173
Period size: 66 Copynumber: 1.9 Consensus size: 66
143433 CATACCCTTA
* * * *
143443 AATATTGTACATATTACTCAATGAGACTCATGTACCTTTGTGGTGCATGAGGTGTAGTGATAATT
1 AATATTGTACATATCACTCAACGAGACTCATGTACATTTATGGTGCATGAGGTGTAGTGATAATT
143508 G
66 G
** *
143509 AATATTGTAC-TGATCACTCAACGAGACTTGTGTACATTTATGGTGTATGAGGTGTAGTGA
1 AATATTGTACAT-ATCACTCAACGAGACTCATGTACATTTATGGTGCATGAGGTGTAGTGA
143569 CTATATGATA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
65 1 0.02
66 51 0.98
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (66 bp):
AATATTGTACATATCACTCAACGAGACTCATGTACATTTATGGTGCATGAGGTGTAGTGATAATT
G
Found at i:144065 original size:17 final size:17
Alignment explanation
Indices: 144039--144071 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
144029 CGAGAGTTAT
144039 ATTAAAATGTGAAATAA
1 ATTAAAATGTGAAATAA
*
144056 ATTAATATGTGAAATA
1 ATTAAAATGTGAAATA
144072 TCATAAAAGA
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:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (17 bp):
ATTAAAATGTGAAATAA
Found at i:147630 original size:26 final size:26
Alignment explanation
Indices: 147601--147651 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
147591 AAAAAGCATG
147601 TTCTT-TATTTTCTCCACTCATTTCAT
1 TTCTTCTATTTTCTCCAC-CATTTCAT
* *
147627 TTCTTCTTTTTTCTCCTCCATTTCA
1 TTCTTCTATTTTCTCCACCATTTCA
147652 CTCGAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.59
Consensus pattern (26 bp):
TTCTTCTATTTTCTCCACCATTTCAT
Found at i:154937 original size:2 final size:2
Alignment explanation
Indices: 154930--154981 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
154920 AAAGCTAATA
154930 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
154972 AT AT AT AT AT
1 AT AT AT AT AT
154982 CAGCTATTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:156224 original size:23 final size:23
Alignment explanation
Indices: 156198--156245 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
156188 ATAAAGTACA
*
156198 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
156221 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
156244 AT
1 AT
156246 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:156645 original size:21 final size:20
Alignment explanation
Indices: 156615--156668 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
156605 GATAGACACT
*
156615 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
156636 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
156659 TTACATTATA
1 TTACATTATA
156669 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:156656 original size:23 final size:23
Alignment explanation
Indices: 156630--156687 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
156620 ATATAACCAT
156630 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
156653 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
156676 TACCTATTACAT
1 TACCTATTACAT
156688 CATAGTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:159125 original size:183 final size:184
Alignment explanation
Indices: 158575--159240 Score: 1157
Period size: 183 Copynumber: 3.7 Consensus size: 184
158565 TTTTAAATGG
** *
158575 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATACCGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
158640 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
158705 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
** *
158759 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA-CCGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
158823 TAAAACCGGTATATTTATACCGG-T-TATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
158886 GATGTGT-AAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTTCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
158939 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
159004 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
* *
159069 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACA-ATTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
159122 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
* **
159187 TAAGACCGGTATATTTATACCGGTTTATATTAC-AAA-TATCTATTTTATTATAAT
66 TAAAACCGGTATATTTATACCGG-TTATATTACAAAATTATCTATTACATTATAAT
159241 ATGTGAAAGT
Statistics
Matches: 466, Mismatches: 11, Indels: 12
0.95 0.02 0.02
Matches are distributed among these distances:
180 87 0.19
181 87 0.19
182 18 0.04
183 190 0.41
184 84 0.18
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
Found at i:160590 original size:3 final size:3
Alignment explanation
Indices: 160582--160632 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
160572 ACTTGTTTGG
* * * *
160582 ATC ATC ATC TTC ATC ATC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
160630 ATC
1 ATC
160633 GTCAGCTTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:160599 original size:12 final size:12
Alignment explanation
Indices: 160582--160644 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
160572 ACTTGTTTGG
160582 ATCATCATCTTC
1 ATCATCATCTTC
*
160594 ATCATCATCGTC
1 ATCATCATCTTC
*
160606 ATCATCATCATC
1 ATCATCATCTTC
*
160618 ATCGTCATCTTC
1 ATCATCATCTTC
* *
160630 ATCGTCAGCTTC
1 ATCATCATCTTC
160642 ATC
1 ATC
160645 TTCTGCGACA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:160643 original size:18 final size:18
Alignment explanation
Indices: 160586--160647 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
160576 GTTTGGATCA
160586 TCATCTTCATCATCATCG
1 TCATCTTCATCATCATCG
*
160604 TCATCATCATCATCATCG
1 TCATCTTCATCATCATCG
* * *
160622 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCATCG
160640 TCATCTTC
1 TCATCTTC
160648 TGCGACACCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCATCATCG
Found at i:160647 original size:6 final size:6
Alignment explanation
Indices: 160586--160647 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
160576 GTTTGGATCA
* * * * * *
160586 TCATCT TCATCA TCATCG TCATCA TCATCA TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
160634 TCAGCT TCATCT TC
1 TCATCT TCATCT TC
160648 TGCGACACCA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:160760 original size:3 final size:3
Alignment explanation
Indices: 160752--160802 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
160742 GAGATCAAAA
* * * *
160752 ATC ATC ATC TTC ATC ATC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
160800 ATC
1 ATC
160803 GTCAGCTTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:160769 original size:12 final size:12
Alignment explanation
Indices: 160752--160814 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
160742 GAGATCAAAA
160752 ATCATCATCTTC
1 ATCATCATCTTC
*
160764 ATCATCATCGTC
1 ATCATCATCTTC
*
160776 ATCATCATCATC
1 ATCATCATCTTC
*
160788 ATCGTCATCTTC
1 ATCATCATCTTC
* *
160800 ATCGTCAGCTTC
1 ATCATCATCTTC
160812 ATC
1 ATC
160815 TTCTGCGACC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:160813 original size:18 final size:18
Alignment explanation
Indices: 160756--160817 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
160746 TCAAAAATCA
160756 TCATCTTCATCATCATCG
1 TCATCTTCATCATCATCG
*
160774 TCATCATCATCATCATCG
1 TCATCTTCATCATCATCG
* * *
160792 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCATCG
160810 TCATCTTC
1 TCATCTTC
160818 TGCGACCGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCATCATCG
Found at i:160817 original size:6 final size:6
Alignment explanation
Indices: 160756--160817 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
160746 TCAAAAATCA
* * * * * *
160756 TCATCT TCATCA TCATCG TCATCA TCATCA TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
160804 TCAGCT TCATCT TC
1 TCATCT TCATCT TC
160818 TGCGACCGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:162757 original size:191 final size:198
Alignment explanation
Indices: 162260--163092 Score: 1356
Period size: 189 Copynumber: 4.3 Consensus size: 198
162250 TTTAAATTAG
*
162260 TATCGACACAAA-TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGA-ACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
162324 ATTGTACCGGTTAGATTAAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 ATTGTACCGGTTAGATT-AAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGA
162389 TCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGA
128 TCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGA
162454 AAAAAA
193 AAAAAA
162460 TATCGACACAAACTATATTAGTGTCG-ACATTATTTAGACTTATTCTCTCATAAAACC-GTAT--
1 TATCGACACAAACTATATTAGTGTCGAACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
*
162521 TTGTACCGGTTAGATT-AAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGATCG
66 TTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATCG
162584 ACACTTTTTTATAT-TGGATCGACACTTTAT-GG-GCACCTTGTTTTTAATTCATTCTGGGAAAA
131 ACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
162646 AAA
196 AAA
162649 TATCGACACAAACTATATTTAGTGTCG-ACATT-TTTAGACTTA-TCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATA-TTAGTGTCGAACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
162711 ATTGTACCGGTTAGATT-GAAAATTACATATT-CATTATACTTTTGGGTTCGAT--TTTGGGATC
65 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATC
* * ***
162772 GACAC--TTTTATATATGGAATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCT-GGAA
130 GACACTTTTTTATATATGG-ATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
162833 AAAAA
194 AAAAA
162838 TATCGACACAAACTATATT-GTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGA-ACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
162902 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTT-GGTTCGATGATTTGGGATC
65 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATC
162966 GACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAA-TCATTCTGGGAAA
130 GACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
163030 AAAA
195 AAAA
163034 TATCGACA-AAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
1 TATCGACACAAACTATATTAGTGTCGA-ACATTATTTAGACTTATTCTCTCATAAAACCG
163093 CCTCCACTGC
Statistics
Matches: 596, Mismatches: 14, Indels: 50
0.90 0.02 0.08
Matches are distributed among these distances:
187 14 0.02
188 19 0.03
189 121 0.20
190 46 0.08
191 102 0.17
192 44 0.07
193 26 0.04
194 37 0.06
195 40 0.07
196 88 0.15
198 4 0.01
199 30 0.05
200 12 0.02
201 13 0.02
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGAACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
TTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATCG
ACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
AAA
Found at i:165218 original size:22 final size:20
Alignment explanation
Indices: 165170--165214 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
165160 TCCGGTATCA
*
165170 TTTTACCGTTTTTATCATTT
1 TTTTACCGGTTTTATCATTT
**
165190 TGATACCGGTTTTATCATATT
1 TTTTACCGGTTTTATCAT-TT
165211 TTTT
1 TTTT
165215 TACCTGTTAT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.18, C:0.13, G:0.09, T:0.60
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATTT
Found at i:165365 original size:20 final size:19
Alignment explanation
Indices: 165338--165383 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
165328 ACACTTTTAA
165338 TTTTACCGGTTTTATCAT-T
1 TTTTACCGG-TTTATCATAT
165357 TTGTTACCGGTTTATCATAT
1 TT-TTACCGGTTTATCATAT
165377 TTTTACC
1 TTTTACC
165384 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (19 bp):
TTTTACCGGTTTATCATAT
Found at i:165372 original size:19 final size:19
Alignment explanation
Indices: 165340--165398 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
165330 ACTTTTAATT
165340 TTACCGGTTTTATCATTTTG
1 TTACCGG-TTTATCATTTTG
165360 TTACCGGTTTATCATATTT-
1 TTACCGGTTTATCAT-TTTG
* *
165379 TTACCTGGTATATCGTTTTG
1 TTACC-GGTTTATCATTTTG
165399 GATCGATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.53
Consensus pattern (19 bp):
TTACCGGTTTATCATTTTG
Found at i:165834 original size:221 final size:220
Alignment explanation
Indices: 165452--165884 Score: 701
Period size: 221 Copynumber: 1.9 Consensus size: 220
165442 AACTGCTTTT
*
165452 AAGTTATGTAATTTATGTTTCAATTTAAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTA
1 AAGTTATGTAATTTATGTTTCAATTTAAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTA
*
165517 ATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATT
66 ATAATTTAATTTACACAAAA-TATATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATT
* *
165582 TAAATTTAACAATATTAACCAAA-TATAAT-AATATGTTTTCAACAGTGAAATAAGTATGGACAC
130 TAAATTTAACAATATTAACCAAAGAATAATAAATATATTTTC-ACAGTGAAATAAGTATGGACAC
*
165645 TTTTATAAAAATGATATACTTTTTTGA
194 TTTTATAAAAAGGATATACTTTTTTGA
*
165672 AAGTTATGTAATTTATGTTTCAATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATT
1 AAGTTATGTAATTTATGTTTCAA--TTTAAATAGTGTTTCATGTTTTCCACCTACAATATTAATT
* *
165737 TAATAATTTCATTTTACACAAAA-ATATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAT
64 TAATAATTT-AATTTACACAAAATATATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAA
*
165801 TTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTCACAGTGAAATAAGTATGGA
128 TTTAAATTTAACAATATTAACCAAAG--AATAATAAATATATTTTCACAGTGAAATAAGTATGGA
165866 CACTTTTATAAAAAGGATA
191 CACTTTTATAAAAAGGATA
165885 GATAATTTAC
Statistics
Matches: 197, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
220 23 0.12
221 63 0.32
222 47 0.24
223 12 0.06
224 42 0.21
225 10 0.05
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.45
Consensus pattern (220 bp):
AAGTTATGTAATTTATGTTTCAATTTAAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTA
ATAATTTAATTTACACAAAATATATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTT
AAATTTAACAATATTAACCAAAGAATAATAAATATATTTTCACAGTGAAATAAGTATGGACACTT
TTATAAAAAGGATATACTTTTTTGA
Found at i:167043 original size:18 final size:17
Alignment explanation
Indices: 167020--167060 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
167010 TACGTGATTA
167020 AATTAACTTATATTTT-TT
1 AATTAA-TT-TATTTTATT
167038 AATTAATTTATTTTATT
1 AATTAATTTATTTTATT
167055 AATTAA
1 AATTAA
167061 AAAATTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.27
17 10 0.45
18 6 0.27
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTAATTTATTTTATT
Found at i:171668 original size:59 final size:59
Alignment explanation
Indices: 171593--171706 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 59
171583 ATGTTTTAAA
* *
171593 TAATTATTTTTTAC-TTTTAACGTTTTAGATATGGACCAAAACAAACCCAATAATAAGT
1 TAATTATTGTTTACTTTTTAACGTTTTAGATATGGACAAAAACAAACCCAATAATAAGT
* * * * * *
171651 TAATTAATTGTTTACTTTTTAATGTTTTGGGTTTGGACAAAAACATACCTAATAAT
1 TAATT-ATTGTTTACTTTTTAACGTTTTAGATATGGACAAAAACAAACCCAATAAT
171707 TTAATTATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
58 5 0.11
59 8 0.17
60 33 0.72
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (59 bp):
TAATTATTGTTTACTTTTTAACGTTTTAGATATGGACAAAAACAAACCCAATAATAAGT
Found at i:172871 original size:6 final size:6
Alignment explanation
Indices: 172860--172885 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
172850 TCCACTTCCG
172860 TTTGTT TTTGTT TTTGTT TTTGTT TT
1 TTTGTT TTTGTT TTTGTT TTTGTT TT
172886 AATTTCTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTGTT
Found at i:175879 original size:23 final size:24
Alignment explanation
Indices: 175853--175909 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
175843 GTTCGTGAAC
*
175853 ATATTTGTTTAA-ATGTTCGTTTA
1 ATATTTGTTTAACATGTTCATTTA
* *
175876 ATATTCG-TGAACATGTTCATTTA
1 ATATTTGTTTAACATGTTCATTTA
*
175899 TTATTTGTTTA
1 ATATTTGTTTA
175910 TTGTTCGCGA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
22 3 0.12
23 21 0.81
24 2 0.08
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.54
Consensus pattern (24 bp):
ATATTTGTTTAACATGTTCATTTA
Found at i:179818 original size:18 final size:19
Alignment explanation
Indices: 179776--179818 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
179766 TTTGGTTCAC
*
179776 GGAATGTAAGATTACTACTG
1 GGAATGTAAGATTAC-ACAG
179796 GGAATGTAAGATTAC-CAG
1 GGAATGTAAGATTACACAG
179814 GGAAT
1 GGAAT
179819 AGGATTACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
20 15 0.68
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (19 bp):
GGAATGTAAGATTACACAG
Found at i:183942 original size:41 final size:41
Alignment explanation
Indices: 183881--183975 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
183871 AGCCAAAGGC
*
183881 CAAGCTTCTTCCTTCTGAATCCGACGGCATCAGTTCACCTA
1 CAAGCTTCTTCCTTCAGAATCCGACGGCATCAGTTCACCTA
* *
183922 CAAGCTTCTTCCTTCAGAATCCGACTGCATCAGTTCACCTG
1 CAAGCTTCTTCCTTCAGAATCCGACGGCATCAGTTCACCTA
183963 CAAGCTTCTTCCT
1 CAAGCTTCTTCCT
183976 CCTTTCGGGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.21, C:0.35, G:0.14, T:0.31
Consensus pattern (41 bp):
CAAGCTTCTTCCTTCAGAATCCGACGGCATCAGTTCACCTA
Found at i:188224 original size:26 final size:25
Alignment explanation
Indices: 188195--188246 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
188185 AATAAATACC
188195 ATACA-TCAATATGCACTACTAATAAT
1 ATACACTC-ATATGCACTACTAA-AAT
*
188221 ATACACTCATATGCATTACTAAAAT
1 ATACACTCATATGCACTACTAAAAT
188246 A
1 A
188247 AAGGCAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 18 0.75
27 2 0.08
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (25 bp):
ATACACTCATATGCACTACTAAAAT
Found at i:188292 original size:4 final size:4
Alignment explanation
Indices: 188283--188312 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
188273 ATCAAAATAT
188283 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
188313 AGGACCCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:189150 original size:133 final size:134
Alignment explanation
Indices: 188894--189164 Score: 397
Period size: 133 Copynumber: 2.0 Consensus size: 134
188884 TACTCACGGC
* * * *
188894 AATTTTAATTTTTCTAATTTACTTATTGAATTTATGAATTAATTTTTTTTCGGTCATTTTAAATT
1 AATTTTAATTTTTCTAATTTACTTACTGAATTTACGAATTAATTTTGTTTCGATCATTTTAAATT
* * *
188959 ATTTTTATTATTATTTTGGTATAACATAATAACTTTTTATCATTTAATATAAAGATAATTTAAAA
66 AGTTTTATTACTATTTTGGTATAACATAATAACTTTTTATCATTTAATATAAAAATAATTT-AAA
189024 TACAA
130 TACAA
*
189029 AATTTTAATTTTT-TGATTTACTTACTGAATTTACGAATT-ATTCTTGTTTCGATCATTTTAAAT
1 AATTTTAATTTTTCTAATTTACTTACTGAATTTACGAATTAATT-TTGTTTCGATCATTTTAAAT
*
189092 T-GTTTTATTACTATTTTGGTA-AGACATGATAACTTTTTATCATTTAATATAAAAATAATTTAA
65 TAGTTTTATTACTATTTTGGTATA-ACATAATAACTTTTTATCATTTAATATAAAAATAATTTAA
*
189155 ATATAA
129 ATACAA
189161 AATT
1 AATT
189165 AAGATAGTTG
Statistics
Matches: 124, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
132 12 0.10
133 57 0.46
134 42 0.34
135 13 0.10
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (134 bp):
AATTTTAATTTTTCTAATTTACTTACTGAATTTACGAATTAATTTTGTTTCGATCATTTTAAATT
AGTTTTATTACTATTTTGGTATAACATAATAACTTTTTATCATTTAATATAAAAATAATTTAAAT
ACAA
Found at i:189735 original size:24 final size:24
Alignment explanation
Indices: 189708--189754 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
189698 TAAATTATTT
* *
189708 TTATATTAAATAATAATAAAAAAG
1 TTATATCAAAGAATAATAAAAAAG
*
189732 TTATATCATAGAATAATAAAAAA
1 TTATATCAAAGAATAATAAAAAA
189755 ATTTAAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (24 bp):
TTATATCAAAGAATAATAAAAAAG
Found at i:191002 original size:460 final size:456
Alignment explanation
Indices: 190146--191065 Score: 1786
Period size: 460 Copynumber: 2.0 Consensus size: 456
190136 ATATAATTAT
190146 ATCACTCCGCCGTTAAGTTAATAATAGGACTAACTGTTACTGATGTGGTATGTCACACCAAAATG
1 ATCACTCCGCCGTTAAGTTAATAATAGGACTAACTGTTACTGATGTGGTATGTCACACCAAAATG
190211 ATGTCGTTTTGGTGCAGTTGCTCCAATGCCTAAAACAACATCATTTTAGACACTGAACTTTAGAG
66 ATGTCGTTTTGGTGCAGTTGCTCCAATGCCTAAAACAACATCATTTTAGACACTGAACTTTAGAG
190276 GTGTATCGATTTTTTGAACTTTTAAATAATTTTCTCTTTTATCACAATATTTTTTGATTGTCGTA
131 GTGTATCGATTTTTTGAACTTTTAAATAATTTTCTCTTTTATCACAATATTTTTTGATTGTCGTA
*
190341 GACAACCAAGCACTGTATGTTATCATCGATAATATTTTACGCTGAAATTTTTATCGAAATGTTCG
196 GACAACCAAACACTGTATGTTATCATCGATAATATTTTACGCTGAAATTTTTATCGAAATGTTCG
190406 TTTTTAACTCCTCTTTCTTCTCCTAATATTGATTTTTCATGGAACTCACTCAAAATCAACGAAAA
261 TTTTTAACTCCTCTTTCTTCTCCTAATATTGATTTTTCATGGAACTCACTCAAAATCAACGAAAA
190471 ATAATTTTAAAGCTTGACGTATTAATACTTTGATCTCTTTCAATGACCGTTCGATGATGCTAGTT
326 ATAATTTTAAAGCTTGACGTATTAATACTTTGATCTCTTTCAATGACCGTTCGATGATGCTAGTT
*
190536 TTAAGATGTTCTTCGCCTTCTGGAAATAATACATCCACCGTTTAGATTTTTGAACAAACACCACA
391 TTAAGATATTCTTCGCCTTCTGGAAATAATACATCCACCGTTTAGATTTTTGAACAAACACCACA
190601 A
456 A
190602 ATCACTCCGCCGTTAAGTTAATAATAGGACTAACTGTTACTGATGTGGTATGTCACACCAAAATG
1 ATCACTCCGCCGTTAAGTTAATAATAGGACTAACTGTTACTGATGTGGTATGTCACACCAAAATG
190667 ATGTCGTTTTGGTGCAGTTGCTCCAATGCCTAAAACAACATCATTTTAGACACTGAACTTTAGAG
66 ATGTCGTTTTGGTGCAGTTGCTCCAATGCCTAAAACAACATCATTTTAGACACTGAACTTTAGAG
190732 GTGTATCGATTTTGCCTTTGAACTTTTAAATAATTTTCTCTTTTATCACAATATTTTTTGATTGT
131 GTGTATCGA-TTT---TTTGAACTTTTAAATAATTTTCTCTTTTATCACAATATTTTTTGATTGT
190797 CGTAGACAACCAAACACTGTATGTTATCATCGATAATATTTTACGCTGAAATTTTTATCGAAATG
192 CGTAGACAACCAAACACTGTATGTTATCATCGATAATATTTTACGCTGAAATTTTTATCGAAATG
190862 TTCGTTTTTAACTCCTCTTTCTTCTCCTAATATTGATTTTTCATGGAACTCACTCAAAATCAACG
257 TTCGTTTTTAACTCCTCTTTCTTCTCCTAATATTGATTTTTCATGGAACTCACTCAAAATCAACG
190927 AAAAATAATTTTAAAGCTTGACGTATTAATACTTTGATCTCTTTCAATGACCGTTCGATGATGCT
322 AAAAATAATTTTAAAGCTTGACGTATTAATACTTTGATCTCTTTCAATGACCGTTCGATGATGCT
190992 AGTTTTAAGATATTCTTCGCCTTCTGGAAATAATACATCCACCGTTTAGATTTTTGAACAAACAC
387 AGTTTTAAGATATTCTTCGCCTTCTGGAAATAATACATCCACCGTTTAGATTTTTGAACAAACAC
191057 CACAA
452 CACAA
191062 ATCA
1 ATCA
191066 TGTAAATCTA
Statistics
Matches: 458, Mismatches: 2, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
456 139 0.30
457 3 0.01
460 316 0.69
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (456 bp):
ATCACTCCGCCGTTAAGTTAATAATAGGACTAACTGTTACTGATGTGGTATGTCACACCAAAATG
ATGTCGTTTTGGTGCAGTTGCTCCAATGCCTAAAACAACATCATTTTAGACACTGAACTTTAGAG
GTGTATCGATTTTTTGAACTTTTAAATAATTTTCTCTTTTATCACAATATTTTTTGATTGTCGTA
GACAACCAAACACTGTATGTTATCATCGATAATATTTTACGCTGAAATTTTTATCGAAATGTTCG
TTTTTAACTCCTCTTTCTTCTCCTAATATTGATTTTTCATGGAACTCACTCAAAATCAACGAAAA
ATAATTTTAAAGCTTGACGTATTAATACTTTGATCTCTTTCAATGACCGTTCGATGATGCTAGTT
TTAAGATATTCTTCGCCTTCTGGAAATAATACATCCACCGTTTAGATTTTTGAACAAACACCACA
A
Done.