Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 101 of 204
Found at i:30767248 original size:17 final size:17
Alignment explanation
Indices: 30767226--30767289 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
30767216 AATCTTAGAA
30767226 TTCTAATTGTATACAAC
1 TTCTAATTGTATACAAC
* *
30767243 TTCTAATTGTGT-CTTAAAG
1 TTCTAATTGTATAC---AAC
*
30767262 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAAC
*
30767279 TTTTAATTGTA
1 TTCTAATTGTA
30767290 GCCCTTGATG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 1 0.03
17 22 0.59
19 13 0.35
20 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAAC
Found at i:30767266 original size:36 final size:36
Alignment explanation
Indices: 30767218--30767288 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
30767208 GATTATGTAA
30767218 TCTTAGAATTCTAATTGTATACAACTTCTAATTGTG
1 TCTTAGAATTCTAATTGTATACAACTTCTAATTGTG
* *
30767254 TCTTA-AAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAGAA-TTCTAATTGTATACAACTTCTAATTGT
30767289 AGCCCTTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 2 0.06
36 30 0.94
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (36 bp):
TCTTAGAATTCTAATTGTATACAACTTCTAATTGTG
Found at i:30769054 original size:21 final size:21
Alignment explanation
Indices: 30769028--30769070 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
30769018 CATCTAGATG
*
30769028 TGTTCACGC-TAACAATTAAAT
1 TGTTCACACTTAAC-ATTAAAT
30769049 TGTTCACACTTAACATTAAAT
1 TGTTCACACTTAACATTAAAT
30769070 T
1 T
30769071 TGGTTCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (21 bp):
TGTTCACACTTAACATTAAAT
Found at i:30773914 original size:2 final size:2
Alignment explanation
Indices: 30773907--30773933 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30773897 CAGATTCACC
30773907 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 T
30773934 CATGGCTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30775301 original size:25 final size:25
Alignment explanation
Indices: 30775267--30775327 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
30775257 TAAAATTTAA
30775267 ATTTATTATTATATTTTTTAAAAAT
1 ATTTATTATTATATTTTTTAAAAAT
*
30775292 ATTTATTATTATATTTTTTGAAAAT
1 ATTTATTATTATATTTTTTAAAAAT
30775317 ATTTATATATT
1 ATTTAT-TATT
30775328 TTGTATACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 30 0.88
26 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTTATTATTATATTTTTTAAAAAT
Found at i:30781836 original size:15 final size:14
Alignment explanation
Indices: 30781816--30781845 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
30781806 TCCCTTTCTC
30781816 TTTTCTTTTTCTTTT
1 TTTTCTTTTT-TTTT
30781831 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
30781845 T
1 T
30781846 CCTATAACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTCTTTTTTTTT
Found at i:30785972 original size:17 final size:18
Alignment explanation
Indices: 30785950--30785983 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30785940 ATAATTGTAA
30785950 TTTAAAT-TCTAATTATT
1 TTTAAATGTCTAATTATT
*
30785967 TTTAAATGTGTAATTAT
1 TTTAAATGTCTAATTAT
30785984 CACAACTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAAATGTCTAATTATT
Found at i:30786034 original size:44 final size:44
Alignment explanation
Indices: 30785951--30786034 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
30785941 TAATTGTAAT
* * *
30785951 TTAAATTCTAATTATTTTTAAATGTGTAATTATCACAACTGATA
1 TTAAATTATAATTATTTTTAAATGTATAATTAACACAACTGATA
* *
30785995 TTAAATTATAATTATTTTTAAATGTATAGTTAACGCAACT
1 TTAAATTATAATTATTTTTAAATGTATAATTAACACAACT
30786035 TTTATTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.45
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGTATAATTAACACAACTGATA
Found at i:30788607 original size:20 final size:20
Alignment explanation
Indices: 30788584--30788631 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
30788574 TACCAAAATA
*
30788584 AAATAAAATTTAAAGTAATT
1 AAATAAAATTTAAAATAATT
*
30788604 AAAT-AAATTTAAAATTATT
1 AAATAAAATTTAAAATAATT
*
30788623 TAATAAAAT
1 AAATAAAAT
30788632 AGATCAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AAATAAAATTTAAAATAATT
Found at i:30789203 original size:22 final size:21
Alignment explanation
Indices: 30789178--30789232 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
30789168 GGATTGAGAA
*
30789178 AATTATTTAATTGAAAAAAATT
1 AATTATATAATT-AAAAAAATT
**
30789200 AATTTATATAATTAAATTAATT
1 AA-TTATATAATTAAAAAAATT
*
30789222 AATTAAATAAT
1 AATTATATAAT
30789233 ATTTATTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 8 0.29
22 11 0.39
23 9 0.32
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
AATTATATAATTAAAAAAATT
Found at i:30792446 original size:19 final size:20
Alignment explanation
Indices: 30792422--30792465 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
30792412 ATCTTTCAAC
30792422 AAAAATACAAATAAAT-T-TA
1 AAAAATACAAA-AAATATATA
*
30792441 AAAAATTCAAAAAATATATA
1 AAAAATACAAAAAATATATA
30792461 AAAAA
1 AAAAA
30792466 ATTCCAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 11 0.50
20 7 0.32
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAATACAAAAAATATATA
Found at i:30796889 original size:54 final size:54
Alignment explanation
Indices: 30796831--30797036 Score: 252
Period size: 54 Copynumber: 3.8 Consensus size: 54
30796821 TATCCTATAG
30796831 GGGTATTTCGATAATTTTACCCATCG-GAGGTATTTTAGTAATTTTACCCATTGA
1 GGGTATTTCGATAATTTTACCCATCGAG-GGTATTTTAGTAATTTTACCCATTGA
* * * * *
30796885 GGGTATTTTGATAATTTTACCCTTCGAGGGTATTTTGGTAATATTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATTGA
* * * * * *
30796939 GGGTATTTCGGTAATTTTACCTATCGAGGGTATTTCAATAAATTTACCCTTTGA
1 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATTGA
* * ** *
30796993 GGGTATTTCGGTAATTTTACCCTTCGAAAGTATTTTGGTAATTT
1 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTTAGTAATTT
30797037 AACAACCTTT
Statistics
Matches: 127, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
54 126 0.99
55 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (54 bp):
GGGTATTTCGATAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATTGA
Found at i:30796944 original size:81 final size:81
Alignment explanation
Indices: 30796831--30797036 Score: 270
Period size: 81 Copynumber: 2.5 Consensus size: 81
30796821 TATCCTATAG
* * * **
30796831 GGGTATTTCGATAATTTTACCCATCG-GAGGTATTTTAGTAATTTTACCCATTGAGGGTATTTTG
1 GGGTATTTCGGTAATTTTACCCATCGAG-GGTATTTTGGTAATTTTACCCATCGAGGGTATTTCA
*
30796895 ATAATTTTACCCTTCGA
65 ATAAATTTACCCTTCGA
* * * *
30796912 GGGTATTTTGGTAATATTACCCATCGAGGGTATTTCGGTAATTTTACCTATCGAGGGTATTTCAA
1 GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCAA
*
30796977 TAAATTTACCCTTTGA
66 TAAATTTACCCTTCGA
* **
30796993 GGGTATTTCGGTAATTTTACCCTTCGAAAGTATTTTGGTAATTT
1 GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTTGGTAATTT
30797037 AACAACCTTT
Statistics
Matches: 107, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 106 0.99
82 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACCCATCGAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTCAA
TAAATTTACCCTTCGA
Found at i:30797014 original size:27 final size:27
Alignment explanation
Indices: 30796831--30797036 Score: 220
Period size: 27 Copynumber: 7.6 Consensus size: 27
30796821 TATCCTATAG
* *
30796831 GGGTATTTCGATAATTTTACCCATCG-
1 GGGTATTTCGGTAATTTTACCCTTCGA
**
30796857 GAGGTATTTTAGTAATTTTACCCATT-GA
1 G-GGTATTTCGGTAATTTTACCC-TTCGA
* *
30796885 GGGTATTTTGATAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * *
30796912 GGGTATTTTGGTAATATTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
30796939 GGGTATTTCGGTAATTTTA-CCTATCGA
1 GGGTATTTCGGTAATTTTACCCT-TCGA
** * *
30796966 GGGTATTTCAATAAATTTACCCTTTGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
30796993 GGGTATTTCGGTAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
** *
30797020 AAGTATTTTGGTAATTT
1 GGGTATTTCGGTAATTT
30797037 AACAACCTTT
Statistics
Matches: 151, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.03
27 141 0.93
28 5 0.03
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCTTCGA
Found at i:30798549 original size:43 final size:43
Alignment explanation
Indices: 30798482--30798584 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 43
30798472 TTGACAAGTG
* *
30798482 TTTTCGTGTAAGACCACGTCTGGGA-CGTTGGCATCGACTTGTA
1 TTTTCGTGTAAGACCACATCTGGGATAG-TGGCATCGACTTGTA
* *
30798525 TTTTCGTGTAAGACC-CTATTTGGGATAGTGGCATCGATTTGTGA
1 TTTTCGTGTAAGACCAC-ATCTGGGATAGTGGCATCGACTTGT-A
* *
30798569 -TTACATGTAAGACCAC
1 TTTTCGTGTAAGACCAC
30798585 GTCTAGGACG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
42 1 0.02
43 46 0.92
44 3 0.06
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (43 bp):
TTTTCGTGTAAGACCACATCTGGGATAGTGGCATCGACTTGTA
Found at i:30800534 original size:2 final size:2
Alignment explanation
Indices: 30800527--30800559 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
30800517 AGTTATGTAC
30800527 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30800560 AGAACAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30809143 original size:57 final size:57
Alignment explanation
Indices: 30808973--30809222 Score: 251
Period size: 55 Copynumber: 4.5 Consensus size: 57
30808963 TTACTGTTTG
** *
30808973 CATGCTGTCATAAATTGAATTAAAGTTTTTGTTTGAATGTTTCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGTTGCTGTTTTAATGTTTCAAATTGAGCATTTT
** * * * * * * *
30809030 CATATTATCTTAAATTGAATT-AAGCTGCT-ATTTAGTGTTTCAAATTGGGCACTTT
1 CATGCTGTCATAAATTGAATTAAAGTTGCTGTTTTAATGTTTCAAATTGAGCATTTT
*
30809085 CATGCTGTCATAAATTGAATTAAAGTTGCTGTTTTAGTGTATT-AAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGTTGCTGTTTTAATGT-TTCAAATTGAGCATTTT
* * * * *
30809142 CATGCTGTCTTAAATTAAATT-AAGCTACTG-TTTAATGTTTCAAATTGAGTATTATT
1 CATGCTGTCATAAATTGAATTAAAGTTGCTGTTTTAATGTTTCAAATTGAGCATT-TT
* * *
30809198 -ATGTTGTCCTAAATTAAATTAAAGT
1 CATGCTGTCATAAATTGAATTAAAGT
30809223 GTTGCTTCAG
Statistics
Matches: 158, Mismatches: 29, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
54 2 0.01
55 74 0.47
56 24 0.15
57 56 0.35
58 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (57 bp):
CATGCTGTCATAAATTGAATTAAAGTTGCTGTTTTAATGTTTCAAATTGAGCATTTT
Found at i:30809181 original size:112 final size:112
Alignment explanation
Indices: 30808973--30809188 Score: 317
Period size: 112 Copynumber: 1.9 Consensus size: 112
30808963 TTACTGTTTG
** *
30808973 CATGCTGTCATAAATTGAATTAAAGTTTTTGTTTGAATGTTTCAAATTGAGCATTTTCATATTAT
1 CATGCTGTCATAAATTGAATTAAAGTTGCTGTTTGAATGTTTCAAATTGAGCATTTTCATACTAT
* * *
30809038 CTTAAATTGAATTAAGCTGCTATTTAGTGTTTCAAATTGGGCACTTT
66 CTTAAATTAAATTAAGCTACTATTTAATGTTTCAAATTGGGCACTTT
* * * *
30809085 CATGCTGTCATAAATTGAATTAAAGTTGCTGTTTTAGTGTATT-AAATTGAGCATTTTCATGCTG
1 CATGCTGTCATAAATTGAATTAAAGTTGCTGTTTGAATGT-TTCAAATTGAGCATTTTCATACTA
*
30809149 TCTTAAATTAAATTAAGCTACTGTTTAATGTTTCAAATTG
65 TCTTAAATTAAATTAAGCTACTATTTAATGTTTCAAATTG
30809189 AGTATTATTA
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
112 90 0.98
113 2 0.02
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (112 bp):
CATGCTGTCATAAATTGAATTAAAGTTGCTGTTTGAATGTTTCAAATTGAGCATTTTCATACTAT
CTTAAATTAAATTAAGCTACTATTTAATGTTTCAAATTGGGCACTTT
Found at i:30809211 original size:112 final size:112
Alignment explanation
Indices: 30808973--30809222 Score: 315
Period size: 112 Copynumber: 2.2 Consensus size: 112
30808963 TTACTGTTTG
** *
30808973 CATGCTGTCATAAATTGAATTAAAGTTTTTGTTTGAATGTTTCAAATTGAGCATTTTCATATTAT
1 CATGCTGTCATAAATTGAATTAAAGTTGCTGTTTGAATGTTTCAAATTGAGCATTTTCATACTAT
* * * *
30809038 CTTAAATTGAATTAAGCTGCTATTTAGTGTTTCAAATTGGGCACTTT
66 CTTAAATTAAATTAAGCTACTATTTAATGTTTCAAATTGAGCACTTT
* * * *
30809085 CATGCTGTCATAAATTGAATTAAAGTTGCTGTTTTAGTGTATT-AAATTGAGCATTTTCATGCTG
1 CATGCTGTCATAAATTGAATTAAAGTTGCTGTTTGAATGT-TTCAAATTGAGCATTTTCATACTA
* *
30809149 TCTTAAATTAAATTAAGCTACTGTTTAATGTTTCAAATTGAGTA-TTAT
65 TCTTAAATTAAATTAAGCTACTATTTAATGTTTCAAATTGAGCACTT-T
* * * *
30809197 TATGTTGTCCTAAATTAAATTAAAGT
1 CATGCTGTCATAAATTGAATTAAAGT
30809223 GTTGCTTCAG
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
111 2 0.02
112 115 0.97
113 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (112 bp):
CATGCTGTCATAAATTGAATTAAAGTTGCTGTTTGAATGTTTCAAATTGAGCATTTTCATACTAT
CTTAAATTAAATTAAGCTACTATTTAATGTTTCAAATTGAGCACTTT
Found at i:30811739 original size:9 final size:9
Alignment explanation
Indices: 30811725--30811782 Score: 91
Period size: 9 Copynumber: 6.4 Consensus size: 9
30811715 GTAGTGATTC
30811725 AATTCGGTT
1 AATTCGGTT
30811734 AATTCGAG-T
1 AATTCG-GTT
30811743 AATTCGGTT
1 AATTCGGTT
30811752 AATTCGGTT
1 AATTCGGTT
*
30811761 AATTCGGGT
1 AATTCGGTT
30811770 AATTCGGTT
1 AATTCGGTT
30811779 AATT
1 AATT
30811783 TGGGTAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
8 1 0.02
9 43 0.96
10 1 0.02
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:30811757 original size:27 final size:27
Alignment explanation
Indices: 30811725--30811791 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
30811715 GTAGTGATTC
30811725 AATTCGGTTAATTCGAGTAATTCGGTT
1 AATTCGGTTAATTCGAGTAATTCGGTT
*
30811752 AATTCGGTTAATTCGGGTAATTCGGTT
1 AATTCGGTTAATTCGAGTAATTCGGTT
* *
30811779 AATTTGGGTAATT
1 AATTCGGTTAATT
30811792 AATTAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (27 bp):
AATTCGGTTAATTCGAGTAATTCGGTT
Found at i:30811787 original size:18 final size:18
Alignment explanation
Indices: 30811725--30811791 Score: 91
Period size: 18 Copynumber: 3.7 Consensus size: 18
30811715 GTAGTGATTC
*
30811725 AATTCGGTTAATTCGAG-T
1 AATTCGGGTAATTCG-GTT
*
30811743 AATTCGGTTAATTCGGTT
1 AATTCGGGTAATTCGGTT
30811761 AATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGTT
*
30811779 AATTTGGGTAATT
1 AATTCGGGTAATT
30811792 AATTAATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
17 1 0.02
18 45 0.98
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (18 bp):
AATTCGGGTAATTCGGTT
Found at i:30811790 original size:9 final size:9
Alignment explanation
Indices: 30811725--30811791 Score: 80
Period size: 9 Copynumber: 7.4 Consensus size: 9
30811715 GTAGTGATTC
*
30811725 AATTCGGTT
1 AATTCGGGT
*
30811734 AATTCGAGT
1 AATTCGGGT
*
30811743 AATTCGGTT
1 AATTCGGGT
*
30811752 AATTCGGTT
1 AATTCGGGT
30811761 AATTCGGGT
1 AATTCGGGT
*
30811770 AATTCGGTT
1 AATTCGGGT
*
30811779 AATTTGGGT
1 AATTCGGGT
30811788 AATT
1 AATT
30811792 AATTAATTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (9 bp):
AATTCGGGT
Found at i:30815344 original size:18 final size:18
Alignment explanation
Indices: 30815321--30815359 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
30815311 CCAAATGGAC
*
30815321 TTAAGGTATTAGTGGATG
1 TTAAGGTATTAGTGAATG
30815339 TTAAGGTATTAGTGAATG
1 TTAAGGTATTAGTGAATG
30815357 TTA
1 TTA
30815360 TTGAGAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (18 bp):
TTAAGGTATTAGTGAATG
Found at i:30822783 original size:393 final size:393
Alignment explanation
Indices: 30822032--30822821 Score: 1113
Period size: 393 Copynumber: 2.0 Consensus size: 393
30822022 ACAACAAAGT
* * * *
30822032 AGGTAAGTACTTTGAGGATCGTACCCAAGGGATTGCAGTTTGGGGAAAACTGTTATCAAACCAAT
1 AGGTAAGTACTTCGAAGATCGTACCCAAGGGATTGCAATTTGGGGAAAACTATTATCAAACCAAT
* * * * * *
30822097 TACGGGAAATAATTACTAATCTACTTGAGTCACAAATTAGTATTGTTAATATTGAAGTAAGATGA
66 TACGAGAAATAATTACTAATCAACTTGACTCACAAATTACTAGTGTTAATATTGAAGCAAGATGA
* * * *
30822162 TACTAATATTAATTAACTAAATAAATTGAATTAAAACTAATTCTACTCCTAAGTTCATGTATCGA
131 TAATAATATTAATAAACTAAATAAATTGAATTAAAACTAAATCTACTCCTAAGTTCATGTATCAA
30822227 CTTCTCCTATCCCTTGTGTTGACTACGCAATCTCCTTTAGCCTAGATCCAATTGTTTTACCTAAT
196 CTTCTCCTATCCCTTGTGTTGACTACGCAATCTCCTTTAGCCTAGATCCAATTGTTTTACCTAAT
*
30822292 TAATTATTGATGCAATGTTCTAATCAATCAACTAGTCGTTACCCTAGCAAGATCTCTCAATCTTT
261 TAATTATTGATGCAATGTTCTAATCAATCAACTAGCCGTTACCCTAGCAAGATCTCTCAATCTTT
* * *
30822357 CACTAAACTAACAAGTCCATAAGAACTACTTATCTCTCTACCTCACAGTCTAGA-CCGATTTGGG
326 CACTAAACTAACAAGTCCACAAGAACTACTTATCTCTCGACCTCACAGTCTAAATCCG-TTTGGG
30822421 GCTA
390 GCTA
* *
30822425 AGGTAAGTACTTCGAAGATCGTACCTAAGGGACTT-CAATTT-GGGAAAACTATTATCAGACCAA
1 AGGTAAGTACTTCGAAGATCGTACCCAAGGGA-TTGCAATTTGGGGAAAACTATTATCAAACCAA
* * *
30822488 TTACGAGAAATAATTATTAATCAACTTGACTCACGAATTACTAGTGTTAATTTTGAAGCAAGATG
65 TTACGAGAAATAATTACTAATCAACTTGACTCACAAATTACTAGTGTTAATATTGAAGCAAGATG
*
30822553 ATAATAATATTAATAAACTAAATAAATTGAATTAAACCTAAATCTACTCCTAAGTTCATGTATCA
130 ATAATAATATTAATAAACTAAATAAATTGAATTAAAACTAAATCTACTCCTAAGTTCATGTATCA
* * * * * *
30822618 ACTTCTCTTATCCCTTGTTTTGACTACTCAAGTTTCCTTTAGTCTAGATCCAATTTTTTTACCTA
195 ACTTCTCCTATCCCTTGTGTTGACTACGCAA-TCTCCTTTAGCCTAGATCCAATTGTTTTACCTA
* * * * *
30822683 ATTAATTATTGGTGTAGA-GTTCTAATCAATCAACTAGCCTTTACCCTAGCATGATCTCTCGATC
259 ATTAATTATTGATGCA-ATGTTCTAATCAATCAACTAGCCGTTACCCTAGCAAGATCTCTCAATC
*** ** ** *
30822747 -TTCTACTAAACTAATGTGTCGGCAAGAACTACTTATCTCTCGACCTCATGGTCTAAATCTGTTT
323 TTTC-ACTAAACTAACAAGTCCACAAGAACTACTTATCTCTCGACCTCACAGTCTAAATCCGTTT
30822811 GGGGCTA
387 GGGGCTA
30822818 AGGT
1 AGGT
30822822 GTTCTCGGGT
Statistics
Matches: 349, Mismatches: 43, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
392 167 0.48
393 177 0.51
394 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (393 bp):
AGGTAAGTACTTCGAAGATCGTACCCAAGGGATTGCAATTTGGGGAAAACTATTATCAAACCAAT
TACGAGAAATAATTACTAATCAACTTGACTCACAAATTACTAGTGTTAATATTGAAGCAAGATGA
TAATAATATTAATAAACTAAATAAATTGAATTAAAACTAAATCTACTCCTAAGTTCATGTATCAA
CTTCTCCTATCCCTTGTGTTGACTACGCAATCTCCTTTAGCCTAGATCCAATTGTTTTACCTAAT
TAATTATTGATGCAATGTTCTAATCAATCAACTAGCCGTTACCCTAGCAAGATCTCTCAATCTTT
CACTAAACTAACAAGTCCACAAGAACTACTTATCTCTCGACCTCACAGTCTAAATCCGTTTGGGG
CTA
Found at i:30825619 original size:25 final size:25
Alignment explanation
Indices: 30825585--30825675 Score: 80
Period size: 25 Copynumber: 3.6 Consensus size: 25
30825575 ATCCTGTACA
*
30825585 TGTATGCTCATACGAGTTGTGAATC
1 TGTATGCTCATACGAGTTGTAAATC
*
30825610 TGTATGCTCACT-CGAGCTGTAAAT-
1 TGTATGCTCA-TACGAGTTGTAAATC
*
30825634 TGGTATGCTC-TCACGAGTTTTAAATC
1 T-GTATGCTCAT-ACGAGTTGTAAATC
** *
30825660 AATATGCTCTTACGAG
1 TGTATGCTCATACGAG
30825676 ATGTGGGTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 50 0.93
26 2 0.04
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (25 bp):
TGTATGCTCATACGAGTTGTAAATC
Found at i:30830709 original size:19 final size:19
Alignment explanation
Indices: 30830687--30830723 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
30830677 TAATCCAACA
30830687 TAATGTAATTTAATAGCAC
1 TAATGTAATTTAATAGCAC
*
30830706 TAATTTAATTTAATAGCA
1 TAATGTAATTTAATAGCA
30830724 ACACAATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (19 bp):
TAATGTAATTTAATAGCAC
Found at i:30834567 original size:7 final size:6
Alignment explanation
Indices: 30834540--30834588 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
30834530 TAAAATGAAC
* *
30834540 TTTAAT TTTAGT TTTAAT TTTCAAT TTTAATT TTTACT TTTAAAT TTTA
1 TTTAAT TTTAAT TTTAAT TTT-AAT TTTAA-T TTTAAT TTT-AAT TTTA
30834589 TGTTTAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 20 0.56
7 16 0.44
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (6 bp):
TTTAAT
Found at i:30834569 original size:13 final size:12
Alignment explanation
Indices: 30834540--30834588 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
30834530 TAAAATGAAC
*
30834540 TTTAATTTTAGT
1 TTTAATTTTAAT
30834552 TTTAATTTTCAAT
1 TTTAATTTT-AAT
*
30834565 TTTAATTTTTACT
1 TTTAA-TTTTAAT
30834578 TTTAAATTTTA
1 TTT-AATTTTA
30834589 TGTTTAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 9 0.28
13 17 0.53
14 6 0.19
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (12 bp):
TTTAATTTTAAT
Found at i:30834580 original size:20 final size:20
Alignment explanation
Indices: 30834551--30834588 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30834541 TTAATTTTAG
*
30834551 TTTTAATTTTCAATTTTAAT
1 TTTTAATTTTAAATTTTAAT
*
30834571 TTTTACTTTTAAATTTTA
1 TTTTAATTTTAAATTTTA
30834589 TGTTTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTAATTTTAAATTTTAAT
Found at i:30838904 original size:27 final size:26
Alignment explanation
Indices: 30838649--30838895 Score: 262
Period size: 27 Copynumber: 9.2 Consensus size: 26
30838639 AGAGGTCAAT
* *
30838649 AAATGATCGAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCC-CATAGGGTA
* *
30838676 AAATGATCGAGATACCCCTATAGGGTA
1 AAATGACCGAAATACCCC-ATAGGGTA
* * *
30838703 AAATGACCAAAATATCCC-TAAGGTA
1 AAATGACCGAAATACCCCATAGGGTA
*
30838728 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
*
30838755 AAATGACCGAAATACCCACATAGGATA
1 AAATGACCGAAATACCC-CATAGGGTA
* ** *
30838782 AAATGACTGCGATACCCCTATAGGATA
1 AAATGACCGAAATACCCC-ATAGGGTA
*
30838809 AAATGACCGAGATACCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
* *
30838836 AAATGACTGAGATACCCTCATAGGGTA
1 AAATGACCGAAATACCC-CATAGGGTA
*
30838863 AAATGATCGAAATACTCCCATAGGGTA
1 AAATGACCGAAATAC-CCCATAGGGTA
30838890 AAATGA
1 AAATGA
30838896 TTGTTATACC
Statistics
Matches: 189, Mismatches: 23, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
25 18 0.10
26 10 0.05
27 155 0.82
28 6 0.03
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (26 bp):
AAATGACCGAAATACCCCATAGGGTA
Found at i:30838921 original size:54 final size:53
Alignment explanation
Indices: 30838649--30838909 Score: 312
Period size: 54 Copynumber: 4.9 Consensus size: 53
30838639 AGAGGTCAAT
* *
30838649 AAATGATCGAAATACCCTTATAGGGTAAAATGA-TCGAGATACCCCTATAGGGTA
1 AAATGACCGAAATACCC-CATAGGGTAAAATGACT-GAGATACCCCTATAGGGTA
* * * * *
30838703 AAATGACCAAAATATCCC-TAAGGTAAAATGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCATAGGGTAAAATGACTGAGATACCCCTATAGGGTA
* * *
30838755 AAATGACCGAAATACCCACATAGGATAAAATGACTGCGATACCCCTATAGGATA
1 AAATGACCGAAATACCC-CATAGGGTAAAATGACTGAGATACCCCTATAGGGTA
*
30838809 AAATGACCGAGATACCCCCATAGGGTAAAATGACTGAGATA-CCCTCATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTAAAATGACTGAGATACCCCT-ATAGGGTA
* * **
30838863 AAATGATCGAAATACTCCCATAGGGTAAAATGATTGTTATACCCCTA
1 AAATGACCGAAATAC-CCCATAGGGTAAAATGACTGAGATACCCCTA
30838910 GAAGATGAAA
Statistics
Matches: 176, Mismatches: 24, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
52 44 0.25
53 7 0.04
54 118 0.67
55 7 0.04
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.21
Consensus pattern (53 bp):
AAATGACCGAAATACCCCATAGGGTAAAATGACTGAGATACCCCTATAGGGTA
Found at i:30839100 original size:26 final size:26
Alignment explanation
Indices: 30839064--30839114 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
30839054 GGAAGTATAA
* *
30839064 TGTTATTGGCAGCTTTGCTGCGATAC
1 TGTTACTGGCAGCCTTGCTGCGATAC
30839090 TGTTACTGGCAGCCTTGCTGCGATA
1 TGTTACTGGCAGCCTTGCTGCGATA
30839115 TTGGTGTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (26 bp):
TGTTACTGGCAGCCTTGCTGCGATAC
Found at i:30839258 original size:28 final size:28
Alignment explanation
Indices: 30839217--30839275 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
30839207 ATTGCACTGT
*
30839217 ACTATTACTATATTGGGCTAAGGCCCAC
1 ACTATTACTATATTGGGCCAAGGCCCAC
*
30839245 ACTATTACTGTATTGGGCCAAGGCCCAC
1 ACTATTACTATATTGGGCCAAGGCCCAC
30839273 ACT
1 ACT
30839276 GTACTGTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (28 bp):
ACTATTACTATATTGGGCCAAGGCCCAC
Found at i:30841198 original size:10 final size:10
Alignment explanation
Indices: 30841183--30841214 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
30841173 CGATACCATT
30841183 CAATACAACA
1 CAATACAACA
*
30841193 CGATACAACA
1 CAATACAACA
30841203 CAATACAACA
1 CAATACAACA
30841213 CA
1 CA
30841215 TATCATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.56, C:0.31, G:0.03, T:0.09
Consensus pattern (10 bp):
CAATACAACA
Found at i:30843167 original size:12 final size:12
Alignment explanation
Indices: 30843150--30843176 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30843140 CAAACCAATA
30843150 CCTCATTTAGCC
1 CCTCATTTAGCC
30843162 CCTCATTTAGCC
1 CCTCATTTAGCC
30843174 CCT
1 CCT
30843177 TAAAAATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.44, G:0.07, T:0.33
Consensus pattern (12 bp):
CCTCATTTAGCC
Found at i:30844575 original size:20 final size:19
Alignment explanation
Indices: 30844533--30844575 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
30844523 CATTCACATT
*
30844533 TCATTCATCCTTAAATCCT
1 TCATTCATCCTTAAATCCC
30844552 TCATTCAT-CTTACACATCCC
1 TCATTCATCCTTA-A-ATCCC
30844572 TCAT
1 TCAT
30844576 CACTCAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 8 0.38
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.40
Consensus pattern (19 bp):
TCATTCATCCTTAAATCCC
Found at i:30848144 original size:17 final size:17
Alignment explanation
Indices: 30848118--30848150 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30848108 AATTATGTGC
30848118 ATATAATAAATTTAAAA
1 ATATAATAAATTTAAAA
*
30848135 ATATACTAAATTTAAA
1 ATATAATAAATTTAAA
30848151 CTGTACGAAC
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:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAATAAATTTAAAA
Found at i:30861942 original size:19 final size:19
Alignment explanation
Indices: 30861918--30861980 Score: 85
Period size: 19 Copynumber: 3.3 Consensus size: 19
30861908 GATGTGGTCA
30861918 TTTCCATTAAGTAGTGTGG
1 TTTCCATTAAGTAGTGTGG
30861937 TTTCCATTAAG-A-TGTGG
1 TTTCCATTAAGTAGTGTGG
30861954 TCATTTCCATTAAGTAGTGTGG
1 ---TTTCCATTAAGTAGTGTGG
30861976 TTTCC
1 TTTCC
30861981 TACATGGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 5 0.13
18 1 0.03
19 16 0.41
20 11 0.28
21 1 0.03
22 5 0.13
ACGTcount: A:0.21, C:0.14, G:0.22, T:0.43
Consensus pattern (19 bp):
TTTCCATTAAGTAGTGTGG
Found at i:30861960 original size:39 final size:39
Alignment explanation
Indices: 30861906--30861980 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
30861896 TCTATAGCTC
30861906 AAGATGTGGTCATTTCCATTAAGTAGTGTGGTTTCCATT
1 AAGATGTGGTCATTTCCATTAAGTAGTGTGGTTTCCATT
30861945 AAGATGTGGTCATTTCCATTAAGTAGTGTGGTTTCC
1 AAGATGTGGTCATTTCCATTAAGTAGTGTGGTTTCC
30861981 TACATGGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (39 bp):
AAGATGTGGTCATTTCCATTAAGTAGTGTGGTTTCCATT
Found at i:30861962 original size:20 final size:20
Alignment explanation
Indices: 30861906--30861967 Score: 85
Period size: 20 Copynumber: 3.1 Consensus size: 20
30861896 TCTATAGCTC
30861906 AAGATGTGGTCATTTCCATT
1 AAGATGTGGTCATTTCCATT
30861926 AAGTAGTGTGG---TTTCCATT
1 AAG-A-TGTGGTCATTTCCATT
30861945 AAGATGTGGTCATTTCCATT
1 AAGATGTGGTCATTTCCATT
30861965 AAG
1 AAG
30861968 TAGTGTGGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.14
18 1 0.03
19 11 0.30
20 14 0.38
21 1 0.03
22 5 0.14
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (20 bp):
AAGATGTGGTCATTTCCATT
Found at i:30863009 original size:192 final size:187
Alignment explanation
Indices: 30862639--30863074 Score: 432
Period size: 192 Copynumber: 2.3 Consensus size: 187
30862629 AATTGGTTAG
* * *
30862639 GTAGATATTCTTAATAAGTAGGAAATCTTAATGAATAAGGTTTCTTGGTGATAAAGTAATAGATA
1 GTAGATATTCTTAATAGGTAGGAAATCTTAATGAATAAAGTTTCTTGGAGATAAAGTAATAGATA
* * * * * * *
30862704 TATAGAGAATAGGGTTCAACCTTTAGAATTTAAATTTAGTAGGTGATAGATGTAATCCTTGTTGG
66 AATAGAGAATAGGATTCAACCTTTAGAATTAAAATTAAGTAGATGATAAATGTAATCCTTGTAGG
* * *
30862769 ATACTTCTATGATATGGCCTTATGACTAGATTTCGTGATAATTAAGTTTACTAATGAA
131 ATACTTCTATGATATGGCCTTATAACTAGACTACGTGATAATTAAGTTTACTAA-GAA
* * * *
30862827 GTAGATATTCTTAATAGGTAGGAAATTTTATTGAATAAAGTTTCTTGGAGATTAAGTAATGGTCT
1 GTAGATATTCTTAATAGGTAGGAAATCTTAATGAATAAAGTTTCTTGGAGATAAAGTAATAG---
* * * * **
30862892 TATAAATAGAGAGTATGATTTAGCCTTTAGAATTAAAATTAAGTAGATGATAAATGTAATGGTTG
63 -ATAAATAGAGAATAGGATTCAACCTTTAGAATTAAAATTAAGTAGATGATAAATGTAATCCTTG
** * * * **
30862957 TAGGAT-CTTTCTATGATGA-GGGTTTGTAATTAGACTACTTGATAATTAAGTTTGTTAAGAA
127 TAGGATAC-TTCTATGAT-ATGGCCTTATAACTAGACTACGTGATAATTAAGTTTACTAAGAA
* * * * *
30863018 GTTA-ATCTTCTTAATAGGCA-AAGAATCTTAATGAA-AAAGGTTTCTTGGTGATCAAGT
1 G-TAGATATTCTTAATAGGTAGGA-AATCTTAATGAATAAA-GTTTCTTGGAGATAAAGT
30863075 GATAACCCTA
Statistics
Matches: 202, Mismatches: 37, Indels: 15
0.80 0.15 0.06
Matches are distributed among these distances:
188 55 0.27
190 4 0.02
191 45 0.22
192 97 0.48
193 1 0.00
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (187 bp):
GTAGATATTCTTAATAGGTAGGAAATCTTAATGAATAAAGTTTCTTGGAGATAAAGTAATAGATA
AATAGAGAATAGGATTCAACCTTTAGAATTAAAATTAAGTAGATGATAAATGTAATCCTTGTAGG
ATACTTCTATGATATGGCCTTATAACTAGACTACGTGATAATTAAGTTTACTAAGAA
Found at i:30869522 original size:12 final size:12
Alignment explanation
Indices: 30869505--30869530 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30869495 ATCAATGTTC
30869505 ATTTTCAAATGA
1 ATTTTCAAATGA
30869517 ATTTTCAAATGA
1 ATTTTCAAATGA
30869529 AT
1 AT
30869531 CATTTCTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (12 bp):
ATTTTCAAATGA
Found at i:30873589 original size:38 final size:39
Alignment explanation
Indices: 30873547--30873633 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 39
30873537 TAAAATTATA
** *
30873547 TTTAATACAATAAAATGTTTATTATATTTAT-TTA-TGTT
1 TTTAATACAATAAAA-AATTATTATATTTATGGTAGTGTT
*
30873585 TTTAATATAATAAAAAATTATTATATTTATGGTAGTGTT
1 TTTAATACAATAAAAAATTATTATATTTATGGTAGTGTT
30873624 TTTAATACAA
1 TTTAATACAA
30873634 ATAATTTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 13 0.31
38 16 0.38
39 13 0.31
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (39 bp):
TTTAATACAATAAAAAATTATTATATTTATGGTAGTGTT
Found at i:30873725 original size:17 final size:17
Alignment explanation
Indices: 30873703--30873736 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30873693 ATATATTTTT
*
30873703 TAAAAACTATTTTAAAA
1 TAAAAACTAATTTAAAA
*
30873720 TAAAAATTAATTTAAAA
1 TAAAAACTAATTTAAAA
30873737 ATCAAATATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAAACTAATTTAAAA
Found at i:30874553 original size:5 final size:5
Alignment explanation
Indices: 30874543--30874579 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
30874533 TTAGCTCTGT
*
30874543 GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG ATTGG GT
1 GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG GT
30874580 ATTTTTCTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.57, T:0.41
Consensus pattern (5 bp):
GTTGG
Found at i:30887930 original size:23 final size:23
Alignment explanation
Indices: 30887904--30888018 Score: 92
Period size: 23 Copynumber: 4.9 Consensus size: 23
30887894 GGACTCACCA
30887904 CAGCTTGTATGAGCTTACCGTTT
1 CAGCTTGTATGAGCTTACCGTTT
* *
30887927 CAGC-TCTACGGAGCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
* *
30887950 CAGC-TCTACGGAGCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
*
30887973 CAGCTCG-ATAGAGCTTACCGTTTAT
1 CAGCTTGTAT-GAGCTTACCG-TT-T
* *
30887998 CAGCTCGGAATGAGCTTACCG
1 CAGCT-TGTATGAGCTTACCG
30888019 ATCATGACTC
Statistics
Matches: 79, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
22 3 0.04
23 55 0.70
24 2 0.03
25 6 0.08
26 11 0.14
27 2 0.03
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (23 bp):
CAGCTTGTATGAGCTTACCGTTT
Found at i:30890658 original size:21 final size:20
Alignment explanation
Indices: 30890611--30890661 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
30890601 ATCAGCACAC
30890611 TCAGATGCATCCACAACAAA
1 TCAGATGCATCCACAACAAA
*
30890631 GCTAGATGCATCCAC-ACTAGAA
1 TC-AGATGCATCCACAAC-A-AA
30890653 TCAGATGCA
1 TCAGATGCA
30890662 ACCGCAACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 3 0.12
21 20 0.77
22 3 0.12
ACGTcount: A:0.39, C:0.27, G:0.16, T:0.18
Consensus pattern (20 bp):
TCAGATGCATCCACAACAAA
Found at i:30897640 original size:31 final size:31
Alignment explanation
Indices: 30897605--30897670 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
30897595 CCACAGAGAA
*
30897605 AGTCTGCTAGGAAT-GTAAACACATAATAGAT
1 AGTCTG-TAGGAATGGTAAACACAAAATAGAT
* *
30897636 AGTCTGTTGGGATGGTAAACACAAAATAGAT
1 AGTCTGTAGGAATGGTAAACACAAAATAGAT
30897667 AGTC
1 AGTC
30897671 CATTAGGACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (31 bp):
AGTCTGTAGGAATGGTAAACACAAAATAGAT
Found at i:30900668 original size:120 final size:120
Alignment explanation
Indices: 30900455--30900692 Score: 379
Period size: 120 Copynumber: 2.0 Consensus size: 120
30900445 TAACTGAAGC
* * *
30900455 AATTTGGCACCTCGTGCCTCATTGACTTGTATTCGAAGTAATCCTGAACTCTTCCTATCCTATGG
1 AATTTGGCACCTAGTGCCTCATTGACTCGTATTCGAAGTAATCCAGAACTCTTCCTATCCTATGG
*
30900520 CATGCCAATTATATCCGACTCTACCGAAACAATTAATAGGGTATTCATTACTCGT
66 CATGCCAATTATATCCGACTCTACCGAAACAATTAATAGGGTATTCAGTACTCGT
* *
30900575 AATTTGGCACCTAGTGCCTCATTGACTCGTATTTGAAGTAATCCAGAACTCTTCCTATCCTATGT
1 AATTTGGCACCTAGTGCCTCATTGACTCGTATTCGAAGTAATCCAGAACTCTTCCTATCCTATGG
* **
30900640 CATGCCAACTT-TATCCGACTTTGTCGAAACAATTAATAGGGTATTCAGTACTC
66 CATGCCAA-TTATATCCGACTCTACCGAAACAATTAATAGGGTATTCAGTACTC
30900693 AATTTATTAT
Statistics
Matches: 108, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
120 106 0.98
121 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (120 bp):
AATTTGGCACCTAGTGCCTCATTGACTCGTATTCGAAGTAATCCAGAACTCTTCCTATCCTATGG
CATGCCAATTATATCCGACTCTACCGAAACAATTAATAGGGTATTCAGTACTCGT
Found at i:30911573 original size:37 final size:37
Alignment explanation
Indices: 30911488--30911574 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
30911478 ACATAAGTAG
* *
30911488 TCCAATCTA-AACATGCCAAATGCTCATAAGAGCTAA
1 TCCAATCAATAACATGCCAAACGCTCATAAGAGCTAA
*
30911524 TCCAA-CAAATAACATGCCAAACGCTCATGAGAGCTAA
1 TCCAATC-AATAACATGCCAAACGCTCATAAGAGCTAA
*
30911561 TCCAATCGATAACA
1 TCCAATCAATAACA
30911575 CGCCTCAGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
35 1 0.02
36 6 0.14
37 36 0.82
38 1 0.02
ACGTcount: A:0.43, C:0.26, G:0.11, T:0.20
Consensus pattern (37 bp):
TCCAATCAATAACATGCCAAACGCTCATAAGAGCTAA
Found at i:30914101 original size:37 final size:37
Alignment explanation
Indices: 30914041--30914118 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
30914031 GTCTAATCAA
*
30914041 AACACGCTAAACACTCATAAGAGCTAATCCAACCAAT
1 AACACGCCAAACACTCATAAGAGCTAATCCAACCAAT
* * * *
30914078 AACACGCCAAACGCTTATGAGAGCTAATCCAACCGAT
1 AACACGCCAAACACTCATAAGAGCTAATCCAACCAAT
30914115 AACA
1 AACA
30914119 TGCCTCGACA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.29, G:0.12, T:0.15
Consensus pattern (37 bp):
AACACGCCAAACACTCATAAGAGCTAATCCAACCAAT
Found at i:30918118 original size:33 final size:33
Alignment explanation
Indices: 30918076--30918141 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
30918066 AAGTACATAG
30918076 TGTAAGACCATGGATGAAAGATGTCATGGCGGC
1 TGTAAGACCATGGATGAAAGATGTCATGGCGGC
30918109 TGTAAGACCATGGATGAAAGATGTCATGGCGGC
1 TGTAAGACCATGGATGAAAGATGTCATGGCGGC
30918142 ATGGTACAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.21
Consensus pattern (33 bp):
TGTAAGACCATGGATGAAAGATGTCATGGCGGC
Found at i:30921374 original size:120 final size:119
Alignment explanation
Indices: 30921162--30921399 Score: 332
Period size: 120 Copynumber: 2.0 Consensus size: 119
30921152 TAACTGAACC
* * *
30921162 AATTTGGCACCTCGTGCCTCATTGACTCGTAATCGAGTAATCCTGAAGTCTTCCTATCCTATGGC
1 AATTTGGCACCTAGTGCCTCATTGACTCGTAATCGAGTAATCCCGAACTCTTCCTATCCTATGGC
* * * *
30921227 ATGCAAATTATATCCGACTCTACTGAAACAATTAATAGGGTATTCATTACTCAT
66 ATGCAAACTATATCCAACTCTACTGAAACAATTAACAGGGTATTCAGTACTCAT
* * * * *
30921281 AATTTGGCACCTAGTGCCTCATTGACTTGTATTTGAAGTAATCCCGAACTCTTCCTATCTTATGT
1 AATTTGGCACCTAGTGCCTCATTGACTCGTAATCG-AGTAATCCCGAACTCTTCCTATCCTATGG
* **
30921346 CATGCCAACTATATCCAACTCTGTTGAAACAATTAACAGGGTATTCAGTACTCA
65 CATGCAAACTATATCCAACTCTACTGAAACAATTAACAGGGTATTCAGTACTCA
30921400 ATTTATTATC
Statistics
Matches: 103, Mismatches: 15, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
119 31 0.30
120 72 0.70
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (119 bp):
AATTTGGCACCTAGTGCCTCATTGACTCGTAATCGAGTAATCCCGAACTCTTCCTATCCTATGGC
ATGCAAACTATATCCAACTCTACTGAAACAATTAACAGGGTATTCAGTACTCAT
Found at i:30935401 original size:42 final size:41
Alignment explanation
Indices: 30935355--30935449 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 41
30935345 ACTTTTGATG
*
30935355 TTGGGACACACGATCGTGTCC-CA-GCTCGTGTAACTCACTGAC
1 TTGGGACACACG-TCGTG-CCGCAGGC-CCTGTAACTCACTGAC
* * *
30935397 TTGGGTCACATTGTCGTGCCGCAGGCCCTGTAACTCTCTGAC
1 TTGGGACACA-CGTCGTGCCGCAGGCCCTGTAACTCACTGAC
*
30935439 TTGTGACACAC
1 TTGGGACACAC
30935450 AACCGTGTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.05
42 38 0.88
43 3 0.07
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.26
Consensus pattern (41 bp):
TTGGGACACACGTCGTGCCGCAGGCCCTGTAACTCACTGAC
Found at i:30935659 original size:21 final size:21
Alignment explanation
Indices: 30935622--30935661 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30935612 CCGTTTACCA
*
30935622 GCCATTAGACCTATTCAAAAT
1 GCCATTAGACCAATTCAAAAT
30935643 GCCATTAGA-CAAGTTCAAA
1 GCCATTAGACCAA-TTCAAA
30935662 TCATGCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (21 bp):
GCCATTAGACCAATTCAAAAT
Found at i:30944130 original size:20 final size:23
Alignment explanation
Indices: 30944095--30944139 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
30944085 GAACAAATTG
30944095 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
30944117 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTCTTTTTTGTAT
30944138 TT
1 TT
30944140 CTCATATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:30944195 original size:21 final size:23
Alignment explanation
Indices: 30944171--30944213 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
30944161 TTAATTTTTT
*
30944171 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
30944192 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
30944214 TAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:30948399 original size:27 final size:27
Alignment explanation
Indices: 30948369--30948420 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
30948359 CTCTGATACC
* *
30948369 AGTAAGTTCTGAGGATCTGAGGATCTT
1 AGTAAGTCCCGAGGATCTGAGGATCTT
30948396 AGTAAGTCCCGAGGATCTGAGGATC
1 AGTAAGTCCCGAGGATCTGAGGATC
30948421 GGTTTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (27 bp):
AGTAAGTCCCGAGGATCTGAGGATCTT
Found at i:30948468 original size:22 final size:23
Alignment explanation
Indices: 30948423--30948483 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
30948413 TGAGGATCGG
*
30948423 TTTGAAAACTT--AATTTGAAAT
1 TTTGAAAACTTAAAAATTGAAAT
30948444 TTTGAAAACTTAAAAATT-AAAT
1 TTTGAAAACTTAAAAATTGAAAT
*
30948466 TTTGTAAACTTAAAAATT
1 TTTGAAAACTTAAAAATT
30948484 TTGAGAAACT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 11 0.31
22 21 0.58
23 4 0.11
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (23 bp):
TTTGAAAACTTAAAAATTGAAAT
Found at i:30948498 original size:10 final size:10
Alignment explanation
Indices: 30948483--30948532 Score: 75
Period size: 10 Copynumber: 5.1 Consensus size: 10
30948473 ACTTAAAAAT
30948483 TTTGAGAAAC
1 TTTGAGAAAC
30948493 TTTGAGAAAC
1 TTTGAGAAAC
* *
30948503 TTT-AAAAAT
1 TTTGAGAAAC
30948512 TTTGAGAAAC
1 TTTGAGAAAC
30948522 TTTGAGAAAC
1 TTTGAGAAAC
30948532 T
1 T
30948533 CTTTGGAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 7 0.20
10 28 0.80
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (10 bp):
TTTGAGAAAC
Found at i:30948507 original size:29 final size:29
Alignment explanation
Indices: 30948471--30948532 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
30948461 TAAATTTTGT
30948471 AAAC-TTAAAAATTTTGAGAAACTTTGAG
1 AAACTTTAAAAATTTTGAGAAACTTTGAG
30948499 AAACTTTAAAAATTTTGAGAAACTTTGAG
1 AAACTTTAAAAATTTTGAGAAACTTTGAG
30948528 AAACT
1 AAACT
30948533 CTTTGGAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (29 bp):
AAACTTTAAAAATTTTGAGAAACTTTGAG
Found at i:30948773 original size:35 final size:35
Alignment explanation
Indices: 30948729--30948923 Score: 232
Period size: 35 Copynumber: 5.6 Consensus size: 35
30948719 TTCACTTGTC
* * * * *
30948729 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTATTCACACATTA
** **
30948764 TTTTGTTGCAATGAATCTCTCCTATTCATGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTATTCACACATTA
*
30948799 TTTTGTTGCAGGGAATCTCTCCTATTCACACATCA
1 TTTTGTTGCAGGGAATCTCTCCTATTCACACATTA
* *
30948834 -TTTCTTGCAGGGAATCTCTCCTGTTCACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTATTCACACATTA
*
30948868 TTTTGTTGCAGGGAATCTCTCCTATTCACACATCA
1 TTTTGTTGCAGGGAATCTCTCCTATTCACACATTA
* **
30948903 -TTTCTTGTTGGGAATCTCTCC
1 TTTTGTTGCAGGGAATCTCTCC
30948924 ATCTTTATAC
Statistics
Matches: 138, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
34 49 0.36
35 89 0.64
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (35 bp):
TTTTGTTGCAGGGAATCTCTCCTATTCACACATTA
Found at i:30948849 original size:69 final size:69
Alignment explanation
Indices: 30948729--30948923 Score: 255
Period size: 69 Copynumber: 2.8 Consensus size: 69
30948719 TTCACTTGTC
* * * * * * * ** **
30948729 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAATGAATCTCTCCTATTCATG
1 TTTTGTTGCAGGGAATCTCTCCTATTCACACATCA-TTTCTTGCAGGGAATCTCTCCTATTCACA
30948794 CATTA
65 CATTA
*
30948799 TTTTGTTGCAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTCTCCTGTTCACAC
1 TTTTGTTGCAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTCTCCTATTCACAC
30948864 ATTA
66 ATTA
**
30948868 TTTTGTTGCAGGGAATCTCTCCTATTCACACATCATTTCTTGTTGGGAATCTCTCC
1 TTTTGTTGCAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTCTCC
30948924 ATCTTTATAC
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
69 82 0.74
70 29 0.26
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (69 bp):
TTTTGTTGCAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTCTCCTATTCACAC
ATTA
Found at i:30982900 original size:44 final size:44
Alignment explanation
Indices: 30982839--30983566 Score: 274
Period size: 44 Copynumber: 16.8 Consensus size: 44
30982829 ACTAGATGCG
* *
30982839 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTAATTTTA
* * ****
30982882 ATCCGCTCCACTGCAACTTCAGGGAGATAAGAT-TATTGGCCTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTAATTTTA
* * * ** *
30982926 ATATGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTAAT-TTTA
* * * *
30982971 GTCTGCCCCACTGCAACTTCA-GGAGGATAAGA-CTTGCTTA-CTTA
1 ATCTGCTCCACTGCAACTTCAGGGA-GATAAGATC-TG-TAATTTTA
* ***
30983015 CTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TAGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTA-ATTTTA
* * *
30983056 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCT-AAGATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTA-ATTTTA
* ** * * * ***
30983099 ATCCGCTCCACTAAAACTTTAGGGAGATAGGAT-TATCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGT-AATTTTA
* * * * * * ** *
30983143 ACCTACTCCATTGTAACTTCAGGGAGATAAGGTTTGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTAAT-TTTA
* * * * *
30983188 GTCTGCCCCACTGCAACTTCA-TGAGGATAAGA-CTTGCTTA-CTTA
1 ATCTGCTCCACTGCAACTTCAGGGA-GATAAGATC-TG-TAATTTTA
* * ***
30983232 GTCTGCTCCACTGCAACTTCAGGGAGTTAAGA-C--TAGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTA-ATTTTA
* * * **
30983273 ATCTGCT-CTCTACAACTTCAGAGAGATAAGATC-CAAGATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTA-ATTTTA
* * * *
30983316 ATCTGCTCCACTACAACTTTAGGGAGATAAGAT-TATCAGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGT-AATTTTA
* * * * ** *
30983360 ACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTAAT-TTTA
* * * * * *
30983405 GTCTAC-CTCACTGCAACTTCAGGAAGATAGGAGT-TGCTTA-CTTA
1 ATCTGCTC-CACTGCAACTTCAGGGAGATAAGA-TCTG-TAATTTTA
* **
30983449 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TAGA-TGCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTA-ATTTTA
* * * * * **
30983490 ATCTGCT-CTCTACAACTTCAGAGAGATAAAATATGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTAATTTTA
* * *
30983533 ATCCGCTCCACTGCAACTTTAGGGAGATAGGATC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATC
30983567 ATTGGCTTCG
Statistics
Matches: 497, Mismatches: 147, Indels: 81
0.69 0.20 0.11
Matches are distributed among these distances:
40 65 0.13
41 24 0.05
42 6 0.01
43 32 0.06
44 274 0.55
45 92 0.19
46 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTAATTTTA
Found at i:30983178 original size:217 final size:217
Alignment explanation
Indices: 30982817--30983561 Score: 1168
Period size: 217 Copynumber: 3.4 Consensus size: 217
30982807 ACTACAATGG
* *
30982817 CAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTA-ATTTT
1 CAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCT-AAGATTTT
* * * * **
30982881 AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCCTTAATATGCTCCACTGCAACTTC
65 AATCCGCTCCACTACAACTTTAGGGAGATAAGATTATCGGCTTTAACCTGCTCCACTGCAACTTC
30982946 AGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTA
130 AGGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTA
*
30983011 CTTACTCTGCTCCACTGCAACTT
195 CTTAGTCTGCTCCACTGCAACTT
*
30983034 CAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGATTTTA
1 CAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTAAGATTTTA
* * * * *
30983099 ATCCGCTCCACTAAAACTTTAGGGAGATAGGATTATCGGCTTTAACCTACTCCATTGTAACTTCA
66 ATCCGCTCCACTACAACTTTAGGGAGATAAGATTATCGGCTTTAACCTGCTCCACTGCAACTTCA
*
30983164 GGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCATGAGGATAAGACTTGCTTAC
131 GGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTAC
30983229 TTAGTCTGCTCCACTGCAACTT
196 TTAGTCTGCTCCACTGCAACTT
* *
30983251 CAGGGAGTTAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCCAAGATTTTA
1 CAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTAAGATTTTA
* * * *
30983316 ATCTGCTCCACTACAACTTTAGGGAGATAAGATTATCAGTTTTAACCTGCTCCACTACAACTTCA
66 ATCCGCTCCACTACAACTTTAGGGAGATAAGATTATCGGCTTTAACCTGCTCCACTGCAACTTCA
* * * * *
30983381 GGGAGATAAGGTTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAAGATAGGAGTTGCTTAC
131 GGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTAC
30983446 TTAGTCTGCTCCACTGCAACTT
196 TTAGTCTGCTCCACTGCAACTT
* * * ** *
30983468 CAGGGAGATAAGACTAGATGCAATCTGCTCTCTACAACTTCAGAGAGATAAAATATGTGGTTTTA
1 CAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTAAGATTTTA
*
30983533 ATCCGCTCCACTGCAACTTTAGGGAGATA
66 ATCCGCTCCACTACAACTTTAGGGAGATA
30983562 GGATCATTGG
Statistics
Matches: 485, Mismatches: 42, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
216 1 0.00
217 484 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (217 bp):
CAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTAAGATTTTA
ATCCGCTCCACTACAACTTTAGGGAGATAAGATTATCGGCTTTAACCTGCTCCACTGCAACTTCA
GGGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTAC
TTAGTCTGCTCCACTGCAACTT
Found at i:30998127 original size:24 final size:25
Alignment explanation
Indices: 30998086--30998136 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
30998076 GTTATATACT
30998086 ATTTTTATAATACTATATATT-ATA
1 ATTTTTATAATACTATATATTAATA
* *
30998110 ATTTTTATTAATTC-ATATTTTAATA
1 ATTTTTA-TAATACTATATATTAATA
30998135 AT
1 AT
30998137 AATTATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTTTTATAATACTATATATTAATA
Found at i:30998441 original size:16 final size:16
Alignment explanation
Indices: 30998420--30998460 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
30998410 AAAATTACTA
30998420 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
* *
30998436 ATTACAACCCTATTTC
1 ATTACAACTCTATTCC
30998452 ATT-CAACTC
1 ATTACAACTC
30998461 AACCAAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:31003027 original size:24 final size:26
Alignment explanation
Indices: 31003004--31003050 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
31002994 AGTTTTAACA
31003004 ACAATA-ATAAT-AG-AAAAAAGAAC
1 ACAATACATAATAAGTAAAAAAGAAC
31003027 ACAATACATAATAAGTAAAAAAGA
1 ACAATACATAATAAGTAAAAAAGA
31003051 GATGAACACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 5 0.24
25 2 0.10
26 8 0.38
ACGTcount: A:0.68, C:0.09, G:0.09, T:0.15
Consensus pattern (26 bp):
ACAATACATAATAAGTAAAAAAGAAC
Found at i:31006768 original size:38 final size:37
Alignment explanation
Indices: 31006717--31006793 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 37
31006707 TTCCAGAAAT
*
31006717 AATATTATTTTAATAGT-TTTAATATTAAATTAA-ATTA
1 AATATTATCTTAATAGTATTT--TATTAAATTAATATTA
*
31006754 AATACTTATCTTAATAGTATTTTATTAATTTAATATTA
1 AATA-TTATCTTAATAGTATTTTATTAAATTAATATTA
31006792 AA
1 AA
31006794 GTGATTAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
37 14 0.40
38 18 0.51
39 3 0.09
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (37 bp):
AATATTATCTTAATAGTATTTTATTAAATTAATATTA
Found at i:31030492 original size:74 final size:76
Alignment explanation
Indices: 31030344--31030522 Score: 191
Period size: 74 Copynumber: 2.4 Consensus size: 76
31030334 TATTTAAAAC
* * * * * *
31030344 AAAAATCAAACAAATCCTATTAAACGGCAGGAATAAAATCCTAAAATAGGAGTGTTCAATTGAGT
1 AAAAATCAAACAAATCCTGTTAAACGACAAGAACAAAATCCTAAAATAGCAATGTTCAATTGAGT
31030409 CTATATTTG-A
66 CTATATTTGAA
* * * *
31030419 AAAAAT-AAACAAATCCTGTTAAACGACAAGAGCAAAATCCTGAACTAGCAATGTTCAATTGATT
1 AAAAATCAAACAAATCCTGTTAAACGACAAGAACAAAATCCTAAAATAGCAATGTTCAATTGAGT
* * *
31030483 TTCTGTTTGAA
66 CTATATTTGAA
* *
31030494 ACAGAAATCAAATAAATCATGTTAAACGA
1 A-A-AAATCAAACAAATCCTGTTAAACGA
31030523 TAGGAATAAA
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
74 54 0.64
75 8 0.09
76 1 0.01
77 4 0.05
78 18 0.21
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (76 bp):
AAAAATCAAACAAATCCTGTTAAACGACAAGAACAAAATCCTAAAATAGCAATGTTCAATTGAGT
CTATATTTGAA
Found at i:31030540 original size:78 final size:76
Alignment explanation
Indices: 31030268--31030540 Score: 250
Period size: 78 Copynumber: 3.6 Consensus size: 76
31030258 AGAACTGTGG
* * * *
31030268 AAATCGAACAAATCCTGTTGAATGGCAGGAATAAAAATCCTGAAC-AGAATTGTTCAATT-AGTT
1 AAATCAAACAAATCCTGTTAAACGACAGGAAT-AAAATCCTGAACTAGAA-TGTTCAATTGA-TT
* *
31030331 TCCTATTTAAAACAA
63 TTCTATTTGAAAC-A
* * * * * * *
31030346 AAATCAAACAAATCCTATTAAACGGCAGGAATAAAATCCTAAAATAGGAGTGTTCAATTGAGTCT
1 AAATCAAACAAATCCTGTTAAACGACAGGAATAAAATCCTGAACTA-GAATGTTCAATTGATTTT
*
31030411 ATATTTG-AA-A
65 CTATTTGAAACA
* **
31030421 AAAT-AAACAAATCCTGTTAAACGACAAGAGCAAAATCCTGAACTAGCAATGTTCAATTGATTTT
1 AAATCAAACAAATCCTGTTAAACGACAGGAATAAAATCCTGAACTAG-AATGTTCAATTGATTTT
*
31030485 CTGTTTGAAACA
65 CTATTTGAAACA
* * * *
31030497 GAAATCAAATAAATCATGTTAAACGATAGGAATAAAATACTGAA
1 -AAATCAAACAAATCCTGTTAAACGACAGGAATAAAATCCTGAA
31030541 ACAGGATATT
Statistics
Matches: 156, Mismatches: 31, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
73 1 0.01
74 53 0.34
75 7 0.04
76 1 0.01
77 16 0.10
78 75 0.48
79 3 0.02
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (76 bp):
AAATCAAACAAATCCTGTTAAACGACAGGAATAAAATCCTGAACTAGAATGTTCAATTGATTTTC
TATTTGAAACA
Found at i:31031487 original size:35 final size:35
Alignment explanation
Indices: 31031448--31031537 Score: 94
Period size: 35 Copynumber: 2.6 Consensus size: 35
31031438 TCTTTCGAAA
*
31031448 TGTCACCTCAAAGGACCTATAAACTATTTACACGG
1 TGTCACCTCAAAGGACCTATAAACCATTTACACGG
* * * *
31031483 TGTCACCCTGAAA-GACCTATATACCGTTTACATGG
1 TGTCA-CCTCAAAGGACCTATAAACCATTTACACGG
*
31031518 TGTCACC-CTAAAGGATCTAT
1 TGTCACCTC-AAAGGACCTAT
31031538 CGATAATCGC
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
34 5 0.11
35 34 0.76
36 6 0.13
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (35 bp):
TGTCACCTCAAAGGACCTATAAACCATTTACACGG
Found at i:31033182 original size:59 final size:59
Alignment explanation
Indices: 31033116--31033235 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 59
31033106 ATTCCTCATA
*
31033116 GATGGTAGTGGTGTCACCACCAGATCTCAAAAAGATACAACACAGTTACAACAGGTGTT
1 GATGGTAGTGGTGTCACCACCAGATCTCAAAAAGATACAACACAGTTACAACAGGAGTT
*
31033175 GATGGTAGTGGTGTCACCACCAGATTTCAAAAAGATACAACACAGTTACAACAGGAGTT
1 GATGGTAGTGGTGTCACCACCAGATCTCAAAAAGATACAACACAGTTACAACAGGAGTT
31033234 GA
1 GA
31033236 CCAAGCTCCA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.22
Consensus pattern (59 bp):
GATGGTAGTGGTGTCACCACCAGATCTCAAAAAGATACAACACAGTTACAACAGGAGTT
Found at i:31037357 original size:24 final size:25
Alignment explanation
Indices: 31037327--31037380 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
31037317 ATAAAATGTG
31037327 TTAAAAAAACATATTTTAGTAATAT
1 TTAAAAAAACATATTTTAGTAATAT
*
31037352 TTAAAAAAACTTATTTTAGTAATAT
1 TTAAAAAAACATATTTTAGTAATAT
31037377 TTAA
1 TTAA
31037381 TCCTATGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (25 bp):
TTAAAAAAACATATTTTAGTAATAT
Found at i:31041401 original size:22 final size:22
Alignment explanation
Indices: 31041326--31041393 Score: 109
Period size: 22 Copynumber: 3.1 Consensus size: 22
31041316 ATAAATAATT
* **
31041326 AGAGCTTAGTACGTGAAACATG
1 AGAGCTTAGTACGTTAGCCATG
31041348 AGAGCTTAGTACGTTAGCCATG
1 AGAGCTTAGTACGTTAGCCATG
31041370 AGAGCTTAGTACGTTAGCCATG
1 AGAGCTTAGTACGTTAGCCATG
31041392 AG
1 AG
31041394 GGTTTAGTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (22 bp):
AGAGCTTAGTACGTTAGCCATG
Found at i:31043041 original size:5 final size:5
Alignment explanation
Indices: 31043031--31043063 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
31043021 AATGCAAAGG
*
31043031 TGAGA TGAGA TGAGA TGAGA TGAGA TGTGA TGA
1 TGAGA TGAGA TGAGA TGAGA TGAGA TGAGA TGA
31043064 ACCGAAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.39, T:0.24
Consensus pattern (5 bp):
TGAGA
Found at i:31048161 original size:26 final size:30
Alignment explanation
Indices: 31048093--31048162 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 30
31048083 TATAACATTC
*
31048093 CAATTCAC-TTAT-AATCAACATTTCAATA
1 CAATTCACATAATCAATCAACATTTCAATA
* *
31048121 CCATTCACATAATCAATCAGCATTT-AAT-
1 CAATTCACATAATCAATCAACATTTCAATA
31048149 CAATTCA-AT-ATCAA
1 CAATTCACATAATCAA
31048163 ATTCATATCC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 5 0.14
27 2 0.06
28 13 0.36
29 6 0.17
30 10 0.28
ACGTcount: A:0.43, C:0.23, G:0.01, T:0.33
Consensus pattern (30 bp):
CAATTCACATAATCAATCAACATTTCAATA
Found at i:31057179 original size:15 final size:15
Alignment explanation
Indices: 31057159--31057193 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31057149 ACTAAAATAA
*
31057159 AAAATTAAAGAAATT
1 AAAATTAAACAAATT
*
31057174 AAAATTAATCAAATT
1 AAAATTAAACAAATT
31057189 AAAAT
1 AAAAT
31057194 ACGCAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (15 bp):
AAAATTAAACAAATT
Found at i:31059913 original size:222 final size:223
Alignment explanation
Indices: 31059527--31059971 Score: 847
Period size: 222 Copynumber: 2.0 Consensus size: 223
31059517 ATGTAGGAGG
31059527 ACGTGGATTCGAGTCTATTGAAGCGCACTTAGTTATGAGTTGAGGAATGGCTATAGTTAGTTTTA
1 ACGTGGATTCGAGTCTATTGAAGCGCACTTAGTTATGAGTTGAGGAATGGCTATAGTTAGTTTTA
31059592 AGTATTGTGTCAAAAAGAGCAGATATAATCAGAATCTATAATAAGATTGTTAAAAAAATATATGA
66 AGTATTGTGTCAAAAAGAGCAGATATAATCAGAATCTATAATAAGATTGTTAAAAAAATATATGA
31059657 TTTACCATATGTGCAAAGGCGAATCTAAGGGGCTGGCAATGGCCCTGACTCCCCCTAAAATGAAA
131 TTTACCATATGTGCAAAGGCGAATCTAAGGGGCTGGCAATGGCCCTGACTCCCCCTAAAATGAAA
31059722 AATTGCTATTTAGGTTATTT-AAATTTT
196 AATTGCTATTTAGGTTATTTAAAATTTT
31059749 ACGTGGATTCGAGTCTATTGAAGCGCACTTAGTTATGAGTTGAGGAATGGCTATAGTTAGTTTTA
1 ACGTGGATTCGAGTCTATTGAAGCGCACTTAGTTATGAGTTGAGGAATGGCTATAGTTAGTTTTA
*
31059814 AGTATTGTGTCAAAAAGAGCAGATATAATCAGAATCTATAATAAGATTGTTAAAAATATATATGA
66 AGTATTGTGTCAAAAAGAGCAGATATAATCAGAATCTATAATAAGATTGTTAAAAAAATATATGA
* *
31059879 TTTACCATATGTGCAAAGGCGAATCTAGGGGGCTGGCAATGGCCTTGACTCCCCCTAAAATGAAA
131 TTTACCATATGTGCAAAGGCGAATCTAAGGGGCTGGCAATGGCCCTGACTCCCCCTAAAATGAAA
*
31059944 AATTGCTATTTAGGTTCTTTAAAATTTT
196 AATTGCTATTTAGGTTATTTAAAATTTT
31059972 TTAAAATTTT
Statistics
Matches: 218, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
222 211 0.97
223 7 0.03
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (223 bp):
ACGTGGATTCGAGTCTATTGAAGCGCACTTAGTTATGAGTTGAGGAATGGCTATAGTTAGTTTTA
AGTATTGTGTCAAAAAGAGCAGATATAATCAGAATCTATAATAAGATTGTTAAAAAAATATATGA
TTTACCATATGTGCAAAGGCGAATCTAAGGGGCTGGCAATGGCCCTGACTCCCCCTAAAATGAAA
AATTGCTATTTAGGTTATTTAAAATTTT
Found at i:31061000 original size:3 final size:3
Alignment explanation
Indices: 31060992--31061033 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
31060982 TTTATCTCAA
31060992 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
31061034 CCAAATTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:31074374 original size:51 final size:50
Alignment explanation
Indices: 31074250--31074434 Score: 169
Period size: 51 Copynumber: 3.7 Consensus size: 50
31074240 AAACTGATGG
* * * * * *
31074250 TCACGTGTGTAGTACTATGTGCATGCTACTACGTGTACCAGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-AT-GA
*
31074300 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TAT-GA
* * * * * *
31074351 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTATCGGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-ATGA
* *
31074402 TTACATGTGTAGTACTATGTGTAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
31074435 TGAACCGGTA
Statistics
Matches: 110, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
50 37 0.34
51 71 0.65
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATGA
Found at i:31074379 original size:101 final size:102
Alignment explanation
Indices: 31074250--31074434 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
31074240 AAACTGATGG
* * *
31074250 TCACGTGTGTAGTACTATGTGCATGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
31074313 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* * *
31074351 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTATCGGATAGTGATGGTTACATGTGTAGTA
1 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
*
31074416 CTATGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
31074435 TGAACCGGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 38 0.51
102 33 0.44
103 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:31074442 original size:102 final size:101
Alignment explanation
Indices: 31074250--31074442 Score: 280
Period size: 102 Copynumber: 1.9 Consensus size: 101
31074240 AAACTGATGG
* * *
31074250 TCACGTGTGTAGTACTATGTGCATGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
*
31074315 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGAACCGGATAGCTTCGA
* * *
31074351 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTATCGGATAGTGAT-GGTTACATGTGTAGT
1 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGT
* *
31074415 ACTATGTGTAGGCTACTATGTGAACCGG
64 ACTATGTGCAGGCTACTATGCGAACCGG
31074443 TATCATTAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
101 38 0.47
102 39 0.48
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGAACCGGATAGCTTCGA
Found at i:31074510 original size:46 final size:43
Alignment explanation
Indices: 31074438--31074536 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
31074428 TACTATGTGA
*
31074438 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* * *
31074481 ACCGGATATCATTGATTACAAAGGGTGGTTGTTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
31074527 ACCGTGTATC
1 ACCG-GTATC
31074537 TGTTATTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 26 0.55
47 3 0.06
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:31074681 original size:16 final size:16
Alignment explanation
Indices: 31074660--31074691 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31074650 TGATTGAAAG
*
31074660 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
31074676 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
31074692 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:31077995 original size:33 final size:33
Alignment explanation
Indices: 31077958--31078024 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
31077948 TCGTCAAAAG
*
31077958 TAAAGAAAATACATCTAAATTTCTCGAGAATAA
1 TAAAGAAAATACATCTAAATTGCTCGAGAATAA
31077991 TAAAGAAAATACATCTAAATTGCTCGAGAATAA
1 TAAAGAAAATACATCTAAATTGCTCGAGAATAA
31078024 T
1 T
31078025 CTCCATAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (33 bp):
TAAAGAAAATACATCTAAATTGCTCGAGAATAA
Found at i:31085757 original size:3 final size:3
Alignment explanation
Indices: 31085743--31085787 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
31085733 TTGCATTGGC
*
31085743 TGT TGC TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
31085788 CAATGATTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.02, G:0.33, T:0.64
Consensus pattern (3 bp):
TGT
Found at i:31094213 original size:23 final size:22
Alignment explanation
Indices: 31094170--31094213 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
31094160 TTCTAAGTCG
31094170 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
31094193 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
31094214 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:31094330 original size:45 final size:45
Alignment explanation
Indices: 31094266--31094351 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
31094256 CTCAGTCGGT
*
31094266 TCAGCACATAGCAACCACCTTATTAATCAATGATGTCCAGTGGAA
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCAGTGGAA
*
31094311 TCAGCACATAGCAACCACCTTACTAATCAATGATGTTCAGT
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCAGT
31094352 TCACATAGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (45 bp):
TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCAGTGGAA
Found at i:31094422 original size:51 final size:50
Alignment explanation
Indices: 31094357--31094543 Score: 182
Period size: 51 Copynumber: 3.7 Consensus size: 50
31094347 TCAGTTCACA
* * *
31094357 TAGTAGCCTACACATAGTACTACACATGTGACCATTATCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGGTACACG
* * * * * * *
31094408 TAATAGCCTGCACATACTATTACACACGTGATCGA-AACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGGTACACG
* * * *
31094459 TAGTAGCCTTCACATAGTACTACACA-TTCGACC-TATAATTTCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGT-GACCATATCA-TCCGGTACACG
31094509 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
31094544 CACTTTCACT
Statistics
Matches: 106, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
49 1 0.01
50 42 0.40
51 61 0.58
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCCGGTACACG
Found at i:31094535 original size:101 final size:101
Alignment explanation
Indices: 31094355--31094539 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 101
31094345 GTTCAGTTCA
*
31094355 CATAGTAGCCTACACATAGTACTACACATGTGACCATTATCATCCGATACACGTAATAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGTGACCATAAT-ATCCGATACACGTAATAGCCTGCA
*
31094420 CATACTATTACACACGTGATCGAAACTATCCGGTACG
65 CATACTACTACACACGTGATCGAAACTATCCGGTACG
* * * *
31094457 CATAGTAGCCTTCACATAGTACTACACAT-TCGACCTATAAT-TTCGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTACACATAGTACTACACATGT-GACC-ATAATATCCGATACACGTAATAGCCTGC
*
31094520 ACATAGTACTACACACGTGA
64 ACATACTACTACACACGTGA
31094540 CCATCACTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
101 38 0.51
102 32 0.43
103 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGTGACCATAATATCCGATACACGTAATAGCCTGCAC
ATACTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:31098231 original size:18 final size:20
Alignment explanation
Indices: 31098186--31098232 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
31098176 ATCACGTCTC
31098186 ATGCTTTTATATCTCTCACA
1 ATGCTTTTATATCTCTCACA
* *
31098206 TTGTTTTTA-ATC-CTCACA
1 ATGCTTTTATATCTCTCACA
31098224 ATGCTTTTA
1 ATGCTTTTA
31098233 GTCTTACACC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 13 0.57
19 3 0.13
20 7 0.30
ACGTcount: A:0.23, C:0.21, G:0.06, T:0.49
Consensus pattern (20 bp):
ATGCTTTTATATCTCTCACA
Found at i:31099406 original size:9 final size:9
Alignment explanation
Indices: 31099394--31099465 Score: 81
Period size: 9 Copynumber: 7.9 Consensus size: 9
31099384 TCTTTAATCT
31099394 CTCCTCTTC
1 CTCCTCTTC
* *
31099403 CTCCCCCTC
1 CTCCTCTTC
31099412 CTCCTCTTC
1 CTCCTCTTC
*
31099421 CTCCTCCTC
1 CTCCTCTTC
*
31099430 CTCCTCCTC
1 CTCCTCTTC
*
31099439 CTTCTTCTTC
1 C-TCCTCTTC
*
31099449 TTCCTCTTC
1 CTCCTCTTC
31099458 CTCCTCTT
1 CTCCTCTT
31099466 TAGATTGCGC
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
9 46 0.88
10 6 0.12
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (9 bp):
CTCCTCTTC
Found at i:31099416 original size:3 final size:3
Alignment explanation
Indices: 31099394--31099463 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
31099384 TCTTTAATCT
* * *
31099394 CTC CTC TTC CTC CCC CTC CTC CTC TTC CTC CTC CTC CTC CTC CTC CTTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC C-TC
* * * *
31099443 TTC TTC TTC CTC TTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC
31099464 TTTAGATTGC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
3 54 0.96
4 2 0.04
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (3 bp):
CTC
Found at i:31103936 original size:14 final size:12
Alignment explanation
Indices: 31103914--31103948 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 12
31103904 AAAAAAGAAA
31103914 TAAAATAAATTAG
1 TAAAATAAATT-G
31103927 TAAGAATAAATTG
1 TAA-AATAAATTG
31103940 TAAAATAAA
1 TAAAATAAA
31103949 AATAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 7 0.33
14 8 0.38
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (12 bp):
TAAAATAAATTG
Found at i:31105835 original size:17 final size:17
Alignment explanation
Indices: 31105809--31105841 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31105799 ACCGGATTGA
*
31105809 TGGACTAGATCGGTTAC
1 TGGACCAGATCGGTTAC
31105826 TGGACCAGATCGGTTA
1 TGGACCAGATCGGTTA
31105842 GGCCTTCATT
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:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (17 bp):
TGGACCAGATCGGTTAC
Found at i:31122743 original size:12 final size:12
Alignment explanation
Indices: 31122726--31122750 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31122716 TAAAAAGTCT
31122726 AACCAACTAATC
1 AACCAACTAATC
31122738 AACCAACTAATC
1 AACCAACTAATC
31122750 A
1 A
31122751 CAAAAAATTA
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:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (12 bp):
AACCAACTAATC
Found at i:31127418 original size:29 final size:29
Alignment explanation
Indices: 31127350--31127411 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
31127340 ATAAATATTT
31127350 ATTTTTTA--TTTTTTAATTTTAAAATAA
1 ATTTTTTATGTTTTTTAATTTTAAAATAA
*
31127377 ATTTTTTATGTTTTTTATTTTTAAAAT-A
1 ATTTTTTATGTTTTTTAATTTTAAAATAA
31127405 ATTTTTT
1 ATTTTTT
31127412 GGTGTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 8 0.25
28 8 0.25
29 16 0.50
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (29 bp):
ATTTTTTATGTTTTTTAATTTTAAAATAA
Found at i:31130116 original size:31 final size:31
Alignment explanation
Indices: 31130076--31130138 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
31130066 ACCTTCATAC
*
31130076 TTAGTCATTTTAATAACTATTCATCATCAAA
1 TTAGCCATTTTAATAACTATTCATCATCAAA
31130107 TTAGCCATTTTAATAACTATTCATCATCAAA
1 TTAGCCATTTTAATAACTATTCATCATCAAA
31130138 T
1 T
31130139 ATTTACATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.41
Consensus pattern (31 bp):
TTAGCCATTTTAATAACTATTCATCATCAAA
Found at i:31130787 original size:50 final size:50
Alignment explanation
Indices: 31130731--31130851 Score: 134
Period size: 50 Copynumber: 2.4 Consensus size: 50
31130721 TATCCCAGAT
** * * *
31130731 ATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATATAGATGCCAACGCCATGTCCCAAAC
** * * * *
31130781 ATGGTCTTACGGGGGACCTCTCATCTCGATTCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATAGATGCCAACGCCATGTCCCAAAC
*
31130831 ATGGTCTTAGATGGGACCTCT
1 ATGGTCTTACATGGGACCTCT
31130852 TTACCCAAAT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATAGATGCCAACGCCATGTCCCAAAC
Found at i:31134406 original size:56 final size:56
Alignment explanation
Indices: 31134317--31134508 Score: 288
Period size: 56 Copynumber: 3.5 Consensus size: 56
31134307 GGTAAAAAGA
31134317 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGATG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGATG
*
31134373 TCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGATG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGATG
* * * * *
31134429 TCCCATGTAAGACCATGTCTGAGACATGGCGTTGGCA-C--CGAG---ATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGATG
31134479 TCCCATGTAAGACCATGTCTGGGACATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
31134509 GTAGGCACCG
Statistics
Matches: 128, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
50 35 0.27
53 3 0.02
55 1 0.01
56 89 0.70
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (56 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGATG
Found at i:31134493 original size:50 final size:50
Alignment explanation
Indices: 31134312--31134654 Score: 251
Period size: 50 Copynumber: 6.6 Consensus size: 50
31134302 ATTTGGGTAA
* *
31134312 AAAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* * * *
31134368 AGATGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* * * *
31134424 AGATGTCCCATGTAAGACCATGTCTGAGACATGGCGTTGGCACCGAGATG
1 AAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
31134474 AAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTAGGCACCGAGATG
1 AAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *** * * * *
31134524 ACAGGTCCCCCATAAGACCATGTCTAGGAGATGGCATGGGCACCGATATG
1 AAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * * * *
31134574 AGAA-CTCCCATGCAAGACCATATTTGGGATATGACATTGGCA--GTAAAGG
1 A-AAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
** **
31134623 AAACATCCCATGTAAGATTATGTCTGGGACAT
1 AAAGGTCCCATGTAAGACCATGTCTGGGACAT
31134655 AACTTTGGCA
Statistics
Matches: 242, Mismatches: 42, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
48 3 0.01
49 25 0.10
50 118 0.49
51 1 0.00
53 3 0.01
55 1 0.00
56 91 0.38
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
AAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:31141762 original size:17 final size:16
Alignment explanation
Indices: 31141730--31141760 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31141720 TTGAAATTAG
*
31141730 AAAAATGAGAAAAAAT
1 AAAAACGAGAAAAAAT
31141746 AAAAACGAGAAAAAA
1 AAAAACGAGAAAAAA
31141761 ATTGAAAGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.06
Consensus pattern (16 bp):
AAAAACGAGAAAAAAT
Found at i:31144538 original size:23 final size:23
Alignment explanation
Indices: 31144503--31144584 Score: 67
Period size: 23 Copynumber: 3.6 Consensus size: 23
31144493 TCATGGAATG
*
31144503 AAAGAAGATTAATAGAATTCAAC
1 AAAGAAGAGTAATAGAATTCAAC
* * *** *
31144526 AAAGAAGGGTAAT-CAACAAAATG
1 AAAGAAGAGTAATAGAATTCAA-C
*
31144549 AAAGAAGATTAATAGAATTCAAC
1 AAAGAAGAGTAATAGAATTCAAC
*
31144572 AAAGAAGGGTAAT
1 AAAGAAGAGTAAT
31144585 CAACAAAACT
Statistics
Matches: 41, Mismatches: 16, Indels: 4
0.67 0.26 0.07
Matches are distributed among these distances:
22 4 0.10
23 33 0.80
24 4 0.10
ACGTcount: A:0.56, C:0.07, G:0.18, T:0.18
Consensus pattern (23 bp):
AAAGAAGAGTAATAGAATTCAAC
Found at i:31144566 original size:46 final size:46
Alignment explanation
Indices: 31144499--31144592 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
31144489 TGCATCATGG
31144499 AATGAAAGAAGATTAATAGAATTCAACAAAGAAGGGTAATCAACAA
1 AATGAAAGAAGATTAATAGAATTCAACAAAGAAGGGTAATCAACAA
31144545 AATGAAAGAAGATTAATAGAATTCAACAAAGAAGGGTAATCAACAA
1 AATGAAAGAAGATTAATAGAATTCAACAAAGAAGGGTAATCAACAA
31144591 AA
1 AA
31144593 CTGTTTTCTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (46 bp):
AATGAAAGAAGATTAATAGAATTCAACAAAGAAGGGTAATCAACAA
Found at i:31150206 original size:16 final size:15
Alignment explanation
Indices: 31150187--31150221 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
31150177 ATTGGAATTG
31150187 ATATGTATTGATATCA
1 ATATGTATTGATAT-A
*
31150203 ATATGTTTTGATATA
1 ATATGTATTGATATA
31150218 ATAT
1 ATAT
31150222 TTTCGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (15 bp):
ATATGTATTGATATA
Found at i:31150916 original size:31 final size:31
Alignment explanation
Indices: 31150881--31150939 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
31150871 GTCACTGGTG
* *
31150881 TTTTAGATAATTTCTATTTTTGTCACTCACA
1 TTTTAGATAATTTCTACTTTGGTCACTCACA
**
31150912 TTTTAGATTGTTTCTACTTTGGTCACTC
1 TTTTAGATAATTTCTACTTTGGTCACTC
31150940 TCTGTTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53
Consensus pattern (31 bp):
TTTTAGATAATTTCTACTTTGGTCACTCACA
Found at i:31151969 original size:29 final size:31
Alignment explanation
Indices: 31151911--31151977 Score: 95
Period size: 29 Copynumber: 2.2 Consensus size: 31
31151901 GTTAGAGATT
31151911 TAATATAAATATATATAATAATTTTTTAACA
1 TAATATAAATATATATAATAATTTTTTAACA
*
31151942 T-ATATAATTA-ATATAAT-ATTTTTATAACA
1 TAATATAAATATATATAATAATTTTT-TAACA
31151971 TAATATA
1 TAATATA
31151978 TTTAGGCTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 6 0.18
29 13 0.39
30 13 0.39
31 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (31 bp):
TAATATAAATATATATAATAATTTTTTAACA
Found at i:31153418 original size:20 final size:20
Alignment explanation
Indices: 31153389--31153426 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31153379 ATTTAGCCAT
*
31153389 TTTTTATTTTTATTTTAATA
1 TTTTTATTTTTAATTTAATA
*
31153409 TTTTTGTTTTTAATTTAA
1 TTTTTATTTTTAATTTAA
31153427 CTTTTACATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTTATTTTTAATTTAATA
Found at i:31158204 original size:89 final size:89
Alignment explanation
Indices: 31158094--31158270 Score: 257
Period size: 89 Copynumber: 2.0 Consensus size: 89
31158084 AACTTACCTC
* ** * *
31158094 GATAACTAGGGTTGTAGTAGTAGAGTCGAACTAATCTGAAGCTTTAGTTTTTCCTCAATTTAAGT
1 GATAACTAAGGTTGTAGTAGTAGAGTCGAACTAATCCAAAGCTTTAGCTTTTCCTCAAGTTAAGT
* *
31158159 CCGATTGTGGTTTATCTTGATCTT
66 CCGATTGTGATTTATCTTAATCTT
*
31158183 GATAACTAAGGTCT-TAGTAGTAGAGTCGAACTAATCCAAAGCTTTAGCTTTTCCTCGAGTTAAG
1 GATAACTAAGGT-TGTAGTAGTAGAGTCGAACTAATCCAAAGCTTTAGCTTTTCCTCAAGTTAAG
*
31158247 TCTGATTGTGATTTATCTTAATCT
65 TCCGATTGTGATTTATCTTAATCT
31158271 AAATAAATAA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
89 77 0.99
90 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (89 bp):
GATAACTAAGGTTGTAGTAGTAGAGTCGAACTAATCCAAAGCTTTAGCTTTTCCTCAAGTTAAGT
CCGATTGTGATTTATCTTAATCTT
Found at i:31171378 original size:7 final size:6
Alignment explanation
Indices: 31171352--31171395 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
31171342 CCCAAAGTAG
* *
31171352 AGAAAA GGAAAA GGAAAA AGAACAA AGAAAA AGAAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAA-AA AGAAAA AGAAAA AGAAAA A
31171396 TGGAAGTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:31172628 original size:26 final size:25
Alignment explanation
Indices: 31172599--31172647 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
31172589 GCTTTCTGCT
* *
31172599 ATTCTCTTCTTTTTTTTTCCTTTTTG
1 ATTCT-TTATTTTTTCTTCCTTTTTG
*
31172625 ATTCTTTATTTTTTCTTCGTTTT
1 ATTCTTTATTTTTTCTTCCTTTT
31172648 AATCACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.06, C:0.16, G:0.04, T:0.73
Consensus pattern (25 bp):
ATTCTTTATTTTTTCTTCCTTTTTG
Found at i:31189695 original size:51 final size:51
Alignment explanation
Indices: 31189640--31189736 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 51
31189630 CCAGGCCGTT
* *
31189640 TAACACACTGTTCATCGAATTCAAACCACACGTGCAAGGGACACGTGTGTG
1 TAACACACTGTTCATCGAATTCAAACCACACGGGCAAGCGACACGTGTGTG
* * *
31189691 TAACACATTGTTCATTGAATTCAAACCACACGGGCAATCGACACGT
1 TAACACACTGTTCATCGAATTCAAACCACACGGGCAAGCGACACGT
31189737 ACGTGTGTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (51 bp):
TAACACACTGTTCATCGAATTCAAACCACACGGGCAAGCGACACGTGTGTG
Found at i:31196560 original size:37 final size:38
Alignment explanation
Indices: 31196504--31196579 Score: 93
Period size: 37 Copynumber: 2.0 Consensus size: 38
31196494 AAACTGAATG
* * *
31196504 TGAAAGCTCAAACTGAAACCGAAGTT-AAAATTCCAAAC
1 TGAAAACTCAAACTAAAACCGAAGTTGAAAA-CCCAAAC
*
31196542 TGAAAACT-AAACTAAAACCTAAGTTGAAAACCCAAAC
1 TGAAAACTCAAACTAAAACCGAAGTTGAAAACCCAAAC
31196579 T
1 T
31196580 TAAGGCTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 22 0.67
38 11 0.33
ACGTcount: A:0.50, C:0.21, G:0.11, T:0.18
Consensus pattern (38 bp):
TGAAAACTCAAACTAAAACCGAAGTTGAAAACCCAAAC
Found at i:31196669 original size:732 final size:724
Alignment explanation
Indices: 31195267--31197561 Score: 3068
Period size: 732 Copynumber: 3.1 Consensus size: 724
31195257 GTTTCAATAA
* * * * * * * *
31195267 TAGATGAACTAAGCTCTCGAAGTAGCCTACTTGAAACAAAAAACTTAGAAATTTTGGGTAAATTG
1 TAGATGAACTAAGCTCCCAAAGTAGCCTAATTGAAACAAGAAACCTAGAAATTCTGAGCAAATTG
* * * * * * *
31195332 TGACGATTTTCAATGTTTTGAGCCCCAAAATCTTAAGCTTTTGGTAAATGTTTTTTGATAAAACG
66 TGACGATTTTCAATATTTTGAGCCCCAAAATCTTAAGCTTTTGGTGATTGGTTTCT-ATGAAATG
* * * * * * *
31195397 TAAGTTCTAGTTTTAGAATTACATTTTACCTTTAAATTACTATTCTTAAAACCACAAAATATTTG
130 AAATTTCTAGTTTTAGAATCACATTTCACCTTTAAAATAATATTCTTAAAACCAAAAAATATTTG
* *
31195462 AACGAGCATAGAGTTTTAATGGCTT-AAACGAGCCAAAAAGTCATGAAAATTCTTAAATATAAAA
195 AACGAGCATAGAGTTTTGATGGCTTAAAACGAGCCAAAAA-TCATGAAAATTCTAAAATATAAAA
* *
31195526 TACAAAAAAATTTCAATTTTATTTCATTTAATATTTATTGTTATCCAAATTATGTTTTGTTAAAT
259 T---AAAAAATTT-TATTTTATTTCATTTAATA-TTATTGTTATCCAAATTATGTTTTATTAAAT
* *
31195591 TAAACATAATATTAAATTAATTTTCAAAATTTTTTGTTGAATTTTTTATTTAAATATATTACAAA
319 TAAA-ATCATATTAAATTAATTTTCAAAATTTTTAGTTGAATTTTTTATTT--ATATATTACAAA
* * * * * *
31195656 TTTTTAGAATTACCACACGTGTTAAGGTACTCGATAAGTTATCGCACTACCAAAATGCCTTGGAA
381 ATTGTAGAATTATCACACGTGTTAAGTTACTCGGTAAGTTATCGCACAACCAAAATGCCTTGGAA
* * ** *
31195721 TCGAAATCTCAAACCGAAACCAAAT-C--A-AAAACCCAAAACCCAAACTGAAAGTGAAAGCCCA
446 TCGAAACCCCAAATAGAAACCAAATCCAAACAAAACCCAAAACCGAAACTGAAAGTGAAAGCCCA
* * * * *
31195782 AAC-CAACACCGAATCTAAAGCTCCAAACTGGAAACTAAACTAAAACCTAAATCGAAAACCCAAA
511 AACTGAA-ACCGAATCTAAAACTCCAAACTGAAAACTAAACTAAAACCTAAGTTGAAAACCCAAA
* *
31195846 CTTAGGGGTTTCAACATATTTGGTAACTACATTTAAGGCTTTTTAAAACCATCTATTGTTTCTCT
575 CTTAAGGCTTTCAACATATTTGGTAACTACATTTAAGGCTTTTTAAAACCATCTATTGTTTCT-T
* *
31195911 -TTCTAGTCGAACTTTAAATGATTTCTGCTGTACGAAATGTGATATTTCCATTGGTTTGTTTTTC
639 ATTCTAGTCGAACTTTAAATGATTTCTGTTGTATGAAATGTGATATTTCCATTGGTTTGTTTTTC
* *
31195975 TAGCCAAATTGAATTTTGTCT
704 TAGCCAAATTGAGTTATGTCT
* *
31195996 TTGATGAACTAAGCTCCCAAAGTAGCCTAATTGAAACAAGAAACCTAGAAATTCTAAGCAAATTG
1 TAGATGAACTAAGCTCCCAAAGTAGCCTAATTGAAACAAGAAACCTAGAAATTCTGAGCAAATTG
* * *
31196061 TGACCATTTGT-AATATTTTGAGCCCCAAAATCTTAAACTTTTGGTGATTGGTTTCTATGGAATG
66 TGACGATTT-TCAATATTTTGAGCCCCAAAATCTTAAGCTTTTGGTGATTGGTTTCTATGAAATG
31196125 AAATTTCTAGTTTTAGAATCACATTTCACCTTTAAAATAATATTCTTAAAACCAAAAAAATATTT
130 AAATTTCTAGTTTTAGAATCACATTTCACCTTTAAAATAATATTCTTAAAACC-AAAAAATATTT
31196190 GAACGAGCATAGAGTTTTGATGGCTTAAAACGAGCCAAATAATCATGAAAATTCTAAAATATAAA
194 GAACGAGCATAGAGTTTTGATGGCTTAAAACGAGCCAAA-AATCATGAAAATTCTAAAATATAAA
* *
31196255 ATAAAATAATTTTATTTTATTTCTTTTTAATATTATTGTTATCTAAATTATGTTTTATTAAATTA
258 ATAAAA-AATTTTATTTTATTTC-ATTTAATATTATTGTTATCCAAATTATGTTTTATTAAATTA
* * * *
31196320 AAATCATATTACATTGATTTTCAAAAATTTTAGTTGAATTTTTTACTTTATATAATACAAAATTG
321 AAATCATATTAAATTAATTTTCAAAATTTTTAGTTGAATTTTTTA-TTTATATATTACAAAATTG
* * *
31196385 TAGAATTATCACACGTGTTAAGTTAC-CGGGTAAGTTTTTGCACAACCAAAATGCCTTGAAATC-
385 TAGAATTATCACACGTGTTAAGTTACTC-GGTAAGTTATCGCACAACCAAAATGCCTTGGAATCG
* *
31196448 AAAGCCCCAAATAGAAACCAAATCCAAAACCCAAAACCCAAAACCGAAACTGAATGTGAAAGCTC
449 AAA-CCCCAAATAGAAACCAAATCC-AAA--CAAAACCCAAAACCGAAACTGAAAGTGAAAGCCC
*
31196513 AAACTGAAACCGAAGT-TAAAATTCCAAACTGAAAACTAAACTAAAACCTAAGTTGAAAACCCAA
510 AAACTGAAACCGAA-TCTAAAACTCCAAACTGAAAACTAAACTAAAACCTAAGTTGAAAACCCAA
31196577 ACTTAAGGCTTTCAACATA-TTGAGTAACTACATTTAAGG-TGTTTTAAAACCATCTATTGTTTC
574 ACTTAAGGCTTTCAACATATTTG-GTAACTACATTTAAGGCT-TTTTAAAACCATCTATTGTTTC
* *
31196640 TTATTCTAGTCGAACTTTAAATGATTTCTGTTGTATGAAATGCGATCTTTCCATTGGTTTGTTTT
637 TTATTCTAGTCGAACTTTAAATGATTTCTGTTGTATGAAATGTGATATTTCCATTGGTTTGTTTT
* *
31196705 TCTAGCCAAATTGAGTTCTATCT
702 TCTAGCCAAATTGAGTTATGTCT
* * *
31196728 TAGATGAACTAAGCTCCCAAATTAGCCTAATTGAAACAGGAAACCTAGAAATTTTGAGCAAATTG
1 TAGATGAACTAAGCTCCCAAAGTAGCCTAATTGAAACAAGAAACCTAGAAATTCTGAGCAAATTG
* * * *
31196793 CGACGATTTGT-AATATTTTGAGCACCAAAATCTTAGGCTTTTGGTGATTGGTTTCCATGAAATG
66 TGACGATTT-TCAATATTTTGAGCCCCAAAATCTTAAGCTTTTGGTGATTGGTTTCTATGAAATG
* * *
31196857 GAATTTCTAGTTTTAGAATCACATTTGACCTTTAAAATAATATTCTTAAAA-CTAAAAATATTTG
130 AAATTTCTAGTTTTAGAATCACATTTCACCTTTAAAATAATATTCTTAAAACCAAAAAATATTTG
* * * *
31196921 AATGAGCATAGAGTTTTGATGGCTTAAAATGAGCCAAAAAATCATGAAAATTTTGAAATATAAAA
195 AACGAGCATAGAGTTTTGATGGCTTAAAACGAGCC-AAAAATCATGAAAATTCTAAAATATAAAA
* *
31196986 TACAAAATTTTTTGATTTTATTTCAGTTTCATATTATTGTTATCCAAATTATGTTTTATTAAATT
259 TA-AAAA-ATTTT-ATTTTATTTCA-TTTAATATTATTGTTATCCAAATTATGTTTTATTAAATT
31197051 AAAAGTCATATTAAATTAATTTTCAAAATTTTTAGTTGAATTTTTTATTTATATATTACAAAATT
320 AAAA-TCATATTAAATTAATTTTCAAAATTTTTAGTTGAATTTTTTATTTATATATTACAAAATT
* * * * * *
31197116 GAAAAATTATCACACGTGTTAAGTTACTCGGTAGGTTATCGCACAATCGAAATACCTTGGAATCG
384 GTAGAATTATCACACGTGTTAAGTTACTCGGTAAGTTATCGCACAACCAAAATGCCTTGGAATCG
* * **
31197181 AAACCCCAAATGGAAACCAAATCCAAAC----CCTAAAATTGAATA-TGAAAGTGAAAGCCCAAA
449 AAACCCCAAATAGAAACCAAATCCAAACAAAACCCAAAACCGAA-ACTGAAAGTGAAAGCCCAAA
* * *
31197241 -TCGACACCGAATCTAAAACTCCAAACCGAAAACTAAACTGAAACCTAAGTTGAAAACCCAAACT
513 CT-GAAACCGAATCTAAAACTCCAAACTGAAAACTAAACTAAAACCTAAGTTGAAAACCCAAACT
*
31197305 TAAGGCTTTCAACATATTTGGATAACTACATTTAAGGCTTTTTAAAACCATCTATTGTTTCTCAT
577 TAAGGCTTTCAACATATTTGG-TAACTACATTTAAGGCTTTTTAAAACCATCTATTGTTTCTTAT
* *
31197370 TCTCGTCGAACTTTAAATGATTTTTGTTGTATGAAATGTGATATTTCCATTGGTTTGTTTTTCTA
641 TCTAGTCGAACTTTAAATGATTTCTGTTGTATGAAATGTGATATTTCCATTGGTTTGTTTTTCTA
31197435 GCCAAATTGAGTTATGTCT
706 GCCAAATTGAGTTATGTCT
** * * *
31197454 TAGATGAACTAATTTCCCAAAGTAGCCTATTTGAAAC-AGAAAACTTAGAAATTCTGAGCAAGTT
1 TAGATGAACTAAGCTCCCAAAGTAGCCTAATTGAAACAAG-AAACCTAGAAATTCTGAGCAAATT
* * * ** * *
31197518 CTGACAATTTTCAATGTTTTGATTCCCAAAATCATAGGCTTTTG
65 GTGACGATTTTCAATATTTTGAGCCCCAAAATCTTAAGCTTTTG
31197562 TTAGAATTGT
Statistics
Matches: 1390, Mismatches: 139, Indels: 77
0.87 0.09 0.05
Matches are distributed among these distances:
724 6 0.00
725 182 0.13
726 249 0.18
727 51 0.04
728 64 0.05
729 139 0.10
730 108 0.08
731 21 0.02
732 524 0.38
733 46 0.03
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (724 bp):
TAGATGAACTAAGCTCCCAAAGTAGCCTAATTGAAACAAGAAACCTAGAAATTCTGAGCAAATTG
TGACGATTTTCAATATTTTGAGCCCCAAAATCTTAAGCTTTTGGTGATTGGTTTCTATGAAATGA
AATTTCTAGTTTTAGAATCACATTTCACCTTTAAAATAATATTCTTAAAACCAAAAAATATTTGA
ACGAGCATAGAGTTTTGATGGCTTAAAACGAGCCAAAAATCATGAAAATTCTAAAATATAAAATA
AAAAATTTTATTTTATTTCATTTAATATTATTGTTATCCAAATTATGTTTTATTAAATTAAAATC
ATATTAAATTAATTTTCAAAATTTTTAGTTGAATTTTTTATTTATATATTACAAAATTGTAGAAT
TATCACACGTGTTAAGTTACTCGGTAAGTTATCGCACAACCAAAATGCCTTGGAATCGAAACCCC
AAATAGAAACCAAATCCAAACAAAACCCAAAACCGAAACTGAAAGTGAAAGCCCAAACTGAAACC
GAATCTAAAACTCCAAACTGAAAACTAAACTAAAACCTAAGTTGAAAACCCAAACTTAAGGCTTT
CAACATATTTGGTAACTACATTTAAGGCTTTTTAAAACCATCTATTGTTTCTTATTCTAGTCGAA
CTTTAAATGATTTCTGTTGTATGAAATGTGATATTTCCATTGGTTTGTTTTTCTAGCCAAATTGA
GTTATGTCT
Found at i:31200565 original size:29 final size:30
Alignment explanation
Indices: 31200509--31200620 Score: 84
Period size: 31 Copynumber: 3.7 Consensus size: 30
31200499 AATCTCAAAA
* *
31200509 TTATACATGAACTTTGATTTAATGTGCAATT
1 TTATACATGAACTTTAATTT-AGGTGCAATT
*
31200540 TTATGCATGAACTTTAATTT-GGTGCAATT
1 TTATACATGAACTTTAATTTAGGTGCAATT
* * * * *
31200569 ATACACGTGAAACTTTAATTGT-GGTTCAAAT
1 TTATACATG-AACTTTAATT-TAGGTGCAATT
* *
31200600 GTATACTTGAAACTTTAATTT
1 TTATACATG-AACTTTAATTT
31200621 TGATTTAATC
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
29 13 0.19
30 11 0.16
31 43 0.64
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (30 bp):
TTATACATGAACTTTAATTTAGGTGCAATT
Found at i:31200614 original size:31 final size:30
Alignment explanation
Indices: 31200549--31200620 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 30
31200539 TTTATGCATG
*
31200549 AACTTTAATTTGGTGCAATTATACACGTGA
1 AACTTTAATTTGGTGCAAATATACACGTGA
* * * *
31200579 AACTTTAATTGTGGTTCAAATGTATACTTGA
1 AACTTTAATT-TGGTGCAAATATACACGTGA
31200610 AACTTTAATTT
1 AACTTTAATTT
31200621 TGATTTAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 11 0.31
31 25 0.69
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (30 bp):
AACTTTAATTTGGTGCAAATATACACGTGA
Found at i:31204124 original size:27 final size:26
Alignment explanation
Indices: 31204104--31204350 Score: 289
Period size: 27 Copynumber: 9.0 Consensus size: 26
31204094 GGGTATAATA
31204104 GTCATTTTACCCTATAGGGGTATTTC
1 GTCATTTTACCCTATAGGGGTATTTC
31204130 GATCATTTTACCCTATAGGGGTATTTC
1 G-TCATTTTACCCTATAGGGGTATTTC
* *
31204157 GGTCATTTTACCCTAAAAGGGTATTTC
1 -GTCATTTTACCCTATAGGGGTATTTC
*
31204184 GATCATTTTACCCTATGGGGGTATTTC
1 G-TCATTTTACCCTATAGGGGTATTTC
* * *
31204211 GTTTATTTTACCCTATGGGGGTATTTTG
1 G-TCATTTTACCCTATAGGGGTA-TTTC
31204239 GTCATTTTACCCTATAGGGGTATTTC
1 GTCATTTTACCCTATAGGGGTATTTC
31204265 TGTCATTTTACCCTAT-GAGGGTATTTC
1 -GTCATTTTACCCTATAG-GGGTATTTC
* * *
31204292 GATCATTTTACCTTATGGGGGTATTTTA
1 G-TCATTTTACCCTATAGGGGTA-TTTC
31204320 GTCATTTTACCTACCCTATAGGGGTATTTC
1 GTCA-TTT---TACCCTATAGGGGTATTTC
31204350 G
1 G
31204351 ATTATATTAC
Statistics
Matches: 192, Mismatches: 16, Indels: 22
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.04
27 155 0.81
28 13 0.07
30 4 0.02
31 13 0.07
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (26 bp):
GTCATTTTACCCTATAGGGGTATTTC
Found at i:31204219 original size:81 final size:81
Alignment explanation
Indices: 31204104--31204330 Score: 348
Period size: 81 Copynumber: 2.8 Consensus size: 81
31204094 GGGTATAATA
* * *
31204104 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACC
31204169 CTAAAAGGGTATTTC-
66 CTAAAAGGGTATTTCT
* *
31204184 GATCATTTTACCCTATGGGGGTATTTCGTTTATTTTACCCTATGGGGGTATTTTGGTCATTTTAC
1 G-TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGGTCATTTTAC
* *
31204249 CCTATAGGGGTATTTCT
65 CCTAAAAGGGTATTTCT
* * *
31204266 GTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCTTATGGGGGTATTTTAGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACC
31204331 TACCCTATAG
Statistics
Matches: 133, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 131 0.98
82 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (81 bp):
GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACC
CTAAAAGGGTATTTCT
Done.