Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 259 of 362
Found at i:87468124 original size:23 final size:22
Alignment explanation
Indices: 87468072--87468126 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
87468062 CCTAAATTTA
*
87468072 AAACCCAAAACATTACAAACCC
1 AAACCCAAAACAATACAAACCC
*
87468094 AAACCCAAAACTAATA-AAACCTT
1 AAACCCAAAAC-AATACAAACC-C
87468117 AAACCCAAAA
1 AAACCCAAAA
87468127 AGGCCCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.58, C:0.31, G:0.00, T:0.11
Consensus pattern (22 bp):
AAACCCAAAACAATACAAACCC
Found at i:87470515 original size:127 final size:128
Alignment explanation
Indices: 87470283--87470520 Score: 324
Period size: 127 Copynumber: 1.9 Consensus size: 128
87470273 CTGTTTGCCC
*
87470283 AAATAATCAAATATTCCTTTGAAATTTCATCCGTACTTTGAAAATTCCTTAAAACTAAGGCAATG
1 AAATAATCAAATATTCCTTTGAAATTTCATCCGTA-TTTCAAAATT-CTTAAAACTAAGGCAATG
* * *
87470348 TTCAATGTTTGGAAATTCAGGGAACCGTGTCCTATTGTGCTGGGTTGCAATTTCCCGTTTGTTCG
64 TTCAATGTTTAGAAATTCAGGGAACCGTGCCCTACTGTGCTGGGTTGCAATTTCCCGTTTGTTCG
* *
87470413 AAATAATCAAATATTCCTTT-AGAATTTCACTCATGT-TTTCTAAATT-TTAAAAC-AAGGCAAT
1 AAATAATCAAATATTCCTTTGA-AATTTCA-TC-CGTATTTCAAAATTCTTAAAACTAAGGCAAT
*
87470474 GTTCAATGTTTAGAAATTC-GAGGAATCGTGCCCTACTGTGCTGGGTT
63 GTTCAATGTTTAGAAATTCAG-GGAACCGTGCCCTACTGTGCTGGGTT
87470521 TCGATTTTTC
Statistics
Matches: 97, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
126 1 0.01
127 49 0.51
128 7 0.07
129 1 0.01
130 35 0.36
131 2 0.02
132 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (128 bp):
AAATAATCAAATATTCCTTTGAAATTTCATCCGTATTTCAAAATTCTTAAAACTAAGGCAATGTT
CAATGTTTAGAAATTCAGGGAACCGTGCCCTACTGTGCTGGGTTGCAATTTCCCGTTTGTTCG
Found at i:87479626 original size:71 final size:71
Alignment explanation
Indices: 87479330--87479701 Score: 190
Period size: 71 Copynumber: 5.3 Consensus size: 71
87479320 ACATCGGGTA
* * * *
87479330 GTAAAATCGAC-AATGA-GTGTGCCTAGCATTGGTC-AGTATAACC-AACAATAAATGCGCCCTG
1 GTAAAATCAACAAAT-ATGTGTGCCTAACATTGGTCGA-TATAACCGAA-AATAAATGCACCCTA
* *
87479391 CGCTGGTTG
63 CACTGGTCG
** * * * * *
87479400 GTAGGA-CTGACAAATATGTGTGCCCAGCACTGGTCGATATAACCGAAAATAAAT--A--C-ACG
1 GTAAAATC-AACAAATATGTGTGCCTAACATTGGTCGATATAACCGAAAATAAATGCACCCTACA
* *
87479459 CTAGTTG
65 CTGGTCG
* * * * * * * **** ** * *
87479466 GTAAAACCGATAAATATGTGTGCCTAGCACTAGTCAATATAGGTTAAAATAAAATGTGCGCTGCA
1 GTAAAATCAACAAATATGTGTGCCTAACATTGGTCGATATAACCGAAAAT-AAATGCACCCTACA
*
87479531 TTGGTCG
65 CTGGTCG
* * * * * * * * *
87479538 GTAAAATCAATAGATATGTGTGTCC-AACCTTGGTTGGTCTAACTGAAAATAAGTGCGCCCTACA
1 GTAAAATCAACAAATATGTGTG-CCTAACATTGGTCGATATAACCGAAAATAAATGCACCCTACA
87479602 CTGGTCG
65 CTGGTCG
* * * *
87479609 GTAAAACCAACAAATATGTGTGCCTAACATTGGTCGATATAACCGACAATAAATGCACCCTGCGC
1 GTAAAATCAACAAATATGTGTGCCTAACATTGGTCGATATAACCGAAAATAAATGCACCCTACAC
87479674 TGGTCG
66 TGGTCG
* **
87479680 GTAGAATGGACAAATATGTGTG
1 GTAAAATCAACAAATATGTGTG
87479702 AAGACATTTC
Statistics
Matches: 229, Mismatches: 59, Indels: 27
0.73 0.19 0.09
Matches are distributed among these distances:
66 46 0.20
67 6 0.03
69 1 0.00
70 10 0.04
71 123 0.54
72 41 0.18
73 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (71 bp):
GTAAAATCAACAAATATGTGTGCCTAACATTGGTCGATATAACCGAAAATAAATGCACCCTACAC
TGGTCG
Found at i:87479643 original size:36 final size:36
Alignment explanation
Indices: 87479529--87479644 Score: 85
Period size: 36 Copynumber: 3.2 Consensus size: 36
87479519 ATGTGCGCTG
* * *
87479529 CATTGGTCGGTAAAATCAATAGATATGTGTGTCC-AA
1 CATTGGTCGGTAAAACCAA-AAATATGTGTGCCCTAA
* * ** ** * *
87479565 CCTTGGTTGGTCTAACTGAAAATAAGTGCGCCCT-A
1 CATTGGTCGGTAAAACCAAAAATATGTGTGCCCTAA
*
87479600 CACTGGTCGGTAAAACCAACAAATATGTGTG-CCTAA
1 CATTGGTCGGTAAAACCAA-AAATATGTGTGCCCTAA
87479636 CATTGGTCG
1 CATTGGTCG
87479645 ATATAACCGA
Statistics
Matches: 56, Mismatches: 21, Indels: 6
0.67 0.25 0.07
Matches are distributed among these distances:
35 26 0.46
36 30 0.54
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (36 bp):
CATTGGTCGGTAAAACCAAAAATATGTGTGCCCTAA
Found at i:87484433 original size:42 final size:42
Alignment explanation
Indices: 87484308--87484434 Score: 109
Period size: 42 Copynumber: 3.0 Consensus size: 42
87484298 TAGGATTTCG
* *
87484308 GTATGTGATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC
1 GTATATGATTTCGTGTAAGACC-CTGTCTGAGACAG-TGGCATC
* * * *
87484350 G-ATTTGAGATTTACGTGTAAAACCATGTCT-AGGACATTGGCATC
1 GTATAT--GATTT-CGTGTAAGACCCTGTCTGA-GACAGTGGCATC
*
87484394 GTATATGATTTCGTGTAAGACCCTATCTGAGACAGTGGCAT
1 GTATATGATTTCGTGTAAGACCCTGTCTGAGACAGTGGCAT
87484435 TGATATTTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
41 3 0.04
42 25 0.37
43 11 0.16
44 25 0.37
45 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
GTATATGATTTCGTGTAAGACCCTGTCTGAGACAGTGGCATC
Found at i:87505653 original size:15 final size:15
Alignment explanation
Indices: 87505635--87505667 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
87505625 AAAAAAATCA
87505635 TAATT-AAAACATATT
1 TAATTAAAAACA-ATT
87505650 TAATTAAAAACAATT
1 TAATTAAAAACAATT
87505665 TAA
1 TAA
87505668 ATATAAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
TAATTAAAAACAATT
Found at i:87509491 original size:16 final size:18
Alignment explanation
Indices: 87509472--87509504 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
87509462 CATACAAATT
87509472 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
87509488 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
87509505 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:87510136 original size:43 final size:43
Alignment explanation
Indices: 87510082--87510184 Score: 163
Period size: 43 Copynumber: 2.4 Consensus size: 43
87510072 CCGACATTAC
*
87510082 GCCTGCTAGGCTCGAAGCAC-GATATTAATTCACCAGCATTATA
1 GCCTGCTAGGCTCGAAGC-CTGATATTAACTCACCAGCATTATA
* *
87510125 GCCTGCTAGGCTCGAAGCCTGATATTAACTCACCGGTATTATA
1 GCCTGCTAGGCTCGAAGCCTGATATTAACTCACCAGCATTATA
87510168 GCCTGCTAGGCTCGAAG
1 GCCTGCTAGGCTCGAAG
87510185 GCTCGAATAG
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 1 0.02
43 55 0.98
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (43 bp):
GCCTGCTAGGCTCGAAGCCTGATATTAACTCACCAGCATTATA
Found at i:87519852 original size:29 final size:31
Alignment explanation
Indices: 87519805--87519871 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
87519795 GTATTTTAAA
** * *
87519805 AAAAGTTTGTTTTTTATTTGAGCACTTT-G-
1 AAAAGTTTGACTTTCATTTAAGCACTTTAGT
*
87519834 AAAAGTTTGACTTTCATTTAAGCATTTTAGT
1 AAAAGTTTGACTTTCATTTAAGCACTTTAGT
87519865 AAAAGTT
1 AAAAGTT
87519872 AAGCATTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 23 0.74
30 1 0.03
31 7 0.23
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.46
Consensus pattern (31 bp):
AAAAGTTTGACTTTCATTTAAGCACTTTAGT
Found at i:87519887 original size:17 final size:19
Alignment explanation
Indices: 87519851--87519888 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
87519841 TGACTTTCAT
87519851 TTAAGCATTTTAGTAAAAG
1 TTAAGCATTTTAGTAAAAG
87519870 TTAAGCATTTT-G-AAAAG
1 TTAAGCATTTTAGTAAAAG
87519887 TT
1 TT
87519889 TGACCCTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (19 bp):
TTAAGCATTTTAGTAAAAG
Found at i:87519926 original size:29 final size:29
Alignment explanation
Indices: 87519882--87519950 Score: 120
Period size: 29 Copynumber: 2.3 Consensus size: 29
87519872 AAGCATTTTG
87519882 AAAAGTTTGACCCTTACATGCATAATTCCTT
1 AAAAG-TT-ACCCTTACATGCATAATTCCTT
87519913 AAAAGTTACCCTTACATGCATAATTCCTT
1 AAAAGTTACCCTTACATGCATAATTCCTT
87519942 AAAAGTTAC
1 AAAAGTTAC
87519951 ATCTCAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 31 0.82
30 2 0.05
31 5 0.13
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (29 bp):
AAAAGTTACCCTTACATGCATAATTCCTT
Found at i:87527817 original size:22 final size:23
Alignment explanation
Indices: 87527792--87527837 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
87527782 ATAATTGCTT
87527792 TTATAGATATATACATATA-TTA
1 TTATAGATATATACATATACTTA
* * *
87527814 TTATATATTTCTACATATACTTA
1 TTATAGATATATACATATACTTA
87527837 T
1 T
87527838 ACACATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (23 bp):
TTATAGATATATACATATACTTA
Found at i:87527845 original size:22 final size:22
Alignment explanation
Indices: 87527803--87527845 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
87527793 TATAGATATA
* *
87527803 TACATATATTATTATATATTTC
1 TACATATATTATTACACATTTC
87527825 TACATATACTTA-TACACATTT
1 TACATATA-TTATTACACATTT
87527846 TTTTGTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (22 bp):
TACATATATTATTACACATTTC
Found at i:87530194 original size:19 final size:20
Alignment explanation
Indices: 87530154--87530197 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
87530144 GTCTCTTTAG
* *
87530154 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
87530173 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
87530192 GCATTA
1 GCATTA
87530198 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:87532836 original size:21 final size:21
Alignment explanation
Indices: 87532811--87532851 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
87532801 GGGAAAAGGA
* *
87532811 AAAAAAAAACAAAATCAAAATC
1 AAAAATAAA-AAAATAAAAATC
87532833 AAAAATAAAAAAATAAAAA
1 AAAAATAAAAAAATAAAAA
87532852 GAAAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (21 bp):
AAAAATAAAAAAATAAAAATC
Found at i:87534585 original size:43 final size:43
Alignment explanation
Indices: 87534537--87534670 Score: 116
Period size: 43 Copynumber: 3.1 Consensus size: 43
87534527 AAAACAAAGC
87534537 CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGAT
1 CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGAT
* ** * * * ** *
87534580 CTTGCCTTCCA--GCGTTAACAACGAAGCAGATCGAA-AA-CA-AGC
1 CTTGCCTT-CATTG-GTT-GCAGTGGAGCTGGTTAAAGAAGCAGA-T
87534622 CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGAT
1 CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGAT
87534665 CTTGCC
1 CTTGCC
87534671 CTCCTGCATT
Statistics
Matches: 64, Mismatches: 18, Indels: 18
0.64 0.18 0.18
Matches are distributed among these distances:
41 13 0.20
42 16 0.25
43 22 0.34
44 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (43 bp):
CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGAT
Found at i:87534850 original size:88 final size:88
Alignment explanation
Indices: 87534523--87535052 Score: 548
Period size: 88 Copynumber: 6.1 Consensus size: 88
87534513 ATCAGTGAAC
* *
87534523 ATCGAA-A-ACAAAGCCTTGCCT-TCATTGGTTGCAGTGGAGCTGGTT-AAAGAAGCAGATCTTG
1 ATCGAAGACACAAA-CCTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAAGAAGCAGATCTTG
* * *
87534584 CCTTCCAGCGTTAACAACGAAGCAG
64 CCTTCCTGCATTAACAGCGAAGCAG
* * *
87534609 ATCGAA-A-ACAAGCCTTGCCT-TCATTGGTTGCAGTGGAGCTGGTT-AAAGAAGCAGATCTTGC
1 ATCGAAGACACAAACCTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAAGAAGCAGATCTTGC
* *
87534670 CCTCCTGCATTAATAGCGAAGCAG
65 CTTCCTGCATTAACAGCGAAGCAG
* * * * * * *
87534694 ATCGAAAATA-AAACCTTGCCTC-CATTGGTTGCAATGGAGCT-GTTTAAAGATAGCAGATCCTG
1 ATCGAAGACACAAACCTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAAGA-AGCAGATCTTG
*
87534756 CATTCCTGCATTAACAGCGAAGCAG
64 CCTTCCTGCATTAACAGCGAAGCAG
* **
87534781 ATCGAAGACACAAACCTTGCCTCTCTCGGGTGTAGCAGAGCTGGTTGAAA-ACAGCAGATCTTGC
1 ATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAAGA-AGCAGATCTTGC
*
87534845 CTTCCTGCATTAACAACGAAGCAG
65 CTTCCTGCATTAACAGCGAAGCAG
* *
87534869 ATCGAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTTG-AAGACAACAGATCTTGC
1 ATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAAGA-AGCAGATCTTGC
* *
87534933 CTTCCTGTATTGACAGCGAAGCAG
65 CTTCCTGCATTAACAGCGAAGCAG
* * * * * **
87534957 GTCGAAGACACAAACCTCGCCTTTCTCGGTTGTAGTGGAGCTAGTTG-TAGATAGTGGATCTTGC
1 ATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAAGA-AGCAGATCTTGC
* * * * *
87535021 CTTCCTGTACTGACGGTGAAGCAG
65 CTTCCTGCATTAACAGCGAAGCAG
87535045 ATCGAAGA
1 ATCGAAGA
87535053 AACCAGATCT
Statistics
Matches: 388, Mismatches: 47, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
85 77 0.20
86 45 0.12
87 43 0.11
88 216 0.56
89 7 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (88 bp):
ATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAAGAAGCAGATCTTGCC
TTCCTGCATTAACAGCGAAGCAG
Found at i:87534888 original size:44 final size:44
Alignment explanation
Indices: 87534758--87534890 Score: 112
Period size: 44 Copynumber: 3.0 Consensus size: 44
87534748 AGATCCTGCA
*
87534758 TTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCC
1 TTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGCC
** * * * * * * *
87534802 -TCTCTCGGGTGTAGC-A-G-AGCTGGTTGAAAACAGCAGATCTTGCC
1 TTC-CT-GCAT-TAACAACGAAGCAGATCGAAGACA-CAAACCTTGCC
87534846 TTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGCC
1 TTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGCC
87534890 T
1 T
87534891 CTCTCGGTTG
Statistics
Matches: 62, Mismatches: 19, Indels: 16
0.64 0.20 0.16
Matches are distributed among these distances:
42 3 0.05
43 16 0.26
44 25 0.40
45 15 0.24
46 3 0.05
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (44 bp):
TTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGCC
Found at i:87535089 original size:44 final size:43
Alignment explanation
Indices: 87535040--87535133 Score: 115
Period size: 40 Copynumber: 2.3 Consensus size: 43
87535030 CTGACGGTGA
* *
87535040 AGCAGATCGAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGG
1 AGCAGATCGAAGAAACAAG-TCTTATCTCCCTAAGCAGCAGTGG
* *
87535084 AGCAGATC---GCATCAAGTCTTATCTCCCTAAGCAGCAGTGG
1 AGCAGATCGAAGAAACAAGTCTTATCTCCCTAAGCAGCAGTGG
87535124 AGCAGA-CGAA
1 AGCAGATCGAA
87535134 AGAATAAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
39 1 0.02
40 29 0.67
41 5 0.12
44 8 0.19
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.19
Consensus pattern (43 bp):
AGCAGATCGAAGAAACAAGTCTTATCTCCCTAAGCAGCAGTGG
Found at i:87536614 original size:22 final size:23
Alignment explanation
Indices: 87536589--87536634 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
87536579 ATAATTGCTT
87536589 TTATAGATATATACATATA-TTA
1 TTATAGATATATACATATACTTA
* * *
87536611 TTATATATTTCTACATATACTTA
1 TTATAGATATATACATATACTTA
87536634 T
1 T
87536635 ACACATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (23 bp):
TTATAGATATATACATATACTTA
Found at i:87536642 original size:22 final size:22
Alignment explanation
Indices: 87536600--87536642 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
87536590 TATAGATATA
* *
87536600 TACATATATTATTATATATTTC
1 TACATATATTATTACACATTTC
87536622 TACATATACTTA-TACACATTT
1 TACATATA-TTATTACACATTT
87536643 TTTGTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (22 bp):
TACATATATTATTACACATTTC
Found at i:87538211 original size:32 final size:34
Alignment explanation
Indices: 87538145--87538214 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 34
87538135 TGATTTTTAA
*
87538145 AATTAAATAATAAAATTTAATATAGTATTTAAAT
1 AATTAAATAATAAAATTTAATATAGTATTAAAAT
87538179 AATT-AATAAT-AAATTTAA-ATATGT-TTAAAAAT
1 AATTAAATAATAAAATTTAATATA-GTATT-AAAAT
87538211 AATT
1 AATT
87538215 TATCAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
31 5 0.15
32 18 0.55
33 6 0.18
34 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (34 bp):
AATTAAATAATAAAATTTAATATAGTATTAAAAT
Found at i:87542509 original size:19 final size:20
Alignment explanation
Indices: 87542462--87542509 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
87542452 GGTAATGGTA
87542462 ATATACATTTGTAATAAATAC
1 ATATACATTTGTAAT-AATAC
*
87542483 ATGCATACATTTGTAAT-ATAT
1 AT--ATACATTTGTAATAATAC
87542504 ATATAC
1 ATATAC
87542510 TTACTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 4 0.17
21 7 0.29
23 13 0.54
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (20 bp):
ATATACATTTGTAATAATAC
Found at i:87542543 original size:5 final size:5
Alignment explanation
Indices: 87542533--87542612 Score: 133
Period size: 5 Copynumber: 15.4 Consensus size: 5
87542523 AAGAAAATAT
87542533 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
87542583 TATTA TATTA TTATTA TTATTA TTATTA TA
1 TATTA TATTA -TATTA -TATTA -TATTA TA
87542613 ATTAAAACAA
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
5 57 0.77
6 17 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:87546674 original size:17 final size:17
Alignment explanation
Indices: 87546653--87546696 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
87546643 ATGGAATTAG
87546653 AATTTAGTTGAGAAAATT
1 AATTTAGTT-AGAAAATT
* *
87546671 -ATTTAATTATAAAATT
1 AATTTAGTTAGAAAATT
87546687 AATTTAGTTA
1 AATTTAGTTA
87546697 ATTTAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (17 bp):
AATTTAGTTAGAAAATT
Found at i:87549082 original size:18 final size:16
Alignment explanation
Indices: 87549040--87549082 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 16
87549030 ATTGTAATTT
87549040 TTTAAAAAATAAAAAA
1 TTTAAAAAATAAAAAA
87549056 TTATGAAAAAATAAAAACTA
1 TT-T-AAAAAATAAAAA--A
87549076 TTTAAAA
1 TTTAAAA
87549083 TTCAAAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 2 0.09
17 1 0.04
18 16 0.70
19 1 0.04
20 3 0.13
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (16 bp):
TTTAAAAAATAAAAAA
Found at i:87549113 original size:20 final size:19
Alignment explanation
Indices: 87549090--87549142 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
87549080 AAATTCAAAG
* *
87549090 TTAAAAATAAAAATTATTTT
1 TTAAAAATATAAATTA-ATT
87549110 TTAAAAAATATAAA-TAATT
1 TT-AAAAATATAAATTAATT
87549129 TTAAAAATATAAAT
1 TTAAAAATATAAAT
87549143 ATAAATTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 11 0.38
19 4 0.14
20 4 0.14
21 10 0.34
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAAAATATAAATTAATT
Found at i:87549136 original size:18 final size:19
Alignment explanation
Indices: 87549108--87549143 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
87549098 AAAAATTATT
87549108 TTTTAAAAAATATAAATAA
1 TTTTAAAAAATATAAATAA
87549127 TTTT-AAAAATATAAATA
1 TTTTAAAAAATATAAATA
87549144 TAAATTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TTTTAAAAAATATAAATAA
Found at i:87549146 original size:20 final size:20
Alignment explanation
Indices: 87549090--87549146 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
87549080 AAATTCAAAG
* *
87549090 TTAAAAATAAAAAT-TATTTT
1 TTAAAAATATAAATATA-ATT
87549110 TTAAAAA-ATATAA-ATAATT
1 TTAAAAATATA-AATATAATT
87549129 TTAAAAATATAAATATAA
1 TTAAAAATATAAATATAA
87549147 ATTACAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAAAAATATAAATATAATT
Found at i:87549155 original size:20 final size:18
Alignment explanation
Indices: 87549113--87549155 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
87549103 TTATTTTTTA
**
87549113 AAAAATATAAATAATTTT
1 AAAAATATAAATAAAATT
87549131 AAAAATATAAATATAAATT
1 AAAAATATAAATA-AAATT
87549150 ACAAAA
1 A-AAAA
87549156 CTCAATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
19 4 0.19
20 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAATATAAATAAAATT
Found at i:87549621 original size:26 final size:24
Alignment explanation
Indices: 87549592--87549646 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
87549582 AATAAATTTT
87549592 AAAAAATTTTAAAACTAAAAAAGA
1 AAAAAATTTTAAAACTAAAAAAGA
* * *
87549616 TAAAAAATATTTAAAATTCAAAAATA
1 -AAAAAAT-TTTAAAACTAAAAAAGA
87549642 AAAAA
1 AAAAA
87549647 GAATTATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAAAATTTTAAAACTAAAAAAGA
Found at i:87549638 original size:25 final size:24
Alignment explanation
Indices: 87549591--87549646 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
87549581 AAATAAATTT
87549591 TAAAAAATTTTAAAACTAAAAAAGA
1 TAAAAAATTTTAAAACTAAAAAA-A
**
87549616 TAAAAAATATTTAAAA-TTCAAAAA
1 TAAAAAAT-TTTAAAACTAAAAAAA
87549640 TAAAAAA
1 TAAAAAA
87549647 GAATTATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 8 0.29
25 13 0.46
26 7 0.25
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (24 bp):
TAAAAAATTTTAAAACTAAAAAAA
Found at i:87552199 original size:40 final size:40
Alignment explanation
Indices: 87552111--87552188 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
87552101 GTAAGATTAT
*
87552111 ACTGAAAGATGTTATTACATCATAAATGAGTAAGACCACA
1 ACTGAAAGATGTTATGACATCATAAATGAGTAAGACCACA
*
87552151 ACTGAAAGATGTTATGACATTATAAATGAGTAAGACCA
1 ACTGAAAGATGTTATGACATCATAAATGAGTAAGACCA
87552189 TAGTTGAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.26
Consensus pattern (40 bp):
ACTGAAAGATGTTATGACATCATAAATGAGTAAGACCACA
Found at i:87552868 original size:40 final size:40
Alignment explanation
Indices: 87552813--87552916 Score: 163
Period size: 40 Copynumber: 2.6 Consensus size: 40
87552803 AAATTTAAAT
* * **
87552813 ATGAGTGAGATCATAGCTGAAAGATGTTATGGTATCATAA
1 ATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATAA
*
87552853 ATGAGTAAGACCATAGCTAAAAGATGTTATGACATCATAA
1 ATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATAA
87552893 ATGAGTAAGACCATAGCTGAAAGA
1 ATGAGTAAGACCATAGCTGAAAGA
87552917 CACCATGGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (40 bp):
ATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATAA
Found at i:87553491 original size:717 final size:716
Alignment explanation
Indices: 87552093--87553495 Score: 2067
Period size: 717 Copynumber: 2.0 Consensus size: 716
87552083 GCTATACACC
* * *
87552093 AAATATGAGTAAGATTATACTGAAAGATGTTATTACATCATAAATGAGTAAGACCACAACTGAAA
1 AAATATGAGTAAGATCATACTGAAAGATGTTATGACATCATAAATGAGTAAGACCACAACTAAAA
* *
87552158 GATGTTATGACATTATAAATGAGTAAGACCATAGTTGAAAGACACCATAACATCCTCTGATAGTC
66 GATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACACCATAACATCCTCTGATAGTC
* * * * *
87552223 CATCGAGACAGTAAACACGAGATTATATCGTGTAAGACCATAGATGAAAGACGCTATAGCATCGT
131 CATCGAAACAGTAAACACGAGATTATATCATGTAAGACCATAGATAAAAGACGCCATAGCATCCT
* *
87552288 AGATAGTCCGTCGGGACAACAAACACGGGATAATCCACCGAGACAATAATCATGGGACAATTCGC
196 AGATAATCCATCGGGACAACAAACACGGGATAATCCACCGAGACAATAATCATGGGACAATTCGC
* * *
87552353 CAAGACAGAAAGGGTGGTAACATCCACCAAGACAATTAGCTTGGAAAGAAAGAGTGAAAGACGAT
261 CAAGACAGAAAGCGTGGTAACATCCACCAAGACAATTAGCTTAGAAAGAAAGAGTGAAAGACCAT
** * * *
87552418 AAATCAGTTATGGCATCATGAAGACTTAATCGATAAGGTGAACATGAGAGTTTAAAAGGTGTAAA
326 AAATCAGTTATAACATCATGAAGACTCAACCGATAAGGTGAACACGAGAGTTTAAAAGGTGTAAA
* *
87552483 TTCTAGGCTCGTTGATAGAGGTTGGTAAAGATCATTGAATGAAGTGGACTTTAAGGCTTATTGAA
391 TTCTAGGCTCGGTGATAGAGGTTGGTAAAGATCACTGAATGAAGTGGACTTTAAGGCTTATTGAA
* * *
87552548 CAAGATGATATATTTAATCAAGGACCGAGACTTAAGAGTCTGCGGATAAAGGGGGGAATTAAGGG
456 CAAGAGGATATATTTAATCAAGGACCGAGACTTAAGAGTCTGCAGACAAAGGGGGGAATTAAGGG
* * * *
87552613 TGATTATGTCCATCGAGGTTATACGGGGCTAAGTCACCTGGGTTGGCAAAAGAAGGAATCTGTTA
521 CGATTATGTCCATCAAGGTTATACGGGGCTAAGTCACCCGGGTTGGCAAAAGAAGAAATCTGTTA
* * * *
87552678 AAGACTAACTTGGGGCGGGTAGTCTACCAGGAAATATAGGGGATAAAAATTTGAAACCTAAGGAA
586 AAGACTAACCTGGGGCGGGCAGTCTACCAAGAAATATAGGGGATAAAAATTTAAAACCTAAGGAA
*
87552743 ATAAATGTCAGACAACCAATGACCGACATTGGGTCTTCCGATATATGTTGTGAGAGAAAAAAATT
651 ATAAATGTCAGACAACCAATGACCAACATTGGGTCTTCCGATATATGTTGTGAGAGAAAAAAATT
87552808 T
716 T
* ** * *
87552809 AAATATGAGTGAGATCATAGCTGAAAGATGTTATGGTATCATAAATGAGTAAGACCATAGCTAAA
1 AAATATGAGTAAGATCATA-CTGAAAGATGTTATGACATCATAAATGAGTAAGACCACAACTAAA
** *
87552874 AGATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACACCATGGCATCCTTTGATAGT
65 AGATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACACCATAACATCCTCTGATAGT
* * * * * *
87552939 TCGTCGAAATAGTAAACACGAGGTTATATCATGTAAGACCATAGCTAAAAGATGCCATAGCATCC
130 CCATCGAAACAGTAAACACGAGATTATATCATGTAAGACCATAGATAAAAGACGCCATAGCATCC
* * * * * *
87553004 TAGATAATTCATCGGGATAATAAACACGGGATAATCTATCGAGACAATAATCATGGGGCAATTCG
195 TAGATAATCCATCGGGACAACAAACACGGGATAATCCACCGAGACAATAATCATGGGACAATTCG
* * *
87553069 CCAAGACAGAAAGCGTGTTAACATCTACCAAGACAATTTGCTTAGAAAGAAAGAGTGAAAGACCA
260 CCAAGACAGAAAGCGTGGTAACATCCACCAAGACAATTAGCTTAGAAAGAAAGAGTGAAAGACCA
87553134 TAAATCAGTTATAACATCATGAAGACTCAACCGATAAGGTGAACACGAGAGTTTAAAAGGTGTAA
325 TAAATCAGTTATAACATCATGAAGACTCAACCGATAAGGTGAACACGAGAGTTTAAAAGGTGTAA
* * * * ** *
87553199 ATTCTAGGTTCGGTGGTGGTGGTTGGTAAAGATTGCTGAATGGAGTGGA-TTCTAAGGCTTATTG
390 ATTCTAGGCTCGGTGATAGAGGTTGGTAAAGATCACTGAATGAAGTGGACTT-TAAGGCTTATTG
* * * * *
87553263 AACAAGAGGATATATTTAATCAAGGACCGATACTTAAGGATTC-GTAGACAAATGGGGTAATTAA
454 AACAAGAGGATATATTTAATCAAGGACCGAGACTTAA-GAGTCTGCAGACAAAGGGGGGAATTAA
* * *
87553327 GGGCGGTTATGTCCATCAAGGTTATATGGGGCTAAGTCACCCGGGTTGGTAAAAGAAGAAATCTG
518 GGGCGATTATGTCCATCAAGGTTATACGGGGCTAAGTCACCCGGGTTGGCAAAAGAAGAAATCTG
* *
87553392 TTAAGGACTAACCTGGGGCGGGCAGTGC-ACCAAGAAATA-GGGGCGATAAAAATTTAAAACCTA
583 TTAAAGACTAACCTGGGGCGGGCAGT-CTACCAAGAAATATAGGG-GATAAAAATTTAAAACCTA
87553455 AGGAAATAAATGTCAGACAACCAATGACCAACATTGGGTCT
646 AGGAAATAAATGTCAGACAACCAATGACCAACATTGGGTCT
87553496 CCCATTCAAG
Statistics
Matches: 608, Mismatches: 74, Indels: 9
0.88 0.11 0.01
Matches are distributed among these distances:
716 22 0.04
717 581 0.96
718 5 0.01
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (716 bp):
AAATATGAGTAAGATCATACTGAAAGATGTTATGACATCATAAATGAGTAAGACCACAACTAAAA
GATGTTATGACATCATAAATGAGTAAGACCATAGCTGAAAGACACCATAACATCCTCTGATAGTC
CATCGAAACAGTAAACACGAGATTATATCATGTAAGACCATAGATAAAAGACGCCATAGCATCCT
AGATAATCCATCGGGACAACAAACACGGGATAATCCACCGAGACAATAATCATGGGACAATTCGC
CAAGACAGAAAGCGTGGTAACATCCACCAAGACAATTAGCTTAGAAAGAAAGAGTGAAAGACCAT
AAATCAGTTATAACATCATGAAGACTCAACCGATAAGGTGAACACGAGAGTTTAAAAGGTGTAAA
TTCTAGGCTCGGTGATAGAGGTTGGTAAAGATCACTGAATGAAGTGGACTTTAAGGCTTATTGAA
CAAGAGGATATATTTAATCAAGGACCGAGACTTAAGAGTCTGCAGACAAAGGGGGGAATTAAGGG
CGATTATGTCCATCAAGGTTATACGGGGCTAAGTCACCCGGGTTGGCAAAAGAAGAAATCTGTTA
AAGACTAACCTGGGGCGGGCAGTCTACCAAGAAATATAGGGGATAAAAATTTAAAACCTAAGGAA
ATAAATGTCAGACAACCAATGACCAACATTGGGTCTTCCGATATATGTTGTGAGAGAAAAAAATT
T
Found at i:87555017 original size:20 final size:20
Alignment explanation
Indices: 87554988--87555038 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
87554978 TTAACTTTAT
*
87554988 ATTAAAAAATAAAAAAAATA
1 ATTAATAAATAAAAAAAATA
* *
87555008 ATTAATAAATAATAAATATA
1 ATTAATAAATAAAAAAAATA
**
87555028 AAAAATAAATA
1 ATTAATAAATA
87555039 TACGATGGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (20 bp):
ATTAATAAATAAAAAAAATA
Found at i:87555034 original size:13 final size:13
Alignment explanation
Indices: 87554994--87555040 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
87554984 TTATATTAAA
*
87554994 AAATAAAAAAAAT
1 AAATATAAAAAAT
* *
87555007 AATTAATAAATAAT
1 AAAT-ATAAAAAAT
87555021 AAATATAAAAAAT
1 AAATATAAAAAAT
87555034 AAATATA
1 AAATATA
87555041 CGATGGGATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATATAAAAAAT
Found at i:87555733 original size:31 final size:31
Alignment explanation
Indices: 87555698--87555769 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
87555688 TAAAAAAAAC
*
87555698 AATTTAACT-TTTTCGAAAAA-GTTAAAGATCA
1 AATTTAACTCTTTT--AAAAAGGTTAAAGACCA
* * *
87555729 AATTTATCTCTTTTAAAAAGGTTGATGACCA
1 AATTTAACTCTTTTAAAAAGGTTAAAGACCA
87555760 AATTTAACTC
1 AATTTAACTC
87555770 AAGAAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
30 5 0.15
31 25 0.74
32 4 0.12
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (31 bp):
AATTTAACTCTTTTAAAAAGGTTAAAGACCA
Found at i:87564896 original size:10 final size:10
Alignment explanation
Indices: 87564883--87564942 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
87564873 TATAATTATT
87564883 TTATATTAAA
1 TTATATTAAA
*
87564893 TTATATGAAA
1 TTATATTAAA
* * **
87564903 ATATTTTTATT
1 TTA-TATTAAA
87564914 TTATATTAAA
1 TTATATTAAA
87564924 TTATATTAAA
1 TTATATTAAA
*
87564934 ATAT-TTAAA
1 TTATATTAAA
87564943 AAAATTTACT
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
9 5 0.13
10 28 0.74
11 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (10 bp):
TTATATTAAA
Found at i:87564906 original size:31 final size:31
Alignment explanation
Indices: 87564871--87564937 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
87564861 AAACATCCTT
87564871 AATATAATTATTTTATATTAAATTATATGAA
1 AATATAATTATTTTATATTAAATTATATGAA
** *
87564902 AATATTTTTATTTTATATTAAATTATATTAA
1 AATATAATTATTTTATATTAAATTATATGAA
87564933 AATAT
1 AATAT
87564938 TTAAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (31 bp):
AATATAATTATTTTATATTAAATTATATGAA
Found at i:87564938 original size:31 final size:31
Alignment explanation
Indices: 87564878--87564939 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
87564868 CTTAATATAA
87564878 TTATTTTATATTAAATTATATGAAAATATTT
1 TTATTTTATATTAAATTATATGAAAATATTT
*
87564909 TTATTTTATATTAAATTATATTAAAATATTT
1 TTATTTTATATTAAATTATATGAAAATATTT
87564940 AAAAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (31 bp):
TTATTTTATATTAAATTATATGAAAATATTT
Found at i:87569426 original size:28 final size:28
Alignment explanation
Indices: 87569395--87569450 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
87569385 TTTAAGAAAG
* *
87569395 CAAAGGCAGAATATTAATCAATATAAAA
1 CAAAGGCAAAATATTAATCAATAAAAAA
87569423 CAAAGGCAAAATATTAATCAATAAAAAA
1 CAAAGGCAAAATATTAATCAATAAAAAA
87569451 AGTATTATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.20
Consensus pattern (28 bp):
CAAAGGCAAAATATTAATCAATAAAAAA
Found at i:87573249 original size:47 final size:47
Alignment explanation
Indices: 87573128--87573260 Score: 189
Period size: 46 Copynumber: 2.9 Consensus size: 47
87573118 ATAATCTCAC
* *
87573128 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCGCAT
* * *
87573174 CCATAATGAACTCGAAACACAAATCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCGCAT
*
87573220 CCATAGGTGAACTCGGAACGCAACTCAACGAGTTCGGATGC
1 CCATA-ATGAACTCGGAACGCAACTCAACGAGTTCGGATGC
87573261 CTCATAATTC
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
46 43 0.57
47 33 0.43
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.20
Consensus pattern (47 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCGCAT
Found at i:87576774 original size:28 final size:27
Alignment explanation
Indices: 87576711--87576774 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
87576701 CTTCAGAATA
87576711 CAGTCAAATATAGTTTGGGCTTGAGCC
1 CAGTCAAATATAGTTTGGGCTTGAGCC
*
87576738 CATTACAAAT-TCAGTTTGGGGCCTT-AGCC
1 CAGT-CAAATAT-AGTTT-GGG-CTTGAGCC
87576767 CAGTCAAA
1 CAGTCAAA
87576775 CACAGCCTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
27 4 0.13
28 14 0.45
29 10 0.32
30 3 0.10
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (27 bp):
CAGTCAAATATAGTTTGGGCTTGAGCC
Found at i:87582117 original size:16 final size:16
Alignment explanation
Indices: 87582092--87582129 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
87582082 TAGAGCAATC
*
87582092 TTGTTTAGAATAGTTG
1 TTGTTCAGAATAGTTG
*
87582108 TTGTTCAGAATATTTG
1 TTGTTCAGAATAGTTG
87582124 TTGTTC
1 TTGTTC
87582130 GAAAATAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.53
Consensus pattern (16 bp):
TTGTTCAGAATAGTTG
Found at i:87585989 original size:43 final size:44
Alignment explanation
Indices: 87585941--87586046 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 44
87585931 TTACCGAGAA
* * *
87585941 GTGATTACATGTAATACCATGTCTAGGACATTGGCATTG-TATT
1 GTGATTACATGTAAAACCATGTCTAGGACAGTGGCATCGATATT
** *
87585984 GTGATTATGTGTAAAACCATGTCTGGGACAGTGGCATCGATATT
1 GTGATTACATGTAAAACCATGTCTAGGACAGTGGCATCGATATT
* *
87586028 -TGATAACATGTAAGACCAT
1 GTGATTACATGTAAAACCAT
87586047 ATTTGGGATA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 48 0.92
44 4 0.08
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (44 bp):
GTGATTACATGTAAAACCATGTCTAGGACAGTGGCATCGATATT
Found at i:87588246 original size:34 final size:34
Alignment explanation
Indices: 87588194--87588283 Score: 119
Period size: 34 Copynumber: 2.7 Consensus size: 34
87588184 TACAATGTTA
* * *
87588194 TTTGGTGAGTTGGATGGATTAACTCATATGAGTT
1 TTTGGTGTGTTAGATGGATTAACTCATACGAGTT
* *
87588228 TTTGGTGTGTTAGTTGGATTAGCTCATACGAGTT
1 TTTGGTGTGTTAGATGGATTAACTCATACGAGTT
*
87588262 TTTGGTGTGTTGGATGG-TTAAC
1 TTTGGTGTGTTAGATGGATTAAC
87588284 CGTATACTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 4 0.08
34 44 0.92
ACGTcount: A:0.19, C:0.07, G:0.31, T:0.43
Consensus pattern (34 bp):
TTTGGTGTGTTAGATGGATTAACTCATACGAGTT
Found at i:87590062 original size:4 final size:4
Alignment explanation
Indices: 87590053--87590086 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
87590043 AAGTTTTATT
87590053 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
87590087 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:87590094 original size:22 final size:22
Alignment explanation
Indices: 87590036--87590095 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
87590026 AAGTGGCCCA
*
87590036 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
87590060 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
87590081 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
87590096 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:87596439 original size:16 final size:16
Alignment explanation
Indices: 87596414--87596451 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
87596404 TAGAGCAATC
*
87596414 TTGTTTAGAATAGTTG
1 TTGTTCAGAATAGTTG
*
87596430 TTGTTCAGAATATTTG
1 TTGTTCAGAATAGTTG
87596446 TTGTTC
1 TTGTTC
87596452 GAAAATAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.53
Consensus pattern (16 bp):
TTGTTCAGAATAGTTG
Found at i:87600311 original size:43 final size:44
Alignment explanation
Indices: 87600263--87600368 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 44
87600253 TTACCGAGAA
* * *
87600263 GTGATTACATGTAATACCATGTCTAGGACATTGGCATTG-TATT
1 GTGATTACATGTAAAACCATGTCTAGGACAGTGGCATCGATATT
** *
87600306 GTGATTATGTGTAAAACCATGTCTGGGACAGTGGCATCGATATT
1 GTGATTACATGTAAAACCATGTCTAGGACAGTGGCATCGATATT
* *
87600350 -TGATAACATGTAAGACCAT
1 GTGATTACATGTAAAACCAT
87600369 ATTTGGGATA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 48 0.92
44 4 0.08
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (44 bp):
GTGATTACATGTAAAACCATGTCTAGGACAGTGGCATCGATATT
Found at i:87602568 original size:34 final size:34
Alignment explanation
Indices: 87602516--87602605 Score: 119
Period size: 34 Copynumber: 2.7 Consensus size: 34
87602506 TACAATGTTA
* * *
87602516 TTTGGTGAGTTGGATGGATTAACTCATATGAGTT
1 TTTGGTGTGTTAGATGGATTAACTCATACGAGTT
* *
87602550 TTTGGTGTGTTAGTTGGATTAGCTCATACGAGTT
1 TTTGGTGTGTTAGATGGATTAACTCATACGAGTT
*
87602584 TTTGGTGTGTTGGATGG-TTAAC
1 TTTGGTGTGTTAGATGGATTAAC
87602606 CGTATACTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 4 0.08
34 44 0.92
ACGTcount: A:0.19, C:0.07, G:0.31, T:0.43
Consensus pattern (34 bp):
TTTGGTGTGTTAGATGGATTAACTCATACGAGTT
Found at i:87604380 original size:4 final size:4
Alignment explanation
Indices: 87604371--87604404 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
87604361 AAGTTTTATT
87604371 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
87604405 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:87604412 original size:22 final size:22
Alignment explanation
Indices: 87604354--87604413 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
87604344 AAGTGGCCCA
*
87604354 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
87604378 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
87604399 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
87604414 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:87606670 original size:17 final size:18
Alignment explanation
Indices: 87606633--87606670 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
87606623 GATTGAGAGT
* *
87606633 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
87606651 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
87606668 GAA
1 GAA
87606671 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:87606683 original size:13 final size:12
Alignment explanation
Indices: 87606652--87606706 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
87606642 TGTGAAACAG
*
87606652 AAAAGAAATTGA
1 AAAAGAAGTTGA
87606664 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
87606676 AGAAAGAAG-AGA
1 A-AAAGAAGTTGA
*
87606688 AAATG-AGTTAGA
1 AAAAGAAGTT-GA
87606700 AAAAGAA
1 AAAAGAA
87606707 ACAAAAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 21 0.62
13 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Found at i:87608075 original size:4 final size:4
Alignment explanation
Indices: 87608066--87608103 Score: 58
Period size: 4 Copynumber: 9.0 Consensus size: 4
87608056 AAGTTTTATT
87608066 TTTA TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
87608104 AATTTTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 24 0.75
5 8 0.25
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:87608083 original size:12 final size:13
Alignment explanation
Indices: 87608060--87608103 Score: 63
Period size: 12 Copynumber: 3.3 Consensus size: 13
87608050 GTTGTAAAGT
87608060 TTTATTTTTATTTA
1 TTTA-TTTTATTTA
87608074 TTTA-TTTATTTA
1 TTTATTTTATTTA
87608086 TTTATTTTATTTA
1 TTTATTTTATTTA
87608099 GTTTA
1 -TTTA
87608104 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.43
13 8 0.29
14 8 0.29
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:87608111 original size:26 final size:26
Alignment explanation
Indices: 87608060--87608112 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
87608050 GTTGTAAAGT
*
87608060 TTTATTTTTATTTATTTATTTATTTA
1 TTTATTTTTATTTATTTAATTATTTA
87608086 TTTA-TTTTATTTAGTTTAAATT-TTTA
1 TTTATTTTTATTTA-TTT-AATTATTTA
87608112 T
1 T
87608113 ATTCAGTCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 9 0.38
26 12 0.50
27 3 0.12
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTATTTTTATTTATTTAATTATTTA
Found at i:87612222 original size:13 final size:13
Alignment explanation
Indices: 87612206--87612234 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
87612196 TAATAATTAA
87612206 AAAAGACTAAAAT
1 AAAAGACTAAAAT
87612219 AAAAGACTAAAAT
1 AAAAGACTAAAAT
87612232 AAA
1 AAA
87612235 TTTTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAAGACTAAAAT
Found at i:87617421 original size:14 final size:11
Alignment explanation
Indices: 87617390--87617419 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
87617380 AGAATAATAA
87617390 GAGAAGAAATG
1 GAGAAGAAATG
87617401 GAGAAGAAATG
1 GAGAAGAAATG
87617412 GAGAAGAA
1 GAGAAGAA
87617420 GAGGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.37, T:0.07
Consensus pattern (11 bp):
GAGAAGAAATG
Found at i:87619641 original size:20 final size:19
Alignment explanation
Indices: 87619616--87619669 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
87619606 AAAATATAAT
87619616 ATAAATTTTAAAATAAATAC
1 ATAAATTTTAAAAT-AATAC
* * *
87619636 ATAAATATATAAAGTAATAT
1 ATAAAT-TTTAAAATAATAC
87619656 ATAATATTTTAAAA
1 ATAA-ATTTTAAAA
87619670 ATATCAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAAATTTTAAAATAATAC
Found at i:87619668 original size:28 final size:28
Alignment explanation
Indices: 87619637--87619691 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
87619627 AATAAATACA
*
87619637 TAAATATAT-AAAGTAATATATAATATTT
1 TAAAAATATCAAAGTAATATA-AATATTT
* *
87619665 TAAAAATATCAAATTTATATAAATATT
1 TAAAAATATCAAAGTAATATAAATATT
87619692 AATAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (28 bp):
TAAAAATATCAAAGTAATATAAATATTT
Found at i:87619900 original size:23 final size:23
Alignment explanation
Indices: 87619874--87619920 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
87619864 TTGGCTTCAA
*
87619874 TTTCT-AATTTGATATCTGAGTTT
1 TTTCTCAATTTGATACCT-AGTTT
87619897 TTTCTCCAATTTGATACCTAGTTT
1 TTTCT-CAATTTGATACCTAGTTT
87619921 GGTTTCAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 5 0.24
25 11 0.52
ACGTcount: A:0.21, C:0.15, G:0.11, T:0.53
Consensus pattern (23 bp):
TTTCTCAATTTGATACCTAGTTT
Found at i:87619984 original size:34 final size:34
Alignment explanation
Indices: 87619941--87620010 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
87619931 ATCACTTTAG
87619941 TACCCTAGTTTTTTAATTTAATACTTGATTTTTT
1 TACCCTAGTTTTTTAATTTAATACTTGATTTTTT
87619975 TACCCTAGTTTTTTAATTTAATACTTGATTTTTT
1 TACCCTAGTTTTTTAATTTAATACTTGATTTTTT
87620009 TA
1 TA
87620011 ATCTAGTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.24, C:0.11, G:0.06, T:0.59
Consensus pattern (34 bp):
TACCCTAGTTTTTTAATTTAATACTTGATTTTTT
Found at i:87620017 original size:34 final size:34
Alignment explanation
Indices: 87619944--87620018 Score: 132
Period size: 34 Copynumber: 2.2 Consensus size: 34
87619934 ACTTTAGTAC
*
87619944 CCTAGTTTTTTAATTTAATACTTGATTTTTTTAC
1 CCTAGTTTTTTAATTTAATACTTGATTTTTTTAA
87619978 CCTAGTTTTTTAATTTAATACTTGATTTTTTTAA
1 CCTAGTTTTTTAATTTAATACTTGATTTTTTTAA
*
87620012 TCTAGTT
1 CCTAGTT
87620019 AATTATTTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.24, C:0.11, G:0.07, T:0.59
Consensus pattern (34 bp):
CCTAGTTTTTTAATTTAATACTTGATTTTTTTAA
Found at i:87620740 original size:8 final size:9
Alignment explanation
Indices: 87620722--87620751 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
87620712 AAATAATTCT
87620722 AATAGAAAAA
1 AATA-AAAAA
87620732 AATAAAAAA
1 AATAAAAAA
87620741 AATAAAAAA
1 AATAAAAAA
87620750 AA
1 AA
87620752 ATTATTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (9 bp):
AATAAAAAA
Found at i:87620869 original size:28 final size:27
Alignment explanation
Indices: 87620821--87620899 Score: 95
Period size: 28 Copynumber: 2.9 Consensus size: 27
87620811 TGTTTTAGAG
* * *
87620821 ATTAAATGAAGGAAAAGGCATTAATAA
1 ATTAAATGTAGGAAAAAGCATTAAGAA
*
87620848 ATTAAATGTAGGGAAAAAGCATTAAGAT
1 ATTAAATGTA-GGAAAAAGCATTAAGAA
*
87620876 ATTAAATGTATGAAAAAGCCATTA
1 ATTAAATGTAGGAAAAAG-CATTA
87620900 GGCATTAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 16 0.36
28 29 0.64
ACGTcount: A:0.52, C:0.05, G:0.18, T:0.25
Consensus pattern (27 bp):
ATTAAATGTAGGAAAAAGCATTAAGAA
Found at i:87620918 original size:28 final size:28
Alignment explanation
Indices: 87620821--87620918 Score: 94
Period size: 28 Copynumber: 3.6 Consensus size: 28
87620811 TGTTTTAGAG
* * * *
87620821 ATTAAATG-AAGGAAAAGGCATTAATAA
1 ATTAAATGTAGGGAAAAAGCATTAAGAC
*
87620848 ATTAAATGTAGGGAAAAAGCATTAAGAT
1 ATTAAATGTAGGGAAAAAGCATTAAGAC
* *
87620876 ATTAAATGTA-TGAAAAAGCCATT-AGGC
1 ATTAAATGTAGGGAAAAAG-CATTAAGAC
*
87620903 ATTAAATGCAGGGAAA
1 ATTAAATGTAGGGAAA
87620919 TGACTTATTG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 26 0.44
28 33 0.56
ACGTcount: A:0.50, C:0.06, G:0.20, T:0.23
Consensus pattern (28 bp):
ATTAAATGTAGGGAAAAAGCATTAAGAC
Found at i:87626252 original size:24 final size:24
Alignment explanation
Indices: 87626221--87626269 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
87626211 AGAACATTAT
*
87626221 TGAGTTAGTATTAAAGTTTTGTTA
1 TGAGTTAGTATTAAAGTTTCGTTA
87626245 TGAGTTAGTATTAAAGTTTCGTTA
1 TGAGTTAGTATTAAAGTTTCGTTA
87626269 T
1 T
87626270 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (24 bp):
TGAGTTAGTATTAAAGTTTCGTTA
Found at i:87627474 original size:21 final size:21
Alignment explanation
Indices: 87627450--87627513 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
87627440 CAAATTAACC
87627450 CTTTTGGGTTTCAGTTCAGCT
1 CTTTTGGGTTTCAGTTCAGCT
* * * *
87627471 CTTTTGAGCTTCAGTTTAGCC
1 CTTTTGGGTTTCAGTTCAGCT
* *
87627492 CTTATGGGTTTCCGTTCAGCT
1 CTTTTGGGTTTCAGTTCAGCT
87627513 C
1 C
87627514 CTATGAGATT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.44
Consensus pattern (21 bp):
CTTTTGGGTTTCAGTTCAGCT
Found at i:87630624 original size:47 final size:47
Alignment explanation
Indices: 87630555--87630660 Score: 176
Period size: 47 Copynumber: 2.3 Consensus size: 47
87630545 TCATTTTGGG
87630555 AATAGATTGGTTGACAAAGCATGACGCTATAGTAAATTATAGAGAAA
1 AATAGATTGGTTGACAAAGCATGACGCTATAGTAAATTATAGAGAAA
* * *
87630602 AATAGATTGGTTGACGAAGCATGATGCTATAGTAAATTGTAGAGAAA
1 AATAGATTGGTTGACAAAGCATGACGCTATAGTAAATTATAGAGAAA
*
87630649 AAAAGATTGGTT
1 AATAGATTGGTT
87630661 TGAAATGTCA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.27
Consensus pattern (47 bp):
AATAGATTGGTTGACAAAGCATGACGCTATAGTAAATTATAGAGAAA
Found at i:87635204 original size:42 final size:42
Alignment explanation
Indices: 87635145--87635261 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 42
87635135 GAGTTTTAGA
* * *
87635145 TTAACCCTT-TGGGGTTTCGGTTTAGCTCTTTTGAGCTTCAGT
1 TTAACCCTTAT-GGGTTTCCGTTTAGCTCCTATGAGCTTCAGT
* * * *
87635187 TTAACCCTTATGGGTTTCTGTTCATCTCCTATGAGCTTCTGT
1 TTAACCCTTATGGGTTTCCGTTTAGCTCCTATGAGCTTCAGT
* *
87635229 TTAACCCTTACGGGTTTCCGTTTAGCACCTATG
1 TTAACCCTTATGGGTTTCCGTTTAGCTCCTATG
87635262 TGCATCTGTG
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 62 0.98
43 1 0.02
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (42 bp):
TTAACCCTTATGGGTTTCCGTTTAGCTCCTATGAGCTTCAGT
Found at i:87639603 original size:41 final size:41
Alignment explanation
Indices: 87639558--87639650 Score: 150
Period size: 41 Copynumber: 2.3 Consensus size: 41
87639548 ATTATTGTAT
*
87639558 AATTGCACATACGTGCCCCTATTTGTACTTTGATACCCCTG
1 AATTGCACATACGTGCCCCTATTTGTACTTTGATACCCCTA
* *
87639599 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
1 AATTGCACATACGTGCCCCTATTTGTACTTTGATACCCCTA
*
87639640 AATTACACATA
1 AATTGCACATA
87639651 TGTGACTCGG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTATTTGTACTTTGATACCCCTA
Found at i:87639619 original size:21 final size:21
Alignment explanation
Indices: 87639558--87639619 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
87639548 ATTATTGTAT
87639558 AATTGCACATACGTGCCCCT-
1 AATTGCACATACGTGCCCCTG
* * ** *
87639578 ATTTGTAC-TTTGATACCCCTG
1 AATTGCACATACG-TGCCCCTG
87639599 AATTGCACATACGTGCCCCTG
1 AATTGCACATACGTGCCCCTG
87639620 TTTGTACTTT
Statistics
Matches: 29, Mismatches: 10, Indels: 5
0.66 0.23 0.11
Matches are distributed among these distances:
19 2 0.07
20 12 0.41
21 13 0.45
22 2 0.07
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.31
Consensus pattern (21 bp):
AATTGCACATACGTGCCCCTG
Found at i:87639664 original size:41 final size:41
Alignment explanation
Indices: 87639558--87639673 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 41
87639548 ATTATTGTAT
* * ** * *
87639558 AATTGCACATACGTGCCCCTATTTGTACTTTGATACCCCTG
1 AATTACACATACGTGACCCGGTTTGTACTTTGGTACCCCTA
* * *
87639599 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
1 AATTACACATACGTGACCCGGTTTGTACTTTGGTACCCCTA
* * *
87639640 AATTACACATATGTGACTCGGTTTGTATTTTGGT
1 AATTACACATACGTGACCCGGTTTGTACTTTGGT
87639674 GCTCCTGAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (41 bp):
AATTACACATACGTGACCCGGTTTGTACTTTGGTACCCCTA
Found at i:87647602 original size:55 final size:55
Alignment explanation
Indices: 87647518--87647629 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
87647508 ATGATATGGG
* * *
87647518 TTAATTTGTAAAATTGTTAAATGTTGAGGGTTATGCTATGAATGTTCTTGAATGA
1 TTAATTTGTAAAAATATTAAAGGTTGAGGGTTATGCTATGAATGTTCTTGAATGA
87647573 TTAATTTGTAAAAATATTAAAGGTTGAGGGTTATGCTATGAATGTTCTTGAATGA
1 TTAATTTGTAAAAATATTAAAGGTTGAGGGTTATGCTATGAATGTTCTTGAATGA
87647628 TT
1 TT
87647630 TTTTATGTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (55 bp):
TTAATTTGTAAAAATATTAAAGGTTGAGGGTTATGCTATGAATGTTCTTGAATGA
Found at i:87652259 original size:13 final size:13
Alignment explanation
Indices: 87652241--87652270 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
87652231 TTTATTATAT
*
87652241 ATATTCAACACTA
1 ATATTCAAAACTA
87652254 ATATTCAAAACTA
1 ATATTCAAAACTA
87652267 ATAT
1 ATAT
87652271 ATATTTAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (13 bp):
ATATTCAAAACTA
Found at i:87652317 original size:28 final size:28
Alignment explanation
Indices: 87652237--87652317 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
87652227 ACATTTTATT
* *
87652237 ATATATATTCAACACTAATATTCAAAACTA
1 ATATATATTTAATAC-AA-ATTCAAAACTA
** *
87652267 ATATATATTTAATGTATATTCAAAACTA
1 ATATATATTTAATACAAATTCAAAACTA
87652295 ATATATATTTAA-ACAAATGTCAA
1 ATATATATTTAATACAAAT-TCAA
87652318 TACATATACA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
27 3 0.07
28 27 0.64
29 1 0.02
30 11 0.26
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.37
Consensus pattern (28 bp):
ATATATATTTAATACAAATTCAAAACTA
Found at i:87660670 original size:22 final size:22
Alignment explanation
Indices: 87660645--87660687 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
87660635 AAGCCCAAGC
87660645 CAATACCAAACAAACCCAAACT
1 CAATACCAAACAAACCCAAACT
* *
87660667 CAATGCCAATCAAACCCAAAC
1 CAATACCAAACAAACCCAAAC
87660688 CTAAGCCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.37, G:0.02, T:0.09
Consensus pattern (22 bp):
CAATACCAAACAAACCCAAACT
Found at i:87660958 original size:17 final size:17
Alignment explanation
Indices: 87660929--87660966 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
87660919 ATATTATTAA
*
87660929 ATTA-ATATATTATGTT
1 ATTATATATATTATATT
*
87660945 ATTATATATTTTATATT
1 ATTATATATATTATATT
87660962 ATTAT
1 ATTAT
87660967 CAAATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTATATATATTATATT
Found at i:87660966 original size:8 final size:8
Alignment explanation
Indices: 87660913--87660966 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
87660903 TATAACACCA
*
87660913 ATTATCAT
1 ATTATTAT
*
87660921 ATTATTAA
1 ATTATTAT
*
87660929 ATTAATAT
1 ATTATTAT
87660937 ATTATGT-T
1 ATTAT-TAT
87660945 ATTA-TAT
1 ATTATTAT
87660952 ATT-TTAT
1 ATTATTAT
87660959 ATTATTAT
1 ATTATTAT
87660967 CAAATTTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
6 1 0.03
7 10 0.27
8 25 0.68
9 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (8 bp):
ATTATTAT
Found at i:87668540 original size:20 final size:20
Alignment explanation
Indices: 87668515--87668566 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
87668505 TCATGTCTCG
87668515 AACTCACACTGAGCTCGTGT
1 AACTCACACTGAGCTCGTGT
*
87668535 AACTCATACTGAGCTCGTGT
1 AACTCACACTGAGCTCGTGT
*
87668555 AGCTCACACTGA
1 AACTCACACTGA
87668567 TATTGTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (20 bp):
AACTCACACTGAGCTCGTGT
Found at i:87684040 original size:14 final size:14
Alignment explanation
Indices: 87684002--87684070 Score: 64
Period size: 14 Copynumber: 5.5 Consensus size: 14
87683992 TTCGTAGATC
*
87684002 AAATAAATTATGCT
1 AAATATATTATGCT
87684016 -AATA-A--ATGCT
1 AAATATATTATGCT
87684026 AAATATATTATGCT
1 AAATATATTATGCT
*
87684040 AAATATATTATACT
1 AAATATATTATGCT
87684054 -AATA-A--ATGCT
1 AAATATATTATGCT
87684064 AAATATA
1 AAATATA
87684071 CTAATAAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
10 9 0.19
11 8 0.17
12 4 0.09
13 8 0.17
14 18 0.38
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.36
Consensus pattern (14 bp):
AAATATATTATGCT
Found at i:87684070 original size:19 final size:19
Alignment explanation
Indices: 87684048--87684086 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
87684038 CTAAATATAT
*
87684048 TATACTAATAAATGCTAAA
1 TATACTAATAAATACTAAA
87684067 TATACTAATAAATACTAAA
1 TATACTAATAAATACTAAA
87684086 T
1 T
87684087 CTTCTAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (19 bp):
TATACTAATAAATACTAAA
Found at i:87686770 original size:24 final size:24
Alignment explanation
Indices: 87686743--87686794 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
87686733 TTAGTAAGTC
*
87686743 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
87686767 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
87686791 AAAT
1 AAAT
87686795 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:87688739 original size:24 final size:24
Alignment explanation
Indices: 87688712--87688763 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
87688702 TTAGTAAGTC
*
87688712 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
87688736 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
87688760 AAAT
1 AAAT
87688764 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:87688982 original size:42 final size:40
Alignment explanation
Indices: 87688936--87689015 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 40
87688926 TATATCCATT
* *
87688936 TTTTATAATTAATAGAAAATAATATTTTAAAATTATAATATA
1 TTTTAAAATTAATAGAAAAT-A-ATCTTAAAATTATAATATA
* *
87688978 TTTTAAAATTAATTGAAGATAATCTTAAAATTATAATA
1 TTTTAAAATTAATAGAAAATAATCTTAAAATTATAATA
87689016 ATTAGATGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 16 0.47
41 1 0.03
42 17 0.50
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (40 bp):
TTTTAAAATTAATAGAAAATAATCTTAAAATTATAATATA
Found at i:87689536 original size:17 final size:17
Alignment explanation
Indices: 87689514--87689546 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
87689504 TTTTACCATT
87689514 TAAAT-ATTACAAATTAA
1 TAAATAATTA-AAATTAA
87689531 TAAATAATTAAAATTA
1 TAAATAATTAAAATTA
87689547 TATTTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATAATTAAAATTAA
Found at i:87691528 original size:12 final size:12
Alignment explanation
Indices: 87691511--87691535 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87691501 GGTTTTTTTA
87691511 AAAAAAGAAAAG
1 AAAAAAGAAAAG
87691523 AAAAAAGAAAAG
1 AAAAAAGAAAAG
87691535 A
1 A
87691536 GAACATTATG
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:87695304 original size:28 final size:30
Alignment explanation
Indices: 87695272--87695335 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
87695262 ATTTATATAC
* *
87695272 ATTATTT-GTAATAATTATA-TATTTTCTT
1 ATTATTTAGTAATAATTATATTATTATATT
*
87695300 ATTATTTAAGTAATTATTATATTATTATATT
1 ATTATTT-AGTAATAATTATATTATTATATT
87695331 ATTAT
1 ATTAT
87695336 AATTAAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 7 0.23
30 11 0.37
31 12 0.40
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (30 bp):
ATTATTTAGTAATAATTATATTATTATATT
Found at i:87695325 original size:8 final size:8
Alignment explanation
Indices: 87695312--87695336 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
87695302 TATTTAAGTA
87695312 ATTATTAT
1 ATTATTAT
87695320 ATTATTAT
1 ATTATTAT
87695328 ATTATTAT
1 ATTATTAT
87695336 A
1 A
87695337 ATTAAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTATTAT
Found at i:87695368 original size:13 final size:13
Alignment explanation
Indices: 87695347--87695395 Score: 71
Period size: 13 Copynumber: 3.5 Consensus size: 13
87695337 ATTAAAACAT
87695347 AAAGTAAATAAATA
1 AAAG-AAATAAATA
87695361 AAAGAAATAAATA
1 AAAGAAATAAATA
87695374 AAAGAAATGAAATA
1 AAAGAAAT-AAATA
87695388 GAAAGAAA
1 -AAAGAAA
87695396 CAAAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
13 17 0.52
14 9 0.27
15 7 0.21
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.14
Consensus pattern (13 bp):
AAAGAAATAAATA
Found at i:87697709 original size:19 final size:20
Alignment explanation
Indices: 87697672--87697709 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
87697662 AGCGGGACAA
*
87697672 TATGATTAAATTATGATGTG
1 TATGATTAAATGATGATGTG
*
87697692 TATG-TTAAATGATTATGT
1 TATGATTAAATGATGATGT
87697710 AAATGTTCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (20 bp):
TATGATTAAATGATGATGTG
Found at i:87704451 original size:17 final size:17
Alignment explanation
Indices: 87704440--87704474 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
87704430 ACCCAATACC
87704440 AACCCAATCCCAAAACA
1 AACCCAATCCCAAAACA
87704457 AACCCAATTACCCAAAAC
1 AACCCAA-T-CCCAAAAC
87704475 CCAAACAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.51, C:0.40, G:0.00, T:0.09
Consensus pattern (17 bp):
AACCCAATCCCAAAACA
Found at i:87708760 original size:17 final size:17
Alignment explanation
Indices: 87708734--87708768 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
87708724 ACAAAATTCA
87708734 AATTTAATTTATAATTT
1 AATTTAATTTATAATTT
* *
87708751 AATTTTATTTATGATTT
1 AATTTAATTTATAATTT
87708768 A
1 A
87708769 TATAATTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
AATTTAATTTATAATTT
Found at i:87716395 original size:36 final size:30
Alignment explanation
Indices: 87716355--87716453 Score: 81
Period size: 33 Copynumber: 3.0 Consensus size: 30
87716345 ATAATTTATT
87716355 ATAAAATATTATTTCCAAATTTTTGAAAATATAAAA
1 ATAAAATATT-TTT--AAATTTTT---AATATAAAA
*
87716391 ATAAAATATTTTTAACTTTTTAATATAAAA
1 ATAAAATATTTTTAAATTTTTAATATAAAA
* * *
87716421 ATAAAAAATCTTATAATATAATTTAATATAAAA
1 ATAAAATAT-TTTTAA-AT-TTTTAATATAAAA
87716454 TATTATTTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
30 17 0.31
31 5 0.09
32 1 0.02
33 19 0.35
35 3 0.05
36 10 0.18
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (30 bp):
ATAAAATATTTTTAAATTTTTAATATAAAA
Found at i:87728372 original size:23 final size:23
Alignment explanation
Indices: 87728329--87728373 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
87728319 AATTAAATAT
*
87728329 ACTAAATTTCTTAACATAAAAAA
1 ACTAAATTTCTAAACATAAAAAA
*
87728352 ACTAAATTT-TAAATATAAAAAA
1 ACTAAATTTCTAAACATAAAAAA
87728374 TACATGAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (23 bp):
ACTAAATTTCTAAACATAAAAAA
Found at i:87735393 original size:6 final size:6
Alignment explanation
Indices: 87735384--87735418 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
87735374 TTTAATTTTA
87735384 AAAATT AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAAT
87735419 ATATAGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:87736157 original size:18 final size:19
Alignment explanation
Indices: 87736122--87736157 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
87736112 TAATAATATT
*
87736122 AAAAAAATAAATATATTTA
1 AAAAAAATAAATAAATTTA
87736141 AAAAAAATAAA-AAATTT
1 AAAAAAATAAATAAATTT
87736158 GTAAGTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAAAATAAATAAATTTA
Found at i:87739295 original size:34 final size:35
Alignment explanation
Indices: 87739232--87739299 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
87739222 ATACCTTTTT
87739232 AAGCTTGGTAAGTTGCCTTCCTCTTTCTTAGGTTC
1 AAGCTTGGTAAGTTGCCTTCCTCTTTCTTAGGTTC
*
87739267 AAGCTTGGT-AGTTGCCTTGCT-TTCTCTTAGGTT
1 AAGCTTGGTAAGTTGCCTTCCTCTT-TCTTAGGTT
87739300 TTCCATAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 2 0.06
34 20 0.65
35 9 0.29
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.44
Consensus pattern (35 bp):
AAGCTTGGTAAGTTGCCTTCCTCTTTCTTAGGTTC
Found at i:87747527 original size:13 final size:13
Alignment explanation
Indices: 87747509--87747535 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
87747499 GGGGACACAT
87747509 GGCCGGACAACAC
1 GGCCGGACAACAC
87747522 GGCCGGACAACAC
1 GGCCGGACAACAC
87747535 G
1 G
87747536 CCCATGGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.37, G:0.33, T:0.00
Consensus pattern (13 bp):
GGCCGGACAACAC
Found at i:87748383 original size:47 final size:49
Alignment explanation
Indices: 87748314--87748577 Score: 167
Period size: 46 Copynumber: 5.6 Consensus size: 49
87748304 ATAATGCTAG
* *
87748314 TGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATC-AAGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAAGCCGA
* *
87748361 TGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAATCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-AAATCGAAGCCGA
** * ** *
87748410 CACCATGTCCCAGACATGGTCTTACACTAGCTC-TCCCGTATCCG-TGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCAT--CAAAT-CGAAGCCGA
* * * * * * * *
87748460 TGCTATATCCTAGACATTGTCTTACTCTGACACATC---TCGTAGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAAGCCGA
* * * ** * **
87748506 TG-CATGCCCCAGACA-CGTCTTACACTGGCTTA-CATCTCGAGGAGGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAAGCCGA
87748552 TG-CATGTCCCAGACAT-GTCTTACACT
1 TGCCATGTCCCAGACATGGTCTTACACT
87748578 AGTACACAAA
Statistics
Matches: 168, Mismatches: 36, Indels: 27
0.73 0.16 0.12
Matches are distributed among these distances:
43 1 0.01
44 12 0.07
45 11 0.07
46 41 0.24
47 31 0.18
48 3 0.02
49 35 0.21
50 30 0.18
51 4 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (49 bp):
TGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAAGCCGA
Found at i:87748435 original size:49 final size:47
Alignment explanation
Indices: 87748316--87748437 Score: 156
Period size: 49 Copynumber: 2.6 Consensus size: 47
87748306 AATGCTAGTG
* * * **
87748316 CCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGACA
*
87748363 CCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAATCGAGGCCGACA
1 CCATGTCCCAGACATGGTCTTACACTGACTCATC--AATC-AAGCCGACA
87748412 CCATGTCCCAGACATGGTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
87748438 AGCTCTCCCG
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 3 0.05
47 29 0.44
48 3 0.05
49 31 0.47
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGACA
Found at i:87752674 original size:8 final size:8
Alignment explanation
Indices: 87752661--87752685 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
87752651 TACAATTTAC
87752661 AAAAATAA
1 AAAAATAA
87752669 AAAAATAA
1 AAAAATAA
87752677 AAAAATAA
1 AAAAATAA
87752685 A
1 A
87752686 TGAATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:87761207 original size:40 final size:40
Alignment explanation
Indices: 87761145--87761327 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
87761135 CTCAATCAAT
* * *
87761145 CATAC-TTTCACTAGAATT-AGTAGGTAAGGCTCGATAGCG
1 CATACATTTCAGTAG-ATTCAGTAGGTATGGCTCGAAAGCG
* * *
87761184 CATACATTTCAGTGGAATCAGTAGGTATGGCTCGAAAGTG
1 CATACATTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCG
* * *
87761224 CATACATTTTAGTAGATTCTGTAGGTATGGCTCAAAAGCG
1 CATACATTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCG
** *
87761264 CATACATTTCAGTAGATTTTGTAGGTATGGCTCGAAAGCA
1 CATACATTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCG
*
87761304 CATACATTTTAGTAGATTCAGTAG
1 CATACATTTCAGTAGATTCAGTAG
87761328 TAACAGCCCG
Statistics
Matches: 123, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 7 0.06
40 116 0.94
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (40 bp):
CATACATTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCG
Found at i:87765713 original size:13 final size:13
Alignment explanation
Indices: 87765697--87765722 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87765687 ACAACTCTAT
87765697 AAATATTGAATAA
1 AAATATTGAATAA
87765710 AAATATTGAATAA
1 AAATATTGAATAA
87765723 CCACTTGGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
AAATATTGAATAA
Found at i:87768829 original size:59 final size:59
Alignment explanation
Indices: 87768737--87768855 Score: 193
Period size: 59 Copynumber: 2.0 Consensus size: 59
87768727 AATGAAAATG
** *
87768737 AGTTAGATTTGACCAATCAATATCACACTATCACAAGTTTATATGGCATGTACTTTCTA
1 AGTTAGATCAGACCAATCAATATCACACTATCACAAGTTTATATGGCATATACTTTCTA
* *
87768796 AGTTAGATCAGACCAATCAATATCACACTATCACAGGTTTATATGTCATATACTTTCTA
1 AGTTAGATCAGACCAATCAATATCACACTATCACAAGTTTATATGGCATATACTTTCTA
87768855 A
1 A
87768856 TCTTTCAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (59 bp):
AGTTAGATCAGACCAATCAATATCACACTATCACAAGTTTATATGGCATATACTTTCTA
Found at i:87770319 original size:40 final size:40
Alignment explanation
Indices: 87770213--87770471 Score: 231
Period size: 40 Copynumber: 6.5 Consensus size: 40
87770203 CTCGATAAAG
* * *
87770213 CATAC-TTTCAGTAGAATT-AGTAGGTAAGGCTCGATAGC-
1 CATACGTTTCAGTA-AATTCAGTAGGTATGGCTTGAAAGCA
** * * * ** *
87770251 CATAAATTTCAATAGAA-TCAATATGTATGGCTCAAAAGCG
1 CATACGTTTCAGTA-AATTCAGTAGGTATGGCTTGAAAGCA
*
87770291 CATACGTTTCAGTAAATTTAGTAGGTATGGCTTTGAAAGCA
1 CATACGTTTCAGTAAATTCAGTAGGTATGGC-TTGAAAGCA
* * *
87770332 CATACGTTTCAGTAGATTCAGTAGGTGTGGCTCGAAAGCA
1 CATACGTTTCAGTAAATTCAGTAGGTATGGCTTGAAAGCA
*
87770372 CATACGTTTCAGTAAATTCAGTAGGTATGGATTGAAAGCA
1 CATACGTTTCAGTAAATTCAGTAGGTATGGCTTGAAAGCA
* * * * *
87770412 CATATGTTTCAATAGATACTA-TAGGTATGGCTTAAAAGCA
1 CATACGTTTCAGTAAATTC-AGTAGGTATGGCTTGAAAGCA
* * *
87770452 CATAAGTTTCAATAGATTCA
1 CATACGTTTCAGTAAATTCA
87770472 ATAGATATCG
Statistics
Matches: 183, Mismatches: 32, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
38 5 0.03
39 28 0.15
40 115 0.63
41 35 0.19
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (40 bp):
CATACGTTTCAGTAAATTCAGTAGGTATGGCTTGAAAGCA
Found at i:87770376 original size:81 final size:79
Alignment explanation
Indices: 87770213--87770462 Score: 281
Period size: 81 Copynumber: 3.1 Consensus size: 79
87770203 CTCGATAAAG
* * * * * *
87770213 CATAC-TTTCAGTAGAA-TTAGTAGGTAAGGCTCGATAGC-CATAAATTTCAATAGAATCAATAT
1 CATACGTTTCAGTA-AATTTAGTAGGTATGGCTTGAAAGCACATAAGTTTCAATAGATTC-ATAG
*
87770275 GTATGGCTCAAAAGCG
64 GTATGGCTCAAAAGCA
* *
87770291 CATACGTTTCAGTAAATTTAGTAGGTATGGCTTTGAAAGCACATACGTTTCAGTAGATTCAGTAG
1 CATACGTTTCAGTAAATTTAGTAGGTATGGC-TTGAAAGCACATAAGTTTCAATAGATTCA-TAG
* *
87770356 GTGTGGCTCGAAAGCA
64 GTATGGCTCAAAAGCA
* * * *
87770372 CATACGTTTCAGTAAATTCAGTAGGTATGGATTGAAAGCACATATGTTTCAATAGATACTATAGG
1 CATACGTTTCAGTAAATTTAGTAGGTATGGCTTGAAAGCACATAAGTTTCAATAGATTC-ATAGG
*
87770437 TATGGCTTAAAAGCA
65 TATGGCTCAAAAGCA
*
87770452 CATAAGTTTCA
1 CATACGTTTCA
87770463 ATAGATTCAA
Statistics
Matches: 146, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
78 7 0.05
79 21 0.14
80 58 0.40
81 60 0.41
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (79 bp):
CATACGTTTCAGTAAATTTAGTAGGTATGGCTTGAAAGCACATAAGTTTCAATAGATTCATAGGT
ATGGCTCAAAAGCA
Found at i:87770450 original size:80 final size:79
Alignment explanation
Indices: 87770213--87770471 Score: 265
Period size: 80 Copynumber: 3.3 Consensus size: 79
87770203 CTCGATAAAG
* * * * *
87770213 CATAC-TTTCAGTAGAATT-AGTAGGTAAGGCTCGATAGC-CATAAATTTCAATAGA-ATCAATA
1 CATACGTTTCAGTA-AATTCAGTAGGTATGGATTGAAAGCACATAAGTTTCAATAGATA-C-ATA
* *
87770274 TGTATGGCTCAAAAGCG
63 GGTATGGCTCAAAAGCA
* * * * *
87770291 CATACGTTTCAGTAAATTTAGTAGGTATGGCTTTGAAAGCACATACGTTTCAGTAGATTCAGTAG
1 CATACGTTTCAGTAAATTCAGTAGGTATGG-ATTGAAAGCACATAAGTTTCAATAGATACA-TAG
* *
87770356 GTGTGGCTCGAAAGCA
64 GTATGGCTCAAAAGCA
*
87770372 CATACGTTTCAGTAAATTCAGTAGGTATGGATTGAAAGCACATATGTTTCAATAGATACTATAGG
1 CATACGTTTCAGTAAATTCAGTAGGTATGGATTGAAAGCACATAAGTTTCAATAGATAC-ATAGG
*
87770437 TATGGCTTAAAAGCA
65 TATGGCTCAAAAGCA
* * *
87770452 CATAAGTTTCAATAGATTCA
1 CATACGTTTCAGTAAATTCA
87770472 ATAGATATCG
Statistics
Matches: 151, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
78 9 0.06
79 18 0.12
80 65 0.43
81 59 0.39
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (79 bp):
CATACGTTTCAGTAAATTCAGTAGGTATGGATTGAAAGCACATAAGTTTCAATAGATACATAGGT
ATGGCTCAAAAGCA
Found at i:87772034 original size:5 final size:5
Alignment explanation
Indices: 87772024--87772060 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
87772014 TCTATTAGCA
87772024 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
87772061 TCTCATTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:87776648 original size:6 final size:6
Alignment explanation
Indices: 87776639--87776673 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
87776629 ATTATTTAGT
* *
87776639 TTTATA TTTATT TTTATA TTTATT TTTATA TTTAT
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTAT
87776674 TTTTTGTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTATA
Found at i:87776648 original size:12 final size:12
Alignment explanation
Indices: 87776631--87776677 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
87776621 CCAGTGACAT
*
87776631 TATTTAGTTTTA
1 TATTTATTTTTA
87776643 TATTTATTTTTA
1 TATTTATTTTTA
87776655 TATTTATTTTTA
1 TATTTATTTTTA
87776667 TATTTATTTTT
1 TATTTATTTTT
87776678 TGTTATGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (12 bp):
TATTTATTTTTA
Found at i:87776702 original size:12 final size:11
Alignment explanation
Indices: 87776630--87776702 Score: 65
Period size: 12 Copynumber: 6.2 Consensus size: 11
87776620 ACCAGTGACA
87776630 TTATTTAGTTTT
1 TTATTTA-TTTT
*
87776642 ATATTTATTTT
1 TTATTTATTTT
87776653 TATATTTATTTT
1 T-TATTTATTTT
87776665 TATATTTATTTT
1 T-TATTTATTTT
* *
87776677 TTGTTATGTGTTT
1 TTATT-TAT-TTT
*
87776690 TTATTTAATTT
1 TTATTTATTTT
87776701 TT
1 TT
87776703 CGGACTTATA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
11 12 0.24
12 32 0.63
13 7 0.14
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (11 bp):
TTATTTATTTT
Found at i:87780279 original size:27 final size:27
Alignment explanation
Indices: 87780231--87780389 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
87780221 GCGAGGCTGC
* *
87780231 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* *
87780258 TAGATATTATGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
87780284 CAGATATATGTGGCAAAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
87780311 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
87780338 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
87780365 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
87780390 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 9 0.08
27 98 0.88
28 5 0.04
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:87780325 original size:54 final size:54
Alignment explanation
Indices: 87780267--87780389 Score: 219
Period size: 54 Copynumber: 2.3 Consensus size: 54
87780257 ATAGATATTA
*
87780267 TGGCAGAGCCACCAGAACAGATATATGTGGCAAAGCCACCAGATCAGATAATCG
1 TGGCATAGCCACCAGAACAGATATATGTGGCAAAGCCACCAGATCAGATAATCG
* *
87780321 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTG
1 TGGCATAGCCACCAGAACAGATATATGTGGCAAAGCCACCAGATCAGATAATCG
87780375 TGGCATAGCCACCAG
1 TGGCATAGCCACCAG
87780390 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.16
Consensus pattern (54 bp):
TGGCATAGCCACCAGAACAGATATATGTGGCAAAGCCACCAGATCAGATAATCG
Found at i:87780557 original size:28 final size:26
Alignment explanation
Indices: 87780495--87780568 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
87780485 AAATTAACCC
** * *
87780495 TAGGGGTATAACGGTAATTTTGCACT
1 TAGGGGTATAATAGTAATTTTCCACA
87780521 TAGGGGTATAATAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTTCC--ACA
*
87780549 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
87780569 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 20 0.49
28 21 0.51
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTCCACA
Found at i:87782050 original size:26 final size:26
Alignment explanation
Indices: 87782015--87782122 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
87782005 TGAAATGCCC
* *
87782015 ATCATAGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
87782041 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
87782067 ATCACGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
87782093 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87782119 ATCA
1 ATCA
87782123 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87786517 original size:46 final size:46
Alignment explanation
Indices: 87786465--87786626 Score: 236
Period size: 46 Copynumber: 3.5 Consensus size: 46
87786455 AGTGTGCTTT
*
87786465 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
87786511 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
87786557 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
87786603 ATGACA-GAAAATGAGTAAGACCAT
1 CTGATATG-AAATGAGTAAGACCAT
87786627 AACTGAAAGA
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 104 0.99
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Done.