Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014954.1 Kokia drynarioides strain JFW-HI SEQ_129998, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 252428
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Warning! 875 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:1316 original size:21 final size:21
Alignment explanation
Indices: 1276--1322 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
1266 AGTTTTTTTT
*
1276 TTTAATATTTATATTATTTAA
1 TTTAATATTTATAATATTTAA
*
1297 TTTAATATTTAATAATTTTATAA
1 TTTAATATTT-ATAATATT-TAA
1320 TTT
1 TTT
1323 TTTTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 6 0.27
23 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTAATATTTATAATATTTAA
Found at i:2768 original size:24 final size:26
Alignment explanation
Indices: 2727--2775 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
2717 AATGTTAACC
**
2727 GTCAAATTTAACTCAAAAA-ATAAAG
1 GTCAAATTTAACAAAAAAATATAAAG
2752 GTCAAA-TTAACAAAAAAATATAAA
1 GTCAAATTTAACAAAAAAATATAAA
2776 TATTGAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.61, C:0.10, G:0.06, T:0.22
Consensus pattern (26 bp):
GTCAAATTTAACAAAAAAATATAAAG
Found at i:19107 original size:30 final size:30
Alignment explanation
Indices: 19055--19111 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
19045 GCTATTATTA
* * *
19055 AATGTTATTATTGATGTCATTATTATTGTT
1 AATGATATTAGTGATATCATTATTATTGTT
*
19085 AATGATATTAGTGATATTATTATTATT
1 AATGATATTAGTGATATCATTATTATT
19112 ATTGCCAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (30 bp):
AATGATATTAGTGATATCATTATTATTGTT
Found at i:19840 original size:17 final size:18
Alignment explanation
Indices: 19820--19862 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
19810 ATTAAATTTG
* *
19820 AATTTAAATTTA-ACATA
1 AATTTAAATCTAGAAATA
19837 AATTTAAATCTAGAAATA
1 AATTTAAATCTAGAAATA
19855 AATTTAAA
1 AATTTAAA
19863 CGAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (18 bp):
AATTTAAATCTAGAAATA
Found at i:21469 original size:44 final size:44
Alignment explanation
Indices: 21341--21471 Score: 106
Period size: 44 Copynumber: 3.0 Consensus size: 44
21331 AGACCTGAGC
* * ***
21341 TGCCCTTTGCGGGTTTTCAACTCAAAGTT-TCC-TTGGTTCCAAGA
1 TGCCCTTTGCGGGTTTTCATCTC-AA-TTCTCCTTTTGTTTTTAGA
* * * * ** *
21385 CGCCCTTTGCGAGTTTTCATCCTGAA-CCTTTTTTTTTTTTTAGA
1 TGCCCTTTGCGGGTTTTCAT-CTCAATTCTCCTTTTGTTTTTAGA
21429 TGCCCTTTGCGGGTTTTCATCTCAATTCTCCTTTTGTTTTTAG
1 TGCCCTTTGCGGGTTTTCATCTCAATTCTCCTTTTGTTTTTAG
21472 GCGAAGTACT
Statistics
Matches: 64, Mismatches: 19, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
43 5 0.08
44 57 0.89
45 2 0.03
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.46
Consensus pattern (44 bp):
TGCCCTTTGCGGGTTTTCATCTCAATTCTCCTTTTGTTTTTAGA
Found at i:28633 original size:30 final size:30
Alignment explanation
Indices: 28581--28639 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
28571 GCTATTATTA
* * *
28581 AATGTTATTATTGATGTCATTATTATTGTT
1 AATGATATTAGTGATATCATTATTATTGTT
*
28611 AATGATATTAGTGATATTATTATTATTGT
1 AATGATATTAGTGATATCATTATTATTGT
28640 CAATATAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.54
Consensus pattern (30 bp):
AATGATATTAGTGATATCATTATTATTGTT
Found at i:29328 original size:17 final size:16
Alignment explanation
Indices: 29297--29338 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
29287 AAATCCATTC
*
29297 AAATTTAATTAAATTT
1 AAATTTAAATAAATTT
29313 AAATTTAACATAAATTT
1 AAATTTAA-ATAAATTT
*
29330 AAATCTAAA
1 AAATTTAAA
29339 AAAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTTAAATAAATTT
Found at i:34857 original size:21 final size:21
Alignment explanation
Indices: 34833--34881 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
34823 TGAGTACTAT
*
34833 CGATACAACCCACACTTTTAC
1 CGATACAACCCACACTTCTAC
34854 CGATACAACCCACACTTCTAC
1 CGATACAACCCACACTTCTAC
*
34875 TGATACA
1 CGATACA
34882 TGTAACCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.37, G:0.06, T:0.22
Consensus pattern (21 bp):
CGATACAACCCACACTTCTAC
Found at i:35623 original size:28 final size:28
Alignment explanation
Indices: 35555--35627 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
35545 CGAGCCTAGC
* * *
35555 CAGAATATCGTTCTTTCCGAGCTAGAAT
1 CAGAATATCGCTCTTTTCGAACTAGAAT
35583 CA-AATTATCGCTCTTTTCGAACTAGAAT
1 CAGAA-TATCGCTCTTTTCGAACTAGAAT
* *
35611 TAGAATATTGCTCTTTT
1 CAGAATATCGCTCTTTT
35628 TGAGCCAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
27 2 0.05
28 34 0.89
29 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (28 bp):
CAGAATATCGCTCTTTTCGAACTAGAAT
Found at i:35718 original size:56 final size:56
Alignment explanation
Indices: 35644--35822 Score: 207
Period size: 56 Copynumber: 3.2 Consensus size: 56
35634 AAAATAAAAA
35644 AATGCTCTACCCAAGCAAGATTTAGAGTATCGCTTTACCCAAGCCAAAAGCAGAAT
1 AATGCTCTACCCAAGCAAGATTTAGAGTATCGCTTTACCCAAGCCAAAAGCAGAAT
* * * * * ** **
35700 AATGATCTACCCGAGCAAGATTCAGAGCATCGCTCTACCTGAGCCAAAATTAGAAT
1 AATGCTCTACCCAAGCAAGATTTAGAGTATCGCTTTACCCAAGCCAAAAGCAGAAT
* * * **
35756 AATGCTCTACCCAAGTAAGATTTAGA-TAACACTTTACCCAAGCCAAAAATAGAAT
1 AATGCTCTACCCAAGCAAGATTTAGAGTATCGCTTTACCCAAGCCAAAAGCAGAAT
* *
35811 ACTACTCTACCC
1 AATGCTCTACCC
35823 GAACCAGATT
Statistics
Matches: 101, Mismatches: 22, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
55 32 0.32
56 69 0.68
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (56 bp):
AATGCTCTACCCAAGCAAGATTTAGAGTATCGCTTTACCCAAGCCAAAAGCAGAAT
Found at i:35725 original size:28 final size:28
Alignment explanation
Indices: 35694--35854 Score: 73
Period size: 28 Copynumber: 5.8 Consensus size: 28
35684 AAGCCAAAAG
35694 CAGAATAATGATCTACCCGAGCAAGATT
1 CAGAATAATGATCTACCCGAGCAAGATT
** * * *
35722 CAG-AGCATCGCTCTACCTGAGCCAAAATT
1 CAGAATAAT-GATCTACCCGAG-CAAGATT
* * *
35751 -AGAATAATGCTCTACCCAAGTAAGATT
1 CAGAATAATGATCTACCCGAGCAAGATT
* * * * * *
35778 TAG-ATAA-CACTTTACCCAAGCCAAAAAT
1 CAGAATAATGA-TCTACCCGAG-CAAGATT
* * *
35806 -AGAATACT-ACTCTACCCGAACCAGATT
1 CAGAATAATGA-TCTACCCGAGCAAGATT
*
35833 CAGAATAATGCTCTACCCGAGC
1 CAGAATAATGATCTACCCGAGC
35855 CTTCACTTGA
Statistics
Matches: 96, Mismatches: 27, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
27 27 0.28
28 60 0.62
29 9 0.09
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (28 bp):
CAGAATAATGATCTACCCGAGCAAGATT
Found at i:35795 original size:111 final size:111
Alignment explanation
Indices: 35628--35836 Score: 296
Period size: 111 Copynumber: 1.9 Consensus size: 111
35618 TTGCTCTTTT
* *
35628 TGAGCCAAAATAAAAAAATGCTCTACCCAAGCAAGATTTAGAGTATCGCTTTACCCAAGCCAAAA
1 TGAGCCAAAATAAAAAAATGCTCTACCCAAGCAAGATTTAGAGTAACACTTTACCCAAGCCAAAA
* *
35693 GCAGAATAATGA-TCTACCCGAGCAAGATTCAGAGCATCGCTCTACC
66 ACAGAATAAT-ACTCTACCCGAACAAGATTCAGAGCATCGCTCTACC
* * *
35739 TGAGCCAAAATTAGAATAATGCTCTACCCAAGTAAGATTTAGA-TAACACTTTACCCAAGCCAAA
1 TGAGCCAAAA-TAAAAAAATGCTCTACCCAAGCAAGATTTAGAGTAACACTTTACCCAAGCCAAA
* * *
35803 AATAGAATACTACTCTACCCGAACCAGATTCAGA
65 AACAGAATAATACTCTACCCGAACAAGATTCAGA
35837 ATAATGCTCT
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
110 1 0.01
111 56 0.65
112 29 0.34
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.21
Consensus pattern (111 bp):
TGAGCCAAAATAAAAAAATGCTCTACCCAAGCAAGATTTAGAGTAACACTTTACCCAAGCCAAAA
ACAGAATAATACTCTACCCGAACAAGATTCAGAGCATCGCTCTACC
Found at i:38780 original size:9 final size:9
Alignment explanation
Indices: 38766--38807 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
38756 AATTAATTTC
38766 AAAAAAATT
1 AAAAAAATT
38775 AAAAAAA-T
1 AAAAAAATT
*
38783 ATAAAAATT
1 AAAAAAATT
38792 ATTAAAAAATT
1 A--AAAAAATT
38803 AAAAA
1 AAAAA
38808 TATATTAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
8 7 0.25
9 13 0.46
11 8 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAAAATT
Found at i:38798 original size:19 final size:19
Alignment explanation
Indices: 38768--38850 Score: 82
Period size: 19 Copynumber: 4.4 Consensus size: 19
38758 TTAATTTCAA
38768 AAAAATTA--AAAAAATAT
1 AAAAATTATTAAAAAATAT
38785 AAAAATTATTAAAAAAT-T
1 AAAAATTATTAAAAAATAT
*
38803 AAAAATATATTAACAAATAT
1 AAAAAT-TATTAAAAAATAT
* ** *
38823 TAAGCTTATTAAAATAACAT
1 AAAAATTATTAAAA-AATAT
38843 AAAAATTA
1 AAAAATTA
38851 CAAAATGAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
17 8 0.15
18 7 0.13
19 24 0.46
20 13 0.25
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (19 bp):
AAAAATTATTAAAAAATAT
Found at i:38798 original size:28 final size:29
Alignment explanation
Indices: 38767--38825 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
38757 ATTAATTTCA
38767 AAAAAATTAAAAAAATA-TAA-AAATTATT
1 AAAAAATTAAAAAAATATTAACAAA-TATT
*
38795 AAAAAATTAAAAATATATTAACAAATATT
1 AAAAAATTAAAAAAATATTAACAAATATT
38824 AA
1 AA
38826 GCTTATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 16 0.57
29 9 0.32
30 3 0.11
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (29 bp):
AAAAAATTAAAAAAATATTAACAAATATT
Found at i:39357 original size:22 final size:22
Alignment explanation
Indices: 39331--39391 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 22
39321 GAAAAAAGAT
* *
39331 AAAATTTTAATTTAATATTTTA
1 AAAATTATAATTTAATATTGTA
* *
39353 AAAATTATATTTTTACTATTGTA
1 AAAATTATA-ATTTAATATTGTA
39376 AAAATTATAATTTAAT
1 AAAATTATAATTTAAT
39392 TTCGACCTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
AAAATTATAATTTAATATTGTA
Found at i:40275 original size:20 final size:20
Alignment explanation
Indices: 40250--40289 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
40240 ATATTTTAAA
* *
40250 TTTAAACATTATTTTTAATT
1 TTTAAAAATTATTTTGAATT
40270 TTTAAAAATTATTTTGAATT
1 TTTAAAAATTATTTTGAATT
40290 ATTTTGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTAAAAATTATTTTGAATT
Found at i:43203 original size:22 final size:23
Alignment explanation
Indices: 43135--43208 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
43125 TAAAAATAAA
* *
43135 AATATATCAAAT-ATTTAGAATAT
1 AATATATAAAATAAATT-GAATAT
*
43158 ATATATATAAAATAAAAT-AGATAT
1 A-ATATATAAAATAAATTGA-ATAT
43182 AATATAT-AAATAAATTGAATAT
1 AATATATAAAATAAATTGAATAT
43204 AATAT
1 AATAT
43209 TATACATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
22 17 0.40
23 9 0.21
24 15 0.35
25 2 0.05
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (23 bp):
AATATATAAAATAAATTGAATAT
Found at i:43208 original size:27 final size:29
Alignment explanation
Indices: 43154--43223 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 29
43144 AATATTTAGA
*
43154 ATATATATATATAAAATAAAATAGATA-T
1 ATATATATAAATAAAATAAAATAGATATT
* *
43182 A-ATATATAAATAAATTGAATATA-ATATT
1 ATATATATAAATAAAAT-AAAATAGATATT
*
43210 ATACATATAAATAA
1 ATATATATAAATAA
43224 GTTAAACCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 16 0.46
28 8 0.23
29 11 0.31
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (29 bp):
ATATATATAAATAAAATAAAATAGATATT
Found at i:43636 original size:20 final size:19
Alignment explanation
Indices: 43608--43646 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
43598 TTTTTAATTC
43608 CATACTTAATATAATTATAA
1 CATACTTAATATAA-TATAA
*
43628 CATATTTAATATAATATAA
1 CATACTTAATATAATATAA
43647 TAATGGTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (19 bp):
CATACTTAATATAATATAA
Found at i:43905 original size:21 final size:21
Alignment explanation
Indices: 43857--43905 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
43847 TATCATTATA
* *
43857 TTATAATAATATTATAAATTT
1 TTATTATAATATTATAAATAT
* **
43878 TTTTTATAATATTATATGTAT
1 TTATTATAATATTATAAATAT
43899 TTATTAT
1 TTATTAT
43906 TTATCTATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTATTATAATATTATAAATAT
Found at i:43976 original size:23 final size:24
Alignment explanation
Indices: 43940--43997 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
43930 TTTACTCTTA
** *
43940 GTTATATTTCTTTTA-TATTATAT
1 GTTATATTGATTTTATTAGTATAT
43963 GTTATATTGATTTTATTAGTATAT
1 GTTATATTGATTTTATTAGTATAT
43987 -TCTATATTGAT
1 GT-TATATTGAT
43998 ATAGTAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.28, C:0.03, G:0.09, T:0.60
Consensus pattern (24 bp):
GTTATATTGATTTTATTAGTATAT
Found at i:44053 original size:17 final size:17
Alignment explanation
Indices: 44033--44071 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
44023 ACTACTCCCT
*
44033 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
44050 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
44067 TTTTA
1 TTTTA
44072 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:44140 original size:9 final size:9
Alignment explanation
Indices: 44126--44151 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
44116 TTAATCCATC
44126 GATTTAATA
1 GATTTAATA
44135 GATTTAATA
1 GATTTAATA
44144 GATTTAAT
1 GATTTAAT
44152 TTATTTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (9 bp):
GATTTAATA
Found at i:44893 original size:18 final size:18
Alignment explanation
Indices: 44866--44908 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
44856 CGCATAAAAA
* *
44866 GAAAGCAAATAAATAAAC
1 GAAAGAAAATAAACAAAC
*
44884 GAAAGAAAATAAACAAAT
1 GAAAGAAAATAAACAAAC
44902 GAAAGAA
1 GAAAGAA
44909 GGGGGAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.14, T:0.09
Consensus pattern (18 bp):
GAAAGAAAATAAACAAAC
Found at i:44918 original size:11 final size:11
Alignment explanation
Indices: 44902--44937 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
44892 ATAAACAAAT
44902 GAAAGAAGGGG
1 GAAAGAAGGGG
*
44913 GAAAGAGGGGG
1 GAAAGAAGGGG
*
44924 GAAAAAAGGGG
1 GAAAGAAGGGG
44935 GAA
1 GAA
44938 GGAGGGGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (11 bp):
GAAAGAAGGGG
Found at i:44927 original size:22 final size:22
Alignment explanation
Indices: 44902--44944 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
44892 ATAAACAAAT
*
44902 GAAAGAAGGGGGAAAGAGGGGG
1 GAAAAAAGGGGGAAAGAGGGGG
*
44924 GAAAAAAGGGGGAAGGAGGGG
1 GAAAAAAGGGGGAAAGAGGGG
44945 CATCCTAATG
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:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (22 bp):
GAAAAAAGGGGGAAAGAGGGGG
Found at i:45836 original size:6 final size:6
Alignment explanation
Indices: 45825--45890 Score: 57
Period size: 6 Copynumber: 11.2 Consensus size: 6
45815 TCAAATTTAT
** **
45825 TTTAAA TTTAAA TTTATCT TTTAAA TTTAAA TTT-GC TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
45873 TTT-AA -TTAGAA TTTAAA T
1 TTTAAA TTTA-AA TTTAAA T
45891 GGATTTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
4 2 0.04
5 5 0.11
6 33 0.70
7 7 0.15
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:45839 original size:17 final size:17
Alignment explanation
Indices: 45817--45905 Score: 90
Period size: 17 Copynumber: 5.1 Consensus size: 17
45807 AAATTGATTC
45817 AAATTTATTTTAAATTT
1 AAATTTATTTTAAATTT
45834 AAATTTATCTTTTAAATTT
1 AAATTTA--TTTTAAATTT
**
45853 AAATTTGCTTTAAATTT
1 AAATTTATTTTAAATTT
*
45870 AAATTTA-ATTAGAATTT
1 AAATTTATTTTA-AATTT
** *
45887 AAATGGATTTAAAATTT
1 AAATTTATTTTAAATTT
45904 AA
1 AA
45906 TTAAAAGTCC
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
16 3 0.05
17 39 0.65
18 2 0.03
19 16 0.27
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (17 bp):
AAATTTATTTTAAATTT
Found at i:45848 original size:19 final size:19
Alignment explanation
Indices: 45824--45876 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
45814 TTCAAATTTA
*
45824 TTTTAAATTTAAATTTATC
1 TTTTAAATTTAAATTTAGC
45843 TTTTAAATTTAAATTT-GC
1 TTTTAAATTTAAATTTAGC
45861 -TTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
45877 ATTAGAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.47
18 1 0.03
19 16 0.50
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTAAATTTAAATTTAGC
Found at i:45919 original size:28 final size:27
Alignment explanation
Indices: 45866--45919 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
45856 TTTGCTTTAA
* * *
45866 ATTTAAATTTAATTAGAATTTAAATGG
1 ATTTAAATTTAATTAAAAGTCAAATGG
*
45893 ATTTAAAATTTAATTAAAAGTCCAATG
1 ATTT-AAATTTAATTAAAAGTCAAATG
45920 CCCAAAGTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (27 bp):
ATTTAAATTTAATTAAAAGTCAAATGG
Found at i:46655 original size:24 final size:24
Alignment explanation
Indices: 46623--46682 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
46613 AATGATTATT
46623 TAATAATAATGAATATATTAATAA
1 TAATAATAATGAATATATTAATAA
* * *
46647 TAATAATAAAT-ATTTTTTTAATAA
1 TAATAAT-AATGAATATATTAATAA
46671 TAATAAATAATG
1 TAAT-AATAATG
46683 TTTTAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 24 0.80
25 6 0.20
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (24 bp):
TAATAATAATGAATATATTAATAA
Found at i:46686 original size:21 final size:20
Alignment explanation
Indices: 46621--46694 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 20
46611 TGAATGATTA
*
46621 TTTAATAATAATGAATATATT
1 TTTAATAATAATAAATA-ATT
** *
46642 AATAATAATAATAAATATTTT
1 TTTAATAATAATAAATA-ATT
46663 TTTAATAATAATAAATAATGT
1 TTTAATAATAATAAATAAT-T
46684 TTTAATAATAA
1 TTTAATAATAA
46695 AAAAGGGAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 1 0.02
21 44 0.98
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
TTTAATAATAATAAATAATT
Found at i:47801 original size:59 final size:59
Alignment explanation
Indices: 47699--47961 Score: 350
Period size: 59 Copynumber: 4.4 Consensus size: 59
47689 GAAGGTCCCT
* * *
47699 AAACTATCCAAAAATTCCATTTTTACCCCTCAAACTTCCAAAAATTCCATTTTT-ACCTTCG
1 AAACT-TCCAAAAATTCCATTATTACCCC-CAAACTTCCAAAAATCCCATTTTTGACC-TCA
* ** * *
47760 AAACTTCAAAAAATTTTATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCA
1 AAACTTCCAAAAATTCCATTATTACCCCCAAACTTCCAAAAATCCCATTTTTGACCTCA
*
47819 AAACTTCCAAAAATTCCATTATTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCA
1 AAACTTCCAAAAATTCCATTATTACCCCCAAACTTCCAAAAATCCCATTTTTGACCTCA
** * * *
47878 AAACTTCCAAAAATTCCATTATTACCCCCAAACTTAAAAAAATTCCATTTTTAACCCCA
1 AAACTTCCAAAAATTCCATTATTACCCCCAAACTTCCAAAAATCCCATTTTTGACCTCA
47937 AAACTTCCAAAAATTACCATT-TTAC
1 AAACTTCCAAAAATT-CCATTATTAC
47962 ACTTAGATGT
Statistics
Matches: 184, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
59 151 0.82
60 28 0.15
61 5 0.03
ACGTcount: A:0.38, C:0.29, G:0.02, T:0.32
Consensus pattern (59 bp):
AAACTTCCAAAAATTCCATTATTACCCCCAAACTTCCAAAAATCCCATTTTTGACCTCA
Found at i:47859 original size:89 final size:88
Alignment explanation
Indices: 47699--47959 Score: 267
Period size: 89 Copynumber: 2.9 Consensus size: 88
47689 GAAGGTCCCT
**
47699 AAACTATCCAAAAATTCCATTTTTACCCCTCAAACTTCCAAAAATTCCATTTTTACCTTCGAAAC
1 AAACT-TCCAAAAATTCCATTTTTA--CCTCAAACTTCCAAAAATTCCATTTTTACCCCCG-AAC
*** *
47764 TT-CAAAAAATTTTATTTTT-ACCCCC
62 TTCCAAAAAATCCCATTTTTGACCCCA
* * *
47789 GAACTTCCAAAAATCCCATTTTTGACCTCAAAACTTCCAAAAATTCCATTATTACCCCCGAACTT
1 AAACTTCCAAAAATTCCATTTTT-ACCTC-AAACTTCCAAAAATTCCATTTTTACCCCCGAACTT
*
47854 CC-AAAAATCCCATTTTTGACCTCA
64 CCAAAAAATCCCATTTTTGACCCCA
* * ** **
47878 AAACTTCCAAAAATTCCATTATTACCCCCAAACTTAAAAAAATTCCATTTTTAACCCCAAAACTT
1 AAACTTCCAAAAATTCCATTTTTA-CCTCAAACTTCCAAAAATTCCATTTTT-ACCCCCGAACTT
* *
47943 CCAAAAATTACCATTTT
64 CCAAAAAATCCCATTTT
47960 ACACTTAGAT
Statistics
Matches: 143, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
88 42 0.29
89 84 0.59
90 17 0.12
ACGTcount: A:0.38, C:0.29, G:0.02, T:0.32
Consensus pattern (88 bp):
AAACTTCCAAAAATTCCATTTTTACCTCAAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCC
AAAAAATCCCATTTTTGACCCCA
Found at i:47960 original size:30 final size:29
Alignment explanation
Indices: 47699--47959 Score: 297
Period size: 30 Copynumber: 8.8 Consensus size: 29
47689 GAAGGTCCCT
47699 AAACTATCCAAAAATTCCATTTTTACCCCTC
1 AAACT-TCCAAAAATTCCATTTTTACCCC-C
* *
47730 AAACTTCCAAAAATTCCATTTTTACCTTCG
1 AAACTTCCAAAAATTCCATTTTTACC-CCC
* **
47760 AAACTTCAAAAAATTTTATTTTTACCCCC
1 AAACTTCCAAAAATTCCATTTTTACCCCC
* * * *
47789 GAACTTCCAAAAATCCCATTTTTGACCTCA
1 AAACTTCCAAAAATTCCATTTTT-ACCCCC
*
47819 AAACTTCCAAAAATTCCATTATTACCCCC
1 AAACTTCCAAAAATTCCATTTTTACCCCC
* * * *
47848 GAACTTCCAAAAATCCCATTTTTGACCTCA
1 AAACTTCCAAAAATTCCATTTTT-ACCCCC
*
47878 AAACTTCCAAAAATTCCATTATTACCCCC
1 AAACTTCCAAAAATTCCATTTTTACCCCC
** *
47907 AAACTTAAAAAAATTCCATTTTTAACCCCA
1 AAACTTCCAAAAATTCCATTTTT-ACCCCC
47937 AAACTTCCAAAAATTACCATTTT
1 AAACTTCCAAAAATT-CCATTTT
47960 ACACTTAGAT
Statistics
Matches: 190, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
29 67 0.35
30 110 0.58
31 13 0.07
ACGTcount: A:0.38, C:0.29, G:0.02, T:0.32
Consensus pattern (29 bp):
AAACTTCCAAAAATTCCATTTTTACCCCC
Found at i:47985 original size:118 final size:115
Alignment explanation
Indices: 47699--48074 Score: 320
Period size: 118 Copynumber: 3.2 Consensus size: 115
47689 GAAGGTCCCT
47699 AAACTATCCAAAAATT-CCATTTTTACCCCTCA-AACTTCCAAAAATTCCATTTTTACCTTCGAA
1 AAACT-TCCAAAAATTACCA-TTTTA-CCC-CAGAACTTCCAAAAA-TCCATTTTTACC-TCGAA
* ** * * * *
47762 ACTTCAAAAAATTTTATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCA
60 ACTTCCAAAAATTCCA-TTTTACCCCCGAACTTCAAAAAATTCCATTTTTAACCCCA
* *
47819 AAACTTCCAAAAATT-CCATTATTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCAAAACT
1 AAACTTCCAAAAATTACCATT-TTACCCCAGAACTTCCAAAAAT-CCATTTTT-ACCTCGAAACT
* *
47883 TCCAAAAATTCCATTATTACCCCCAAACTTAAAAAAATTCCATTTTTAACCCCA
63 TCCAAAAATTCCATT-TTACCCCCGAACTTCAAAAAATTCCATTTTTAACCCCA
** * * *
47937 AAACTTCCAAAAATTACCATTTTACACTTAG-A-TGTCCGAAGACTCCATTTTCAACCTCGAAAC
1 AAACTTCCAAAAATTACCATTTTAC-CCCAGAACT-TCC-AAAAATCCATTTT-TACCTCGAAAC
* * * *
48000 -TCTC-AAAATTACCCTTTTA-CCCCGGA-TGTCTAAAAATTCCATTTTTAACCCCG
62 TTC-CAAAAATT-CCATTTTACCCCCGAACT-TCAAAAAATTCCATTTTTAACCCCA
** *
48053 AATTTTCCCAAAATTACCATTT
1 AAACTTCCAAAAATTACCATTT
48075 CATCCCCGAG
Statistics
Matches: 216, Mismatches: 27, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
115 1 0.00
116 46 0.21
117 16 0.07
118 118 0.55
119 30 0.14
120 5 0.02
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.32
Consensus pattern (115 bp):
AAACTTCCAAAAATTACCATTTTACCCCAGAACTTCCAAAAATCCATTTTTACCTCGAAACTTCC
AAAAATTCCATTTTACCCCCGAACTTCAAAAAATTCCATTTTTAACCCCA
Found at i:48065 original size:58 final size:58
Alignment explanation
Indices: 47794--48074 Score: 169
Period size: 59 Copynumber: 4.8 Consensus size: 58
47784 CCCCCGAACT
* * * * * *
47794 TCCAAAAATCCCATTTTTGACCTCAAAACTTCCAAAAATT-CCATTATTAC-CCCCGAACT-
1 TCCAAAAATTCCATTTTTAACCCCGAAA-TTCCCAAAATTACCATT-TTACACCCAG-A-TG
* * * * * * *
47853 TCCAAAAATCCCATTTTTGACCTCAAAACTTCCAAAAATT-CCATTATTACCCCCAAACT-
1 TCCAAAAATTCCATTTTTAACCCCGAAA-TTCCCAAAATTACCATT-TTACACCCAGA-TG
** * * **
47912 TAAAAAAATTCCATTTTTAACCCCAAAACTTCCAAAAATTACCATTTTACACTTAGATG
1 TCCAAAAATTCCATTTTTAACCCCGAAA-TTCCCAAAATTACCATTTTACACCCAGATG
* * * * * * * * *
47971 TCCGAAGACTCCATTTTCAACCTCGAAACTCTCAAAATTACCCTTTTAC-CCCGGATG
1 TCCAAAAATTCCATTTTTAACCCCGAAATTCCCAAAATTACCATTTTACACCCAGATG
* *
48028 TCTAAAAATTCCATTTTTAACCCCGAATTTTCCCAAAATTACCATTT
1 TCCAAAAATTCCATTTTTAACCCCGAA-ATTCCCAAAATTACCATTT
48075 CATCCCCGAG
Statistics
Matches: 182, Mismatches: 36, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
57 26 0.14
58 33 0.18
59 115 0.63
60 8 0.04
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.31
Consensus pattern (58 bp):
TCCAAAAATTCCATTTTTAACCCCGAAATTCCCAAAATTACCATTTTACACCCAGATG
Found at i:52200 original size:4 final size:4
Alignment explanation
Indices: 52191--52237 Score: 85
Period size: 4 Copynumber: 11.8 Consensus size: 4
52181 TTTTATTTTA
*
52191 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATA TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TAT
52238 ATATATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:52238 original size:8 final size:8
Alignment explanation
Indices: 52189--52249 Score: 77
Period size: 8 Copynumber: 7.6 Consensus size: 8
52179 TTTTTTATTT
52189 TATATCTA
1 TATATCTA
*
52197 TCTATCTA
1 TATATCTA
*
52205 TCTATCTA
1 TATATCTA
*
52213 TCTATCTA
1 TATATCTA
*
52221 TCTATCTA
1 TATATCTA
52229 TATATCTA
1 TATATCTA
*
52237 TATATATA
1 TATATCTA
52245 TATAT
1 TATAT
52250 ATATGAGATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 50 1.00
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (8 bp):
TATATCTA
Found at i:52242 original size:12 final size:12
Alignment explanation
Indices: 52189--52253 Score: 76
Period size: 12 Copynumber: 5.4 Consensus size: 12
52179 TTTTTTATTT
52189 TATATCTATCTA
1 TATATCTATCTA
*
52201 TCTATCTATCTA
1 TATATCTATCTA
*
52213 TCTATCTATCTA
1 TATATCTATCTA
* *
52225 TCTATATATCTA
1 TATATCTATCTA
* *
52237 TATATATATATA
1 TATATCTATCTA
52249 TATAT
1 TATAT
52254 GAGATTTGTG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 49 1.00
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (12 bp):
TATATCTATCTA
Found at i:53075 original size:15 final size:15
Alignment explanation
Indices: 53055--53085 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53045 CACGGTTTCG
53055 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
*
53070 TGTGCTTTGATTCAT
1 TGTGCTCTGATTCAT
53085 T
1 T
53086 ACTGATACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.16, G:0.19, T:0.52
Consensus pattern (15 bp):
TGTGCTCTGATTCAT
Found at i:69066 original size:8 final size:8
Alignment explanation
Indices: 69053--69082 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
69043 TGGAAGATGG
69053 ATAAAAAA
1 ATAAAAAA
69061 ATAAAAAA
1 ATAAAAAA
69069 ATAAAAAA
1 ATAAAAAA
69077 ATAAAA
1 ATAAAA
69083 TATAAATAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
ATAAAAAA
Found at i:69488 original size:24 final size:24
Alignment explanation
Indices: 69461--69510 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
69451 ATTCAATTGG
*
69461 AAGTATTGATCCAATTGATCAAAA
1 AAGTATTGATCCAATTGATAAAAA
69485 AAGTATTGATCCAATTGATAAAAA
1 AAGTATTGATCCAATTGATAAAAA
69509 AA
1 AA
69511 AATTATGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (24 bp):
AAGTATTGATCCAATTGATAAAAA
Found at i:70435 original size:21 final size:21
Alignment explanation
Indices: 70386--70425 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
70376 TTTATTTAAA
*
70386 AATATAAATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
70407 AATATAAATGAAATAGAAT
1 AATATAAATGAAATAGAAT
70426 TACTAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:82144 original size:6 final size:6
Alignment explanation
Indices: 82133--82171 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
82123 GCACTGCCCC
82133 TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA TTA
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA TTA
82172 ATCGGTTTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TTATAA
Found at i:86576 original size:2 final size:2
Alignment explanation
Indices: 86563--86596 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
86553 GATTTATACG
*
86563 TA TA TCA TA TA TA TA TA TA TA TA TA TA AA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T
86597 CACAAGACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:87408 original size:11 final size:11
Alignment explanation
Indices: 87392--87426 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
87382 ATGCCCCTCC
*
87392 TTCCCCCTTTT
1 TTCCCCCTTCT
87403 TTCCCCC-TCT
1 TTCCCCCTTCT
87413 TTCCCCCTTCT
1 TTCCCCCTTCT
87424 TTC
1 TTC
87427 GTTTATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (11 bp):
TTCCCCCTTCT
Found at i:87410 original size:21 final size:21
Alignment explanation
Indices: 87385--87426 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
87375 CATTAGGATG
*
87385 CCCCTCCTTCCCCCTTTTTTC
1 CCCCTCCTTCCCCCTTCTTTC
*
87406 CCCCTCTTTCCCCCTTCTTTC
1 CCCCTCCTTCCCCCTTCTTTC
87427 GTTTATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (21 bp):
CCCCTCCTTCCCCCTTCTTTC
Found at i:88068 original size:15 final size:17
Alignment explanation
Indices: 88048--88079 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
88038 TCATTTCATT
88048 TATAT-AATG-ATAAAA
1 TATATAAATGCATAAAA
88063 TATATAAATGCATAAAA
1 TATATAAATGCATAAAA
88080 AGATTTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 4 0.27
17 6 0.40
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (17 bp):
TATATAAATGCATAAAA
Found at i:88489 original size:16 final size:16
Alignment explanation
Indices: 88470--88503 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
88460 TAAAAAATTA
*
88470 TAATATTATATAATAT
1 TAATAATATATAATAT
*
88486 TAATAATATATTATAT
1 TAATAATATATAATAT
88502 TA
1 TA
88504 TGATTAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATAATATATAATAT
Found at i:88670 original size:20 final size:19
Alignment explanation
Indices: 88640--88678 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
88630 TCTACCATTA
88640 TTATATTATATTAAATATG
1 TTATATTATATTAAATATG
*
88659 TTATATTTATATTAAGTATG
1 TTATA-TTATATTAAATATG
88679 GCATTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TTATATTATATTAAATATG
Found at i:88740 original size:13 final size:13
Alignment explanation
Indices: 88724--88764 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
88714 ATTCGAGTCT
88724 ATAATTCATATTA
1 ATAATTCATATTA
88737 ATAATTCATATTA
1 ATAATTCATATTA
88750 ATAATTCATATTA
1 ATAATTCATATTA
88763 AT
1 AT
88765 TATGAATAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAATTCATATTA
Found at i:89185 original size:11 final size:11
Alignment explanation
Indices: 89183--89299 Score: 54
Period size: 11 Copynumber: 10.8 Consensus size: 11
89173 ATTTATATAT
89183 TATATTATTTA
1 TATATTATTTA
89194 TATATTATATCTA
1 TATATTAT-T-TA
*
89207 TTTTATT-TTATA
1 -TATATTATT-TA
* *
89219 TATATTATATC
1 TATATTATTTA
*
89230 TATTTTATTT-
1 TATATTATTTA
89240 TATATATATTCTA
1 TATAT-TATT-TA
89253 -A-A-TATTTGA
1 TATATTATTT-A
*
89262 TATA-TCTTTA
1 TATATTATTTA
*
89272 TAT-TTATATA
1 TATATTATTTA
89282 T-TATT-TTTA
1 TATATTATTTA
89291 TATATTATT
1 TATATTATT
89300 ATTATATAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 28
0.67 0.10 0.23
Matches are distributed among these distances:
8 1 0.01
9 10 0.12
10 20 0.25
11 34 0.43
12 7 0.09
13 3 0.04
14 5 0.06
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (11 bp):
TATATTATTTA
Found at i:89192 original size:16 final size:16
Alignment explanation
Indices: 89142--89304 Score: 103
Period size: 16 Copynumber: 10.2 Consensus size: 16
89132 TTGGTTTAAT
89142 TTATTTATATA-TATA
1 TTATTTATATATTATA
* *
89157 ATA-TTATAT-TCA-A
1 TTATTTATATATTATA
89170 TTTATTTATATATTATA
1 -TTATTTATATATTATA
89187 TTATTTATATATTATA
1 TTATTTATATATTATA
*
89203 TCTATTT-TATTTTATA
1 T-TATTTATATATTATA
* *
89219 TATATTATATCTATTTTA
1 T-TATT-TATATATTATA
*
89237 TT-TTATATATATTCTAA
1 TTATT-TATATATTAT-A
* *
89254 ATATTTGATATATCTTTA
1 TTATTT-ATATAT-TATA
89272 -TATTTATATA-T-TA
1 TTATTTATATATTATA
89285 TT-TTTATATATTATTA
1 TTATTTATATATTA-TA
89301 TTAT
1 TTAT
89305 ATAATAATAA
Statistics
Matches: 118, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
13 11 0.09
14 12 0.10
15 8 0.07
16 52 0.44
17 17 0.14
18 16 0.14
19 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (16 bp):
TTATTTATATATTATA
Found at i:89208 original size:25 final size:23
Alignment explanation
Indices: 89190--89306 Score: 75
Period size: 25 Copynumber: 5.0 Consensus size: 23
89180 TATTATATTA
*
89190 TTTATATATTATATCTATTTTATT
1 TTTATATATTATA-CTATTATATT
*
89214 TTATATATATTATATCTATTTTATT
1 TT-TATATATTATA-CTATTATATT
* *
89239 TTATATATATTCTAAATATTTGATATAT
1 TT-TATATATTAT-ACTA-TT-ATAT-T
89267 CTTTATAT-TTATA-TA-T-TATT
1 -TTTATATATTATACTATTATATT
89287 TTTATATATTAT--TATTATAT
1 TTTATATATTATACTATTATAT
89307 AATAATAATA
Statistics
Matches: 80, Mismatches: 4, Indels: 21
0.76 0.04 0.20
Matches are distributed among these distances:
19 9 0.11
20 6 0.08
21 6 0.08
23 1 0.01
24 2 0.03
25 38 0.47
26 4 0.05
27 6 0.08
28 6 0.08
29 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (23 bp):
TTTATATATTATACTATTATATT
Found at i:89221 original size:41 final size:43
Alignment explanation
Indices: 89142--89285 Score: 124
Period size: 41 Copynumber: 3.3 Consensus size: 43
89132 TTGGTTTAAT
89142 TTATTTATATATATAATATTATATTC-A-ATTT-ATTTATATATTATA
1 TTATTTATATAT-T-ATA-TATATTCTATATTTGA--TATATATTATA
* *
89187 TTATTTATATATTATATCTATT-T-TATTTTATATATATTATA
1 TTATTTATATATTATATATATTCTATATTTGATATATATTATA
* *
89228 TCTATTT-TATTTTATATATATTCTAAATATTTGATATATCTT-TA
1 T-TATTTATATATTATATATATTCT--ATATTTGATATATATTATA
89272 -TATTTATATATTAT
1 TTATTTATATATTAT
89286 TTTTATATAT
Statistics
Matches: 84, Mismatches: 6, Indels: 20
0.76 0.05 0.18
Matches are distributed among these distances:
41 25 0.30
42 20 0.24
43 11 0.13
44 3 0.04
45 25 0.30
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (43 bp):
TTATTTATATATTATATATATTCTATATTTGATATATATTATA
Found at i:89264 original size:18 final size:17
Alignment explanation
Indices: 89242--89283 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
89232 TTTTATTTTA
89242 TATATATTCTAAATATT
1 TATATATTCTAAATATT
**
89259 TGATATA-TCTTTATATT
1 T-ATATATTCTAAATATT
89276 TATATATT
1 TATATATT
89284 ATTTTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 5 0.24
17 11 0.52
18 5 0.24
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (17 bp):
TATATATTCTAAATATT
Found at i:89290 original size:13 final size:13
Alignment explanation
Indices: 89269--89307 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
89259 TGATATATCT
*
89269 TTATATTTATATA
1 TTATTTTTATATA
89282 TTATTTTTATATA
1 TTATTTTTATATA
*
89295 TTATTATTATATA
1 TTATTTTTATATA
89308 ATAATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTTTATATA
Found at i:91950 original size:16 final size:16
Alignment explanation
Indices: 91928--91971 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
91918 AGCAAGTACG
*
91928 CTAGTAAATAAATACA
1 CTAGTAAATAAACACA
*
91944 TTAGTAAATAAACACA
1 CTAGTAAATAAACACA
*
91960 CTAGTTAATAAA
1 CTAGTAAATAAA
91972 ATACTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.27
Consensus pattern (16 bp):
CTAGTAAATAAACACA
Found at i:95521 original size:13 final size:13
Alignment explanation
Indices: 95503--95527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95493 TACTATAAAT
95503 CTATATTGATTTA
1 CTATATTGATTTA
95516 CTATATTGATTT
1 CTATATTGATTT
95528 CAACGAAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (13 bp):
CTATATTGATTTA
Found at i:96042 original size:13 final size:13
Alignment explanation
Indices: 96005--96051 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
95995 ATTTTTAATG
96005 TATTTAAATTTATA
1 TATTTAAA-TTATA
96019 TAGTTT--A-TATA
1 TA-TTTAAATTATA
96030 TATTTAAATTATA
1 TATTTAAATTATA
96043 TATTTAAAT
1 TATTTAAAT
96052 GATAAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
10 3 0.10
11 6 0.21
12 1 0.03
13 14 0.48
14 2 0.07
15 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
TATTTAAATTATA
Found at i:97536 original size:18 final size:18
Alignment explanation
Indices: 97503--97596 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
97493 AAGGTTTTCT
97503 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
97518 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
97536 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
97554 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
97572 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
97590 TATTGAT
1 TATTGAT
97597 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:103808 original size:23 final size:21
Alignment explanation
Indices: 103766--103806 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
103756 AATTACTGAT
*
103766 AAAAGTTCTATATATCTATAG
1 AAAAGTTCGATATATCTATAG
*
103787 AAAAGTTGGATATATCTATA
1 AAAAGTTCGATATATCTATA
103807 TAATTAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (21 bp):
AAAAGTTCGATATATCTATAG
Found at i:103844 original size:20 final size:22
Alignment explanation
Indices: 103819--103860 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
103809 ATTAATCTAT
103819 ATCTATA-TA-ATAATAATAAA
1 ATCTATACTATATAATAATAAA
103839 ATCTATATCTATATAATAATAA
1 ATCTATA-CTATATAATAATAA
103861 TAAAATAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
22 2 0.11
23 10 0.53
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (22 bp):
ATCTATACTATATAATAATAAA
Found at i:103847 original size:26 final size:26
Alignment explanation
Indices: 103812--103880 Score: 111
Period size: 26 Copynumber: 2.6 Consensus size: 26
103802 CTATATAATT
103812 AATCTATATCTATATAATAATAATAA
1 AATCTATATCTATATAATAATAATAA
103838 AATCTATATCTATATAATAATAATAA
1 AATCTATATCTATATAATAATAATAA
**
103864 AATAGATAATCTATATA
1 AATCTAT-ATCTATATA
103881 TCTATGGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 31 0.77
27 9 0.22
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (26 bp):
AATCTATATCTATATAATAATAATAA
Found at i:103934 original size:14 final size:14
Alignment explanation
Indices: 103915--103943 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
103905 TAGATAAATA
103915 ATAATCTATATAAC
1 ATAATCTATATAAC
103929 ATAATCTATATAAC
1 ATAATCTATATAAC
103943 A
1 A
103944 AAGTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATCTATATAAC
Found at i:104464 original size:14 final size:14
Alignment explanation
Indices: 104445--104473 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
104435 TCACTTGTAA
104445 TAAGAGTTGAGTTT
1 TAAGAGTTGAGTTT
104459 TAAGAGTTGAGTTT
1 TAAGAGTTGAGTTT
104473 T
1 T
104474 TCATTACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (14 bp):
TAAGAGTTGAGTTT
Found at i:105679 original size:19 final size:19
Alignment explanation
Indices: 105655--105694 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
105645 TTTTTTTTTT
*
105655 ATTAGAATCA-AAAAGTTTA
1 ATTAGAAT-AGAAAAGTATA
105674 ATTAGAATAGAAAAGTATA
1 ATTAGAATAGAAAAGTATA
105693 AT
1 AT
105695 AAAAGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (19 bp):
ATTAGAATAGAAAAGTATA
Found at i:107642 original size:15 final size:15
Alignment explanation
Indices: 107624--107653 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
107614 AAAATAAATA
107624 AAAAGAATTTAATTT
1 AAAAGAATTTAATTT
*
107639 AAAAGAATTTCATTT
1 AAAAGAATTTAATTT
107654 TTTAAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (15 bp):
AAAAGAATTTAATTT
Found at i:109212 original size:23 final size:22
Alignment explanation
Indices: 109157--109214 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
109147 GGCTTCATGC
*
109157 GGTATTGGGCTTGTATGTAATTG
1 GGTATTGGG-TTTTATGTAATTG
*
109180 GGT-TTGGGGTTTTTTGTAAATTG
1 GGTATT-GGGTTTTATGT-AATTG
109203 GGTATTGGGTTT
1 GGTATTGGGTTT
109215 GGGTAGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 8 0.27
23 20 0.67
24 2 0.07
ACGTcount: A:0.14, C:0.02, G:0.36, T:0.48
Consensus pattern (22 bp):
GGTATTGGGTTTTATGTAATTG
Found at i:109581 original size:42 final size:42
Alignment explanation
Indices: 109460--109786 Score: 372
Period size: 42 Copynumber: 8.0 Consensus size: 42
109450 TTCTCCAACA
* * *
109460 CTTCAATCTGCCTCTCTGGATTAGGGGTAAAAGATTGGATGG
1 CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG
*
109502 TCTTCAATATG-CCCTCTCG-TT-GGGGTAAAAGATTGGATGG
1 -CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG
109542 CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG
1 CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG
*
109584 CTTCAATATGCCCCTCTAGACTAGGGGTAAAAGATTGGATGG
1 CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG
* * * **
109626 TCTTCAATCTG-TCATCTAG-TTA-GGGTAAAAGATTTAATGG
1 -CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG
* * *
109666 CTTTAATATGCCCC-AT-G-TTTGGGGTAAAAGATTGGATGG
1 CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG
*
109705 CTTCAATATGCCCCTCTAGACTAGGGGTAAAAGATTGGATGG
1 CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG
* * * * *
109747 TCTTCAGTCTG-CCCTCT-GGTTA-GCGTAAAAGATTGAATGG
1 -CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG
109787 TTGATAGTAC
Statistics
Matches: 245, Mismatches: 29, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
38 3 0.01
39 48 0.20
40 60 0.24
41 10 0.04
42 98 0.40
43 26 0.11
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG
Found at i:109599 original size:82 final size:82
Alignment explanation
Indices: 109460--109786 Score: 389
Period size: 82 Copynumber: 4.0 Consensus size: 82
109450 TTCTCCAACA
* * *
109460 CTTCAATCTGCCTCTCTGGATTAGGGGTAAAAGATTGGATGGTCTTCAATATGCCCTCTCG-TTG
1 CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTCTTCAATATGCCCTCT-GATTG
109524 GGGTAAAAGATTGGATGG
65 GGGTAAAAGATTGGATGG
109542 CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG-CTTCAATATGCCCCTCTAGACT
1 CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTCTTCAATATG-CCCTCT-GA-T
*
109606 AGGGGTAAAAGATTGGATGG
63 TGGGGTAAAAGATTGGATGG
* * * ** * *
109626 TCTTCAATCTG-TCATCTAG-TTA-GGGTAAAAGATTTAATGG-CTTTAATATGCCC-CATGTTT
1 -CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTCTTCAATATGCCCTC-TGATT
109686 GGGGTAAAAGATTGGATGG
64 GGGGTAAAAGATTGGATGG
* * * * *
109705 CTTCAATATGCCCCTCTAGACTAGGGGTAAAAGATTGGATGGTCTTCAGTCTGCCCTCTGGTTAG
1 CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTCTTCAATATGCCCTCTGATTGG
* *
109770 CGTAAAAGATTGAATGG
66 GGTAAAAGATTGGATGG
109787 TTGATAGTAC
Statistics
Matches: 209, Mismatches: 26, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
78 9 0.04
79 26 0.12
80 4 0.02
81 30 0.14
82 101 0.48
83 4 0.02
84 26 0.12
85 9 0.04
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (82 bp):
CTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTCTTCAATATGCCCTCTGATTGG
GGTAAAAGATTGGATGG
Found at i:109743 original size:121 final size:124
Alignment explanation
Indices: 109460--109786 Score: 480
Period size: 121 Copynumber: 2.7 Consensus size: 124
109450 TTCTCCAACA
* * * * * * *
109460 CTTCAATCTGCCTCTCTGGATTAGGGGTAAAAGATTGGATGGTCTTCAATATGCCCTCTCGTTGG
1 CTTCAATATGCCCCTCTAGACTAGGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGTTAG
* *
109525 GGTAAAAGATTGGATGGCTTCAATATGCCCCTCTAGATTAGGGGTAAAAGATTGGATGG
66 GGTAAAAGATTGAATGGCTTCAATATGCCCCTATAGATTAGGGGTAAAAGATTGGATGG
* *
109584 CTTCAATATGCCCCTCTAGACTAGGGGTAAAAGATTGGATGGTCTTCAATCTGTCATCTAGTTAG
1 CTTCAATATGCCCCTCTAGACTAGGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGTTAG
* * *
109649 GGTAAAAGATTTAATGGCTTTAATATGCCCC-AT-G-TTTGGGGTAAAAGATTGGATGG
66 GGTAAAAGATTGAATGGCTTCAATATGCCCCTATAGATTAGGGGTAAAAGATTGGATGG
* *
109705 CTTCAATATGCCCCTCTAGACTAGGGGTAAAAGATTGGATGGTCTTCAGTCTGCCCTCTGGTTAG
1 CTTCAATATGCCCCTCTAGACTAGGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGTTAG
*
109770 CGTAAAAGATTGAATGG
66 GGTAAAAGATTGAATGG
109787 TTGATAGTAC
Statistics
Matches: 183, Mismatches: 20, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
121 97 0.53
122 1 0.01
123 1 0.01
124 84 0.46
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (124 bp):
CTTCAATATGCCCCTCTAGACTAGGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGTTAG
GGTAAAAGATTGAATGGCTTCAATATGCCCCTATAGATTAGGGGTAAAAGATTGGATGG
Found at i:119028 original size:17 final size:17
Alignment explanation
Indices: 119006--119052 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
118996 CACATCCCCT
119006 TTGTCATTGCATTTTAA
1 TTGTCATTGCATTTTAA
* *
119023 TTGTCACTGCA-TTTCA
1 TTGTCATTGCATTTTAA
*
119039 CTGTCATTGCATTT
1 TTGTCATTGCATTT
119053 CCATTTGTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (17 bp):
TTGTCATTGCATTTTAA
Found at i:121792 original size:49 final size:49
Alignment explanation
Indices: 121739--122072 Score: 271
Period size: 49 Copynumber: 6.9 Consensus size: 49
121729 CCTCATCTTC
* ** * *
121739 AGGGTATAAGAATCACCGTTGCGGCTTCAATCTTTCCCTTCACATATCT
1 AGGGTATAAGATTCGTCGTTACGGCTTCAATCTTTCCCTTCACATCTCT
* * * * * *
121788 AGGGTATAAGATTTGTCATTATGGCTTCAGTGTTTCCCTTTACATCTCT
1 AGGGTATAAGATTCGTCGTTACGGCTTCAATCTTTCCCTTCACATCTCT
** *** *
121837 AGGGTATAAGATTTTTCGTTGTAGCTTCAATCTTTTCCTTCACATCTCT
1 AGGGTATAAGATTCGTCGTTACGGCTTCAATCTTTCCCTTCACATCTCT
* * * *
121886 AAGGTATAAGATTCGTCGTTACGGCGTCAATCTTTCCCTTTACATTTCT
1 AGGGTATAAGATTCGTCGTTACGGCTTCAATCTTTCCCTTCACATCTCT
* * * * * * *
121935 AAGGTATAAGAGTCG-CTATTCCAGCTTTAATCTTTCCCTCCACATCTCT
1 AGGGTATAAGATTCGTC-GTTACGGCTTCAATCTTTCCCTTCACATCTCT
* * * * * * *
121984 AAGGTACAA-A--GGCCGTTGCGACTTCAATCTTTCCCTCCACATCTCT
1 AGGGTATAAGATTCGTCGTTACGGCTTCAATCTTTCCCTTCACATCTCT
* * * * *
122030 AGGGTACAAGATTCATCATTACGGCTTCAGTCTTTCCTTTCAC
1 AGGGTATAAGATTCGTCGTTACGGCTTCAATCTTTCCCTTCAC
122073 GTCTTTAAGG
Statistics
Matches: 225, Mismatches: 55, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
46 36 0.16
47 2 0.01
48 2 0.01
49 185 0.82
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (49 bp):
AGGGTATAAGATTCGTCGTTACGGCTTCAATCTTTCCCTTCACATCTCT
Found at i:122710 original size:112 final size:112
Alignment explanation
Indices: 122524--122727 Score: 329
Period size: 112 Copynumber: 1.8 Consensus size: 112
122514 CTAACCACTA
* * * * *
122524 TTTCAATGCAAAAATGTTTGGACAGGATTGTAAGGTGGATAAAATTGAATTTTATTGGAGGTAAA
1 TTTCAATGCAAAAATGCTTGAACAGGATCGTAAGGTAGATAAAATTGAATTTTATTGAAGGTAAA
*
122589 GCTCACATGAATGTAAAGATTAAAAATCATTGGTCTACTAACCGTTT
66 GCTCACATGAATGAAAAGATTAAAAATCATTGGTCTACTAACCGTTT
*
122636 TTTCGATGCAAAAATGCTTGAACAGGGA-CGTAAGGTAGATAAAATTGAATTTTATTGAAGGTAA
1 TTTCAATGCAAAAATGCTTGAACA-GGATCGTAAGGTAGATAAAATTGAATTTTATTGAAGGTAA
122700 AGCTCACATGAATGAAAAGATTAAAAAT
65 AGCTCACATGAATGAAAAGATTAAAAAT
122728 GAAAAATATT
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
112 81 0.96
113 3 0.04
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (112 bp):
TTTCAATGCAAAAATGCTTGAACAGGATCGTAAGGTAGATAAAATTGAATTTTATTGAAGGTAAA
GCTCACATGAATGAAAAGATTAAAAATCATTGGTCTACTAACCGTTT
Found at i:123830 original size:26 final size:26
Alignment explanation
Indices: 123787--123841 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
123777 AATTTTGGGC
*
123787 ACAATTTTGGACACGTTCATGCAGCG
1 ACAATTATGGACACGTTCATGCAGCG
* *
123813 ACAATTATGTACATGTTCATGCAGCG
1 ACAATTATGGACACGTTCATGCAGCG
123839 ACA
1 ACA
123842 TTCCTAGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (26 bp):
ACAATTATGGACACGTTCATGCAGCG
Found at i:124026 original size:37 final size:36
Alignment explanation
Indices: 123948--124041 Score: 102
Period size: 37 Copynumber: 2.6 Consensus size: 36
123938 TATTCCTACG
* * * *
123948 GCGACAGTTTT-GGTGTAATCTGGAAGTGCTCATGC
1 GCGACAGTTTTGGGTGCAATTTAGAAATGCTCATGC
123983 GACGACAGTTTTGGGTGCAATTTAGAAATGCTCATGC
1 G-CGACAGTTTTGGGTGCAATTTAGAAATGCTCATGC
*
124020 AGCGACA-TGTTTGGGCGCAATT
1 -GCGACAGT-TTTGGGTGCAATT
124042 CTGGATTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
35 1 0.02
36 11 0.22
37 37 0.74
38 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (36 bp):
GCGACAGTTTTGGGTGCAATTTAGAAATGCTCATGC
Found at i:128373 original size:26 final size:26
Alignment explanation
Indices: 128330--128414 Score: 129
Period size: 26 Copynumber: 3.3 Consensus size: 26
128320 AATTTTGGGC
*
128330 ACAATTCTAG-ACAAGTTCATGCAGCG
1 ACAATTCT-GTACATGTTCATGCAGCG
128356 ACAATTCTGTACATGTTCATGCAGCG
1 ACAATTCTGTACATGTTCATGCAGCG
*
128382 ACAATTCTGTACATGTTCATGCAACG
1 ACAATTCTGTACATGTTCATGCAGCG
128408 AC-ATTCT
1 ACAATTCT
128415 TGGGTGCAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
25 6 0.11
26 50 0.89
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (26 bp):
ACAATTCTGTACATGTTCATGCAGCG
Found at i:129133 original size:12 final size:13
Alignment explanation
Indices: 129114--129146 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
129104 CCTCAACCTC
*
129114 TCCTTTTTCTTTT
1 TCCTTTTTATTTT
129127 T-CTTTTTATTTT
1 TCCTTTTTATTTT
129139 TCCTTTTT
1 TCCTTTTT
129147 TTTGGGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (13 bp):
TCCTTTTTATTTT
Found at i:130072 original size:11 final size:10
Alignment explanation
Indices: 130056--130095 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
130046 TCATCTTGAA
130056 TTTTTTCTTCT
1 TTTTTTCTT-T
130067 TTTTTTCTTT
1 TTTTTTCTTT
*
130077 TTTTTT-TAT
1 TTTTTTCTTT
130086 TTTTTTCTTT
1 TTTTTTCTTT
130096 GGGTTTCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 8 0.31
10 9 0.35
11 9 0.35
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:130080 original size:19 final size:19
Alignment explanation
Indices: 130056--130095 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
130046 TCATCTTGAA
*
130056 TTTTTTCTTCTTTTTTTCT
1 TTTTTTCTTATTTTTTTCT
*
130075 TTTTTTTTTATTTTTTTCT
1 TTTTTTCTTATTTTTTTCT
130094 TT
1 TT
130096 GGGTTTCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.88
Consensus pattern (19 bp):
TTTTTTCTTATTTTTTTCT
Found at i:133548 original size:15 final size:15
Alignment explanation
Indices: 133530--133559 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
133520 AAAATAAATA
133530 AAAATAATTTCATTT
1 AAAATAATTTCATTT
133545 AAAATAATTTCATTT
1 AAAATAATTTCATTT
133560 TTTTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATAATTTCATTT
Found at i:139971 original size:26 final size:26
Alignment explanation
Indices: 139942--139993 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
139932 AACTGTGGTT
*
139942 AGATCAGATTCATCCATATCATATTA
1 AGATCAGATTCATCCATATCACATTA
* *
139968 AGATCGGATTCATCCGTATCACATTA
1 AGATCAGATTCATCCATATCACATTA
139994 TCACAGGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (26 bp):
AGATCAGATTCATCCATATCACATTA
Found at i:140424 original size:17 final size:18
Alignment explanation
Indices: 140395--140433 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
140385 AATAATTGTG
140395 GTAAGCTTCATAGTTT-A
1 GTAAGCTTCATAGTTTAA
140412 GTAAG-TTCGATAGTTTAA
1 GTAAGCTTC-ATAGTTTAA
140430 GTAA
1 GTAA
140434 TTACCAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.15
17 12 0.60
18 5 0.25
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (18 bp):
GTAAGCTTCATAGTTTAA
Found at i:143356 original size:20 final size:20
Alignment explanation
Indices: 143310--143357 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
143300 CTTTTGATTG
143310 ATGTTTGTGATTTTTTACCA
1 ATGTTTGTGATTTTTTACCA
**
143330 ACATTTGCT-ATTTTTTACCA
1 ATGTTTG-TGATTTTTTACCA
143350 ATGTTTGT
1 ATGTTTGT
143358 AATCTTTGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.54
Consensus pattern (20 bp):
ATGTTTGTGATTTTTTACCA
Found at i:143418 original size:20 final size:21
Alignment explanation
Indices: 143385--143425 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
143375 TATTTTTTTT
143385 CTATTTTTTGACCAACATTTG
1 CTATTTTTTGACCAACATTTG
*
143406 CTATTTTTT-ACCAATATTTG
1 CTATTTTTTGACCAACATTTG
143426 TAATCTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.24, C:0.17, G:0.07, T:0.51
Consensus pattern (21 bp):
CTATTTTTTGACCAACATTTG
Found at i:143462 original size:69 final size:68
Alignment explanation
Indices: 143319--143461 Score: 243
Period size: 69 Copynumber: 2.1 Consensus size: 68
143309 GATGTTTGTG
* *
143319 ATTTTTTACCAACATTTGCTATTTTTTACCAATGTTTGTAATCTTTGGCCATTATTTATTTTTTT
1 ATTTTTTACCAACATTTGCTATTTTTTACCAATATTTGTAATCTTTGGCCATTATTTATATTTTT
*
143384 TCT
66 GCT
143387 ATTTTTTGACCAACATTTGCTATTTTTTACCAATATTTGTAATCTTTGGCCATTATTTA-ATTTT
1 ATTTTTT-ACCAACATTTGCTATTTTTTACCAATATTTGTAATCTTTGGCCATTATTTATATTTT
143451 TGCT
65 TGCT
143455 ATTTTTT
1 ATTTTTT
143462 TATCGATGTT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
68 21 0.30
69 50 0.70
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.57
Consensus pattern (68 bp):
ATTTTTTACCAACATTTGCTATTTTTTACCAATATTTGTAATCTTTGGCCATTATTTATATTTTT
GCT
Found at i:144191 original size:100 final size:100
Alignment explanation
Indices: 144052--144610 Score: 764
Period size: 100 Copynumber: 5.6 Consensus size: 100
144042 GCAGTGGATC
** *
144052 GGATT-AAACTAACAGTAGTAGATCTCAATCTTCACTGAAGTTGCAGTGGAATGGAGTGAAGCCA
1 GGATTAAAACTAACAGTAACAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCA
*
144116 CACCAAATCCTATACCCCTAAAGTTGTAGAGGGGT
66 CACCAAATCCTATACCCCTAAAGTTATAGAGGGGT
* * *
144151 GGATTAAAACTAATAGTAACAAATCTCAATCTCCACTGAAGTTGCAG-AGAATGGAGTGAAGCCA
1 GGATTAAAACTAACAGTAACAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCA
*
144215 CACCAAATCCTATACCCCTAAAGTTGTAGAGGGGT
66 CACCAAATCCTATACCCCTAAAGTTATAGAGGGGT
* * *
144250 GGATTAAAACTAACAGTAACAGATCTCAATCTTCACTAAAGTTGTAGTGGAATGGAGTGAAGCCA
1 GGATTAAAACTAACAGTAACAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCA
*
144315 CACCAAATCCTATACGCCTAAAGTTATAGAGGGGT
66 CACCAAATCCTATACCCCTAAAGTTATAGAGGGGT
* * * * *
144350 GGATTAAAACTAACAGTAGCATATCTCAATCTCTATTGAAGTTACAGTGGAATGGAGTGAAGCCA
1 GGATTAAAACTAACAGTAACAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCA
* * *
144415 CACCAAATCTTATACCCCTAAAGTTTTAGAGGGGC
66 CACCAAATCCTATACCCCTAAAGTTATAGAGGGGT
* * * * *
144450 GGATTAAAACTAACAGTAGCATATATCAATCTCTACTGAAGTTGTAGTGGAATGGAGTGAAGCCA
1 GGATTAAAACTAACAGTAACAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCA
* * *
144515 CACAAAATCCTATACCCCTAAAGTCATAGAGGGGC
66 CACCAAATCCTATACCCCTAAAGTTATAGAGGGGT
* * * * * * * * *
144550 GAATTAGAACTAACCGTAACAGATCTTAATCTCC-TTAAAGTTGTAATGGAATGAAGTGAAG
1 GGATTAAAACTAACAGTAACAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAG
144611 TTACAAACCC
Statistics
Matches: 412, Mismatches: 46, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
99 121 0.29
100 291 0.71
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (100 bp):
GGATTAAAACTAACAGTAACAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAGCCA
CACCAAATCCTATACCCCTAAAGTTATAGAGGGGT
Found at i:144194 original size:53 final size:53
Alignment explanation
Indices: 144133--144296 Score: 146
Period size: 53 Copynumber: 3.2 Consensus size: 53
144123 TCCTATACCC
*
144133 CTAAAGTTGTAGAGGGGTGGATTAAAACTAATAGTAACAAATCTCAATCTCCA
1 CTAAAGTTGTAGAGGGGTGGATTAAAACTAACAGTAACAAATCTCAATCTCCA
* * ** * * * * * *
144186 CTGAAGTTGCAGA-GAATGGAGTGAAGC---CA-CACCAAATC-CTATAC-CC-
1 CTAAAGTTGTAGAGGGGTGGATTAAAACTAACAGTAACAAATCTCAAT-CTCCA
* *
144232 CTAAAGTTGTAGAGGGGTGGATTAAAACTAACAGTAACAGATCTCAATCTTCA
1 CTAAAGTTGTAGAGGGGTGGATTAAAACTAACAGTAACAAATCTCAATCTCCA
144285 CTAAAGTTGTAG
1 CTAAAGTTGTAG
144297 TGGAATGGAG
Statistics
Matches: 79, Mismatches: 23, Indels: 18
0.66 0.19 0.15
Matches are distributed among these distances:
46 11 0.14
47 14 0.18
48 8 0.10
49 1 0.01
50 2 0.03
51 7 0.09
52 13 0.16
53 23 0.29
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (53 bp):
CTAAAGTTGTAGAGGGGTGGATTAAAACTAACAGTAACAAATCTCAATCTCCA
Found at i:145248 original size:28 final size:28
Alignment explanation
Indices: 145217--145272 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
145207 GTTCAAATAC
145217 AATACAAACCCAAATGCCCCAAACCCAA
1 AATACAAACCCAAATGCCCCAAACCCAA
* * *
145245 AATACAAACTCAAATGCCCTAAGCCCAA
1 AATACAAACCCAAATGCCCCAAACCCAA
145273 TTTTACAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.48, C:0.36, G:0.05, T:0.11
Consensus pattern (28 bp):
AATACAAACCCAAATGCCCCAAACCCAA
Found at i:146575 original size:4 final size:4
Alignment explanation
Indices: 146568--146746 Score: 102
Period size: 4 Copynumber: 43.2 Consensus size: 4
146558 GAATTTAATT
* *
146568 TTTA TTTA TCGTT- TTTA TTTA TTTA TTT- GTTA TTCA TTT- TTTA TGTTA
1 TTTA TTTA T--TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA
* **
146616 TTTA TATTC TTGCC TTTA TTTAA CTTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA T-TTA TT-TA TTTA TTT-A -TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
146664 -TTA TGTA TTTTA TTTA TTT- GTTA TTT- TTTA TGTTA TTTA TATTT TTGTT
1 TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA T-TTA TT-TA
*
146713 TTTA TTTAA TTTTA TTTA TTT- GTTA TTTA TTTA T
1 TTTA TTT-A -TTTA TTTA TTTA TTTA TTTA TTTA T
146747 ATGTCATTTA
Statistics
Matches: 139, Mismatches: 16, Indels: 40
0.71 0.08 0.21
Matches are distributed among these distances:
3 17 0.12
4 85 0.61
5 29 0.21
6 8 0.06
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:146700 original size:83 final size:84
Alignment explanation
Indices: 146585--146761 Score: 243
Period size: 83 Copynumber: 2.1 Consensus size: 84
146575 ATCGTTTTTA
146585 TTTATTTATTTGTTATTCATTTTTTATGTTATTTATATTCTTGCCTTTATTTAACTTTATTTATT
1 TTTATTTATTTG-T-TTCATTTTTTATGTTATTTATATTCTTGCCTTTATTTAACTTTATTTATT
*
146650 TATTTATTTATTTATTATGT-AT
64 T-GTTATTTATTTA-TATGTCAT
* ** *
146672 TTTATTTATTTG-TT-ATTTTTTATGTTATTTATATTTTTGTTTTTATTTAATTTTATTTATTTG
1 TTTATTTATTTGTTTCATTTTTTATGTTATTTATATTCTTGCCTTTATTTAACTTTATTTATTTG
146735 TTATTTATTTATATGTCAT
66 TTATTTATTTATATGTCAT
146754 TTATATTT
1 TT-TATTT
146762 TTTTTGCCTT
Statistics
Matches: 83, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
81 5 0.06
82 15 0.18
83 49 0.59
84 2 0.02
87 12 0.14
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.70
Consensus pattern (84 bp):
TTTATTTATTTGTTTCATTTTTTATGTTATTTATATTCTTGCCTTTATTTAACTTTATTTATTTG
TTATTTATTTATATGTCAT
Found at i:146727 original size:51 final size:53
Alignment explanation
Indices: 146631--146763 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 53
146621 ATTCTTGCCT
*
146631 TTATTTAACTTTAT-TTATTTAT-TTATTTATTTATTATGTATTTTATTTATTTG
1 TTATTT-ATTTTATGTTATTTATATT-TTTATTTATTATGTATTTTATTTATTTG
* *
146684 TTA-TT-TTTTATGTTATTTATATTTTTGTTT-TTATTTAATTTTATTTATTTG
1 TTATTTATTTTATGTTATTTATATTTTTATTTATTATGT-ATTTTATTTATTTG
*
146735 TTATTTATTTATATGTCATTTATATTTTT
1 TTATTTATTT-TATGTTATTTATATTTTT
146764 TTTGCCTTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
50 10 0.14
51 31 0.44
52 6 0.09
53 6 0.09
54 17 0.24
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.71
Consensus pattern (53 bp):
TTATTTATTTTATGTTATTTATATTTTTATTTATTATGTATTTTATTTATTTG
Found at i:146755 original size:15 final size:15
Alignment explanation
Indices: 146723--146757 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
146713 TTTATTTAAT
* *
146723 TTTATTTATTTGTTA
1 TTTATTTATATGTCA
146738 TTTATTTATATGTCA
1 TTTATTTATATGTCA
146753 TTTAT
1 TTTAT
146758 ATTTTTTTTG
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:0.23, C:0.03, G:0.06, T:0.69
Consensus pattern (15 bp):
TTTATTTATATGTCA
Found at i:146862 original size:20 final size:17
Alignment explanation
Indices: 146837--146880 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 17
146827 TTATTGTGTT
*
146837 TTTTTATATATTTATTATTA
1 TTTTTATA-ATTAATTA--A
146857 TTTTTATAATTAATTAA
1 TTTTTATAATTAATTAA
146874 TTTTTAT
1 TTTTTAT
146881 TATCATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
19 7 0.30
20 8 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTATAATTAATTAA
Found at i:146878 original size:18 final size:19
Alignment explanation
Indices: 146836--146878 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
146826 ATTATTGTGT
* *
146836 TTTTTTATATATTTATTAT
1 TTTTTTATATATTAATTAA
146855 TATTTTTATA-ATTAATTAA
1 T-TTTTTATATATTAATTAA
146874 TTTTT
1 TTTTT
146879 ATTATCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 8 0.38
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTATATATTAATTAA
Found at i:146883 original size:20 final size:18
Alignment explanation
Indices: 146835--146888 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
146825 CATTATTGTG
*
146835 TTTTTTTATATATTTATTA
1 TTTTTTTATA-ATTAATTA
146854 TTATTTTTATAATTAATTAA
1 TT-TTTTTATAATTAATT-A
*
146874 TTTTTATTATCATTA
1 TTTTT-TTATAATTA
146889 TTTTTACAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTTTATAATTAATTA
Found at i:146921 original size:32 final size:30
Alignment explanation
Indices: 146847--146927 Score: 83
Period size: 32 Copynumber: 2.6 Consensus size: 30
146837 TTTTTATATA
*
146847 TTTA-TTATTATTTTTATAATTAATTAATT
1 TTTATTTATTATTTTTACAATTAATTAATT
**
146876 TTTATTATCATTATTTTTACAATTGAATTGTTAT
1 TTTATT-T-ATTATTTTTACAATT-AATTAAT-T
*
146910 TTTATTTATTATTATTAC
1 TTTATTTATTATTTTTAC
146928 TCTCATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
29 4 0.09
30 1 0.02
31 1 0.02
32 24 0.56
33 6 0.14
34 7 0.16
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (30 bp):
TTTATTTATTATTTTTACAATTAATTAATT
Found at i:148891 original size:272 final size:272
Alignment explanation
Indices: 148405--148948 Score: 937
Period size: 272 Copynumber: 2.0 Consensus size: 272
148395 GATTGAAAGT
* * *
148405 CTTATATGTCGTGTATCAAGTCCAATTGCGAAGATACCTTGTTTGGGCATCAAAGTAGATAACTC
1 CTTATATGTCATCTAACAAGTCCAATTGCGAAGATACCTTGTTTGGGCATCAAAGTAGATAACTC
* *
148470 CTAGAAGATTGAGACATAGATGTGATTGACTGGACTGACGGTACATCGAACATGACCCAAGCAGA
66 CTAGAAGATTGAGACATAAATGTGATTGACTGGACTAACGGTACATCGAACATGACCCAAGCAGA
*
148535 ATAGATCTTGAATTCGTTTATGGATTTATTCACTTGCTACATGCATAATGTGGCATACCTAAATC
131 ATAGATCCTGAATTCGTTTATGGATTTATTCACTTGCTACATGCATAATGTGGCATACCTAAATC
* * *
148600 TTTAGTGGATGATGGACTATGTATG-TGTGACTTATACACTTTAATGTAAGTAAAAGTCAGACTT
196 TTGAGTGGATGACGGACTATGTATGCT-TGACTCATACACTTTAATGTAAGTAAAAGTCAGACTT
*
148664 CCAATAGATAAGA
260 CAAATAGATAAGA
*
148677 CTTATATGTCATCTAACAAGTCCAATTGCGAAGATGCCTTGTTTGGGCATCAAAGTAGATAACTC
1 CTTATATGTCATCTAACAAGTCCAATTGCGAAGATACCTTGTTTGGGCATCAAAGTAGATAACTC
* *
148742 CTAGAAGATTGAGACATAAATGTGATTGATTGGACTAACTGTACATCGAACATGACCCAAGCAGA
66 CTAGAAGATTGAGACATAAATGTGATTGACTGGACTAACGGTACATCGAACATGACCCAAGCAGA
*
148807 ATAGATCCTGAATTCGTTTATGGATTTATTCACTTGTTACATGCATAATGTGGCATACCTAAATC
131 ATAGATCCTGAATTCGTTTATGGATTTATTCACTTGCTACATGCATAATGTGGCATACCTAAATC
*
148872 TTGAGTGGATGACGGACTATGTATGCTTGACTCGTACACTTTAATGTAAGTAAAAGTCAGACTTC
196 TTGAGTGGATGACGGACTATGTATGCTTGACTCATACACTTTAATGTAAGTAAAAGTCAGACTTC
148937 AAATAGATAAGA
261 AAATAGATAAGA
148949 AATCGAAAGC
Statistics
Matches: 256, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
272 255 1.00
273 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (272 bp):
CTTATATGTCATCTAACAAGTCCAATTGCGAAGATACCTTGTTTGGGCATCAAAGTAGATAACTC
CTAGAAGATTGAGACATAAATGTGATTGACTGGACTAACGGTACATCGAACATGACCCAAGCAGA
ATAGATCCTGAATTCGTTTATGGATTTATTCACTTGCTACATGCATAATGTGGCATACCTAAATC
TTGAGTGGATGACGGACTATGTATGCTTGACTCATACACTTTAATGTAAGTAAAAGTCAGACTTC
AAATAGATAAGA
Found at i:149786 original size:25 final size:25
Alignment explanation
Indices: 149749--149807 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
149739 AATTTTATTG
*
149749 AAATTTTATCGGGGTAAAATCGTCA
1 AAATTTTACCGGGGTAAAATCGTCA
*
149774 AAATTTTACCGGGGTAAAATCGTTA
1 AAATTTTACCGGGGTAAAATCGTCA
149799 AAATTTTAC
1 AAATTTTAC
149808 TAGAGTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (25 bp):
AAATTTTACCGGGGTAAAATCGTCA
Found at i:149815 original size:25 final size:25
Alignment explanation
Indices: 149762--149818 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
149752 TTTTATCGGG
* *
149762 GTAAAATCGTCAAAATTTTACCGGG
1 GTAAAATCGTCAAAATTTTACCAGA
* *
149787 GTAAAATCGTTAAAATTTTACTAGA
1 GTAAAATCGTCAAAATTTTACCAGA
149812 GTAAAAT
1 GTAAAAT
149819 TGGGATGACA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (25 bp):
GTAAAATCGTCAAAATTTTACCAGA
Found at i:155900 original size:20 final size:20
Alignment explanation
Indices: 155875--155960 Score: 77
Period size: 20 Copynumber: 4.4 Consensus size: 20
155865 AGAAAACCTT
155875 TTTACCAAAATATCTAAGGA
1 TTTACCAAAATATCTAAGGA
* *
155895 TTTACCAATATTTCTAA-GA
1 TTTACCAAAATATCTAAGGA
*
155914 -CTACCAAAATATCTAAGGA
1 TTTACCAAAATATCTAAGGA
* * * * *
155933 CTTACTAATATTTCCAAGGA
1 TTTACCAAAATATCTAAGGA
*
155953 TTTGCCAA
1 TTTACCAA
155961 TATTTCTAAA
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
18 13 0.25
19 4 0.08
20 34 0.67
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (20 bp):
TTTACCAAAATATCTAAGGA
Found at i:166537 original size:21 final size:22
Alignment explanation
Indices: 166474--166550 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
166464 AGGGGTTTAA
* * * *
166474 TTTATAATTAGGGTTTAGGTTT
1 TTTAAAATTAGAGTTAAGGATT
*
166496 TATTAAAATTAAAGTTTAAGG-TT
1 T-TTAAAATTAGAG-TTAAGGATT
*
166519 TTTAAAATTAGAGTTAAGGAAT
1 TTTAAAATTAGAGTTAAGGATT
166541 TTT-AAATTAG
1 TTTAAAATTAG
166551 GGTTTAGGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 13 0.28
22 16 0.35
23 12 0.26
24 5 0.11
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (22 bp):
TTTAAAATTAGAGTTAAGGATT
Found at i:166638 original size:17 final size:19
Alignment explanation
Indices: 166601--166638 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
166591 GTTTTAGTGG
*
166601 TTTATTTAATTTTTGAGTT
1 TTTATTTAATTTTGGAGTT
166620 TTTA-TTAATTTTGGA-TT
1 TTTATTTAATTTTGGAGTT
166637 TT
1 TT
166639 AGTGTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 10 0.56
19 4 0.22
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (19 bp):
TTTATTTAATTTTGGAGTT
Found at i:166656 original size:43 final size:43
Alignment explanation
Indices: 166553--166681 Score: 133
Period size: 43 Copynumber: 3.1 Consensus size: 43
166543 TAAATTAGGG
* * * *
166553 TTTAG-GGTTTATTTAATTTATAAGTGTTTAGGT--TTA-GGGT
1 TTTAGTGGTTTATTTAATTTTTAAGTTTTTA-TTAATTATGGAT
* *
166593 TTTAGTGGTTTATTTAATTTTTGAGTTTTTATTAATTTTGGAT
1 TTTAGTGGTTTATTTAATTTTTAAGTTTTTATTAATTATGGAT
* *
166636 TTTAGT-GTTATATTTTATTTTTAAGTTTTTATTAATTATGGTT
1 TTTAGTGGTT-TATTTAATTTTTAAGTTTTTATTAATTATGGAT
166679 TTT
1 TTT
166682 GGATTTTAGG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
40 6 0.08
41 22 0.30
42 5 0.07
43 41 0.55
ACGTcount: A:0.22, C:0.00, G:0.17, T:0.61
Consensus pattern (43 bp):
TTTAGTGGTTTATTTAATTTTTAAGTTTTTATTAATTATGGAT
Found at i:171673 original size:20 final size:20
Alignment explanation
Indices: 171650--171703 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
171640 ATGTTATGTT
171650 ATTAATCAATTTATCACATC
1 ATTAATCAATTTATCACATC
* *
171670 ATTAATCAATGTGTCACATC
1 ATTAATCAATTTATCACATC
*
171690 ACTAATCAATTTAT
1 ATTAATCAATTTAT
171704 AATGTCATTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39
Consensus pattern (20 bp):
ATTAATCAATTTATCACATC
Found at i:173145 original size:20 final size:20
Alignment explanation
Indices: 173122--173162 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
173112 TTGTACATAG
173122 TCTCTAATGAAGTTTACTAC
1 TCTCTAATGAAGTTTACTAC
173142 TCTCTAATGAAGTTTACTAC
1 TCTCTAATGAAGTTTACTAC
173162 T
1 T
173163 ATAAACCCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (20 bp):
TCTCTAATGAAGTTTACTAC
Found at i:179103 original size:72 final size:72
Alignment explanation
Indices: 179017--179158 Score: 284
Period size: 72 Copynumber: 2.0 Consensus size: 72
179007 AAATTTTTAC
179017 TAAAAATTTCATAATTTCCACTTAAGCAAATTAATACAGTATTTTTTAAAACTTTCCCATGTTCT
1 TAAAAATTTCATAATTTCCACTTAAGCAAATTAATACAGTATTTTTTAAAACTTTCCCATGTTCT
179082 GTTACCA
66 GTTACCA
179089 TAAAAATTTCATAATTTCCACTTAAGCAAATTAATACAGTATTTTTTAAAACTTTCCCATGTTCT
1 TAAAAATTTCATAATTTCCACTTAAGCAAATTAATACAGTATTTTTTAAAACTTTCCCATGTTCT
179154 GTTAC
66 GTTAC
179159 TAGACAGCTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.41
Consensus pattern (72 bp):
TAAAAATTTCATAATTTCCACTTAAGCAAATTAATACAGTATTTTTTAAAACTTTCCCATGTTCT
GTTACCA
Found at i:183787 original size:2 final size:2
Alignment explanation
Indices: 183782--183808 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
183772 TATATATATA
183782 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
183809 ACTTAGGTGA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:184307 original size:2 final size:2
Alignment explanation
Indices: 184300--184337 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
184290 AAAGAACAAA
*
184300 AG AG AG AG AG AG AG AC AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
184338 TTTTGAGTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:189414 original size:2 final size:2
Alignment explanation
Indices: 189407--189436 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
189397 AAAGAACACA
*
189407 AG AG AG AG AG AG AG AG AG AA AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
189437 TTTTGAGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:196552 original size:21 final size:21
Alignment explanation
Indices: 196527--196628 Score: 98
Period size: 21 Copynumber: 4.9 Consensus size: 21
196517 GACTATGTAA
196527 TGCCCCTGAATAGCACTATAG
1 TGCCCCTGAATAGCACTATAG
* * *
196548 TGCCCTTGAATGGCACTATGG
1 TGCCCCTGAATAGCACTATAG
* *
196569 TGCCTCTGAATTGCACTAT-G
1 TGCCCCTGAATAGCACTATAG
* * *
196589 ATGCCCCTAAAAAGCACTACAG
1 -TGCCCCTGAATAGCACTATAG
* *
196611 TGCCCCTAAATTGCACTA
1 TGCCCCTGAATAGCACTA
196629 CGATGCCCCT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
20 1 0.02
21 64 0.97
22 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (21 bp):
TGCCCCTGAATAGCACTATAG
Found at i:196594 original size:42 final size:42
Alignment explanation
Indices: 196527--196649 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
196517 GACTATGTAA
* * * ** **
196527 TGCCCCTGAATAGCACTAT-AGTGCCCTTGAATGGCACTATGG
1 TGCCCCTGAATTGCACTATGA-TGCCCCTAAAAAGCACTACAG
*
196569 TGCCTCTGAATTGCACTATGATGCCCCTAAAAAGCACTACAG
1 TGCCCCTGAATTGCACTATGATGCCCCTAAAAAGCACTACAG
* * *
196611 TGCCCCTAAATTGCACTACGATGCCCCTATAAATGCACT
1 TGCCCCTGAATTGCACTATGATGCCCCTA-AAAAGCACT
196650 TCGGCCTCCG
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
42 58 0.87
43 9 0.13
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (42 bp):
TGCCCCTGAATTGCACTATGATGCCCCTAAAAAGCACTACAG
Found at i:196629 original size:21 final size:21
Alignment explanation
Indices: 196527--196649 Score: 79
Period size: 21 Copynumber: 5.8 Consensus size: 21
196517 GACTATGTAA
* * *
196527 TGCCCCTGAATAGCACTATAG
1 TGCCCCTAAATTGCACTACAG
* * * **
196548 TGCCCTTGAATGGCACTATGG
1 TGCCCCTAAATTGCACTACAG
* * *
196569 TGCCTCTGAATTGCACTA-TG
1 TGCCCCTAAATTGCACTACAG
**
196589 ATGCCCCTAAAAAGCACTACAG
1 -TGCCCCTAAATTGCACTACAG
196611 TGCCCCTAAATTGCACTAC-G
1 TGCCCCTAAATTGCACTACAG
*
196631 ATGCCCCTATAAATGCACT
1 -TGCCCCTA-AATTGCACT
196650 TCGGCCTCCG
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.02
21 72 0.87
22 9 0.11
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (21 bp):
TGCCCCTAAATTGCACTACAG
Found at i:197475 original size:74 final size:74
Alignment explanation
Indices: 197360--197497 Score: 188
Period size: 74 Copynumber: 1.9 Consensus size: 74
197350 AAGTTATGGT
* **
197360 GGTACACGGCCTCTAACACGGACTGTCACACGGTTGTGTGTGTAATTTTAAGTGCAGGGCATTTA
1 GGTACACAGCCTCTAACACGGACTGTCACACGGCCGTGTGTGTAATTTTAAGTGCAGGGCATTTA
197425 TGTTGAGTA
66 TGTTGAGTA
* * * * *
197434 GGTACACAGCCTGTGACACAGG-CTGTCACATGGCCGTGTGTGTATTTTTAGGTGCAGGGCATTT
1 GGTACACAGCCTCTAACAC-GGACTGTCACACGGCCGTGTGTGTAATTTTAAGTGCAGGGCATTT
197498 GTTCGAGTAG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 53 0.96
75 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (74 bp):
GGTACACAGCCTCTAACACGGACTGTCACACGGCCGTGTGTGTAATTTTAAGTGCAGGGCATTTA
TGTTGAGTA
Found at i:206373 original size:48 final size:47
Alignment explanation
Indices: 206302--206553 Score: 297
Period size: 48 Copynumber: 5.3 Consensus size: 47
206292 ACAACAACTC
* * * *
206302 ATATACGTTTACACTCGTTAGCTTGCACACATTTACTCTCATCGACTT
1 ATATACGTTTACGCTCGTCAGCTTGCACACATTTACGCTCGTC-ACTT
* ** ** *
206350 ATATACGTTTACGCTCATCAGCTTATATTCGTTTACGCTCGTCAGCTT
1 ATATACGTTTACGCTCGTCAGCTTGCACACATTTACGCTCGTCA-CTT
*
206398 ATATACATTTACGCTCGTCAGCTTGCACACATTTACGCTCGTCAGCTT
1 ATATACGTTTACGCTCGTCAGCTTGCACACATTTACGCTCGTCA-CTT
* * *
206446 ATATACGTTTACGCTCGTCAACTTGCACACGTTTACGCTCATCAACTT
1 ATATACGTTTACGCTCGTCAGCTTGCACACATTTACGCTCGTC-ACTT
* * *
206494 ATATACATTTACGCTCGTCAGCTTGCATACATTTACACTCGTCAACTT
1 ATATACGTTTACGCTCGTCAGCTTGCACACATTTACGCTCGTC-ACTT
*
206542 ATATATGTTTAC
1 ATATACGTTTAC
206554 AATATTTCAT
Statistics
Matches: 173, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
47 1 0.01
48 171 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.37
Consensus pattern (47 bp):
ATATACGTTTACGCTCGTCAGCTTGCACACATTTACGCTCGTCACTT
Found at i:206421 original size:96 final size:95
Alignment explanation
Indices: 206296--206553 Score: 336
Period size: 96 Copynumber: 2.7 Consensus size: 95
206286 TATTACACAA
* * * * * *
206296 CAACTCATATACGTTTACACTCGTTAGCTTGCACACATTTACTCTCATCGACTTATATACGTTTA
1 CAACTTATATACATTTACGCTCGTCAGCTTGCACACATTTACACTCGTC-ACTTATATACGTTTA
* * ** *
206361 CGCTCATCAGCTTATATTCGTTTACGCTCGT
65 CGCTCATCAACTTACACACGTTTACGCTCAT
* *
206392 CAGCTTATATACATTTACGCTCGTCAGCTTGCACACATTTACGCTCGTCAGCTTATATACGTTTA
1 CAACTTATATACATTTACGCTCGTCAGCTTGCACACATTTACACTCGTCA-CTTATATACGTTTA
* *
206457 CGCTCGTCAACTTGCACACGTTTACGCTCAT
65 CGCTCATCAACTTACACACGTTTACGCTCAT
* *
206488 CAACTTATATACATTTACGCTCGTCAGCTTGCATACATTTACACTCGTCAACTTATATATGTTTA
1 CAACTTATATACATTTACGCTCGTCAGCTTGCACACATTTACACTCGTC-ACTTATATACGTTTA
206553 C
65 C
206554 AATATTTCAT
Statistics
Matches: 142, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
95 1 0.01
96 140 0.99
97 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (95 bp):
CAACTTATATACATTTACGCTCGTCAGCTTGCACACATTTACACTCGTCACTTATATACGTTTAC
GCTCATCAACTTACACACGTTTACGCTCAT
Found at i:206552 original size:72 final size:72
Alignment explanation
Indices: 206333--206553 Score: 262
Period size: 72 Copynumber: 3.1 Consensus size: 72
206323 CTTGCACACA
* * * * * *
206333 TTTACTCTCATCGACTTATATACGTTTACGCTCATCAGCTTATATTCGTTTACGCTCGTCAGCTT
1 TTTACGCTCATCAACTTATATACATTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCAACTT
*
206398 ATATACA
66 ATATACG
* * ** *
206405 TTTACGCTCGTCAGCTTGCACACATTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCAACTT
1 TTTACGCTCATCAACTTATATACATTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCAACTT
** *
206470 GCACACG
66 ATATACG
** * *
206477 TTTACGCTCATCAACTTATATACATTTACGCTCGTCAGCTTGCATACATTTACACTCGTCAACTT
1 TTTACGCTCATCAACTTATATACATTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCAACTT
*
206542 ATATATG
66 ATATACG
206549 TTTAC
1 TTTAC
206554 AATATTTCAT
Statistics
Matches: 121, Mismatches: 28, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
72 121 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (72 bp):
TTTACGCTCATCAACTTATATACATTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCAACTT
ATATACG
Done.