Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 425 of 433
Found at i:130472182 original size:16 final size:16
Alignment explanation
Indices: 130472161--130472211 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
130472151 CACGTGGGTG
130472161 AAATATTTTATATAAT
1 AAATATTTTATATAAT
*
130472177 AAATATATT-TATAA-
1 AAATATTTTATATAAT
*
130472191 AAATA-TATATATAAAT
1 AAATATTTTATAT-AAT
130472207 AAATA
1 AAATA
130472212 CAACTTTGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 1 0.03
14 8 0.28
15 7 0.24
16 13 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATATTTTATATAAT
Found at i:130472195 original size:18 final size:17
Alignment explanation
Indices: 130472161--130472202 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
130472151 CACGTGGGTG
*
130472161 AAATAT-TTTATATAAT
1 AAATATATTTATAAAAT
130472177 AAATATATTTATAAAAAT
1 AAATATATTTAT-AAAAT
*
130472195 ATATATAT
1 AAATATAT
130472203 AAATAAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 6 0.27
17 5 0.23
18 11 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATATATTTATAAAAT
Found at i:130474767 original size:29 final size:29
Alignment explanation
Indices: 130474702--130474848 Score: 152
Period size: 29 Copynumber: 5.0 Consensus size: 29
130474692 TCACACTTAT
** * * *
130474702 AAGGTTCCCACATATAGGGTTCACACCTAT
1 AAGGTTCGTACATAT-GGATTCGCACCTAC
*
130474732 AAGGTTCGTACATATGGATTAGCACCTAC
1 AAGGTTCGTACATATGGATTCGCACCTAC
*
130474761 AAGGTTCGTACATATGGGTTCGCACCTAC
1 AAGGTTCGTACATATGGATTCGCACCTAC
** * *
130474790 -AGGATTCGCGCATATGGGTTCGCACCTAT
1 AAGG-TTCGTACATATGGATTCGCACCTAC
* *
130474819 AGGGTTCGTACATATGGATTCGCACTTAC
1 AAGGTTCGTACATATGGATTCGCACCTAC
130474848 A
1 A
130474849 GGATTCACGC
Statistics
Matches: 98, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
28 3 0.03
29 80 0.82
30 15 0.15
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (29 bp):
AAGGTTCGTACATATGGATTCGCACCTAC
Found at i:130474804 original size:58 final size:58
Alignment explanation
Indices: 130474702--130474864 Score: 184
Period size: 58 Copynumber: 2.8 Consensus size: 58
130474692 TCACACTTAT
** * * **
130474702 AAGGTTCCCACATATAGGGTTCACACCTATAAGG-TTCGTACATATGGATTAGCACCTAC
1 AAGGTTCGTACATAT-GGGTTCGCACCTA-CAGGATTCGCGCATATGGATTAGCACCTAC
* * *
130474761 AAGGTTCGTACATATGGGTTCGCACCTACAGGATTCGCGCATATGGGTTCGCACCTAT
1 AAGGTTCGTACATATGGGTTCGCACCTACAGGATTCGCGCATATGGATTAGCACCTAC
* * * *
130474819 AGGGTTCGTACATATGGATTCGCACTTACAGGATTCACGCATATGG
1 AAGGTTCGTACATATGGGTTCGCACCTACAGGATTCGCGCATATGG
130474865 GTTCACACAT
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 3 0.03
58 74 0.82
59 13 0.14
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (58 bp):
AAGGTTCGTACATATGGGTTCGCACCTACAGGATTCGCGCATATGGATTAGCACCTAC
Found at i:130474825 original size:15 final size:15
Alignment explanation
Indices: 130474687--130474927 Score: 150
Period size: 15 Copynumber: 16.4 Consensus size: 15
130474677 GTTCACACGA
* *
130474687 AGGGTTCACACTTAT
1 AGGGTTCGCACATAT
* *
130474702 AAGGTTCCCACATAT
1 AGGGTTCGCACATAT
* *
130474717 AGGGTTCACACCTAT
1 AGGGTTCGCACATAT
* *
130474732 AAGGTTCGTACATAT
1 AGGGTTCGCACATAT
* * * *
130474747 -GGATTAGCACCTAC
1 AGGGTTCGCACATAT
* *
130474761 AAGGTTCGTACATAT
1 AGGGTTCGCACATAT
* *
130474776 -GGGTTCGCACCTAC
1 AGGGTTCGCACATAT
* *
130474790 AGGATTCGCGCATAT
1 AGGGTTCGCACATAT
*
130474805 -GGGTTCGCACCTAT
1 AGGGTTCGCACATAT
*
130474819 AGGGTTCGTACATAT
1 AGGGTTCGCACATAT
* * *
130474834 -GGATTCGCACTTAC
1 AGGGTTCGCACATAT
* * *
130474848 AGGATTCACGCATAT
1 AGGGTTCGCACATAT
* *
130474863 -GGGTTCACACATGT
1 AGGGTTCGCACATAT
* *
130474877 AGGGTTCACACCTAT
1 AGGGTTCGCACATAT
*
130474892 AGGGTTCGCACATGT
1 AGGGTTCGCACATAT
* *
130474907 AGGGTTCGTATATAT
1 AGGGTTCGCACATAT
130474922 AGGGTT
1 AGGGTT
130474928 TGCATATTAA
Statistics
Matches: 167, Mismatches: 54, Indels: 10
0.72 0.23 0.04
Matches are distributed among these distances:
14 50 0.30
15 117 0.70
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (15 bp):
AGGGTTCGCACATAT
Found at i:130474861 original size:29 final size:29
Alignment explanation
Indices: 130474742--130474868 Score: 139
Period size: 29 Copynumber: 4.4 Consensus size: 29
130474732 AAGGTTCGTA
* * **
130474742 CATATGGATTAGCACCTACAAGG-TTCGTA
1 CATATGGGTTCGCACCTAC-AGGATTCGCG
130474771 CATATGGGTTCGCACCTACAGGATTCGCG
1 CATATGGGTTCGCACCTACAGGATTCGCG
* * **
130474800 CATATGGGTTCGCACCTATAGGGTTCGTA
1 CATATGGGTTCGCACCTACAGGATTCGCG
* * *
130474829 CATATGGATTCGCACTTACAGGATTCACG
1 CATATGGGTTCGCACCTACAGGATTCGCG
130474858 CATATGGGTTC
1 CATATGGGTTC
130474869 ACACATGTAG
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 3 0.04
29 78 0.96
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (29 bp):
CATATGGGTTCGCACCTACAGGATTCGCG
Found at i:130474865 original size:58 final size:58
Alignment explanation
Indices: 130474742--130474883 Score: 194
Period size: 58 Copynumber: 2.4 Consensus size: 58
130474732 AAGGTTCGTA
* * * * * *
130474742 CATATGGATTAGCACCTACAAGGTTCGTACATATGGGTTCGCACCTACAGGATTCGCG
1 CATATGGGTTCGCACCTATAGGGTTCGTACATATGGATTCGCACCTACAGGATTCACG
*
130474800 CATATGGGTTCGCACCTATAGGGTTCGTACATATGGATTCGCACTTACAGGATTCACG
1 CATATGGGTTCGCACCTATAGGGTTCGTACATATGGATTCGCACCTACAGGATTCACG
* * *
130474858 CATATGGGTTCACACATGTAGGGTTC
1 CATATGGGTTCGCACCTATAGGGTTC
130474884 ACACCTATAG
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 74 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (58 bp):
CATATGGGTTCGCACCTATAGGGTTCGTACATATGGATTCGCACCTACAGGATTCACG
Found at i:130474884 original size:29 final size:29
Alignment explanation
Indices: 130474688--130474913 Score: 137
Period size: 29 Copynumber: 7.7 Consensus size: 29
130474678 TTCACACGAA
* * * *
130474688 GGGTTCACACTTATAAGGTTCCCACATAT
1 GGGTTCGCACATATAGGGTTCACACATAT
* * * **
130474717 AGGGTTCACACCTATAAGGTTCGTACATAT
1 -GGGTTCGCACATATAGGGTTCACACATAT
* * * * * **
130474747 GGATTAGCACCTACAAGGTTCGTACATAT
1 GGGTTCGCACATATAGGGTTCACACATAT
* * * * *
130474776 GGGTTCGCACCTACAGGATTCGCGCATAT
1 GGGTTCGCACATATAGGGTTCACACATAT
* **
130474805 GGGTTCGCACCTATAGGGTTCGTACATAT
1 GGGTTCGCACATATAGGGTTCACACATAT
* * * * *
130474834 GGATTCGCACTTACAGGATTCACGCATAT
1 GGGTTCGCACATATAGGGTTCACACATAT
* * *
130474863 GGGTTCACACATGTAGGGTTCACACCTAT
1 GGGTTCGCACATATAGGGTTCACACATAT
*
130474892 AGGGTTCGCACATGTAGGGTTC
1 -GGGTTCGCACATATAGGGTTC
130474914 GTATATATAG
Statistics
Matches: 162, Mismatches: 33, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
29 116 0.72
30 46 0.28
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (29 bp):
GGGTTCGCACATATAGGGTTCACACATAT
Found at i:130474934 original size:15 final size:15
Alignment explanation
Indices: 130474889--130474934 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
130474879 GGTTCACACC
*
130474889 TATAGGGTTCGCACA
1 TATAGGGTTCGCATA
* *
130474904 TGTAGGGTTCGTATA
1 TATAGGGTTCGCATA
*
130474919 TATAGGGTTTGCATA
1 TATAGGGTTCGCATA
130474934 T
1 T
130474935 TAAAAATATG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.37
Consensus pattern (15 bp):
TATAGGGTTCGCATA
Found at i:130474948 original size:22 final size:22
Alignment explanation
Indices: 130474918--130474960 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
130474908 GGGTTCGTAT
*
130474918 ATATAGGGTTTGCATATTAAAA
1 ATATAGGGTTTGCATACTAAAA
*
130474940 ATATGGGGTTTGCATACTAAA
1 ATATAGGGTTTGCATACTAAA
130474961 TCCATAAAGG
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:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (22 bp):
ATATAGGGTTTGCATACTAAAA
Found at i:130475079 original size:11 final size:12
Alignment explanation
Indices: 130475053--130475084 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
130475043 CACCTATATA
130475053 GGTTCACATGGG
1 GGTTCACATGGG
130475065 GGTTCACAT-GG
1 GGTTCACATGGG
130475076 GGTTCACAT
1 GGTTCACAT
130475085 ACATGGGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (12 bp):
GGTTCACATGGG
Found at i:130476976 original size:23 final size:21
Alignment explanation
Indices: 130476943--130476984 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
130476933 GAGCTGATTT
130476943 TATATAATAAATAGATATACA
1 TATATAATAAATAGATATACA
*
130476964 TATATAGATTAAATATATATA
1 TATATA-A-TAAATAGATATA
130476985 ATTAAAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (21 bp):
TATATAATAAATAGATATACA
Found at i:130477912 original size:114 final size:112
Alignment explanation
Indices: 130477729--130478020 Score: 390
Period size: 114 Copynumber: 2.6 Consensus size: 112
130477719 CCAAATGAGC
* *
130477729 TTGGTTTTATA-TATATATAGATCATACATAACTTTTAACACTCGAATTACCCTTACTCCTAACT
1 TTGGTTTTATATTATATATAGATCATACATAACTTTTAATA-TCGAATTACCCCTACTCCTAACT
* * ** **
130477793 TTTAATACTTAAATTACTCCTATTTATTCCTAATGACTCCAGGAAGGAG
65 TTTAATACCTAAATTACCCCTATTTATTCCTAATGACT-CACCAAAAAG
* * *
130477842 TTGGTTTTATATTGTATATAGATCACACATAACTTTTAATGTCGGAATTACCCCTACTCCTAACT
1 TTGGTTTTATATTATATATAGATCATACATAACTTTTAATATC-GAATTACCCCTACTCCTAACT
130477907 TTTAATACCTAAATTACCCCTATTTATTCCTAATGACTCACCAAAAAG
65 TTTAATACCTAAATTACCCCTATTTATTCCTAATGACTCACCAAAAAG
* * * *
130477955 TTAGTTTTATATTATATATAGAAT-ATACATAATTTTTAATACCTAAATTACCCCTACTCCTAAC
1 TTGGTTTTATATTATATATAG-ATCATACATAACTTTTAATATC-GAATTACCCCTACTCCTAAC
130478019 TT
64 TT
130478021 ATATTTATTC
Statistics
Matches: 157, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
113 74 0.47
114 83 0.53
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (112 bp):
TTGGTTTTATATTATATATAGATCATACATAACTTTTAATATCGAATTACCCCTACTCCTAACTT
TTAATACCTAAATTACCCCTATTTATTCCTAATGACTCACCAAAAAG
Found at i:130480249 original size:25 final size:23
Alignment explanation
Indices: 130480200--130480250 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
130480190 CCATCGTTGT
*
130480200 TTTTAAGTCGTATTTATTGTATA
1 TTTTAAGTCGTATTTATTATATA
* *
130480223 TTTTAAGTTGTATTCATATTATTTA
1 TTTTAAGTCGTATT--TATTATATA
130480248 TTT
1 TTT
130480251 AAAATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 13 0.57
25 10 0.43
ACGTcount: A:0.25, C:0.04, G:0.10, T:0.61
Consensus pattern (23 bp):
TTTTAAGTCGTATTTATTATATA
Found at i:130487156 original size:17 final size:16
Alignment explanation
Indices: 130487125--130487176 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
130487115 ATTTTGGGTC
* *
130487125 ATTTCAGGTTCAGGTT
1 ATTTCAGATTTAGGTT
*
130487141 AGTTTCAGATTTAGGTC
1 A-TTTCAGATTTAGGTT
130487158 ATTTCA-AGTTTAGGTT
1 ATTTCAGA-TTTAGGTT
130487174 ATT
1 ATT
130487177 AACTTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 1 0.03
16 16 0.53
17 13 0.43
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (16 bp):
ATTTCAGATTTAGGTT
Found at i:130487678 original size:29 final size:29
Alignment explanation
Indices: 130487644--130487710 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
130487634 ATAGGGACTG
* * *
130487644 GATCAAATTAGTCCCTC-TATTATTAAATA
1 GATCAAATTAATCCC-CATACTATTAAAAA
*
130487673 GATCAATTTAATCCCCATACTATTAAAAA
1 GATCAAATTAATCCCCATACTATTAAAAA
130487702 GAATCAAAT
1 G-ATCAAAT
130487711 AAGTTCAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 1 0.03
29 24 0.77
30 6 0.19
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (29 bp):
GATCAAATTAATCCCCATACTATTAAAAA
Found at i:130488641 original size:65 final size:66
Alignment explanation
Indices: 130488560--130488688 Score: 188
Period size: 65 Copynumber: 2.0 Consensus size: 66
130488550 TCATATTGTG
* ** *
130488560 GATTTTAAAATTTTAATTTTAATGTAAACAATAATCTTTAAATTTATTAA-CTAAATTTTTATGT
1 GATTTTAAAATTTTAATTGTAATGTAAACAATAATAGTTAAATTTATTAACCAAAATTTTTATGT
130488624 T
66 T
* **
130488625 GATTTTGAAATTTTAATTGTAATGTAAATGATAATAGTTAAATTTATTAACCAAAATTTTTATG
1 GATTTTAAAATTTTAATTGTAATGTAAACAATAATAGTTAAATTTATTAACCAAAATTTTTATG
130488689 AGTAATATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
65 44 0.79
66 12 0.21
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (66 bp):
GATTTTAAAATTTTAATTGTAATGTAAACAATAATAGTTAAATTTATTAACCAAAATTTTTATGT
T
Found at i:130488738 original size:41 final size:41
Alignment explanation
Indices: 130488681--130488758 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
130488671 TTAACCAAAA
130488681 TTTTTATGAGTAATATATGGATATGATAAGTTGATTTTGTG
1 TTTTTATGAGTAATATATGGATATGATAAGTTGATTTTGTG
130488722 TTTTTATGAGTAATATATGGATATGATAAGTTGATTT
1 TTTTTATGAGTAATATATGGATATGATAAGTTGATTT
130488759 GGGATTACAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (41 bp):
TTTTTATGAGTAATATATGGATATGATAAGTTGATTTTGTG
Found at i:130494396 original size:23 final size:23
Alignment explanation
Indices: 130494352--130494396 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
130494342 ATGTATAGTA
*
130494352 ATATTTAATGTTGTAATGTATAC
1 ATATTTAATGTTGTAATATATAC
*
130494375 ATATTTAA-GTTGTTTATATATA
1 ATATTTAATGTTG-TAATATATA
130494397 TATAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (23 bp):
ATATTTAATGTTGTAATATATAC
Found at i:130494949 original size:24 final size:25
Alignment explanation
Indices: 130494891--130494952 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 25
130494881 CTTATTTCAT
*
130494891 TAAATAAAAAAATTTAAAAATATAA
1 TAAATAAATAAATTTAAAAATATAA
* *
130494916 TAAATCAAATATATTTAAAAATATTA
1 TAAAT-AAATAAATTTAAAAATATAA
130494942 -AAATAAATAAA
1 TAAATAAATAAA
130494953 AATAATACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 6 0.19
25 9 0.28
26 17 0.53
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
TAAATAAATAAATTTAAAAATATAA
Found at i:130495044 original size:15 final size:16
Alignment explanation
Indices: 130495014--130495054 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
130495004 AAATAGTTAT
130495014 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
130495031 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
130495046 A--AAAAATTA
1 ATTAAAAATTA
130495055 TATATTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 5 0.22
14 2 0.09
15 8 0.35
17 8 0.35
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:130495059 original size:44 final size:43
Alignment explanation
Indices: 130494895--130495062 Score: 116
Period size: 44 Copynumber: 3.9 Consensus size: 43
130494885 TTTCATTAAA
* * * *
130494895 TAAAAAAATTTAAAAATATAATAAATCAAATATAT-TTAAAAATAT
1 TAAAATAA-TTAAAAATAAAATAAA-AAAATTTATATTAAAAAT-T
* * *
130494940 TAAAATAAATAAAAATAATACTAAAACAATTT-TA--AAACAA--
1 TAAAATAATTAAAAATAA-AATAAAAAAATTTATATTAAA-AATT
* * * *
130494980 TACACA-AATTAACAATATAATAAAAAATAGTTATATTAAAAATT
1 TA-AAATAATTAAAAATAAAATAAAAAA-ATTTATATTAAAAATT
130495024 TAAAATAATTAAAAATAAAATAAAAAAATTATATATTAA
1 TAAAATAATTAAAAATAAAATAAAAAAATT-TATATTAA
130495063 TATATAATTC
Statistics
Matches: 93, Mismatches: 18, Indels: 25
0.68 0.13 0.18
Matches are distributed among these distances:
39 7 0.08
40 14 0.15
41 4 0.04
42 5 0.05
43 10 0.11
44 41 0.44
45 12 0.13
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (43 bp):
TAAAATAATTAAAAATAAAATAAAAAAATTTATATTAAAAATT
Found at i:130496220 original size:24 final size:25
Alignment explanation
Indices: 130496174--130496221 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
130496164 CGGCTCAACC
130496174 TATTTTTATAATTTTTGTAATATATA
1 TATTTTTAT-ATTTTTGTAATATATA
130496200 TATTTTTAT-TTTTT-T-ATATATA
1 TATTTTTATATTTTTGTAATATATA
130496222 ATGTAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.32
23 1 0.05
24 5 0.23
26 9 0.41
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TATTTTTATATTTTTGTAATATATA
Found at i:130502743 original size:187 final size:188
Alignment explanation
Indices: 130502295--130503008 Score: 954
Period size: 188 Copynumber: 3.8 Consensus size: 188
130502285 GCTGTGAGAT
* * * *
130502295 TTCATAAAAGTGTTTGATGATAATCACAAAACGCTAAATCCTCCCTGGCTAAATAACTCTTAACC
1 TTCATAAAAGTGTTTGATGATAATCACAAAACCCTAAATCCTCCCTAGCCAAATAACTCTAAACC
* * *
130502360 CATTAGTAAAGCTTTTGGTTCAAGTAAAGGCGG-CCTT-ACACCGCAAACCCAGCTCTCATCAAC
66 CATTAGCAAAGCTTTTGGTTCAAGTAAAGG-GGTCCTTCA-ACCACAAACCTAGCTCTCATCAAC
* * * * *
130502423 ACCACAGTAACTATAGTTCTGATGAAGCCTTCGAATGAATCAAACACAGAGAATGCGAGG
129 ACCATAATAGCTATAGTTCCGATGAAGGCTTCGAATGAATCAAACACAGAGAATGCGAGG
* *
130502483 TTCATGAAAGCGTTTGATGATAATCACAAAACCCTAAATCCTCCCTAGCCAAATAACTCTAAACC
1 TTCATAAAAGTGTTTGATGATAATCACAAAACCCTAAATCCTCCCTAGCCAAATAACTCTAAACC
* ** *
130502548 TATTAGCAAAGCTTTTGGTTTGAGTAAAGGGGTCCTTCAACTACAAACCTAGCTCTCATCAACAC
66 CATTAGCAAAGCTTTTGGTTCAAGTAAAGGGGTCCTTCAACCACAAACCTAGCTCTCATCAACAC
*
130502613 CATAATAGCTATAGTTCCGATGAAGGCTTAGAATGAATCAAACACAGA-AATGCGAGG
131 CATAATAGCTATAGTTCCGATGAAGGCTTCGAATGAATCAAACACAGAGAATGCGAGG
* *
130502670 TTCATAAAAGTGATGGATGATAATCACAAAACCCTAAATCCTCCCTAGCCAAATAACTCTAAACC
1 TTCATAAAAGTGTTTGATGATAATCACAAAACCCTAAATCCTCCCTAGCCAAATAACTCTAAACC
* * * *
130502735 CATTAGCAAAGCTCTTGGTTCAAGTAAA-GGGCCCTTCAACCACAACCCTAGCTCTCCTCAACAC
66 CATTAGCAAAGCTTTTGGTTCAAGTAAAGGGGTCCTTCAACCACAAACCTAGCTCTCATCAACAC
* *
130502799 CATAATAGCTATAGTTCCAATGAAGGCTTCGAACT-AATCAAACACAAAGAATGCGAGG
131 CATAATAGCTATAGTTCCGATGAAGGCTTCGAA-TGAATCAAACACAGAGAATGCGAGG
* * * *
130502857 TTTCATAGAAGTGTTTGATGATAACCACAAAACCCTAAATCCACCCTAGCTAAATAACTCTAAAC
1 -TTCATAAAAGTGTTTGATGATAATCACAAAACCCTAAATCCTCCCTAGCCAAATAACTCTAAAC
* * * * ** * *
130502922 CCATTGGCAAAGCATTCT-GTTCGAGCAAAGGCATCCTTTAAACCACAAACCCAAGCTCTCATCA
65 CCATTAGCAAAGC-TTTTGGTTCAAGTAAAGGGGTCC-TTCAACCACAAA-CCTAGCTCTCATCA
*
130502986 ACACCATAAATAGCTATAATTCC
127 ACACCAT-AATAGCTATAGTTCC
130503009 AAAGTCCAAA
Statistics
Matches: 463, Mismatches: 53, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
186 75 0.16
187 106 0.23
188 233 0.50
189 6 0.01
190 10 0.02
191 19 0.04
192 14 0.03
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (188 bp):
TTCATAAAAGTGTTTGATGATAATCACAAAACCCTAAATCCTCCCTAGCCAAATAACTCTAAACC
CATTAGCAAAGCTTTTGGTTCAAGTAAAGGGGTCCTTCAACCACAAACCTAGCTCTCATCAACAC
CATAATAGCTATAGTTCCGATGAAGGCTTCGAATGAATCAAACACAGAGAATGCGAGG
Found at i:130503805 original size:21 final size:21
Alignment explanation
Indices: 130503781--130503823 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
130503771 ATTAACTTTA
*
130503781 TTAAACAATAAATGATATTTT
1 TTAAACAATAAATGATAATTT
* *
130503802 TTAAATAGTAAATGATAATTT
1 TTAAACAATAAATGATAATTT
130503823 T
1 T
130503824 ATATCTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (21 bp):
TTAAACAATAAATGATAATTT
Found at i:130505283 original size:51 final size:51
Alignment explanation
Indices: 130505178--130505293 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
130505168 TACTACCAAA
* * * **
130505178 TATAATATCATATCTTCTAAGATTACATATCTTAGATAAGATATGTAATCT
1 TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
* * * ** *
130505229 TATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATCTCTAAGAT
1 TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
130505280 TATAATATCATATC
1 TATAATATCATATC
130505294 ATGTTTCCAT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (51 bp):
TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
Found at i:130508088 original size:51 final size:51
Alignment explanation
Indices: 130507983--130508098 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
130507973 TACTACCAAA
* * * **
130507983 TATAATATCATATCTTCTAAGATTACATATCTTAGATAAGATATGTAATCT
1 TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
* * * ** *
130508034 TATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATCTCTAAGAT
1 TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
130508085 TATAATATCATATC
1 TATAATATCATATC
130508099 ATGTTTCCAT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (51 bp):
TATAATATCATATCTTATAAGATTACATATCATAGATAAGATATCTAAGAT
Found at i:130509490 original size:13 final size:13
Alignment explanation
Indices: 130509472--130509499 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
130509462 GTAAAAGTGC
130509472 ATGCATAGAGATA
1 ATGCATAGAGATA
130509485 ATGCATAGAGATA
1 ATGCATAGAGATA
130509498 AT
1 AT
130509500 CTTTGTGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (13 bp):
ATGCATAGAGATA
Found at i:130509770 original size:2 final size:2
Alignment explanation
Indices: 130509765--130509804 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
130509755 TACACACACA
130509765 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
130509805 GAAATAGACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:130511618 original size:31 final size:31
Alignment explanation
Indices: 130511583--130511677 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 31
130511573 TATACCATTA
* * *
130511583 GTACCTGTGTTTGGCTTCAATATTCAATTTG
1 GTACCTGAGTTTGGATTCAATGTTCAATTTG
* * ***
130511614 GTACCTAAGTTT--TTTTTTTGTTCCAATTTG
1 GTACCTGAGTTTGGATTCAATGTT-CAATTTG
130511644 GTACCTGAGTTTGGATTCAATGTTCAATTTG
1 GTACCTGAGTTTGGATTCAATGTTCAATTTG
130511675 GTA
1 GTA
130511678 TCTAGACCAA
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
29 5 0.10
30 18 0.37
31 20 0.41
32 6 0.12
ACGTcount: A:0.20, C:0.14, G:0.19, T:0.47
Consensus pattern (31 bp):
GTACCTGAGTTTGGATTCAATGTTCAATTTG
Found at i:130511831 original size:31 final size:31
Alignment explanation
Indices: 130511796--130511866 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
130511786 AAAAACAAAG
* * *
130511796 GTACCAAATGGAACGTTATAGCCAAACTCGA
1 GTACCAAATGGAACATTAAAGCCAAACTCAA
* *
130511827 GTACCAAATTGAACATTAAAGCTAAACTCAA
1 GTACCAAATGGAACATTAAAGCCAAACTCAA
*
130511858 GTAACAAAT
1 GTACCAAAT
130511867 AGTATATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.21
Consensus pattern (31 bp):
GTACCAAATGGAACATTAAAGCCAAACTCAA
Found at i:130514186 original size:22 final size:22
Alignment explanation
Indices: 130514161--130514205 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
130514151 AAGATCAGAT
130514161 TAAAATTGAATTGATGATTAAA
1 TAAAATTGAATTGATGATTAAA
*
130514183 TAAAATTGGATTGATGATTAAA
1 TAAAATTGAATTGATGATTAAA
130514205 T
1 T
130514206 TGGTAGTCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (22 bp):
TAAAATTGAATTGATGATTAAA
Found at i:130520634 original size:28 final size:28
Alignment explanation
Indices: 130520590--130520650 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
130520580 TAATATATAG
* * *
130520590 AAAATATTAAATTAATT-TTATTTTATT
1 AAAAAATTAAATAAATTACTATTTTATT
*
130520617 AAAAAATTAAAATAAATTACTATTTTTTT
1 AAAAAATT-AAATAAATTACTATTTTATT
130520646 AAAAA
1 AAAAA
130520651 TGAGATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 7 0.25
28 8 0.29
29 13 0.46
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
AAAAAATTAAATAAATTACTATTTTATT
Found at i:130523646 original size:2 final size:2
Alignment explanation
Indices: 130523639--130523674 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
130523629 ATTTAGACAA
130523639 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130523675 TTATGTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130524350 original size:18 final size:18
Alignment explanation
Indices: 130524317--130524351 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
130524307 ATAACTTTTA
*
130524317 AAAGTAAAAACTAAAAAT
1 AAAGTAAAAACGAAAAAT
*
130524335 AAAGTAAAATCGAAAAA
1 AAAGTAAAAACGAAAAA
130524352 AGAAGATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.14
Consensus pattern (18 bp):
AAAGTAAAAACGAAAAAT
Found at i:130525840 original size:15 final size:15
Alignment explanation
Indices: 130525820--130525848 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
130525810 AAAATTTTAA
130525820 AATCTAAATTGACAC
1 AATCTAAATTGACAC
130525835 AATCTAAATTGACA
1 AATCTAAATTGACA
130525849 TGATTCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.28
Consensus pattern (15 bp):
AATCTAAATTGACAC
Found at i:130533342 original size:14 final size:14
Alignment explanation
Indices: 130533319--130533349 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
130533309 ATGTAGGTTT
*
130533319 ATATATATATATAG
1 ATATACATATATAG
130533333 ATATACATATATAG
1 ATATACATATATAG
130533347 ATA
1 ATA
130533350 GATACACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (14 bp):
ATATACATATATAG
Found at i:130533344 original size:18 final size:18
Alignment explanation
Indices: 130533321--130533367 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
130533311 GTAGGTTTAT
*
130533321 ATATATATATAGATATAC
1 ATATATATATAGATACAC
*
130533339 ATATATAGATAGATACAC
1 ATATATATATAGATACAC
*
130533357 ATGTATATATA
1 ATATATATATA
130533368 TATGCGAGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (18 bp):
ATATATATATAGATACAC
Found at i:130534073 original size:3 final size:3
Alignment explanation
Indices: 130534065--130534142 Score: 147
Period size: 3 Copynumber: 25.7 Consensus size: 3
130534055 ATGTTAAAAT
130534065 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
130534113 ATA ATA ATA ATA ATA ATA ATA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT
130534143 TAACTATTAC
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 71 0.96
4 3 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:130534317 original size:11 final size:11
Alignment explanation
Indices: 130534303--130534336 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
130534293 TTGTAAAATT
130534303 ATTATTTTTAA
1 ATTATTTTTAA
*
130534314 ATTATTTTTAT
1 ATTATTTTTAA
*
130534325 ATAATTTTTAA
1 ATTATTTTTAA
130534336 A
1 A
130534337 AAAAAATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTATTTTTAA
Found at i:130536651 original size:11 final size:11
Alignment explanation
Indices: 130536615--130536653 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
130536605 AAAAAATTAT
130536615 TGTTTTCCTAC
1 TGTTTTCCTAC
* *
130536626 TGTTATCTTAC
1 TGTTTTCCTAC
*
130536637 TGTTTTCCTAT
1 TGTTTTCCTAC
130536648 TGTTTT
1 TGTTTT
130536654 GCTGCAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.10, C:0.18, G:0.10, T:0.62
Consensus pattern (11 bp):
TGTTTTCCTAC
Found at i:130540392 original size:2 final size:2
Alignment explanation
Indices: 130540385--130540409 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
130540375 GTTTACTACC
130540385 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
130540410 CATTTTTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:130540468 original size:2 final size:2
Alignment explanation
Indices: 130540461--130540491 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
130540451 GTGTAAGTGT
*
130540461 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
130540492 CTAAATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:130550289 original size:20 final size:21
Alignment explanation
Indices: 130550249--130550290 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
130550239 ATAAATGTAC
*
130550249 ATATAGAATCTTTGAAATTTA
1 ATATAAAATCTTTGAAATTTA
130550270 ATATAAAATCTTTG-AATTTA
1 ATATAAAATCTTTGAAATTTA
130550290 A
1 A
130550291 CGTTGTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (21 bp):
ATATAAAATCTTTGAAATTTA
Found at i:130551875 original size:16 final size:15
Alignment explanation
Indices: 130551854--130551894 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
130551844 AATAAATCAT
130551854 TAAAAATTTTAAAAA
1 TAAAAATTTTAAAAA
*
130551869 GTAAAAATATTAAAAA
1 -TAAAAATTTTAAAAA
130551885 TAAAAATTTT
1 TAAAAATTTT
130551895 CTGGTTTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
TAAAAATTTTAAAAA
Found at i:130555958 original size:30 final size:30
Alignment explanation
Indices: 130555931--130555991 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
130555921 ATCTTTATAG
130555931 TTTTAGAAGGA-CTAAATCAAAATTTTATCA
1 TTTT-GAAGGAGCTAAATCAAAATTTTATCA
* * *
130555961 TTTTTAAGGAGCTAAATTATAATTTTATCA
1 TTTTGAAGGAGCTAAATCAAAATTTTATCA
130555991 T
1 T
130555992 GTATCATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (30 bp):
TTTTGAAGGAGCTAAATCAAAATTTTATCA
Found at i:130557178 original size:2 final size:2
Alignment explanation
Indices: 130557171--130557211 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
130557161 ATATAAACTC
130557171 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
130557212 CATTTTTCGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:130559125 original size:29 final size:29
Alignment explanation
Indices: 130559092--130559151 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
130559082 ACCTTTTAGC
*
130559092 ATTAATTCATTGTATTTAAATA-TCT-GTAT
1 ATTAATAC-TTGT-TTTAAATATTCTAGTAT
*
130559121 ATTAATACTTGTTTTTAATATTCTAGTAT
1 ATTAATACTTGTTTTAAATATTCTAGTAT
130559150 AT
1 AT
130559152 ATTATGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
28 7 0.26
29 13 0.48
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (29 bp):
ATTAATACTTGTTTTAAATATTCTAGTAT
Found at i:130559480 original size:3 final size:3
Alignment explanation
Indices: 130559472--130559556 Score: 136
Period size: 3 Copynumber: 28.3 Consensus size: 3
130559462 GTCACTTTGC
130559472 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
130559520 TTA TTG TTA -TA TTTA TTG TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T
130559557 CAGTATCATT
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.03
3 72 0.95
4 2 0.03
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:130560336 original size:9 final size:9
Alignment explanation
Indices: 130560305--130560329 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
130560295 CCTTCTCAAA
130560305 AAAAAAATC
1 AAAAAAATC
130560314 AAAAAAATC
1 AAAAAAATC
130560323 AAAAAAA
1 AAAAAAA
130560330 CTAAAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATC
Found at i:130573382 original size:2 final size:2
Alignment explanation
Indices: 130573375--130573407 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
130573365 CAAATTAGGC
130573375 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130573408 TAGTAAGCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:130575677 original size:50 final size:51
Alignment explanation
Indices: 130575579--130575717 Score: 174
Period size: 50 Copynumber: 2.7 Consensus size: 51
130575569 CTTTTTTGCA
* *
130575579 AACATAATTATAATTTCGTCCCCATTAGTATTATTATTAAAAGACAAGTTAC
1 AACATAATTATAATTTCGT-CCCATTAGTATTATAATAAAAAGACAAGTTAC
* * *
130575631 AACATAATTATAATTTCGT-CCATTCGTATTATAATAAAAAGCCAAGTTCC
1 AACATAATTATAATTTCGTCCCATTAGTATTATAATAAAAAGACAAGTTAC
* *
130575681 AACATAATTATAA-TTCAGTACCCATTTGAATTATAAT
1 AACATAATTATAATTTC-GT-CCCATTAGTATTATAAT
130575718 TAGGGTAAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
49 3 0.04
50 41 0.53
52 33 0.43
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (51 bp):
AACATAATTATAATTTCGTCCCATTAGTATTATAATAAAAAGACAAGTTAC
Found at i:130579495 original size:284 final size:283
Alignment explanation
Indices: 130579056--130579665 Score: 766
Period size: 284 Copynumber: 2.1 Consensus size: 283
130579046 AGAAAATATT
** ** * * *
130579056 TAAATCCTCAAAGGAGGTGATATATGACAG-GGTC-ACAGCCCTTGGTTAATTTTTATTCATGCA
1 TAAATCCTCAAAGGAGGCAATATAAAACTGTGG-CGACAGCCCTCGGTTAATTTTGATTCATGCA
* * *
130579119 AGGAAATACTCATCGCTGCTAGAACAAATGGATAATAGTGTCATATATGTCCAGTTATAGGTAGA
65 AGGAAATACTCATAGCTGCTAGAACAAATGGATAATAGTGCCATATATGTCCAGTTATAGCTAGA
* *
130579184 TTTCCAAAACAGGGCAGAAGGAAGCAATGATAAAAAGCAACAGTGGTAAGACACCATATACATAG
130 TTTCCAAAACAGGGCAGAAGGAAGCAATGATAAAAAGCAACAATGGTAAGACACCACATACATAG
*
130579249 AGCCATCACTCTCAAATGAATGCCTGAATGATGAAAGGAGCAATAAATGAGAAACCCAAAAACCA
195 AACCATCACTCT-AAATGAATGCCTGAATGATGAAAGGAGCAATAAATGAGAAA-CCAAAAACCA
* *
130579314 -T-T-ATTCAGAGACTATAACAGTTT
258 TTGTGATTCAAAGACTATAACAGTTC
* * * *
130579337 TAAATCCTCAGATGAGGCAATATATAACTGTGGCGACAGCCCTCGGTTAATTTTGATTCACT-CG
1 TAAATCCTCAAAGGAGGCAATATAAAACTGTGGCGACAGCCCTCGGTTAATTTTGATTCA-TGCA
* * * * *
130579401 AGGAAATACTTATAGCTG-TCAGAACAAATGGATAATAGTAAGCCCTATATGTCTATTTATATCT
65 AGGAAATACTCATAGCTGCT-AGAACAAATGGATAATAGT--GCCATATATGTCCAGTTATAGCT
** ** *
130579465 AGATTTCTGAAACAGGGCAGAAGGAAGCAATGATAAAAAGCAACAATGGTAAGACACTGCATGCA
127 AGATTTCCAAAACAGGGCAGAAGGAAGCAATGATAAAAAGCAACAATGGTAAGACACCACATACA
* * *
130579530 TAGAACCATCACTCTAAATGAATGCTTGAATGATGAAAGGAGCAATGAATGAGAAACCAAAATCC
192 TAGAACCATCACTCTAAATGAATGCCTGAATGATGAAAGGAGCAATAAATGAGAAACCAAAAACC
*
130579595 ATGCTTGTGGCTTTCAAAGACTATAACAGTTC
257 A---TTGT-G-ATTCAAAGACTATAACAGTTC
130579627 TAAATCCTCAAAGGAGGCAATATAAAACTGTGGCGACAG
1 TAAATCCTCAAAGGAGGCAATATAAAACTGTGGCGACAG
130579666 TCGACTCCGT
Statistics
Matches: 281, Mismatches: 34, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
281 26 0.09
282 70 0.25
283 40 0.14
284 89 0.32
286 1 0.00
287 1 0.00
290 54 0.19
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (283 bp):
TAAATCCTCAAAGGAGGCAATATAAAACTGTGGCGACAGCCCTCGGTTAATTTTGATTCATGCAA
GGAAATACTCATAGCTGCTAGAACAAATGGATAATAGTGCCATATATGTCCAGTTATAGCTAGAT
TTCCAAAACAGGGCAGAAGGAAGCAATGATAAAAAGCAACAATGGTAAGACACCACATACATAGA
ACCATCACTCTAAATGAATGCCTGAATGATGAAAGGAGCAATAAATGAGAAACCAAAAACCATTG
TGATTCAAAGACTATAACAGTTC
Found at i:130583370 original size:19 final size:19
Alignment explanation
Indices: 130583346--130583385 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
130583336 AATAATTCAT
130583346 TATAATATCTTATTTTACA
1 TATAATATCTTATTTTACA
130583365 TATAATATCTTATTTTACA
1 TATAATATCTTATTTTACA
130583384 TA
1 TA
130583386 ACAAATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TATAATATCTTATTTTACA
Found at i:130588695 original size:13 final size:13
Alignment explanation
Indices: 130588679--130588704 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
130588669 TTAATAATTG
130588679 AATTTAACTATTA
1 AATTTAACTATTA
130588692 AATTTAACTATTA
1 AATTTAACTATTA
130588705 TCATTTGAGT
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTAACTATTA
Found at i:130591138 original size:21 final size:20
Alignment explanation
Indices: 130591114--130591159 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
130591104 ATAATATTAT
130591114 TAAAAATTAT--TATCATATA
1 TAAAAATTATACTAT-ATATA
*
130591133 TATAAATTTATACTATATATA
1 TA-AAAATTATACTATATATA
130591154 TAAAAA
1 TAAAAA
130591160 AACATTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
19 2 0.09
20 10 0.45
21 7 0.32
22 3 0.14
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAAATTATACTATATATA
Found at i:130600068 original size:3 final size:3
Alignment explanation
Indices: 130600060--130600084 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
130600050 TTTACAAGTG
130600060 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
130600085 AGGAACATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:130605172 original size:21 final size:19
Alignment explanation
Indices: 130605146--130605192 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
130605136 TTAACCAAGG
*
130605146 AAAATAATACGTAATAAAAAC
1 AAAATAATAC-T-ATAAAAAA
130605167 AAAAT-ATACTATAAAAAA
1 AAAATAATACTATAAAAAA
130605185 ATAAATAA
1 A-AAATAA
130605193 ATTTAAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 8 0.35
19 5 0.22
20 5 0.22
21 5 0.22
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAATAATACTATAAAAAA
Found at i:130608850 original size:14 final size:14
Alignment explanation
Indices: 130608831--130608861 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
130608821 CAGCAAAGGA
*
130608831 AGGAGGGGAGGAGG
1 AGGAGGAGAGGAGG
130608845 AGGAGGAGAGGAGG
1 AGGAGGAGAGGAGG
130608859 AGG
1 AGG
130608862 CTTTGTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (14 bp):
AGGAGGAGAGGAGG
Found at i:130610070 original size:4 final size:4
Alignment explanation
Indices: 130610057--130610086 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
130610047 CAGATTCTAT
130610057 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
130610087 TCTTGCAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:130613607 original size:3 final size:3
Alignment explanation
Indices: 130613599--130613634 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
130613589 ATATTTTCTA
130613599 TAT TAT TAT TAT TAT TAT TAT TAT ATAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
130613635 ATACGTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:130613614 original size:12 final size:13
Alignment explanation
Indices: 130613597--130613637 Score: 68
Period size: 12 Copynumber: 3.3 Consensus size: 13
130613587 ATATATTTTC
130613597 TATATTATTATTA
1 TATATTATTATTA
130613610 T-TATTATTATTA
1 TATATTATTATTA
130613622 TATATT-TTATTA
1 TATATTATTATTA
130613634 TATA
1 TATA
130613638 CGTAAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATATTATTATTA
Found at i:130613764 original size:26 final size:27
Alignment explanation
Indices: 130613726--130613776 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
130613716 TTTTATTTAA
*
130613726 TTTTGTTTATATATTGTATT-TTTTCTT
1 TTTTCTTTATATATT-TATTATTTTCTT
130613753 TTTTCTTT-TATATTTATTATTTTC
1 TTTTCTTTATATATTTATTATTTTC
130613777 ACTATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 11 0.50
27 7 0.32
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.75
Consensus pattern (27 bp):
TTTTCTTTATATATTTATTATTTTCTT
Found at i:130614432 original size:2 final size:2
Alignment explanation
Indices: 130614425--130614465 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
130614415 TATTTACTTC
*
130614425 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130614466 TTTAACATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:130615353 original size:12 final size:14
Alignment explanation
Indices: 130615324--130615355 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
130615314 TTTGTAAATC
130615324 TATCTTGTGCATTA
1 TATCTTGTGCATTA
130615338 TATCTTGT-CA-TA
1 TATCTTGTGCATTA
130615350 TATCTT
1 TATCTT
130615356 TATTATTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 2 0.11
14 8 0.44
ACGTcount: A:0.22, C:0.16, G:0.09, T:0.53
Consensus pattern (14 bp):
TATCTTGTGCATTA
Found at i:130618336 original size:142 final size:142
Alignment explanation
Indices: 130618128--130618386 Score: 371
Period size: 142 Copynumber: 1.8 Consensus size: 142
130618118 TGATTGACTG
* * * *
130618128 GGCTGTTTGAATTTATTTGTAGTTTGAAAACGATTTTGAGGGTTTTATCGTTTGAATCTTCAACA
1 GGCTGTTTCAATTTAGTTGTAGTTTGAAAACGATTTTGACGGTTTTACCGTTTGAATCTTCAACA
*
130618193 ATTAGGGAGTTTTTCTT-TGGAATTTAATAATTTATTT-ATTGTTTAGATAAAGATTGTCGTTGT
66 ATCA-GG-GTTTTTCTTATGGAATTTAATAATTTATTTGA-TGTTTAGATAAAGATTGTCGTTGT
130618256 AGTTGAAGAGGATGT
128 AGTTGAAGAGGATGT
* * *
130618271 GGCTTTTTCAATTTAGTTGTTGTTTGGAAACGATTTTGACGGTTTT-CCGTTTGAATCTTCAACA
1 GGCTGTTTCAATTTAGTTGTAGTTTGAAAACGATTTTGACGGTTTTACCGTTTGAATCTTCAACA
* *
130618335 ATCAGGGTTTTTTTTAATGGAATTTAATGATTTATTTGATGTTTAGATAAAG
66 ATCAGGGTTTTTCTT-ATGGAATTTAATAATTTATTTGATGTTTAGATAAAG
130618387 GGATTCTTTT
Statistics
Matches: 103, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
140 8 0.08
141 2 0.02
142 52 0.50
143 41 0.40
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.46
Consensus pattern (142 bp):
GGCTGTTTCAATTTAGTTGTAGTTTGAAAACGATTTTGACGGTTTTACCGTTTGAATCTTCAACA
ATCAGGGTTTTTCTTATGGAATTTAATAATTTATTTGATGTTTAGATAAAGATTGTCGTTGTAGT
TGAAGAGGATGT
Found at i:130622181 original size:20 final size:20
Alignment explanation
Indices: 130622156--130622196 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
130622146 TGACATTTTA
130622156 AAATAAAAATAACTCTGTTG
1 AAATAAAAATAACTCTGTTG
130622176 AAATAAAAATAACTCTGTTG
1 AAATAAAAATAACTCTGTTG
130622196 A
1 A
130622197 GTTCAATGAA
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:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATAAAAATAACTCTGTTG
Found at i:130622474 original size:31 final size:31
Alignment explanation
Indices: 130622439--130622498 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
130622429 TGTTAATATT
*
130622439 AAAATAT-AGAGATTAAATCTCAAATTTAAAC
1 AAAATATAAG-GATTAAAACTCAAATTTAAAC
*
130622470 AAAATATAAGGATTAAAACTGAAATTTAA
1 AAAATATAAGGATTAAAACTCAAATTTAA
130622499 CAATTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.57, C:0.07, G:0.08, T:0.28
Consensus pattern (31 bp):
AAAATATAAGGATTAAAACTCAAATTTAAAC
Found at i:130624029 original size:14 final size:15
Alignment explanation
Indices: 130623988--130624029 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
130623978 GGGCAATAAC
130623988 ATAAT-TTAATAATAT
1 ATAATATTAA-AATAT
*
130624003 ATAATATTTAAATAT
1 ATAATATTAAAATAT
130624018 AT-ATATTAAAAT
1 ATAATATTAAAAT
130624030 GAAAAGCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 9 0.38
15 12 0.50
16 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATATTAAAATAT
Found at i:130647505 original size:54 final size:54
Alignment explanation
Indices: 130647419--130647528 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
130647409 AATTTGGAGG
* * * *
130647419 TGAACACTGACTTGCTACCATATCCTACAGAAGATTCTACAAGTGCTAAAGAGA
1 TGAACACTGAATTGCTACCAAAGCCTACAGAAGATTCTACAAGTCCTAAAGAGA
* * * * *
130647473 TGAACATTGAATTGTTACCAAAGCCTAGAGAAGATTCTACAGGTCCTAGAGAGA
1 TGAACACTGAATTGCTACCAAAGCCTACAGAAGATTCTACAAGTCCTAAAGAGA
130647527 TG
1 TG
130647529 GAGGAGTGGA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (54 bp):
TGAACACTGAATTGCTACCAAAGCCTACAGAAGATTCTACAAGTCCTAAAGAGA
Found at i:130650387 original size:12 final size:12
Alignment explanation
Indices: 130650370--130650401 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
130650360 ATTCAGCGGC
130650370 AGATATGCCTGT
1 AGATATGCCTGT
130650382 AGATATGCCTGT
1 AGATATGCCTGT
130650394 AGATATGC
1 AGATATGC
130650402 TTATATCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (12 bp):
AGATATGCCTGT
Found at i:130650849 original size:54 final size:54
Alignment explanation
Indices: 130650784--130650893 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
130650774 AATATGGAGG
* * *
130650784 TGAACACTGAATTGCTACCATATCCTACAGAAGATTATACAAGTGCTAAAGAGA
1 TGAACACTGAATTGCTACCAAAGCCTACAGAAGATTATACAAGTCCTAAAGAGA
* * * * * *
130650838 TGAACATTGAATTGTTACCAAAGCCTAGAGAAGATTCTACAGGTCCTAGAGAGA
1 TGAACACTGAATTGCTACCAAAGCCTACAGAAGATTATACAAGTCCTAAAGAGA
130650892 TG
1 TG
130650894 GAGGAGTGGA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (54 bp):
TGAACACTGAATTGCTACCAAAGCCTACAGAAGATTATACAAGTCCTAAAGAGA
Found at i:130653055 original size:35 final size:35
Alignment explanation
Indices: 130653011--130653177 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
130653001 TCCTCATTGA
** *
130653011 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
130653046 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
130653086 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
130653121 AATACCGTACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
130653156 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
130653178 CTTTGCCATG
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
35 85 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:130653094 original size:75 final size:73
Alignment explanation
Indices: 130653006--130653177 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
130652996 GGTTTTCCTC
** * * **
130653006 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
130653070 TCAGTATGG
65 TCAGTATGG
* *
130653079 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCGTACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
130653144 CTCAGTATGG
64 CTCAGTATGG
130653154 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
130653178 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:130655285 original size:12 final size:12
Alignment explanation
Indices: 130655268--130655297 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
130655258 CCAATATATA
130655268 TTTGAATTGGAT
1 TTTGAATTGGAT
130655280 TTTGAATTGGAT
1 TTTGAATTGGAT
*
130655292 TCTGAA
1 TTTGAA
130655298 AGAACTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.23, T:0.47
Consensus pattern (12 bp):
TTTGAATTGGAT
Found at i:130656843 original size:54 final size:54
Alignment explanation
Indices: 130656770--130656879 Score: 125
Period size: 54 Copynumber: 2.0 Consensus size: 54
130656760 AATATGGAGG
* *
130656770 TGAACACTGAATTCCTACCATATCC-AACAGAAGA-TCTTACAAGTGCTAAAGAGA
1 TGAACACTGAATTCCTACCAAATCCTAAC-GAAGATTC-TACAAGTCCTAAAGAGA
* ** * *
130656824 TGAACATTGAATTGTTACCAAATCCTATCGAAGATTCTACAGGTCCTAAAGAGA
1 TGAACACTGAATTCCTACCAAATCCTAACGAAGATTCTACAAGTCCTAAAGAGA
130656878 TG
1 TG
130656880 GAGGAGTGGA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
54 43 0.91
55 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.25
Consensus pattern (54 bp):
TGAACACTGAATTCCTACCAAATCCTAACGAAGATTCTACAAGTCCTAAAGAGA
Found at i:130658739 original size:2 final size:2
Alignment explanation
Indices: 130658732--130658763 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
130658722 TTATTAATAG
130658732 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
130658764 AAAGTGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:130659271 original size:54 final size:54
Alignment explanation
Indices: 130659177--130659286 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 54
130659167 TCCAATCCTC
* * * * *
130659177 CATCTCTTTAGGACCTGTAGAATCTTCTATAGGCTTTGGTAACATTTCAATGTT
1 CATCTCTTTAGCAACTGTAGAATCTTCTATAGGATATGGTAACAATTCAATGTT
* * * * *
130659231 CATCTCTTTAGCAATTGTAGGATCTTCTGTAGGATATGGTAGCAATTCAGTGTT
1 CATCTCTTTAGCAACTGTAGAATCTTCTATAGGATATGGTAACAATTCAATGTT
130659285 CA
1 CA
130659287 CCTCCATATT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (54 bp):
CATCTCTTTAGCAACTGTAGAATCTTCTATAGGATATGGTAACAATTCAATGTT
Found at i:130660277 original size:15 final size:14
Alignment explanation
Indices: 130660252--130660281 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
130660242 TACGAGTAAA
130660252 GGAGAAAATATGAG
1 GGAGAAAATATGAG
130660266 GGAGATAAATATGAG
1 GGAGA-AAATATGAG
130660281 G
1 G
130660282 TCAATTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.37, T:0.17
Consensus pattern (14 bp):
GGAGAAAATATGAG
Found at i:130665109 original size:6 final size:6
Alignment explanation
Indices: 130665098--130665123 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
130665088 CAATCAAAAT
130665098 AATTTA AATTTA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AA
130665124 AAAATCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:130675537 original size:29 final size:30
Alignment explanation
Indices: 130675503--130675564 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
130675493 TTTAAGTGAT
*
130675503 AATTAAGAGTAA-TAATTT-TCTTTTACATC
1 AATTAAAAGTAATTAATTTCTC-TTTACATC
*
130675532 AATTAAAATTAATTTAATTTCTCTTTACATC
1 AATTAAAAGTAA-TTAATTTCTCTTTACATC
130675563 AA
1 AA
130675565 ATTTTTAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 10 0.36
31 16 0.57
32 2 0.07
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.45
Consensus pattern (30 bp):
AATTAAAAGTAATTAATTTCTCTTTACATC
Found at i:130675884 original size:21 final size:21
Alignment explanation
Indices: 130675859--130675899 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
130675849 TTTTATTATT
*
130675859 AAATTTTTTAT-ATAATATTTA
1 AAATTATTTATAAT-ATATTTA
130675880 AAATTATTTATAATATATTT
1 AAATTATTTATAATATATTT
130675900 GAATTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AAATTATTTATAATATATTTA
Found at i:130678919 original size:10 final size:10
Alignment explanation
Indices: 130678891--130678926 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
130678881 AATCCCATTC
130678891 ATATATTAAGA
1 ATATATTAA-A
130678902 ATTATATTAAA
1 A-TATATTAAA
130678913 ATATATTAAA
1 ATATATTAAA
130678923 ATAT
1 ATAT
130678927 TAAATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 13 0.54
11 3 0.12
12 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (10 bp):
ATATATTAAA
Found at i:130678944 original size:18 final size:19
Alignment explanation
Indices: 130678901--130678944 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
130678891 ATATATTAAG
130678901 AATTATATTAAAATATATT
1 AATTATATTAAAATATATT
* *
130678920 AA-AATATTAAATTA-ATT
1 AATTATATTAAAATATATT
130678937 AATTATAT
1 AATTATAT
130678945 CATTTATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.24
18 14 0.67
19 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTATATTAAAATATATT
Found at i:130679100 original size:27 final size:27
Alignment explanation
Indices: 130679059--130679110 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
130679049 CTGGGAACAA
130679059 TTATATAAATAAATA-AATAAATATTTT
1 TTATATAAATAAATATAA-AAATATTTT
* *
130679086 TTATTTAAATTAATATAAAAATATT
1 TTATATAAATAAATATAAAAATATT
130679111 AATTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
TTATATAAATAAATATAAAAATATTTT
Found at i:130689189 original size:31 final size:31
Alignment explanation
Indices: 130689120--130689189 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
130689110 ATAAAATAAT
** *
130689120 CATTGAATTATTTGAAAGTTTTCATTTAAAT
1 CATTGAATTATTCAAAAGTTTTCATTTAAAC
* * *
130689151 TACTGAATTATTCAAAAGTTTTCATTTAAGC
1 CATTGAATTATTCAAAAGTTTTCATTTAAAC
130689182 CATTGAAT
1 CATTGAAT
130689190 AAAAATTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (31 bp):
CATTGAATTATTCAAAAGTTTTCATTTAAAC
Found at i:130691806 original size:16 final size:16
Alignment explanation
Indices: 130691785--130691815 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
130691775 AACCATCTAC
130691785 TCAATTCTAAAAACTT
1 TCAATTCTAAAAACTT
*
130691801 TCAATTCTGAAAACT
1 TCAATTCTAAAAACT
130691816 GACAATTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.35
Consensus pattern (16 bp):
TCAATTCTAAAAACTT
Found at i:130697800 original size:15 final size:15
Alignment explanation
Indices: 130697780--130697816 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
130697770 AAAGAGACTG
130697780 TTGTTGCAT-AAGAGC
1 TTGTTGCATCAAG-GC
130697795 TTGTTGCATCAAGGC
1 TTGTTGCATCAAGGC
130697810 TTGTTGC
1 TTGTTGC
130697817 TGTTGCTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (15 bp):
TTGTTGCATCAAGGC
Found at i:130706761 original size:7 final size:7
Alignment explanation
Indices: 130706749--130706778 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
130706739 ATTATTATTA
130706749 TTATCTT
1 TTATCTT
130706756 TTATCTT
1 TTATCTT
130706763 TTATCTT
1 TTATCTT
130706770 TTATCTT
1 TTATCTT
130706777 TT
1 TT
130706779 TTTTACCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATCTT
Found at i:130710822 original size:2 final size:2
Alignment explanation
Indices: 130710815--130710844 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
130710805 TTTAAAGTAA
130710815 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130710845 TAAATAAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130716209 original size:2 final size:2
Alignment explanation
Indices: 130716202--130716239 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
130716192 GGGATCAGGA
*
130716202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130716240 TTCTAAAATA
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:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130720891 original size:33 final size:33
Alignment explanation
Indices: 130720849--130720972 Score: 230
Period size: 33 Copynumber: 3.8 Consensus size: 33
130720839 TTTCTTCTTG
*
130720849 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
130720882 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
130720915 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
130720948 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
130720973 TGAAACAGAG
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.30, C:0.43, G:0.10, T:0.18
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:130726045 original size:94 final size:93
Alignment explanation
Indices: 130725916--130726103 Score: 281
Period size: 94 Copynumber: 2.0 Consensus size: 93
130725906 GAAACCATCA
* *
130725916 ACTACGTAACGTTTAATCTTTTGGATAAAAAAAACATCAGCAATCATCAATAATTCCAACTTTAG
1 ACTACGTAACGGTTAATCTTTTGGATAAAAAAAACATCAGCAATCATCAATAATGCCAACTTTAG
*
130725981 CTAACAGCAAGA-TCTCCAGTACAAATTT
66 CTAACAGCAAGACT-TCCAGCACAAATTT
* * *
130726009 ACTAGGTAACGGTT-ATCTTTTGGAATTAAAAGAAACATCGGCAATCATCAATAATGCCAACTTT
1 ACTACGTAACGGTTAATCTTTTGG-A-TAAAAAAAACATCAGCAATCATCAATAATGCCAACTTT
130726073 AGCTAACAGCAAGACTTCCAGCACAAATTT
64 AGCTAACAGCAAGACTTCCAGCACAAATTT
130726103 A
1 A
130726104 ACTTGCTTAA
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
92 9 0.10
93 13 0.15
94 63 0.73
95 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (93 bp):
ACTACGTAACGGTTAATCTTTTGGATAAAAAAAACATCAGCAATCATCAATAATGCCAACTTTAG
CTAACAGCAAGACTTCCAGCACAAATTT
Found at i:130726686 original size:13 final size:13
Alignment explanation
Indices: 130726668--130726692 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
130726658 CCAAATTTCT
130726668 AAACAAAAAAATC
1 AAACAAAAAAATC
130726681 AAACAAAAAAAT
1 AAACAAAAAAAT
130726693 AAGCATAGAG
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:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (13 bp):
AAACAAAAAAATC
Found at i:130738789 original size:51 final size:51
Alignment explanation
Indices: 130738731--130738831 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 51
130738721 CCCATTGGCA
*
130738731 GCACCATCCCATGTTTTTTAAAAA-AAA-TTGGATGCTGCCAGACTCATTGGG
1 GCACCATCCCATG--TTTTAAAAAGAAATTTGGATGCCGCCAGACTCATTGGG
*
130738782 GCACCATCCCATGTTTTAAAAAGAAATTTGGATGCCGCCAGAGTCATTGG
1 GCACCATCCCATGTTTTAAAAAGAAATTTGGATGCCGCCAGACTCATTGG
130738832 TGGCGCCGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
49 9 0.20
50 3 0.07
51 34 0.74
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (51 bp):
GCACCATCCCATGTTTTAAAAAGAAATTTGGATGCCGCCAGACTCATTGGG
Found at i:130742677 original size:22 final size:24
Alignment explanation
Indices: 130742650--130742694 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
130742640 TTATTGTTTA
*
130742650 AAATTTAA-TA-AAAAATTTATTT
1 AAATTTAACTATAAAAATATATTT
130742672 AAATTTAACTATAAAAATATATT
1 AAATTTAACTATAAAAATATATT
130742695 AATATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 2 0.10
24 10 0.50
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATTTAACTATAAAAATATATTT
Found at i:130744474 original size:46 final size:44
Alignment explanation
Indices: 130744415--130744529 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
130744405 ACAGGACAGA
* *
130744415 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
130744461 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
130744505 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
130744530 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:130744510 original size:44 final size:45
Alignment explanation
Indices: 130744415--130744548 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
130744405 ACAGGACAGA
* *
130744415 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
130744461 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
130744505 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
130744549 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:130750417 original size:46 final size:44
Alignment explanation
Indices: 130750358--130750472 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
130750348 ACAGGACAGA
* *
130750358 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
130750404 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
130750448 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
130750473 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:130750453 original size:44 final size:45
Alignment explanation
Indices: 130750358--130750491 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
130750348 ACAGGACAGA
* *
130750358 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
130750404 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
130750448 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
130750492 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:130760915 original size:2 final size:2
Alignment explanation
Indices: 130760908--130760936 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
130760898 AGTAAATTAT
130760908 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
130760937 GTAAATGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:130761571 original size:14 final size:14
Alignment explanation
Indices: 130761554--130761592 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
130761544 TTCATTTCGA
130761554 ATTTTTATAAATAT
1 ATTTTTATAAATAT
* *
130761568 ATTTATATAAATTT
1 ATTTTTATAAATAT
130761582 ATTTGTTATAA
1 ATTT-TTATAA
130761593 GAGGTGGTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
ATTTTTATAAATAT
Found at i:130761936 original size:13 final size:13
Alignment explanation
Indices: 130761918--130761979 Score: 81
Period size: 13 Copynumber: 4.8 Consensus size: 13
130761908 TTTGGCAATA
130761918 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
130761931 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
*
130761944 C-TGTGAAAAAGTG
1 CTTTTG-AAAAGTG
*
130761957 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
130761970 CTTTTGAAAA
1 CTTTTGAAAA
130761980 ATTTGGTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
12 3 0.07
13 35 0.85
14 3 0.07
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:130761959 original size:26 final size:27
Alignment explanation
Indices: 130761924--130761980 Score: 98
Period size: 26 Copynumber: 2.1 Consensus size: 27
130761914 AATACTTTTG
130761924 AAAAGTGCTTTTGAGAAGTGC-TGTGA
1 AAAAGTGCTTTTGAGAAGTGCTTGTGA
*
130761950 AAAAGTGCTTTTGAGAAGTGCTTTTGA
1 AAAAGTGCTTTTGAGAAGTGCTTGTGA
130761977 AAAA
1 AAAA
130761981 TTTGGTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.32
Consensus pattern (27 bp):
AAAAGTGCTTTTGAGAAGTGCTTGTGA
Found at i:130762555 original size:18 final size:18
Alignment explanation
Indices: 130762532--130762566 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
130762522 ACTTTTCTTC
*
130762532 TAAAAATATTTTTAAAAT
1 TAAAAATACTTTTAAAAT
130762550 TAAAAATACTTTTAAAA
1 TAAAAATACTTTTAAAA
130762567 AGCAACGCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAAATACTTTTAAAAT
Found at i:130764002 original size:15 final size:16
Alignment explanation
Indices: 130763982--130764014 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
130763972 TATATATTTT
130763982 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
130763997 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
130764014 T
1 T
130764015 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:130764100 original size:22 final size:22
Alignment explanation
Indices: 130764061--130764119 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
130764051 GTTTTAAGAA
*
130764061 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
130764082 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
130764104 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
130764120 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:130764136 original size:26 final size:24
Alignment explanation
Indices: 130764090--130764149 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
130764080 ATTTGTTTTA
*
130764090 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
130764114 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
130764140 TTTTTTATTT
1 ATATTTATTT
130764150 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:130764257 original size:36 final size:31
Alignment explanation
Indices: 130764181--130764252 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
130764171 TAATATGGGC
*
130764181 CGGGCCGGGCTCAGGCTTAATAATTTTATTT
1 CGGGCCGGGCTCAGGCATAATAATTTTATTT
* *
130764212 CGGGCCGGGCTCGGGCATAGTAATTTTATTT
1 CGGGCCGGGCTCAGGCATAATAATTTTATTT
*
130764243 CGGGACGGGC
1 CGGGCCGGGC
130764253 CGGGCCTAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.17, C:0.21, G:0.33, T:0.29
Consensus pattern (31 bp):
CGGGCCGGGCTCAGGCATAATAATTTTATTT
Found at i:130764263 original size:30 final size:31
Alignment explanation
Indices: 130764181--130764263 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
130764171 TAATATGGGC
* * * *
130764181 CGGGCCGGGCTCAGGCTTAATAATTTTATTT
1 CGGGACGGGCTCGGGCATAGTAATTTTATTT
*
130764212 CGGGCCGGGCTCGGGCATAGTAATTTTATTT
1 CGGGACGGGCTCGGGCATAGTAATTTTATTT
*
130764243 CGGGACGGGC-CGGGCCTAGTA
1 CGGGACGGGCTCGGGCATAGTA
130764264 GACGGGCCTA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 10 0.21
31 37 0.79
ACGTcount: A:0.17, C:0.22, G:0.34, T:0.28
Consensus pattern (31 bp):
CGGGACGGGCTCGGGCATAGTAATTTTATTT
Found at i:130764554 original size:18 final size:18
Alignment explanation
Indices: 130764515--130764556 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
130764505 AATAAGTTTT
*
130764515 TAATTAAATAAATTTAAT
1 TAATTAAATAAATTTAAC
*
130764533 TAATTAAA-AATTTTAAAC
1 TAATTAAATAAATTT-AAC
130764551 TAATTA
1 TAATTA
130764557 CATATTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATTAAATAAATTTAAC
Found at i:130768092 original size:28 final size:27
Alignment explanation
Indices: 130768025--130768092 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
130768015 CTTTTATGAG
*
130768025 TAAAAACTATA-AGGTAAGGGCTTATT
1 TAAAAACAATATAGGTAAGGGCTTATT
*
130768051 TAACTAAA-AA-ATAGGTTAAGGGCTTGTT
1 TAA--AAACAATATAGG-TAAGGGCTTATT
130768079 TAAAAACAATATAG
1 TAAAAACAATATAG
130768093 TGAGTTGAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
26 7 0.21
27 6 0.18
28 21 0.62
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (27 bp):
TAAAAACAATATAGGTAAGGGCTTATT
Found at i:130789172 original size:2 final size:2
Alignment explanation
Indices: 130789165--130789197 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
130789155 AAATTTAGAT
130789165 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
130789198 TATTAGAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:130803194 original size:18 final size:18
Alignment explanation
Indices: 130803157--130803194 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
130803147 ATCTATATTT
*
130803157 TATTTTTCATAATTTTAA
1 TATTTTTCATAATTTGAA
*
130803175 TATTTTTCATAGTTTGAA
1 TATTTTTCATAATTTGAA
130803193 TA
1 TA
130803195 AATGTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (18 bp):
TATTTTTCATAATTTGAA
Found at i:130804624 original size:17 final size:17
Alignment explanation
Indices: 130804602--130804635 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
130804592 TTGTAGCTGT
130804602 TTGTGTTGAATATTCCA
1 TTGTGTTGAATATTCCA
*
130804619 TTGTGTTGTATATTCCA
1 TTGTGTTGAATATTCCA
130804636 ACTATACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.50
Consensus pattern (17 bp):
TTGTGTTGAATATTCCA
Found at i:130814703 original size:22 final size:23
Alignment explanation
Indices: 130814674--130814730 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 23
130814664 TGCACAAACG
130814674 AACAGAGAGCACTA-AAGTGCTA
1 AACAGAGAGCACTAGAAGTGCTA
* *
130814696 TACAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTAGAAGTGCTA
130814718 AACAGAGAGCACT
1 AACAGAGAGCACT
130814731 TAACATGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.14
Consensus pattern (23 bp):
AACAGAGAGCACTAGAAGTGCTA
Found at i:130815922 original size:5 final size:5
Alignment explanation
Indices: 130815923--130815961 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
130815913 TTTATATTAT
* *
130815923 ATATA ATATA ATATA ATATA ATAAA ATAT- ATATT ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
130815962 TTAATACTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:130815925 original size:7 final size:7
Alignment explanation
Indices: 130815915--130816004 Score: 51
Period size: 7 Copynumber: 12.9 Consensus size: 7
130815905 TCTTATGTTT
130815915 TATATTA
1 TATATTA
*
130815922 TATATAA
1 TATATTA
*
130815929 TATAATA
1 TATATTA
*
130815936 TAATATAA
1 T-ATATTA
* *
130815944 TAAAATA
1 TATATTA
130815951 TATATTA
1 TATATTA
130815958 TATATTA
1 TATATTA
130815965 -ATACTTA
1 TATA-TTA
*
130815972 AATATTA
1 TATATTA
*
130815979 -AGT-TAA
1 TA-TATTA
*
130815985 TATAATA
1 TATATTA
*
130815992 TATAATA
1 TATATTA
130815999 TATATT
1 TATATT
130816005 TTTATATAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
6 7 0.11
7 48 0.76
8 8 0.13
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (7 bp):
TATATTA
Found at i:130815986 original size:41 final size:37
Alignment explanation
Indices: 130815915--130816004 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 37
130815905 TCTTATGTTT
130815915 TATATTATATA-TAATATAATATAATATAATAAAATA
1 TATATTATATATTAATATAATATAATATAATAAAATA
*
130815951 TATATTATATATTAATACTTAAATATTAAGT-TAATATAATA
1 TATATTATATATTAATA--T-AATA-TAA-TATAATAAAATA
*
130815992 TATAATATATATT
1 TATATTATATATT
130816005 TTTATATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
36 11 0.24
37 5 0.11
39 1 0.02
40 4 0.09
41 24 0.52
42 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (37 bp):
TATATTATATATTAATATAATATAATATAATAAAATA
Found at i:130816295 original size:14 final size:14
Alignment explanation
Indices: 130816276--130816302 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
130816266 CGAGAATGCA
130816276 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
130816290 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
130816303 AACAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Done.