Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold364
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: 2089110
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 10
Found at i:798 original size:20 final size:22
Alignment explanation
Indices: 768--822 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
758 ATGTTTAAAC
768 ATTTTTAATTAATTT-GTA-AT-T
1 ATTTTT-ATT-ATTTAGTATATAT
789 ATTTTTATTATTTAGTATATAT
1 ATTTTTATTATTTAGTATATAT
811 ATTTTTAATTAT
1 ATTTTT-ATTAT
823 CTATCAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.13
20 6 0.20
21 8 0.27
22 7 0.23
23 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (22 bp):
ATTTTTATTATTTAGTATATAT
Found at i:1751 original size:16 final size:16
Alignment explanation
Indices: 1730--1788 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
1720 TTTGGGTTAG
*
1730 TCTCGGGTTCGGGATC
1 TCTCGGGTTCGGGTTC
* * *
1746 TCTCGGGTTTGAGTTA
1 TCTCGGGTTCGGGTTC
* *
1762 TTTCGGGTTTGGGTTC
1 TCTCGGGTTCGGGTTC
1778 TCTCGGGTTCG
1 TCTCGGGTTCG
1789 AGCTTTTTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.05, C:0.19, G:0.36, T:0.41
Consensus pattern (16 bp):
TCTCGGGTTCGGGTTC
Found at i:1798 original size:32 final size:32
Alignment explanation
Indices: 1732--1798 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
1722 TGGGTTAGTC
*
1732 TCGGGTTCGGGATCTCTCGGGTTTGAGTTATT
1 TCGGGTTCGGGATCTCTCGGGTTCGAGTTATT
* *
1764 TCGGGTTTGGGTTCTCTCGGGTTCGAGCTT-TT
1 TCGGGTTCGGGATCTCTCGGGTTCGAG-TTATT
1796 TCG
1 TCG
1799 AGTCGTCTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 29 0.94
33 2 0.06
ACGTcount: A:0.06, C:0.18, G:0.34, T:0.42
Consensus pattern (32 bp):
TCGGGTTCGGGATCTCTCGGGTTCGAGTTATT
Found at i:2068 original size:12 final size:12
Alignment explanation
Indices: 2051--2096 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
2041 CTGAAATCCT
*
2051 AACTTTAAATTA
1 AACTTTAAACTA
2063 AACTTTAAACCTA
1 AACTTTAAA-CTA
* *
2076 AACCTTCAACTA
1 AACTTTAAACTA
2088 AACTTTAAA
1 AACTTTAAA
2097 TTGGAATCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (12 bp):
AACTTTAAACTA
Found at i:2129 original size:14 final size:14
Alignment explanation
Indices: 2106--2154 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
2096 ATTGGAATCC
2106 AAATTATTAAATCTT
1 AAATT-TTAAATCTT
2121 AAATTTTAAATCTT
1 AAATTTTAAATCTT
**
2135 AACCTTTAAA-CTT
1 AAATTTTAAATCTT
2148 CAAATTT
1 -AAATTT
2155 CAATTTTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 3 0.10
14 21 0.72
15 5 0.17
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATTTTAAATCTT
Found at i:2250 original size:7 final size:7
Alignment explanation
Indices: 2169--2358 Score: 93
Period size: 7 Copynumber: 26.7 Consensus size: 7
2159 TTTTCAGCCC
2169 TAAACTT
1 TAAACTT
*
2176 CAAACTT
1 TAAACTT
* *
2183 AAAATTT
1 TAAACTT
*
2190 TAAATTT
1 TAAACTT
2197 TAAACTT
1 TAAACTT
2204 TAAA-TT
1 TAAACTT
*
2210 TGAAACCT
1 T-AAACTT
2218 TAAA-TT
1 TAAACTT
*
2224 TAAAACCT
1 T-AAACTT
**
2232 TAAACCA
1 TAAACTT
*
2239 CAAACTT
1 TAAACTT
*
2246 TAAACTC
1 TAAACTT
* *
2253 AAAACTC
1 TAAACTT
*
2260 AAAACTT
1 TAAACTT
*
2267 TAAACCT
1 TAAACTT
*
2274 TAATCTT
1 TAAACTT
* *
2281 AAAACTA
1 TAAACTT
2288 TAAACTT
1 TAAACTT
2295 TAAA-TCT
1 TAAACT-T
2302 TAAA-TT
1 TAAACTT
*
2308 TAAATTT
1 TAAACTT
*
2315 TAAAAAATTT
1 T---AAACTT
2325 TAAACTT
1 TAAACTT
2332 TAAA-TCT
1 TAAACT-T
*
2339 TAAATTT
1 TAAACTT
2346 TAAATCTT
1 TAAA-CTT
2354 TAAAC
1 TAAAC
2359 CTTGAACTCA
Statistics
Matches: 144, Mismatches: 27, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
6 12 0.08
7 114 0.79
8 11 0.08
10 7 0.05
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.38
Consensus pattern (7 bp):
TAAACTT
Found at i:2741 original size:7 final size:8
Alignment explanation
Indices: 2724--2814 Score: 62
Period size: 7 Copynumber: 12.9 Consensus size: 8
2714 TTTCTTAACC
2724 TTAAATC-
1 TTAAATCT
2731 TT-AATCT
1 TTAAATCT
2738 TTAAAT-T
1 TTAAATCT
2745 TTAAA-CT
1 TTAAATCT
2752 TTAAAT-T
1 TTAAATCT
2759 TTAAA-CT
1 TTAAATCT
2766 TTAAATC-
1 TTAAATCT
*
2773 TTAAA-CA
1 TTAAATCT
2780 TTAAATC-
1 TTAAATCT
* *
2787 CTAAA-CC
1 TTAAATCT
2794 TTAAA-CT
1 TTAAATCT
*
2801 TT-AACCT
1 TTAAATCT
2808 TTAAATC
1 TTAAATC
2815 CTAAATTCTT
Statistics
Matches: 69, Mismatches: 4, Indels: 21
0.73 0.04 0.22
Matches are distributed among these distances:
6 8 0.12
7 53 0.77
8 8 0.12
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.43
Consensus pattern (8 bp):
TTAAATCT
Found at i:2849 original size:7 final size:7
Alignment explanation
Indices: 2825--3085 Score: 58
Period size: 7 Copynumber: 37.3 Consensus size: 7
2815 CTAAATTCTT
2825 AACTTTA
1 AACTTTA
* *
2832 AACCCTAA
1 AA-CTTTA
2840 AACTTTA
1 AACTTTA
*
2847 AACCTTA
1 AACTTTA
2854 AACTTTA
1 AACTTTA
* *
2861 ACCTTTG
1 AACTTTA
*
2868 AA-TCCTA
1 AACT-TTA
*
2875 AA-TTCTT
1 AACTT-TA
2882 AACTTTA
1 AACTTTA
**
2889 AACCCTA
1 AACTTTA
* **
2896 ACCACTA
1 AACTTTA
* *
2903 AACCTAA
1 AACTTTA
2910 AACTTTA
1 AACTTTA
*
2917 AAC-TTG
1 AACTTTA
*
2923 AACTTTG
1 AACTTTA
*
2930 AAC-CTA
1 AACTTTA
2936 AA-TCTTA
1 AACT-TTA
2943 AACTTTA
1 AACTTTA
*
2950 AAC-TTG
1 AACTTTA
**
2956 AACCCTA
1 AACTTTA
**
2963 AA-TCCA
1 AACTTTA
*
2969 AACCTTA
1 AACTTTA
*
2976 AAC-CTA
1 AACTTTA
2982 AACCTTTA
1 AA-CTTTA
*
2990 AACTTTT
1 AACTTTA
2997 AACTTTA
1 AACTTTA
3004 AA-TTCTA
1 AACTT-TA
3011 AACTTTA
1 AACTTTA
* *
3018 CACCTTGA
1 -AACTTTA
3026 AA-TCTTA
1 AACT-TTA
*
3033 AA-TTCAA
1 AACTT-TA
*
3040 AACCTTA
1 AACTTTA
3047 AACTTTAA
1 AACTTT-A
3055 AACTTTAA
1 AACTTT-A
*
3063 AACCTTA
1 AACTTTA
*
3070 AACTCTA
1 AACTTTA
*
3077 AATTTTA
1 AACTTTA
3084 AA
1 AA
3086 ACTCAAACCT
Statistics
Matches: 182, Mismatches: 53, Indels: 38
0.67 0.19 0.14
Matches are distributed among these distances:
6 26 0.14
7 122 0.67
8 34 0.19
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.34
Consensus pattern (7 bp):
AACTTTA
Found at i:2858 original size:14 final size:14
Alignment explanation
Indices: 2656--3205 Score: 132
Period size: 14 Copynumber: 39.4 Consensus size: 14
2646 CCTCGAGCCC
*
2656 TAAACTTTGAACCT
1 TAAACTTTAAACCT
*
2670 TAAA-TCTTAAACTT
1 TAAACT-TTAAACCT
* * **
2684 TAATCCTCGAACCT
1 TAAACTTTAAACCT
2698 T-AACTTTAAACCT
1 TAAACTTTAAACCT
** *
2711 T-AGTTTCTTAACCT
1 TAAACTT-TAAACCT
* *
2725 TAAA-TCTTAATCTT
1 TAAACT-TTAAACCT
* *
2739 TAAATTTTAAACTT
1 TAAACTTTAAACCT
* *
2753 TAAATTTTAAACTT
1 TAAACTTTAAACCT
*
2767 TAAA-TCTTAAACAT
1 TAAACT-TTAAACCT
*
2781 TAAA-TCCTAAACCT
1 TAAACT-TTAAACCT
2795 TAAACTTT-AACCTT
1 TAAACTTTAAACC-T
* *
2809 TAAA-TCCTAAATTCT
1 TAAACT-TTAAA-CCT
2824 T-AACTTTAAACCCT
1 TAAACTTTAAA-CCT
*
2838 AAAACTTTAAACCT
1 TAAACTTTAAACCT
2852 TAAACTTT-AACCTT
1 TAAACTTTAAACC-T
* * *
2866 TGAA-TCCTAAATTCT
1 TAAACT-TTAAA-CCT
*
2881 T-AACTTTAAACCC
1 TAAACTTTAAACCT
* **
2894 TAACCACTAAACCT
1 TAAACTTTAAACCT
*
2908 AAAACTTTAAA-CT
1 TAAACTTTAAACCT
* *
2921 TGAACTTTGAACC-
1 TAAACTTTAAACCT
*
2934 TAAA-TCTTAAACTT
1 TAAACT-TTAAACCT
* *
2948 TAAAC-TTGAACCC
1 TAAACTTTAAACCT
**
2961 TAAA-TCCAAACCT
1 TAAACTTTAAACCT
*
2974 TAAAC-CTAAACCTT
1 TAAACTTTAAACC-T
* *
2988 TAAACTTTTAACTT
1 TAAACTTTAAACCT
*
3002 TAAA-TTCTAAACTT
1 TAAACTT-TAAACCT
* * *
3016 TACACCTTGAAATCT
1 TA-AACTTTAAACCT
*
3031 TAAA-TTCAAAACCT
1 TAAACTT-TAAACCT
*
3045 TAAACTTTAAAACTT
1 TAAACTTT-AAACCT
*
3060 TAAAACCTTAAA-CT
1 T-AAACTTTAAACCT
* *
3074 CTAAATTTTAAAACT
1 -TAAACTTTAAACCT
*
3089 CAAACCTTT-AA-CT
1 TAAA-CTTTAAACCT
** *
3102 CGAA-TTTCTAACCT
1 TAAACTTT-AAACCT
3116 TAAA-TCTT-AACCTT
1 TAAACT-TTAAACC-T
3130 TAAACTTTAAACCCT
1 TAAACTTTAAA-CCT
* *
3145 TAACCTATAAACC-
1 TAAACTTTAAACCT
* * *
3158 TAAAGCTTAAAATCA
1 TAAA-CTTTAAACCT
*
3173 TAACCTTTAAAACC-
1 TAAACTTT-AAACCT
*
3187 TAAACTTT-AACCC
1 TAAACTTTAAACCT
3200 TAAACT
1 TAAACT
3206 AAATAATTTA
Statistics
Matches: 396, Mismatches: 90, Indels: 101
0.67 0.15 0.17
Matches are distributed among these distances:
11 3 0.01
12 5 0.01
13 91 0.23
14 212 0.54
15 73 0.18
16 12 0.03
ACGTcount: A:0.41, C:0.22, G:0.02, T:0.36
Consensus pattern (14 bp):
TAAACTTTAAACCT
Found at i:2860 original size:57 final size:56
Alignment explanation
Indices: 2787--2917 Score: 210
Period size: 57 Copynumber: 2.3 Consensus size: 56
2777 ACATTAAATC
2787 CTAAACCTTAAACTTTAACCTTTAAATCCTAAATTCTTAACTTTAAACCCTAA-AA
1 CTAAACCTTAAACTTTAACCTTTAAATCCTAAATTCTTAACTTTAAACCCTAACAA
* *
2842 CTTTAAACCTTAAACTTTAACCTTTGAATCCTAAATTCTTAACTTTAAACCCTAACCA
1 C--TAAACCTTAAACTTTAACCTTTAAATCCTAAATTCTTAACTTTAAACCCTAACAA
*
2900 CTAAACCTAAAACTTTAA
1 CTAAACCTTAAACTTTAA
2918 ACTTGAACTT
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
55 1 0.01
56 16 0.23
57 51 0.73
58 2 0.03
ACGTcount: A:0.40, C:0.24, G:0.01, T:0.34
Consensus pattern (56 bp):
CTAAACCTTAAACTTTAACCTTTAAATCCTAAATTCTTAACTTTAAACCCTAACAA
Found at i:2866 original size:21 final size:20
Alignment explanation
Indices: 2788--2952 Score: 71
Period size: 21 Copynumber: 8.2 Consensus size: 20
2778 CATTAAATCC
2788 TAAACCTTAAACT-TTAACCTT
1 TAAACC-TAAACTCTTAA-CTT
*
2809 TAAATCCTAAATTCTTAACTT
1 TAAA-CCTAAACTCTTAACTT
2830 TAAACCCT-AA-----AACTT
1 TAAA-CCTAAACTCTTAACTT
2845 TAAACCTTAAACT-TTAACCTT
1 TAAACC-TAAACTCTTAA-CTT
* *
2866 TGAATCCTAAATTCTTAACTT
1 T-AAACCTAAACTCTTAACTT
* * * *
2887 TAAACCCTAACCACTAAACCT
1 TAAA-CCTAAACTCTTAACTT
* * *
2908 AAAACTTTAAACT-TGAACTT
1 TAAAC-CTAAACTCTTAACTT
*
2928 TGAACCTAAA-TCTTAAACTT
1 TAAACCTAAACTCTT-AACTT
2948 TAAAC
1 TAAAC
2953 TTGAACCCTA
Statistics
Matches: 108, Mismatches: 21, Indels: 31
0.68 0.13 0.19
Matches are distributed among these distances:
14 2 0.02
15 10 0.09
16 2 0.02
18 1 0.01
19 5 0.05
20 24 0.22
21 50 0.46
22 14 0.13
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAACCTAAACTCTTAACTT
Found at i:2953 original size:27 final size:26
Alignment explanation
Indices: 2903--2966 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
2893 CTAACCACTA
* *
2903 AACCTAAAACTTTAAACTTGAACTTTG
1 AACCTAAATCTTTAAACTTAAAC-TTG
2930 AACCTAAATC-TTAAACTTTAAACTTG
1 AACCTAAATCTTTAAAC-TTAAACTTG
2956 AACCCTAAATC
1 AA-CCTAAATC
2967 CAAACCTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 11 0.33
27 22 0.67
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.31
Consensus pattern (26 bp):
AACCTAAATCTTTAAACTTAAACTTG
Found at i:2971 original size:26 final size:26
Alignment explanation
Indices: 2927--2978 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2917 AACTTGAACT
* *
2927 TTGAACCTAAATCTTAAACTTTAAAC
1 TTGAACCTAAATCTCAAACCTTAAAC
2953 TTGAACCCTAAATC-CAAACCTTAAAC
1 TTGAA-CCTAAATCTCAAACCTTAAAC
2979 CTAAACCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.42, C:0.25, G:0.04, T:0.29
Consensus pattern (26 bp):
TTGAACCTAAATCTCAAACCTTAAAC
Found at i:2976 original size:33 final size:33
Alignment explanation
Indices: 2889--2978 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 33
2879 CTTAACTTTA
* *
2889 AACCCTAACCACTAAACCTAAAACTTTAAACTTG
1 AACCCTAAAC-CTAAACCTTAAACTTTAAACTTG
** * *
2923 AACTTTGAACCTAAATCTTAAACTTTAAACTTG
1 AACCCTAAACCTAAACCTTAAACTTTAAACTTG
2956 AACCCTAAATCC-AAACCTTAAAC
1 AACCCTAAA-CCTAAACCTTAAAC
2979 CTAAACCTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
33 37 0.82
34 8 0.18
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (33 bp):
AACCCTAAACCTAAACCTTAAACTTTAAACTTG
Found at i:3574 original size:12 final size:12
Alignment explanation
Indices: 3559--3599 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
3549 ATATATTCTC
3559 AAATTATAAATA
1 AAATTATAAATA
*
3571 AAATTTTAAA-A
1 AAATTATAAATA
*
3582 AAATTATTAATA
1 AAATTATAAATA
3594 AAATTA
1 AAATTA
3600 ATATTTAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATTATAAATA
Found at i:6244 original size:17 final size:17
Alignment explanation
Indices: 6222--6257 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
6212 ATTGCTCTCA
*
6222 TTCGTTTCATTTTTATT
1 TTCGTTTCATTTTAATT
6239 TTCGTTTCATTTTAATT
1 TTCGTTTCATTTTAATT
6256 TT
1 TT
6258 AAACTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.06, T:0.69
Consensus pattern (17 bp):
TTCGTTTCATTTTAATT
Found at i:6329 original size:88 final size:88
Alignment explanation
Indices: 6216--6477 Score: 307
Period size: 88 Copynumber: 3.0 Consensus size: 88
6206 CAATCAATTG
* * * * * *
6216 CTCTCATTCGTTTCATTTTTATTTTCGTTTCATTTTAATTTTAAACTTTTTCTTTATTTACTAAT
1 CTCTAATTTGTTTCATTTTTATTTTCGTTTCATTTTAGTTTTAAACTTTTTCTTTATTCACCAAA
* *
6281 ATCTTTAAAATGCATAATTTTAA
66 ATCTATAAAATGCATAATTTCAA
* * *
6304 CTCTAATTTGTTTCATTTTTATTTTCGTTGCATTTTAGTTTCAAATTTTTTCTTTATTCACCAAA
1 CTCTAATTTGTTTCATTTTTATTTTCGTTTCATTTTAGTTTTAAACTTTTTCTTTATTCACCAAA
*
6369 ATCTATAAAA-GACATAATGTCAA
66 ATCTATAAAATG-CATAATTTCAA
* * ** *
6392 TTCTAATTTGTCTCATTTTTATTTTC-TCTTTGTTTTAGTTTT-AACTTTTT-TCTTATTGACCA
1 CTCTAATTTGTTTCATTTTTATTTTCGT-TTCATTTTAGTTTTAAACTTTTTCT-TTATTCACCA
*
6454 AAATCTATAGAATGCATAATTTCA
64 AAATCTATAAAATGCATAATTTCA
6478 TGTTAAAAAT
Statistics
Matches: 148, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
86 1 0.01
87 38 0.26
88 109 0.74
ACGTcount: A:0.27, C:0.14, G:0.06, T:0.53
Consensus pattern (88 bp):
CTCTAATTTGTTTCATTTTTATTTTCGTTTCATTTTAGTTTTAAACTTTTTCTTTATTCACCAAA
ATCTATAAAATGCATAATTTCAA
Found at i:8813 original size:20 final size:22
Alignment explanation
Indices: 8783--8837 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
8773 ATGTTTAAAC
8783 ATTTTTAATTAATTT-GTA-AT-T
1 ATTTTT-ATT-ATTTAGTATATAT
8804 ATTTTTATTATTTAGTATATAT
1 ATTTTTATTATTTAGTATATAT
8826 ATTTTTAATTAT
1 ATTTTT-ATTAT
8838 CTATCAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.13
20 6 0.20
21 8 0.27
22 7 0.23
23 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (22 bp):
ATTTTTATTATTTAGTATATAT
Found at i:9764 original size:16 final size:16
Alignment explanation
Indices: 9732--9800 Score: 75
Period size: 16 Copynumber: 4.2 Consensus size: 16
9722 TTAAATTTGA
*
9732 GTTTGGGTTAGTCTCGG
1 GTTTGGGTT-CTCTCGG
* *
9749 GTTCGGGATCTCTCGG
1 GTTTGGGTTCTCTCGG
* * *
9765 GTTTGAGTTATTTCGG
1 GTTTGGGTTCTCTCGG
9781 GTTTGGGTTCTCTCGG
1 GTTTGGGTTCTCTCGG
9797 GTTT
1 GTTT
9801 ATATTTTTTC
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
16 34 0.83
17 7 0.17
ACGTcount: A:0.06, C:0.14, G:0.36, T:0.43
Consensus pattern (16 bp):
GTTTGGGTTCTCTCGG
Found at i:9841 original size:32 final size:30
Alignment explanation
Indices: 9757--9842 Score: 73
Period size: 32 Copynumber: 2.7 Consensus size: 30
9747 GGGTTCGGGA
** *
9757 TCTCTCGGGTTTGAGTTATTTCGGGTTTGGGT
1 TCTCTCGGG-TTGAGTT-TTTCAAGTTAGGGT
* *
9789 TCTCTCGGGTTTATATTTTTTCAAGTTAGGGT
1 TCTCTCGGG-TT-GAGTTTTTCAAGTTAGGGT
9821 TCTCTCGGGTTCGAGCTTTTTC
1 TCTCTCGGGTT-GAG-TTTTTC
9843 GAGTCGTCTA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 3 0.07
32 38 0.86
33 3 0.07
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.48
Consensus pattern (30 bp):
TCTCTCGGGTTGAGTTTTTCAAGTTAGGGT
Found at i:10113 original size:12 final size:12
Alignment explanation
Indices: 10096--10141 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
10086 CTGAAATCCT
*
10096 AACTTTAAATTA
1 AACTTTAAACTA
10108 AACTTTAAACCTA
1 AACTTTAAA-CTA
* *
10121 AACCTTCAACTA
1 AACTTTAAACTA
10133 AACTTTAAA
1 AACTTTAAA
10142 TTGGAATCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (12 bp):
AACTTTAAACTA
Found at i:10174 original size:14 final size:14
Alignment explanation
Indices: 10151--10398 Score: 68
Period size: 14 Copynumber: 18.0 Consensus size: 14
10141 ATTGGAATCC
10151 AAATTATTAAATCTT
1 AAATT-TTAAATCTT
10166 AAATTTTAAATCTT
1 AAATTTTAAATCTT
**
10180 AACCTTTAAA-CTT
1 AAATTTTAAATCTT
* * *
10193 CAAATTTCAATTTTT
1 -AAATTTTAAATCTT
* ****
10208 CAGCCCTAAA-CTT
1 AAATTTTAAATCTT
* *
10221 CAAATTTAAAATTTT
1 -AAATTTTAAATCTT
10236 AAATTTTAAA-CTTT
1 AAATTTTAAATC-TT
* *
10250 AAATTTGAAACCTT
1 AAATTTTAAATCTT
* *
10264 AAATTTAAAACCTT
1 AAATTTTAAATCTT
****
10278 AAACCACAAA-CTTT
1 AAATTTTAAATC-TT
* * * *
10292 AAA-CTCAAAACTCA
1 AAATTTTAAATCT-T
* *
10306 AAACTTTAAACCTT
1 AAATTTTAAATCTT
* *
10320 -AATCTTAAAACTAT
1 AAATTTTAAATCT-T
*
10334 AAACTTTAAATCTT
1 AAATTTTAAATCTT
*
10348 AAA-TTTAAATTTT
1 AAATTTTAAATCTT
*
10361 AAA----AAATTTT
1 AAATTTTAAATCTT
*
10371 AAACTTTAAATCTT
1 AAATTTTAAATCTT
10385 AAATTTTAAATCTT
1 AAATTTTAAATCTT
10399 TAAACCTTGA
Statistics
Matches: 172, Mismatches: 45, Indels: 33
0.69 0.18 0.13
Matches are distributed among these distances:
10 10 0.06
13 33 0.19
14 104 0.60
15 25 0.15
ACGTcount: A:0.45, C:0.15, G:0.01, T:0.40
Consensus pattern (14 bp):
AAATTTTAAATCTT
Found at i:10245 original size:28 final size:28
Alignment explanation
Indices: 10151--10274 Score: 79
Period size: 28 Copynumber: 4.4 Consensus size: 28
10141 ATTGGAATCC
*
10151 AAATTATTAAATCTT-AAATTTTAAATCTT
1 AAATT-TTAAA-CTTCAAATTTAAAATCTT
** * * *
10180 AACCTTTAAACTTCAAATTTCAATTTTT
1 AAATTTTAAACTTCAAATTTAAAATCTT
* **** *
10208 CAGCCCTAAACTTCAAATTTAAAATTTT
1 AAATTTTAAACTTCAAATTTAAAATCTT
* * *
10236 AAATTTTAAACTTTAAATTTGAAACCTT
1 AAATTTTAAACTTCAAATTTAAAATCTT
*
10264 AAATTTAAAAC
1 AAATTTTAAAC
10275 CTTAAACCAC
Statistics
Matches: 73, Mismatches: 21, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
27 3 0.04
28 67 0.92
29 3 0.04
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.42
Consensus pattern (28 bp):
AAATTTTAAACTTCAAATTTAAAATCTT
Found at i:10295 original size:7 final size:7
Alignment explanation
Indices: 10214--10403 Score: 86
Period size: 7 Copynumber: 26.7 Consensus size: 7
10204 TTTTCAGCCC
10214 TAAACTT
1 TAAACTT
*
10221 CAAA-TT
1 TAAACTT
*
10227 TAAAATTT
1 T-AAACTT
*
10235 TAAATTT
1 TAAACTT
10242 TAAACTT
1 TAAACTT
10249 TAAA-TT
1 TAAACTT
*
10255 TGAAACCT
1 T-AAACTT
10263 TAAA-TT
1 TAAACTT
*
10269 TAAAACCT
1 T-AAACTT
**
10277 TAAACCA
1 TAAACTT
*
10284 CAAACTT
1 TAAACTT
*
10291 TAAACTC
1 TAAACTT
* *
10298 AAAACTC
1 TAAACTT
*
10305 AAAACTT
1 TAAACTT
*
10312 TAAACCT
1 TAAACTT
*
10319 TAATCTT
1 TAAACTT
* *
10326 AAAACTA
1 TAAACTT
10333 TAAACTT
1 TAAACTT
10340 TAAA-TCT
1 TAAACT-T
10347 TAAA-TT
1 TAAACTT
*
10353 TAAATTT
1 TAAACTT
*
10360 TAAAAAATTT
1 T---AAACTT
10370 TAAACTT
1 TAAACTT
10377 TAAA-TCT
1 TAAACT-T
*
10384 TAAATTT
1 TAAACTT
10391 TAAATCTT
1 TAAA-CTT
10399 TAAAC
1 TAAAC
10404 CTTGAACTCA
Statistics
Matches: 144, Mismatches: 25, Indels: 28
0.73 0.13 0.14
Matches are distributed among these distances:
6 14 0.10
7 109 0.76
8 14 0.10
10 7 0.05
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.38
Consensus pattern (7 bp):
TAAACTT
Found at i:10355 original size:28 final size:28
Alignment explanation
Indices: 10234--10356 Score: 101
Period size: 28 Copynumber: 4.4 Consensus size: 28
10224 ATTTAAAATT
* *
10234 TTAAATTTTAAACTTTAAA-TTTGAAACC
1 TTAAATTTAAAACTATAAACTTT-AAACC
*** *
10262 TTAAATTTAAAACCT-TAAACCACAAACT
1 TTAAATTTAAAA-CTATAAACTTTAAACC
* *
10290 TTAAACTCAAAACTCA-AAACTTTAAACC
1 TTAAATTTAAAACT-ATAAACTTTAAACC
*
10318 TT-AATCTTAAAACTATAAACTTTAAATC
1 TTAAAT-TTAAAACTATAAACTTTAAACC
10346 TTAAATTTAAA
1 TTAAATTTAAA
10357 TTTTAAAAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
27 5 0.07
28 64 0.86
29 5 0.07
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (28 bp):
TTAAATTTAAAACTATAAACTTTAAACC
Found at i:10601 original size:21 final size:20
Alignment explanation
Indices: 10577--10615 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
10567 AATATTAACC
10577 TTAAACCTCAAACTCTTAATT
1 TTAAACCTCAAAC-CTTAATT
**
10598 TTAAATTTCAAACCTTAA
1 TTAAACCTCAAACCTTAA
10616 ACTCTAAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAACCTCAAACCTTAATT
Found at i:10651 original size:21 final size:20
Alignment explanation
Indices: 10598--10680 Score: 57
Period size: 21 Copynumber: 4.0 Consensus size: 20
10588 ACTCTTAATT
10598 TTAAAT-TTCAAACCTTAAAC
1 TTAAATCTT-AAACCTTAAAC
*
10618 TCTAAA-CTGTAAACCTTAAGCC
1 T-TAAATCT-TAAACCTTAA-AC
10640 TTAAATCTTAAA--TTCAAAC
1 TTAAATCTTAAACCTT-AAAC
* *
10659 TTCGAACCTTAAACCTTAAAC
1 TT-AAATCTTAAACCTTAAAC
10680 T
1 T
10681 CGAGCTTCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
19 5 0.10
20 11 0.22
21 27 0.54
22 7 0.14
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.33
Consensus pattern (20 bp):
TTAAATCTTAAACCTTAAAC
Found at i:10728 original size:21 final size:21
Alignment explanation
Indices: 10702--10984 Score: 142
Period size: 21 Copynumber: 13.6 Consensus size: 21
10692 CCTCGAGTCC
*
10702 TAAACTTTGAACCTTAAATCT
1 TAAACTTTAAACCTTAAATCT
* ** *
10723 TAAACTTTAATCCTCGAACCT
1 TAAACTTTAAACCTTAAATCT
***
10744 T-AACTTTAAACCTTGGTTTCT
1 TAAACTTTAAACCTT-AAATCT
* *
10765 T-AACCTTAAATCTT-AATCTT
1 TAAACTTTAAACCTTAAATC-T
*
10785 TAAATTTTAAACCTTAAATCT
1 TAAACTTTAAACCTTAAATCT
* *
10806 TAAACATTAAATCC-TAAACCT
1 TAAACTTTAAA-CCTTAAATCT
*
10827 TAAACTTT-AACCTTTAAATCC
1 TAAACTTTAAACC-TTAAATCT
* * *
10848 TAAA-TTCTTAACTTTAAACCCT
1 TAAACTT-TAAACCTTAAA-TCT
*
10870 AAAACTTTAAACCTTAAA-CTT
1 TAAACTTTAAACCTTAAATC-T
* *
10891 TAACCTTTGAATCC-TAAATTCT
1 TAAACTTT-AAACCTTAAA-TCT
*
10913 T-AACTTTAAACCCTAACCA-C-
1 TAAACTTTAAACCTTAA--ATCT
* * *
10933 TAAACCTAAAACTTTAAA-CT
1 TAAACTTTAAACCTTAAATCT
* *
10953 TGAACTTTGAACC-TAAATCT
1 TAAACTTTAAACCTTAAATCT
10973 TAAACTTTAAAC
1 TAAACTTTAAAC
10985 TTGAACCCTA
Statistics
Matches: 196, Mismatches: 45, Indels: 43
0.69 0.16 0.15
Matches are distributed among these distances:
19 10 0.05
20 43 0.22
21 111 0.57
22 28 0.14
23 4 0.02
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (21 bp):
TAAACTTTAAACCTTAAATCT
Found at i:10787 original size:14 final size:14
Alignment explanation
Indices: 10711--11019 Score: 119
Period size: 14 Copynumber: 22.4 Consensus size: 14
10701 CTAAACTTTG
10711 AACCTTAAATCTTA
1 AACCTTAAATCTTA
* **
10725 AA-CTTTAATCCTCG
1 AACCTTAAAT-CTTA
*
10739 AACCTTAACT-TTA
1 AACCTTAAATCTTA
***
10752 AACCTTGGTTTCTT-
1 AACCTT-AAATCTTA
10766 AACCTTAAATCTTA
1 AACCTTAAATCTTA
* * *
10780 ATCTTTAAATTTTA
1 AACCTTAAATCTTA
10794 AACCTTAAATCTTA
1 AACCTTAAATCTTA
* *
10808 AACATTAAATCCTA
1 AACCTTAAATCTTA
*
10822 AACCTTAAA-CTTT
1 AACCTTAAATCTTA
*
10835 AACCTTTAAATCCTA
1 AACC-TTAAATCTTA
* *
10850 AATTCTTAACT-TTA
1 AA-CCTTAAATCTTA
* *
10864 AACCCTAAAACTTTA
1 AACCTTAAATC-TTA
*
10879 AACCTTAAA-CTTT
1 AACCTTAAATCTTA
* *
10892 AACCTTTGAATCCTA
1 AACC-TTAAATCTTA
* *
10907 AATTCTTAACT-TTA
1 AA-CCTTAAATCTTA
*
10921 AACCCTAACCA-C-TA
1 AACCTTAA--ATCTTA
*
10935 AACC-TAAAACTTTA
1 AACCTTAAATC-TTA
* *
10949 AA-CTTGAA-CTTTG
1 AACCTTAAATC-TTA
10962 AACC-TAAATCTTA
1 AACCTTAAATCTTA
* *
10975 AACTTTAAA-CTTG
1 AACCTTAAATCTTA
* *
10988 AACCCTAAATC-CA
1 AACCTTAAATCTTA
*
11001 AACCTTAAA-CCTA
1 AACCTTAAATCTTA
11014 AACCTT
1 AACCTT
11020 TAAACTTTTA
Statistics
Matches: 213, Mismatches: 57, Indels: 51
0.66 0.18 0.16
Matches are distributed among these distances:
11 1 0.00
12 2 0.01
13 80 0.38
14 93 0.44
15 35 0.16
16 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.35
Consensus pattern (14 bp):
AACCTTAAATCTTA
Found at i:10793 original size:7 final size:7
Alignment explanation
Indices: 10769--10858 Score: 60
Period size: 7 Copynumber: 12.7 Consensus size: 7
10759 GTTTCTTAAC
10769 CTTAAAT
1 CTTAAAT
10776 CTT-AAT
1 CTTAAAT
10782 CTTTAAAT
1 C-TTAAAT
* *
10790 TTTAAAC
1 CTTAAAT
10797 CTTAAAT
1 CTTAAAT
10804 CTTAAA-
1 CTTAAAT
10810 CATTAAAT
1 C-TTAAAT
* *
10818 CCTAAAC
1 CTTAAAT
10825 CTTAAA-
1 CTTAAAT
* *
10831 CTTTAAC
1 CTTAAAT
10838 CTTTAAAT
1 C-TTAAAT
*
10846 CCTAAATT
1 CTTAAA-T
10854 CTTAA
1 CTTAA
10859 CTTTAAACCC
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
6 10 0.16
7 40 0.62
8 14 0.22
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.40
Consensus pattern (7 bp):
CTTAAAT
Found at i:10798 original size:28 final size:28
Alignment explanation
Indices: 10711--11080 Score: 140
Period size: 28 Copynumber: 13.3 Consensus size: 28
10701 CTAAACTTTG
*
10711 AACCTTAAATCTTAAACTTT-AATCCTCG
1 AACCTTAAATCTTAAACTTTAAATCCT-A
* * *** * *
10739 AACCTTAACT-TTAAACCTTGGTTTCTT
1 AACCTTAAATCTTAAACTTTAAATCCTA
* **
10766 AACCTTAAATCTTAATCTTTAAATTTTA
1 AACCTTAAATCTTAAACTTTAAATCCTA
*
10794 AACCTTAAATCTTAAACATTAAATCCTA
1 AACCTTAAATCTTAAACTTTAAATCCTA
*
10822 AACCTTAAA-CTTTAACCTTTAAATCCTA
1 AACCTTAAATC-TTAAACTTTAAATCCTA
* * ** * *
10850 AATTCTTAACT-TTAAACCCTAAAACTTTA
1 AA-CCTTAAATCTTAAACTTTAAATC-CTA
* *
10879 AACCTTAAA-CTTTAACCTTTGAATCCTA
1 AACCTTAAATC-TTAAACTTTAAATCCTA
* * ** *
10907 AATTCTTAACT-TTAAACCCT-AACCACTA
1 AA-CCTTAAATCTTAAACTTTAAATC-CTA
* * * * *
10935 AACC-TAAAACTTTAAACTTGAACT-TTG
1 AACCTTAAATC-TTAAACTTTAAATCCTA
* *
10962 AACC-TAAATCTTAAACTTTAAA-CTTG
1 AACCTTAAATCTTAAACTTTAAATCCTA
* * *
10988 AACCCTAAATC-CAAACCTTAAA-CCTA
1 AACCTTAAATCTTAAACTTTAAATCCTA
* *
11014 AACCTTTAAA-CTTTTAACTTTAAATTCTA
1 AACC-TTAAATC-TTAAACTTTAAATCCTA
* * * * *
11043 AACTTTACACCTTGAAA-TCTTAAATTCAA
1 AACCTTAAATCTT-AAACT-TTAAATCCTA
11072 AACCTTAAA
1 AACCTTAAA
11081 CTTTAAAACT
Statistics
Matches: 250, Mismatches: 69, Indels: 45
0.69 0.19 0.12
Matches are distributed among these distances:
26 36 0.14
27 42 0.17
28 123 0.49
29 49 0.20
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (28 bp):
AACCTTAAATCTTAAACTTTAAATCCTA
Found at i:10881 original size:7 final size:7
Alignment explanation
Indices: 10857--11117 Score: 58
Period size: 7 Copynumber: 37.3 Consensus size: 7
10847 CTAAATTCTT
10857 AACTTTA
1 AACTTTA
* *
10864 AACCCTAA
1 AA-CTTTA
10872 AACTTTA
1 AACTTTA
*
10879 AACCTTA
1 AACTTTA
10886 AACTTTA
1 AACTTTA
* *
10893 ACCTTTG
1 AACTTTA
*
10900 AA-TCCTA
1 AACT-TTA
*
10907 AA-TTCTT
1 AACTT-TA
10914 AACTTTA
1 AACTTTA
**
10921 AACCCTA
1 AACTTTA
* **
10928 ACCACTA
1 AACTTTA
* *
10935 AACCTAA
1 AACTTTA
10942 AACTTTA
1 AACTTTA
*
10949 AAC-TTG
1 AACTTTA
*
10955 AACTTTG
1 AACTTTA
*
10962 AAC-CTA
1 AACTTTA
10968 AA-TCTTA
1 AACT-TTA
10975 AACTTTA
1 AACTTTA
*
10982 AAC-TTG
1 AACTTTA
**
10988 AACCCTA
1 AACTTTA
**
10995 AA-TCCA
1 AACTTTA
*
11001 AACCTTA
1 AACTTTA
*
11008 AAC-CTA
1 AACTTTA
11014 AACCTTTA
1 AA-CTTTA
*
11022 AACTTTT
1 AACTTTA
11029 AACTTTA
1 AACTTTA
11036 AA-TTCTA
1 AACTT-TA
11043 AACTTTA
1 AACTTTA
* *
11050 CACCTTGA
1 -AACTTTA
11058 AA-TCTTA
1 AACT-TTA
*
11065 AA-TTCAA
1 AACTT-TA
*
11072 AACCTTA
1 AACTTTA
11079 AACTTTAA
1 AACTTT-A
11087 AACTTTCA
1 AACTTT-A
*
11095 AACCTTA
1 AACTTTA
*
11102 AACTCTA
1 AACTTTA
*
11109 AATTTTA
1 AACTTTA
11116 AA
1 AA
11118 ACTCAAACCT
Statistics
Matches: 181, Mismatches: 54, Indels: 38
0.66 0.20 0.14
Matches are distributed among these distances:
6 26 0.14
7 122 0.67
8 33 0.18
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.34
Consensus pattern (7 bp):
AACTTTA
Found at i:10886 original size:57 final size:56
Alignment explanation
Indices: 10819--10949 Score: 210
Period size: 57 Copynumber: 2.3 Consensus size: 56
10809 ACATTAAATC
10819 CTAAACCTTAAACTTTAACCTTTAAATCCTAAATTCTTAACTTTAAACCCTAA-AA
1 CTAAACCTTAAACTTTAACCTTTAAATCCTAAATTCTTAACTTTAAACCCTAACAA
* *
10874 CTTTAAACCTTAAACTTTAACCTTTGAATCCTAAATTCTTAACTTTAAACCCTAACCA
1 C--TAAACCTTAAACTTTAACCTTTAAATCCTAAATTCTTAACTTTAAACCCTAACAA
*
10932 CTAAACCTAAAACTTTAA
1 CTAAACCTTAAACTTTAA
10950 ACTTGAACTT
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
55 1 0.01
56 16 0.23
57 51 0.73
58 2 0.03
ACGTcount: A:0.40, C:0.24, G:0.01, T:0.34
Consensus pattern (56 bp):
CTAAACCTTAAACTTTAACCTTTAAATCCTAAATTCTTAACTTTAAACCCTAACAA
Found at i:10985 original size:27 final size:26
Alignment explanation
Indices: 10935--10998 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
10925 CTAACCACTA
* *
10935 AACCTAAAACTTTAAACTTGAACTTTG
1 AACCTAAATCTTTAAACTTAAAC-TTG
10962 AACCTAAATC-TTAAACTTTAAACTTG
1 AACCTAAATCTTTAAAC-TTAAACTTG
10988 AACCCTAAATC
1 AA-CCTAAATC
10999 CAAACCTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 11 0.33
27 22 0.67
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.31
Consensus pattern (26 bp):
AACCTAAATCTTTAAACTTAAACTTG
Found at i:11003 original size:26 final size:26
Alignment explanation
Indices: 10959--11010 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
10949 AACTTGAACT
* *
10959 TTGAACCTAAATCTTAAACTTTAAAC
1 TTGAACCTAAATCTCAAACCTTAAAC
10985 TTGAACCCTAAATC-CAAACCTTAAAC
1 TTGAA-CCTAAATCTCAAACCTTAAAC
11011 CTAAACCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.42, C:0.25, G:0.04, T:0.29
Consensus pattern (26 bp):
TTGAACCTAAATCTCAAACCTTAAAC
Found at i:11008 original size:33 final size:33
Alignment explanation
Indices: 10921--11010 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 33
10911 CTTAACTTTA
* *
10921 AACCCTAACCACTAAACCTAAAACTTTAAACTTG
1 AACCCTAAAC-CTAAACCTTAAACTTTAAACTTG
** * *
10955 AACTTTGAACCTAAATCTTAAACTTTAAACTTG
1 AACCCTAAACCTAAACCTTAAACTTTAAACTTG
10988 AACCCTAAATCC-AAACCTTAAAC
1 AACCCTAAA-CCTAAACCTTAAAC
11011 CTAAACCTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
33 37 0.82
34 8 0.18
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (33 bp):
AACCCTAAACCTAAACCTTAAACTTTAAACTTG
Found at i:11044 original size:29 final size:30
Alignment explanation
Indices: 11011--11084 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 30
11001 AACCTTAAAC
* *
11011 CTAAACCTTTAAACTTTTAACT-TTAAATT
1 CTAAACCTTTAAACTTTGAAATCTTAAATT
* *
11040 CTAAA-CTTTACACCTTGAAATCTTAAATT
1 CTAAACCTTTAAACTTTGAAATCTTAAATT
*
11069 CAAAACC-TTAAACTTT
1 CTAAACCTTTAAACTTT
11085 AAAACTTTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
28 12 0.33
29 23 0.64
30 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.01, T:0.39
Consensus pattern (30 bp):
CTAAACCTTTAAACTTTGAAATCTTAAATT
Found at i:11193 original size:28 final size:29
Alignment explanation
Indices: 11162--11232 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
11152 TCTTAACCTT
11162 TAAACTTTAAACCCTTAACCTAT-AAACC
1 TAAACTTTAAACCCTTAACCTATAAAACC
** * *
11190 TAAAGC-TTAAAATCATAACCTTTAAAACC
1 TAAA-CTTTAAACCCTTAACCTATAAAACC
11219 TAAACTTT-AACCCT
1 TAAACTTTAAACCCT
11233 AAACTAAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
28 21 0.64
29 12 0.36
ACGTcount: A:0.44, C:0.25, G:0.01, T:0.30
Consensus pattern (29 bp):
TAAACTTTAAACCCTTAACCTATAAAACC
Found at i:11228 original size:14 final size:14
Alignment explanation
Indices: 11162--11237 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 14
11152 TCTTAACCTT
*
11162 TAAACTTTAAACCC
1 TAAACTTTAAAACC
* *
11176 TTAAC-CTATAAACC
1 TAAACTTTA-AAACC
*
11190 TAAAGC-TTAAAATCA
1 TAAA-CTTTAAAA-CC
*
11205 TAACCTTTAAAACC
1 TAAACTTTAAAACC
*
11219 TAAACTTT-AACCC
1 TAAACTTTAAAACC
11232 TAAACT
1 TAAACT
11238 AAATAATTTA
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
13 12 0.25
14 23 0.48
15 13 0.27
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (14 bp):
TAAACTTTAAAACC
Found at i:11607 original size:12 final size:12
Alignment explanation
Indices: 11592--11632 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
11582 ATATATTCTC
11592 AAATTATAAATA
1 AAATTATAAATA
*
11604 AAATTTTAAA-A
1 AAATTATAAATA
*
11615 AAATTATTAATA
1 AAATTATAAATA
11627 AAATTA
1 AAATTA
11633 ATATTTAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATTATAAATA
Found at i:15360 original size:44 final size:44
Alignment explanation
Indices: 15293--15397 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 44
15283 TGTTGTCAAG
* * * *
15293 GGCACAAGGCGCACTCTAGGTGCTAGAACACTTATATTGCCTGA
1 GGCACAAGGCGCACTCTAAGTGCTAAAACACTCATACTGCCTGA
* * *
15337 GGCACAAGGCATC-CTCTAAGTGCTAAAACCCTCATACTGCTTGA
1 GGCACAAGGC-GCACTCTAAGTGCTAAAACACTCATACTGCCTGA
* *
15381 GGCACAATGCGCTCTCT
1 GGCACAAGGCGCACTCT
15398 CTCTCTCTCT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
43 1 0.02
44 48 0.96
45 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (44 bp):
GGCACAAGGCGCACTCTAAGTGCTAAAACACTCATACTGCCTGA
Found at i:20008 original size:2 final size:2
Alignment explanation
Indices: 20001--20028 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19991 AGGCCTACCC
20001 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
20029 ATACATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23331 original size:3 final size:3
Alignment explanation
Indices: 23323--23357 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
23313 TTTCAAGTTT
23323 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23358 TTTTTCTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23514 original size:8 final size:7
Alignment explanation
Indices: 23487--23512 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23477 AATATGAAGA
23487 TTTTTAT
1 TTTTTAT
23494 TTTTTAT
1 TTTTTAT
23501 TTTTTAT
1 TTTTTAT
23508 TTTTT
1 TTTTT
23513 TAATTGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:29183 original size:13 final size:13
Alignment explanation
Indices: 29165--29190 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29155 TACACAAAGT
29165 ATGTATCGATACA
1 ATGTATCGATACA
29178 ATGTATCGATACA
1 ATGTATCGATACA
29191 TAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:29188 original size:32 final size:33
Alignment explanation
Indices: 29147--29210 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
29137 TAGCCAAACT
**
29147 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
*
29179 TGTATCGATACATAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
29211 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:32711 original size:15 final size:15
Alignment explanation
Indices: 32691--32721 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32681 TAAAAATGTC
*
32691 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
32706 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
32721 C
1 C
32722 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:34821 original size:13 final size:13
Alignment explanation
Indices: 34803--34840 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
34793 CATTTTTCTT
34803 TGTATCGATACAA
1 TGTATCGATACAA
*
34816 TGTATCGATACAC
1 TGTATCGATACAA
34829 TGTATCGATACA
1 TGTATCGATACA
34841 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:34995 original size:20 final size:20
Alignment explanation
Indices: 34952--34997 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
34942 AAATCTTTTG
34952 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
34973 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
34993 CAAAA
1 CAAAA
34998 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:36494 original size:23 final size:21
Alignment explanation
Indices: 36452--36495 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
36442 GTTTAATGTT
**
36452 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
36473 TTTGCATTGTACTTTGAATTTTA
1 TTTGC-TTG-ACTTTGAATTTTA
36496 ATCTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:37396 original size:13 final size:13
Alignment explanation
Indices: 37378--37403 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37368 TACACAAAGT
37378 ATGTATCGATACA
1 ATGTATCGATACA
37391 ATGTATCGATACA
1 ATGTATCGATACA
37404 TTGGCTTGTA
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:39468 original size:15 final size:15
Alignment explanation
Indices: 39448--39480 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
39438 ATAATTTATA
*
39448 TAAATATGCGACAAC
1 TAAATATGCAACAAC
39463 TAAATATGCAACAAC
1 TAAATATGCAACAAC
39478 TAA
1 TAA
39481 TAAAGCAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.18, G:0.09, T:0.21
Consensus pattern (15 bp):
TAAATATGCAACAAC
Found at i:40611 original size:13 final size:13
Alignment explanation
Indices: 40593--40619 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
40583 ACATTATGCT
40593 TTGTATCGATACA
1 TTGTATCGATACA
40606 TTGTATCGATACA
1 TTGTATCGATACA
40619 T
1 T
40620 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:40628 original size:19 final size:19
Alignment explanation
Indices: 40603--40660 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
40593 TTGTATCGAT
*
40603 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGA
* * *
40622 TCATTGTATCAATACATAA
1 ACATTGTATCGATACATGA
40641 ACAATTGTATCGATACATGA
1 AC-ATTGTATCGATACATGA
40661 GATTGGTAGT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGA
Found at i:46185 original size:19 final size:19
Alignment explanation
Indices: 46161--46200 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
46151 CAATGTAAGC
46161 AGTCGGAATAAATAATGCA
1 AGTCGGAATAAATAATGCA
46180 AGTCGGAATAAATAATGCA
1 AGTCGGAATAAATAATGCA
46199 AG
1 AG
46201 GCCATAAGTT
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:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (19 bp):
AGTCGGAATAAATAATGCA
Found at i:47660 original size:20 final size:21
Alignment explanation
Indices: 47635--47678 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
47625 AATAAATAAA
* *
47635 AAAAATTTAATTTTAT-ATTT
1 AAAAATATAATTTGATAATTT
47655 AAAAATATAATTTGATAATTT
1 AAAAATATAATTTGATAATTT
47676 AAA
1 AAA
47679 TTAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
AAAAATATAATTTGATAATTT
Found at i:47760 original size:17 final size:18
Alignment explanation
Indices: 47735--47784 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 18
47725 GTTTTACTAT
47735 TTTTA-TATTTTTAAATA
1 TTTTATTATTTTTAAATA
47752 -TTTATTA-TTTTAAATA
1 TTTTATTATTTTTAAATA
47768 TTTTATTTATATTTTAA
1 TTTTA-TTAT-TTTTAA
47785 TTCATTTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 13 0.46
17 6 0.21
18 3 0.11
20 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTATTATTTTTAAATA
Found at i:50934 original size:14 final size:14
Alignment explanation
Indices: 50894--50935 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
50884 TGATAATTGT
*
50894 AAATTTTAATCTTGA
1 AAATTTTAAT-TTCA
50909 AAATTATTAATTTCA
1 AAATT-TTAATTTCA
50924 AAATTTTAATTT
1 AAATTTTAATTT
50936 TAATAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 7 0.28
15 13 0.52
16 5 0.20
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (14 bp):
AAATTTTAATTTCA
Found at i:53743 original size:22 final size:22
Alignment explanation
Indices: 53715--53758 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
53705 ATGATCGATG
53715 ACAATTACGAGATACATCTCAA
1 ACAATTACGAGATACATCTCAA
53737 ACAATTACGAGATACATCTCAA
1 ACAATTACGAGATACATCTCAA
53759 TCATTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (22 bp):
ACAATTACGAGATACATCTCAA
Found at i:58156 original size:52 final size:52
Alignment explanation
Indices: 58078--58205 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
58068 CGAAATATGA
* *
58078 AAATTTGCATGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
58130 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
58182 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
58206 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 21 0.29
52 47 0.64
53 5 0.07
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:58218 original size:51 final size:50
Alignment explanation
Indices: 58078--58225 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 50
58068 CGAAATATGA
* *
58078 AAATTTGCATGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGC
58130 AAATTTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGC
58182 AAA-TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
58226 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.38
52 46 0.52
53 1 0.01
54 4 0.05
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (50 bp):
AAATTTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGC
Found at i:58232 original size:13 final size:13
Alignment explanation
Indices: 58214--58238 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58204 CAAAGATCAG
58214 TGTATCGATACAA
1 TGTATCGATACAA
58227 TGTATCGATACA
1 TGTATCGATACA
58239 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:58316 original size:33 final size:33
Alignment explanation
Indices: 58279--58345 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
58269 AGTAGCTTAA
58279 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
58312 ATTGTATCGATACAAGATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
58345 A
1 A
58346 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:58319 original size:13 final size:13
Alignment explanation
Indices: 58301--58325 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58291 CAAAAAAATA
58301 TGTATCGATACAT
1 TGTATCGATACAT
58314 TGTATCGATACA
1 TGTATCGATACA
58326 AGATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:59260 original size:55 final size:55
Alignment explanation
Indices: 59162--59483 Score: 248
Period size: 55 Copynumber: 5.8 Consensus size: 55
59152 AAGTGATAAA
* * * * * * *
59162 GATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAG
*** * *
59217 GATGTCAGCGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT--G---AA-
1 GATGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAG
* *
59266 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--AAA-GATGA-GA-AAAAG
* * * * *
59326 TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
1 -GAT---G-T--CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAG
** * * *
59388 GATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-AAAAT
1 GATGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAG
*
59441 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
59484 GTGCCAATGT
Statistics
Matches: 210, Mismatches: 39, Indels: 39
0.73 0.14 0.14
Matches are distributed among these distances:
49 33 0.16
50 2 0.01
51 3 0.01
52 40 0.19
53 6 0.03
54 1 0.00
55 68 0.32
57 1 0.00
58 1 0.00
59 2 0.01
61 6 0.03
62 5 0.02
63 2 0.01
64 6 0.03
65 3 0.01
67 31 0.15
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (55 bp):
GATGTCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAG
Found at i:59288 original size:171 final size:171
Alignment explanation
Indices: 59089--59483 Score: 691
Period size: 171 Copynumber: 2.3 Consensus size: 171
59079 TTTTAGAGAT
*
59089 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
59154 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
*
59219 TGTCAGCGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * *
59260 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
59325 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
59390 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
59431 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
59484 GTGCCAATGT
Statistics
Matches: 212, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
171 168 0.79
172 4 0.02
174 40 0.19
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:59502 original size:43 final size:47
Alignment explanation
Indices: 59398--60139 Score: 776
Period size: 49 Copynumber: 15.7 Consensus size: 47
59388 GATGTCAACG
* *
59398 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G---A-GTGCCAATA
*
59450 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G-GTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGTGCCAATA
*
59493 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AG-TGCCAATA
* *
59542 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G-GTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGTGCCAATA
* *
59585 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AG-TGCCAATA
* * * **
59634 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGAGAAAAAGGATGTCAACG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G----A-G-TGCCAATA
* *
59689 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G---A-GTGCCAATA
*
59741 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G-GTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGTGCCAATA
*
59784 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AG-TGCCAATA
* *
59833 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G-GTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGTGCCAATA
* *
59876 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AG-TGCCAATA
* *
59925 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G-GTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGTGCCAATA
* *
59968 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AG-TGCCAATA
* *
60017 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G-GTGCCAATG
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGTGCCAATA
* *
60060 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AG-TGCCAATA
*
60109 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTATATTGGACTTA
60140 GAGGGGTTGC
Statistics
Matches: 589, Mismatches: 59, Indels: 87
0.80 0.08 0.12
Matches are distributed among these distances:
43 210 0.36
44 16 0.03
45 6 0.01
46 10 0.02
47 4 0.01
48 16 0.03
49 212 0.36
50 2 0.00
51 5 0.01
52 61 0.10
53 5 0.01
54 3 0.01
55 39 0.07
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (47 bp):
TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGTGCCAATA
Found at i:59571 original size:92 final size:92
Alignment explanation
Indices: 59397--60139 Score: 1053
Period size: 92 Copynumber: 7.9 Consensus size: 92
59387 GGATGTCAAC
* * *
59397 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAAG
*
59462 GCCAGCTATATTGGACTTAAAGGTGCCAAT
63 GCCAGCGATATTGGACTTAAAGGTGCCAAT
*
59492 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
59557 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
59584 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
** ** *
59649 AGCGATATTGGACTTAAAAATGAGAAA
66 AGCGATATTGGACTTAAAGGTGCCAAT
** * * * ** * *
59676 AAG--GATGTCAACGTG-CTGATTCAAGGCCAGCTACATTGAACTTA-AAGATGGAAAATGTGCC
1 GTGCTGA-GTCAA-G-GCCAGCTACATTG---G--AC-TT-AA---AGATG----AAGA--TGCC
*
59737 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAT
47 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
*
59783 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
59848 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
59875 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
59940 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
59967 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
60032 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
60059 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* *
60124 AGCTATATTGGGCTTA
66 AGCGATATTGGACTTA
60140 GAGGGGTTGC
Statistics
Matches: 587, Mismatches: 38, Indels: 49
0.87 0.06 0.07
Matches are distributed among these distances:
90 2 0.00
91 5 0.01
92 454 0.77
93 1 0.00
94 7 0.01
95 37 0.06
97 3 0.01
98 4 0.01
99 2 0.00
100 2 0.00
101 4 0.01
102 3 0.01
104 1 0.00
105 3 0.01
106 1 0.00
107 52 0.09
108 4 0.01
109 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAAT
Found at i:59693 original size:291 final size:290
Alignment explanation
Indices: 59331--60139 Score: 1385
Period size: 291 Copynumber: 2.8 Consensus size: 290
59321 AAAAGTGATA
* * * *
59331 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATGAGAAAAAGGATGTCAA
59396 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAA
65 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAA
59461 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
130 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
59526 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
195 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
59591 GTCAAGGCCAGCTACATTGGACTTAAAGATG
260 GTCAAGGCCAGCTACATTGGACTTAAAGATG
59622 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGAGAAAAAGGATGTCAA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAATGAGAAAAAGGATGTCAA
59687 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAA
65 CGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAA
59752 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
130 GGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
59817 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
195 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
59882 GTCAAGGCCAGCTACATTGGACTTAAAGATG
260 GTCAAGGCCAGCTACATTGGACTTAAAGATG
* *
59913 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T----T-----AAAGG-TGCCAAT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAATGAGAAAAAGGATGTCAAC
* * *
59967 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAAG
66 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
* *
60029 GCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
131 GCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* *
60094 ATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
196 ATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
60140 GAGGGGTTGC
Statistics
Matches: 504, Mismatches: 13, Indels: 17
0.94 0.02 0.03
Matches are distributed among these distances:
276 127 0.25
278 4 0.01
279 40 0.08
280 5 0.01
285 1 0.00
290 1 0.00
291 323 0.64
292 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (290 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAATGAGAAAAAGGATGTCAAC
GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
GCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
ATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGAG
TCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:60000 original size:184 final size:184
Alignment explanation
Indices: 59397--60139 Score: 1198
Period size: 184 Copynumber: 3.9 Consensus size: 184
59387 GGATGTCAAC
* * *
59397 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAAG
* *
59462 GCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
63 GCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
59527 ATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
128 ATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
59584 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* * *
59649 AGCGATATTGGACTTAAAAATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTG
66 AGCGATATTGGAC-T-----T-----AAAGG-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTG
* * *
59714 AACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGC
119 GACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGC
59779 CAAT
181 CAAT
*
59783 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
59848 AGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 AGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
59913 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
131 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
59967 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
60032 AGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 AGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
* *
60097 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
131 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
60140 GAGGGGTTGC
Statistics
Matches: 522, Mismatches: 19, Indels: 33
0.91 0.03 0.06
Matches are distributed among these distances:
184 254 0.49
185 1 0.00
186 8 0.02
187 75 0.14
188 5 0.01
190 1 0.00
193 1 0.00
195 5 0.01
196 41 0.08
197 4 0.01
198 1 0.00
199 126 0.24
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (184 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
Found at i:60240 original size:32 final size:33
Alignment explanation
Indices: 60144--60236 Score: 163
Period size: 33 Copynumber: 2.8 Consensus size: 33
60134 GGCTTAGAGG
60144 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
60177 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
60210 -GTTGCCACCGACTTGTGTGGGCTTTGG
1 GGTTGCCACCGACTTGTGTGGGCTTTGG
60237 GAAGGAAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 25 0.42
33 27 0.46
34 5 0.08
ACGTcount: A:0.15, C:0.19, G:0.37, T:0.29
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
Found at i:60314 original size:34 final size:35
Alignment explanation
Indices: 60238--60431 Score: 247
Period size: 34 Copynumber: 5.5 Consensus size: 35
60228 GGGCTTTGGG
*
60238 AAGGAAAAA-AGATGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGAG-TGCCACGGAGTTGTGGGCTTTAA
*
60272 AAGGGAAAAAGAGTGTCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
60308 AA-GAAAAA-AGTGGCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
60342 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
60378 ACA-GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
1 A-AGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
*
60413 AAGGGAAAGAGAGTGCCAC
1 AA-GGAAAAAGAGTGCCAC
60432 AAAGTCGTAG
Statistics
Matches: 143, Mismatches: 5, Indels: 21
0.85 0.03 0.12
Matches are distributed among these distances:
33 22 0.15
34 35 0.24
35 33 0.23
36 23 0.16
37 30 0.21
ACGTcount: A:0.36, C:0.11, G:0.34, T:0.19
Consensus pattern (35 bp):
AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
Found at i:60316 original size:70 final size:71
Alignment explanation
Indices: 60241--60431 Score: 298
Period size: 71 Copynumber: 2.7 Consensus size: 71
60231 CTTTGGGAAG
* *
60241 GAAAAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGTCACGGAGTTGTGGGCT
1 GAAAAAAG-TGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
60304 TTAAA-A
65 TTAAACA
* *
60310 GAAAAAAGTGGCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
60375 TAAACA
66 TAAACA
* *
60381 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCAC
1 GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCAC
60432 AAAGTCGTAG
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
68 16 0.14
69 10 0.09
70 38 0.34
71 48 0.43
ACGTcount: A:0.36, C:0.12, G:0.34, T:0.19
Consensus pattern (71 bp):
GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
TAAACA
Found at i:60477 original size:33 final size:33
Alignment explanation
Indices: 60440--60749 Score: 329
Period size: 33 Copynumber: 9.0 Consensus size: 33
60430 ACAAAGTCGT
*
60440 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
60473 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAA-G-AAAA
** *
60509 AGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
60543 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
* * * *
60577 AGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGAGAA
1 AGG-TGCCACGGA-GT-TGTGGGCTTTA--AA-AGAAAA
* *
60616 AGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAA--GAAAA
*
60650 AGAGTGCCACGAAGTTGTGGGCTTTAAAAGAAAA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
* * *
60684 AAGTGCCACGGAGTTGTGGAC-TTAAAAGGAACA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAA-GAAAA
60717 AGGTGCCACGGAGTTGTGGGCTTT-AAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
60749 A
1 A
60750 ATGCCATTGA
Statistics
Matches: 233, Mismatches: 27, Indels: 35
0.79 0.09 0.12
Matches are distributed among these distances:
32 11 0.05
33 88 0.38
34 35 0.15
35 29 0.12
36 24 0.10
37 31 0.13
38 10 0.04
39 5 0.02
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (33 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
Found at i:60502 original size:87 final size:88
Alignment explanation
Indices: 60354--60523 Score: 297
Period size: 87 Copynumber: 1.9 Consensus size: 88
60344 GGGAAAAAGA
* *
60354 GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
*
60419 AAGAGAGTGCCACAAAGTCGTAG
66 AAAAGAGTGCCACAAAGTCGTAG
*
60442 GTGCCACAGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
60506 AAAAGAGTGCCACAAAGT
66 AAAAGAGTGCCACAAAGT
60524 TGTGGGCTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
87 54 0.69
88 24 0.31
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.19
Consensus pattern (88 bp):
GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
AAAAGAGTGCCACAAAGTCGTAG
Found at i:60555 original size:70 final size:66
Alignment explanation
Indices: 60440--60749 Score: 347
Period size: 70 Copynumber: 4.5 Consensus size: 66
60430 ACAAAGTCGT
*
60440 AGGTGCCAC-AGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGG
1 AGGTGCCACGA-AGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
60504 AAAAA
63 -AAAA
* * *
60509 AGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AG-GTGCCACGAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
*
60573 AAGA
63 AAAA
** * * *
60577 AGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGTTGTGGACTTAAA
1 AGG-TGCCA-CGAAGT-TGTGGGCTTTA--AA-AGAAAAAGGTGCCACGGAGTTGTGGACTTAAA
60642 AGGGAAAA
60 A-GGAAAA
*
60650 AGAGTGCCACGAAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AG-GTGCCACGAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
60715 CA
65 AA
*
60717 AGGTGCCACGGAGTTGTGGGCTTT-AAAGAAAAA
1 AGGTGCCACGAAGTTGTGGGCTTTAAAAGAAAAA
60750 ATGCCATTGA
Statistics
Matches: 211, Mismatches: 19, Indels: 26
0.82 0.07 0.10
Matches are distributed among these distances:
65 9 0.04
66 21 0.10
67 8 0.04
68 39 0.18
69 8 0.04
70 68 0.32
71 16 0.08
72 8 0.04
73 33 0.16
74 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (66 bp):
AGGTGCCACGAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAA
A
Found at i:62105 original size:14 final size:15
Alignment explanation
Indices: 62088--62142 Score: 67
Period size: 14 Copynumber: 3.5 Consensus size: 15
62078 TGCCTTTGCA
*
62088 TTTTTTTTTTGTGTTTT
1 TTTTTTTTTT-TG-TTG
62105 TTTTGTTTTTTTGTTG
1 TTTT-TTTTTTTGTTG
62121 TTTTTTTTTTTG-TG
1 TTTTTTTTTTTGTTG
62135 TTTTTTTT
1 TTTTTTTT
62143 GTTTTCATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
14 10 0.28
15 8 0.22
16 6 0.17
17 6 0.17
18 6 0.17
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTTTGTTG
Found at i:62106 original size:11 final size:11
Alignment explanation
Indices: 62090--62144 Score: 76
Period size: 11 Copynumber: 4.9 Consensus size: 11
62080 CCTTTGCATT
62090 TTTTTTTTGTG
1 TTTTTTTTGTG
62101 TTTTTTTTGT-
1 TTTTTTTTGTG
*
62111 TTTTTTGTTGTTT
1 TTTTTT-TTG-TG
62124 TTTTTTTTGTG
1 TTTTTTTTGTG
62135 TTTTTTTTGT
1 TTTTTTTTGT
62145 TTTCATCACT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
10 6 0.15
11 24 0.60
12 4 0.10
13 6 0.15
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:62144 original size:23 final size:22
Alignment explanation
Indices: 62089--62147 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 22
62079 GCCTTTGCAT
*
62089 TTTTTTTTTG-TGTTTTTTTTG
1 TTTTTTTTTGTTTTTTTTTTTG
62110 TTTTTTTGTTGTTTTTTTTTTTG
1 TTTTTTT-TTGTTTTTTTTTTTG
62133 TGTTTTTTTTGTTTT
1 T-TTTTTTTTGTTTT
62148 CATCACTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
21 7 0.21
22 3 0.09
23 18 0.53
24 6 0.18
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (22 bp):
TTTTTTTTTGTTTTTTTTTTTG
Found at i:62159 original size:34 final size:34
Alignment explanation
Indices: 62088--62160 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
62078 TGCCTTTGCA
* ***
62088 TTTTTTTTTTGTGTTTTTTTTGTTTTTTTGTTGT
1 TTTTTTTTTTGTGTTTTTTTTGTTTTATCACTGT
62122 TTTTTTTTTTGTGTTTTTTTTGTTTTCATCACT-T
1 TTTTTTTTTTGTGTTTTTTTTGTTTT-ATCACTGT
62156 TTTTT
1 TTTTT
62161 AAGGGAACTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 32 0.94
35 2 0.06
ACGTcount: A:0.03, C:0.04, G:0.11, T:0.82
Consensus pattern (34 bp):
TTTTTTTTTTGTGTTTTTTTTGTTTTATCACTGT
Found at i:68636 original size:52 final size:52
Alignment explanation
Indices: 68558--68685 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
68548 CGAAATATGA
*
68558 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
68610 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
68662 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
68686 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:68712 original size:13 final size:13
Alignment explanation
Indices: 68694--68718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68684 CAAAGATCAG
68694 TGTATCGATACAA
1 TGTATCGATACAA
68707 TGTATCGATACA
1 TGTATCGATACA
68719 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:68796 original size:33 final size:33
Alignment explanation
Indices: 68759--68825 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
68749 AGTAGCTTAA
68759 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
68792 ATTGTATCGATACAAGATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
68825 A
1 A
68826 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:68799 original size:13 final size:13
Alignment explanation
Indices: 68781--68805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68771 CAAAAAAATA
68781 TGTATCGATACAT
1 TGTATCGATACAT
68794 TGTATCGATACA
1 TGTATCGATACA
68806 AGATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:77169 original size:60 final size:61
Alignment explanation
Indices: 77056--77182 Score: 188
Period size: 60 Copynumber: 2.1 Consensus size: 61
77046 TATCAGATTT
* *
77056 TGATTT-CAAGGTACAGAAAAGAACAATTGCTGCAAGTGCATTGACATCTTTCATCTTCGA
1 TGATTTACAAGGTACAGAAAAGAACAATTGCTGCAAGAGCATTGACATCATTCATCTTCGA
* *
77116 TGATTTACAAGGTACAGAAAAGAACAATTGC-GACAA-AGCATTTACATCATTCATCTTTGA
1 TGATTTACAAGGTACAGAAAAGAACAATTGCTG-CAAGAGCATTGACATCATTCATCTTCGA
77176 TGATTTA
1 TGATTTA
77183 TCTATCTCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
60 34 0.56
61 27 0.44
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (61 bp):
TGATTTACAAGGTACAGAAAAGAACAATTGCTGCAAGAGCATTGACATCATTCATCTTCGA
Found at i:82129 original size:16 final size:16
Alignment explanation
Indices: 82110--82217 Score: 155
Period size: 16 Copynumber: 6.8 Consensus size: 16
82100 ATTTGATATT
*
82110 AAATTATTTAAATTTA
1 AAATAATTTAAATTTA
82126 AAATAATTTAAAATTTA
1 AAATAATTT-AAATTTA
*
82143 AAATAAATTAAATTTA
1 AAATAATTTAAATTTA
82159 AAATAATTTAAATTTA
1 AAATAATTTAAATTTA
* *
82175 AAATAATTTAAAATTC
1 AAATAATTTAAATTTA
*
82191 AAATAATTTAAA-TTC
1 AAATAATTTAAATTTA
82206 AAATAATTTAAA
1 AAATAATTTAAA
82218 ATCAAATAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
15 15 0.17
16 56 0.65
17 15 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATAATTTAAATTTA
Found at i:82135 original size:10 final size:10
Alignment explanation
Indices: 82120--82188 Score: 56
Period size: 10 Copynumber: 7.0 Consensus size: 10
82110 AAATTATTTA
82120 AATTTAAAAT
1 AATTTAAAAT
82130 AATTTAAAATTT
1 AATTTAAAA--T
** *
82142 AAAATAAATT
1 AATTTAAAAT
82152 AAATTTAAAAT
1 -AATTTAAAAT
82163 AATTT---A-
1 AATTTAAAAT
82169 AATTTAAAAT
1 AATTTAAAAT
82179 AATTTAAAAT
1 AATTTAAAAT
82189 TCAAATAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
6 5 0.11
7 1 0.02
9 1 0.02
10 25 0.54
11 7 0.15
12 7 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AATTTAAAAT
Found at i:82175 original size:49 final size:47
Alignment explanation
Indices: 82110--82217 Score: 162
Period size: 49 Copynumber: 2.3 Consensus size: 47
82100 ATTTGATATT
*
82110 AAATTATTTAAATTTAAAATAATTTAAAATTTAAAATAAATTAAATTTA
1 AAATAATTTAAATTTAAAATAATTTAAAA-TTAAAATAAATTAAA-TTA
* * *
82159 AAATAATTTAAATTTAAAATAATTTAAAATTCAAATAATTTAAATTC
1 AAATAATTTAAATTTAAAATAATTTAAAATTAAAATAAATTAAATTA
82206 AAATAATTTAAA
1 AAATAATTTAAA
82218 ATCAAATAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 14 0.25
48 13 0.24
49 28 0.51
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (47 bp):
AAATAATTTAAATTTAAAATAATTTAAAATTAAAATAAATTAAATTA
Found at i:82219 original size:16 final size:16
Alignment explanation
Indices: 82110--82233 Score: 144
Period size: 16 Copynumber: 7.8 Consensus size: 16
82100 ATTTGATATT
* *
82110 AAATTATTTAAATTTA
1 AAATAATTTAAAATTA
82126 AAATAATTTAAAATTTA
1 AAATAATTTAAAA-TTA
* *
82143 AAATAAATTAAATTTA
1 AAATAATTTAAAATTA
*
82159 AAATAATTTAAATTTA
1 AAATAATTTAAAATTA
*
82175 AAATAATTTAAAATTC
1 AAATAATTTAAAATTA
*
82191 AAATAATTT-AAATTC
1 AAATAATTTAAAATTA
*
82206 AAATAATTTAAAA-TC
1 AAATAATTTAAAATTA
*
82221 AAATAATATAAAA
1 AAATAATTTAAAA
82234 ATTTTAAAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
15 29 0.30
16 55 0.56
17 14 0.14
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATAATTTAAAATTA
Found at i:82234 original size:16 final size:15
Alignment explanation
Indices: 82175--82235 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
82165 TTTAAATTTA
*
82175 AAATAATTTAAAATTC
1 AAATAA-TTAAAAATC
* *
82191 AAATAATTTAAATTC
1 AAATAATTAAAAATC
*
82206 AAATAATTTAAAATC
1 AAATAATTAAAAATC
82221 AAATAATATAAAAAT
1 AAATAAT-TAAAAAT
82236 TTTAAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
15 29 0.71
16 12 0.29
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATAATTAAAAATC
Found at i:83400 original size:6 final size:6
Alignment explanation
Indices: 83391--83426 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
83381 TTTAATTTGT
83391 CTTGCA CTTGCA CTTGCA CTTGCA CTTGCA CTTGCA
1 CTTGCA CTTGCA CTTGCA CTTGCA CTTGCA CTTGCA
83427 GGGTGACTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (6 bp):
CTTGCA
Found at i:85094 original size:13 final size:13
Alignment explanation
Indices: 85076--85123 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 13
85066 GAGGTGAATA
85076 ATATAAAATATAT
1 ATATAAAATATAT
85089 ATAT-AAATATAT
1 ATATAAAATATAT
*
85101 AGTGTATAAATATATT
1 A-TATA-AAATATA-T
85117 ATATAAA
1 ATATAAA
85124 TAATATTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
12 9 0.31
13 6 0.21
14 2 0.07
15 10 0.34
16 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
ATATAAAATATAT
Found at i:85124 original size:13 final size:14
Alignment explanation
Indices: 85076--85129 Score: 69
Period size: 13 Copynumber: 4.0 Consensus size: 14
85066 GAGGTGAATA
85076 ATATAAA-ATATAT
1 ATATAAATATATAT
85089 ATATAAATATATAGT
1 ATATAAATATATA-T
*
85104 GTATAAATATAT-T
1 ATATAAATATATAT
85117 ATATAAATA-ATAT
1 ATATAAATATATAT
85130 TCATTATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
12 2 0.06
13 17 0.47
14 5 0.14
15 12 0.33
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (14 bp):
ATATAAATATATAT
Found at i:85137 original size:16 final size:14
Alignment explanation
Indices: 85082--85144 Score: 65
Period size: 16 Copynumber: 4.3 Consensus size: 14
85072 AATAATATAA
85082 AATATATATATAAAT
1 AATAT-TATATAAAT
* *
85097 ATATAGTGTATAAAT
1 A-ATATTATATAAAT
85112 -ATATTATATAAAT
1 AATATTATATAAAT
85125 AATATTCATTATAAAT
1 AATATT-A-TATAAAT
85141 AATA
1 AATA
85145 AATTAATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
13 11 0.28
14 5 0.12
15 10 0.25
16 14 0.35
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (14 bp):
AATATTATATAAAT
Found at i:85235 original size:19 final size:19
Alignment explanation
Indices: 85211--85248 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
85201 ATAATTTCAT
85211 ATTCATAACATATAACTTA
1 ATTCATAACATATAACTTA
* *
85230 ATTCATAACTTATGACTTA
1 ATTCATAACATATAACTTA
85249 TCTATATGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (19 bp):
ATTCATAACATATAACTTA
Found at i:89224 original size:5 final size:5
Alignment explanation
Indices: 89183--89222 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
89173 GACCAGTTAA
* *
89183 TATTG TATTG TATTG TATTG TATTG TATTG CATTG CATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
89223 CAGTGCGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.55
Consensus pattern (5 bp):
TATTG
Found at i:90321 original size:23 final size:23
Alignment explanation
Indices: 90293--90336 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
90283 TTTAATGCTG
* * *
90293 CAATATTTTTATATTTTTTTATT
1 CAATATGTTTAAAATTTTTTATT
90316 CAATATGTTTAAAATTTTTTA
1 CAATATGTTTAAAATTTTTTA
90337 AATATTGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (23 bp):
CAATATGTTTAAAATTTTTTATT
Found at i:91424 original size:16 final size:16
Alignment explanation
Indices: 91405--91443 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
91395 TTTGATTGAA
91405 TTATATTTATATTATT
1 TTATATTTATATTATT
*
91421 TTATATATATATTATT
1 TTATATTTATATTATT
91437 TT-TATTT
1 TTATATTT
91444 TGAATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATATTTATATTATT
Found at i:91447 original size:43 final size:45
Alignment explanation
Indices: 91383--91491 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 45
91373 AGTGTTATGA
*
91383 AATATATTATTATTTGA--TTGAATTATATTTATATTATTT-TATA-T
1 AATATATTATT-TTT-ATTTTGAATTATATTTATATT-TTTATAAATT
*
91427 -ATATATTATTTTTATTTTGAATTGTATTTATATTTTTATAAATT
1 AATATATTATTTTTATTTTGAATTATATTTATATTTTTATAAATT
91471 AATATATTATTTATATATTTT
1 AATATATTATTT-T-TATTTT
91492 TATAGCTAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
41 1 0.02
42 6 0.11
43 30 0.54
44 1 0.02
45 11 0.20
46 1 0.02
47 6 0.11
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (45 bp):
AATATATTATTTTTATTTTGAATTATATTTATATTTTTATAAATT
Found at i:98932 original size:20 final size:20
Alignment explanation
Indices: 98907--98956 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
98897 AAACTTAATT
*
98907 TTTTAAAATTTATT-TTTTAA
1 TTTTAAAATTT-TTATTTAAA
*
98927 TTTTAATATTTTTATTTAAA
1 TTTTAAAATTTTTATTTAAA
98947 TTTTATAAAT
1 TTTTA-AAAT
98957 ATTAAAATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTAAAATTTTTATTTAAA
Found at i:99453 original size:29 final size:28
Alignment explanation
Indices: 99415--99473 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
99405 AATTAATTAA
** *
99415 TAAAAATATTTTAATAAAATATTTATTTT
1 TAAAAATATTCCAAAAAAATATTT-TTTT
*
99444 TAAAAGTATTCCAAAAAAATATTTTTTT
1 TAAAAATATTCCAAAAAAATATTTTTTT
99472 TA
1 TA
99474 TTGATTGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (28 bp):
TAAAAATATTCCAAAAAAATATTTTTTT
Found at i:100447 original size:6 final size:6
Alignment explanation
Indices: 100427--100498 Score: 56
Period size: 6 Copynumber: 11.0 Consensus size: 6
100417 TTAAATATAT
100427 ATTTT- ATTATTA ATTTTA ATTTTA ATATTATA ATATTTA ATTTTA TTATTTTA
1 ATTTTA ATT-TTA ATTTTA ATTTTA AT-TT-TA AT-TTTA ATTTTA --ATTTTA
* *
100480 ATAATTA TTTTTA ATTTTA
1 AT-TTTA ATTTTA ATTTTA
100499 CGATCAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
5 3 0.05
6 27 0.48
7 13 0.23
8 13 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATTTTA
Found at i:100457 original size:21 final size:22
Alignment explanation
Indices: 100431--100494 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
100421 ATATATATTT
100431 TATTATTAAT-TTTAATTTTAA
1 TATTATTAATATTTAATTTTAA
*
100452 TATTA-TAATATTTAATTTTAT
1 TATTATTAATATTTAATTTTAA
* *
100473 TATT-TTAATAATTATTTTTAA
1 TATTATTAATATTTAATTTTAA
100494 T
1 T
100495 TTTACGATCA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.11
21 33 0.89
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTAATATTTAATTTTAA
Found at i:100467 original size:15 final size:14
Alignment explanation
Indices: 100443--100487 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
100433 TTATTAATTT
100443 TAATTTTAATATTA
1 TAATTTTAATATTA
*
100457 TAATATTTAATTTTA
1 TAAT-TTTAATATTA
*
100472 TTATTTTAATAATTA
1 TAATTTTAAT-ATTA
100487 T
1 T
100488 TTTTAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TAATTTTAATATTA
Found at i:100488 original size:15 final size:14
Alignment explanation
Indices: 100425--100488 Score: 53
Period size: 15 Copynumber: 4.6 Consensus size: 14
100415 ATTTAAATAT
100425 ATATT-TTATTATTA
1 ATATTATTATT-TTA
*
100439 AT-TT-TAATTTTA
1 ATATTATTATTTTA
*
100451 ATATTATAATATTTA
1 ATATTATTAT-TTTA
*
100466 ATTTTATTATTTTA
1 ATATTATTATTTTA
100480 ATAATTATT
1 AT-ATTATT
100489 TTTAATTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
12 5 0.12
13 8 0.19
14 12 0.29
15 17 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATATTATTATTTTA
Found at i:100492 original size:27 final size:24
Alignment explanation
Indices: 100430--100498 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 24
100420 AATATATATT
*
100430 TTATTATTAATTTTAATTTTAATA
1 TTATTTTTAATTTTAATTTTAATA
100454 TTATAATATTTAATTTTATTATTTTAATAA
1 TTAT--T-TTTAATTTTA--ATTTTAAT-A
100484 TTATTTTTAATTTTA
1 TTATTTTTAATTTTA
100499 CGATCAATCA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
24 4 0.11
26 1 0.03
27 19 0.50
28 1 0.03
29 8 0.21
30 5 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
TTATTTTTAATTTTAATTTTAATA
Found at i:102730 original size:2 final size:2
Alignment explanation
Indices: 102723--102751 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
102713 AGATTAAGAA
102723 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 A
102752 AATCAAAATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107160 original size:2 final size:2
Alignment explanation
Indices: 107153--107179 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
107143 AAATATTTGT
107153 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
107180 GGGAAAACAT
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:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:107797 original size:65 final size:65
Alignment explanation
Indices: 107693--107822 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
107683 CCATGATTAT
107693 CCTCTATTGGACCAAAGAGAGTGTTGTGATTTAACGTAGTGTCTTGTATCCATTGGGCTGCGTTG
1 CCTCTATTGGACCAAAGAGAGTGTTGTGATTTAACGTAGTGTCTTGTATCCATTGGGCTGCGTTG
107758 CCTCTATTGGACCAAAGAGAGTGTTGTGATTTAACGTAGTGTCTTGTATCCATTGGGCTGCGTTG
1 CCTCTATTGGACCAAAGAGAGTGTTGTGATTTAACGTAGTGTCTTGTATCCATTGGGCTGCGTTG
107823 TACAAAAATT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (65 bp):
CCTCTATTGGACCAAAGAGAGTGTTGTGATTTAACGTAGTGTCTTGTATCCATTGGGCTGCGTTG
Found at i:110260 original size:2 final size:2
Alignment explanation
Indices: 110248--110278 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
110238 AAAAGGCATA
110248 AT AT CAT 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
110279 GTCTATACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:112232 original size:4 final size:4
Alignment explanation
Indices: 112223--112252 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
112213 CTGGCCTGCC
*
112223 CTGG CTGG CTGG CTGG CTGT CTGG CTGG CT
1 CTGG CTGG CTGG CTGG CTGG CTGG CTGG CT
112253 TTGATTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.27, G:0.43, T:0.30
Consensus pattern (4 bp):
CTGG
Found at i:112617 original size:3 final size:3
Alignment explanation
Indices: 112603--112636 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
112593 TAAAATCCCT
112603 TTA TTGA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
112637 ATTGACATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:113140 original size:3 final size:3
Alignment explanation
Indices: 113132--113164 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
113122 ATCCAATCAT
113132 ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT
113165 TTAATTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:113465 original size:21 final size:21
Alignment explanation
Indices: 113439--113487 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
113429 GATTGGGTGC
113439 TTTTTTATTAAAATAA-TAAT
1 TTTTTTATTAAAATAATTAAT
* *
113459 ATTTTTTATTTATATAATTAAT
1 -TTTTTTATTAAAATAATTAAT
113481 TTTTTTA
1 TTTTTTA
113488 ATATTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTTATTAAAATAATTAAT
Found at i:113637 original size:18 final size:18
Alignment explanation
Indices: 113614--113652 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
113604 TTTTTAATTT
113614 TTTAAAAA-TATAAAAATA
1 TTTAAAAACT-TAAAAATA
*
113632 TTTAAAAACTTAAACATA
1 TTTAAAAACTTAAAAATA
113650 TTT
1 TTT
113653 CCATCCGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
TTTAAAAACTTAAAAATA
Found at i:114396 original size:48 final size:46
Alignment explanation
Indices: 114272--114425 Score: 148
Period size: 48 Copynumber: 3.2 Consensus size: 46
114262 AAATAATATT
* * *
114272 AAAATTAAAATTAATTCAAAA-CACATGAAAAAAGTAACTAAAATTTGA
1 AAAATTAAAATCAA-TCAAAATCAC--GAAAAAAGCAACTAAAATCTGA
* * * * *
114320 AAAATTCAAATCAGTCCACATCATACGAAAAATGCAACTAAAATCTGA
1 AAAATTAAAATCAATCAAAATC--ACGAAAAAAGCAACTAAAATCTGA
*
114368 AAAATTAAAATCAATACAAAATGCACGAAAAAAGCAAGTAAAATCTGA
1 AAAATTAAAATCAAT-CAAAAT-CACGAAAAAAGCAACTAAAATCTGA
*
114416 AAAAGTAAAA
1 AAAATTAAAA
114426 GCTAGTAAAT
Statistics
Matches: 86, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
47 4 0.05
48 75 0.87
49 4 0.05
50 3 0.03
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.20
Consensus pattern (46 bp):
AAAATTAAAATCAATCAAAATCACGAAAAAAGCAACTAAAATCTGA
Found at i:115032 original size:19 final size:20
Alignment explanation
Indices: 115004--115045 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
114994 AGTTAAGATG
115004 TATTTAATTATTATAT-ATT
1 TATTTAATTATTATATAATT
* *
115023 TATTTTATTATTTTATAATT
1 TATTTAATTATTATATAATT
115043 TAT
1 TAT
115046 ATTTGAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTAATTATTATATAATT
Found at i:115062 original size:22 final size:24
Alignment explanation
Indices: 115037--115081 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
115027 TTATTATTTT
115037 ATAATTTATA-TTTGA-ATTTGTA
1 ATAATTTATATTTTGATATTTGTA
*
115059 ATAATTTTTATTTTGATATTTGT
1 ATAATTTATATTTTGATATTTGT
115082 GTTTTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (24 bp):
ATAATTTATATTTTGATATTTGTA
Found at i:115326 original size:7 final size:8
Alignment explanation
Indices: 115298--115324 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
115288 TGTAAATGCA
115298 TTTTAATT
1 TTTTAATT
115306 TTTTAATT
1 TTTTAATT
115314 TTTTAATT
1 TTTTAATT
115322 TTT
1 TTT
115325 AAATATACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTAATT
Found at i:115401 original size:26 final size:26
Alignment explanation
Indices: 115372--115423 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
115362 AAGGAAATTT
*
115372 TATG-AATTTTTATATTTATGAATAAA
1 TATGAAATTTTTATA-ATATGAATAAA
*
115398 TATGAAATTTTTTTAATATGAATAAA
1 TATGAAATTTTTATAATATGAATAAA
115424 ATAAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (26 bp):
TATGAAATTTTTATAATATGAATAAA
Done.