Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold359
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: 131537
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:2201 original size:20 final size:19
Alignment explanation
Indices: 2164--2202 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
2154 GAGCAGACGC
*
2164 TGGAAGCTGCTGCTATGGA
1 TGGAAGCTGCTGCAATGGA
*
2183 TGGAAGGCTGCTGGAATGGA
1 TGGAA-GCTGCTGCAATGGA
2203 AGTTGGAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.23, C:0.13, G:0.41, T:0.23
Consensus pattern (19 bp):
TGGAAGCTGCTGCAATGGA
Found at i:2507 original size:22 final size:24
Alignment explanation
Indices: 2482--2526 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
2472 TTGCCGTTGC
2482 TTTTTT-A-TTGCTTTGTTGTTTT
1 TTTTTTCATTTGCTTTGTTGTTTT
2504 TTTTTTCCATTTGCTTTGTTGTT
1 TTTTTT-CATTTGCTTTGTTGTT
2527 GTCGGCCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
24 1 0.05
25 13 0.65
ACGTcount: A:0.04, C:0.09, G:0.13, T:0.73
Consensus pattern (24 bp):
TTTTTTCATTTGCTTTGTTGTTTT
Found at i:2564 original size:5 final size:5
Alignment explanation
Indices: 2551--2649 Score: 117
Period size: 5 Copynumber: 19.8 Consensus size: 5
2541 GCATGAAAGC
* * * *
2551 AATGT AATGA AATGC AATGC AATGA AATGA AATGA AATGA AATGA AATGC
1 AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA
* * * * *
2601 AATGC AATGA AATGC AATGA AATGA AATGA AGTGC AATGC AATGA AATG
1 AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATG
2650 TTTTTGAAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 83 1.00
ACGTcount: A:0.51, C:0.07, G:0.21, T:0.21
Consensus pattern (5 bp):
AATGA
Found at i:2646 original size:15 final size:15
Alignment explanation
Indices: 2539--2629 Score: 123
Period size: 15 Copynumber: 6.2 Consensus size: 15
2529 CGGCCATTTC
*
2539 ATGC-ATGAAA-GCA
1 ATGCAATGAAATGAA
* *
2552 ATGTAATGAAATGCA
1 ATGCAATGAAATGAA
2567 ATGCAATGAAATGAA
1 ATGCAATGAAATGAA
*
2582 ATGAAATGAAATGAA
1 ATGCAATGAAATGAA
*
2597 ATGCAATGCAATGAA
1 ATGCAATGAAATGAA
2612 ATGCAATGAAATGAA
1 ATGCAATGAAATGAA
2627 ATG
1 ATG
2630 AAGTGCAATG
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
13 3 0.04
14 6 0.09
15 60 0.87
ACGTcount: A:0.51, C:0.08, G:0.21, T:0.21
Consensus pattern (15 bp):
ATGCAATGAAATGAA
Found at i:2666 original size:35 final size:35
Alignment explanation
Indices: 2543--2649 Score: 171
Period size: 35 Copynumber: 3.1 Consensus size: 35
2533 CATTTCATGC
* *
2543 ATGAAA-GCAATGTAATGAAATGCAATGCAATGAA
1 ATGAAATGAAATGAAATGAAATGCAATGCAATGAA
2577 ATGAAATGAAATGAAATGAAATGCAATGCAATGAA
1 ATGAAATGAAATGAAATGAAATGCAATGCAATGAA
* *
2612 ATGCAATGAAATGAAATGAAGTGCAATGCAATGAA
1 ATGAAATGAAATGAAATGAAATGCAATGCAATGAA
2647 ATG
1 ATG
2650 TTTTTGAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
34 6 0.09
35 62 0.91
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (35 bp):
ATGAAATGAAATGAAATGAAATGCAATGCAATGAA
Found at i:2686 original size:22 final size:22
Alignment explanation
Indices: 2658--2734 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 22
2648 TGTTTTTGAA
2658 ATGCATGAAATGAAAATTATGC
1 ATGCATGAAATGAAAATTATGC
*
2680 ATGCATGAAATG----TTACGTGAA
1 ATGCATGAAATGAAAATTA--TG-C
**
2701 AAACATGAAATGAAAATTATGC
1 ATGCATGAAATGAAAATTATGC
2723 ATGCATGAAATG
1 ATGCATGAAATG
2735 TTACGTGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
18 3 0.07
20 2 0.05
21 10 0.24
22 22 0.52
23 2 0.05
25 3 0.07
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.26
Consensus pattern (22 bp):
ATGCATGAAATGAAAATTATGC
Found at i:2708 original size:43 final size:43
Alignment explanation
Indices: 2661--2760 Score: 200
Period size: 43 Copynumber: 2.3 Consensus size: 43
2651 TTTTGAAATG
2661 CATGAAATGAAAATTATGCATGCATGAAATGTTACGTGAAAAA
1 CATGAAATGAAAATTATGCATGCATGAAATGTTACGTGAAAAA
2704 CATGAAATGAAAATTATGCATGCATGAAATGTTACGTGAAAAA
1 CATGAAATGAAAATTATGCATGCATGAAATGTTACGTGAAAAA
2747 CATGAAATGAAAAT
1 CATGAAATGAAAAT
2761 GCATGCAATG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.25
Consensus pattern (43 bp):
CATGAAATGAAAATTATGCATGCATGAAATGTTACGTGAAAAA
Found at i:2709 original size:21 final size:21
Alignment explanation
Indices: 2683--2755 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
2673 ATTATGCATG
2683 CATGAAATGTTACGTGAAAAA
1 CATGAAATGTTACGTGAAAAA
* **
2704 CATGAAATGAAAATTA--TG-CATG
1 CATGAAATG----TTACGTGAAAAA
2726 CATGAAATGTTACGTGAAAAA
1 CATGAAATGTTACGTGAAAAA
2747 CATGAAATG
1 CATGAAATG
2756 AAAATGCATG
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
18 3 0.08
20 2 0.05
21 19 0.49
22 10 0.26
23 2 0.05
25 3 0.08
ACGTcount: A:0.47, C:0.10, G:0.19, T:0.25
Consensus pattern (21 bp):
CATGAAATGTTACGTGAAAAA
Found at i:2962 original size:16 final size:15
Alignment explanation
Indices: 2941--2975 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
2931 CAAAAATTTA
2941 AAAAAAAAATAAAAT
1 AAAAAAAAATAAAAT
2956 GAAAAAAAAATAAAAT
1 -AAAAAAAAATAAAAT
2972 AAAA
1 AAAA
2976 TGATCCGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAAAAAAATAAAAT
Found at i:2970 original size:21 final size:20
Alignment explanation
Indices: 2940--2978 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
2930 TCAAAAATTT
2940 AAAAAAAAAATAAAATGAAA
1 AAAAAAAAAATAAAATGAAA
2960 AAAAAATAAAATAAAATGA
1 AAAAAA-AAAATAAAATGA
2979 TCCGGAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (20 bp):
AAAAAAAAAATAAAATGAAA
Found at i:3208 original size:2 final size:2
Alignment explanation
Indices: 3201--3238 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3191 CTGTATCTGA
3201 AT 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 AT
3239 GACCATAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3257 original size:22 final size:22
Alignment explanation
Indices: 3232--3304 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
3222 TATATATATA
*
3232 TATATATGACCATAACTAAATG
1 TATATATGACTATAACTAAATG
* *
3254 TATATATTACTATAACGGAAA-G
1 TATATATGACTATAAC-TAAATG
*
3276 TATATATGACTATAAATAAATG
1 TATATATGACTATAACTAAATG
*
3298 TACATAT
1 TATATAT
3305 CTCTAGAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 3 0.07
22 36 0.86
23 3 0.07
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.34
Consensus pattern (22 bp):
TATATATGACTATAACTAAATG
Found at i:3682 original size:22 final size:21
Alignment explanation
Indices: 3657--3720 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 21
3647 GAAATGCATG
* *
3657 TATGATAATAATTGAATGTACA
1 TATGAT-ATAATTAAATATACA
*
3679 TATGATCATAACTAAATATACA
1 TATGAT-ATAATTAAATATACA
3701 TATGACTATAATTAAATATA
1 TATGA-TATAATTAAATATA
3721 TATAACTGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 35 0.97
23 1 0.03
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (21 bp):
TATGATATAATTAAATATACA
Found at i:3895 original size:22 final size:22
Alignment explanation
Indices: 3867--3925 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
3857 ATACTTGATC
3867 GAATGTACATATGACCATAAAT
1 GAATGTACATATGACCATAAAT
* *
3889 GAATGTACATATGGCCATAATT
1 GAATGTACATATGACCATAAAT
*
3911 GAATTTACATATGAC
1 GAATGTACATATGAC
3926 AACTCTTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (22 bp):
GAATGTACATATGACCATAAAT
Found at i:6829 original size:19 final size:20
Alignment explanation
Indices: 6792--6829 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
6782 TATTAATTTA
6792 TTAAATAATTATAAAATAAT
1 TTAAATAATTATAAAATAAT
6812 TTAAA-AATT-TAAATATAA
1 TTAAATAATTATAAA-ATAA
6830 ATAATGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAAATAATTATAAAATAAT
Found at i:9228 original size:51 final size:51
Alignment explanation
Indices: 9072--9402 Score: 217
Period size: 51 Copynumber: 6.3 Consensus size: 51
9062 GAAATAATGA
** ** *
9072 GGTTGGAGTATCCTTGATTGTGAAAAATTGGTACTTTTGGAAATAAAATAGG
1 GGTTGGAGTATCCCCGATTAAGAAAAATTGGTA-TTTTGGAAATAAAATCGG
* * * * *
9124 TGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-AAGAAAAATTGGTATTTTGGAAATAAAATCGG
* * *
9176 GGTTGGAGTATCCCCGATTACGAAAAATTGATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTAAGAAAAATTGGTATTTTGGAAATAAAATCGG
* *** * *
9227 GGTTGGAGTATCCCC---TCAGAAATAACGGGGTTAGAGTA-TCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTAAGAAA-AA-----TT-G-GTATTTTGGA-AATAAAATCGG
* ** *
9281 GGTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAAGAA-AAATT-G-GTATTTTGGAAATAAAATCGG
* * * *
9335 AGTTGGAGTATCCCCGATTATAG-AAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTA-AGAAAAATTGGTATTTTGGAAATAAAATCGG
* *
9386 AGTTGGAATATCCCCGA
1 GGTTGGAGTATCCCCGA
9403 CTGTGGAGAA
Statistics
Matches: 215, Mismatches: 46, Indels: 37
0.72 0.15 0.12
Matches are distributed among these distances:
48 5 0.02
49 2 0.01
51 75 0.35
52 56 0.26
53 20 0.09
54 40 0.19
55 6 0.03
56 4 0.02
57 6 0.03
58 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTAAGAAAAATTGGTATTTTGGAAATAAAATCGG
Found at i:11929 original size:21 final size:21
Alignment explanation
Indices: 11899--11954 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
11889 GTTGGGACCT
11899 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCCACAAA
* *
11920 TGTATTGATACATTCTACAAA
1 TGTATCGATACATTCCACAAA
11941 TGTATCGATACATT
1 TGTATCGATACATT
11955 TGGATAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCCACAAA
Found at i:12726 original size:55 final size:55
Alignment explanation
Indices: 12639--13075 Score: 627
Period size: 55 Copynumber: 7.9 Consensus size: 55
12629 ATAAAGTGTA
* * * * *
12639 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
12694 TCTTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAAGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
** * *
12749 TCCTGCTCTTT-AGGGACT-GAGAGGTGCCACCAACTTGTGTGGGCTTTCAGAGGTG
1 TCCTGCTCTTTGA-GGACTGGA-AAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
12804 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
12859 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
12914 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
12969 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
13024 TCCTGCTCTATGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
13076 AAAAGGCATC
Statistics
Matches: 350, Mismatches: 21, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
54 9 0.03
55 330 0.94
56 11 0.03
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:12881 original size:27 final size:27
Alignment explanation
Indices: 12799--12936 Score: 68
Period size: 27 Copynumber: 5.0 Consensus size: 27
12789 GGGCTTTCAG
12799 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
12826 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
12854 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
12881 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
12909 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
12936 A
1 A
12937 ATGCCACCAA
Statistics
Matches: 73, Mismatches: 28, Indels: 20
0.60 0.23 0.17
Matches are distributed among these distances:
25 6 0.08
26 10 0.14
27 21 0.29
28 20 0.27
29 10 0.14
30 6 0.08
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:14107 original size:20 final size:20
Alignment explanation
Indices: 14084--14122 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14074 TTTTCTCTCC
*
14084 TTTTCTTTTTTTGTTTTTTG
1 TTTTCTTTTTTTCTTTTTTG
*
14104 TTTTGTTTTTTTCTTTTTT
1 TTTTCTTTTTTTCTTTTTT
14123 TTGGCGAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (20 bp):
TTTTCTTTTTTTCTTTTTTG
Found at i:26725 original size:13 final size:13
Alignment explanation
Indices: 26707--26732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26697 TACACCAAGT
26707 ATGTATCGATACA
1 ATGTATCGATACA
26720 ATGTATCGATACA
1 ATGTATCGATACA
26733 CAAAAAATTG
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:26732 original size:32 final size:33
Alignment explanation
Indices: 26689--26752 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
26679 TAGCCAAACT
* **
26689 TGTATCCATACACCAAGTA-TGTATCGATACAA
1 TGTATCCATACACAAAAAATTGTATCGATACAA
*
26721 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCCATACACAAAAAATTGTATCGATACA
26753 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCCATACACAAAAAATTGTATCGATACAA
Found at i:27894 original size:51 final size:51
Alignment explanation
Indices: 27738--27907 Score: 223
Period size: 52 Copynumber: 3.3 Consensus size: 51
27728 GAAATAATGA
* * *
27738 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTACTTCTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAATCGG
* * * * * *
27790 TGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAATCGG
* *
27842 GGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGG
27893 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
27908 TCAGAAATAA
Statistics
Matches: 100, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
51 40 0.40
52 50 0.50
53 10 0.10
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGG
Found at i:27953 original size:27 final size:28
Alignment explanation
Indices: 27890--27965 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
27880 GAAATAAAGT
*
27890 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
27918 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
27945 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
27966 TGTAAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:28030 original size:211 final size:211
Alignment explanation
Indices: 27680--28071 Score: 563
Period size: 211 Copynumber: 1.9 Consensus size: 211
27670 AGATAATAAT
* * * *
27680 GGGGTTGGAGTGTTCCCTCAGAAGTAACGGGGTTGGAATATCCCCGATGAAATAATGAGGTTGGA
1 GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAATATCCCCGATGAAATAACGAGGTTGGA
* * *
27745 GTATCCTCGATTGTGAAAAATTGGTACTTCTGGAAATAAAATCGGTGTTGGAGTATCCCCGATTA
66 GTATCCCCGATTGTAAAAAATTGGTACTTCTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTA
* * * *
27810 AAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTGATA
131 AAGGAAAATTAGTGTTTTGAAAATAAAACCAGAGTTGGAATATCCCCGATTATGAAAAATTGATA
27875 TTTTGGAAATAAAGTC
196 TTTTGGAAATAAAGTC
* * *
27891 GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGA
1 GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAATATCCCCGATGAAATAACGAGGTTGGA
* ** *
27955 GTGTCCCCGATTGTAAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGAT
66 GTATCCCCGATTGTAAA-AAATTGGT-ACTTCTGGAAATAAAATCGGAGTTGGAGTATCCCCGAT
* * *
28020 TATA-GAAAATTAGTGTTTTGAAAATAAAATCAGAGTTGGAATATCTCCGATT
129 TAAAGGAAAATTAGTGTTTTGAAAATAAAACCAGAGTTGGAATATCCCCGATT
28072 GTGGAGAATT
Statistics
Matches: 158, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
210 26 0.16
211 95 0.60
212 37 0.23
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (211 bp):
GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAATATCCCCGATGAAATAACGAGGTTGGA
GTATCCCCGATTGTAAAAAATTGGTACTTCTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTA
AAGGAAAATTAGTGTTTTGAAAATAAAACCAGAGTTGGAATATCCCCGATTATGAAAAATTGATA
TTTTGGAAATAAAGTC
Found at i:28056 original size:51 final size:53
Alignment explanation
Indices: 27949--28071 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 53
27939 GATTAACGGG
* * * * *
27949 GTTGGAGTGTCCCCGATTGTAAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAAAGAAATTAGTG-TTTTTGAAAATAAAATCAGA
*
28003 GTTGGAGTATCCCCGATTATAGA-AAATTAGTG-TTTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATAAAGAAATTAGTGTTTTTGAAAATAAAATCAGA
* *
28054 GTTGGAATATCTCCGATT
1 GTTGGAGTATCCCCGATT
28072 GTGGAGAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
51 33 0.54
53 8 0.13
54 20 0.33
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTATAAAGAAATTAGTGTTTTTGAAAATAAAATCAGA
Found at i:30447 original size:13 final size:13
Alignment explanation
Indices: 30429--30456 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30419 ATACAAAGAT
30429 CAATGTATCGATA
1 CAATGTATCGATA
30442 CAATGTATCGATA
1 CAATGTATCGATA
30455 CA
1 CA
30457 CAGAAAAATG
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:30452 original size:33 final size:33
Alignment explanation
Indices: 30410--30476 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
30400 AAAATTTCCA
**
30410 AATGTATCGATACAAAGATCAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
30443 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
30476 A
1 A
30477 TTTCCTTGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:30520 original size:19 final size:18
Alignment explanation
Indices: 30496--30563 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
30486 CAGTAGCTAA
30496 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
30515 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
30530 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
30547 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
30564 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:30536 original size:13 final size:13
Alignment explanation
Indices: 30518--30542 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30508 ACAATACTTA
30518 TGTATCGATACAT
1 TGTATCGATACAT
30531 TGTATCGATACA
1 TGTATCGATACA
30543 AAACTTATGT
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:30540 original size:32 final size:32
Alignment explanation
Indices: 30499--30561 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
30489 TAGCTAATTA
*
30499 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
30531 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
30562 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:30625 original size:21 final size:21
Alignment explanation
Indices: 30618--30696 Score: 158
Period size: 21 Copynumber: 3.8 Consensus size: 21
30608 ACATTTGTAG
30618 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
30639 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
30660 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
30681 AATGTATCGATACATT
1 AATGTATCGATACATT
30697 TGGATAAATT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (21 bp):
AATGTATCGATACATTCCACA
Found at i:35109 original size:58 final size:58
Alignment explanation
Indices: 35057--35187 Score: 172
Period size: 58 Copynumber: 2.3 Consensus size: 58
35047 AAAATGTGTG
* * * *
35057 AAATTGCATGAAAGTATCTAGATCATAAAAAATGACCTACATGACATCAAAATTCATA
1 AAATTGCATCAAAGTATCCAGATCATAAAAAATGACCTAAATAACATCAAAATTCATA
* * * * * *
35115 AAATTGTATCTAAGTCTCCATATCATAGAAAATGACCTAAATAACATCAAAATTAATA
1 AAATTGCATCAAAGTATCCAGATCATAAAAAATGACCTAAATAACATCAAAATTCATA
35173 AAATTGCATCAAAGT
1 AAATTGCATCAAAGT
35188 TCATAGATAA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.27
Consensus pattern (58 bp):
AAATTGCATCAAAGTATCCAGATCATAAAAAATGACCTAAATAACATCAAAATTCATA
Found at i:35403 original size:47 final size:48
Alignment explanation
Indices: 35299--35415 Score: 161
Period size: 46 Copynumber: 2.5 Consensus size: 48
35289 TGAAATACCA
* * *
35299 TGAAAATCCTTAAGTGATGAAAAATGACTAAAATGACATAAAAATGCT
1 TGAAAATCCCTAAGTCATGAAAAATAACTAAAATGACATAAAAATGCT
*
35347 TG--AATCCCTAAGTCATGGAAAATAACTAAAATGGA-A-AAAAATGCT
1 TGAAAATCCCTAAGTCATGAAAAATAACTAAAAT-GACATAAAAATGCT
35392 TGAAAATCCCTAAGTCATGAAAAA
1 TGAAAATCCCTAAGTCATGAAAAA
35416 ATGTCTAAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
45 11 0.18
46 27 0.44
47 21 0.34
48 2 0.03
ACGTcount: A:0.50, C:0.13, G:0.15, T:0.23
Consensus pattern (48 bp):
TGAAAATCCCTAAGTCATGAAAAATAACTAAAATGACATAAAAATGCT
Found at i:36004 original size:30 final size:30
Alignment explanation
Indices: 35970--36026 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
35960 GTCGAGAAAA
* *
35970 AAAGACGTGTGCATCTTACTTGGTGTCAAG
1 AAAGACATGGGCATCTTACTTGGTGTCAAG
36000 AAAGACATGGGCATCTTACTTGGTGTC
1 AAAGACATGGGCATCTTACTTGGTGTC
36027 CTTGGTCGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (30 bp):
AAAGACATGGGCATCTTACTTGGTGTCAAG
Found at i:38537 original size:3 final size:3
Alignment explanation
Indices: 38529--38560 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
38519 TAAAAATCTT
*
38529 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
38561 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:40143 original size:23 final size:24
Alignment explanation
Indices: 40098--40144 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
40088 GTATATCATG
* *
40098 AAACATACGAAAAAGGATGAGTGA
1 AAACATACGAAAAAGAATAAGTGA
40122 AAACATACGAAAAA-AATAAGTGA
1 AAACATACGAAAAAGAATAAGTGA
40145 GTTAAAGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.60, C:0.09, G:0.19, T:0.13
Consensus pattern (24 bp):
AAACATACGAAAAAGAATAAGTGA
Found at i:42289 original size:20 final size:21
Alignment explanation
Indices: 42245--42295 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
42235 TTCTATGATT
42245 TGTATTGATACAACAACTCAA
1 TGTATTGATACAACAACTCAA
* * *
42266 TGTATTGATAC-ATAAGTGAA
1 TGTATTGATACAACAACTCAA
42286 TGTATTGATA
1 TGTATTGATA
42296 TATGCTAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (21 bp):
TGTATTGATACAACAACTCAA
Found at i:42494 original size:91 final size:91
Alignment explanation
Indices: 42269--42472 Score: 381
Period size: 91 Copynumber: 2.2 Consensus size: 91
42259 AACTCAATGT
*
42269 ATTGATACATAAGTGAATGTATTGATATATGCTAGCATTGTATCGATATTAGACCATTTTGAGGC
1 ATTGATACATAAGTGAATGTATTGATATATGCTAGCATTGTATCAATATTAGACCATTTTGAGGC
*
42334 AAAATTTTGCATTCTGGAAAAATTGA
66 AAAATTTTGCATTCTGAAAAAATTGA
42360 ATTGATACATAAGTGAATGTATTGATATATGCTAGCATTGTATCAATATTAGACCATTTTGAGGC
1 ATTGATACATAAGTGAATGTATTGATATATGCTAGCATTGTATCAATATTAGACCATTTTGAGGC
42425 AAAATTTTGCATTCTGAAAAAATTGA
66 AAAATTTTGCATTCTGAAAAAATTGA
*
42451 ATTGATATATAAGTGAATGTAT
1 ATTGATACATAAGTGAATGTAT
42473 CAATACATGT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 110 1.00
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.37
Consensus pattern (91 bp):
ATTGATACATAAGTGAATGTATTGATATATGCTAGCATTGTATCAATATTAGACCATTTTGAGGC
AAAATTTTGCATTCTGAAAAAATTGA
Found at i:46272 original size:58 final size:58
Alignment explanation
Indices: 46231--46627 Score: 383
Period size: 58 Copynumber: 6.9 Consensus size: 58
46221 AAAATGTATG
* ** * * *
46231 AAATTACATGAAAGTCCCTAAATCATAAAAAATGACCTAAATAAGC-CCAACATTCATA
1 AAATTACATAAAAGTCCCTAAATCATGGAAAATGACCTAAATGA-CATCAAAATTCATA
* * * * * *
46289 AAATTTGCATAAAAGTCACTAGATCATAGAAAATAACTTAAATGACATCAAAATTCATA
1 AAA-TTACATAAAAGTCCCTAAATCATGGAAAATGACCTAAATGACATCAAAATTCATA
* * *
46348 AAATTATATCAAAGTCCCTAAGTCATGGAAAAT-ATCCTAAATGACATCAAAATTCAT-
1 AAATTACATAAAAGTCCCTAAATCATGGAAAATGA-CCTAAATGACATCAAAATTCATA
* * * * *
46405 AAATAACATAAAAGTCCCTAAGTCATGAAAAATGACCTAAATAACATCAAAATTTATA
1 AAATTACATAAAAGTCCCTAAATCATGGAAAATGACCTAAATGACATCAAAATTCATA
* *
46463 AAATTACATCAAAGTCCCTAAATCATGGAAAATAACCTAAATGACATCAAAATTCATA
1 AAATTACATAAAAGTCCCTAAATCATGGAAAATGACCTAAATGACATCAAAATTCATA
* * ** * * ** * *
46521 AAATTGCATCAAAGTCTTTCAGTCATGGAAAATGATTTAAATGACATTAAAAATCAT-
1 AAATTACATAAAAGTCCCTAAATCATGGAAAATGACCTAAATGACATCAAAATTCATA
** * * * *
46578 --ATTACATAAAAGTCCCTATGTTATGAAAAATGACCAAAATGACATTAAAA
1 AAATTACATAAAAGTCCCTAAATCATGGAAAATGACCTAAATGACATCAAAA
46628 AACACAAAAT
Statistics
Matches: 282, Mismatches: 52, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
55 39 0.14
57 50 0.18
58 147 0.52
59 46 0.16
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.26
Consensus pattern (58 bp):
AAATTACATAAAAGTCCCTAAATCATGGAAAATGACCTAAATGACATCAAAATTCATA
Found at i:46466 original size:115 final size:115
Alignment explanation
Indices: 46231--46522 Score: 365
Period size: 115 Copynumber: 2.5 Consensus size: 115
46221 AAAATGTATG
* ** * * * * *
46231 AAATTACATGAAAGTCCCTAAATCATAAAAAATGACCTAAATAAGC-CCAACATTCATAAAATTT
1 AAATTACATCAAAGTCCCTAAATCATGGAAAATAACCTAAATGA-CATCAAAATTCAT-AAA-TA
* * *
46295 GCATAAAAGTCACTAGATCATAGAAAATAACTTAAATGACATCAAAATTCATA
63 ACATAAAAGTCACTAGATCATAGAAAATAACCTAAATAACATCAAAATTCATA
* * *
46348 AAATTATATCAAAGTCCCTAAGTCATGGAAAATATCCTAAATGACATCAAAATTCATAAATAACA
1 AAATTACATCAAAGTCCCTAAATCATGGAAAATAACCTAAATGACATCAAAATTCATAAATAACA
* * *
46413 TAAAAGTCCCTA-AGTCAT-GAAAAATGACCTAAATAACATCAAAATTTATA
66 TAAAAGTCACTAGA-TCATAG-AAAATAACCTAAATAACATCAAAATTCATA
46463 AAATTACATCAAAGTCCCTAAATCATGGAAAATAACCTAAATGACATCAAAATTCATAAA
1 AAATTACATCAAAGTCCCTAAATCATGGAAAATAACCTAAATGACATCAAAATTCATAAA
46523 ATTGCATCAA
Statistics
Matches: 152, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
114 2 0.01
115 101 0.66
116 4 0.03
117 45 0.30
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (115 bp):
AAATTACATCAAAGTCCCTAAATCATGGAAAATAACCTAAATGACATCAAAATTCATAAATAACA
TAAAAGTCACTAGATCATAGAAAATAACCTAAATAACATCAAAATTCATA
Found at i:46547 original size:173 final size:174
Alignment explanation
Indices: 46231--46627 Score: 507
Period size: 173 Copynumber: 2.3 Consensus size: 174
46221 AAAATGTATG
* * * * *
46231 AAATTACATGAAAGTCCCTAAATCATAAAAAATGACCTAAATAAGC-CCAACATTCATAAAATTT
1 AAATTACATAAAAGTCCCTAAGTCATGAAAAATGACCTAAATAA-CATCAAAATTCATAAAATTT
* * * *
46295 GCATAAAAGTCACTAGATCATAGAAAATAACTTAAATGACATCAAAATTCATAAAATTATATCAA
65 ACATAAAAGTCACTAAATCATAGAAAATAACCTAAATGACATCAAAATTCATAAAATTACATCAA
*
46360 AGTCCCTAAGTCATGGAAAAT-ATCCTAAATGACATCAAAATTCAT
130 AGTCCCTAAGTCATGGAAAATGAT-CTAAATGACATCAAAAATCAT
* *
46405 AAATAACATAAAAGTCCCTAAGTCATGAAAAATGACCTAAATAACATCAAAATTTATAAAA-TTA
1 AAATTACATAAAAGTCCCTAAGTCATGAAAAATGACCTAAATAACATCAAAATTCATAAAATTTA
* * * *
46469 CATCAAAGTCCCTAAATCATGGAAAATAACCTAAATGACATCAAAATTCATAAAATTGCATCAAA
66 CATAAAAGTCACTAAATCATAGAAAATAACCTAAATGACATCAAAATTCATAAAATTACATCAAA
** * * *
46534 GTCTTTCAGTCATGGAAAATGATTTAAATGACATTAAAAATCAT
131 GTCCCTAAGTCATGGAAAATGATCTAAATGACATCAAAAATCAT
* * * * *
46578 --ATTACATAAAAGTCCCTATGTTATGAAAAATGACCAAAATGACATTAAAA
1 AAATTACATAAAAGTCCCTAAGTCATGAAAAATGACCTAAATAACATCAAAA
46628 AACACAAAAT
Statistics
Matches: 194, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
171 44 0.23
173 96 0.49
174 54 0.28
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.26
Consensus pattern (174 bp):
AAATTACATAAAAGTCCCTAAGTCATGAAAAATGACCTAAATAACATCAAAATTCATAAAATTTA
CATAAAAGTCACTAAATCATAGAAAATAACCTAAATGACATCAAAATTCATAAAATTACATCAAA
GTCCCTAAGTCATGGAAAATGATCTAAATGACATCAAAAATCAT
Found at i:47244 original size:111 final size:115
Alignment explanation
Indices: 47100--47321 Score: 285
Period size: 117 Copynumber: 1.9 Consensus size: 115
47090 CCATAATCAC
*
47100 AATATATTCATAAAAAATACATGGACATGTAAATCATGT-TAATA-AT-G-CATA-GATTAAAAT
1 AATATATTCATAAAAAATACATGGACATGTAAATCATGTATAATAGATGGACATACCA-TAAAAT
* * * *
47160 GCATGTATCATCCTTATCATGAAATATAGATAATAAAAAAGTAAACACATA
65 GCATGTATCATACTCATCATAAAATATAAATAATAAAAAAGTAAACACATA
* *
47211 AATATATTCATAGAAAATGCATAGG-CATGTAAATCATGTCAATAATAGATGGACATACCATAAA
1 AATATATTCATAAAAAATACAT-GGACATGTAAATCATGT--ATAATAGATGGACATACCATAAA
* *
47275 ATGCATGTGTCATACTCATCATAAAATATAAATAATATAAAAGTAAA
63 ATGCATGTATCATACTCATCATAAAATATAAATAATAAAAAAGTAAA
47322 GCCATAATCA
Statistics
Matches: 94, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
111 34 0.36
112 2 0.02
114 5 0.05
115 2 0.02
116 1 0.01
117 49 0.52
118 1 0.01
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (115 bp):
AATATATTCATAAAAAATACATGGACATGTAAATCATGTATAATAGATGGACATACCATAAAATG
CATGTATCATACTCATCATAAAATATAAATAATAAAAAAGTAAACACATA
Found at i:48385 original size:20 final size:21
Alignment explanation
Indices: 48361--48416 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
48351 TACAATATAT
*
48361 ATTGTATCGATACATC-TGCA
1 ATTGTATCGATACAACATGCA
* *
48381 GTTGTATCGAAACAACATGCA
1 ATTGTATCGATACAACATGCA
*
48402 ATTGTATCAATACAA
1 ATTGTATCGATACAA
48417 TTGCACTCTC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (21 bp):
ATTGTATCGATACAACATGCA
Found at i:48406 original size:21 final size:20
Alignment explanation
Indices: 48361--48409 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
48351 TACAATATAT
* *
48361 ATTGTATCGATACATCTGCA
1 ATTGTATCGAAACAACTGCA
*
48381 GTTGTATCGAAACAACATGCA
1 ATTGTATCGAAACAAC-TGCA
48402 ATTGTATC
1 ATTGTATC
48410 AATACAATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (20 bp):
ATTGTATCGAAACAACTGCA
Found at i:48798 original size:20 final size:20
Alignment explanation
Indices: 48773--48820 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
48763 CAGATCTATT
48773 GATACATTTCTCAATGTATC
1 GATACATTTCTCAATGTATC
48793 GATACATTTCTCAATGTATC
1 GATACATTTCTCAATGTATC
48813 GATACATT
1 GATACATT
48821 CAGGCATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (20 bp):
GATACATTTCTCAATGTATC
Found at i:51420 original size:158 final size:158
Alignment explanation
Indices: 51138--51868 Score: 818
Period size: 158 Copynumber: 4.7 Consensus size: 158
51128 TTTATTTCTA
* * * *
51138 AGGGGATACTTCAACCCCAATTTTA-TTCCTAAAACACCAATTTTTCACAATCGGGGATACTCTA
1 AGGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTTCACAATTGGGGATACTCCA
* * * * * * *
51202 ACCTCGTTATTTCTAAGGGGATACTCCAACCCTGGTTTTATTTTTAAAATACCAAATTTTCACAA
65 ACCTTGTTATTTTTGAGAGGATACTCCAACCCTGGTTTTATTTTCAAAACACCAATTTTTCACAA
*
51267 TCGGGGGTACTCCAACCCCGTTATTTTCG
130 TCGGGGATACTCCAACCCCGTTATTTTCG
* *
51296 AGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTTCACAATTGGGGATACTCCAA
1 AGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATTGGGGATACTCCAA
* * *
51361 CCTTATTATTTTTGAGGGGATACTCTAA-CCTCGGTTTTATTTTCAAAACACCAATTTTTCACAA
66 CCTTGTTATTTTTGAGAGGATACTCCAACCCT-GGTTTTATTTTCAAAACACCAATTTTTCACAA
* * *
51425 TTGGGGATACTCCAACCCCGTTATTTCCA
130 TCGGGGATACTCCAACCCCGTTATTTTCG
* * * * * *
51454 AAGGGATACTCCAACTCCGGTTTTATTTCCACAACACCAATTTTCCACAATCGGGGATAC-CCTA
1 AGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATTGGGGATACTCC-A
* * *
51518 ACCCTGTTATTTTTGAGAAGATACTCCAACCCTGGTTTTATTTTCAAAACACTAATTTTTCACAA
65 ACCTTGTTATTTTTGAGAGGATACTCCAACCCTGGTTTTATTTTCAAAACACCAATTTTTCACAA
** *
51583 TCGGGGATACTTTAACCCTGTTATTTTCG
130 TCGGGGATACTCCAACCCCGTTATTTTCG
* * * * *
51612 AGAGGATACTCTAA-CCCGGTCTTATTTCTAAAACACCAATTTTTCACAATTGGGGATACTCCAA
1 AGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATTGGGGATACTCCAA
* * * * * * *
51676 CCTTGTT-GTTTTCAAAGGATACT-C--CCCT-ATTTTATTTTTAAAATATCAATTTTTCACAAT
66 CCTTGTTATTTTTGAGAGGATACTCCAACCCTGGTTTTATTTTCAAAACACCAATTTTTCACAAT
*
51736 CGGGGATACTTCAACCCCGTTA-TTTCTG
131 CGGGGATACTCCAACCCCGTTATTTTC-G
* * * * * *
51764 AGGGGAGACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTCCACCATTGGGGATACTCCAA
1 AGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATTGGGGATACTCCAA
* * * * * * *
51829 TCC-CGTTATTTCTGAGGGGGTACTCCGACCCCGTTTTTAT
66 -CCTTGTTATTTTTGAGAGGATACTCCAACCCTGGTTTTAT
51869 CTCCAAAATA
Statistics
Matches: 483, Mismatches: 77, Indels: 26
0.82 0.13 0.04
Matches are distributed among these distances:
151 4 0.01
152 59 0.12
153 49 0.10
154 12 0.02
155 2 0.00
156 12 0.02
157 55 0.11
158 284 0.59
159 6 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (158 bp):
AGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATTGGGGATACTCCAA
CCTTGTTATTTTTGAGAGGATACTCCAACCCTGGTTTTATTTTCAAAACACCAATTTTTCACAAT
CGGGGATACTCCAACCCCGTTATTTTCG
Found at i:51559 original size:237 final size:234
Alignment explanation
Indices: 51160--51828 Score: 839
Period size: 237 Copynumber: 2.9 Consensus size: 234
51150 AACCCCAATT
* * * * *
51160 TTATTCCTAAAACACCAATTTTTCACAATCGGGGATACTCTAACCTCGTTATTTCTAAGGGGATA
1 TTATTTCTAAAACACCAATTTTTCACAATTGGGGATACTCCAACCTCGTTATTTCCAAAGGGATA
*
51225 CTCCAACCCTGGTTTTATTTTTAAAATACCAAATTTTCACAATCGGGGGTACTCC-AACCCCGTT
66 CTCCAACCC-GGTTTTATTTTTAAAATACC-AATTTTCACAATCGGGGATAC-CCTAACCCCGTT
* **
51289 ATTTTCGAGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTTCACAATTGGGGAT
128 ATTTTTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAATTTTTCACAATTGGGGAT
* * * *
51354 ACTCCAACCTTATTATTTTTGAGGGGATACTCTAACCTCGGTT
193 ACTCCAACCCTATTATTTTCGAGAGGATACTCTAACC-CGGTC
*
51397 TTATTT-TCAAAACACCAATTTTTCACAATTGGGGATACTCCAACCCCGTTATTTCCAAAGGGAT
1 TTATTTCT-AAAACACCAATTTTTCACAATTGGGGATACTCCAACCTCGTTATTTCCAAAGGGAT
** * * *
51461 ACTCCAACTCCGGTTTTATTTCCACAACACCAATTTTCCACAATCGGGGATACCCTAACCCTGTT
65 ACTCCAAC-CCGGTTTTATTTTTAAAATACCAATTTT-CACAATCGGGGATACCCTAACCCCGTT
** * * *
51526 ATTTTTGAGAAGATACTCCAACCCTGGTTTTATTTTCAAAACACTAATTTTTCACAATCGGGGAT
128 ATTTTTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAATTTTTCACAATTGGGGAT
** *
51591 ACTTTAACCCTGTTATTTTCGAGAGGATACTCTAACCCGGTC
193 ACTCCAACCCTATTATTTTCGAGAGGATACTCTAACCCGGTC
* * *
51633 TTATTTCTAAAACACCAATTTTTCACAATTGGGGATACTCCAACCTTGTTGTTTTCAAA-GGATA
1 TTATTTCTAAAACACCAATTTTTCACAATTGGGGATACTCCAACCTCGTTATTTCCAAAGGGATA
** * *
51697 CT-C--CCCTATTTTATTTTTAAAATATCAATTTTTCACAATCGGGGATA-CTTCAACCCCGTTA
66 CTCCAACCCGGTTTTATTTTTAAAATACCAA-TTTTCACAATCGGGGATACCCT-AACCCCGTTA
* * * * * * *
51758 TTTCTGAGGGGAGACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTCCACCATTGGGGATA
129 TTTTTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAATTTTTCACAATTGGGGATA
51823 CTCCAA
194 CTCCAA
51829 TCCCGTTATT
Statistics
Matches: 371, Mismatches: 54, Indels: 20
0.83 0.12 0.04
Matches are distributed among these distances:
230 2 0.01
231 97 0.26
232 5 0.01
234 1 0.00
235 7 0.02
236 66 0.18
237 191 0.51
238 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (234 bp):
TTATTTCTAAAACACCAATTTTTCACAATTGGGGATACTCCAACCTCGTTATTTCCAAAGGGATA
CTCCAACCCGGTTTTATTTTTAAAATACCAATTTTCACAATCGGGGATACCCTAACCCCGTTATT
TTTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAATTTTTCACAATTGGGGATACT
CCAACCCTATTATTTTCGAGAGGATACTCTAACCCGGTC
Found at i:51874 original size:79 final size:78
Alignment explanation
Indices: 51129--51876 Score: 715
Period size: 79 Copynumber: 9.6 Consensus size: 78
51119 CATTCATGTT
* * **
51129 TTATTTCTAAGGGGATACTTCAACCCCAATTTTA-TTCCTAAAACACCAATTTTTCACAATCGGG
1 TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACCAATTTTTCACAATCGGG
*
51193 GATACTCTAACCTCG
65 GATACTCCAACC-CG
* * ** * *
51208 TTATTTCTAAGGGGATACTCCAACCCTGGTTTTATTTTTAAAATACCAAATTTTCACAATCGGGG
1 TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
*
51273 GTACTCCAACCCCG
66 ATACTCCAA-CCCG
** * *
51287 TTATTT-TCGAGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTTCACAATTGGG
1 TTATTTCT-GAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGG
**
51351 GATACTCCAACCTTA
65 GATACTCCAACC-CG
* * * * *
51366 TTATTTTTGAGGGGATACTCTAACCTCGGTTTTATTTTCAAAACACCAATTTTTCACAATTGGGG
1 TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
51431 ATACTCCAACCCCG
66 ATACTCCAA-CCCG
** * * * *
51445 TTATTTCCAAAGGGATACTCCAACTCCGGTTTTATTTCCACAACACCAATTTTCCACAATCGGGG
1 TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
51510 ATAC-CCTAACCCTG
66 ATACTCC-AACCC-G
* ** * * *
51524 TTATTTTTGAGAAGATACTCCAACCCTGGTTTTATTTTCAAAACACTAATTTTTCACAATCGGGG
1 TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
**
51589 ATACTTTAACCCTG
66 ATACTCCAACCC-G
* * * * *
51603 TTATTT-TCGAGAGGATACTCTAA-CCCGGTCTTATTTCTAAAACACCAATTTTTCACAATTGGG
1 TTATTTCT-GAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGG
*
51666 GATACTCCAACCTTG
65 GATACTCCAACC-CG
* * ** ** ** * *
51681 TTGTTT-TCAAAGGATACT----CCCCTATTTTATTTTTAAAATATCAATTTTTCACAATCGGGG
1 TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
*
51741 ATACTTCAACCCCG
66 ATACTCCAA-CCCG
* * * * * * * *
51755 TTATTTCTGAGGGGAGACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTCCACCATTGGGG
1 TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
51820 ATACTCCAATCCCG
66 ATACTCCAA-CCCG
* * * *
51834 TTATTTCTGAGGGGGTACTCCGACCCCGTTTTTATCTCCAAAA
1 TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAA
51877 TATTAAATTT
Statistics
Matches: 554, Mismatches: 97, Indels: 36
0.81 0.14 0.05
Matches are distributed among these distances:
74 48 0.09
75 10 0.02
77 9 0.02
78 60 0.11
79 420 0.76
80 7 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (78 bp):
TTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCACAATCGGGG
ATACTCCAACCCG
Found at i:57686 original size:78 final size:78
Alignment explanation
Indices: 57568--57773 Score: 216
Period size: 78 Copynumber: 2.6 Consensus size: 78
57558 GAGATAATAA
* * * * * * * * *
57568 CGGGGTTGGAGTGTTCCCTTGAAAATAACGAGGCTCGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-A
*
57633 -TTAGAAAAAAAAT
65 TTTAGAAAAAAAAC
* *
57646 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-
* * * *
57711 TTTGGGAATAAAGC
65 TTTAGAAAAAAAAC
* * *
57725 CGGGGTTGGAGTATCCTCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
57774 GAAATAACGA
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
77 1 0.01
78 52 0.50
79 52 0.50
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTAGAAAAAAAAC
Found at i:57765 original size:28 final size:28
Alignment explanation
Indices: 57725--57798 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
57715 GGAATAAAGC
*
57725 CGGGGTTGGAGTATCCTCTCG-GAAGTAA
1 CGGGGTTGGAGTATCCTC-CGAGAAATAA
57753 CGGGGTTGGAGTATCC-CCGATGAAATAA
1 CGGGGTTGGAGTATCCTCCGA-GAAATAA
*
57781 CGAGGTTGGAGTATCCTC
1 CGGGGTTGGAGTATCCTC
57799 GATTGTGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
26 2 0.05
27 1 0.02
28 37 0.90
29 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCTCCGAGAAATAA
Found at i:57854 original size:52 final size:52
Alignment explanation
Indices: 57785--58121 Score: 221
Period size: 52 Copynumber: 6.4 Consensus size: 52
57775 AAATAACGAG
* *
57785 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
** * * * *
57837 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGG-
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTAGTTTTGGAAATAAAATC-GGA
* * * * *
57889 GTTGGAGTATCCCCGATTGTGGAAAAATTAGT-GTTTTAGCAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTAGTTTTGGAAATAAAATCGGA
** * * * *
57941 GTTGGAGTATCCCC---TCAGAAATAACGGGGTTGG-AGTATCCCT-GATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGTAGT-T--TTGGA-AATAAAATCGGA
*
57996 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTATTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGTA-GTTTTGGAAATAAAATCGGA
* * * *
58050 GTTAGAGTATCCCCGATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTAGTTTTGGAAATAAAATCGGA
*
58101 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
58122 GAGAATGGAG
Statistics
Matches: 221, Mismatches: 37, Indels: 54
0.71 0.12 0.17
Matches are distributed among these distances:
48 4 0.02
49 3 0.01
51 37 0.17
52 88 0.40
53 27 0.12
54 29 0.13
55 20 0.09
56 3 0.01
57 3 0.01
58 6 0.03
59 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
Found at i:57933 original size:104 final size:101
Alignment explanation
Indices: 57779--58121 Score: 307
Period size: 104 Copynumber: 3.3 Consensus size: 101
57769 CCGATGAAAT
*
57779 AACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAG
1 AACG-GGTTGGAGTATCCCCGATTGTGAAAAATTGGT-TTTTTGGAAATAAAATCGGAGTTGGAG
*
57844 TATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAA
64 TATCCCCGATTAAAGGAAAATTGGAGTTTTGAAAATAA
* * * * * *
57882 AACCAGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTGGA
1 AA-C-GGGTTGGAGTATCCCCGATTGT-GAAAAATTGGTTTTTTGGAAATAAAATCGGAGTTGGA
* * ** * ** *
57947 GTATCCCCTCAGAAATAACGG--GGTTGGAGTATCCCTGATGAT-T
63 GTAT-CCC-C-G-ATTAAAGGAAAATTGGAGT-T--TTGAAAATAA
*
57990 AACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAG
1 AAC-GGGTTGGAGTATCCCCGATTGTGAA-AAATTGG--TTTTTTGGAAATAAAATCGGAGTTGG
* * *
58055 AGTATCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAA
62 AGTATCCCCGATTAAAGGAAAATTGGAGTTTTGAAAATAA
*
58094 AATCGGAGTTGGAATATCCCCGATTGTG
1 AA-CGG-GTTGGAGTATCCCCGATTGTG
58122 GAGAATGGAG
Statistics
Matches: 186, Mismatches: 36, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
103 7 0.04
104 51 0.27
105 39 0.21
106 16 0.09
107 32 0.17
108 11 0.06
109 30 0.16
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (101 bp):
AACGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTTTTTTGGAAATAAAATCGGAGTTGGAGTA
TCCCCGATTAAAGGAAAATTGGAGTTTTGAAAATAA
Found at i:57968 original size:212 final size:211
Alignment explanation
Indices: 57676--58123 Score: 641
Period size: 212 Copynumber: 2.1 Consensus size: 211
57666 GAAAATAACG
* * * * * *
57676 GGGTTGGAGTATCCCCAATTAT-GAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGTATC
* * * *
57740 CTCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGT
66 CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGATTGT
* *
57805 GAA-AAATTGGTA-TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGG
130 GAAGAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAA-GAAAATTAG
57868 CGTTTTGAAAATAAAACC
194 CGTTTTGAAAATAAAACC
* * *
57886 AGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTGGAGTAT
1 -GGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGTAT
* * *
57951 CCCCTCAGAAATAACGGGGTTGGAGTATCCCTGATGATTAACGGGGTTGGAGTATCCCCGATTGT
65 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTGT
* *
58016 GAAGAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATAGAAAATTAGT
130 GAAGAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGAAAATTAGC
*
58081 GTTTTGAAAATAAAATC
195 GTTTTGAAAATAAAACC
*
58098 GGAGTTGGAATATCCCCGATTGTGGA
1 GG-GTTGGAGTATCCCCGATTGTGGA
58124 GAATGGAGAA
Statistics
Matches: 211, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
211 51 0.24
212 121 0.57
213 39 0.18
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (211 bp):
GGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGTATC
CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTGTG
AAGAAATTGGTATTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGAAAATTAGCG
TTTTGAAAATAAAACC
Found at i:57972 original size:28 final size:28
Alignment explanation
Indices: 57937--58009 Score: 105
Period size: 27 Copynumber: 2.6 Consensus size: 28
57927 GCAATAAAAC
57937 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCCTCATG-AATAA
* *
57965 CGGGGTTGGAGTAT-CCCTGATGATTAA
1 CGGGGTTGGAGTATCCCCTCATGAATAA
57992 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
58010 GATTGTGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 23 0.56
28 18 0.44
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCATGAATAA
Found at i:58014 original size:107 final size:105
Alignment explanation
Indices: 57671--58063 Score: 339
Period size: 107 Copynumber: 3.7 Consensus size: 105
57661 CCCTCGAAAA
* * * * * * *
57671 TAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAG
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTGGAAATAAAACCGGGGTTGGAG
* * * *
57736 TATCCTCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAA
66 TATCCCCTC-GAAATAACGGGGTTGGAGTATCCCTGATG-AT
* * * * *
57778 TAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTA-TTTTGGAAATAAAACCGGGGTTGGA
* * ** * * **
57843 GTAT-CCC-CG-ATTAAAGGAAAATTGGCGT-T--TTGAAAAT
65 GTATCCCCTCGAAATAACGG--GGTTGGAGTATCCCTGATGAT
* * * * *
57880 AAAACCAGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTG
1 -TAA-CGGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTATTTTGGAAATAAAACCGGGGTTG
57945 GAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCTGATGAT
63 GAGTATCCCCTC-GAAATAACGGGGTTGGAGTATCCCTGATGAT
* * * *
57989 TAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTATTTTTTGGAAATAAAATCGGAGTTA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAA-AAATTAGTA--TTTTGGAAATAAAACCGGGGTTG
58054 GAGTATCCCC
63 GAGTATCCCC
58064 GATTATAGAA
Statistics
Matches: 220, Mismatches: 50, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 52 0.24
105 15 0.07
106 17 0.08
107 65 0.30
108 33 0.15
109 33 0.15
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (105 bp):
TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTGGAAATAAAACCGGGGTTGGAG
TATCCCCTCGAAATAACGGGGTTGGAGTATCCCTGATGAT
Found at i:60491 original size:20 final size:20
Alignment explanation
Indices: 60464--60518 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
60454 TAAAATTTCC
*
60464 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
60484 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
60504 AAATGTATCGATACA
1 AAATGTATCGATACA
60519 TATCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:60562 original size:19 final size:19
Alignment explanation
Indices: 60538--60590 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
60528 CAGTAGCTAA
*
60538 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
60557 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
60576 TTATGTATCGATACA
1 TTATGTATCGATACA
60591 GAAAAATTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:61311 original size:55 final size:55
Alignment explanation
Indices: 61227--62123 Score: 1391
Period size: 55 Copynumber: 16.3 Consensus size: 55
61217 ATAAAGTGTA
* * * * * *
61227 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTAGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
61282 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
61337 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
61392 TCCTGCTCTTTGGGGAGT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
61447 TCCTGCTCTTTGAGGACTGG-AAATGCCACCAACTTGGGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
61501 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
61556 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGACTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
61611 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
61666 TCCTTCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
61721 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
61776 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTTTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
61831 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
61886 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
61941 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
61996 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAAGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
62051 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
62106 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
62124 AAAAAGCGGA
Statistics
Matches: 790, Mismatches: 41, Indels: 22
0.93 0.05 0.03
Matches are distributed among these distances:
54 60 0.08
55 723 0.92
56 7 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:61446 original size:29 final size:28
Alignment explanation
Indices: 61301--61446 Score: 79
Period size: 28 Copynumber: 5.2 Consensus size: 28
61291 TTGAGGACTG
61301 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
61329 AAGAGGTGTCCTGC-TCTT-TGAGGACTGG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
*
61357 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * ** *
61384 GAAAGGTGTCCTGC-TCTT-TG-GGGAGTG
1 -AAAGGTG-CCACCAACTTGTGTGGGCTTT
61411 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
61439 AAGAGGTG
1 AA-AGGTG
61447 TCCTGCTCTT
Statistics
Matches: 79, Mismatches: 28, Indels: 21
0.62 0.22 0.16
Matches are distributed among these distances:
25 6 0.08
26 15 0.19
27 13 0.16
28 21 0.27
29 18 0.23
30 6 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.28
Consensus pattern (28 bp):
AAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:61906 original size:26 final size:26
Alignment explanation
Indices: 61877--62021 Score: 69
Period size: 26 Copynumber: 5.3 Consensus size: 26
61867 GTGTGGGCTT
61877 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** ** * * *
61903 TGAAAAATG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
*
61930 TTTGAGAGGTGTCCTGCTCTTTGAGGAC
1 --TGAAAGGTGTCCTGCTCTTTGAGGAC
** ** * * *
61958 TGAAAAATG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
61985 TTTGAAAGGTGTCCTGCTCTTTGAGGAC
1 -T-GAAAGGTGTCCTGCTCTTTGAGGAC
62013 TGAAAGGTG
1 TGAAAGGTG
62022 CCACCAACTT
Statistics
Matches: 79, Mismatches: 30, Indels: 20
0.61 0.23 0.16
Matches are distributed among these distances:
25 6 0.08
26 27 0.34
27 11 0.14
28 11 0.14
29 18 0.23
30 6 0.08
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:62105 original size:29 final size:29
Alignment explanation
Indices: 62017--62105 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
62007 GAGGACTGAA
62017 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
* ** * *
62046 AAGTGTCCTGC-TCTT-TG-GGGAC-TGAA-
1 AGGTG-CCACCAACTTGTGTGGG-CTTTAAG
62072 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
62101 AGGTG
1 AGGTG
62106 TCCTGCTCTT
Statistics
Matches: 43, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
25 3 0.07
26 7 0.16
27 9 0.21
28 9 0.21
29 12 0.28
30 3 0.07
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (29 bp):
AGGTGCCACCAACTTGTGTGGGCTTTAAG
Found at i:63131 original size:13 final size:12
Alignment explanation
Indices: 63117--63166 Score: 66
Period size: 13 Copynumber: 4.1 Consensus size: 12
63107 TTTTTCTTTG
63117 TTTTGTTTTTTT
1 TTTTGTTTTTTT
63129 GTTTTGTTTTTTT
1 -TTTTGTTTTTTT
*
63142 TTCT-TTTTTTT
1 TTTTGTTTTTTT
63153 TTTTGCTTTTTTT
1 TTTTG-TTTTTTT
63166 T
1 T
63167 AAAGAGAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 10 0.30
12 3 0.09
13 20 0.61
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (12 bp):
TTTTGTTTTTTT
Found at i:63143 original size:23 final size:23
Alignment explanation
Indices: 63092--63166 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
63082 AAGCAGGTTC
* * *
63092 TTTTTCTTTTCTCTCTTTTTCTTT
1 TTTTTCTTTT-TTTGTTTTGCTTT
* * *
63116 GTTTTGTTTTTTTGTTTTGTTTT
1 TTTTTCTTTTTTTGTTTTGCTTT
*
63139 TTTTTCTTTTTTTTTTTTGCTTT
1 TTTTTCTTTTTTTGTTTTGCTTT
63162 TTTTT
1 TTTTT
63167 AAAGAGAAGG
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 33 0.80
24 8 0.20
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (23 bp):
TTTTTCTTTTTTTGTTTTGCTTT
Found at i:68853 original size:17 final size:17
Alignment explanation
Indices: 68831--68864 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
68821 ACATCGGTTC
*
68831 TTGACTGTGGCTTCCTT
1 TTGACTGTGCCTTCCTT
*
68848 TTGACTTTGCCTTCCTT
1 TTGACTGTGCCTTCCTT
68865 CTTACCTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.26, G:0.18, T:0.50
Consensus pattern (17 bp):
TTGACTGTGCCTTCCTT
Found at i:75571 original size:78 final size:78
Alignment explanation
Indices: 75448--75649 Score: 208
Period size: 78 Copynumber: 2.6 Consensus size: 78
75438 GAGATAATAA
* * * * * * * ** * *
75448 CGGGGTTGGAGTGTTCCCTTGAAAATAACGAGGCTCGAGTTTCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-A
*
75513 -TTAGAAAAAAAAT
65 TTTAGAAAAAAAAC
*
75526 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-
* * * *
75591 TTTGGGAATAAAGC
65 TTTAGAAAAAAAAC
* *
75605 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCC
75650 TGATGAAATA
Statistics
Matches: 102, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
77 1 0.01
78 51 0.50
79 50 0.49
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
TTAGAAAAAAAAC
Found at i:75645 original size:28 final size:28
Alignment explanation
Indices: 75605--75676 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
75595 GGAATAAAGC
*
75605 CGGGGTTGGAGTATCCCCTCG-GAAGTAA
1 CGGGGTTGGAGTATCCCCT-GAGAAATAA
75633 CGGGGTTGGAGTAT-CCCTGATGAAATAA
1 CGGGGTTGGAGTATCCCCTGA-GAAATAA
*
75661 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
75677 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 1 0.03
27 4 0.10
28 33 0.85
29 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTGAGAAATAA
Found at i:75668 original size:107 final size:108
Alignment explanation
Indices: 75526--75730 Score: 254
Period size: 107 Copynumber: 1.9 Consensus size: 108
75516 GAAAAAAAAT
* *
75526 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-
1 CGGGATTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
* * *
75590 TTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAA
66 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAGTAA
* * * * ***
75633 CGGGGTTGGAGTAT-CCCT-GATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGT
1 CGGGATTGGAGTATCCCCTCGA--AAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAAT
*
75696 ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
64 ATTTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
75731 GATTAAAGGA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
105 2 0.02
106 4 0.05
107 47 0.57
108 29 0.35
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (108 bp):
CGGGATTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAGTAA
Found at i:75734 original size:52 final size:51
Alignment explanation
Indices: 75665--76001 Score: 220
Period size: 52 Copynumber: 6.4 Consensus size: 51
75655 AAATAACGAG
* *
75665 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTTGGAAATAAAATCGGA
** * * * *
75717 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGG-
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGGAAATAAAATC-GGA
* * * * *
75769 GTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAATCGGG
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGGAAATAAAATCGGA
** * *** * * *
75821 GTTGGAGTATCCCC---TCAGAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGTGT-T-TTGGA-AATAAAATCGGA
*
75876 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGTG--TTTTGGAAATAAAATCGGA
* * * *
75930 GTTAGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTGGAAATAAAATCGGA
*
75981 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
76002 GAGAATTGAG
Statistics
Matches: 215, Mismatches: 47, Indels: 46
0.70 0.15 0.15
Matches are distributed among these distances:
48 4 0.02
49 3 0.01
51 36 0.17
52 84 0.39
53 29 0.13
54 27 0.13
55 20 0.09
56 3 0.01
57 2 0.01
58 6 0.03
59 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:75849 original size:212 final size:212
Alignment explanation
Indices: 75605--76003 Score: 615
Period size: 212 Copynumber: 1.9 Consensus size: 212
75595 GGAATAAAGC
* * *
75605 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCTGATGAAATAACGAGGTTGG
1 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGG
* * *
75670 AGTATCCTCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGA
65 AGTATCCCCGATTGTGAAGAAATTGGTGATTTTTGGAAATAAAATCAGAGTTAGAGTATCCCCGA
* *
75733 TTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGG-GTTAGAGTATCCCCGATTGTGGAAAAAT
130 TTAAA-GAAAATTAGCGTTTTGAAAATAAAACC-GGAGTTAGAATATCCCCGATTGTGGAAAAAT
75797 TAGTGTTTTAGCAATAAAAT
193 TAGTGTTTTAGCAATAAAAT
* *
75817 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGA
1 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGA
*
75882 GTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCAGAGTTAGAGTATCCCCGAT
66 GTATCCCCGATTGTGAAGAAATTGGTGATTTTTGGAAATAAAATCAGAGTTAGAGTATCCCCGAT
* * * *
75947 TATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
131 TAAAGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTAGAATATCCCCGATTGTGGA
76004 GAATTGAGAA
Statistics
Matches: 169, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 31 0.18
212 100 0.59
213 38 0.22
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (212 bp):
CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGA
GTATCCCCGATTGTGAAGAAATTGGTGATTTTTGGAAATAAAATCAGAGTTAGAGTATCCCCGAT
TAAAGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTAGAATATCCCCGATTGTGGAAAAATTAG
TGTTTTAGCAATAAAAT
Found at i:75880 original size:27 final size:28
Alignment explanation
Indices: 75817--75892 Score: 111
Period size: 27 Copynumber: 2.8 Consensus size: 28
75807 GCAATAAAAT
*
75817 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
75845 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
75872 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
75893 TGTGAAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 26 0.58
28 19 0.42
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:75904 original size:107 final size:105
Alignment explanation
Indices: 75551--75943 Score: 330
Period size: 107 Copynumber: 3.7 Consensus size: 105
75541 CCCTCGAAAA
* * * * * * * **
75551 TAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAG
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGGGTTGGAG
* *
75616 TATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCTGATGAAA
66 TATCCCCTC-GAAATAACGGGGTTGGAGTATCCCTGATG-AT
* * * * *
75658 TAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGT-GTTTTGGAAATAAAATCGGGGTTGGA
* * ** * * **
75723 GTAT-CCC-CG-ATTAAAGGAAAATTGGCGT-T--TTGAAAAT
65 GTATCCCCTCGAAATAACGG--GGTTGGAGTATCCCTGATGAT
* * * * *
75760 AAAACCAGGGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAATCGGGGTTG
1 -TAA-CGGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTGTTTTGGAAATAAAATCGGGGTTG
*
75825 GAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAT
63 GAGTATCCCCTC-GAAATAACGGGGTTGGAGTATCCCTGATGAT
* * * *
75869 TAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCAGAGTTA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAA-AAATTAGTG--TTTTGGAAATAAAATCGGGGTTG
75934 GAGTATCCCC
63 GAGTATCCCC
75944 GATTATAGAA
Statistics
Matches: 220, Mismatches: 50, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
102 1 0.00
103 5 0.02
104 52 0.24
105 15 0.07
106 17 0.08
107 65 0.30
108 33 0.15
109 32 0.15
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (105 bp):
TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGGGTTGGAG
TATCCCCTCGAAATAACGGGGTTGGAGTATCCCTGATGAT
Found at i:75976 original size:51 final size:53
Alignment explanation
Indices: 75880--75998 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 53
75870 AACGGGGTTG
* * *
75880 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCAGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCAGAGTTA
* *
75934 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCAGAGTTA
*
75985 GAATATCCCCGATT
1 GAGTATCCCCGATT
75999 GTGGAGAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 33 0.57
52 2 0.03
53 8 0.14
54 15 0.26
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCAGAGTTA
Found at i:78389 original size:20 final size:20
Alignment explanation
Indices: 78344--78398 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
78334 TAAAATTTCC
*
78344 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
78364 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
*
78384 AAATGTATCAATACA
1 AAATGTATCGATACA
78399 TTTTCTTGGC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:78442 original size:19 final size:19
Alignment explanation
Indices: 78418--78472 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
78408 CAGTAGCTAA
*
78418 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
78437 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
78456 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
78473 TTGTTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:78532 original size:21 final size:21
Alignment explanation
Indices: 78508--78580 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
78498 GTTGTGACCC
* *
78508 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
78529 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
78550 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
78571 TGTATCGATA
1 TGTATCGATA
78581 TATTTGGATA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
20 3 0.06
21 44 0.94
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:79345 original size:55 final size:55
Alignment explanation
Indices: 79285--79993 Score: 1171
Period size: 55 Copynumber: 12.9 Consensus size: 55
79275 GAGTAAAACG
* * *
79285 TGCCACCAACTCGTGTAGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-A
79340 TGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGGAAAA
*
79395 TGCCACCAACTT-TGGTGGGCTTTGAAAGGTGTCTTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGT-GTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
*
79450 TGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
79505 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
*
79560 TGCCACCAACTTGTGTGGGTTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
*
79615 TGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
*
79670 TGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
79725 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
* *
79780 TGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTACTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
*
79835 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-A
*
79890 TGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACT-GAAAGA
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGGAAA-A
* * *
79945 TGCCACTAACTTATGTGGGCTTT-AAGAGGTGTCTTGCTCTTTGAGGACT
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT
79994 AAAAAGCAGA
Statistics
Matches: 625, Mismatches: 22, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
54 9 0.01
55 609 0.97
56 7 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (55 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
Found at i:79558 original size:27 final size:27
Alignment explanation
Indices: 79476--79558 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
79466 GGGCTTTGAG
79476 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
79503 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
79531 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
79558 A
1 A
79559 ATGCCACCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:79778 original size:27 final size:27
Alignment explanation
Indices: 79696--79778 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
79686 GGGCTTTGAG
79696 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
79723 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
79751 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
79778 A
1 A
79779 ATGCCACCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:92634 original size:78 final size:78
Alignment explanation
Indices: 92521--92717 Score: 189
Period size: 79 Copynumber: 2.5 Consensus size: 78
92511 AATAACGGGG
* * * * * * *** * *
92521 TTGGAGTGTTCCCTTGAAAATAACGAGGCTCGAGTATCCCTGGTTGTGAGAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAG
*
92585 AAAAAAAATCGAGA
65 AAAAAAAACCGAGA
*
92599 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TTTAG
* * * * *
92664 GAATAAAGCCGGGG
65 AAAAAAAACCGAGA
* *
92678 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCC
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCC
92718 GATGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
77 1 0.01
78 47 0.48
79 49 0.51
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.25
Consensus pattern (78 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
AAAAAAACCGAGA
Found at i:92713 original size:28 final size:27
Alignment explanation
Indices: 92673--92748 Score: 91
Period size: 27 Copynumber: 2.7 Consensus size: 27
92663 GGAATAAAGC
* *
92673 CGGGGTTGGAGTATCCC-CTCGGAAGTAA
1 CGGGGTTGGAGTATCCCGAT--GAAATAA
92701 CGGGGTTGGAGTATCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCGATGAAATAA
*
92728 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCC-CGAT
92749 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 21 0.49
28 21 0.49
29 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCGATGAAATAA
Found at i:92788 original size:107 final size:107
Alignment explanation
Indices: 92599--93010 Score: 328
Period size: 107 Copynumber: 3.9 Consensus size: 107
92589 AAAATCGAGA
* * * * * * *
92599 TTGGAGTATCCC-CTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TTTT
1 TTGGAGTATCCCGAT-G-AAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTT
* ** * *
92662 GGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGG
64 GGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAACGGGG
* *
92706 TTGGAGTATCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGG
1 TTGGAGTATCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGG
* * **
92771 AAATAAAATCGGAGTTGGAGTAT-CCC-C-G-ATTAAAGGAAAA
66 AAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAACGG--GG
* * ** * *
92811 TTAGCGT-T-TTGA--AAATAAAACCAGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGT-GTT
1 TTGGAGTATCCCGATGAAAT--AACGA-GGTTGGAGTATCCCCGATTGT-GAAAAATTAGTATTT
* * * *
92871 TTAGCAATAAAA-CCGAGGTTGGAGTATCCCCTCGAAAATAACGGGG
62 TTGGAAATAAAATCGGA-GTTGGAGTATCCCCTCGGAAATAACGGGG
* * * *
92917 TTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTT
1 TTGGAGTAT-CCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAA-AAATTAGT-ATTTT
*
92981 TGGAAATAAAATCGGAGTTAGAGTATCCCC
63 TGGAAATAAAATCGGAGTTGGAGTATCCCC
93011 GATTATAGAA
Statistics
Matches: 237, Mismatches: 46, Indels: 42
0.73 0.14 0.13
Matches are distributed among these distances:
101 4 0.02
103 15 0.06
104 44 0.19
105 19 0.08
106 46 0.19
107 67 0.28
108 10 0.04
109 27 0.11
110 5 0.02
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (107 bp):
TTGGAGTATCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTGG
AAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAACGGGG
Found at i:92801 original size:52 final size:51
Alignment explanation
Indices: 92732--93068 Score: 208
Period size: 52 Copynumber: 6.4 Consensus size: 51
92722 AAATAACGAG
* * *
92732 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGT-GTTTTGGAAATAAAATCGGA
** * * * *
92784 GTTGGAGTATCCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCAGG-
1 GTTGGAGTATCCCCGATT-GTGAAAAATTAGTGTTTTGGAAATAAAATC-GGA
* * *
92836 GTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAA-CCGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTAGTGTTTTGGAAATAAAATCGGA
* * ** * *
92887 GGTTGGAGTATCCCC---T-CG-AAAATAACG-GGGTTGGAGTATCCCCGATGATTAA-CGGG
1 -GTTGGAGTATCCCCGATTGTGAAAAATTA-GTGTTTTGGA--A------AT-A-AAATCGGA
*
92943 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTAGTG--TTTTGGAAATAAAATCGGA
* * *
92997 GTTAGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTAGTGTTTTGGAAATAAAATCGGA
* *
93048 GTTGGAATATCCCTGATTGTG
1 GTTGGAGTATCCCCGATTGTG
93069 GAGAATTGAG
Statistics
Matches: 216, Mismatches: 41, Indels: 56
0.69 0.13 0.18
Matches are distributed among these distances:
46 10 0.05
47 2 0.01
48 1 0.00
49 1 0.00
50 1 0.00
51 35 0.16
52 84 0.39
53 21 0.10
54 25 0.12
55 17 0.08
56 4 0.02
58 1 0.00
59 1 0.00
60 2 0.01
61 6 0.03
63 5 0.02
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGA
Found at i:92880 original size:104 final size:101
Alignment explanation
Indices: 92726--93068 Score: 282
Period size: 104 Copynumber: 3.3 Consensus size: 101
92716 CCGATGAAAT
* *
92726 AACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAG
1 AACG-GGTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTTGGAAATAAAATCGGAGTTGGAG
*
92791 TATCCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAA
64 TATCCCCGATTAAAGGAAAATTAGAGTTTTGAAAATAA
* * * *
92829 AACCAGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAA-CCGAGGTTGG
1 AA-C-GGGTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGGAAATAAAATCGGA-GTTGG
* * ** * ** ** *
92893 AGTATCCCCTCGAAAATAACGG--GGTTGGAGTATCCCCGATGAT-T
62 AGTAT-CCC-CG--ATTAAAGGAAAATTAGAGT-T--TTGAAAATAA
*
92937 AACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAG
1 AAC-GGGTTGGAGTATCCCCGATTGTGAA-AAATTGGTG--TTTTGGAAATAAAATCGGAGTTGG
* *
93002 AGTATCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAA
62 AGTATCCCCGATTAAAGGAAAATTAGAGTTTTGAAAATAA
* *
93041 AATCGGAGTTGGAATATCCCTGATTGTG
1 AA-CGG-GTTGGAGTATCCCCGATTGTG
93069 GAGAATTGAG
Statistics
Matches: 183, Mismatches: 37, Indels: 38
0.71 0.14 0.15
Matches are distributed among these distances:
103 9 0.05
104 48 0.26
105 38 0.21
106 15 0.08
107 34 0.19
108 11 0.06
109 25 0.14
110 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (101 bp):
AACGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTA
TCCCCGATTAAAGGAAAATTAGAGTTTTGAAAATAA
Found at i:92915 original size:211 final size:211
Alignment explanation
Indices: 92624--93070 Score: 632
Period size: 211 Copynumber: 2.1 Consensus size: 211
92614 GAAAATAACG
* * * * * * *
92624 GGGTTGGAGTATCCCCAATTAT-GAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGAGGTTGGAGTATC
* * *
92688 CCCTCGGAAGTAACGGGGTTGGAGTAT-CCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGT
66 CCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGATTGT
*
92752 GAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTAG
130 GAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAA-GAAAATTAG
92815 CGTTTTGAAAATAAAACC
194 CGTTTTGAAAATAAAACC
* * *
92833 AGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGAGGTTGGAGTAT
1 -GGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGAGGTTGGAGTAT
* *
92898 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGT
65 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTGT
* * *
92963 GAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATAGAAAATTAGT
130 GAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGAAAATTAGC
*
93028 GTTTTGAAAATAAAATC
195 GTTTTGAAAATAAAACC
* *
93045 GGAGTTGGAATATCCCTGATTGTGGA
1 GG-GTTGGAGTATCCCCGATTGTGGA
93071 GAATTGAGAA
Statistics
Matches: 210, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
210 20 0.10
211 90 0.43
212 61 0.29
213 39 0.19
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (211 bp):
GGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCGAGGTTGGAGTATC
CCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTGTG
AAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGAAAATTAGCG
TTTTGAAAATAAAACC
Found at i:92947 original size:27 final size:27
Alignment explanation
Indices: 92887--92959 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
92877 ATAAAACCGA
92887 GGTTGGAGTATCCCCTCGA-AAATAACGG
1 GGTTGGAGTAT-CCC-CGATAAATAACGG
* *
92915 GGTTGGAGTATCCCCGATGATTAACGG
1 GGTTGGAGTATCCCCGATAAATAACGG
92942 GGTTGGAGTATCCCCGAT
1 GGTTGGAGTATCCCCGAT
92960 TGTGAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
26 3 0.07
27 28 0.67
28 11 0.26
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (27 bp):
GGTTGGAGTATCCCCGATAAATAACGG
Found at i:93043 original size:51 final size:53
Alignment explanation
Indices: 92947--93065 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 53
92937 AACGGGGTTG
* * *
92947 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
93001 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
* *
93052 GAATATCCCTGATT
1 GAGTATCCCCGATT
93066 GTGGAGAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 33 0.57
52 2 0.03
53 8 0.14
54 15 0.26
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:95387 original size:13 final size:13
Alignment explanation
Indices: 95369--95394 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95359 ACAAAGATCC
95369 ATGTATCGATACA
1 ATGTATCGATACA
95382 ATGTATCGATACA
1 ATGTATCGATACA
95395 CAGAAAAATG
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:95390 original size:33 final size:33
Alignment explanation
Indices: 95348--95414 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
95338 AAAATTTCTA
***
95348 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
95381 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
95414 A
1 A
95415 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:95458 original size:19 final size:18
Alignment explanation
Indices: 95434--95501 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
95424 CAGTAGCTAA
95434 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
95453 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
95468 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
95485 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
95502 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:95474 original size:13 final size:13
Alignment explanation
Indices: 95456--95480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95446 ACAATACTTA
95456 TGTATCGATACAT
1 TGTATCGATACAT
95469 TGTATCGATACA
1 TGTATCGATACA
95481 AAACTTATGT
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:95478 original size:32 final size:32
Alignment explanation
Indices: 95437--95499 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
95427 TAGCTAATTA
*
95437 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
95469 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
95500 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:95580 original size:21 final size:21
Alignment explanation
Indices: 95556--95609 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
95546 ACATTTGTAG
*
95556 AATGTATTGATACATTCCACA
1 AATGTATCGATACATTCCACA
* *
95577 AATGTATCGATCCATTCTACA
1 AATGTATCGATACATTCCACA
*
95598 AAAGTATCGATA
1 AATGTATCGATA
95610 TATTTGGATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (21 bp):
AATGTATCGATACATTCCACA
Found at i:100379 original size:79 final size:79
Alignment explanation
Indices: 100243--100396 Score: 254
Period size: 79 Copynumber: 1.9 Consensus size: 79
100233 TTTTCATCTC
* * * *
100243 GGGGCTACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGGGATACTCCAAC
100308 CCTGTTATTTTCGA
66 CCTGTTATTTTCGA
* *
100322 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGGGATACTCTAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGGGATACTCCAAC
100387 CCTGTTATTT
66 CCTGTTATTT
100397 CATCGGAGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGGGATACTCCAAC
CCTGTTATTTTCGA
Found at i:100408 original size:79 final size:78
Alignment explanation
Indices: 100248--100417 Score: 243
Period size: 79 Copynumber: 2.2 Consensus size: 78
100238 ATCTCGGGGC
* * *
100248 TACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCTGT
1 TACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGGGATACTCCAACCCTGT
*
100313 TATTTTCGAGGGGA
66 TATTTTC-AGGAGA
* *
100327 TACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGGGATACTCTAACCCTGT
1 TACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGGGATACTCCAACCCTGT
100392 TA-TTTCATCGGAGA
66 TATTTTCA--GGAGA
*
100406 TACTCAAACCCC
1 TACTCCAACCCC
100418 ATTATTTCTA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
77 1 0.01
78 4 0.05
79 76 0.94
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.33
Consensus pattern (78 bp):
TACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCAGGGATACTCCAACCCTGT
TATTTTCAGGAGA
Found at i:100628 original size:79 final size:78
Alignment explanation
Indices: 100398--100650 Score: 308
Period size: 79 Copynumber: 3.2 Consensus size: 78
100388 CTGTTATTTC
* * * * * *
100398 ATCGGAGATACTCAAACCCCATTATTTCTAAAAGGATACTCCAACCTCGGCTTTATTCCTAAAAT
1 ATCGGAGATACTCCAACCCCGTTATTT-TCAAAGGATACTCCAACCCCGGCTTTATTTCTAAAAC
* *
100463 ATTGATTTCTCACA
65 ATCGATTTTTCACA
* * * * * *
100477 ATTGGGGATATTCCAACCCCGTTATTTTCACAGGATACTCCAACCCCGGCCTTATTTCTAAAGCA
1 ATCGGAGATACTCCAACCCCGTTATTTTCAAAGGATACTCCAACCCCGGCTTTATTTCTAAAACA
100542 TCGATTTTTCACA
66 TCGATTTTTCACA
* **
100555 ATCGGAGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCCGATTTTATTTCTAAAAC
1 ATCGGAGATACTCCAACCCCGTTATTTTC-AAAGGATACTCCAACCCCGGCTTTATTTCTAAAAC
* *
100620 ACCAATTTTTCACA
65 ATCGATTTTTCACA
*
100634 ATCGGGGATACTCCAAC
1 ATCGGAGATACTCCAAC
100651 TCTGATTTTA
Statistics
Matches: 148, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
78 68 0.46
79 80 0.54
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (78 bp):
ATCGGAGATACTCCAACCCCGTTATTTTCAAAGGATACTCCAACCCCGGCTTTATTTCTAAAACA
TCGATTTTTCACA
Found at i:100649 original size:51 final size:52
Alignment explanation
Indices: 100588--100706 Score: 195
Period size: 52 Copynumber: 2.3 Consensus size: 52
100578 ATTTTCGAGA
*
100588 GGATACTCCAACCCCGATTTTATTTCTAAAAC-ACCAATTTTTCACAATCGG
1 GGATACTCCAACCCCGATTTTATTTCCAAAACAACCAATTTTTCACAATCGG
* * *
100639 GGATACTCCAACTCTGATTTTATTTCCAAAACAACCAATTTTTTACAATCGG
1 GGATACTCCAACCCCGATTTTATTTCCAAAACAACCAATTTTTCACAATCGG
100691 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
100707 TTATTTTCAC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 29 0.48
52 32 0.52
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (52 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAACAACCAATTTTTCACAATCGG
Found at i:100696 original size:131 final size:131
Alignment explanation
Indices: 100545--100908 Score: 543
Period size: 131 Copynumber: 2.8 Consensus size: 131
100535 TAAAGCATCG
* * *
100545 ATTTTTCACAATCGGAGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCCGATTTTA
1 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTA
* * *
100610 TTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAACAACC
66 TTTCTAAAACACTAATTTCTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAACC
100675 A
131 A
* * *
100676 ATTTTTTACAATCGGGGATACTCCAACCCCGTTATTTTC-ACGGGGATACTCCAACCCTGGTCTT
1 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGA-GGGGATACTCCAACCCCGGTTTT
*
100740 ATTTCTAAAACACTAATTTCCCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAAC
65 ATTTCTAAAACACTAATTTCTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAAC
*
100805 TA
130 CA
* *
100807 ATTTTTCACAATCGGGGATACTCCAACCCCATTA-TTTCTGAGGGGATACTCCAACCCCGGCTTT
1 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGGTTTT
* * * *
100871 ATTCCTAAAATATTAATTTCTCACAATCGGGGGTACTC
65 ATTTCTAAAACACTAATTTCTCACAATCGGGGATACTC
100909 TAATCCCGTT
Statistics
Matches: 209, Mismatches: 21, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
130 5 0.02
131 203 0.97
132 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (131 bp):
ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTA
TTTCTAAAACACTAATTTCTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAACC
A
Found at i:100793 original size:51 final size:52
Alignment explanation
Indices: 100716--100835 Score: 172
Period size: 51 Copynumber: 2.3 Consensus size: 52
100706 GTTATTTTCA
* *
100716 CGGGGATACTCCAACCCTGGTCTTATTTCTAAAAC-ACTAATTTCCCACAAT
1 CGGGGATACTCCAACCCTGATCTTATTTCCAAAACAACTAATTTCCCACAAT
* **
100767 CGGGGATACTCCAACTCC-GATTTTATTTCCAAAACAACTAATTTTTCACAAT
1 CGGGGATACTCCAAC-CCTGATCTTATTTCCAAAACAACTAATTTCCCACAAT
100819 CGGGGATACTCCAACCC
1 CGGGGATACTCCAACCC
100836 CATTATTTCT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
51 31 0.50
52 31 0.50
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.28
Consensus pattern (52 bp):
CGGGGATACTCCAACCCTGATCTTATTTCCAAAACAACTAATTTCCCACAAT
Found at i:100860 original size:80 final size:79
Alignment explanation
Indices: 100768--101111 Score: 347
Period size: 79 Copynumber: 4.3 Consensus size: 79
100758 TCCCACAATC
* * *
100768 GGGGATACTCCAACTCCGATTTTATTTCCAAAACAACTAATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAA-TACTAATTTCTCACAATCGGGGATACTCCAA
*
100833 CCCCATTATTTCTGA
65 CCCCGTTATTTCTGA
** * * *
100848 GGGGATACTCCAACCCCGGCTTTA-TTCCTAAAATATTAATTTCTCACAATCGGGGGTACTCTAA
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAATACTAATTTCTCACAATCGGGGATACTCCAA
* *
100912 TCCCGTTATTT-TCA
65 CCCCGTTATTTCTGA
* * * *
100926 CGGGGGTACTCCAACCCC-AGTTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCA
1 -GGGGATACTCCAACCCCGA-TTTTATTTCCAAAATACTAATTTCTCACAATCGGGGATACTCCA
*
100990 ACCCCGTT-TTTCTGC
64 ACCCCGTTATTTCTGA
* * * * * * * * *
101005 GGAGATACTCCAACCCCAATTCTATTTTCAAAACACTGATTT-TCTATAGTCAGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATACTAATTTCTC-ACAATCGGGGATACTCCAA
* *
101069 CCCTGTTATTTCCCGA
65 CCCCGTTATTT-CTGA
*
101085 GGGGATACTCCAATCCCGATTTTATTT
1 GGGGATACTCCAACCCCGATTTTATTT
101112 TCAGAACATC
Statistics
Matches: 217, Mismatches: 38, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
77 2 0.01
78 60 0.28
79 102 0.47
80 53 0.24
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAATACTAATTTCTCACAATCGGGGATACTCCAAC
CCCGTTATTTCTGA
Found at i:101126 original size:80 final size:78
Alignment explanation
Indices: 100979--101155 Score: 196
Period size: 80 Copynumber: 2.2 Consensus size: 78
100969 CTCACAATCG
* *
100979 GGGATACTCCAACCCCGTTTTTCTGCGGAGATACTCCAACCCCAATTCTATTTTCAAAACACTGA
1 GGGATACTCCAACCCCGTTTTTCCGAGGAGATACTCCAACCCCAATTCTATTTTCAAAACACTGA
101044 TTTTCTATAGTCA
66 TTTTCTATAGTCA
* * * * * *
101057 GGGATACTCCAACCCTGTTATTTCCCGAGGGGATACTCCAATCCCGATTTTATTTTCAGAACA-T
1 GGGATACTCCAACCCCGTT-TTT-CCGAGGAGATACTCCAACCCCAATTCTATTTTCAAAACACT
* *
101121 CGATTTTCCATAATC-
64 -GATTTTCTATAGTCA
* *
101136 GAGGATACTTCAGCCCCGTT
1 G-GGATACTCCAACCCCGTT
101156 GTTATCCCTA
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
78 18 0.22
79 5 0.06
80 59 0.72
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (78 bp):
GGGATACTCCAACCCCGTTTTTCCGAGGAGATACTCCAACCCCAATTCTATTTTCAAAACACTGA
TTTTCTATAGTCA
Found at i:101126 original size:158 final size:157
Alignment explanation
Indices: 100768--101155 Score: 369
Period size: 158 Copynumber: 2.4 Consensus size: 157
100758 TCCCACAATC
* * *
100768 GGGGATACTCCAACTCCGATTTTATTTCCAAAACAACTAATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAAC-CCGATTTTATTTTCAAAACATC-GA-TTTTCACAATCGGGGATACTCCAA
* * ** * *
100833 CCCCATTATTTCTGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTAATTTCTCACAAT
63 CCCCGTTATTTCTGAGGAGATACTCCAACCCCGAATTTATTCCTAAAACATGAATTTCTCACAAT
* * *
100898 CGGGGGTACTCTAATCCCGTTATTTTCACG
128 CAGGGATACTCCAATCCCGTTATTTTCACG
* * *
100928 GGGG-TACTCCAACCCCAGTTTTA-TTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCGA-TTTTATTTTC-AAAACATCGATTT-TCACAATCGGGGATACTCCAA
* * * *
100991 CCCCGTT-TTTCTGCGGAGATACTCCAACCCC-AATTCTATT-TTCAAAACACTGATTTTCT-AT
63 CCCCGTTATTTCTGAGGAGATACTCCAACCCCGAATT-TATTCCT-AAAACA-TGAATTTCTCAC
* *
101052 AGTCAGGGATACTCCAA-CCCTGTTA-TTTCCCG
125 AATCAGGGATACTCCAATCCC-GTTATTTTCACG
* * * * *
101084 AGGGGATACTCCAATCCCGATTTTATTTTCAGAACATCGATTTTCCATAATCGAGGATACTTCAG
1 -GGGGATACTCCAA-CCCGATTTTATTTTCAAAACATCGATTTT-CACAATCGGGGATACTCCAA
101149 CCCCGTT
63 CCCCGTT
101156 GTTATCCCTA
Statistics
Matches: 187, Mismatches: 29, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
156 12 0.06
157 57 0.30
158 87 0.47
159 27 0.14
160 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (157 bp):
GGGGATACTCCAACCCGATTTTATTTTCAAAACATCGATTTTCACAATCGGGGATACTCCAACCC
CGTTATTTCTGAGGAGATACTCCAACCCCGAATTTATTCCTAAAACATGAATTTCTCACAATCAG
GGATACTCCAATCCCGTTATTTTCACG
Found at i:113110 original size:222 final size:224
Alignment explanation
Indices: 112748--113376 Score: 1196
Period size: 222 Copynumber: 2.8 Consensus size: 224
112738 AAACAAGTTT
112748 GTTATTGGTTTTCTTTCTTTCTTTCTTCCCTTTTTTTTTGTATCTAATAGAAAGTTCTTCATTTT
1 GTTATTGGTTTTCTTTCTTTCTTTCTTCCCTTTTTTTTTGTATCTAATAGAAAGTTCTTCATTTT
112813 TTTTTAAGTAGGATATTCATGTTGTCTATTGATGTAGACATTTTTTTCTTTTGTTGGTATTGTTG
66 TTTTTAAGTAGGATATTCATGTTGTCTATTGATGTAGACATTTTTTTCTTTTGTTGGTATTGTTG
112878 CAAAGGGAAAAGAAGAAAAGATTATAATCTTATTTCTATTTTATCTTGATAGTATTCCAAAAGAA
131 CAAAGGGAAAAGAAGAAAAGATTATAATCTTATTTCTATTTTATCTTGATAGTATTCCAAAAGAA
112943 AGAAAAAAAAAACAAGTTTGTTAGCTATA
196 AGAAAAAAAAAACAAGTTTGTTAGCTATA
112972 GTTATT-G-TTTCTTTCTTTCTTTCTTCCCTTTTTTTTTGTATCTAATAGAAAGTTCTTCATTTT
1 GTTATTGGTTTTCTTTCTTTCTTTCTTCCCTTTTTTTTTGTATCTAATAGAAAGTTCTTCATTTT
*
113035 TTTTTAAGTAGAATATTCATGTTGTCTATTGATGTAGACATTTTTTTCTTTTGTTGGTATTGTTG
66 TTTTTAAGTAGGATATTCATGTTGTCTATTGATGTAGACATTTTTTTCTTTTGTTGGTATTGTTG
113100 CAAAGGGAAAAGAAGAAAAGATTATAATCTTATTTCTATTTTATCTTGATAGTATTCCAAAAGAA
131 CAAAGGGAAAAGAAGAAAAGATTATAATCTTATTTCTATTTTATCTTGATAGTATTCCAAAAGAA
113165 AGAAAAAAAAAACAAGTTTGTTAGCTATA
196 AGAAAAAAAAAACAAGTTTGTTAGCTATA
*
113194 GTTATTGGTTTTCTTTCTTTCTTTCTT-CCTTTTTTTTTGTATCTAATAAAAAGTTCTTCA--TT
1 GTTATTGGTTTTCTTTCTTTCTTTCTTCCCTTTTTTTTTGTATCTAATAGAAAGTTCTTCATTTT
*
113256 TTTTTAAGTAGGATATTCATGTTGTCTACTGATGTAGACATTTTTTTCTTTTGTTGGTATTGTTG
66 TTTTTAAGTAGGATATTCATGTTGTCTATTGATGTAGACATTTTTTTCTTTTGTTGGTATTGTTG
113321 CAAAGGGAAAAGAAGAAAAGATTATAATCTTATTTCTATTTTATCTTGATAGTATT
131 CAAAGGGAAAAGAAGAAAAGATTATAATCTTATTTCTATTTTATCTTGATAGTATT
113377 GACATTAATT
Statistics
Matches: 399, Mismatches: 4, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
221 121 0.30
222 220 0.55
223 34 0.09
224 24 0.06
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (224 bp):
GTTATTGGTTTTCTTTCTTTCTTTCTTCCCTTTTTTTTTGTATCTAATAGAAAGTTCTTCATTTT
TTTTTAAGTAGGATATTCATGTTGTCTATTGATGTAGACATTTTTTTCTTTTGTTGGTATTGTTG
CAAAGGGAAAAGAAGAAAAGATTATAATCTTATTTCTATTTTATCTTGATAGTATTCCAAAAGAA
AGAAAAAAAAAACAAGTTTGTTAGCTATA
Found at i:117449 original size:16 final size:16
Alignment explanation
Indices: 117430--117475 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
117420 TGGGTTTTAC
117430 TTATTTTGGATTCAAG
1 TTATTTTGGATTCAAG
*
117446 TTATTTTGGGTTCAAG
1 TTATTTTGGATTCAAG
** *
117462 CCATTTTGAATTCA
1 TTATTTTGGATTCA
117476 GATCAGTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (16 bp):
TTATTTTGGATTCAAG
Found at i:118742 original size:2 final size:2
Alignment explanation
Indices: 118735--118760 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
118725 TGGCATATGT
118735 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
118761 CTTTTTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:119498 original size:103 final size:103
Alignment explanation
Indices: 119319--119517 Score: 355
Period size: 103 Copynumber: 1.9 Consensus size: 103
119309 ATTTCAACAA
*
119319 ATTTGTTTGATAACTTGGAGTGAAATGAAAAATAAAATAAATTTCATTTAATTAGAAGCATGTAG
1 ATTTGTTGGATAACTTGGAGTGAAATGAAAAATAAAATAAATTTCATTTAATTAGAAGCATGTAG
* *
119384 AGCTTGCCAAAAAGAGATTAAAAAGAAAATATTTTCAT
66 AGCTTACCAAAAAGAAATTAAAAAGAAAATATTTTCAT
119422 ATTTGTTGGATAACTTGGAGTGAAATG-AAAATAAAATAAATTTTCATTTAATTAGAAGCATGTA
1 ATTTGTTGGATAACTTGGAGTGAAATGAAAAATAAAATAAA-TTTCATTTAATTAGAAGCATGTA
119486 GAGCTTACCAAAAAGAAATTAAAAAGAAAATA
65 GAGCTTACCAAAAAGAAATTAAAAAGAAAATA
119518 GCAGCATGCA
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
102 13 0.14
103 79 0.86
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.31
Consensus pattern (103 bp):
ATTTGTTGGATAACTTGGAGTGAAATGAAAAATAAAATAAATTTCATTTAATTAGAAGCATGTAG
AGCTTACCAAAAAGAAATTAAAAAGAAAATATTTTCAT
Found at i:120123 original size:18 final size:17
Alignment explanation
Indices: 120102--120136 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
120092 TGGTATACTT
120102 TAAAATAAATTAAATTAA
1 TAAAATAAATT-AATTAA
*
120120 TAAAATATATTAATTAA
1 TAAAATAAATTAATTAA
120137 AAATTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAATAAATTAATTAA
Found at i:128562 original size:2 final size:2
Alignment explanation
Indices: 128555--128602 Score: 51
Period size: 2 Copynumber: 23.5 Consensus size: 2
128545 ATTGACAAAC
* * * *
128555 AT AT AT AT AT AT AT AT TT AT AT AT AT CAT CT AT AT AT CT AT CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
128598 AT AT A
1 AT AT A
128603 GCTACATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129161 original size:103 final size:102
Alignment explanation
Indices: 129054--129343 Score: 262
Period size: 103 Copynumber: 2.8 Consensus size: 102
129044 TAAAATTAAT
* * * *
129054 AAAATTATT-ATATTTAAA-ATGTGATCTTGTTAAATTTATTTAAATTTAAATTAATAAATATTT
1 AAAATT-TTCATATTTAAATATATAATCTTATT-AATTTACTTAAATTTAAATTAATAAATATTT
**
129117 AAAAATAGAGTTGACATGATATTATCTACTTTAAAATTTG
64 -AAAATAGAGTCCACATGATATTATCTACTTTAAAATTTG
* * *
129157 AAAATTTTCATATTTAAATATATAATTTTATTAATTTACTTAAATTTAAATTAGTGAATATTTAA
1 AAAATTTTCATATTTAAATATATAATCTTATTAATTTACTTAAATTTAAATTAATAAATATTTAA
*** *
129222 AATAGAGTCCACATGATATTAAAAAGATTATAAAATTAAT-
66 AATAGAGTCCACATGATATTATCTA-CTT-TAAAATT--TG
* * * * * * **
129262 AAACTTTTCCTATTTGAATATTTAAGTTTTATTAATTTATTTAAATTTAAAAGAATTAAATATAT
1 AAAATTTTCATATTTAAATATATAA-TCTTATTAATTTACTTAAATTTAAATTAA-TAAATAT-T
* *
129327 AAAAATAGATTCCACAT
63 TAAAATAGAGTCCACAT
129344 AAAATTGAAC
Statistics
Matches: 154, Mismatches: 24, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
102 24 0.16
103 45 0.29
104 16 0.10
105 21 0.14
106 26 0.17
107 6 0.04
108 16 0.10
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.43
Consensus pattern (102 bp):
AAAATTTTCATATTTAAATATATAATCTTATTAATTTACTTAAATTTAAATTAATAAATATTTAA
AATAGAGTCCACATGATATTATCTACTTTAAAATTTG
Found at i:129552 original size:103 final size:102
Alignment explanation
Indices: 129430--129689 Score: 292
Period size: 104 Copynumber: 2.5 Consensus size: 102
129420 CCCTTTTAAA
* * *
129430 ATTTTTAAATTAACAAATTTATTCTATTTAAA-ATGTAATTTTATTAATTTATTTAAATTTTAAT
1 ATTTTAAAATTAA-TAATTT-TTCTATTTAAATATGTAATTTTATTAATTTATTTAAATTTAAAT
* *** *
129494 TAATAAATATTTAAAAATAAAGTCTATGTGATATT-GATG
64 TAATAAATATTT-AAAATAAAGCCTACAAGATATTAAATG
* * *
129533 TATTTTAAAATTAATAATTTTTTTTGTTTAAATATATAATTTTATTAATTTATTTAAATTTAAAT
1 -ATTTTAAAATTAATAA-TTTTTCTATTTAAATATGTAATTTTATTAATTTATTTAAATTTAAAT
** *
129598 TTGTAAATATTTGAAATAAAGCCTACAAGATATTAAATG
64 TAATAAATATTTAAAATAAAGCCTACAAGATATTAAATG
**
129637 ATTTTAAAATTAATAAACTTTCCCTATTTAAATATGTAATTTT-TTAATTTATT
1 ATTTTAAAATTAAT-AA-TTTTTCTATTTAAATATGTAATTTTATTAATTTATT
129690 AAAAGAAATA
Statistics
Matches: 132, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
103 52 0.39
104 80 0.61
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.50
Consensus pattern (102 bp):
ATTTTAAAATTAATAATTTTTCTATTTAAATATGTAATTTTATTAATTTATTTAAATTTAAATTA
ATAAATATTTAAAATAAAGCCTACAAGATATTAAATG
Found at i:129579 original size:390 final size:382
Alignment explanation
Indices: 128863--129689 Score: 990
Period size: 390 Copynumber: 2.1 Consensus size: 382
128853 AATAATCTAC
* * *
128863 GATTTTAAAATTAATAAACTTTTTCTATTTAAATATGTATTTTTTATTAATTCATTTAAATTTAA
1 GATTTTAAAATTAATAAACTTTTCCTATTTAAATATGTA-ATTTTATTAATTTATTTAAATTTAA
* * * *
128928 AAGAATTAAATATTTAAAAATATAATCCATATAAAGTTAAAATAATTTATATATATATATATATA
65 AAGAATTAAATATATAAAAATAGAATCCACATAAAATTAAAATAATTTATATATATATATATATA
* * ** *
128993 AATAAGTATGAGCTTCAAAAATGTTAAAAGTGAATGATATGAAGACCCTTTTAAAATTAATAAAA
130 AATAAGTATGAACTCCAAAAATAATAAAAGTGAATAATATGAAGACCCTTTTAAAATTAATAAAA
* *
129058 TTATTATATTTAAAATGTGATCTTGTTAAATTTATTTAAATTTAAATTAATAAATATTTAAAAAT
195 TTATTATATTTAAAATGTAATCTTATTAAATTTATTTAAATTTAAATTAATAAATATTTAAAAAT
*
129123 AGAGTTGACATGATATTATCTACTTTAAAATTTGAAAATTTTCATATTTAAATATATAATTTTAT
260 AAAGTTGACATGATATTATCTACTTTAAAATTTGAAAATTTTCATATTTAAATATATAATTTTAT
* * *
129188 TAATTTACTTAAATTTAAATTAGTGAATATTTAAAATAGAGTCC-ACATGATATTAAAAA
325 TAATTTACTTAAATTTAAATTAGTAAATATTTAAAATAAAG-CCTACAAGATATT-AAAA
* * *
129247 GATTATAAAATTAATAAACTTTTCCTATTTGAATATTTAAGTTTTATTAATTTATTTAAATTTAA
1 GATTTTAAAATTAATAAACTTTTCCTATTTAAATATGTAA-TTTTATTAATTTATTTAAATTTAA
* * * ** * *
129312 AAGAATTAAATATATAAAAATAGATTCCACATAAAATTGAACTCCTTTA-AT-TATATATATGTG
65 AAGAATTAAATATATAAAAATAGAATCCACATAAAATTAAAATAATTTATATATATATATATATA
** * * *
129375 TGTATGTGTGAACTCCAAAAGTAATAAAAGTGAATAATGA-GAATG-CCCTTTTAAAATTTTTAA
130 AATAAGTATGAACTCCAAAAATAATAAAAGTGAATAAT-ATGAA-GACCCTTTTAAAA---TT-A
* * *
129438 ATTAACAAATTTATTCTATTTAAAATGTAATTTTATT-AATTTATTTAAATTTTAATTAATAAAT
189 A-T-A-AAA-TTATTATATTTAAAATGTAATCTTATTAAATTTATTTAAATTTAAATTAATAAAT
** * * ** *
129502 ATTTAAAAATAAAGTCT-ATGTGATATTGATGTATTTTAAAA-TT-AATAATTTTTTTTGTTTAA
250 ATTTAAAAATAAAGT-TGACATGATATT-ATCTACTTTAAAATTTGAA-AA-TTTTCATATTTAA
* * *
129564 ATATATAATTTTATTAATTTATTTAAATTTAAATTTGTAAATATTTGAAATAAAGCCTACAAGAT
311 ATATATAATTTTATTAATTTACTTAAATTTAAATTAGTAAATATTTAAAATAAAGCCTACAAGAT
*
129629 ATTAAAT
376 ATTAAAA
*
129636 GATTTTAAAATTAATAAACTTTCCCTATTTAAATATGTAATTTT-TTAATTTATT
1 GATTTTAAAATTAATAAACTTTTCCTATTTAAATATGTAATTTTATTAATTTATT
129690 AAAAGAAATA
Statistics
Matches: 376, Mismatches: 51, Indels: 29
0.82 0.11 0.06
Matches are distributed among these distances:
382 52 0.14
383 4 0.01
384 98 0.26
385 2 0.01
386 2 0.01
387 11 0.03
388 7 0.02
389 96 0.26
390 104 0.28
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (382 bp):
GATTTTAAAATTAATAAACTTTTCCTATTTAAATATGTAATTTTATTAATTTATTTAAATTTAAA
AGAATTAAATATATAAAAATAGAATCCACATAAAATTAAAATAATTTATATATATATATATATAA
ATAAGTATGAACTCCAAAAATAATAAAAGTGAATAATATGAAGACCCTTTTAAAATTAATAAAAT
TATTATATTTAAAATGTAATCTTATTAAATTTATTTAAATTTAAATTAATAAATATTTAAAAATA
AAGTTGACATGATATTATCTACTTTAAAATTTGAAAATTTTCATATTTAAATATATAATTTTATT
AATTTACTTAAATTTAAATTAGTAAATATTTAAAATAAAGCCTACAAGATATTAAAA
Done.