Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 36 of 45
Found at i:6338758 original size:20 final size:20
Alignment explanation
Indices: 6338715--6338766 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
6338705 CTTAACTGTT
*
6338715 TGTATCGATACA-CACAATA
1 TGTATCGATACATCACAAAA
6338734 TGTATCGATACATC-CTAAAA
1 TGTATCGATACATCAC-AAAA
6338754 TGTATCGATACAT
1 TGTATCGATACAT
6338767 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:6344008 original size:20 final size:20
Alignment explanation
Indices: 6343980--6344017 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6343970 GTAAAAAGAC
*
6343980 AGAACGTATTGATACATTGA
1 AGAACGTATCGATACATTGA
*
6344000 AGAATGTATCGATACATT
1 AGAACGTATCGATACATT
6344018 CATACATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
AGAACGTATCGATACATTGA
Found at i:6344083 original size:20 final size:20
Alignment explanation
Indices: 6344058--6344107 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
6344048 AGATAGAATA
* *
6344058 TATCGATACAGTCATACATG
1 TATCGATACAGTCAAAAATG
* *
6344078 TATCGATACATTGAAAAATG
1 TATCGATACAGTCAAAAATG
6344098 TATCGATACA
1 TATCGATACA
6344108 TTTGGGTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
TATCGATACAGTCAAAAATG
Found at i:6344088 original size:72 final size:71
Alignment explanation
Indices: 6343932--6344119 Score: 218
Period size: 72 Copynumber: 2.6 Consensus size: 71
6343922 TTTTAACTAG
* * *
6343932 ATGTATCGATACATTATTCAATGTATCGATACATCTGGGT-AAAAAGACAGAACGTATTGATACA
1 ATGTATCGATACATTATAC-ATGTATCGATACATCTGGGTAAAAAAGACAGAACATATCGATACA
* *
6343996 TTGAAGA
65 GTCAAGA
* * *
6344003 ATGTATCGATACATTCATACATGTATCGATACATCTAGGTAAAAAAGATAGAATATATCGATACA
1 ATGTATCGATACATT-ATACATGTATCGATACATCTGGGTAAAAAAGACAGAACATATCGATACA
*
6344068 GTCATA-C
65 GTCA-AGA
* * *
6344075 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTAAAAA
1 ATGTATCGATACATT-ATACATGTATCGATACATCTGGGTAAAAA
6344120 TGTGACTTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
71 34 0.34
72 65 0.65
73 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (71 bp):
ATGTATCGATACATTATACATGTATCGATACATCTGGGTAAAAAAGACAGAACATATCGATACAG
TCAAGA
Found at i:6345075 original size:28 final size:28
Alignment explanation
Indices: 6345001--6346069 Score: 629
Period size: 28 Copynumber: 38.3 Consensus size: 28
6344991 CACTAACTTG
*
6345001 TGTGGGCTTTGAAAAGAGCTGCCACTGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* *
6345031 TGTACGGGCTTTGAAAGGGTGCTATTGACT
1 TGT--GGGCTTTGAAAGGGTGCCACTGACT
* * *
6345061 TGTGGGTTTTGAAAGGATATGCCACTAACT
1 TGTGGGCTTTGAAAGG--GTGCCACTGACT
* * *
6345091 TGTGAG-TTTAAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
6345118 TGTGGGCTTTG-AAGGTGTACCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
*
6345146 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
6345174 TGTAGGCTTTGAAAGGGTACCACTGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
*
6345203 ATGTGGGCTTTGATAGGGTATGCCACTGACT
1 -TGTGGGCTTTGAAAGGG--TGCCACTGACT
*
6345234 TGTGGGCTTTGAAAGGGTGCCACTGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
6345262 TATGGGCTTTGAAAAGATGTCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
6345290 TATGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6345318 TGTAGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6345346 TATGGGCTTTGAAGGGGTACCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
6345374 TATGGGCTTAGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
6345402 TGTGGGCTTAGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
6345430 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
6345458 TGTGGGCTTGGAAAAGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* ** *
6345486 TGTGGGCTTGGAAAAAGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* **
6345514 TGTGGGCTTGGAAAAAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6345542 TGTGGGCTTGGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
6345570 TGTGGGCTTTGAAAAGGTGCCA-TCGACT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* * * * *
6345598 TG-AGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6345624 TATGGAC-TTAAAAGGGTGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
* * * *
6345651 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6345679 TGTGGACTTTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
6345707 TGTGGAC-TT-AAAGGGGTGCCACGGAGT
1 TGTGGGCTTTGAAA-GGGTGCCACTGACT
* * * *
6345734 TATGGAC-TT-AAAGGGGTGCCACGGAGT
1 TGTGGGCTTTGAAA-GGGTGCCACTGACT
* * * * *
6345761 TATGGAC-TT-AAAGGGGTGTCACGGAGT
1 TGTGGGCTTTGAAA-GGGTGCCACTGACT
* * * *
6345788 TGTGGACTTTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6345816 TGTGGAC-TT-AAATAGGTGCCACAGAGT
1 TGTGGGCTTTGAAA-GGGTGCCACTGACT
* *** * * *
6345843 TGTGGAC-CAAAAAGGGTGCTACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * *
6345870 AGTGGACTTTAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6345898 TGTGGAC-TTAAAAGAGTGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
* * * *
6345925 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
** * * *
6345952 TGTGAACTTTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6345980 TGTGGAC-CTAAAAGGGTGCCA-TAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* * *
6346007 TGTGGAC-TTAAAAGGGTGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* * * *
6346034 TGT-GGATTTTAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
6346061 TGTGGGCTT
1 TGTGGGCTT
6346070 AAAAGGGGAG
Statistics
Matches: 902, Mismatches: 107, Indels: 62
0.84 0.10 0.06
Matches are distributed among these distances:
26 25 0.03
27 274 0.30
28 506 0.56
29 16 0.02
30 60 0.07
31 5 0.01
32 16 0.02
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:6345698 original size:109 final size:107
Alignment explanation
Indices: 6345601--6347431 Score: 1840
Period size: 109 Copynumber: 16.9 Consensus size: 107
6345591 ATCGACTTGA
*
6345601 GACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTTAAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGAC-TTAAAAG
6345666 GGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTG
65 GGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCAC-GAGTTGTG
* * * * * *
6345711 GACTTAAAGGGGTGCCACGGAGTTATGGACTTAAAGGGGTGCCACGGAGTTATGGACTTAAAGGG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGG
*
6345776 GTGTCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTG
66 GTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCAC-GAGTTGTG
* ** * *
6345820 GACTTAAATA-GGTGCCACAGAGTTGTGGACCAAAAAGGGTGCTAC-AGAGTAGTGGACTTTAAA
1 GACTTAAA-AGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGA-AGTTGTGGAC-TTAAA
* *
6345883 AGAGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGAAGTTGTG
63 AGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG-AGTTGTG
* * *
6345929 GACTTAAAAGGGTGCCACAGAGTTGTGAACTTTAAAAGGGTGCCAC-AGAGTTGTGGACCTAAAA
1 GACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGA-AGTTGTGGACTTAAAA
** *
6345993 GGGTGCCATAGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTG
64 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA-CGAGTTGTG
* * * * *
6346038 GATTTTAAAGGGTGCCACAGAGTTGTGGGCTTAAAA-GG-G----G-AGTTGTGGACTTTAAAGG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGG
*
6346096 GTGCCACGGAGTTGTAGG-CTTAAAAGGATGCCACGGAGTTGTG
66 GTGCCACGGAGTTGT-GGACTTAAAAGGGTGCCAC-GAGTTGTG
* * * * * * *
6346139 GACTTAAAAGGGTGCCACAGAGATGTGGACTTAAATGGATGCCATGGAGTTGTGGACTTTAAAAA
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGAC-TTAAAAG
* * *
6346204 GGTACCACGGAGTTACT-GACTTTAAAGGGTGCCACAGAGTTGTG
65 GGTGCCACGGAGTT-GTGGACTTAAAAGGGTGCCAC-GAGTTGTG
* *
6346248 GACTTAAAAGGAG-GCCACGGAGTTGTGGACTTTAAAAGGGTGCCAC-AGAGTTGTGGACTTTAG
1 GACTTAAAAGG-GTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGA-AGTTGTGGACTTAAA
* ** * *
6346311 AGGGTGCTATAGAGTTGTGAACTTAAAAGGATGCCACAGAGTTGTG
63 AGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC-GAGTTGTG
* * * * *
6346357 GACTTAAAGGGGTGCCACAGAGTTGTGGACTTTAAAAGTGTACCA-TAGAGTTGTGGACTTAAAA
1 GACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGA-AGTTGTGGACTTAAAA
** * *
6346421 GGGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCATGGAGTTATG
64 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCA-CGAGTTGTG
* * * * * *
6346467 GACTTAAAAGGATGCCATGGAGTTGTAGACTTTAAAGGGTGCCATGGAGTTGTGGACTTAAAAGG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGG
* * *
6346532 GTGCCACAGAGATGTGGACTTAAAAGGATGCCACCGAGTTGTG
66 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCA-CGAGTTGTG
* * * * *
6346575 GACTTTAAAAAGGTGCCATGGAGTTACT-GACTTTAAAGGGTGCCAC-AGAGTTGTGAACTTAAA
1 GAC-TTAAAAGGGTGCCACGGAGTT-GTGGACTTAAAAGGGTGCCACGA-AGTTGTGGACTTAAA
* *
6346638 AGGAG-GCCACAGAGTTGTGGACTTTAAAAGGGTGCCATAGAGTTGTG
63 AGG-GTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCA-CGAGTTGTG
* * * * * * *
6346685 GACTTTGAAA-GGTGCTATGGAGTTATGAACTTAAAAGGATGCCAC-AGAGTTGTGGACTTAAAG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGA-AGTTGTGGACTTAAAA
* * * * *
6346748 GGGTGCCACAGAGTTGTAGACTTTAAAAGTGTACCATAGAGTTGTG
64 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCA-CGAGTTGTG
* ** * * *
6346794 GACTTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGGAGTTATAGACTTAAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAG
* * * *
6346859 GATGCCATGGAGTTGTAGACCTT-AAAGGGTGCCATGGAGTTGTG
65 GGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCA-CGAGTTGTG
* * * * *
6346903 GACTTAAAAGGGTGCCACGAAGATGTGGACTTAAAAGGATGCCATGGAGTTGTGGACTTAAAAGG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGG
*
6346968 GTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTG
66 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC-GAGTTGTG
* ** * * * * *
6347011 AACTTTAAAAGGGCACCACGAAGTTGTAGACTTTAAAATGGTGCCACGGAGTTGTGGACCTAAAA
1 GAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGAAGTTGTGGACTTAAAA
** **
6347076 GGGTGCCACAAAGTTGTGGACTTCGAAGGGTGCCACGGAGTTGTG
64 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC-GAGTTGTG
* * *
6347121 GACTTAAAGGGGTGCCACGGAGTTGTGGACTTTAAAAAGGTGCCAC-AGAGTTGTGGAGTTAAAT
1 GACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGA-AGTTGTGGACTTAAA-
* * * * *
6347185 A-GGTGCCATGGAGTTGTGGACCTAAAAGGGTGCTACGGAGTGGTA
63 AGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC-GAGTTGTG
* * * *
6347230 GACTTTAAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTTAAAA
1 GAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGAC-TTAAAA
* *
6347295 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCTATAGAGTTGTG
64 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCA-CGAGTTGTG
* * ** *
6347341 GACCTAAAAAGGTGCCACAAAGTTGTGGACTTAAAAGGGTGCCAC-AGAGTTGTGGACTTTAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGA-AGTTGTGGACTTAAAAG
* *
6347405 GGTGCCATGGAGTTATAGG-CTTAAAAG
65 GGTGCCACGGAGTTGT-GGACTTAAAAG
6347432 AATGCCACAG
Statistics
Matches: 1465, Mismatches: 202, Indels: 110
0.82 0.11 0.06
Matches are distributed among these distances:
101 82 0.06
102 3 0.00
103 1 0.00
106 1 0.00
107 6 0.00
108 124 0.08
109 806 0.55
110 419 0.29
111 23 0.02
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.24
Consensus pattern (107 bp):
GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGG
GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAGTTGTG
Found at i:6345725 original size:27 final size:27
Alignment explanation
Indices: 6345601--6347431 Score: 2013
Period size: 27 Copynumber: 67.4 Consensus size: 27
6345591 ATCGACTTGA
*
6345601 GACTTAAAAGGGTGCCACGGAGTTATG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
*
6345628 GACTTAAAAGGGTGCCACGAAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
6345655 GACTTTAAAAGGGTGCCACGGAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
*
6345683 GACTTTAAAAGGGTGCCACAGAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
* *
6345711 GACTTAAAGGGGTGCCACGGAGTTATG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
6345738 GACTTAAAGGGGTGCCACGGAGTTATG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
6345765 GACTTAAAGGGGTGTCACGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
*
6345792 GACTTTAAAAGGGTGCCACAGAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
*
6345820 GACTTAAATA-GGTGCCACAGAGTTGTG
1 GACTTAAA-AGGGTGCCACGGAGTTGTG
** * * *
6345847 GACCAAAAAGGGTGCTACAGAGTAGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
*
6345874 GACTTTAAAAGAGTGCCACGGAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
* *
6345902 GACTTAAAAGAGTGCCACGAAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
*
6345929 GACTTAAAAGGGTGCCACAGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
6345956 AACTTTAAAAGGGTGCCACAGAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
* **
6345984 GACCTAAAAGGGTGCCATAGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
*
6346011 GACTTAAAAGGGTGCCATGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* * *
6346038 GATTTTAAAGGGTGCCACAGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
*
6346065 GGCTTAAAA--G-G----GGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
*
6346085 GACTTTAAAGGGTGCCACGGAGTTGTAG
1 GACTTAAAAGGGTGCCACGGAGTTGT-G
*
6346113 G-CTTAAAAGGATGCCACGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
6346139 GACTTAAAAGGGTGCCACAGAGATGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* * *
6346166 GACTTAAATGGATGCCATGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* * *
6346193 GACTTTAAAAAGGTACCACGGAGTTACT-
1 GAC-TTAAAAGGGTGCCACGGAGTT-GTG
* *
6346221 GACTTTAAAGGGTGCCACAGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
6346248 GACTTAAAAGGAG-GCCACGGAGTTGTG
1 GACTTAAAAGG-GTGCCACGGAGTTGTG
*
6346275 GACTTTAAAAGGGTGCCACAGAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
* * * **
6346303 GACTTTAGAGGGTGCTATAGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* * *
6346330 AACTTAAAAGGATGCCACAGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
6346357 GACTTAAAGGGGTGCCACAGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* * **
6346384 GACTTTAAAAGTGTACCATAGAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
6346412 GACTTAAAAGGGTGCCACGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
** * *
6346439 GACTTTAAAAGAATGCCATGGAGTTATG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
* * *
6346467 GACTTAAAAGGATGCCATGGAGTTGTA
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
6346494 GACTTTAAAGGGTGCCATGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
6346521 GACTTAAAAGGGTGCCACAGAGATGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
6346548 GACTTAAAAGGATGCCACCGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* * *
6346575 GACTTTAAAAAGGTGCCATGGAGTTACT-
1 GAC-TTAAAAGGGTGCCACGGAGTT-GTG
* *
6346603 GACTTTAAAGGGTGCCACAGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
6346630 AACTTAAAAGGAG-GCCACAGAGTTGTG
1 GACTTAAAAGG-GTGCCACGGAGTTGTG
**
6346657 GACTTTAAAAGGGTGCCATAGAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
* * * *
6346685 GACTTTGAAA-GGTGCTATGGAGTTATG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
* * *
6346712 AACTTAAAAGGATGCCACAGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* * *
6346739 GACTTAAAGGGGTGCCACAGAGTTGTA
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* * **
6346766 GACTTTAAAAGTGTACCATAGAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
*
6346794 GACTTAAAAGAGTGCCACGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
** * *
6346821 GACTTTAAAAGAATGCCACGGAGTTATA
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
* * *
6346849 GACTTAAAAGGATGCCATGGAGTTGTA
1 GACTTAAAAGGGTGCCACGGAGTTGTG
*
6346876 GACCTT-AAAGGGTGCCATGGAGTTGTG
1 GA-CTTAAAAGGGTGCCACGGAGTTGTG
* *
6346903 GACTTAAAAGGGTGCCACGAAGATGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
6346930 GACTTAAAAGGATGCCATGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
*
6346957 GACTTAAAAGGGTGCCACAGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
6346984 GACTTAAAAGGGTGCCACGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* ** * *
6347011 AACTTTAAAAGGGCACCACGAAGTTGTA
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
*
6347039 GACTTTAAAATGGTGCCACGGAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
* **
6347067 GACCTAAAAGGGTGCCACAAAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
**
6347094 GACTTCGAAGGGTGCCACGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
*
6347121 GACTTAAAGGGGTGCCACGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
6347148 GACTTTAAAAAGGTGCCACAGAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
* *
6347176 GAGTTAAATA-GGTGCCATGGAGTTGTG
1 GACTTAAA-AGGGTGCCACGGAGTTGTG
* * * *
6347203 GACCTAAAAGGGTGCTACGGAGTGGTA
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* *
6347230 GACTTTAAAAGAGTGCCACGAAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
*
6347258 GACTTAAAAGGTTGCCACGGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
6347285 GACTTTAAAAGGGTGCCACGGAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
* **
6347313 GACTTTAAAAGGGTGCTATAGAGTTGTG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTG
* * **
6347341 GACCTAAAAAGGTGCCACAAAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
*
6347368 GACTTAAAAGGGTGCCACAGAGTTGTG
1 GACTTAAAAGGGTGCCACGGAGTTGTG
* * *
6347395 GACTTTAAAGGGTGCCATGGAGTTATAG
1 GACTTAAAAGGGTGCCACGGAGTTGT-G
6347423 G-CTTAAAAG
1 GACTTAAAAG
6347432 AATGCCACAG
Statistics
Matches: 1541, Mismatches: 222, Indels: 82
0.84 0.12 0.04
Matches are distributed among these distances:
20 15 0.01
22 1 0.00
23 1 0.00
24 1 0.00
25 1 0.00
26 14 0.01
27 1046 0.68
28 460 0.30
29 2 0.00
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.24
Consensus pattern (27 bp):
GACTTAAAAGGGTGCCACGGAGTTGTG
Found at i:6345760 original size:82 final size:81
Alignment explanation
Indices: 6345601--6347431 Score: 2013
Period size: 82 Copynumber: 22.5 Consensus size: 81
6345591 ATCGACTTGA
* *
6345601 GACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTTAAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAG
6345666 GGTGCCACGGAGTTGTG
65 GGTGCCACGGAGTTGTG
* * * *
6345683 GACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAGGGGTGCCACGGAGTTATGGACTTAAAGG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
*
6345748 GGTGCCACGGAGTTATG
65 GGTGCCACGGAGTTGTG
* * *
6345765 GACTTAAAGGGGTGTCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAATA
1 GACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-A
*
6345830 -GGTGCCACAGAGTTGTG
64 GGGTGCCACGGAGTTGTG
** * * * *
6345847 GACCAAAAAGGGTGCTACAGAGTAGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
* *
6345912 AGTGCCACGAAGTTGTG
65 GGTGCCACGGAGTTGTG
* * * *
6345929 GACTTAAAAGGGTGCCACAGAGTTGTGAACTTTAAAAGGGTGCCACAGAGTTGTGGACCTAAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
**
6345994 GGTGCCATAGAGTTGTG
65 GGTGCCACGGAGTTGTG
* * * * *
6346011 GACTTAAAAGGGTGCCATGGAGTTGTGGATTTTAAAGGGTGCCACAGAGTTGTGGGCTTAAAA--
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
6346074 G-G----GGAGTTGTG
66 GTGCCACGGAGTTGTG
* *
6346085 GACTTTAAAGGGTGCCACGGAGTTGTAGG-CTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGT-GGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
* *
6346149 GGTGCCACAGAGATGTG
65 GGTGCCACGGAGTTGTG
* * * * * * *
6346166 GACTTAAATGGATGCCATGGAGTTGTGGACTTTAAAAAGGTACCACGGAGTTACT-GACTTTAAA
1 GACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTT-GTGGACTTAAAA
*
6346230 GGGTGCCACAGAGTTGTG
64 GGGTGCCACGGAGTTGTG
* * *
6346248 GACTTAAAAGGAG-GCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAGA
1 GACTTAAAAGG-GTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* **
6346312 GGGTGCTATAGAGTTGTG
64 GGGTGCCACGGAGTTGTG
* * * * *
6346330 AACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAGGGGTGCCACAGAGTTGTGGACTTTAAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAG
* * **
6346395 TGTACCATAGAGTTGTG
65 GGTGCCACGGAGTTGTG
** * *
6346412 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCATGGAGTTATGGACTTAAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
* * *
6346477 GATGCCATGGAGTTGTA
65 GGTGCCACGGAGTTGTG
* * * *
6346494 GACTTTAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACAGAGATGTGGACTTAAAAGG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
6346559 ATGCCACCGAGTTGTG
66 GTGCCACGGAGTTGTG
* * * * * *
6346575 GACTTTAAAAAGGTGCCATGGAGTTACT-GACTTTAAAGGGTGCCACAGAGTTGTGAACTTAAAA
1 GAC-TTAAAAGGGTGCCACGGAGTT-GTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
6346639 GGAG-GCCACAGAGTTGTG
64 GG-GTGCCACGGAGTTGTG
** * * * * *
6346657 GACTTTAAAAGGGTGCCATAGAGTTGTGGACTTTGAAA-GGTGCTATGGAGTTATGAACTTAAAA
1 GAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
6346721 GGATGCCACAGAGTTGTG
64 GGGTGCCACGGAGTTGTG
* * * * * **
6346739 GACTTAAAGGGGTGCCACAGAGTTGTAGACTTTAAAAGTGTACCATAGAGTTGTGGACTTAAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
*
6346804 AGTGCCACGGAGTTGTG
65 GGTGCCACGGAGTTGTG
** * * * * *
6346821 GACTTTAAAAGAATGCCACGGAGTTATAGACTTAAAAGGATGCCATGGAGTTGTAGACCTT-AAA
1 GAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAA
*
6346885 GGGTGCCATGGAGTTGTG
64 GGGTGCCACGGAGTTGTG
* * * *
6346903 GACTTAAAAGGGTGCCACGAAGATGTGGACTTAAAAGGATGCCATGGAGTTGTGGACTTAAAAGG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
*
6346968 GTGCCACAGAGTTGTG
66 GTGCCACGGAGTTGTG
* ** * *
6346984 GACTTAAAAGGGTGCCACGGAGTTGTGAACTTTAAAAGGGCACCACGAAGTTGTAGACTTTAAAA
1 GACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
*
6347049 TGGTGCCACGGAGTTGTG
64 GGGTGCCACGGAGTTGTG
* ** ** *
6347067 GACCTAAAAGGGTGCCACAAAGTTGTGGACTTCGAAGGGTGCCACGGAGTTGTGGACTTAAAGGG
1 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
6347132 GTGCCACGGAGTTGTG
66 GTGCCACGGAGTTGTG
* * * * *
6347148 GACTTTAAAAAGGTGCCACAGAGTTGTGGAGTTAAATA-GGTGCCATGGAGTTGTGGACCTAAAA
1 GAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
6347212 GGGTGCTACGGAGTGGTA
64 GGGTGCCACGGAGTTGTG
* * *
6347230 GACTTTAAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTTAAAA
1 GAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
6347295 GGGTGCCACGGAGTTGTG
64 GGGTGCCACGGAGTTGTG
* ** * * **
6347313 GACTTTAAAAGGGTGCTATAGAGTTGTGGACCTAAAAAGGTGCCACAAAGTTGTGGACTTAAAAG
1 GAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
*
6347378 GGTGCCACAGAGTTGTG
65 GGTGCCACGGAGTTGTG
* * *
6347395 GACTTTAAAGGGTGCCATGGAGTTATAGG-CTTAAAAG
1 GACTTAAAAGGGTGCCACGGAGTTGT-GGACTTAAAAG
6347432 AATGCCACAG
Statistics
Matches: 1487, Mismatches: 225, Indels: 75
0.83 0.13 0.04
Matches are distributed among these distances:
74 61 0.04
75 2 0.00
76 1 0.00
77 1 0.00
78 1 0.00
79 1 0.00
80 5 0.00
81 331 0.22
82 865 0.58
83 219 0.15
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.24
Consensus pattern (81 bp):
GACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
GTGCCACGGAGTTGTG
Found at i:6345919 original size:191 final size:190
Alignment explanation
Indices: 6345601--6347431 Score: 2060
Period size: 191 Copynumber: 9.6 Consensus size: 190
6345591 ATCGACTTGA
* *
6345601 GACTTAAAAGGGTGCCACGGAGTTATGGAC-TTAAAAGGGTGCCAC-GAAGTTGTGGACTTTAAA
1 GACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAA-GGTGCCACAG-AGTTGTGGAC-TTAAA
* * * *
6345664 AGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAGGGGTGCCAC
63 AGGGTGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
* * * * * *
6345729 GGAGTTATGGACTTAAAGGGGTGCCACGGAGTTATGGACTTAAAGGGGTGTCACGGAGTTGTG
128 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTG
**
6345792 GACTTTAAAAGGGTGCCACAGAGTTGTGGAC-TTAAATAGGTGCCACAGAGTTGTGGACCAAAAA
1 GAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTTAAA-AGGTGCCACAGAGTTGTGGACTTAAAA
* * *
6345856 GGGTGCTACAGAGTAGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACG
64 GGGTGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
* * *
6345921 AAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGAACTTTAAAAGGGTGCCACAGAGTTGTG
129 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTG
* * ** * *
6345984 GACCTAAAAGGGTGCCATAGAGTTGTGGAC-TTAAAAGGGTGCCATGGAGTTGTGGATTTTAAAG
1 GACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAA-GGTGCCACAGAGTTGTGGACTTAAAAG
* *
6346048 GGTGCCACAGAGTTGTGGGC-TT-AAA-AG-G----GGAGTTGTGGACTTTAAAGGGTGCCACGG
65 GGTGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
6346105 AGTTGTAGG-CTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGATGTG
130 AGTTGT-GGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTG
* * ** * * * *
6346166 GACTTAAATGGATGCCATGGAGTTGTGGACTTTAAAAAGGTACCACGGAGTTACT-GACTTTAAA
1 GACTTAAAAGGGTGCCACAGAGTTGTGGACTTT-AAAAGGTGCCACAGAGTT-GTGGACTTAAAA
6346230 GGGTGCCACAGAGTTGTGGAC-TTAAAAGGAG-GCCACGGAGTTGTGGACTTTAAAAGGGTGCCA
64 GGGTGCCACAGAGTTGTGGACTTTAAAA-GAGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCA
* * * * ** * *
6346293 CAGAGTTGTGGACTTTAGAGGGTGCTATAGAGTTGTGAACTTAAAAGGATGCCACAGAGTTGTG
127 CGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTG
* * *
6346357 GACTTAAAGGGGTGCCACAGAGTTGTGGACTTTAAAAGTGTACCATAGAGTTGTGGACTTAAAAG
1 GACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG-GTGCCACAGAGTTGTGGACTTAAAAG
* * * * * *
6346422 GGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCATGGAGTTATGGACTTAAAAGGATGCCATGG
65 GGTGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * * *
6346487 AGTTGTAGACTTTAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACAGAGATGTG
130 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTG
* * ** * *
6346548 GACTTAAAAGGATGCCACCGAGTTGTGGACTTTAAAAAGGTGCCATGGAGTTACT-GACTTTAAA
1 GACTTAAAAGGGTGCCACAGAGTTGTGGACTTT-AAAAGGTGCCACAGAGTT-GTGGACTTAAAA
* *
6346612 GGGTGCCACAGAGTTGTGAAC-TTAAAAGGAG-GCCACAGAGTTGTGGACTTTAAAAGGGTGCCA
64 GGGTGCCACAGAGTTGTGGACTTTAAAA-GAGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCA
** * * * * * *
6346675 TAGAGTTGTGGACTTTGAAA-GGTGCTATGGAGTTATGAACTTAAAAGGATGCCACAGAGTTGTG
127 CGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTG
* * * *
6346739 GACTTAAAGGGGTGCCACAGAGTTGTAGACTTTAAAAGTGTACCATAGAGTTGTGGACTTAAAAG
1 GACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAG-GTGCCACAGAGTTGTGGACTTAAAAG
* * * * * * *
6346804 AGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGGAGTTATAGACTTAAAAGGATGCCATGG
65 GGTGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * *
6346869 AGTTGTAGACCTT-AAAGGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCAC-GAAGATGTG
130 AGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG-AGTTGTG
* **
6346930 GACTTAAAAGGATGCCATGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAG
1 GACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAA-GGTGCCACAGAGTTGTGGACTTAAAAG
* * * ** * * *
6346994 GGTGCCACGGAGTTGTGAACTTTAAAAGGGCACCACGAAGTTGTAGACTTTAAAATGGTGCCACG
65 GGTGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
* ** ** *
6347059 GAGTTGTGGACCTAAAAGGGTGCCACAAAGTTGTGGACTTCGAAGGGTGCCACGGAGTTGTG
129 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTG
* * *
6347121 GACTTAAAGGGGTGCCACGGAGTTGTGGACTTTAAAAAGGTGCCACAGAGTTGTGGAGTTAAATA
1 GACTTAAAAGGGTGCCACAGAGTTGTGGACTTT-AAAAGGTGCCACAGAGTTGTGGACTTAAA-A
** * * * * * *
6347186 -GGTGCCATGGAGTTGTGGAC-CTAAAAGGGTGCTACGGAGTGGTAGACTTTAAAAGAGTGCCAC
64 GGGTGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCAC
* * *
6347249 GAAGTTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTG
128 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTG
* * * * *
6347313 GACTTTAAAAGGGTGCTATAGAGTTGTGGACCTAAAAAGGTGCCACAAAGTTGTGGACTTAAAAG
1 GAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGTGCCACAGAGTTGTGGACTTAAAAG
* * *
6347378 GGTGCCACAGAGTTGTGGACTTT-AAAGGGTGCCATGGAGTTATAGG-CTTAAAAG
65 GGTGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGT-GGACTTAAAAG
6347432 AATGCCACAG
Statistics
Matches: 1406, Mismatches: 188, Indels: 92
0.83 0.11 0.05
Matches are distributed among these distances:
182 49 0.03
183 101 0.07
184 10 0.01
186 3 0.00
187 1 0.00
188 2 0.00
189 3 0.00
190 125 0.09
191 822 0.58
192 257 0.18
193 33 0.02
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.24
Consensus pattern (190 bp):
GACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
GTGCCACAGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
GTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTG
Found at i:6346082 original size:20 final size:20
Alignment explanation
Indices: 6346057--6346096 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6346047 GGGTGCCACA
*
6346057 GAGTTGTGGGCTTAAAAGGG
1 GAGTTGTGGACTTAAAAGGG
*
6346077 GAGTTGTGGACTTTAAAGGG
1 GAGTTGTGGACTTAAAAGGG
6346097 TGCCACGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.05, G:0.42, T:0.28
Consensus pattern (20 bp):
GAGTTGTGGACTTAAAAGGG
Found at i:6346098 original size:47 final size:50
Alignment explanation
Indices: 6345601--6347431 Score: 476
Period size: 55 Copynumber: 33.7 Consensus size: 50
6345591 ATCGACTTGA
* * * * * *
6345601 GACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGAAGTTGTG
1 GACTTTAAAGGGTGCCACAGAGTTGTGGGCTTAAAA-GGAG---CGGAGTTGTG
* * * *
6345655 GACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTG
1 GACTTT-AAAGGGTGCCACAGAGTTGTGGGC-TTAAAA-GGAG---CGGAGTTGTG
* * * * * *
6345711 GAC-TTAAAGGGGTGCCACGGAGTTATGGACTTAAAGGGGTGCCACGGAGTTATG
1 GACTTTAAA-GGGTGCCACAGAGTTGTGGGCTTAAA-AGGAG---CGGAGTTGTG
* * * * *
6345765 GAC-TTAAAGGGGTGTCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTG
1 GACTTTAAA-GGGTGCCACAGAGTTGTGGGC-TTAAAA-GGAG---CGGAGTTGTG
* * ** * * *
6345820 GAC-TTAAATAGGTGCCACAGAGTTGTGGACCAAAAAGGGTGCTACAGAGTAGTG
1 GACTTTAAA-GGGTGCCACAGAGTTGTGGGCTTAAAA-GGAG---CGGAGTTGTG
* * * * *
6345874 GACTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGAAGTTGTG
1 GACTTT-AAAGGGTGCCACAGAGTTGTGGGCTTAAAAG-GAG---CGGAGTTGTG
* ** * *
6345929 GACTTAAAAGGGTGCCACAGAGTTGTGAACTTTAAAAGGGTGCCACAGAGTTGTG
1 GACTTTAAAGGGTGCCACAGAGTTGTGGGC-TTAAAA-GGAG---CGGAGTTGTG
* * * * *
6345984 GACCTAAAAGGGTGCCATAGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTG
1 GACTTTAAAGGGTGCCACAGAGTTGTGGGCTTAAAA-GGAG-C--GGAGTTGTG
*
6346038 GATTTTAAAGGGTGCCACAGAGTTGTGGGCTTAAAA-G-G-GGAGTTGTG
1 GACTTTAAAGGGTGCCACAGAGTTGTGGGCTTAAAAGGAGCGGAGTTGTG
* *
6346085 GACTTTAAAGGGTGCCACGGAGTTGTAGGCTTAAAAGGATGCCACGGAGTTGTG
1 GACTTTAAAGGGTGCCACAGAGTTGTGGGCTTAAAAGGA-G---CGGAGTTGTG
* * * *
6346139 GACTTAAAAGGGTGCCACAGAGATGTGGACTTAAATGGATGCCATGGAGTTGTG
1 GACTTTAAAGGGTGCCACAGAGTTGTGGGCTTAAAAGGA-G-C--GGAGTTGTG
* * * * * * * *
6346193 GACTTTAAAAAGGTACCACGGAGTTACT-GACTTTAAAGGGTGCCACAGAGTTGTG
1 GACTTT-AAAGGGTGCCACAGAGTT-GTGGGC-TTAAAAGGAG---CGGAGTTGTG
* * * * *
6346248 GACTTAAAAGGAG-GCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTG
1 GACTTTAAAGG-GTGCCACAGAGTTGTGGGC-TTAAAA-GGAG---CGGAGTTGTG
* * * ** *
6346303 GACTTTAGAGGGTGCTATAGAGTTGTGAACTTAAAAGGATGCCACAGAGTTGTG
1 GACTTTAAAGGGTGCCACAGAGTTGTGGGCTTAAAAGGA-G---CGGAGTTGTG
* * *
6346357 GAC-TTAAAGGGGTGCCACAGAGTTGTGGACTTTAAAAGTGTACCATAGAGTTGTG
1 GACTTTAAA-GGGTGCCACAGAGTTGTGGGC-TTAAAAG-G-AGC--GGAGTTGTG
* * * * *
6346412 GACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCATGGAGTTATG
1 GACTTTAAAGGGTGCCACAGAGTTGTGGGC-TTAAAAGGA-G-C--GGAGTTGTG
* * ** * * * *
6346467 GACTTAAAAGGATGCCATGGAGTTGTAGACTTTAAAGGGTGCCATGGAGTTGTG
1 GACTTTAAAGGGTGCCACAGAGTTGTGGGC-TTAAAAGGAG-C--GGAGTTGTG
* * * *
6346521 GACTTAAAAGGGTGCCACAGAGATGTGGACTTAAAAGGATGCCACCGAGTTGTG
1 GACTTTAAAGGGTGCCACAGAGTTGTGGGCTTAAAAGGA-G---CGGAGTTGTG
* ** * * * * *
6346575 GACTTTAAAAAGGTGCCATGGAGTTACT-GACTTTAAAGGGTGCCACAGAGTTGTG
1 GACTTT-AAAGGGTGCCACAGAGTT-GTGGGC-TTAAAAGGAG---CGGAGTTGTG
* * * * *
6346630 AACTTAAAAGGAG-GCCACAGAGTTGTGGACTTTAAAAGGGTGCCATAGAGTTGTG
1 GACTTTAAAGG-GTGCCACAGAGTTGTGGGC-TTAAAA-GGAG-C--GGAGTTGTG
* ** * ** *
6346685 GACTTTGAAA-GGTGCTATGGAGTTATGAACTTAAAAGGATGCCACAGAGTTGTG
1 GACTTT-AAAGGGTGCCACAGAGTTGTGGGCTTAAAAGGA-G---CGGAGTTGTG
* * * *
6346739 GAC-TTAAAGGGGTGCCACAGAGTTGTAGACTTTAAAAGTGTACCATAGAGTTGTG
1 GACTTTAAA-GGGTGCCACAGAGTTGTGGGC-TTAAAAG-G-AGC--GGAGTTGTG
* * * * * * *
6346794 GACTTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGGAGTTATA
1 GACTTTAAAGGGTGCCACAGAGTTGTGGGC-TTAAAAGGA-G---CGGAGTTGTG
* * ** ** * *
6346849 GACTTAAAAGGATGCCATGGAGTTGTAGACCTTAAAGGGTGCCATGGAGTTGTG
1 GACTTTAAAGGGTGCCACAGAGTTGT-GGGCTTAAAAGGAG-C--GGAGTTGTG
* * *
6346903 GACTTAAAAGGGTGCCAC-GAAGATGTGGACTTAAAAGGATGCCATGGAGTTGTG
1 GACTTTAAAGGGTGCCACAG-AGTTGTGGGCTTAAAAGGA-G-C--GGAGTTGTG
* * *
6346957 GACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTG
1 GACTTTAAAGGGTGCCACAGAGTTGTGGGCTTAAAA-GGAG---CGGAGTTGTG
* ** * * *
6347011 AACTTTAAAAGGGCACCAC-GAAGTTGTAGACTTTAAAATGGTGCCACGGAGTTGTG
1 GACTTT-AAAGGGTGCCACAG-AGTTGTGGGC-TTAAAA-GGAG---CGGAGTTGTG
* * * * * * *
6347067 GACCTAAAAGGGTGCCACAAAGTTGTGGACTTCGAAGGGTGCCACGGAGTTGTG
1 GACTTTAAAGGGTGCCACAGAGTTGTGGGCTT-AAAAGGAG---CGGAGTTGTG
* * * *
6347121 GAC-TTAAAGGGGTGCCACGGAGTTGTGGACTTTAAAAAGGTGCCACAGAGTTGTG
1 GACTTTAAA-GGGTGCCACAGAGTTGTGGGC-TT-AAAAGGAG---CGGAGTTGTG
* * ** * * * * *
6347176 GA-GTTAAATAGGTGCCATGGAGTTGTGGACCTAAAAGGGTGCTACGGAGTGGTA
1 GACTTTAAA-GGGTGCCACAGAGTTGTGGGCTTAAAA-GGAG---CGGAGTTGTG
* * *
6347230 GACTTTAAAAGAGTGCCAC-GAAGTTGTGGACTTAAAAGGTTGCCACGGAGTTGTG
1 GACTTT-AAAGGGTGCCACAG-AGTTGTGGGCTTAAAAGG-AG---CGGAGTTGTG
* * * *
6347285 GACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCTATAGAGTTGTG
1 GACTTT-AAAGGGTGCCACAGAGTTGTGGGC-TTAAAA-GGAGC---GGAGTTGTG
* * * * * * *
6347341 GACCTAAAAAGGTGCCACAAAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTG
1 GACTTTAAAGGGTGCCACAGAGTTGTGGGCTTAAAA-GGAG---CGGAGTTGTG
** * *
6347395 GACTTTAAAGGGTGCCATGGAGTTATAGGCTTAAAAG
1 GACTTTAAAGGGTGCCACAGAGTTGTGGGCTTAAAAG
6347432 AATGCCACAG
Statistics
Matches: 1455, Mismatches: 222, Indels: 201
0.77 0.12 0.11
Matches are distributed among these distances:
47 42 0.03
48 1 0.00
50 1 0.00
51 1 0.00
52 7 0.00
53 44 0.03
54 580 0.40
55 659 0.45
56 113 0.08
57 7 0.00
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.24
Consensus pattern (50 bp):
GACTTTAAAGGGTGCCACAGAGTTGTGGGCTTAAAAGGAGCGGAGTTGTG
Found at i:6355936 original size:20 final size:19
Alignment explanation
Indices: 6355905--6355981 Score: 100
Period size: 20 Copynumber: 3.9 Consensus size: 19
6355895 GTAAAAAGAC
6355905 AAAATGTATCGATACATTG
1 AAAATGTATCGATACATTG
* *
6355924 AAGAATATATCGATACATTC
1 AA-AATGTATCGATACATTG
*
6355944 ATACATGTATCGATACATTG
1 A-AAATGTATCGATACATTG
6355964 AAAAATGTATCGATACAT
1 -AAAATGTATCGATACAT
6355982 CTGGGTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.04
20 45 0.92
21 2 0.04
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (19 bp):
AAAATGTATCGATACATTG
Found at i:6356025 original size:20 final size:20
Alignment explanation
Indices: 6355999--6356053 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
6355989 AAAAAGACAG
* *
6355999 AATGTATCGATACATTCATA
1 AATGTATCGATACATTAAAA
*
6356019 TATGTATCGATACATTAAAA
1 AATGTATCGATACATTAAAA
6356039 AATGTATCGATACAT
1 AATGTATCGATACAT
6356054 CTGGGTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:6356044 original size:92 final size:91
Alignment explanation
Indices: 6355876--6356053 Score: 259
Period size: 92 Copynumber: 1.9 Consensus size: 91
6355866 TACATTATTC
*
6355876 AATGTATCAATACATCTGGGTAAAAAGACAAAATGTATCGATACATTGAAGAATATATCGATACA
1 AATGTATCAATACATCTGGGTAAAAAGACAAAATGTATCGATACATTCAAGAATATATCGATACA
* * *
6355941 TTCATACATGTATCGATACATTGAAA
66 TTAAAAAATGTATCGATACATTGAAA
* * * *
6355967 AATGTATCGATACATCTGGGTAAAAAAGACAGAATGTATCGATACATTCATA-TATGTATCGATA
1 AATGTATCAATACATCTGGGT-AAAAAGACAAAATGTATCGATACATTCA-AGAATATATCGATA
6356031 CATTAAAAAATGTATCGATACAT
64 CATTAAAAAATGTATCGATACAT
6356054 CTGGGTTAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
91 20 0.26
92 56 0.73
93 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (91 bp):
AATGTATCAATACATCTGGGTAAAAAGACAAAATGTATCGATACATTCAAGAATATATCGATACA
TTAAAAAATGTATCGATACATTGAAA
Found at i:6356104 original size:73 final size:72
Alignment explanation
Indices: 6355925--6356137 Score: 372
Period size: 73 Copynumber: 2.9 Consensus size: 72
6355915 GATACATTGA
*
6355925 AGAATATATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
1 AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
6355990 AAAAGAC
66 AAAAGAC
* *
6355997 AGAATGTATCGATACATTCATATATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTTA
1 AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGG-TA
6356062 AAAAAGAC
65 AAAAAGAC
* *
6356070 AGAATGTATCGATACATTCATACATGTATCGATACATTGGAAAATATATCGATACATCTGGGTAA
1 AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
6356135 AAA
66 AAA
6356138 TGTGATTTTT
Statistics
Matches: 133, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
72 65 0.49
73 68 0.51
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (72 bp):
AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
AAAAGAC
Found at i:6358275 original size:4 final size:4
Alignment explanation
Indices: 6358258--6358305 Score: 55
Period size: 4 Copynumber: 12.5 Consensus size: 4
6358248 ATTTTCATGC
* * *
6358258 ATAT -TAT A-AT ATAT ATAT ATAT ATAT ATAT AGAT AGAT ATAG ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
6358304 AT
1 AT
6358306 TAGCTTGCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 6 0.16
4 32 0.84
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (4 bp):
ATAT
Found at i:6358277 original size:6 final size:6
Alignment explanation
Indices: 6358258--6358305 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
6358248 ATTTTCATGC
* * *
6358258 ATAT-T ATA-AT ATATAT ATATAT ATATAT ATAGAT AGATAT AGATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
6358304 AT
1 AT
6358306 TAGCTTGCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
5 7 0.19
6 30 0.81
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (6 bp):
ATATAT
Found at i:6358279 original size:10 final size:10
Alignment explanation
Indices: 6358258--6358305 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
6358248 ATTTTCATGC
6358258 ATAT-TATA-
1 ATATATATAT
6358266 ATATATATAT
1 ATATATATAT
6358276 ATATATATAT
1 ATATATATAT
* *
6358286 ATAGATAGAT
1 ATATATATAT
*
6358296 ATAGATATAT
1 ATATATATAT
6358306 TAGCTTGCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
8 4 0.11
9 4 0.11
10 27 0.77
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (10 bp):
ATATATATAT
Found at i:6358769 original size:13 final size:13
Alignment explanation
Indices: 6358751--6358775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6358741 TTAAAAATGT
6358751 TAAAAATTATTAA
1 TAAAAATTATTAA
6358764 TAAAAATTATTA
1 TAAAAATTATTA
6358776 TTGTATAAAC
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAAATTATTAA
Found at i:6359838 original size:13 final size:13
Alignment explanation
Indices: 6359820--6359844 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6359810 TTAAAAATGT
6359820 TAAAAATTATTAA
1 TAAAAATTATTAA
6359833 TAAAAATTATTA
1 TAAAAATTATTA
6359845 TTGTATAAAC
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAAATTATTAA
Found at i:6364418 original size:13 final size:14
Alignment explanation
Indices: 6364382--6364419 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
6364372 ACAAACAGTA
6364382 AATGTATCGATACAT
1 AATGTATCGATA-AT
6364397 AAGTGTATCGAT-AT
1 AA-TGTATCGATAAT
6364411 AATGTATCG
1 AATGTATCG
6364420 CTACAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.32
14 4 0.18
15 2 0.09
16 9 0.41
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (14 bp):
AATGTATCGATAAT
Found at i:6368206 original size:34 final size:34
Alignment explanation
Indices: 6368129--6368258 Score: 169
Period size: 34 Copynumber: 3.9 Consensus size: 34
6368119 AGTGATTGAG
* *
6368129 AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAGAA
1 AGGTTCTATCTTAGCCTGTG-AAAAGATAGTGA-AA
6368165 AGGTTCTATCTTAGCCTGTGAAAAGATAGTGAAA
1 AGGTTCTATCTTAGCCTGTGAAAAGATAGTGAAA
* *
6368199 AGGTTCTATCTTAGCTTGTGAAAAGATAG-G--G
1 AGGTTCTATCTTAGCCTGTGAAAAGATAGTGAAA
*
6368230 AGGTTCTATCTTAGCCT-TCAAAAGATAGT
1 AGGTTCTATCTTAGCCTGTGAAAAGATAGT
6368259 TTGTAAGGTT
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
30 10 0.11
31 16 0.18
33 1 0.01
34 30 0.34
35 11 0.13
36 19 0.22
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (34 bp):
AGGTTCTATCTTAGCCTGTGAAAAGATAGTGAAA
Found at i:6368268 original size:65 final size:69
Alignment explanation
Indices: 6368129--6368258 Score: 191
Period size: 65 Copynumber: 1.9 Consensus size: 69
6368119 AGTGATTGAG
*
6368129 AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAGAAAGGTTCTATCTTAGCCTGTGAAAAGATAG
1 AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAG-AAGGTTCTATCTTAGCCTGTCAAAAGATAG
6368194 TGAAA
65 TGAAA
6368199 AGGTTCTATCTTAG-CTTGTG-AAAAGATA-GG-G-AGGTTCTATCTTAGCCT-TCAAAAGATAG
1 AGGTTCTATCTTAGCCTT-TGAAAAAGATAGGGAGAAGGTTCTATCTTAGCCTGTCAAAAGATAG
6368258 T
65 T
6368259 TTGTAAGGTT
Statistics
Matches: 58, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
64 11 0.19
65 17 0.29
67 1 0.02
68 2 0.03
69 11 0.19
70 16 0.28
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (69 bp):
AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAGAAGGTTCTATCTTAGCCTGTCAAAAGATAGT
GAAA
Found at i:6368932 original size:19 final size:19
Alignment explanation
Indices: 6368910--6368958 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
6368900 AAAGGGTATT
6368910 ATTATTTTTTGAAAAAAAA
1 ATTATTTTTTGAAAAAAAA
* * *
6368929 ATTATTTATTTTATAACAAA
1 ATTATTT-TTTGAAAAAAAA
*
6368949 ATCATTTTTT
1 ATTATTTTTT
6368959 AGTAATTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTATTTTTTGAAAAAAAA
Found at i:6370729 original size:21 final size:20
Alignment explanation
Indices: 6370689--6370729 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
6370679 ATATAAAATG
* *
6370689 TGATATAATGTTATACTCTA
1 TGATATAATATTATAATCTA
6370709 TGATATACATATTATAATCTA
1 TGATATA-ATATTATAATCTA
6370730 CTATATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (20 bp):
TGATATAATATTATAATCTA
Found at i:6371126 original size:17 final size:17
Alignment explanation
Indices: 6371088--6371129 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
6371078 AAGTTTGTAT
*
6371088 ATATAATAAATATATTA
1 ATATAATAAAGATATTA
*
6371105 TTATAATATAAGATA-TA
1 ATATAATA-AAGATATTA
6371122 ATATAATA
1 ATATAATA
6371130 CTATTAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATAATAAAGATATTA
Found at i:6375311 original size:18 final size:19
Alignment explanation
Indices: 6375285--6375323 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
6375275 ACAATTAAAA
*
6375285 ATAATGAGAT-TAAATTTG
1 ATAAGGAGATATAAATTTG
6375303 ATAAGGAGATAATAAATTTG
1 ATAAGGAGAT-ATAAATTTG
6375323 A
1 A
6375324 AGAAAAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (19 bp):
ATAAGGAGATATAAATTTG
Found at i:6378569 original size:26 final size:27
Alignment explanation
Indices: 6378531--6378604 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 27
6378521 TTAGTAATGT
*
6378531 AAAC-ACATGTAAATAAAA-AA-GCATA
1 AAACAACATATAAA-AAAATAAGGCATA
*
6378556 ACACAACATATAAAAAAATAATGGCATA
1 AAACAACATATAAAAAAATAA-GGCATA
*
6378584 AAACAACATACAAAAAAATAA
1 AAACAACATATAAAAAAATAA
6378605 TTACATATGC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 7 0.17
26 10 0.24
28 24 0.59
ACGTcount: A:0.66, C:0.14, G:0.05, T:0.15
Consensus pattern (27 bp):
AAACAACATATAAAAAAATAAGGCATA
Found at i:6378582 original size:28 final size:28
Alignment explanation
Indices: 6378551--6378605 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
6378541 AAATAAAAAA
* *
6378551 GCATAACACAACATATAAAAAAATAATG
1 GCATAAAACAACATACAAAAAAATAATG
6378579 GCATAAAACAACATACAAAAAAATAAT
1 GCATAAAACAACATACAAAAAAATAAT
6378606 TACATATGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.64, C:0.15, G:0.05, T:0.16
Consensus pattern (28 bp):
GCATAAAACAACATACAAAAAAATAATG
Found at i:6380388 original size:20 final size:21
Alignment explanation
Indices: 6380363--6380412 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
6380353 TATCACTCAT
6380363 TTTTTCTTAC-TTTT-CCTCTC
1 TTTTTCTT-CTTTTTACCTCTC
6380383 TTTTTC-TCTTTTTACCTCTC
1 TTTTTCTTCTTTTTACCTCTC
6380403 TTTATTCTTC
1 TTT-TTCTTC
6380413 CATTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.04
19 5 0.19
20 15 0.58
21 3 0.12
22 2 0.08
ACGTcount: A:0.06, C:0.28, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTCTTCTTTTTACCTCTC
Found at i:6381171 original size:27 final size:27
Alignment explanation
Indices: 6381119--6381171 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
6381109 TGCAGCCTTC
*
6381119 ACTATTTCAAATTGAATTTCATAATTT
1 ACTATTTCAAATTGAATTTCAAAATTT
6381146 ACTATTTCAAATTGAATGTT-AAAATT
1 ACTATTTCAAATTGAAT-TTCAAAATT
6381172 GGCGGCACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (27 bp):
ACTATTTCAAATTGAATTTCAAAATTT
Found at i:6381191 original size:12 final size:12
Alignment explanation
Indices: 6381170--6381201 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
6381160 AATGTTAAAA
*
6381170 TTGGCGGCACAG
1 TTGGCAGCACAG
6381182 TTGGCAGCACAG
1 TTGGCAGCACAG
6381194 TTGGCAGC
1 TTGGCAGC
6381202 CTTTGTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.25, G:0.38, T:0.19
Consensus pattern (12 bp):
TTGGCAGCACAG
Found at i:6384752 original size:16 final size:16
Alignment explanation
Indices: 6384731--6384761 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6384721 TAATGCACCT
6384731 AATTTTCATTTATATA
1 AATTTTCATTTATATA
6384747 AATTTTCATTTATAT
1 AATTTTCATTTATAT
6384762 TTATCAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTTTCATTTATATA
Found at i:6385444 original size:2 final size:2
Alignment explanation
Indices: 6385439--6385476 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6385429 GATATATATA
6385439 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
6385477 ATCTTAGGCT
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:6389970 original size:37 final size:39
Alignment explanation
Indices: 6389928--6390003 Score: 120
Period size: 37 Copynumber: 2.0 Consensus size: 39
6389918 ACATCTCCAG
*
6389928 CCATGTAATATTATATCCA-TT-TGTCTTCATCTTTTCT
1 CCATGTAATATTATATCCATTTATGTCTTCATCTCTTCT
*
6389965 CCATGTAATATTTTATCCATTTATGTCTTCATCTCTTCT
1 CCATGTAATATTATATCCATTTATGTCTTCATCTCTTCT
6390004 ATTCCTTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 18 0.51
38 2 0.06
39 15 0.43
ACGTcount: A:0.21, C:0.22, G:0.05, T:0.51
Consensus pattern (39 bp):
CCATGTAATATTATATCCATTTATGTCTTCATCTCTTCT
Found at i:6391675 original size:24 final size:25
Alignment explanation
Indices: 6391647--6391718 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 25
6391637 TTTTAGATTA
*
6391647 ATTTAATTTAATTTAAAATATTATT
1 ATTTAATTTAATATAAAATATTATT
* * * *
6391672 -TTTAAATTAAAATAATATATTTTT
1 ATTTAATTTAATATAAAATATTATT
6391696 ATTTAAATTTAATCATAAAATAT
1 ATTT-AATTTAAT-ATAAAATAT
6391719 AAAAATATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
24 19 0.53
25 3 0.08
26 6 0.17
27 8 0.22
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTAATTTAATATAAAATATTATT
Found at i:6391701 original size:20 final size:19
Alignment explanation
Indices: 6391653--6391702 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
6391643 ATTAATTTAA
6391653 TTTAATTTAAAATATTATT
1 TTTAATTTAAAATATTATT
*
6391672 TTTAAATTAAAATAATATATT
1 TTTAATTTAAAAT-AT-TATT
6391693 TTT-ATTTAAA
1 TTTAATTTAAA
6391703 TTTAATCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 12 0.44
20 8 0.30
21 7 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTAATTTAAAATATTATT
Found at i:6392678 original size:27 final size:26
Alignment explanation
Indices: 6392638--6392707 Score: 88
Period size: 27 Copynumber: 2.7 Consensus size: 26
6392628 TATACATATT
**
6392638 ATTTAAAATAAATATATTATT-TTTA
1 ATTTAAAATAAATATATTATTAGGTA
*
6392663 ATTTAAAAATACAATATATTCTTAGGTA
1 ATTT-AAAATA-AATATATTATTAGGTA
6392691 ATTTAAAATAAATATAT
1 ATTTAAAATAAATATAT
6392708 AAAATAAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
25 4 0.10
26 13 0.33
27 16 0.41
28 6 0.15
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (26 bp):
ATTTAAAATAAATATATTATTAGGTA
Found at i:6395625 original size:2 final size:2
Alignment explanation
Indices: 6395620--6395658 Score: 51
Period size: 2 Copynumber: 18.0 Consensus size: 2
6395610 ATGATATGGA
6395620 AT AT AT AT AT GAT AT AT AT AT AT AT AT AT CAT AT CAT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT -AT AT -AT AT
6395659 CATACGTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 28 0.82
3 6 0.18
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6395629 original size:13 final size:13
Alignment explanation
Indices: 6395604--6395653 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
6395594 TATAATGAGA
6395604 ATATATATGATATGG
1 ATATATAT-ATAT-G
6395619 A-ATATATATATG
1 ATATATATATATG
6395631 ATATATATATAT-
1 ATATATATATATG
6395643 ATATATCATAT
1 ATATAT-ATAT
6395654 CATATCATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.24
13 18 0.55
14 6 0.18
15 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (13 bp):
ATATATATATATG
Found at i:6396442 original size:34 final size:33
Alignment explanation
Indices: 6396404--6396474 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
6396394 ATTTACTGTC
* * * *
6396404 AAATAATGATAACGTTTTTAAGGAATATTATAAA
1 AAATAATAATAACATTTTTAAAGAATACTA-AAA
*
6396438 AAATAATAATAATATTTTTAAAGAATACTAAAA
1 AAATAATAATAACATTTTTAAAGAATACTAAAA
6396471 AAAT
1 AAAT
6396475 TCACTATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 7 0.22
34 25 0.78
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (33 bp):
AAATAATAATAACATTTTTAAAGAATACTAAAA
Found at i:6396779 original size:21 final size:21
Alignment explanation
Indices: 6396753--6396823 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
6396743 TAATCTTAAC
6396753 TATGATTTTGATAAATTTTGA
1 TATGATTTTGATAAATTTTGA
* * ***
6396774 TATGATTTTAAT-CATACCGA
1 TATGATTTTGATAAATTTTGA
*
6396794 TATGATTTTGATAACTTTT-A
1 TATGATTTTGATAAATTTTGA
6396814 GTATGATTTT
1 -TATGATTTT
6396824 ACTAATTTTT
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
20 16 0.43
21 21 0.57
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.51
Consensus pattern (21 bp):
TATGATTTTGATAAATTTTGA
Found at i:6396833 original size:21 final size:20
Alignment explanation
Indices: 6396794--6396850 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
6396784 ATCATACCGA
*
6396794 TATGATTTTGATAACTTTTAG
1 TATGATTTT-ATAATTTTTAG
6396815 TATGATTTTACTAATTTTTAG
1 TATGATTTTA-TAATTTTTAG
*
6396836 TATAATTTTAATAAT
1 TATGATTTT-ATAAT
6396851 GTATTTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (20 bp):
TATGATTTTATAATTTTTAG
Found at i:6396988 original size:21 final size:21
Alignment explanation
Indices: 6396971--6397010 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6396961 TACAATTATT
*
6396971 GTAACTTTTTATATAATTTTG
1 GTAACTTTTTAAATAATTTTG
6396992 GTAACTTTTTAAATAATTT
1 GTAACTTTTTAAATAATTT
6397011 GAATAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (21 bp):
GTAACTTTTTAAATAATTTTG
Found at i:6397695 original size:32 final size:31
Alignment explanation
Indices: 6397653--6397713 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
6397643 ATTTAGTAAC
* *
6397653 TTTTACTATAATTTTGATAACTTGTTGATAAT
1 TTTTAATATAATTTTGATAACCT-TTGATAAT
6397685 TTTTAATATAATTTTGATAACCTTTGATA
1 TTTTAATATAATTTTGATAACCTTTGATA
6397714 TAATTTTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.52
Consensus pattern (31 bp):
TTTTAATATAATTTTGATAACCTTTGATAAT
Found at i:6397701 original size:21 final size:21
Alignment explanation
Indices: 6397690--6397762 Score: 101
Period size: 21 Copynumber: 3.5 Consensus size: 21
6397680 ATAATTTTTA
6397690 ATATAATTTTGATAACCTTTG
1 ATATAATTTTGATAACCTTTG
*
6397711 ATATAATTTTGATAACATTTG
1 ATATAATTTTGATAACCTTTG
* * * *
6397732 ATGTATTTTTAATAATCTTTG
1 ATATAATTTTGATAACCTTTG
6397753 ATATAATTTT
1 ATATAATTTT
6397763 TGACAATCTT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.52
Consensus pattern (21 bp):
ATATAATTTTGATAACCTTTG
Found at i:6397723 original size:42 final size:42
Alignment explanation
Indices: 6397677--6397965 Score: 119
Period size: 42 Copynumber: 7.0 Consensus size: 42
6397667 TGATAACTTG
** *
6397677 TTGATAATTTTTAATATAATTTTGATAACCTTTGATATAATT
1 TTGATAACATTTAATATAATTTTAATAACCTTTGATATAATT
* * * *
6397719 TTGATAACATTTGATGTATTTTTAATAATCTTTGATATAATT
1 TTGATAACATTTAATATAATTTTAATAACCTTTGATATAATT
* * * ** * *
6397761 TT--TGACA-AT-CT-TGGTTTTAGTAACTTTTGATATAATTT
1 TTGATAACATTTAATATAATTTTAATAACCTTTGATATAA-TT
* * * * * * * *
6397799 TTAATAGCCTTTAATATGATTTTGATAACTTTTAATATAATG
1 TTGATAACATTTAATATAATTTTAATAACCTTTGATATAATT
* * * * * * *
6397841 TTGGTAACCTTTACTACAATTTTAGTAACATTTAATATAA-T
1 TTGATAACATTTAATATAATTTTAATAACCTTTGATATAATT
* * ** * ** *
6397882 TTAATAACCTTCGATATGATTTCT-AT-AGTTTTTAGTATAATT
1 TTGATAACATTTAATATAATTT-TAATAACCTTTGA-TATAATT
* **
6397924 TTGATAAC-TTCTAATATAATTTTAACAATATTTGATATAATT
1 TTGATAACATT-TAATATAATTTTAATAACCTTTGATATAATT
6397966 GCAATATGAT
Statistics
Matches: 181, Mismatches: 54, Indels: 24
0.70 0.21 0.09
Matches are distributed among these distances:
37 19 0.10
38 5 0.03
39 1 0.01
40 11 0.06
41 25 0.14
42 95 0.52
43 25 0.14
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.49
Consensus pattern (42 bp):
TTGATAACATTTAATATAATTTTAATAACCTTTGATATAATT
Found at i:6397832 original size:21 final size:21
Alignment explanation
Indices: 6397781--6397946 Score: 104
Period size: 21 Copynumber: 7.9 Consensus size: 21
6397771 TTGGTTTTAG
* *
6397781 TAACTTTTGATATAATTTTTAA
1 TAACTTTTAATATAA-TTTTGA
* * *
6397803 TAGCCTTTAATATGATTTTGA
1 TAACTTTTAATATAATTTTGA
* *
6397824 TAACTTTTAATATAATGTTGG
1 TAACTTTTAATATAATTTTGA
* * *
6397845 TAACCTTTACTACAATTTT-A
1 TAACTTTTAATATAATTTTGA
* *
6397865 GTAACATTTAATATAA-TTTAA
1 -TAACTTTTAATATAATTTTGA
* ** *
6397886 TAACCTTCGATATGATTTCT-A
1 TAACTTTTAATATAATTT-TGA
** *
6397907 TAGTTTTTAGTATAATTTTGA
1 TAACTTTTAATATAATTTTGA
*
6397928 TAACTTCTAATATAATTTT
1 TAACTTTTAATATAATTTT
6397947 AACAATATTT
Statistics
Matches: 106, Mismatches: 33, Indels: 11
0.71 0.22 0.07
Matches are distributed among these distances:
20 15 0.14
21 79 0.75
22 12 0.11
ACGTcount: A:0.34, C:0.09, G:0.08, T:0.49
Consensus pattern (21 bp):
TAACTTTTAATATAATTTTGA
Found at i:6397945 original size:83 final size:83
Alignment explanation
Indices: 6397775--6397965 Score: 197
Period size: 83 Copynumber: 2.3 Consensus size: 83
6397765 ACAATCTTGG
* * *
6397775 TTTTAGTAACTTTTGATATAATTTTTAATAGCCTTTAATATGATTTTGATAACTTTTAATATAAT
1 TTTTAGTAACATTTGATATAA--TTTAATAACCTTCAATATGATTTTGATAACTTTTAATATAAT
* *
6397840 GTTGGTAACCTTTACTACAA
64 GTTGATAACCTTTAATACAA
* * ** * *
6397860 TTTTAGTAACATTTAATATAATTTAATAACCTTCGATATGATTTCT-ATAGTTTTTAGTATAATT
1 TTTTAGTAACATTTGATATAATTTAATAACCTTCAATATGATTT-TGATAACTTTTAATATAATG
*
6397924 TTGATAA-CTTCTAATATAA
65 TTGATAACCTT-TAATACAA
** *
6397943 TTTTAACAATATTTGATATAATT
1 TTTTAGTAACATTTGATATAATT
6397966 GCAATATGAT
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
82 3 0.03
83 65 0.74
84 1 0.01
85 19 0.22
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (83 bp):
TTTTAGTAACATTTGATATAATTTAATAACCTTCAATATGATTTTGATAACTTTTAATATAATGT
TGATAACCTTTAATACAA
Found at i:6397947 original size:32 final size:32
Alignment explanation
Indices: 6397911--6398086 Score: 93
Period size: 32 Copynumber: 5.6 Consensus size: 32
6397901 TTTCTATAGT
6397911 TTTTAGTATAATTTTGATA-ACTTCTAATATAA
1 TTTTA-TATAATTTTGATATACTTCTAATATAA
* * *
6397943 TTTTA-ACAATATTTGATATAATTGC-AATATGA
1 TTTTATATAAT-TTTGATATACTT-CTAATATAA
* * * *
6397975 TTTTGT-TAACCTTTGATATACTTTTAATA-ATT
1 TTTTATATAA-TTTTGATATACTTCTAATATA-A
* * *
6398007 TTTTATATAATTTT-A-ATAATTTTAATATGA
1 TTTTATATAATTTTGATATACTTCTAATATAA
* * *
6398037 TTTTA-ATAACTTTTGATATAATTTTAATGT--
1 TTTTATATAA-TTTTGATATACTTCTAATATAA
*
6398067 TTTTGATATAGTTTTGATAT
1 TTTT-ATATAATTTTGATAT
6398087 GTGATAATAC
Statistics
Matches: 113, Mismatches: 17, Indels: 29
0.71 0.11 0.18
Matches are distributed among these distances:
29 4 0.04
30 28 0.25
31 19 0.17
32 58 0.51
33 4 0.04
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (32 bp):
TTTTATATAATTTTGATATACTTCTAATATAA
Found at i:6398006 original size:62 final size:61
Alignment explanation
Indices: 6397939--6398064 Score: 139
Period size: 62 Copynumber: 2.0 Consensus size: 61
6397929 AACTTCTAAT
** *
6397939 ATAA-TTTTA-ACAATATTTGATATAATTGCAATATGATTTTGTTAACCTTTGATATACTTTTA
1 ATAATTTTTATACAAT-TTT-A-ATAATTGCAATATGATTTTAATAACCTTTGATATAATTTTA
* ** *
6398001 ATAATTTTTTATATAATTTTAATAATTTTAATATGATTTTAATAACTTTTGATATAATTTTA
1 ATAA-TTTTTATACAATTTTAATAATTGCAATATGATTTTAATAACCTTTGATATAATTTTA
6398063 AT
1 AT
6398065 GTTTTTGATA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
62 41 0.76
63 1 0.02
64 8 0.15
65 4 0.07
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (61 bp):
ATAATTTTTATACAATTTTAATAATTGCAATATGATTTTAATAACCTTTGATATAATTTTA
Found at i:6398072 original size:20 final size:21
Alignment explanation
Indices: 6397986--6398081 Score: 115
Period size: 21 Copynumber: 4.7 Consensus size: 21
6397976 TTTGTTAACC
*
6397986 TTTGATATACTTTTAATAATT
1 TTTGATATAATTTTAATAATT
*
6398007 TTTTATATAATTTTAATAA-T
1 TTTGATATAATTTTAATAATT
* * *
6398027 TTTAATATGATTTTAATAACT
1 TTTGATATAATTTTAATAATT
*
6398048 TTTGATATAATTTTAAT-GTT
1 TTTGATATAATTTTAATAATT
*
6398068 TTTGATATAGTTTT
1 TTTGATATAATTTT
6398082 GATATGTGAT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
20 32 0.49
21 33 0.51
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.58
Consensus pattern (21 bp):
TTTGATATAATTTTAATAATT
Found at i:6398095 original size:62 final size:62
Alignment explanation
Indices: 6397968--6398111 Score: 157
Period size: 62 Copynumber: 2.3 Consensus size: 62
6397958 ATATAATTGC
* * * * *
6397968 AATATGATTTTGTTAACCTTTGATATACTTTTAATAATTTTTTATATAATTTTAATAATTTT
1 AATATGATTTTGATAACTTTTGATATAATTTTAATAATTTTTGATATAATTTTAATAATTAT
* * * *
6398030 AATATGATTTTAATAACTTTTGATATAATTTTAAT-GTTTTTGATATAGTTTTGAT-ATGTGAT
1 AATATGATTTTGATAACTTTTGATATAATTTTAATAATTTTTGATATAATTTTAATAAT-T-AT
**
6398092 AATACAATTTTGATAACTTT
1 AATATGATTTTGATAACTTT
6398112 GTAATGACTT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
60 2 0.03
61 17 0.25
62 49 0.72
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.53
Consensus pattern (62 bp):
AATATGATTTTGATAACTTTTGATATAATTTTAATAATTTTTGATATAATTTTAATAATTAT
Found at i:6398398 original size:21 final size:21
Alignment explanation
Indices: 6398374--6398679 Score: 97
Period size: 21 Copynumber: 14.6 Consensus size: 21
6398364 GTAATCTTTG
*
6398374 ATATAATTTTGGTAACTTTTA
1 ATATAATTTTGATAACTTTTA
*
6398395 ATATAAATTTT-ATAACATTTA
1 ATAT-AATTTTGATAACTTTTA
* *
6398416 CA-A-AAGTTTTGATAATTTTTT
1 -ATATAA-TTTTGATAACTTTTA
6398437 ATATAATTTTGATAA-TCTTT-
1 ATATAATTTTGATAACT-TTTA
*** * * *
6398457 ATAGCGGTTTTAATAA-TCTGA
1 ATA-TAATTTTGATAACTTTTA
*
6398478 GATATAA-TTTG-TGAAC-TTTG
1 -ATATAATTTTGAT-AACTTTTA
* *
6398498 ATATAATTTCGATAA-TTTTT
1 ATATAATTTTGATAACTTTTA
*
6398518 ATATAATTTTTGTGATAACCTTTA
1 ATATAA--TTT-TGATAACTTTTA
* * * *
6398542 AAATAATATTAATAACTTTTG
1 ATATAATTTTGATAACTTTTA
*
6398563 AT-TAATTTTTATTAACATTTGTA
1 ATATAATTTTGA-TAAC-TTT-TA
*
6398586 A-A-AATTTTGATCACCTTTGT-
1 ATATAATTTTGAT-AACTTT-TA
* * * *
6398606 A-ATAATCTTGACAACATTTG
1 ATATAATTTTGATAACTTTTA
*
6398626 ATATAATTTTGATAACATTTGA
1 ATATAATTTTGATAAC-TTTTA
* *
6398648 A-ATAAATATGATAACTTCTT-
1 ATATAATTTTGATAACTT-TTA
6398668 ATATAATTTTGA
1 ATATAATTTTGA
6398680 AAAACATTTG
Statistics
Matches: 207, Mismatches: 48, Indels: 60
0.66 0.15 0.19
Matches are distributed among these distances:
19 10 0.05
20 47 0.23
21 103 0.50
22 32 0.15
23 7 0.03
24 8 0.04
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.47
Consensus pattern (21 bp):
ATATAATTTTGATAACTTTTA
Found at i:6398908 original size:9 final size:9
Alignment explanation
Indices: 6398894--6398933 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
6398884 ACTTAAAAAA
6398894 TAATAATTT
1 TAATAATTT
6398903 TAATAATTT
1 TAATAATTT
6398912 TAATAACTTT
1 TAATAA-TTT
*
6398922 TGATATATTT
1 TAATA-ATTT
6398932 TA
1 TA
6398934 TACCAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 15 0.56
10 11 0.41
11 1 0.04
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (9 bp):
TAATAATTT
Found at i:6398917 original size:18 final size:20
Alignment explanation
Indices: 6398894--6398933 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
6398884 ACTTAAAAAA
6398894 TAATAA-TTTTAATA-ATTT
1 TAATAACTTTTAATATATTT
*
6398912 TAATAACTTTTGATATATTT
1 TAATAACTTTTAATATATTT
6398932 TA
1 TA
6398934 TACCAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 7 0.37
20 6 0.32
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
TAATAACTTTTAATATATTT
Found at i:6400482 original size:16 final size:14
Alignment explanation
Indices: 6400463--6400523 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
6400453 CCCCCACTTG
6400463 TTTATTTTAATTATAT
1 TTTATTTT-ATTA-AT
6400479 TTTATTTTATTAAT
1 TTTATTTTATTAAT
** *
6400493 TTT-TAATATAAAT
1 TTTATTTTATTAAT
* *
6400506 ATTATTTTAATAAT
1 TTTATTTTATTAAT
6400520 TTTA
1 TTTA
6400524 ATTATTATTT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
13 9 0.26
14 14 0.40
15 4 0.11
16 8 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTATTTTATTAAT
Found at i:6400497 original size:15 final size:16
Alignment explanation
Indices: 6400463--6400495 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6400453 CCCCCACTTG
6400463 TTTATTTTAATTATAT
1 TTTATTTTAATTATAT
6400479 TTTATTTT-ATTA-AT
1 TTTATTTTAATTATAT
6400493 TTT
1 TTT
6400496 TAATATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 4 0.24
16 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTATTTTAATTATAT
Found at i:6400519 original size:27 final size:26
Alignment explanation
Indices: 6400467--6400527 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
6400457 CACTTGTTTA
* * *
6400467 TTTTAATTATATTTTATTTTATTAAT
1 TTTTAATTAAATATTATTTTAATAAT
6400493 TTTTAATATAAATATTATTTTAATAA-
1 TTTTAAT-TAAATATTATTTTAATAAT
6400519 TTTTAATTA
1 TTTTAATTA
6400528 TTATTTAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.06
26 14 0.45
27 15 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTTAATTAAATATTATTTTAATAAT
Found at i:6406286 original size:19 final size:18
Alignment explanation
Indices: 6406272--6406312 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
6406262 CTTAAATACG
6406272 ATATAAAAAAATAAATAA
1 ATATAAAAAAATAAATAA
*
6406290 ATAT-AAAAAATAATTAA
1 ATATAAAAAAATAAATAA
*
6406307 AAATAA
1 ATATAA
6406313 GATAAATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
ATATAAAAAAATAAATAA
Found at i:6406373 original size:18 final size:19
Alignment explanation
Indices: 6406325--6406390 Score: 65
Period size: 18 Copynumber: 3.7 Consensus size: 19
6406315 TAAATGTACG
6406325 AATATGTTAATATTTATAT-
1 AATAT-TTAATATTTATATA
6406344 AATA-TT-A-A-TTAT-TA
1 AATATTTAATATTTATATA
6406358 ATATATTTAA-ATTTATATA
1 A-ATATTTAATATTTATATA
6406377 AATATTTAATATTT
1 AATATTTAATATTT
6406391 TAAATATAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 1 0.03
14 5 0.12
15 4 0.10
16 3 0.08
17 4 0.10
18 12 0.30
19 11 0.28
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
AATATTTAATATTTATATA
Found at i:6406407 original size:27 final size:27
Alignment explanation
Indices: 6406334--6406405 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
6406324 GAATATGTTA
* *
6406334 ATATTTATA-TAATATTAAT-TATTAAT
1 ATATTTAAATTAATATAAATAT-TTAAT
*
6406360 ATATTTAAATTTATATAAATATTTAAT
1 ATATTTAAATTAATATAAATATTTAAT
6406387 AT-TTTAAATATAATTATAA
1 ATATTTAAAT-TAA-TATAA
6406406 TAAATAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 15 0.39
27 17 0.45
28 6 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
ATATTTAAATTAATATAAATATTTAAT
Found at i:6406423 original size:45 final size:52
Alignment explanation
Indices: 6406325--6406427 Score: 130
Period size: 45 Copynumber: 2.1 Consensus size: 52
6406315 TAAATGTACG
* **
6406325 AATATGTTAATATTTATATAATATTAATTATTAATATATTTAAATTTATATA
1 AATATGTTAATATTTATATAATATTAATTATTAATATATATAAAAATATATA
6406377 AATAT-TTAATATTT-TA-AATA-TAATTA-TAATA-A-ATAAAAATATATA
1 AATATGTTAATATTTATATAATATTAATTATTAATATATATAAAAATATATA
6406422 AATATG
1 AATATG
6406428 GTGAAATGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
45 15 0.32
46 1 0.02
47 5 0.11
48 6 0.13
49 4 0.09
50 2 0.04
51 9 0.19
52 5 0.11
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (52 bp):
AATATGTTAATATTTATATAATATTAATTATTAATATATATAAAAATATATA
Found at i:6406610 original size:1 final size:1
Alignment explanation
Indices: 6406604--6406631 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
6406594 TGCATGATGG
6406604 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
6406632 CAAAATGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6410360 original size:448 final size:446
Alignment explanation
Indices: 6408978--6410535 Score: 1336
Period size: 446 Copynumber: 3.6 Consensus size: 446
6408968 TTTTTATATA
* * * * *
6408978 TTTTATAAGATTTATATAAGATTTGTATATCTTTAATTACTGAATATTATTATCGATTATTATTT
1 TTTTATAA-ATTTATATAAAATTTATATATCTTTAATTA-TTAAAATTATTATCAATTATTATTT
* * *
6409043 ACTATTTGAATTTAATTTATTTTTAAAATTAAATTTAAATGACAT-CAAATTAGTTTTATAAAAT
64 ACTATTTAAACTTAATTTATTTTTAAAATTAAATTTAAATGAC-TCCAATTTAGTTTTATAAAAT
* * * * * *
6409107 TAATTAGAGTATAAAA-TCATAGTCTTTAGCAAATTTAGAAAAGC-CCTATTTATATTAGTGTGA
128 TAATTAGAGTATAAAACT-ATATTATTTAGCAATTTTAGAAAA-CTTCTATTTATAGTAG-CT-A
* * *
6409170 TAAATAAA-TTAATTTAAAATTTTTTGTGAAATATGAAAAGAAAATTAAAATTTTATTTGTTTAC
189 GAAATAAATTTAATTTAATA-TTTTTGTGAGATATGAAAAGAAAATTAAAA-TTTATTTGTTTAC
* * * ** * **
6409234 ATATATTTAAAAGTAAGTGAATTAAAAATCTAAAAAATCAATATAATTAATTCACGT--AATATT
252 ATATATGTAAAGGTAAGTCAATTAAAAATAAAAAAAATAAATATAATTAATT-ATATAAAATATT
* * *
6409297 TTAACATTAAATTAAACCTAA-TTAAAATAATT--AT-CG-------TG---ACTTTTT-AC-T-
316 CTAATATTAAATTAAA-CTAAGTCAAAATAATTAAATACGTAATACATGACAACTTTTTAACTTC
* ** * * * *
6409345 GC---TC--T-ATAGGC-TATCAACATT-GA-ATAATTACC-----TTTTAT-GTAAAAGAGTTT
380 ACATGTCAATAATATACGTATCCACATTAGATA-AAGTACCTTTTTTTTTTTGGCAAAAGA-TTT
*
6409395 TCGC
443 TGGC
** * * *
6409399 TTTTA-AATATTTATATAGGATTCATATATCTTTAATTATTGAAATTATTATC-A--ATCA--T-
1 TTTTATAA-ATTTATATAAAATTTATATATCTTTAATTATTAAAATTATTATCAATTATTATTTA
* * * * * * *
6409457 -T-GTT--ACTTGATTTATATTTAAAATTGAATTTAAATGGCTCCAATTTAATTCTATAAAATT-
65 CTATTTAAACTTAATTTATTTTTAAAATTAAATTTAAATGACTCCAATTTAGTTTTATAAAATTA
* *
6409517 ATTAGAGTATAAAACTATATTTTTTAGCAATTTTAGAAAACCTC-A---AT--TAG-T--AAATA
130 ATTAGAGTATAAAACTATATTATTTAGCAATTTTAGAAAACTTCTATTTATAGTAGCTAGAAATA
* * *
6409573 AATTTATTTTAATATTTTTCGTGAGATATG-AAA-AAAATTAAAATTTTATTTATTTACACATAT
195 AATTTAATTTAATATTTTT-GTGAGATATGAAAAGAAAATTAAAA-TTTATTTGTTTACATATAT
* *
6409636 GTAAAGGTAAGTCAATTAAAAATATAAAAAATAAATATAATTAATTATATGAAATATTCTAATAT
258 GTAAAGGTAAGTCAATTAAAAATAAAAAAAATAAATATAATTAATTATATAAAATATTCTAATAT
* ** * * ***
6409701 TAAATTAAACTAAGTCAAAATAATTTAATGTGTGATATATGATGGCTTTTTACAACTCTTCACAT
323 TAAATTAAACTAAGTCAAAATAATTAAATACGTAATACATGACAACTTTTT--AA--CTTCACAT
* *
6409766 GTCAATAATATACGTATCCACATTAGATAAATTACCTTTTTTTTTTTTGCAAAAGATTTTGGC
384 GTCAATAATATACGTATCCACATTAGATAAAGTACCTTTTTTTTTTTGGCAAAAGATTTTGGC
* * *
6409829 TTTTATAAATTTGTATAAGATTTATATATCTTTAATTATTAAAATTATTATCAATTATTATTTAT
1 TTTTATAAATTTATATAAAATTTATATATCTTTAATTATTAAAATTATTATCAATTATTATTTAC
*
6409894 TATTTGAACTTAATTTATTTTTAAAATTAAATTTAAATGACTCCAATTTAGTTTTATAAAATTAA
66 TATTTAAACTTAATTTATTTTTAAAATTAAATTTAAATGACTCCAATTTAGTTTTATAAAATTAA
* * *
6409959 TTAAAGTATAAAACTATATTATTTAGGATTTTTAGAAAACTTCTATTTATAGTAGCCTAGAAAAT
131 TTAGAGTATAAAACTATATTATTTAGCAATTTTAGAAAACTTCTATTTATAGTAG-CTAG-AAAT
* *
6410024 AAATTTAATTTAATATTTTTATGAGATATGAAAAGAAAATTAAAATCTTATTCGTTTACATATAT
194 AAATTTAATTTAATATTTTTGTGAGATATGAAAAGAAAATTAAAAT-TTATTTGTTTACATATAT
* * * *
6410089 GTAAAGGATAATTTAATTAAAAGTATAAAAAGAAATTAATATAATTAATTATATAAAATATTTTA
258 GTAAAGG-TAAGTCAATTAAAA--ATAAAAA-AAATAAATATAATTAATTATATAAAATATTCTA
* *
6410154 ATATTAAATTAAA-TCAAGTTAAAATAATTAAATACGTAATACATGACAAC-TTTT-A-TTCATA
319 ATATTAAATTAAACT-AAGTCAAAATAATTAAATACGTAATACATGACAACTTTTTAACTTCACA
* * *
6410215 TGTCAATAATATA-GATTATTCATATTGGAT-AAGTA-C-TTTTTTTTTTGGCAAAAGATTTTGG
383 TGTCAATAATATACG--TATCCACATTAGATAAAGTACCTTTTTTTTTTTGGCAAAAGATTTTGG
*
6410276 T
446 C
* * * * * * *** *
6410277 TTTTATATATTTATATAAAATTTGTATATTTTTAATTATTAGAATTGTTGTTGGTTATTGTTTAC
1 TTTTATAAATTTATATAAAATTTATATATCTTTAATTATTAAAATTATTATCAATTATTATTTAC
* * * * *
6410342 TATTTAAATTTTATTTA-TTTTAAAATTAAATTTAAATAACTCTAAATT-GTTTTATAAAATTAA
66 TATTTAAACTTAATTTATTTTTAAAATTAAATTTAAATGACTCCAATTTAGTTTTATAAAATTAA
* *
6410405 TTAGAGTATAAAACTATATTCTTTAGCAGTTTTAGAAAATCTT-TATTTATAGTAGTCTAGTAAA
131 TTAGAGTATAAAACTATATTATTTAGCAATTTTAGAAAA-CTTCTATTTATAGTAG-CTAG-AAA
* * * *
6410469 TAAATTTAATATAAGATTTTCTGTAAGATAT-AGAAAGAAAATTAAAATTTCATTTGTTTATATA
193 TAAATTTAATTTAATATTTT-TGTGAGATATGA-AAAGAAAATTAAAATTT-ATTTGTTTACATA
6410533 TAT
255 TAT
6410536 ATATATATAT
Statistics
Matches: 937, Mismatches: 120, Indels: 134
0.79 0.10 0.11
Matches are distributed among these distances:
395 2 0.00
396 73 0.08
397 45 0.05
398 18 0.02
399 2 0.00
400 2 0.00
402 3 0.00
404 2 0.00
407 4 0.00
408 37 0.04
409 47 0.05
410 6 0.01
411 2 0.00
412 1 0.00
413 1 0.00
414 1 0.00
415 1 0.00
416 4 0.00
417 1 0.00
418 1 0.00
419 11 0.01
420 31 0.03
421 5 0.01
422 1 0.00
423 4 0.00
424 9 0.01
425 9 0.01
426 1 0.00
430 56 0.06
431 10 0.01
433 3 0.00
435 1 0.00
437 1 0.00
438 2 0.00
440 50 0.05
441 39 0.04
442 1 0.00
445 2 0.00
446 90 0.10
447 71 0.08
448 90 0.10
449 3 0.00
450 22 0.02
451 20 0.02
452 27 0.03
453 33 0.04
454 12 0.01
456 11 0.01
457 69 0.07
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (446 bp):
TTTTATAAATTTATATAAAATTTATATATCTTTAATTATTAAAATTATTATCAATTATTATTTAC
TATTTAAACTTAATTTATTTTTAAAATTAAATTTAAATGACTCCAATTTAGTTTTATAAAATTAA
TTAGAGTATAAAACTATATTATTTAGCAATTTTAGAAAACTTCTATTTATAGTAGCTAGAAATAA
ATTTAATTTAATATTTTTGTGAGATATGAAAAGAAAATTAAAATTTATTTGTTTACATATATGTA
AAGGTAAGTCAATTAAAAATAAAAAAAATAAATATAATTAATTATATAAAATATTCTAATATTAA
ATTAAACTAAGTCAAAATAATTAAATACGTAATACATGACAACTTTTTAACTTCACATGTCAATA
ATATACGTATCCACATTAGATAAAGTACCTTTTTTTTTTTGGCAAAAGATTTTGGC
Found at i:6411438 original size:17 final size:17
Alignment explanation
Indices: 6411399--6411438 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
6411389 TAAGTTATTT
6411399 ATTTAAATTTAAAAATTA
1 ATTTAAATTTAAAAA-TA
6411417 ATTTAATATTTAAAAA-A
1 ATTTAA-ATTTAAAAATA
6411434 ATTTA
1 ATTTA
6411439 CATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 6 0.29
19 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAATTTAAAAATA
Found at i:6411595 original size:21 final size:20
Alignment explanation
Indices: 6411569--6411616 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
6411559 TAGTTATATA
* *
6411569 ATATATGTTAATTTTATTTTT
1 ATATATGTT-ATATAATTTTT
6411590 ATATATGTTATATAATTTTT
1 ATATATGTTATATAATTTTT
6411610 ATTATAT
1 A-TATAT
6411617 AAATAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
ATATATGTTATATAATTTTT
Found at i:6412043 original size:19 final size:19
Alignment explanation
Indices: 6412021--6412058 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6412011 TAAATATATT
* *
6412021 TTTATATTAATATTTATAA
1 TTTATAATAAAATTTATAA
6412040 TTTATAATAAAATTTATAA
1 TTTATAATAAAATTTATAA
6412059 AAAATAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTATAATAAAATTTATAA
Found at i:6412112 original size:21 final size:22
Alignment explanation
Indices: 6412074--6412117 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
6412064 AAATTTTTTT
6412074 ATTAAATAAATAATAATT-TAA
1 ATTAAATAAATAATAATTATAA
6412095 ATTAAATAAAT-ATAAATTATAA
1 ATTAAATAAATAAT-AATTATAA
6412117 A
1 A
6412118 AATTTTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.10
21 15 0.71
22 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
ATTAAATAAATAATAATTATAA
Found at i:6413065 original size:13 final size:13
Alignment explanation
Indices: 6413047--6413072 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6413037 CGAGGCTATA
6413047 GTAGAGCTAGAGG
1 GTAGAGCTAGAGG
6413060 GTAGAGCTAGAGG
1 GTAGAGCTAGAGG
6413073 ATGTTCTTGG
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:0.31, C:0.08, G:0.46, T:0.15
Consensus pattern (13 bp):
GTAGAGCTAGAGG
Found at i:6414439 original size:15 final size:16
Alignment explanation
Indices: 6414414--6414443 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6414404 AATATAAAAA
6414414 AAAACAAACATATATT
1 AAAACAAACATATATT
6414430 AAAA-AAACATATAT
1 AAAACAAACATATAT
6414444 CTTAAGACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAACAAACATATATT
Found at i:6417205 original size:79 final size:77
Alignment explanation
Indices: 6417069--6417452 Score: 394
Period size: 79 Copynumber: 4.9 Consensus size: 77
6417059 GGATAACAAC
* * * *
6417069 AGGGCTGGAGAATCCCCGATTATGGAAAATCGATGTTCTGGAAATAAAATCGGGGTTGGAGTATC
1 AGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTT-TTGAAATAAAACCGGGGTTGGAGTATC
6417134 CCCTCGAAAATAA
65 CCCTCGAAAATAA
* * * ** * *
6417147 TAGGGTTGGAGTATCCCTGATTATAGAAAATTGGCGTTTTGTAAATAAAATCGAGGTTGGAGTAT
1 -AGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTG-AAATAAAACCGGGGTTGGAGTAT
6417212 CCCCTCGAAAATAA
64 CCCCTCGAAAATAA
* * ** **
6417226 CGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAAAAATAAGGCCGGGGTTGGAGTAT
1 -AGGGTTGGAGTATCCCCGATTATGGAAAATCGATG-TTTTGAAATAAAACCGGGGTTGGAGTAT
* *
6417291 CCCCGCCAAAATAA
64 CCCCTCGAAAATAA
* * * * * *
6417305 CGAGGTTGAAGTATCCCCGATTA-CGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTA
1 AG-GGTTGGAGTATCCCCGATTATGGA-AAATCGATGTTTT-GAAATAAAACCGGGGTTGGAGTA
*
6417369 TCCCCTCGGAAATAA
63 TCCCCTCGAAAATAA
* * *
6417384 CGGGATTGGAGTATCCCCGATTAT-GAAAATTTGATGTTTTAGAAATAAAACTGGGGTTGGAGTA
1 AGGG-TTGGAGTATCCCCGATTATGGAAAA-TCGATGTTTT-GAAATAAAACCGGGGTTGGAGTA
6417448 TCCCC
63 TCCCC
6417453 GAGATGAAAA
Statistics
Matches: 254, Mismatches: 43, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
78 13 0.05
79 238 0.94
80 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (77 bp):
AGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTGAAATAAAACCGGGGTTGGAGTATCC
CCTCGAAAATAA
Found at i:6417363 original size:158 final size:157
Alignment explanation
Indices: 6417074--6417453 Score: 444
Period size: 158 Copynumber: 2.4 Consensus size: 157
6417064 ACAACAGGGC
* * * *
6417074 TGGAGAATCCCCGATTATGGAAAATCGATGTTCTGGAAATAAAATCGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGGAAAATCGATGTT-TAGAAATAAAACCGGGGTTGGAGTATCCCCGC
* * * * * *** * *
6417139 GAAAATAATAGGGTTGGAGTATCCCTGATTATAGAAAATTGGCGTTTTGTAAATAAAATCGAGGT
65 CAAAATAAGAGGGTTGAAGTATCCCCGATTAGAGAAAATCAACATTTTGTAAATAAAACCGAGGT
*
6417204 TGGAGTATCCCCTCGAAAATAACGGGGT
130 TGGAGTATCCCCTCGAAAATAACGGGAT
* * **
6417232 TGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAAAAATAAGGCCGGGGTTGGAGTATCCCCGC
1 TGGAGTATCCCCGATTATGGAAAATCGATG-TTTAGAAATAAAACCGGGGTTGGAGTATCCCCGC
* * *
6417297 CAAAATAACGA-GGTTGAAGTATCCCCGATTACGAG-AAATCAATATTTTAG-AAATAAAGCCGG
65 CAAAATAA-GAGGGTTGAAGTATCCCCGATTA-GAGAAAATCAACATTTT-GTAAATAAAACCGA
*
6417359 GGTTGGAGTATCCCCTCGGAAATAACGGGAT
127 GGTTGGAGTATCCCCTCGAAAATAACGGGAT
* *
6417390 TGGAGTATCCCCGATTAT-GAAAATTTGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCG
1 TGGAGTATCCCCGATTATGGAAAA-TCGATG-TTTAGAAATAAAACCGGGGTTGGAGTATCCCCG
6417454 AGATGAAAAA
Statistics
Matches: 187, Mismatches: 30, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
157 5 0.03
158 176 0.94
159 6 0.03
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (157 bp):
TGGAGTATCCCCGATTATGGAAAATCGATGTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGCC
AAAATAAGAGGGTTGAAGTATCCCCGATTAGAGAAAATCAACATTTTGTAAATAAAACCGAGGTT
GGAGTATCCCCTCGAAAATAACGGGAT
Found at i:6419420 original size:20 final size:20
Alignment explanation
Indices: 6419394--6419448 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
6419384 GTAAACCCAG
*
6419394 AATGTATCGATATAATGAAC
1 AATGTATCGATACAATGAAC
*
6419414 CATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
6419434 AATGTATCGATACAA
1 AATGTATCGATACAA
6419449 ATTGTGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:6420127 original size:61 final size:61
Alignment explanation
Indices: 6420041--6420460 Score: 515
Period size: 61 Copynumber: 6.9 Consensus size: 61
6420031 AATGAAATGG
* * * *
6420041 GTCCTGCTCCTTGGGGACTAAAAGGTGCCACCAACTTGTGTTGGCTTTAAAAGGAAAAAGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGC
* * *
6420102 ATCTTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGG-AAAAGAC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAG-C
* * * * *
6420163 GTCCTACTCATTGAGGACTAGAAAGTGCAACCAACTTGTATGGGCTTTAAAAGGAAAAAGC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGC
* * * * *
6420224 GTCTTGCTCTTTGAGGATTAGAAAAGTGTCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGC
1 GTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGC
* * *
6420286 ATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAATGT
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA-GC
* * *
6420347 GTCCTGCTCTTTGAAGACTAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGG-AAAAGAC
1 GTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAG-C
* * * * *
6420409 GTCCTACTCTTTGAGGACT-GAAGGTGCCACCAGCTTTTGTGGGATTTGAAAG
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
6420461 ACGTCCTGCT
Statistics
Matches: 309, Mismatches: 43, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
60 36 0.12
61 164 0.53
62 108 0.35
63 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGC
Found at i:6420323 original size:123 final size:123
Alignment explanation
Indices: 6420041--6420460 Score: 569
Period size: 123 Copynumber: 3.4 Consensus size: 123
6420031 AATGAAATGG
* * * * * *
6420041 GTCCTGCTCCTTGGGGACTAAAAGGTGCCACCAACTTGTGTTGGCTTTAAAAGGAAAAAGCATCT
1 GTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCT
* *
6420106 TGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGAC
66 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* * * *
6420163 GTCCTACTCATTGAGGACTAGAAAGTGCAACCAACTTGTATGGGCTTTAAAAGGAAAAAGCGTCT
1 GTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCT
* *
6420228 TGCTCTTTGAGGATTAGAAAAGTGTCACCAACTTGTGTGGGCTTTAAAAGGAGAAAG-C
66 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGAC
* * * *
6420286 ATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAATGTGTC
1 GTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA-GCGTC
* * *
6420350 CTGCTCTTTGAAGACTAGAAAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGAC
65 TTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* * * *
6420409 GTCCTACTCTTTGAGGACT-GAAGGTGCCACCAGCTTTTGTGGGATTTGAAAG
1 GTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
6420461 ACGTCCTGCT
Statistics
Matches: 261, Mismatches: 32, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
122 110 0.42
123 147 0.56
124 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (123 bp):
GTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCT
TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
Found at i:6420615 original size:62 final size:62
Alignment explanation
Indices: 6420500--6420648 Score: 221
Period size: 62 Copynumber: 2.4 Consensus size: 62
6420490 CAAGGAGAGA
* * *
6420500 GCGTCCTGTTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTCTAAAAGGAAAAG
1 GCGTCCTGTTCTTTGAAGACTAGAAAAATGCCACCAACTTGTGTGGGCTCTAAAAGGAAAAG
* * *
6420561 GCGTCCTGCTCTTTGAAGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 GCGTCCTGTTCTTTGAAGACTAGAAAAATGCCACCAACTTGTGTGGGCTCTAAAAGGAAAAG
*
6420623 GCGTCATGTTCTTTGAAGACT-GAAAA
1 GCGTCCTGTTCTTTGAAGACTAGAAAA
6420649 GTGAAAAGAG
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
61 26 0.33
62 53 0.67
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (62 bp):
GCGTCCTGTTCTTTGAAGACTAGAAAAATGCCACCAACTTGTGTGGGCTCTAAAAGGAAAAG
Found at i:6421639 original size:1 final size:1
Alignment explanation
Indices: 6421633--6421684 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
6421623 CTTTTCTCTC
* * * ** *
6421633 TTTTTTTTTTCTTTATTTTGTTTTTTTTTTGGTTTTTCTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6421685 AAAAAGAAGG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.02, C:0.04, G:0.06, T:0.88
Consensus pattern (1 bp):
T
Found at i:6421642 original size:20 final size:18
Alignment explanation
Indices: 6421619--6421681 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 18
6421609 AAGTAGGTTC
6421619 TTTTCTTTTCTCTCTTTTTT
1 TTTTCTTTT-TCT-TTTTTT
*
6421639 TTTTCTTTATTTTGTTTTTT
1 TTTTCTTT-TTCT-TTTTTT
*
6421659 TTTTGGTTTTTCTTTTTTT
1 TTTT-CTTTTTCTTTTTTT
6421678 TTTT
1 TTTT
6421682 TTTAAAAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 10 0.27
20 23 0.62
21 4 0.11
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.84
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTTTT
Found at i:6421661 original size:22 final size:21
Alignment explanation
Indices: 6421633--6421684 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
6421623 CTTTTCTCTC
*
6421633 TTTTTTTTT-TCTTTATTTTGT
1 TTTTTTTTTGTTTTTATTTT-T
*
6421654 TTTTTTTTTGGTTTTTCTTTTT
1 TTTTTTTTT-GTTTTTATTTTT
6421676 TTTTTTTTT
1 TTTTTTTTT
6421685 AAAAAGAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 9 0.33
22 10 0.37
23 8 0.30
ACGTcount: A:0.02, C:0.04, G:0.06, T:0.88
Consensus pattern (21 bp):
TTTTTTTTTGTTTTTATTTTT
Found at i:6433584 original size:79 final size:78
Alignment explanation
Indices: 6433453--6433839 Score: 311
Period size: 79 Copynumber: 4.9 Consensus size: 78
6433443 TAGGGATAAC
* * * * * *
6433453 AATAGGGCTGGAGTATCCCCAATTATGGAAAATCGGTGTTCTGGAAATAAAATCGGGGTTGGAGT
1 AATAGGGTTGGAGTATCCCTAATTAT-GAAAATCGATGTTTTGAAAATAAAACCGGGGTTGGAGT
*
6433518 ATCCCCTTGAAAAT
65 ATCCCCTCGAAAAT
* * *
6433532 AATAGGGTTGGAGTATCCCTAATTATAGAAAATCGACGTTTTGAAAATAAAATCAGGGTTGGAGT
1 AATAGGGTTGGAGTATCCCTAATTAT-GAAAATCGATGTTTTGAAAATAAAACCGGGGTTGGAGT
6433597 ATCCCCTCGAAAAT
65 ATCCCCTCGAAAAT
* * * **
6433611 AA-CGGGATTGGAGTAT-CCTCAATTGTGGAAAATCGATGCTTT-AGAAATAAGGCCGGGGTTGG
1 AATAGGG-TTGGAGTATCCCT-AATTAT-GAAAATCGATGTTTTGA-AAATAAAACCGGGGTTGG
*
6433673 AGTATCCCCTCCAAAAT
62 AGTATCCCCTCGAAAAT
** * * * * * * **
6433690 -AGCGAGGTTGAAGTATCCCTCATTGTGAGAAATCAATATTTT-AGAAATAAAGCCGGGGTTAAA
1 AATAG-GGTTGGAGTATCCCTAATTATGA-AAATCGATGTTTTGA-AAATAAAACCGGGGTTGGA
*
6433753 GTATCCCCT-TATAAAT
63 GTATCCCCTCGA-AAAT
* * ** * * *
6433769 AAT-GAGATTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCAGGGTTGGAG
1 AATAG-GGTTGGAGTATCCCTAATTATG-AAAATCGATGTTTTGAAAATAAAACCGGGGTTGGAG
6433833 TATCCCC
64 TATCCCC
6433840 GAGATGAAAA
Statistics
Matches: 254, Mismatches: 43, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
78 11 0.04
79 236 0.93
80 7 0.03
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (78 bp):
AATAGGGTTGGAGTATCCCTAATTATGAAAATCGATGTTTTGAAAATAAAACCGGGGTTGGAGTA
TCCCCTCGAAAAT
Found at i:6433749 original size:158 final size:157
Alignment explanation
Indices: 6433461--6433839 Score: 397
Period size: 158 Copynumber: 2.4 Consensus size: 157
6433451 ACAATAGGGC
* * *
6433461 TGGAGTATCCCCAATTATGGAAAATCGGTGTTCTGGAAATAAAATCGGGGTTGGAGTATCCCCTT
1 TGGAGTATCCCCAATTATGGAAAATCGATGTT-TGGAAATAAAACCGGGGTTGGAGTATCCCCTC
* * * * * *
6433526 GAAAATAATAGGGTTGGAGTATCCCTAATTATAGAAAATCGACGTTTTGAAAATAAAATCAGGGT
65 CAAAATAAGAGGGTTGAAGTATCCCTAATTATAGAAAATCAACATTTTGAAAATAAAACCAGGGT
** *
6433591 TGGAGTATCCCCTCGA-AAATAACGGGAT
130 TAAAGTATCCCCT-GATAAATAACGAGAT
* * * **
6433619 TGGAGTATCCTCAATTGTGGAAAATCGATGCTTTAGAAATAAGGCCGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCAATTATGGAAAATCGATG-TTTGGAAATAAAACCGGGGTTGGAGTATCCCCTC
* * * * * *
6433684 CAAAAT-AGCGAGGTTGAAGTATCCCTCATTGT-GAGAAATCAATATTTT-AGAAATAAAGCCGG
65 CAAAATAAGAG-GGTTGAAGTATCCCTAATTATAGA-AAATCAACATTTTGA-AAATAAAACCAG
* *
6433746 GGTTAAAGTATCCCCTTATAAATAATGAGAT
127 GGTTAAAGTATCCCCTGATAAATAACGAGAT
* * * * *
6433777 TAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCAGGGTTGGAGTATCCCC
1 TGGAGTATCCCCAATTATGGAAAATCGATG-TTTGGAAATAAAACCGGGGTTGGAGTATCCCC
6433840 GAGATGAAAA
Statistics
Matches: 180, Mismatches: 36, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
157 6 0.03
158 172 0.96
159 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (157 bp):
TGGAGTATCCCCAATTATGGAAAATCGATGTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCC
AAAATAAGAGGGTTGAAGTATCCCTAATTATAGAAAATCAACATTTTGAAAATAAAACCAGGGTT
AAAGTATCCCCTGATAAATAACGAGAT
Found at i:6433866 original size:50 final size:50
Alignment explanation
Indices: 6433776--6433900 Score: 169
Period size: 50 Copynumber: 2.5 Consensus size: 50
6433766 AATAATGAGA
* ** * * *
6433776 TTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCAGGG
1 TTAGAGTATCCCCGA-GATGAAAAATCAATATTTTAGAAATAAAACCAAGG
* *
6433827 TTGGAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAGCCAAGG
1 TTAGAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCAAGG
6433877 TTAGAGTATCCCCGAGATGAAAAA
1 TTAGAGTATCCCCGAGATGAAAAA
6433901 ACTAGAAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 51 0.78
51 14 0.22
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (50 bp):
TTAGAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCAAGG
Found at i:6437834 original size:14 final size:14
Alignment explanation
Indices: 6437815--6437864 Score: 66
Period size: 14 Copynumber: 3.5 Consensus size: 14
6437805 CTTTGGATAA
6437815 TATAGTTGAATTTT
1 TATAGTTGAATTTT
*
6437829 TATAGTTGACTTTGT
1 TATAGTTGAATTT-T
6437844 ATATAGTT-AATTTT
1 -TATAGTTGAATTTT
6437858 TATAGTT
1 TATAGTT
6437865 AACTTTTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 7 0.22
14 13 0.41
15 5 0.16
16 7 0.22
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.56
Consensus pattern (14 bp):
TATAGTTGAATTTT
Found at i:6437859 original size:29 final size:30
Alignment explanation
Indices: 6437814--6437870 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
6437804 ACTTTGGATA
*
6437814 ATATAGTTGAATTTTTATAGTTGACTTTGT
1 ATATAGTTGAATTTTTATAGTTAACTTTGT
6437844 ATATAGTT-AATTTTTATAGTTAACTTT
1 ATATAGTTGAATTTTTATAGTTAACTTT
6437871 TGATTTTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (30 bp):
ATATAGTTGAATTTTTATAGTTAACTTTGT
Found at i:6438340 original size:28 final size:29
Alignment explanation
Indices: 6438281--6438340 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
6438271 AACTTAAAAT
* *
6438281 TTTAAGTTTATTATTTTAATTTTTTAATA
1 TTTAAGTTTATTACTTTAATTTTTTAACA
6438310 TTTAA-TTT-TTACTTTAATTTCTTTAACA
1 TTTAAGTTTATTACTTTAATTT-TTTAACA
6438338 TTT
1 TTT
6438341 TTAAAAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 11 0.39
28 12 0.43
29 5 0.18
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (29 bp):
TTTAAGTTTATTACTTTAATTTTTTAACA
Found at i:6439999 original size:22 final size:23
Alignment explanation
Indices: 6439974--6440038 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 23
6439964 ATATTTATAC
**
6439974 TTAAAAT-ATTTTTTAGACAAGT
1 TTAAAATGATTTTCAAGACAAGT
*
6439996 TT-AAGTGATTTTCAAGACAAGT
1 TTAAAATGATTTTCAAGACAAGT
* * *
6440018 TT-AAGTGATTTTTAAGCCAAG
1 TTAAAATGATTTTCAAGACAAG
6440039 AAAAATATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 3 0.08
22 34 0.92
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (23 bp):
TTAAAATGATTTTCAAGACAAGT
Found at i:6440136 original size:21 final size:21
Alignment explanation
Indices: 6440112--6440170 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
6440102 TTGACTATTT
6440112 TGAATATATCGATACATTATA
1 TGAATATATCGATACATTATA
6440133 TGAATATATCGATACATTATA
1 TGAATATATCGATACATTATA
*
6440154 TGAATATATCAATACAT
1 TGAATATATCGATACAT
6440171 CTGTTGGCAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.37
Consensus pattern (21 bp):
TGAATATATCGATACATTATA
Found at i:6440258 original size:20 final size:20
Alignment explanation
Indices: 6440235--6440279 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
6440225 AAAATACATT
6440235 GATACA-ATAAATAATGTATC
1 GATACACATAAA-AATGTATC
* *
6440255 GATACACCTAAAAATGTATT
1 GATACACATAAAAATGTATC
6440275 GATAC
1 GATAC
6440280 TCTGAACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (20 bp):
GATACACATAAAAATGTATC
Found at i:6445288 original size:13 final size:13
Alignment explanation
Indices: 6445270--6445295 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6445260 CAATTTTTTG
6445270 TGTATCGATACAT
1 TGTATCGATACAT
6445283 TGTATCGATACAT
1 TGTATCGATACAT
6445296 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6445360 original size:21 final size:21
Alignment explanation
Indices: 6445334--6445409 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
6445324 CTGCCAAGAA
*
6445334 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
6445355 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
6445375 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
6445396 ATGTATCGATACAT
1 ATGTATCGATACAT
6445410 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:6445380 original size:20 final size:20
Alignment explanation
Indices: 6445355--6445427 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
6445345 CATCTTTTTT
6445355 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
6445375 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
6445396 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
6445416 ATGTATCGATAC
1 ATGTATCGATAC
6445428 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:6445391 original size:41 final size:41
Alignment explanation
Indices: 6445334--6445427 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
6445324 CTGCCAAGAA
*
6445334 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
6445375 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
6445416 ATGTATCGATAC
1 ATGTATCGATAC
6445428 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:6447886 original size:13 final size:13
Alignment explanation
Indices: 6447868--6447906 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
6447858 ATAATCACCC
*
6447868 TGTATCGATACAG
1 TGTATCGATACAA
6447881 TGTATCGATACAA
1 TGTATCGATACAA
6447894 TGTATCGATACAA
1 TGTATCGATACAA
6447907 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6447917 original size:20 final size:20
Alignment explanation
Indices: 6447892--6447970 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
6447882 GTATCGATAC
6447892 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
6447912 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
6447937 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
6447957 CATGTATCGATACA
1 AATGTATCGATACA
6447971 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:6450005 original size:15 final size:15
Alignment explanation
Indices: 6449985--6450015 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6449975 ATTTCGTTTG
*
6449985 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
6450000 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
6450015 G
1 G
6450016 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:6454091 original size:13 final size:13
Alignment explanation
Indices: 6454073--6454098 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6454063 CAATTTTTTG
6454073 TGTATCGATACAT
1 TGTATCGATACAT
6454086 TGTATCGATACAT
1 TGTATCGATACAT
6454099 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6454163 original size:21 final size:21
Alignment explanation
Indices: 6454137--6454212 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
6454127 CTGCCAAGAA
*
6454137 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
6454158 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
6454178 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
6454199 ATGTATCGATACAT
1 ATGTATCGATACAT
6454213 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:6454183 original size:20 final size:20
Alignment explanation
Indices: 6454158--6454230 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
6454148 CATCTTTTTT
6454158 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
6454178 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
6454199 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
6454219 ATGTATCGATAC
1 ATGTATCGATAC
6454231 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:6454194 original size:41 final size:41
Alignment explanation
Indices: 6454137--6454230 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
6454127 CTGCCAAGAA
*
6454137 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
6454178 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
6454219 ATGTATCGATAC
1 ATGTATCGATAC
6454231 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:6458932 original size:153 final size:153
Alignment explanation
Indices: 6458645--6458959 Score: 442
Period size: 153 Copynumber: 2.0 Consensus size: 153
6458635 AAAAAGAGGT
* **
6458645 AGAAAAAAGATTAAATATAGTGATAATTTGATTTTTCATCGTCATAGTAAATAGAAAAGAAAATT
1 AGAAAAAAGACTAAATATAGTGATAATTTGATTTTTCATCACCATAGTAAATAGAAAAGAAAATT
*
6458710 TCTTTCTTTGTCTTTATAAAAAAAAGAAAAATATTAAATATTATTAAATTATTAAAATGAAATAT
66 TCTTTCTTTGTCTTTAAAAAAAAAAGAAAAATATTAAATATTA-TAAATTATTAAAATGAAATAT
6458775 TAAAA-ATAAAAAAATGGGTAATG
130 TAAAATATAAAAAAATGGGTAATG
6458798 AGAAAAAAGACTAAATATAGTGATAATTTGATTTTTCATCACCATAGTAAATAGAAAA-AAAA-T
1 AGAAAAAAGACTAAATATAGTGATAATTTGATTTTTCATCACCATAGTAAATAGAAAAGAAAATT
6458861 TCTTTCTTTGTCTTTACAAAAAAAAAAGAAAAAATATTAAATATTAAATATTATTAAATTATTAA
66 TCTTTCTTTGTCTTT--AAAAAAAAAAG-----A-A--AAATATTAAATATTA-TAAATTATTAA
*
6458926 AATAAAATATTAAAA-AT-AAAAAATGGGTAATG
120 AATGAAATATTAAAATATAAAAAAATGGGTAATG
6458958 AG
1 AG
6458960 TTTCGATGTA
Statistics
Matches: 147, Mismatches: 5, Indels: 13
0.89 0.03 0.08
Matches are distributed among these distances:
151 16 0.11
152 4 0.03
153 65 0.44
158 1 0.01
159 1 0.01
160 17 0.12
161 43 0.29
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (153 bp):
AGAAAAAAGACTAAATATAGTGATAATTTGATTTTTCATCACCATAGTAAATAGAAAAGAAAATT
TCTTTCTTTGTCTTTAAAAAAAAAAGAAAAATATTAAATATTATAAATTATTAAAATGAAATATT
AAAATATAAAAAAATGGGTAATG
Found at i:6458941 original size:14 final size:13
Alignment explanation
Indices: 6458891--6458946 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 13
6458881 AAAAAAAGAA
6458891 AAAATATTAAATAT
1 AAAATATTAAA-AT
* *
6458905 TAAATATT--ATT
1 AAAATATTAAAAT
*
6458916 AAATTATTAAAAT
1 AAAATATTAAAAT
6458929 AAAATATTAAAAAT
1 AAAATATT-AAAAT
6458943 AAAA
1 AAAA
6458947 AATGGGTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
11 7 0.21
12 1 0.03
13 9 0.27
14 16 0.48
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATATTAAAAT
Found at i:6459949 original size:22 final size:21
Alignment explanation
Indices: 6459913--6459966 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
6459903 TTTATTATTC
**
6459913 ATAATTAAAAATATAT-TTTT
1 ATAATTAAATTTATATATTTT
6459933 AT-ATTAATATTTATATATTTT
1 ATAATTAA-ATTTATATATTTT
6459954 ATAATTAAATTTA
1 ATAATTAAATTTA
6459967 AATAAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 5 0.17
20 8 0.28
21 11 0.38
22 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATAATTAAATTTATATATTTT
Found at i:6465072 original size:20 final size:20
Alignment explanation
Indices: 6465035--6465073 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6465025 CTGTTTCCGG
*
6465035 ACAAAAAGAAAGGGAGAATA
1 ACAAAAAGAAAGGCAGAATA
6465055 ACAAAAA-AAATGGCAGAAT
1 ACAAAAAGAAA-GGCAGAAT
6465074 TGCCAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.64, C:0.08, G:0.21, T:0.08
Consensus pattern (20 bp):
ACAAAAAGAAAGGCAGAATA
Found at i:6466947 original size:2 final size:2
Alignment explanation
Indices: 6466940--6466973 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6466930 AACTGAATTT
6466940 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6466974 AAATAAGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6467288 original size:36 final size:35
Alignment explanation
Indices: 6467246--6467314 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
6467236 AATTAATTTA
* *
6467246 AATTTAAATTTAATTTAATTTAAGTAAAAAATTAAT
1 AATTTAAATTTAA-TTAACTTAAATAAAAAATTAAT
*
6467282 AATTTAAATTTAATTAACTTAAATTAAAAATTA
1 AATTTAAATTTAATTAACTTAAATAAAAAATTA
6467315 CTCAAAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 17 0.57
36 13 0.43
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (35 bp):
AATTTAAATTTAATTAACTTAAATAAAAAATTAAT
Found at i:6467360 original size:17 final size:17
Alignment explanation
Indices: 6467279--6467360 Score: 55
Period size: 16 Copynumber: 5.1 Consensus size: 17
6467269 GTAAAAAATT
6467279 AATAATTTAAATTT--A
1 AATAATTTAAATTTAAA
* *
6467294 ATTAACTTAAA-TTAAA
1 AATAATTTAAATTTAAA
* * * *
6467310 AATTACTCAAAATT-AA
1 AATAATTTAAATTTAAA
* * *
6467326 AATAATGTAAACTCAAA
1 AATAATTTAAATTTAAA
6467343 AATAATTTAAATTTAAA
1 AATAATTTAAATTTAAA
6467360 A
1 A
6467361 TTTTAAAAAT
Statistics
Matches: 49, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
14 2 0.04
15 9 0.18
16 19 0.39
17 19 0.39
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.35
Consensus pattern (17 bp):
AATAATTTAAATTTAAA
Found at i:6467530 original size:19 final size:19
Alignment explanation
Indices: 6467490--6467533 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6467480 TTTATATAAA
*
6467490 ATTAATTATAAAAATATAT
1 ATTAATTAAAAAAATATAT
*
6467509 ATTAATTAAAAATAAT-TCT
1 ATTAATTAAAAA-AATATAT
6467528 ATTAAT
1 ATTAAT
6467534 ATTTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTAATTAAAAAAATATAT
Found at i:6469480 original size:7 final size:7
Alignment explanation
Indices: 6469468--6469500 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
6469458 TTTTGAGAAA
6469468 AAATTGG
1 AAATTGG
6469475 AAATTGG
1 AAATTGG
6469482 AAATTGG
1 AAATTGG
6469489 AAATTGG
1 AAATTGG
6469496 AAATT
1 AAATT
6469501 ATTAGTCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.30
Consensus pattern (7 bp):
AAATTGG
Found at i:6470213 original size:29 final size:29
Alignment explanation
Indices: 6470169--6470227 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
6470159 CACTTTAAAG
*
6470169 ACACAAAGCATTCATAGACAATGAAATGA
1 ACACAAAGCATGCATAGACAATGAAATGA
*
6470198 ACACAAAGTATGCATAGACAATGAAATGA
1 ACACAAAGCATGCATAGACAATGAAATGA
6470227 A
1 A
6470228 GTGACATCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.17
Consensus pattern (29 bp):
ACACAAAGCATGCATAGACAATGAAATGA
Found at i:6471156 original size:26 final size:26
Alignment explanation
Indices: 6471120--6471173 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
6471110 ATCCGAAAGG
6471120 ATACTTTAATCTATTTCATAACTTGC
1 ATACTTTAATCTATTTCATAACTTGC
6471146 ATACTTTAATCTATTTCATAACTTGC
1 ATACTTTAATCTATTTCATAACTTGC
6471172 AT
1 AT
6471174 TTCTTATCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (26 bp):
ATACTTTAATCTATTTCATAACTTGC
Found at i:6472371 original size:2 final size:2
Alignment explanation
Indices: 6472364--6472405 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
6472354 TATTATGGGC
6472364 AT AT 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 AT AT
6472406 TTTCTGTCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6475774 original size:62 final size:63
Alignment explanation
Indices: 6475656--6475784 Score: 199
Period size: 62 Copynumber: 2.1 Consensus size: 63
6475646 CCATGTCATT
***
6475656 TGAA-AATGTCATAATATTGGCAAAGAATGGAAGACAAAGGTGATGCAATTAAAAGGAGGAGC
1 TGAAGAATGTCATAATATTGGCAAAGAATGGAAGACAAAGACAATGCAATTAAAAGGAGGAGC
* *
6475718 TGAAGAATGTCATGATATTGGCAAAGAA-GGAAGACAAAGACAATGGAATTAAAAGGAGGAGC
1 TGAAGAATGTCATAATATTGGCAAAGAATGGAAGACAAAGACAATGCAATTAAAAGGAGGAGC
6475780 TGAAG
1 TGAAG
6475785 CCAGTGCGTA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 39 0.64
63 22 0.36
ACGTcount: A:0.46, C:0.08, G:0.29, T:0.18
Consensus pattern (63 bp):
TGAAGAATGTCATAATATTGGCAAAGAATGGAAGACAAAGACAATGCAATTAAAAGGAGGAGC
Found at i:6476434 original size:27 final size:28
Alignment explanation
Indices: 6476391--6476454 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
6476381 TCAAAGTCTG
* *
6476391 AAAA-TCCAATAATTTCTAAATTGGGAC
1 AAAATTCCAATAAATTCTAAACTGGGAC
* *
6476418 CAAATTCCAA-AAATTCTTAACTGGGAC
1 AAAATTCCAATAAATTCTAAACTGGGAC
6476445 AAAATTCCAA
1 AAAATTCCAA
6476455 GATCCAGGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 26 0.84
28 5 0.16
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.27
Consensus pattern (28 bp):
AAAATTCCAATAAATTCTAAACTGGGAC
Found at i:6483996 original size:14 final size:14
Alignment explanation
Indices: 6483977--6484009 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6483967 TGTTAAAATT
6483977 TATA-TTTATTATTA
1 TATATTTTA-TATTA
6483991 TATATTTTATATTA
1 TATATTTTATATTA
6484005 TATAT
1 TATAT
6484010 AATAAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TATATTTTATATTA
Found at i:6484413 original size:13 final size:13
Alignment explanation
Indices: 6484392--6484434 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
6484382 ATTAACTTAA
6484392 TTTTT-TTAATAT
1 TTTTTATTAATAT
6484404 TTTTTATTAATAT
1 TTTTTATTAATAT
* *
6484417 CTTTAATT-ATAT
1 TTTTTATTAATAT
6484429 TTTTTA
1 TTTTTA
6484435 AAAAATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 13 0.50
13 13 0.50
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTATTAATAT
Found at i:6484842 original size:13 final size:13
Alignment explanation
Indices: 6484826--6484876 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
6484816 ATTATAATTT
6484826 TTAAAATATAAAA
1 TTAAAATATAAAA
*
6484839 TTAAAATATTAAAT
1 TTAAAATA-TAAAA
*
6484853 TTAATAATA-CAAA
1 TTAA-AATATAAAA
6484866 TCTAAAATATA
1 T-TAAAATATA
6484877 TATTTCATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
13 15 0.50
14 11 0.37
15 4 0.13
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (13 bp):
TTAAAATATAAAA
Found at i:6488018 original size:2 final size:2
Alignment explanation
Indices: 6488011--6488041 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6488001 TCATCCCTGT
6488011 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6488042 TTTTTATAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6496208 original size:18 final size:18
Alignment explanation
Indices: 6496169--6496208 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6496159 ATATTTATAT
* * *
6496169 ATAAAATTAATTTGTTAT
1 ATAAAATTAATTTCTCAA
6496187 ATAAAATTAATTTCTCAA
1 ATAAAATTAATTTCTCAA
6496205 ATAA
1 ATAA
6496209 TTTCTTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (18 bp):
ATAAAATTAATTTCTCAA
Found at i:6496889 original size:16 final size:15
Alignment explanation
Indices: 6496862--6496891 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6496852 ATGTTAACTT
6496862 TATATTCTATTCTAC
1 TATATTCTATTCTAC
6496877 TATATTGCTATTCTA
1 TATATT-CTATTCTA
6496892 AGTGTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.17, G:0.03, T:0.53
Consensus pattern (15 bp):
TATATTCTATTCTAC
Done.