Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004344.1 Hibiscus syriacus cultivar Beakdansim tig00009517_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 127878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:365 original size:23 final size:25
Alignment explanation
Indices: 314--366 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
304 ACTCCCCCTT
*
314 ACTCTAACACTTCTCCCCTTTAATT
1 ACTCTAACACTTCTCCCCTTTAATA
*
339 ACTCTAACACTTCT-CCTTTTAA-A
1 ACTCTAACACTTCTCCCCTTTAATA
362 ACTCT
1 ACTCT
367 TTAATATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.19
24 7 0.27
25 14 0.54
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (25 bp):
ACTCTAACACTTCTCCCCTTTAATA
Found at i:2566 original size:19 final size:21
Alignment explanation
Indices: 2543--2603 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
2533 AGAACCCCAG
2543 GGGGGTATCGATTCCC-CTGC
1 GGGGGTATCGATTCCCTCTGC
* *
2563 GGGGGAATCGGTTCCCTCAT--
1 GGGGGTATCGATTCCCTC-TGC
2583 GGGGGTATCGATTCCCTCTGC
1 GGGGGTATCGATTCCCTCTGC
2604 ACCAAAATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
19 1 0.03
20 30 0.91
21 1 0.03
22 1 0.03
ACGTcount: A:0.11, C:0.28, G:0.34, T:0.26
Consensus pattern (21 bp):
GGGGGTATCGATTCCCTCTGC
Found at i:6417 original size:21 final size:21
Alignment explanation
Indices: 6393--6434 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6383 GAGTTTATTT
*
6393 TCATTTTTCA-ATTTTGAAACA
1 TCATTTTT-ATATTTTAAAACA
6414 TCATTTTTATATTTTAAAACA
1 TCATTTTTATATTTTAAAACA
6435 ATTTCTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (21 bp):
TCATTTTTATATTTTAAAACA
Found at i:12936 original size:36 final size:37
Alignment explanation
Indices: 12884--12962 Score: 119
Period size: 36 Copynumber: 2.2 Consensus size: 37
12874 AACCATTCCT
12884 AAAA-TTTAATTCTTGTTTCATTTTAGTA-CATGTTA
1 AAAACTTTAATTCTTGTTTCATTTTAGTATCATGTTA
*
12919 AAAACTTTAGATT-TTGTTTCATTTTAGTATCATGTTC
1 AAAACTTTA-ATTCTTGTTTCATTTTAGTATCATGTTA
12956 AAAACTT
1 AAAACTT
12963 AACATTAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
35 4 0.10
36 20 0.50
37 16 0.40
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (37 bp):
AAAACTTTAATTCTTGTTTCATTTTAGTATCATGTTA
Found at i:16664 original size:20 final size:21
Alignment explanation
Indices: 16641--16687 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
16631 TGTTTTGATT
*
16641 TTTTTATT-TTTTAAATATAC
1 TTTTTATTATTTTAAATACAC
* *
16661 TTTTTTTTATTTTAAATGCAC
1 TTTTTATTATTTTAAATACAC
16682 TTTTTA
1 TTTTTA
16688 AAATTAGTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTTATTATTTTAAATACAC
Found at i:18857 original size:19 final size:19
Alignment explanation
Indices: 18833--18871 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
18823 TGCGTCCCGC
18833 TATCGGCTCAATCGTCCGT
1 TATCGGCTCAATCGTCCGT
18852 TATCGGCTCAATCGTCCGT
1 TATCGGCTCAATCGTCCGT
18871 T
1 T
18872 TCCCGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.31, G:0.21, T:0.33
Consensus pattern (19 bp):
TATCGGCTCAATCGTCCGT
Found at i:23082 original size:20 final size:20
Alignment explanation
Indices: 23057--23135 Score: 131
Period size: 20 Copynumber: 4.0 Consensus size: 20
23047 TTTTAAACTT
23057 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
*
23077 AAATTCGCAATACGAAAATG
1 AAATTCGCAACACGAAAATG
*
23097 AAATTCGCAACATGAAAATG
1 AAATTCGCAACACGAAAATG
*
23117 AAAGTCGCAACACGAAAAT
1 AAATTCGCAACACGAAAAT
23136 CGCAACGCGA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.16
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:23181 original size:20 final size:20
Alignment explanation
Indices: 23142--23204 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
23132 AAATCGCAAC
*
23142 GCGATTTT-AGTTTCGTGTT
1 GCGATTTTCATTTTCGTGTT
*
23161 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCGTGTT
*
23181 GCGAATTTCATTTTCGTGTT
1 GCGATTTTCATTTTCGTGTT
23201 GCGA
1 GCGA
23205 ATTTAAGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 8 0.21
20 31 0.79
ACGTcount: A:0.13, C:0.16, G:0.24, T:0.48
Consensus pattern (20 bp):
GCGATTTTCATTTTCGTGTT
Found at i:23205 original size:20 final size:20
Alignment explanation
Indices: 23152--23208 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
23142 GCGATTTTAG
*
23152 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGAATTTCAT
*
23172 TTTCGCGTTGCGAATTTCAT
1 TTTCGTGTTGCGAATTTCAT
23192 TTTCGTGTTGCGAATTT
1 TTTCGTGTTGCGAATTT
23209 AAGTTTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTCGTGTTGCGAATTTCAT
Found at i:23215 original size:20 final size:20
Alignment explanation
Indices: 23145--23215 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
23135 TCGCAACGCG
*
23145 ATTTTAGTTTCGTGTTGCGA
1 ATTTCAGTTTCGTGTTGCGA
* * *
23165 TTTTCATTTTCGCGTTGCGA
1 ATTTCAGTTTCGTGTTGCGA
*
23185 ATTTCATTTTCGTGTTGCGA
1 ATTTCAGTTTCGTGTTGCGA
*
23205 ATTTAAGTTTC
1 ATTTCAGTTTC
23216 AAAAACTACT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.15, C:0.14, G:0.20, T:0.51
Consensus pattern (20 bp):
ATTTCAGTTTCGTGTTGCGA
Found at i:24672 original size:26 final size:26
Alignment explanation
Indices: 24633--24689 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
24623 TCACCTGATC
24633 GAGCCGATTATACAGCTCGATACGCA
1 GAGCCGATTATACAGCTCGATACGCA
*
24659 GAGCCGATTCTACAGCTCGATACGCA
1 GAGCCGATTATACAGCTCGATACGCA
24685 GAGCC
1 GAGCC
24690 ATCACCTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.18
Consensus pattern (26 bp):
GAGCCGATTATACAGCTCGATACGCA
Found at i:24902 original size:21 final size:21
Alignment explanation
Indices: 24853--24902 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
24843 GTTAGGGTTG
*
24853 TTACGTGATGAGGTCAGTACT
1 TTACGTGATGAAGTCAGTACT
** *
24874 TTGTGTGATGAAGTCGGTACT
1 TTACGTGATGAAGTCAGTACT
24895 TTACGTGA
1 TTACGTGA
24903 CGACAATGGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (21 bp):
TTACGTGATGAAGTCAGTACT
Found at i:24943 original size:21 final size:21
Alignment explanation
Indices: 24919--25015 Score: 63
Period size: 21 Copynumber: 4.6 Consensus size: 21
24909 TGGTTCATGG
24919 CGTGATGAGGTACGAT-CTTTA
1 CGTGATGAGGTA-GATGCTTTA
* *
24940 CGTGGTGAGGTAGATGTTTTA
1 CGTGATGAGGTAGATGCTTTA
* ** *
24961 CGCGATGA-CAATGGTGCTTTA
1 CGTGATGAGGTA-GATGCTTTA
* ** *
24982 CGTGGTGAGGTATCTACTTTA
1 CGTGATGAGGTAGATGCTTTA
*
25003 TGTGATGAGGTAG
1 CGTGATGAGGTAG
25016 TCTCTCTACG
Statistics
Matches: 55, Mismatches: 18, Indels: 6
0.70 0.23 0.08
Matches are distributed among these distances:
20 4 0.07
21 50 0.91
22 1 0.02
ACGTcount: A:0.22, C:0.11, G:0.33, T:0.34
Consensus pattern (21 bp):
CGTGATGAGGTAGATGCTTTA
Found at i:25028 original size:21 final size:21
Alignment explanation
Indices: 24980--25028 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
24970 AATGGTGCTT
* *
24980 TACGTGGTGAGGTATCTACTT
1 TACGTGATGAGGTATCTACTC
*
25001 TATGTGATGAGGTAGTCT-CTC
1 TACGTGATGAGGTA-TCTACTC
25022 TACGTGA
1 TACGTGA
25029 GATTGTTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.20, C:0.14, G:0.29, T:0.37
Consensus pattern (21 bp):
TACGTGATGAGGTATCTACTC
Found at i:25337 original size:21 final size:21
Alignment explanation
Indices: 25311--25385 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
25301 TTTACCTGTC
*
25311 ATCGTTCAAGAGGCCCCTCCT
1 ATCGTTCAAGAGGCCACTCCT
*
25332 ATCGTTTAAGAGGCCACT-CT
1 ATCGTTCAAGAGGCCACTCCT
* *
25352 CATCGTTCAAGAGGCCTCTCCC
1 -ATCGTTCAAGAGGCCACTCCT
*
25374 ACCGTTCAAGAG
1 ATCGTTCAAGAG
25386 CCCGATTCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 2 0.04
21 43 0.93
22 1 0.02
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCACTCCT
Found at i:27225 original size:18 final size:18
Alignment explanation
Indices: 27202--27237 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
27192 AAGCCAGTTG
*
27202 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
27220 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
27238 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:27938 original size:32 final size:34
Alignment explanation
Indices: 27902--27970 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
27892 CTTACAAATC
* *
27902 CCCTAG-TTTTTC-CGGGCTAAACTAGAACCTTT
1 CCCTAGCTTTTACACGGGATAAACTAGAACCTTT
* *
27934 CCCTAGCTTTTACACGGGATTATCTAGAACCTTT
1 CCCTAGCTTTTACACGGGATAAACTAGAACCTTT
27968 CCC
1 CCC
27971 CTTTACAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 6 0.19
33 5 0.16
34 20 0.65
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.33
Consensus pattern (34 bp):
CCCTAGCTTTTACACGGGATAAACTAGAACCTTT
Found at i:28367 original size:20 final size:20
Alignment explanation
Indices: 28338--28430 Score: 159
Period size: 20 Copynumber: 4.7 Consensus size: 20
28328 GCAGCCTTGG
* * *
28338 TGCATTGATGCATAGCAGGA
1 TGCATCGATGCACAGAAGGA
28358 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGAAGGA
28378 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGAAGGA
28398 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGAAGGA
28418 TGCATCGATGCAC
1 TGCATCGATGCAC
28431 TAAGTGCATT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.18
Consensus pattern (20 bp):
TGCATCGATGCACAGAAGGA
Found at i:28657 original size:31 final size:30
Alignment explanation
Indices: 28608--28668 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 30
28598 AAACTTTGAA
28608 TAAAATCAATTAAGTCCAAAAACCATTTTG
1 TAAAATCAATTAAGTCCAAAAACCATTTTG
*
28638 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAAATCAATT-AAGTCCAAAAACCATTTTG
28669 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 10 0.34
31 19 0.66
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (30 bp):
TAAAATCAATTAAGTCCAAAAACCATTTTG
Found at i:30722 original size:12 final size:12
Alignment explanation
Indices: 30701--30734 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30691 GGTTGTGGGT
*
30701 TTTGAGATTGTG
1 TTTGATATTGTG
30713 TTTGATATTGTG
1 TTTGATATTGTG
*
30725 TTTGGTATTG
1 TTTGATATTG
30735 AAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:31543 original size:20 final size:20
Alignment explanation
Indices: 31499--31585 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 20
31489 CAAAACATTT
*
31499 GTGTTGCGAAAATAAAA-GC
1 GTGTTGCGAAAATAAAATTC
*
31518 -TGTTGCGAAATTAAAATTC
1 GTGTTGCGAAAATAAAATTC
*
31537 GTGTTGCG-AATTCGAAAATT-
1 GTGTTGCGAAAAT--AAAATTC
* * *
31557 GAGTTGTGAAAACAAAATTC
1 GTGTTGCGAAAATAAAATTC
31577 GTGTTGCGA
1 GTGTTGCGA
31586 TTTAGAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
18 15 0.28
19 11 0.20
20 20 0.37
21 8 0.15
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (20 bp):
GTGTTGCGAAAATAAAATTC
Found at i:31579 original size:40 final size:40
Alignment explanation
Indices: 31530--31608 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
31520 TTGCGAAATT
*
31530 AAAATTCGTGTTGCGAATTCGAAAAT-TGAGTTGTGAAAAC
1 AAAATTCGTGTTGCGAATTAGAAAATCT-AGTTGTGAAAAC
* *
31570 AAAATTCGTGTTGCGATTTAGAAAATCTTGTTGTGAAAA
1 AAAATTCGTGTTGCGAATTAGAAAATCTAGTTGTGAAAA
31609 GGAAACTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 34 0.97
41 1 0.03
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.33
Consensus pattern (40 bp):
AAAATTCGTGTTGCGAATTAGAAAATCTAGTTGTGAAAAC
Found at i:31655 original size:20 final size:20
Alignment explanation
Indices: 31630--31750 Score: 70
Period size: 20 Copynumber: 6.0 Consensus size: 20
31620 TATGAAAAAT
31630 AAATTCGCGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
*
31650 AAATTC-CGTATTACGAATTTG
1 AAATTCGCG--TTGCGAATTTG
* * *
31671 -ACTTCTGTGTTGC-AATTTAC
1 AAATTC-GCGTTGCGAATTT-G
31691 AAATTCGCGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
* * ** *
31711 GAA-CCTATGTTGCGAAATTG
1 AAATTC-GCGTTGCGAATTTG
* *
31731 GAGTTCGCGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTTG
31751 TTGGACATTT
Statistics
Matches: 74, Mismatches: 18, Indels: 18
0.67 0.16 0.16
Matches are distributed among these distances:
19 8 0.11
20 45 0.61
21 20 0.27
22 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (20 bp):
AAATTCGCGTTGCGAATTTG
Found at i:32232 original size:30 final size:30
Alignment explanation
Indices: 32196--32280 Score: 134
Period size: 30 Copynumber: 2.8 Consensus size: 30
32186 AATTTAACAT
*
32196 GTTTAGTACTTAAACTATCAGTTTTGATCC
1 GTTTAGTACCTAAACTATCAGTTTTGATCC
*
32226 GTTTAGTACCTAAACTATCAGTTTTGGTCC
1 GTTTAGTACCTAAACTATCAGTTTTGATCC
* *
32256 GTTTAGTACCTAAACTTTCATTTTT
1 GTTTAGTACCTAAACTATCAGTTTT
32281 ATTCAAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.45
Consensus pattern (30 bp):
GTTTAGTACCTAAACTATCAGTTTTGATCC
Found at i:33709 original size:3 final size:3
Alignment explanation
Indices: 33701--33762 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
33691 TGGAGATGAG
* * * * * *
33701 GAC GAC GAC GAC GAC GAA GAT GAC GAA GAC GAC GAC GAA GAT GAT GAC
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC
*
33749 GAC GAT GAC GAC GA
1 GAC GAC GAC GAC GA
33763 TGGAGGTGAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.39, C:0.21, G:0.34, T:0.06
Consensus pattern (3 bp):
GAC
Found at i:33721 original size:24 final size:23
Alignment explanation
Indices: 33694--33762 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 23
33684 GAGCAAGTGG
33694 AGATGAGGACGACGACGACGACGA
1 AGATGA-GACGACGACGACGACGA
*
33718 AGAT--GACGAAGACGACGACGA
1 AGATGAGACGACGACGACGACGA
*
33739 AGATGATGACGACGATGACGACGA
1 AGATGA-GACGACGACGACGACGA
33763 TGGAGGTGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
21 20 0.51
24 19 0.49
ACGTcount: A:0.39, C:0.19, G:0.35, T:0.07
Consensus pattern (23 bp):
AGATGAGACGACGACGACGACGA
Found at i:33731 original size:21 final size:21
Alignment explanation
Indices: 33701--33764 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
33691 TGGAGATGAG
33701 GACGACGACGACGACGAAGAT
1 GACGACGACGACGACGAAGAT
*
33722 GACGAAGACGACGACGAAGAT
1 GACGACGACGACGACGAAGAT
* * *
33743 GATGACGACGATGACGACGAT
1 GACGACGACGACGACGAAGAT
33764 G
1 G
33765 GAGGTGAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.38, C:0.20, G:0.34, T:0.08
Consensus pattern (21 bp):
GACGACGACGACGACGAAGAT
Found at i:33793 original size:9 final size:9
Alignment explanation
Indices: 33779--33825 Score: 76
Period size: 9 Copynumber: 5.2 Consensus size: 9
33769 TGAATATGAA
33779 GAAGAAGAG
1 GAAGAAGAG
33788 GAAGAAGAG
1 GAAGAAGAG
*
33797 GAAGAGGAG
1 GAAGAAGAG
*
33806 GAAGAAGAC
1 GAAGAAGAG
33815 GAAGAAGAG
1 GAAGAAGAG
33824 GA
1 GA
33826 GCTTCAGCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.53, C:0.02, G:0.45, T:0.00
Consensus pattern (9 bp):
GAAGAAGAG
Found at i:42869 original size:60 final size:60
Alignment explanation
Indices: 42791--42907 Score: 173
Period size: 60 Copynumber: 1.9 Consensus size: 60
42781 GAATTTAGGA
* * *
42791 ATGAAATTGGAAGGTTTAAAAGTTTAGGGACAAATTTAGAATAAGA-GTCATAGTTTGAGG
1 ATGAAATTAGAAGGTTTAAAAGTTTAAGGACAAATTTAGAATAA-ATATCATAGTTTGAGG
* *
42851 ATGAAATTAGAATGTTTAAAAGTTTAAGGACTAATTTAGAATAAATATCATAGTTTG
1 ATGAAATTAGAAGGTTTAAAAGTTTAAGGACAAATTTAGAATAAATATCATAGTTTG
42908 GGGACATAGG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 1 0.02
60 50 0.98
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.33
Consensus pattern (60 bp):
ATGAAATTAGAAGGTTTAAAAGTTTAAGGACAAATTTAGAATAAATATCATAGTTTGAGG
Found at i:42889 original size:29 final size:30
Alignment explanation
Indices: 42804--42893 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 30
42794 AAATTGGAAG
* *
42804 GTTTAAAAGTTTAGGGACAAATTTAGAATAA
1 GTTTAAAAGTTTAAGGACTAATTTAGAAT-A
** * * * *
42835 GAGTCATAGTTTGAGGA-TGAAATTAGAAT-
1 GTTTAAAAGTTTAAGGACT-AATTTAGAATA
42864 GTTTAAAAGTTTAAGGACTAATTTAGAATA
1 GTTTAAAAGTTTAAGGACTAATTTAGAATA
42894 AATATCATAG
Statistics
Matches: 42, Mismatches: 14, Indels: 7
0.67 0.22 0.11
Matches are distributed among these distances:
29 21 0.50
30 1 0.02
31 20 0.48
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.33
Consensus pattern (30 bp):
GTTTAAAAGTTTAAGGACTAATTTAGAATA
Found at i:49476 original size:40 final size:40
Alignment explanation
Indices: 49432--49510 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
49422 ATAGAAAATT
49432 TTTGAAATTCTTTCAACAATGATTTTTAAAATATTATTAG
1 TTTGAAATTCTTTCAACAATGATTTTTAAAATATTATTAG
49472 TTTGAAATTCTTTCAACAATGATTTTTAAAATATTATTA
1 TTTGAAATTCTTTCAACAATGATTTTTAAAATATTATTA
49511 TTTTATTGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (40 bp):
TTTGAAATTCTTTCAACAATGATTTTTAAAATATTATTAG
Found at i:49573 original size:3 final size:3
Alignment explanation
Indices: 49567--49722 Score: 125
Period size: 3 Copynumber: 48.3 Consensus size: 3
49557 CTCTATTGTT
* * *
49567 AAG AAG AAG AAG AAG AAG -AC AAC AAG ACACC AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A-A-G AAG AAG AAG AAG AAG
* *
49613 AAG AAG AAG ACACC AAG AAG AAG AAG AAG AAG ATACC AAG AAG AAG AAG
1 AAG AAG AAG A-A-G AAG AAG AAG AAG AAG AAG A-A-G AAG AAG AAG AAG
* * *
49662 AAG AAG ACACC AAG ACACC AAG AAG AAG AAG AAG AAG ACACC AAG AAG
1 AAG AAG A-A-G AAG A-A-G AAG AAG AAG AAG AAG AAG A-A-G AAG AAG
49710 AAG AAG AAG AAG A
1 AAG AAG AAG AAG A
49723 CACCCACACA
Statistics
Matches: 126, Mismatches: 14, Indels: 26
0.76 0.08 0.16
Matches are distributed among these distances:
2 1 0.01
3 107 0.85
4 12 0.10
5 6 0.05
ACGTcount: A:0.62, C:0.12, G:0.26, T:0.01
Consensus pattern (3 bp):
AAG
Found at i:49593 original size:23 final size:23
Alignment explanation
Indices: 49567--49724 Score: 114
Period size: 23 Copynumber: 6.9 Consensus size: 23
49557 CTCTATTGTT
49567 AAGAAGAAGAAGAAGAAGACAAC
1 AAGAAGAAGAAGAAGAAGACAAC
* *
49590 AAGACACCAAGAAGAAGAAG--AAG
1 AAGA-A-GAAGAAGAAGAAGACAAC
* *
49613 AAGAAGAAGACACCAAGAAG--AAG
1 AAGAAGAAGA-A-GAAGAAGACAAC
* *
49636 AAGAAGAAGATACCAAGAAG--AAG
1 AAGAAGAAGA-A-GAAGAAGACAAC
* ** *
49659 AAGAAGAAG-ACACCAAGACACC
1 AAGAAGAAGAAGAAGAAGACAAC
*
49681 AAGAAGAAGAAGAAGAAGACACC
1 AAGAAGAAGAAGAAGAAGACAAC
49704 AAGAAGAAGAAGAAGAAGACA
1 AAGAAGAAGAAGAAGAAGACA
49725 CCCACACACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
20 5 0.04
21 5 0.04
22 12 0.10
23 81 0.70
24 1 0.01
25 12 0.10
ACGTcount: A:0.61, C:0.13, G:0.25, T:0.01
Consensus pattern (23 bp):
AAGAAGAAGAAGAAGAAGACAAC
Found at i:49723 original size:54 final size:54
Alignment explanation
Indices: 49573--49726 Score: 249
Period size: 54 Copynumber: 2.9 Consensus size: 54
49563 TGTTAAGAAG
* *
49573 AAGAAGAAGAAGACAACAAGACACCAAGAAGAAGAAGAAGAAGA-A-GAAGACACC
1 AAGAAGAAGAAG--AAGAAGACACCAAGAAGAAGAAGAAGAAGACACCAAGACACC
*
49627 AAGAAGAAGAAGAAGAAGATACCAAGAAGAAGAAGAAGAAGACACCAAGACACC
1 AAGAAGAAGAAGAAGAAGACACCAAGAAGAAGAAGAAGAAGACACCAAGACACC
49681 AAGAAGAAGAAGAAGAAGACACCAAGAAGAAGAAGAAGAAGACACC
1 AAGAAGAAGAAGAAGAAGACACCAAGAAGAAGAAGAAGAAGACACC
49727 CACACACACG
Statistics
Matches: 94, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
52 28 0.30
53 1 0.01
54 65 0.69
ACGTcount: A:0.60, C:0.14, G:0.25, T:0.01
Consensus pattern (54 bp):
AAGAAGAAGAAGAAGAAGACACCAAGAAGAAGAAGAAGAAGACACCAAGACACC
Found at i:49725 original size:23 final size:23
Alignment explanation
Indices: 49604--49726 Score: 165
Period size: 23 Copynumber: 5.0 Consensus size: 23
49594 CACCAAGAAG
49604 AAGAAGAAGAAGAAGAAGACACC
1 AAGAAGAAGAAGAAGAAGACACC
*
49627 AAGAAGAAGAAGAAGAAGATACC
1 AAGAAGAAGAAGAAGAAGACACC
49650 AAGAAGAAGAAGAAGAAGACACC
1 AAGAAGAAGAAGAAGAAGACACC
49673 AAGACACCAAGAAGAAGAAGAAGAAGACACC
1 AAG------A-A-GAAGAAGAAGAAGACACC
49704 AAGAAGAAGAAGAAGAAGACACC
1 AAGAAGAAGAAGAAGAAGACACC
49727 CACACACACG
Statistics
Matches: 90, Mismatches: 2, Indels: 16
0.83 0.02 0.15
Matches are distributed among these distances:
23 65 0.72
24 1 0.01
25 1 0.01
29 1 0.01
30 1 0.01
31 21 0.23
ACGTcount: A:0.60, C:0.14, G:0.25, T:0.01
Consensus pattern (23 bp):
AAGAAGAAGAAGAAGAAGACACC
Found at i:49805 original size:46 final size:49
Alignment explanation
Indices: 49729--49826 Score: 141
Period size: 48 Copynumber: 2.0 Consensus size: 49
49719 AAGACACCCA
49729 CACACACGTGGGGTTTTTTTTATATTTTTTA-TTTTT-TAATTCTAAACT
1 CACACACGT-GGGTTTTTTTTATATTTTTTATTTTTTATAATTCTAAACT
*
49777 CACACACGT-GGTTTTTTTTA-ATTATTTTATTTTTTATAATTGTAAACT
1 CACACACGTGGGTTTTTTTTATATT-TTTTATTTTTTATAATTCTAAACT
49825 CA
1 CA
49827 GATTTTCATT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
45 3 0.07
46 16 0.35
47 5 0.11
48 22 0.48
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (49 bp):
CACACACGTGGGTTTTTTTTATATTTTTTATTTTTTATAATTCTAAACT
Found at i:50426 original size:2 final size:2
Alignment explanation
Indices: 50419--50453 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
50409 TAACGGATGA
50419 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
50454 ATAACATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:51143 original size:34 final size:34
Alignment explanation
Indices: 51033--51144 Score: 101
Period size: 34 Copynumber: 3.2 Consensus size: 34
51023 GGGTTGGTTA
51033 GGTCGGGTCACGGGTGG-AGGACCCTTTCTTCTCG
1 GGTCGGGTCACGGGTGGAAGG-CCCTTTCTTCTCG
*
51067 GGTCGGGT--CGGGTCATGTGAA--ACCTTAAT-TTCGTCG
1 GGTCGGGTCACGGG---TG-GAAGGCCCTT--TCTTC-TCG
51103 GGTCGGGTCACGGGTGGAAGGCCCTTTCTTCTCG
1 GGTCGGGTCACGGGTGGAAGGCCCTTTCTTCTCG
51137 GGTCGGGT
1 GGTCGGGT
51145 GGCCCAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 26
0.69 0.02 0.29
Matches are distributed among these distances:
32 4 0.06
34 27 0.43
35 10 0.16
36 17 0.27
37 1 0.02
38 4 0.06
ACGTcount: A:0.11, C:0.23, G:0.38, T:0.28
Consensus pattern (34 bp):
GGTCGGGTCACGGGTGGAAGGCCCTTTCTTCTCG
Found at i:55113 original size:10 final size:9
Alignment explanation
Indices: 55098--55122 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
55088 ATAATTATAT
55098 ATAAAAAAA
1 ATAAAAAAA
55107 ATAAAAAAA
1 ATAAAAAAA
55116 ATAAAAA
1 ATAAAAA
55123 CTAATCGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:55758 original size:18 final size:19
Alignment explanation
Indices: 55735--55786 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
55725 TCGATAAATA
55735 AATTAATAAATAA-AATTT
1 AATTAATAAATAATAATTT
*
55753 AATTAATAATTAATAATTT
1 AATTAATAAATAATAATTT
*
55772 -ATTAATAGATAATAA
1 AATTAATAAATAATAA
55787 AAATATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 25 0.83
19 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
AATTAATAAATAATAATTT
Found at i:60518 original size:3 final size:3
Alignment explanation
Indices: 60512--60540 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
60502 CTCGATTAGA
60512 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
60541 ATCAGTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:60868 original size:24 final size:24
Alignment explanation
Indices: 60836--61011 Score: 121
Period size: 24 Copynumber: 7.5 Consensus size: 24
60826 TCATTTAAAT
*
60836 GATAAACGAACACAAATGAACGAA
1 GATAAACGAACACAAATAAACGAA
** *
60860 GATAAACGAACGGATATAAACGAA
1 GATAAACGAACACAAATAAACGAA
* *
60884 CATAAATGAACAC-AATAAACGAA
1 GATAAACGAACACAAATAAACGAA
** ** *
60907 CG-TAAACGAACGGATGTGAACGAA
1 -GATAAACGAACACAAATAAACGAA
*
60931 CATAAACGAACAC-AATAAACGAA
1 GATAAACGAACACAAATAAACGAA
* ** *
60954 CG-TAAATGAACACAAACGAACAAA
1 -GATAAACGAACACAAATAAACGAA
*
60978 CG-TAAACGAACAC-AATAAATGAA
1 -GATAAACGAACACAAATAAACGAA
*
61001 CATAAACGAAC
1 GATAAACGAAC
61012 GTAAACGAAC
Statistics
Matches: 113, Mismatches: 33, Indels: 13
0.71 0.21 0.08
Matches are distributed among these distances:
23 49 0.43
24 64 0.57
ACGTcount: A:0.56, C:0.18, G:0.15, T:0.11
Consensus pattern (24 bp):
GATAAACGAACACAAATAAACGAA
Found at i:60888 original size:10 final size:10
Alignment explanation
Indices: 60875--61026 Score: 79
Period size: 10 Copynumber: 13.5 Consensus size: 10
60865 ACGAACGGAT
60875 ATAAACGAAC
1 ATAAACGAAC
*
60885 ATAAATGAACAC
1 ATAAACG-A-AC
60897 AATAAACGAAC
1 -ATAAACGAAC
*
60908 GTAAACGAAC
1 ATAAACGAAC
*
60918 GGATGTGAACGAAC
1 --A--TAAACGAAC
60932 ATAAACGAACAC
1 ATAAACG-A-AC
60944 AATAAACGAAC
1 -ATAAACGAAC
* *
60955 GTAAATGAAC
1 ATAAACGAAC
*
60965 ACAAACGAAC
1 ATAAACGAAC
60975 AAACGTAAACGAACAC
1 --A--TAAACG-A-AC
*
60991 AATAAATGAAC
1 -ATAAACGAAC
61002 ATAAACGAAC
1 ATAAACGAAC
*
61012 GTAAACGAAC
1 ATAAACGAAC
61022 ATAAA
1 ATAAA
61027 TGAAAATATA
Statistics
Matches: 110, Mismatches: 16, Indels: 32
0.70 0.10 0.20
Matches are distributed among these distances:
10 57 0.52
11 8 0.07
12 9 0.08
13 18 0.16
14 13 0.12
15 3 0.03
16 2 0.02
ACGTcount: A:0.57, C:0.18, G:0.14, T:0.11
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:60915 original size:47 final size:47
Alignment explanation
Indices: 60837--61026 Score: 201
Period size: 47 Copynumber: 4.1 Consensus size: 47
60827 CATTTAAATG
*
60837 ATAAACGAACACAAATGAACGAA-GATAAACGAACGGATATAAACGAAC
1 ATAAACGAACAC-AATAAACGAACG-TAAACGAACGGATATAAACGAAC
* * *
60885 ATAAATGAACACAATAAACGAACGTAAACGAACGGATGTGAACGAAC
1 ATAAACGAACACAATAAACGAACGTAAACGAACGGATATAAACGAAC
* ** * ** *
60932 ATAAACGAACACAATAAACGAACGTAAATGAACACAAACGAACAAAC
1 ATAAACGAACACAATAAACGAACGTAAACGAACGGATATAAACGAAC
* * *
60979 GTAAACGAACACAATAAATGAACATAAACGAAC-G---TAAACGAAC
1 ATAAACGAACACAATAAACGAACGTAAACGAACGGATATAAACGAAC
61022 ATAAA
1 ATAAA
61027 TGAAAATATA
Statistics
Matches: 120, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
43 10 0.08
47 98 0.82
48 12 0.10
ACGTcount: A:0.56, C:0.18, G:0.15, T:0.11
Consensus pattern (47 bp):
ATAAACGAACACAATAAACGAACGTAAACGAACGGATATAAACGAAC
Found at i:61251 original size:14 final size:14
Alignment explanation
Indices: 61223--61269 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
61213 ATAAATGAAA
* *
61223 ATAAACGAAGAAAC
1 ATAAATGAAAAAAC
**
61237 ATAAATGAACGAAC
1 ATAAATGAAAAAAC
61251 ATAAATGAAAAAAC
1 ATAAATGAAAAAAC
61265 ATAAA
1 ATAAA
61270 CGACCATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.66, C:0.11, G:0.11, T:0.13
Consensus pattern (14 bp):
ATAAATGAAAAAAC
Found at i:62079 original size:37 final size:37
Alignment explanation
Indices: 62003--62079 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
61993 TTTTTATATT
*
62003 TTTAATTTTATAAAAAATATTATATAAATATTATGAA
1 TTTAATTTTATAAAAAATATTATATAAATATTATCAA
* *
62040 TTTAATTTTTTAAAGAAA-A-TATATAAATATTTTACAA
1 TTTAATTTTATAAA-AAATATTATATAAATATTAT-CAA
62077 TTT
1 TTT
62080 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 13 0.37
37 19 0.54
38 3 0.09
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (37 bp):
TTTAATTTTATAAAAAATATTATATAAATATTATCAA
Found at i:63162 original size:3 final size:3
Alignment explanation
Indices: 63154--63212 Score: 66
Period size: 3 Copynumber: 18.3 Consensus size: 3
63144 CGGGTCTTTT
63154 TTA TTA TTA TT- TATA TATA TTTA TTA TTA TTTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA T-TA T-TA -TTA TTA TTA -TTA TTA TTA TTA TTA -TTA
63203 TTA TTA TTA T
1 TTA TTA TTA T
63213 GTTTATTAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
2 1 0.02
3 37 0.73
4 12 0.24
5 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:63174 original size:10 final size:10
Alignment explanation
Indices: 63153--63212 Score: 81
Period size: 10 Copynumber: 6.1 Consensus size: 10
63143 CCGGGTCTTT
63153 TTTATTATTA
1 TTTATTATTA
63163 TTTA-TATATA
1 TTTATTAT-TA
63173 TTTATTATTA
1 TTTATTATTA
63183 TTTATTATTA
1 TTTATTATTA
63193 -TTATTATT-
1 TTTATTATTA
63201 TATTATTATTA
1 T-TTATTATTA
63212 T
1 T
63213 GTTTATTAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
9 11 0.24
10 30 0.67
11 4 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTATTATTA
Found at i:63174 original size:16 final size:14
Alignment explanation
Indices: 63155--63212 Score: 75
Period size: 13 Copynumber: 4.1 Consensus size: 14
63145 GGGTCTTTTT
63155 TATTATTATTTATATA
1 TATTATTA-TTAT-TA
63171 TATTTATTATTATT-
1 TA-TTATTATTATTA
63185 TATTATTATTATTA
1 TATTATTATTATTA
63199 T-TTATTATTATTA
1 TATTATTATTATTA
63212 T
1 T
63213 GTTTATTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
13 24 0.60
14 3 0.08
15 1 0.03
16 6 0.15
17 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:63224 original size:16 final size:15
Alignment explanation
Indices: 63153--63220 Score: 77
Period size: 16 Copynumber: 4.5 Consensus size: 15
63143 CCGGGTCTTT
63153 TTTATTATTATT-TA
1 TTTATTATTATTATA
*
63167 TATA-TATTTATTATTA
1 TTTATTA-TTATTA-TA
63183 TTTATTATTATTATTA
1 TTTATTATTATTA-TA
*
63199 TTTATTATTATTATG
1 TTTATTATTATTATA
63214 TTTATTA
1 TTTATTA
63221 ATTACATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
13 2 0.04
14 8 0.17
15 8 0.17
16 27 0.57
17 2 0.04
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (15 bp):
TTTATTATTATTATA
Found at i:64033 original size:18 final size:19
Alignment explanation
Indices: 63979--64034 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 19
63969 AGTTTCACTT
63979 CTCCGGCCACCGTGCGCAGC
1 CTCCGGCCACCGTG-GCAGC
*
63999 CGT-CGGCCCCGCCGTGG-AGC
1 C-TCCGG--CCACCGTGGCAGC
64019 CTCCGGCCACCGTGGC
1 CTCCGGCCACCGTGGC
64035 CGTTCTCTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 11
0.69 0.05 0.26
Matches are distributed among these distances:
18 8 0.28
19 1 0.03
20 11 0.38
21 2 0.07
22 7 0.24
ACGTcount: A:0.07, C:0.48, G:0.34, T:0.11
Consensus pattern (19 bp):
CTCCGGCCACCGTGGCAGC
Found at i:66982 original size:31 final size:32
Alignment explanation
Indices: 66947--67008 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
66937 ATTCTACATG
66947 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
66978 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
67009 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:68845 original size:14 final size:14
Alignment explanation
Indices: 68826--68868 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
68816 GAGAAAAGAA
68826 AAACAAAGAGAAAG
1 AAACAAAGAGAAAG
* *
68840 AAACAAAGTGAAAA
1 AAACAAAGAGAAAG
*
68854 AAAAAGAAGAGAAAG
1 AAACA-AAGAGAAAG
68869 TGGACAAAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.72, C:0.05, G:0.21, T:0.02
Consensus pattern (14 bp):
AAACAAAGAGAAAG
Found at i:70051 original size:4 final size:4
Alignment explanation
Indices: 70044--70081 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
70034 ATACATCAAC
*
70044 ACAT ACAT ACAT ATAT ACAT ACAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
70082 GATACATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 2 0.07
4 28 0.93
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:70053 original size:16 final size:16
Alignment explanation
Indices: 70032--70076 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
70022 GATTGAGAAA
70032 ACATACATCA-ACACAT
1 ACATACAT-ATACACAT
*
70048 ACATACATATATACAT
1 ACATACATATACACAT
*
70064 ACATACACATACA
1 ACATACATATACA
70077 TACATGATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 1 0.04
16 24 0.96
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (16 bp):
ACATACATATACACAT
Found at i:70679 original size:36 final size:36
Alignment explanation
Indices: 70627--70744 Score: 150
Period size: 36 Copynumber: 3.3 Consensus size: 36
70617 TGAGAATTTT
* *
70627 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTTC
1 AAAACAAA-TTTTGTCTCGATTGAGACAATTTCTTTA
* *
70664 AAAGCAAATTTTGTCTCGATTGAGACAGCTTTC--TA
1 AAAACAAATTTTGTCTCGATTGAGACA-ATTTCTTTA
* *
70699 AAAACAAATTTTGTCTCGTTTGAGACAATTTCTTGA
1 AAAACAAATTTTGTCTCGATTGAGACAATTTCTTTA
70735 AAAACAAATT
1 AAAACAAATT
70745 CCGCCTCACT
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
34 4 0.06
35 26 0.37
36 29 0.41
37 11 0.16
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCGATTGAGACAATTTCTTTA
Found at i:70760 original size:71 final size:72
Alignment explanation
Indices: 70627--70761 Score: 175
Period size: 71 Copynumber: 1.9 Consensus size: 72
70617 TGAGAATTTT
** * ** * *
70627 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTTCAAAGCAAATTTTGTCTCGATTGAGACAG
1 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGCCTCGATGGAGACAG
70692 CTTTCTA
66 CTTTCTA
*
70699 AAAACAAA-TTTTGTCTCGTTTGAGACAATTTCTTGAAAAACAAATTCCGCCTC-ACTGGAGACA
1 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGCCTCGA-TGGAGACA
70762 TTTTTCATTG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
70 1 0.02
71 45 0.83
72 8 0.15
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (72 bp):
AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGCCTCGATGGAGACAG
CTTTCTA
Found at i:70928 original size:36 final size:36
Alignment explanation
Indices: 70847--70928 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
70837 ATTTTGTTTT
* * *
70847 GCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATC
1 GCTTGAGACAAATTCTTTAAAAACAAACTTCGTATC
* * *
70883 ACTTAAGACAAATTCTCTT-AAAACAAACTTCGTCTC
1 GCTTGAGACAAATTCT-TTAAAAACAAACTTCGTATC
70919 GCTTGAGACA
1 GCTTGAGACA
70929 TTTTTCCTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
36 35 0.95
37 2 0.05
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (36 bp):
GCTTGAGACAAATTCTTTAAAAACAAACTTCGTATC
Found at i:71028 original size:105 final size:102
Alignment explanation
Indices: 70902--71140 Score: 288
Period size: 105 Copynumber: 2.3 Consensus size: 102
70892 AAATTCTCTT
* * *
70902 AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
*
70966 TAAAAACAAAATTAATCTCACCTT-AGATTCTTGTTTCTTTC-
66 T-AAAACAAAATTAATCTCA-CTTGAGA-TC--GTTTC-CTCA
* * *
71007 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* * *
71072 TTAAACAAAGTTGATCTCACTTGAGATCGTTTCCTCA
66 TAAAACAAAATTAATCTCACTTGAGATCGTTTCCTCA
*
71109 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
71141 TCTAAAAAAA
Statistics
Matches: 118, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
101 2 0.02
102 31 0.26
103 3 0.03
104 5 0.04
105 76 0.64
106 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TAAAACAAAATTAATCTCACTTGAGATCGTTTCCTCA
Found at i:71166 original size:34 final size:33
Alignment explanation
Indices: 71109--71203 Score: 109
Period size: 34 Copynumber: 2.8 Consensus size: 33
71099 CGTTTCCTCA
* *
71109 AAAACAAACTTTGTCTCGCTTGAGACAATTTCTCT
1 AAAA-AAATTTTGTCTCGCTTGAGACAATATCT-T
** *
71144 AAAAAAATTTTGTCTCATTTGAGACTATATCTT
1 AAAAAAATTTTGTCTCGCTTGAGACAATATCTT
*
71177 AAAGCAAATTTTGTCTCGCTTGAGACA
1 AAA-AAAATTTTGTCTCGCTTGAGACA
71204 TCATTTTCTC
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
33 4 0.08
34 42 0.84
35 4 0.08
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
AAAAAAATTTTGTCTCGCTTGAGACAATATCTT
Found at i:71495 original size:29 final size:29
Alignment explanation
Indices: 71457--71555 Score: 157
Period size: 29 Copynumber: 3.5 Consensus size: 29
71447 TTTCTCTTGA
*
71457 AAAAATCTTTGAGTTTGCTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
71486 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
* *
71515 AAAGATCTTTGAG-TTGTTTCTTTTGAA-
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
71542 AAAAATCTTTGAGT
1 AAAAATCTTTGAGT
71556 CTATTTATTT
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
27 12 0.18
28 13 0.20
29 40 0.62
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.45
Consensus pattern (29 bp):
AAAAATCTTTGAGTTTGTTCCTTTTGAAT
Found at i:71540 original size:28 final size:28
Alignment explanation
Indices: 71446--71672 Score: 183
Period size: 28 Copynumber: 7.8 Consensus size: 28
71436 TCTTGAGACA
*
71446 GTTTCTCTTG-AAAAAATCTTTGAGTTT
1 GTTTCTTTTGAAAAAAATCTTTGAGTTT
* *
71473 GCTCCTTTTGAATAAAAATCTTTGAGTTT
1 GTTTCTTTTGAA-AAAAATCTTTGAGTTT
* *
71502 GTTCCTTTTGAATAAAGATCTTTGAG-TT
1 GTTTCTTTTGAA-AAAAATCTTTGAGTTT
*
71530 GTTTCTTTTGAAAAAAATCTTTGAGTCT
1 GTTTCTTTTGAAAAAAATCTTTGAGTTT
* * * ***
71558 ATTTATTTTGAAACAAAGTTTTGTCTCTCTTGAGACA
1 GTTTCTTTTGAAA-AAA-------ATCT-TTGAGTTT
* *
71595 GTTTCTCTT-AAAAAAATCTTTGAGATT
1 GTTTCTTTTGAAAAAAATCTTTGAGTTT
71622 GTTTCTTTTGAAAAAAATCTTTGAGTTT
1 GTTTCTTTTGAAAAAAATCTTTGAGTTT
*
71650 GTTTCTTTGGAAACAAAAT-TTTG
1 GTTTCTTTTGAAA-AAAATCTTTG
71673 TCTCTCTTAA
Statistics
Matches: 164, Mismatches: 22, Indels: 27
0.77 0.10 0.13
Matches are distributed among these distances:
27 33 0.20
28 62 0.38
29 48 0.29
35 3 0.02
36 6 0.04
37 12 0.07
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.46
Consensus pattern (28 bp):
GTTTCTTTTGAAAAAAATCTTTGAGTTT
Found at i:71663 original size:92 final size:93
Alignment explanation
Indices: 71519--71739 Score: 304
Period size: 92 Copynumber: 2.4 Consensus size: 93
71509 TTGAATAAAG
* *
71519 ATCTTTGAGTTGTTTCTTTTGAAAAAAATCTTTGAGTCTATTTATTTTGAAACAAAGTTTTGTCT
1 ATCTTTGAGTTGTTTCTTTTGAAAAAAATCTTTGAGTCTATTTATTTGGAAACAAAATTTTGTCT
*
71584 CTCTTGAGACAGTTTCTCTT-AA-AAAA
66 CTCTTAAGACAGTTTCTCTTAAACAAAA
* * *
71610 ATCTTTGAGATTGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTC
1 ATCTTTGAG-TTGTTTCTTTTGAAAAAAATCTTTGAGTCTATTTATTTGGAAACAAAATTTTGTC
* *
71675 TCTCTTAAGATAGTTTCTTTTAAAACAAAA
65 TCTCTTAAGACAGTTTCTCTT-AAACAAAA
*
71705 ATCTTTGAGTTTGTTTCTTTGGAAACAAAAT-TTTG
1 ATCTTTGAG-TTGTTTCTTTTGAAA-AAAATCTTTG
71740 TCTCTTTTAA
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
91 9 0.08
92 68 0.59
94 2 0.02
95 31 0.27
96 5 0.04
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (93 bp):
ATCTTTGAGTTGTTTCTTTTGAAAAAAATCTTTGAGTCTATTTATTTGGAAACAAAATTTTGTCT
CTCTTAAGACAGTTTCTCTTAAACAAAA
Found at i:71823 original size:64 final size:64
Alignment explanation
Indices: 71617--71843 Score: 251
Period size: 67 Copynumber: 3.5 Consensus size: 64
71607 AAAATCTTTG
* *
71617 AGATTGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTA
1 AGATAGTTTCTTTTGAAAAAAATCTTTGAATTTGTTTCTTT-GAAACAAAATTTTGTCTCTCTTA
* * *
71682 AGATAGTTTCTTTTAAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTTT
1 AGATAGTTTCTTTT-GAA-AAAAATCTTTGAATTTGTTTCTTT-GAAACAAAATTTTGTCTCTCT
71747 TA
63 TA
* * * * *
71749 AGATAATTTCTTTTGAAAAAAATATTTGAATCTGTTTCTCTT-AAA-ATGAATTTTGTATCTCTT
1 AGATAGTTTCTTTTGAAAAAAATCTTTGAATTTGTTTCT-TTGAAACA-AAATTTTGTCTCTCTT
*
71812 G
64 A
* * **
71813 AGACAGTTTCTCTTGAAGTAAATCTTTGAAT
1 AGATAGTTTCTTTTGAAAAAAATCTTTGAAT
71844 ATATTCATCT
Statistics
Matches: 140, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
63 1 0.01
64 41 0.29
65 32 0.23
66 6 0.04
67 60 0.43
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.46
Consensus pattern (64 bp):
AGATAGTTTCTTTTGAAAAAAATCTTTGAATTTGTTTCTTTGAAACAAAATTTTGTCTCTCTTA
Found at i:72026 original size:120 final size:119
Alignment explanation
Indices: 71888--72111 Score: 276
Period size: 120 Copynumber: 1.9 Consensus size: 119
71878 TTAACAAAAT
* * *
71888 CATCTTTGAGTCTATTTCTTTAAAAAC-AAATGTTGTCTCTCTT-GAGACAGTTTCTAATGAAAA
1 CATCTTTGAGTCTATTTCTTTAAAAACAAAAT-TT-TATCTCTTAAAGACAATTTCTAATGAAAA
71951 ACTAA-CTTTTGAGATTGTTTCATTTGAAAC-AAATTTGGTCTCACTTAAGATGTGATC
64 A--AATC-TTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGTGATC
* ** **
72008 CATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAAA
1 CATCTTTGAGTCTATTTCTTTAAAAACAAAATTTTATCTCTTAAAGACAATTTCTAATGAAAAAA
* * *
72073 ATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTC
66 ATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTC
72112 TCGAGACAAC
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
118 23 0.26
119 19 0.21
120 43 0.48
121 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (119 bp):
CATCTTTGAGTCTATTTCTTTAAAAACAAAATTTTATCTCTTAAAGACAATTTCTAATGAAAAAA
ATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGTGATC
Found at i:72088 original size:64 final size:63
Alignment explanation
Indices: 72009--72133 Score: 187
Period size: 64 Copynumber: 2.0 Consensus size: 63
71999 GATGTGATCC
* *
72009 ATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTC-TAAAGACAACTTCTTTTGAAAAAA
* * **
72073 ATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTCGAGACAACTTCTTTTGAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAA
72134 TACCCACATT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
63 19 0.35
64 36 0.65
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (63 bp):
ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAAAA
Found at i:73076 original size:43 final size:42
Alignment explanation
Indices: 72976--73217 Score: 165
Period size: 40 Copynumber: 5.7 Consensus size: 42
72966 CTAAAGATGG
* * **
72976 CCAGCCGTCCTCATCATGTAGGAACCGTGTCATCCCCAG--A
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCAACCATAGATA
*** *
73016 CCAGATTTCCTTATCACGTAGGAACCGTGTCAACCATAGATAA
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCAACCATAGAT-A
* * *
73059 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCA--ACC-ATAGAT-A
* * * * * *
73105 CCAGAAC-TCTTCATCACGTATGAGCCGTGTCATTCC-CAG--A
1 CCAG-CCGTCCTCATCACGTAGGAACCGTGTCA-ACCATAGATA
* * * *
73145 CCAGATC-TCCTTATCACGTAGGAGCCGTGTCAACTATAGATAA
1 CCAG-CCGTCCTCATCACGTAGGAACCGTGTCAACCATAGAT-A
73188 CCAGCCGTCCTCATCACGTAGGAACCGTGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGT
73218 TATCACCTTT
Statistics
Matches: 155, Mismatches: 35, Indels: 21
0.73 0.17 0.10
Matches are distributed among these distances:
39 1 0.01
40 61 0.39
42 1 0.01
43 56 0.36
45 5 0.03
46 30 0.19
47 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (42 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTCAACCATAGATA
Found at i:73122 original size:46 final size:46
Alignment explanation
Indices: 73069--73263 Score: 171
Period size: 46 Copynumber: 4.4 Consensus size: 46
73059 CCAGCCGTCC
*
73069 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTTATCACCTTTAGATGGCCAGAACTCT
* * *
73115 TCATCACGTATGAGCCGTGTCATTC-CC---AGA---CCAGATCTCCT
1 TCATCACGTAGGAGCCGTGTTA-TCACCTTTAGATGGCCAGAACT-CT
* * ** * *
73156 T-ATCACGTAGGAGCCGTG---TCAACTATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTTATCACCTTTAGATGGCCAGAAC-TCT
*
73198 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTTATCACCTTTAGATGGCCAGAACTCT
*
73244 TCATCACGTATGAGCCGTGT
1 TCATCACGTAGGAGCCGTGT
73264 CATTCCCCGA
Statistics
Matches: 117, Mismatches: 17, Indels: 30
0.71 0.10 0.18
Matches are distributed among these distances:
36 2 0.02
37 1 0.01
40 26 0.22
41 3 0.03
42 3 0.03
43 24 0.21
46 55 0.47
47 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (46 bp):
TCATCACGTAGGAGCCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:73200 original size:129 final size:129
Alignment explanation
Indices: 72986--73300 Score: 540
Period size: 129 Copynumber: 2.4 Consensus size: 129
72976 CCAGCCGTCC
* * * * *
72986 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGATTTCCTTATCACGTAGGAACCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTTATCACGTAGGAACCGTGTCAACC
73051 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
66 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
* *
73115 TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTTATCACGTAGGAGCCGTGTCAACT
1 TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTTATCACGTAGGAACCGTGTCAACC
73180 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
66 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
* * *
73244 TCATCACGTATGAGCCGTGTCATTCCCCGACCAGATGTCCTCATCACGTAGGAACCG
1 TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTTATCACGTAGGAACCG
73301 CGTTAACCTT
Statistics
Matches: 175, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 175 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (129 bp):
TCATCACGTATGAGCCGTGTCATTCCCAGACCAGATCTCCTTATCACGTAGGAACCGTGTCAACC
ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:73501 original size:3 final size:3
Alignment explanation
Indices: 73493--73549 Score: 69
Period size: 3 Copynumber: 17.3 Consensus size: 3
73483 CGGGTCTTTT
73493 TTA TTA TTA TTTA TATA TTTA TTA TTA TTTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA -TTA T-TA -TTA TTA TTA -TTA TTA TTA TTA TTA -TTA
73540 TTA TTA TTA T
1 TTA TTA TTA T
73550 GTTTATTAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
3 35 0.71
4 13 0.27
5 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:73521 original size:10 final size:10
Alignment explanation
Indices: 73492--73549 Score: 79
Period size: 10 Copynumber: 6.1 Consensus size: 10
73482 CCGGGTCTTT
73492 TTTATTATTA
1 TTTATTATTA
73502 TTTA-TA-TA
1 TTTATTATTA
73510 TTTATTATTA
1 TTTATTATTA
73520 TTTATTATTA
1 TTTATTATTA
73530 -TTATTATT-
1 TTTATTATTA
73538 TATTATTATTA
1 T-TTATTATTA
73549 T
1 T
73550 GTTTATTAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
8 6 0.14
9 12 0.28
10 24 0.56
11 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTATTATTA
Found at i:73561 original size:13 final size:12
Alignment explanation
Indices: 73493--73549 Score: 69
Period size: 13 Copynumber: 4.3 Consensus size: 12
73483 CGGGTCTTTT
73493 TTATTATTATTTA
1 TTATTATTA-TTA
73506 TATATTTATTATTA
1 T-TA-TTATTATTA
73520 TTTATTATTATTA
1 -TTATTATTATTA
73533 TTATTTATTATTA
1 TTA-TTATTATTA
73546 TTAT
1 TTAT
73550 GTTTATTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.10
13 22 0.55
14 7 0.17
15 7 0.17
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTATTATTA
Found at i:73561 original size:16 final size:14
Alignment explanation
Indices: 73496--73557 Score: 67
Period size: 13 Copynumber: 4.4 Consensus size: 14
73486 GTCTTTTTTA
73496 TTATTATT-TATATAT
1 TTATTATTAT-TAT-T
*
73511 TTATTATTATT-TA
1 TTATTATTATTATT
73524 TTATTATTATTA-T
1 TTATTATTATTATT
73537 TTATTATTATTATGT
1 TTATTATTATTAT-T
73552 TTATTA
1 TTATTA
73558 ATTACATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
13 23 0.56
14 1 0.02
15 16 0.39
16 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (14 bp):
TTATTATTATTATT
Found at i:80070 original size:31 final size:31
Alignment explanation
Indices: 80029--80105 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
80019 TTTAAAACAC
*
80029 AAGTTTTGGTCACTTAC-GCTATCGCTTTATT
1 AAGTTTTGGTCACTT-CTGCTATCACTTTATT
* * *
80060 AAGTTCTGGTCACTTCTGTTATCATTTTATT
1 AAGTTTTGGTCACTTCTGCTATCACTTTATT
80091 AAGTTTTGGTCACTT
1 AAGTTTTGGTCACTT
80106 GGACGTTGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (31 bp):
AAGTTTTGGTCACTTCTGCTATCACTTTATT
Found at i:82600 original size:25 final size:25
Alignment explanation
Indices: 82566--82615 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
82556 AAAAAACCGG
* *
82566 TTTCGGTTTTTTAACCATTCGGTTT
1 TTTCGATTTTTTAACAATTCGGTTT
*
82591 TTTCGATTTTTTATCAATTCGGTTT
1 TTTCGATTTTTTAACAATTCGGTTT
82616 CGGTTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.58
Consensus pattern (25 bp):
TTTCGATTTTTTAACAATTCGGTTT
Found at i:83125 original size:3 final size:3
Alignment explanation
Indices: 83117--83148 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
83107 ATTGATGTGA
83117 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
83149 ATTTCTATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:83501 original size:27 final size:26
Alignment explanation
Indices: 83444--83500 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 26
83434 CTCAAAACAT
83444 TATTATTTTATACATTTAATATTAATA
1 TATTATTTTATACATTTAATA-TAATA
*
83471 TATTATTTTAGTATCATATTAATAAAATA
1 TATTATTTTA-TA-CAT-TTAATATAATA
83500 T
1 T
83501 TTAATATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 10 0.38
28 2 0.08
29 8 0.31
30 6 0.23
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (26 bp):
TATTATTTTATACATTTAATATAATA
Found at i:83586 original size:50 final size:49
Alignment explanation
Indices: 83490--83591 Score: 109
Period size: 50 Copynumber: 2.0 Consensus size: 49
83480 AGTATCATAT
*
83490 TAATAAAATATTTAATATTTAAATTATATTTAATAATAGTTTTAATAATA
1 TAATAAAATATTTAATATTTAAATTATATTTAATAATAG-TATAATAATA
* * * *
83540 TAATATAATATTTTAT-TGTTATAATTATATTATTATAATA-TATAATATTA
1 TAATAAAATATTTAATAT-TTA-AATTATATT-TAATAATAGTATAATAATA
83590 TA
1 TA
83592 CTTTTGTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
49 1 0.02
50 27 0.61
51 9 0.20
52 7 0.16
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (49 bp):
TAATAAAATATTTAATATTTAAATTATATTTAATAATAGTATAATAATA
Found at i:83590 original size:29 final size:29
Alignment explanation
Indices: 83558--83615 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
83548 TATTTTATTG
83558 TTATAATTATATTATT-ATAATATATAATA
1 TTATAATTATATT-TTAATAATATATAATA
* * *
83587 TTATACTTTTGTTTTAATAATATATAATA
1 TTATAATTATATTTTAATAATATATAATA
83616 AATTATTAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (29 bp):
TTATAATTATATTTTAATAATATATAATA
Found at i:83796 original size:22 final size:22
Alignment explanation
Indices: 83717--83796 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 22
83707 ACTTTAATAT
*
83717 TATAATTTTAATAAGTAATTAA
1 TATAATTTTAATAAATAATTAA
* *
83739 TATAA--TTAGT-AATATATTAG
1 TATAATTTTAATAAATA-ATTAA
* *
83759 TCTCATTTTAATAAATAATTAA
1 TATAATTTTAATAAATAATTAA
83781 TATAATTTATAA-AAAT
1 TATAATTT-TAATAAAT
83797 TTTATTTTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
19 3 0.07
20 11 0.25
22 23 0.52
23 7 0.16
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.45
Consensus pattern (22 bp):
TATAATTTTAATAAATAATTAA
Found at i:84509 original size:21 final size:21
Alignment explanation
Indices: 84472--84519 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
84462 ATTTCAAACT
84472 TAAAATTTTATAAAATGATTA
1 TAAAATTTTATAAAATGATTA
* ** *
84493 TTAAATTTTATCGAATGGTTA
1 TAAAATTTTATAAAATGATTA
84514 TAAAAT
1 TAAAAT
84520 AATTGTTAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (21 bp):
TAAAATTTTATAAAATGATTA
Found at i:85217 original size:28 final size:28
Alignment explanation
Indices: 85186--85242 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
85176 GCATGATTAT
85186 GAAAAAATTAAAAGTTTAAG-TACTAAAA
1 GAAAAAATTAAAAGTTT-AGTTACTAAAA
* * *
85214 GAAACAATTGATAGTTTAGTTACTAAAA
1 GAAAAAATTAAAAGTTTAGTTACTAAAA
85242 G
1 G
85243 TGTGTTTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.53, C:0.05, G:0.14, T:0.28
Consensus pattern (28 bp):
GAAAAAATTAAAAGTTTAGTTACTAAAA
Found at i:85700 original size:162 final size:162
Alignment explanation
Indices: 85433--85754 Score: 599
Period size: 162 Copynumber: 2.0 Consensus size: 162
85423 CCCTAAATCC
*
85433 TCTAATCTTCGCTGTTTACCTTTACTTTCTTCTTTTCCCTCCTCAGATCCTTTCGATTTTCTTCA
1 TCTAATCTTCGCTGTTTACCTTCACTTTCTTCTTTTCCCTCCTCAGATCCTTTCGATTTTCTTCA
*
85498 CAAATTTCTTTCATTGAGCTTCGTCTTGGATTTATGGAGTTTTGATTTCACGCACGCTTTACGAG
66 CAAATTTCTTTCATTGAGCTTCGTCTTGGATTTATGGAGTTTTGATGTCACGCACGCTTTACGAG
85563 GTAAGAAAGAATGAGAAATAAGCCATAAATTT
131 GTAAGAAAGAATGAGAAATAAGCCATAAATTT
* *
85595 TCTAATCTTCGCTGTTTATCTTCACTTTCTTCTTTTCCCTCCTCAGATTCTTTCGATTTTCTTCA
1 TCTAATCTTCGCTGTTTACCTTCACTTTCTTCTTTTCCCTCCTCAGATCCTTTCGATTTTCTTCA
*
85660 CTAATTTCTTTCATTGAGCTTCGTCTTGGATTTATGGAGTTTTGATGTCACGCACGCTTTACGAG
66 CAAATTTCTTTCATTGAGCTTCGTCTTGGATTTATGGAGTTTTGATGTCACGCACGCTTTACGAG
85725 GTAAGAAAGAATGAGAAATAAGCCATAAAT
131 GTAAGAAAGAATGAGAAATAAGCCATAAAT
85755 GTTTTCTGAT
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
162 155 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (162 bp):
TCTAATCTTCGCTGTTTACCTTCACTTTCTTCTTTTCCCTCCTCAGATCCTTTCGATTTTCTTCA
CAAATTTCTTTCATTGAGCTTCGTCTTGGATTTATGGAGTTTTGATGTCACGCACGCTTTACGAG
GTAAGAAAGAATGAGAAATAAGCCATAAATTT
Found at i:89877 original size:23 final size:23
Alignment explanation
Indices: 89824--89877 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
89814 TTTGTTTTTG
* *
89824 TTTATTTATTGTTCGTGAATATA
1 TTTATTTAATGTTCGTAAATATA
**
89847 TTCGTTTAATGTTCGTAAATATA
1 TTTATTTAATGTTCGTAAATATA
89870 TTTATTTA
1 TTTATTTA
89878 GGGTTTATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.56
Consensus pattern (23 bp):
TTTATTTAATGTTCGTAAATATA
Found at i:89899 original size:22 final size:22
Alignment explanation
Indices: 89874--89921 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
89864 AATATATTTA
*
89874 TTTAGGGTTTATTTAGTGTCCG
1 TTTAAGGTTTATTTAGTGTCCG
* *
89896 TTTAATGTTTATTTAGTGTTCG
1 TTTAAGGTTTATTTAGTGTCCG
89918 TTTA
1 TTTA
89922 TATATTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.06, G:0.21, T:0.56
Consensus pattern (22 bp):
TTTAAGGTTTATTTAGTGTCCG
Found at i:90179 original size:24 final size:24
Alignment explanation
Indices: 90134--90179 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
90124 GAACGAGCTC
* *
90134 ATAAACGAGTTCAAAAATAAACTT
1 ATAAACGAGCTCAAAAACAAACTT
* *
90158 ATAAACTAGCTCATAAACAAAC
1 ATAAACGAGCTCAAAAACAAAC
90180 AGAATACACC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.54, C:0.17, G:0.07, T:0.22
Consensus pattern (24 bp):
ATAAACGAGCTCAAAAACAAACTT
Found at i:106328 original size:34 final size:34
Alignment explanation
Indices: 106285--106354 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
106275 GACTAAAAAC
* *
106285 TGTATTTTTTGTTCAGGAATCAATGTTGGAATAG
1 TGTATTTTTTGTTCAAGAATCAATGTTGGAAGAG
106319 TGTATTTTTTGTTCAAGAATCAATGTTGGAAGAG
1 TGTATTTTTTGTTCAAGAATCAATGTTGGAAGAG
106353 TG
1 TG
106355 GTCATGAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.43
Consensus pattern (34 bp):
TGTATTTTTTGTTCAAGAATCAATGTTGGAAGAG
Found at i:115453 original size:22 final size:22
Alignment explanation
Indices: 115417--115466 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
115407 GTTACTAGCC
*
115417 TAACTAACAATCTAACTAATTAA
1 TAAC-AACAACCTAACTAATTAA
* *
115440 TAACAACAACCTAACTGATTAT
1 TAACAACAACCTAACTAATTAA
115462 TAACA
1 TAACA
115467 GCCTAACTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.28
Consensus pattern (22 bp):
TAACAACAACCTAACTAATTAA
Found at i:115528 original size:2 final size:2
Alignment explanation
Indices: 115521--115551 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
115511 ATCTGATTCA
115521 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
115552 AGTAAAATAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:116056 original size:43 final size:43
Alignment explanation
Indices: 116005--116086 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
115995 CACTTTTTAT
* * *
116005 CTTTATAATTGAAGTCTCTAATTTTTTCAATTCCATTTTTTGC
1 CTTTATAATCGAAGCCTCTAATTTTTTCAATTACATTTTTTGC
* *
116048 CTTTATAATCGAGGCCTCTAATTTTTTTAATTACATTTT
1 CTTTATAATCGAAGCCTCTAATTTTTTCAATTACATTTT
116087 AAAATTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.52
Consensus pattern (43 bp):
CTTTATAATCGAAGCCTCTAATTTTTTCAATTACATTTTTTGC
Found at i:116143 original size:44 final size:43
Alignment explanation
Indices: 116092--116292 Score: 178
Period size: 44 Copynumber: 4.6 Consensus size: 43
116082 ATTTTAAAAT
*
116092 TTTATAATTGAGACTCCTAAATTATTTT-AATCTTACTTTCTACC
1 TTTATAATTGAGAC-CCTAAATT-TTTTCAATCTCACTTTCTACC
* * * *
116136 TTCATAATTGATGTCCCT-AGTTTTTT-AATCTCACTTTTTACC
1 TTTATAATTGA-GACCCTAAATTTTTTCAATCTCACTTTCTACC
* * * * * *
116178 TTTACAACTGAGGCCC-ATAATCATTTTCAATCTTACTTTCTACT
1 TTTATAATTGAGACCCTA-AAT-TTTTTCAATCTCACTTTCTACC
* * *
116222 TTTATAATTAAGTCCCATAAGTTTTTTCAATCTCACTTTCTACC
1 TTTATAATTGAGACCC-TAAATTTTTTCAATCTCACTTTCTACC
116266 TTTATAATTGAGACCCCT-AATTTTTTC
1 TTTATAATTGAGA-CCCTAAATTTTTTC
116293 TGTTTCATAA
Statistics
Matches: 124, Mismatches: 25, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
41 4 0.03
42 28 0.23
43 15 0.12
44 69 0.56
45 7 0.06
46 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.46
Consensus pattern (43 bp):
TTTATAATTGAGACCCTAAATTTTTTCAATCTCACTTTCTACC
Found at i:117069 original size:2 final size:2
Alignment explanation
Indices: 117062--117131 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
117052 TGTTAAAATA
117062 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
117104 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
117132 CAAATATAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117248 original size:29 final size:29
Alignment explanation
Indices: 117191--117248 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
117181 TTAAATCATT
* * *
117191 ATATATATATATAATTAATCCAAATTAAA
1 ATATATAAACATAATTAATCCAAAATAAA
117220 ATATATAAACATAATTACAT-CAAAATAAA
1 ATATATAAACATAATTA-ATCCAAAATAAA
117249 TTTTTTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (29 bp):
ATATATAAACATAATTAATCCAAAATAAA
Found at i:117828 original size:16 final size:17
Alignment explanation
Indices: 117796--117832 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
117786 TTATTTTTAT
117796 ATATCATAAATATTAAA
1 ATATCATAAATATTAAA
117813 ATATCATAAA-ATTAAA
1 ATATCATAAATATTAAA
117829 ATAT
1 ATAT
117833 AATATTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (17 bp):
ATATCATAAATATTAAA
Done.