Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007504.1 Hibiscus syriacus cultivar Beakdansim tig00020813_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: 97970
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:6677 original size:5 final size:5
Alignment explanation
Indices: 6635--6718 Score: 57
Period size: 5 Copynumber: 16.4 Consensus size: 5
6625 AATTTTAAAG
* * * * *
6635 AAAAT ACAAT GAAAG AAAA- AAAAT AAAGGT ATAAT AAAAT AAAAT AAAAGAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT -AAA-AT
6687 AAAAT --AAT AAAAT AAAAT AAAAGAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT -AAA-AT AAAAT AA
6719 TAAATAATAA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
3 3 0.05
4 4 0.06
5 36 0.58
6 15 0.24
7 4 0.06
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:6688 original size:20 final size:18
Alignment explanation
Indices: 6665--6725 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 18
6655 AAATAAAGGT
6665 ATAATAAAATAAAATAAAA
1 ATAA-AAAATAAAATAAAA
6684 GATAAAATAATAAAAT-AAA
1 -ATAAAA-AATAAAATAAAA
*
6703 ATAAAAGATAAAATAATAA
1 ATAAAAAATAAAATAA-AA
6722 ATAA
1 ATAA
6726 TAATAGTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 7 0.19
18 7 0.19
19 11 0.30
20 12 0.32
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.21
Consensus pattern (18 bp):
ATAAAAAATAAAATAAAA
Found at i:6690 original size:12 final size:12
Alignment explanation
Indices: 6673--6742 Score: 79
Period size: 12 Copynumber: 5.5 Consensus size: 12
6663 GTATAATAAA
6673 ATAAAATAAAAG
1 ATAAAATAAAAG
*
6685 ATAAAATAATAAA
1 ATAAAATAA-AAG
6698 ATAAAATAAAAG
1 ATAAAATAAAAG
6710 ATAAAATAATAA-
1 ATAAAATAA-AAG
6722 ATAATAATAGTAAAG
1 ATAA-AATA--AAAG
6737 ATAAAA
1 ATAAAA
6743 AGGCATTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
12 24 0.48
13 17 0.34
14 4 0.08
15 5 0.10
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (12 bp):
ATAAAATAAAAG
Found at i:6693 original size:25 final size:25
Alignment explanation
Indices: 6665--6742 Score: 122
Period size: 25 Copynumber: 3.0 Consensus size: 25
6655 AAATAAAGGT
6665 ATAATAAAATAAAATAAAAGATAAA
1 ATAATAAAATAAAATAAAAGATAAA
6690 ATAATAAAATAAAATAAAAGATAAA
1 ATAATAAAATAAAATAAAAGATAAA
6715 ATAAT-AAATAATAATAGTAAAGATAAA
1 ATAATAAAATAA-AATA--AAAGATAAA
6742 A
1 A
6743 AGGCATTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
24 6 0.12
25 34 0.68
27 10 0.20
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (25 bp):
ATAATAAAATAAAATAAAAGATAAA
Found at i:6791 original size:18 final size:18
Alignment explanation
Indices: 6768--6810 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
6758 TTATTTTTTA
*
6768 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
6786 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
6804 AAATAAA
1 AAATAAA
6811 TAATATAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:7449 original size:86 final size:86
Alignment explanation
Indices: 7293--7474 Score: 210
Period size: 86 Copynumber: 2.1 Consensus size: 86
7283 ATTCAAATTC
* * * **
7293 ATAAAAATAAACTAAAGATAATTTTTAAAATAATATATTTTATCGTAATTAAAAGACTTAAAACT
1 ATAAAAATAAAATAAAAATAATATTTAAAATAATATATTAAATCGTAATTAAAAGACTTAAAACT
*
7358 TTTTAAACTAAAATACCTAAA
66 ATTTAAACTAAAATACCTAAA
* * * *
7379 ATAAAGATAAAATAAAAATAATATTTAAAATAATATCTTAAATCTTAATTAAAATA-TTAATATA
1 ATAAAAATAAAATAAAAATAATATTTAAAATAATATATTAAATCGTAATTAAAAGACTTAA-A-A
7443 -TATTTAAACTAAAATA--TAAA
64 CTATTTAAACTAAAATACCTAAA
7463 GATAAAATATAA
1 -ATAAAA-ATAA
7475 TATTATATAT
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
84 4 0.05
85 9 0.11
86 67 0.83
87 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (86 bp):
ATAAAAATAAAATAAAAATAATATTTAAAATAATATATTAAATCGTAATTAAAAGACTTAAAACT
ATTTAAACTAAAATACCTAAA
Found at i:8116 original size:2 final size:2
Alignment explanation
Indices: 8111--8150 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8101 TTAAGAATTG
8111 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
8151 CATTTTTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12311 original size:22 final size:23
Alignment explanation
Indices: 12285--12334 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
12275 ATTATATTAT
12285 ATTATAAA-TTTAAGAACAAAAA
1 ATTATAAACTTTAAGAACAAAAA
* *
12307 ATTATAAAGCTTTAAGAATATAAA
1 ATTATAAA-CTTTAAGAACAAAAA
12331 ATTA
1 ATTA
12335 GATCATTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.33
24 16 0.67
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (23 bp):
ATTATAAACTTTAAGAACAAAAA
Found at i:14215 original size:20 final size:20
Alignment explanation
Indices: 14190--14262 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
14180 TTTTCCCAAT
*
14190 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
** *
14210 TCGCAACGCGAATTGGGAAA
1 TCGCAACGCGAATAAGTAAA
*
14230 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
14250 TCGCAACGCGAAT
1 TCGCAACGCGAAT
14263 TGGAAAAATC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGAATAAGTAAA
Found at i:14234 original size:40 final size:41
Alignment explanation
Indices: 14190--14281 Score: 159
Period size: 40 Copynumber: 2.3 Consensus size: 41
14180 TTTTCCCAAT
*
14190 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGG-GAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGAAAAA
14230 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGAAAAA
*
14271 TCGTAATGCGA
1 TCGCAATGCGA
14282 TACTGACTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 36 0.73
41 13 0.27
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGAAAAA
Found at i:14298 original size:20 final size:20
Alignment explanation
Indices: 14278--14384 Score: 108
Period size: 20 Copynumber: 5.3 Consensus size: 20
14268 AAATCGTAAT
*
14278 GCGATACTGACTATCGCAAT
1 GCGATACTGACTATCGCAAC
* *
14298 GCGATAAT-ACAAAATCGCAAC
1 GCGATACTGAC--TATCGCAAC
* * *
14319 GAGATACTTACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
*
14339 GCGATACTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
* *
14359 GCGATTCTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
14379 GCGATA
1 GCGATA
14385 ATACATAATC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.03
20 56 0.77
21 13 0.18
22 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (20 bp):
GCGATACTGACTATCGCAAC
Found at i:14312 original size:41 final size:41
Alignment explanation
Indices: 14267--14404 Score: 145
Period size: 41 Copynumber: 3.4 Consensus size: 41
14257 GCGAATTGGA
* * * *
14267 AAAATCGTAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * *
14308 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-AC
** *
14350 --TTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
14389 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
14405 TTTCAAAGCG
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 2 0.03
40 31 0.40
41 43 0.55
42 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:14601 original size:22 final size:22
Alignment explanation
Indices: 14573--14616 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14563 CACTCTCTCA
14573 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
14595 CCCATCTCTGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
14617 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.43, G:0.14, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:14905 original size:20 final size:20
Alignment explanation
Indices: 14880--14917 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14870 CGATTCTCTC
14880 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
14900 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
14918 AGAAACTATT
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:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:16257 original size:18 final size:18
Alignment explanation
Indices: 16236--16280 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
16226 TCCACTTCGG
*
16236 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
16254 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
16272 GAGCCATCA
1 GAGCCATCA
16281 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:16816 original size:19 final size:20
Alignment explanation
Indices: 16762--16828 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
16752 TAGTTTACTT
* *
16762 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
16782 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
16802 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
16821 TCGCAACG
1 TCGCAACG
16829 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:16836 original size:14 final size:14
Alignment explanation
Indices: 16817--16873 Score: 69
Period size: 14 Copynumber: 3.8 Consensus size: 14
16807 ATGCGAAATG
16817 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
16831 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
16847 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
16863 AAAATCGCAAC
1 AAAATCGCAAC
16874 ACGAAATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.49, C:0.25, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:16859 original size:32 final size:33
Alignment explanation
Indices: 16801--16891 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
16791 GGAAATGGCT
16801 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
16834 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
**
16866 ATCGCAACACGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
16892 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:16940 original size:19 final size:19
Alignment explanation
Indices: 16903--17011 Score: 112
Period size: 19 Copynumber: 5.7 Consensus size: 19
16893 GCGATTTGTG
16903 TTTCGCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTCA
16921 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
* ***
16940 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGATTTTCA
**
16959 TTTTCGCGTTGCGATAGTCA
1 -TTTCGCGTTGCGATTTTCA
* *
16979 TTTCACGTTGCGATTTTAA
1 TTTCGCGTTGCGATTTTCA
*
16998 GTTTCGTGTTGCGA
1 -TTTCGCGTTGCGA
17012 AAGTAAACTA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
18 13 0.17
19 35 0.46
20 28 0.37
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.42
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:16965 original size:20 final size:20
Alignment explanation
Indices: 16940--16981 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
16930 GCGATTTTCA
16940 TTTCGCATTGCGATAGCCAT
1 TTTCGCATTGCGATAGCCAT
* *
16960 TTTCGCGTTGCGATAGTCAT
1 TTTCGCATTGCGATAGCCAT
16980 TT
1 TT
16982 CACGTTGCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (20 bp):
TTTCGCATTGCGATAGCCAT
Found at i:17003 original size:39 final size:38
Alignment explanation
Indices: 16903--17011 Score: 112
Period size: 39 Copynumber: 2.8 Consensus size: 38
16893 GCGATTTGTG
**
16903 TTTCGCGTTGCGA-TTTCATTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCATTTCGCGTTGCGATAGTCA
* ***
16940 TTTCGCATTGCGATAGCCATTTTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTTTCA-TTTCGCGTTGCGATAGTCA
* * *
16979 TTTCACGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TTTCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
17012 AAGTAAACTA
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
37 12 0.21
38 2 0.04
39 42 0.75
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.42
Consensus pattern (38 bp):
TTTCGCGTTGCGATTTTCATTTCGCGTTGCGATAGTCA
Found at i:18892 original size:14 final size:14
Alignment explanation
Indices: 18860--18894 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
18850 GATTGTTTAA
18860 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
* *
18874 ATGATTTGTAAATG
1 TTGATTTGTAAAAG
18888 TTGATTT
1 TTGATTT
18895 ATTTAATTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:19068 original size:19 final size:19
Alignment explanation
Indices: 19013--19061 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
19003 ATCGCAACGA
*
19013 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATCCGAAAT
19032 GAAAATCGCAATCCGAAAT
1 GAAAATCGCAATCCGAAAT
19051 GAAAATCGCAA
1 GAAAATCGCAA
19062 CTAGAAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATCCGAAAT
Found at i:20200 original size:24 final size:24
Alignment explanation
Indices: 20173--20226 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
20163 GTATTCGAAA
* *
20173 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
20197 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
20221 TTTGAT
1 TTTGAT
20227 GATGTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:20419 original size:12 final size:12
Alignment explanation
Indices: 20402--20426 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20392 ATATAATCCT
20402 GAAGAAGAAAAA
1 GAAGAAGAAAAA
20414 GAAGAAGAAAAA
1 GAAGAAGAAAAA
20426 G
1 G
20427 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:22760 original size:33 final size:33
Alignment explanation
Indices: 22718--22844 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
22708 GGAAATTACT
22718 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * **
22751 ATCGCAATGCGAAATAAAAATCGTAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
22783 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
22817 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
22845 CGAATTTAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
32 1 0.01
33 79 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:22825 original size:66 final size:66
Alignment explanation
Indices: 22719--22851 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
22709 GAAATTACTA
* *
22719 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATAAAAATCGTAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATAAAAATCGCAACGCGAAT
22784 T
66 T
* *
22785 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATAAAAATCGCAACGCGAAT
22850 T
66 T
22851 T
1 T
22852 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATAAAAATCGCAACGCGAAT
T
Found at i:23026 original size:14 final size:14
Alignment explanation
Indices: 23007--23043 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
22997 CATCAATTAA
23007 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
23021 ACAAATCACCTTTT
1 ACAAATCAACTTTT
23035 ACAAATCAA
1 ACAAATCAA
23044 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:24469 original size:21 final size:21
Alignment explanation
Indices: 24403--24469 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
24393 GTGAATCGGG
*
24403 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
24423 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
24445 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
24466 CTCT
1 CTCT
24470 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:24488 original size:42 final size:41
Alignment explanation
Indices: 24403--24525 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
24393 GTGAATCGGG
* * * *
24403 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
24445 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
24487 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
24526 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:26595 original size:14 final size:14
Alignment explanation
Indices: 26576--26612 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
26566 GGAAATGACT
* *
26576 ATCGCAATGATAGA
1 ATCGCAACGAAAGA
26590 ATCGCAACGAAAGA
1 ATCGCAACGAAAGA
26604 ATCGCAACG
1 ATCGCAACG
26613 CGAAATGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.14
Consensus pattern (14 bp):
ATCGCAACGAAAGA
Found at i:26640 original size:47 final size:48
Alignment explanation
Indices: 26553--26645 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 48
26543 CGAGATAATG
* ** * *
26553 AGAATTGCAACGCGGAAATGACTATCGCAATGATAGAATCGCAACGAA
1 AGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCGCAACGAA
*
26601 AGAATCGCAACGC-GAAATGACTATCGCGACCAGACAATCGCAACG
1 AGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCGCAACG
26646 CGAAATGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 27 0.69
48 12 0.31
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.14
Consensus pattern (48 bp):
AGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCGCAACGAA
Found at i:26658 original size:19 final size:19
Alignment explanation
Indices: 26636--26725 Score: 153
Period size: 19 Copynumber: 4.7 Consensus size: 19
26626 GCGACCAGAC
26636 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
26655 AATCGCAACCGCGAAATAAA
1 AATCGCAA-CGCGAAATGAA
26675 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
26694 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
26713 AATCGCAATGCGA
1 AATCGCAACGCGA
26726 TTTTTGTTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
19 49 0.73
20 18 0.27
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:26679 original size:39 final size:38
Alignment explanation
Indices: 26636--26725 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
26626 GCGACCAGAC
26636 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
*
26675 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
26713 AATCGCAATGCGA
1 AATCGCAACGCGA
26726 TTTTTGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 22 0.45
39 27 0.55
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:27343 original size:20 final size:20
Alignment explanation
Indices: 27318--27370 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
27308 GCGCTATGTA
27318 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
27338 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
27358 TATCTCGTTGCGA
1 AATCGCGTTGCGA
27371 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:27431 original size:41 final size:41
Alignment explanation
Indices: 27339--27433 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
27329 GAAAGTCAGA
* * * * ** *
27339 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
*
27380 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAAT
27422 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
27434 TTACTTATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAAT
Found at i:31210 original size:31 final size:31
Alignment explanation
Indices: 31172--31232 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
31162 CAAGAGTTTG
31172 GGAGTTCCTAGTGAGAA-GAACATATTGAATA
1 GGAGTTCCTAGTGAGAATG-ACATATTGAATA
31203 GGAGTTCCTAGTGAGAATGACATATTGAAT
1 GGAGTTCCTAGTGAGAATGACATATTGAAT
31233 TCACTGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (31 bp):
GGAGTTCCTAGTGAGAATGACATATTGAATA
Found at i:38187 original size:15 final size:15
Alignment explanation
Indices: 38169--38226 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
38159 CGACTTAACC
*
38169 CAACTCGAACCGAGT
1 CAACCCGAACCGAGT
*
38184 CAACCCGAATCGAGT
1 CAACCCGAACCGAGT
38199 CAACCCGAACCGAGT
1 CAACCCGAACCGAGT
*
38214 CAACCCGACCCGA
1 CAACCCGAACCGA
38227 CCTGTTGACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.33, C:0.40, G:0.19, T:0.09
Consensus pattern (15 bp):
CAACCCGAACCGAGT
Found at i:38276 original size:23 final size:23
Alignment explanation
Indices: 38231--38298 Score: 100
Period size: 23 Copynumber: 2.9 Consensus size: 23
38221 ACCCGACCTG
*
38231 TTGACCGGTCTGACTCGTTGACCA
1 TTGACCGATCTGAC-CGTTGACCA
38255 TTGACCGATCTGACCGTTGACCA
1 TTGACCGATCTGACCGTTGACCA
* *
38278 TTGACCGATATGAACGTTGAC
1 TTGACCGATCTGACCGTTGAC
38299 TTTGACCAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
23 28 0.68
24 13 0.32
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (23 bp):
TTGACCGATCTGACCGTTGACCA
Found at i:42585 original size:22 final size:22
Alignment explanation
Indices: 42559--42611 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
42549 CTGGCCCATT
42559 GACCGTTGACTTTGACCGGTCA
1 GACCGTTGACTTTGACCGGTCA
*
42581 GACCGTTAACTTTGACCGGTCA
1 GACCGTTGACTTTGACCGGTCA
* *
42603 AACTGTTGA
1 GACCGTTGA
42612 TCGTTGACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (22 bp):
GACCGTTGACTTTGACCGGTCA
Found at i:48203 original size:3 final size:3
Alignment explanation
Indices: 48188--48239 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
48178 GGTTAAAAAA
*
48188 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48235 TAT TA
1 TAT TA
48240 AGTGTGTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 45 0.98
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:50812 original size:17 final size:16
Alignment explanation
Indices: 50780--50812 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
50770 CCAATCTTTG
50780 TCTTAAAAATGATTTT
1 TCTTAAAAATGATTTT
*
50796 TCTTAAAAATTATTTT
1 TCTTAAAAATGATTTT
50812 T
1 T
50813 AAAAGACGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TCTTAAAAATGATTTT
Found at i:55637 original size:181 final size:181
Alignment explanation
Indices: 55333--55681 Score: 671
Period size: 181 Copynumber: 1.9 Consensus size: 181
55323 CAAGTGGTAT
* *
55333 AACCAATTAACTAGGGCTCACATCAAATCATGGAAAGACTTGGCAAAAGCATTCCTAGAATAGTA
1 AACCAATTAACTAGGGCTCACATCAAATCATGGAAAGACTTGGCAAAAACATTCCTAGAACAGTA
55398 TCGACATGTTACAGATATGGTTCCTGATCGGTGGACTCTTCAGAATATGGAAAAAAGAAGCAATG
66 TCGACATGTTACAGATATGGTTCCTGATCGGTGGACTCTTCAGAATATGGAAAAAAGAAGCAATG
55463 AGACTTTCCGACAATATGCCCAAAGATGACGTGATGTTGCTGAATAGGTCC
131 AGACTTTCCGACAATATGCCCAAAGATGACGTGATGTTGCTGAATAGGTCC
55514 AACCAATTAACTAGGGCTCACATCAAATCATGGAAAGACTTGGCAAAAACATTCCTAGAACAGTA
1 AACCAATTAACTAGGGCTCACATCAAATCATGGAAAGACTTGGCAAAAACATTCCTAGAACAGTA
55579 TCGACATGTTACAGATATGGTTCCTGATCGGTGGACTCTTCAGAATATGGAAAAAAGAAGCAATG
66 TCGACATGTTACAGATATGGTTCCTGATCGGTGGACTCTTCAGAATATGGAAAAAAGAAGCAATG
*
55644 AGACTTTCCGACAATATGCCCAAAGGTGACGTGATGTT
131 AGACTTTCCGACAATATGCCCAAAGATGACGTGATGTT
55682 ACTGCATATT
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
181 165 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (181 bp):
AACCAATTAACTAGGGCTCACATCAAATCATGGAAAGACTTGGCAAAAACATTCCTAGAACAGTA
TCGACATGTTACAGATATGGTTCCTGATCGGTGGACTCTTCAGAATATGGAAAAAAGAAGCAATG
AGACTTTCCGACAATATGCCCAAAGATGACGTGATGTTGCTGAATAGGTCC
Found at i:58407 original size:7 final size:7
Alignment explanation
Indices: 58397--58421 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
58387 ATTTTACATT
58397 TTTATTC
1 TTTATTC
58404 TTTATTC
1 TTTATTC
58411 TTTATTC
1 TTTATTC
58418 TTTA
1 TTTA
58422 CATTCATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTC
Found at i:61949 original size:9 final size:9
Alignment explanation
Indices: 61914--61980 Score: 61
Period size: 9 Copynumber: 7.6 Consensus size: 9
61904 TATGCTTGAA
61914 GAAAAAAA-
1 GAAAAAAAT
*
61922 GAAACAAAT
1 GAAAAAAAT
*
61931 -AAAAAGAT
1 GAAAAAAAT
61939 GAAAAAAAT
1 GAAAAAAAT
61948 GAAAATGAAA-
1 GAAAA--AAAT
61958 -AAAAGAAAT
1 GAAAA-AAAT
61967 GAAAAAAAT
1 GAAAAAAAT
61976 GAAAA
1 GAAAA
61981 TAGAAAAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
8 17 0.35
9 25 0.51
10 4 0.08
11 3 0.06
ACGTcount: A:0.76, C:0.01, G:0.13, T:0.09
Consensus pattern (9 bp):
GAAAAAAAT
Found at i:61957 original size:15 final size:15
Alignment explanation
Indices: 61937--61989 Score: 83
Period size: 15 Copynumber: 3.6 Consensus size: 15
61927 AAATAAAAAG
61937 ATGAAAAAAATGAAA
1 ATGAAAAAAATGAAA
61952 ATGAAAAAAA-G-AA
1 ATGAAAAAAATGAAA
61965 ATGAAAAAAATGAAA
1 ATGAAAAAAATGAAA
61980 ATAGAAAAAA
1 AT-GAAAAAA
61990 GAGGGTTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
13 12 0.34
14 2 0.06
15 14 0.40
16 7 0.20
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.11
Consensus pattern (15 bp):
ATGAAAAAAATGAAA
Found at i:61960 original size:14 final size:14
Alignment explanation
Indices: 61941--61989 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
61931 AAAAAGATGA
61941 AAAAAATGAAAATG
1 AAAAAATGAAAATG
*
61955 AAAAAAAG-AAATG
1 AAAAAATGAAAATG
61968 AAAAAAATGAAAATAG
1 -AAAAAATGAAAAT-G
61984 AAAAAA
1 AAAAAA
61990 GAGGGTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 5 0.17
14 14 0.47
15 10 0.33
16 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (14 bp):
AAAAAATGAAAATG
Found at i:63105 original size:136 final size:135
Alignment explanation
Indices: 62856--63203 Score: 519
Period size: 136 Copynumber: 2.6 Consensus size: 135
62846 AAGAGGTGAC
62856 TCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCAT
1 TCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAA-AAGTTCAT
62921 AATGAGAAGAGCTTGTTCAACATATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTT
65 AATGAGAAGAGCTTGTTCAACATATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTT
62986 GAGGGA
130 GAGGGA
** *
62992 TCAGTATTTCCAATGGAGAGTTCATAATGAGAATAACTCATCCGACAGAGGGAGACAAAGTTCAT
1 TCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGA-AAAGTTCAT
* * * *
63057 AATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATTAGTGACACCTCGCTT
65 AATGAGAAGAGCTTGTTCAACATATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTT
63122 GAGGGA
130 GAGGGA
* * * * *
63128 TTAACATTTTC-A-GAAGAGTTCATAATGAGAAGAACTCGTCCTA-A-A-GGAG-AAAGTTCATA
1 TCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAAAGTTCATA
*
63187 ATGAGAAGAACTTGTTC
66 ATGAGAAGAGCTTGTTC
63204 CTTTCAAGTC
Statistics
Matches: 195, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
129 26 0.13
131 4 0.02
132 1 0.01
133 1 0.01
134 27 0.14
135 1 0.01
136 134 0.69
137 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (135 bp):
TCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAAAGTTCATA
ATGAGAAGAGCTTGTTCAACATATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTG
AGGGA
Found at i:63608 original size:332 final size:331
Alignment explanation
Indices: 62997--63643 Score: 958
Period size: 332 Copynumber: 2.0 Consensus size: 331
62987 AGGGATCAGT
* * * *
62997 ATTTCCAATGGAGAGTTCATAATGAGAATAACTCATCCGACAGAGGGAGACAAAGTTCATAATGA
1 ATTTCCAATGGAGAGCTCATAATGAGAAGAACTCATCCAAAAGAGGGAGACAAAGTTCATAATGA
* * *
63062 GAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATTAGTGACACCTCGCTTGAGGG
66 GAAGAGCTTGTTCAACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAGGG
* * * * *
63127 ATTAACATTTTCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAG
131 ATTAACATTTCCAAAAGAGTTCATAATGAGAAGAACTCGTACTAAAGGAAAAAGTTCATAATGAA
** * *
63192 AAGAACTTGTTCCTTTCAAGTCCATTACAGAAAGAGATTGATCAACATTTGTAATGGAGAGTTCA
196 AAGAACTTGTTCCTTTCAAGTCCACCACAGAAAGAGAGTGATCAACATTTGTAATGAAGAGTTCA
* *
63257 TAATAAGAAGAACTCATCCAACGAGAGAGAATAAGTTCATAATGAGAAGAACTTGTCCAACTTCG
261 TAATAAGAAGAACTCATCC-ACGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTCCAACTTCG
63322 CATCAAC
325 CATCAAC
* * *
63329 ATTTTCAATGGAGAGCTCATAATGAGAAGAACTCGTCCAAAAGTGGGAGA-AGAAGTTCATAATG
1 ATTTCCAATGGAGAGCTCATAATGAGAAGAACTCATCCAAAAGAGGGAGACA-AAGTTCATAATG
* * * *
63393 AGAAGCGCTTGTTCAACCTATCACTCGGTTCACGATATTTCGAATCAGTGACGCCTCG-TTAGAG
65 AGAAGAGCTTGTTCAACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTT-GAG
* *
63457 GGATTGACATTTCCAAAAGAGTTCATAATGAGAAGAACTCGTATTAAAGGAAAAAGTTCATAATG
129 GGATTAACATTTCCAAAAGAGTTCATAATGAGAAGAACTCGTACTAAAGGAAAAAGTTCATAATG
* * *
63522 AAAAGAACTTGTTCCTTTCAAGTCCACCACAGAAATAG-GTGACTCAACATTTTTAGTGAAGAGT
194 AAAAGAACTTGTTCCTTTCAAGTCCACCACAGAAAGAGAGTGA-TCAACATTTGTAATGAAGAGT
*
63586 TCATAATGAGAAGAACTCATCCACGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGT
258 TCATAATAAGAAGAACTCATCCACGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGT
63644 TCAATACAAC
Statistics
Matches: 281, Mismatches: 31, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
331 40 0.14
332 241 0.86
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (331 bp):
ATTTCCAATGGAGAGCTCATAATGAGAAGAACTCATCCAAAAGAGGGAGACAAAGTTCATAATGA
GAAGAGCTTGTTCAACCTATCACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAGGG
ATTAACATTTCCAAAAGAGTTCATAATGAGAAGAACTCGTACTAAAGGAAAAAGTTCATAATGAA
AAGAACTTGTTCCTTTCAAGTCCACCACAGAAAGAGAGTGATCAACATTTGTAATGAAGAGTTCA
TAATAAGAAGAACTCATCCACGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTCCAACTTCGC
ATCAAC
Found at i:72600 original size:38 final size:38
Alignment explanation
Indices: 72558--72635 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
72548 ACTCCTAAAT
* *
72558 TATTGTAGAATACCTACGTTAATTGCTCTTTTGAAAAC
1 TATTGTAGAATACCTACATTAATTCCTCTTTTGAAAAC
72596 TATTGTAGAATACCTACATTAATTCCTCTTTTGAAAAC
1 TATTGTAGAATACCTACATTAATTCCTCTTTTGAAAAC
72634 TA
1 TA
72636 ATTTCCTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (38 bp):
TATTGTAGAATACCTACATTAATTCCTCTTTTGAAAAC
Found at i:84919 original size:26 final size:27
Alignment explanation
Indices: 84883--84935 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
84873 ATTTCAAAAT
84883 TATAATTATAAA-AAAATATTAATTTA
1 TATAATTATAAATAAAATATTAATTTA
* *
84909 TATATTTATAAATAAAATATTTATTTA
1 TATAATTATAAATAAAATATTAATTTA
84936 GAAATATCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TATAATTATAAATAAAATATTAATTTA
Found at i:86551 original size:3 final size:3
Alignment explanation
Indices: 86543--86622 Score: 110
Period size: 3 Copynumber: 26.7 Consensus size: 3
86533 GGCCTGTTTG
**
86543 TAA TAA TAA TAA TTT TAA TAA TAA TAAA TAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
86588 TAA TAA TAA TAA TAA TATA TAA -AA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA
86623 GAAAATGGAG
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.06
3 59 0.86
4 6 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:86590 original size:36 final size:36
Alignment explanation
Indices: 86543--86622 Score: 133
Period size: 36 Copynumber: 2.2 Consensus size: 36
86533 GGCCTGTTTG
**
86543 TAATAATAATAATTTTAATAATAATAAATAAAATAA
1 TAATAATAATAATAATAATAATAATAAATAAAATAA
*
86579 TAATAATAATAATAATAATAATAATATATAAAATAA
1 TAATAATAATAATAATAATAATAATAAATAAAATAA
86615 TAATAATA
1 TAATAATA
86623 GAAAATGGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (36 bp):
TAATAATAATAATAATAATAATAATAAATAAAATAA
Found at i:86909 original size:116 final size:116
Alignment explanation
Indices: 86773--87490 Score: 303
Period size: 113 Copynumber: 6.3 Consensus size: 116
86763 TTCTTCTCTT
* * **** *
86773 TCTTCAGATGAGTTCATCTCATTATGAACTTTCCGCTGGGGATGATA-A-TATCTCCTTCTGTGA
1 TCTTCAGATAAGTTCTTCTCATTATGAACTTTCCGCAAAAGATGATATACTATCTCCTTCTATGA
* * *
86836 T-GTAATTTGGATAAGGGTTGAAC-AAGTTCTTCTCATTATGAACTTCTTCTTCC
66 TAGTAA--T-GAAAAAGGTTGAACAAAATT-TTCTCATTATGAACTTCTTCTTCC
* * * *
86889 TCTTTAGATAAGTTCTTCTCATTATGAACTTTCTGGAAAAGTTGATATTGATCTATCTCCTTCTA
1 TCTTCAGATAAGTTCTTCTCATTATGAACTTTCCGCAAAAGATGATA-T-A-CTATCTCCTTCTA
*
86954 TGATAGTCATGAAAAAGGTTGAACAAAATTTTCTCATTATGAACTTCTTCTTCC
63 TGATAGTAATGAAAAAGGTTGAACAAAATTTTCTCATTATGAACTTCTTCTTCC
* * * * *** *
87008 TCTTCAGATAAGTTCTTATCATTATGAACTTTCTGGAAAAGTTGAT-T-C-ATC-GAAT-GATGA
1 TCTTCAGATAAGTTCTTCTCATTATGAACTTTCCGCAAAAGATGATATACTATCTCCTTCTATGA
* ** *
87068 -ATTCAAACAAAAA-GTTGAAC-AAATTCTTCTCATTATGAA--T-TTCTTCT
66 TAGT-AATGAAAAAGGTTGAACAAAATT-TTCTCATTATGAACTTCTTCTTCC
* * * * ***
87115 TCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGC-AATGTTG--AT-CCATC-AAAT
1 TCTTCAGAT-A--AGTTCTTCTCATTATGAACT-TTCC--GCAAAAGATGATATACTATCTCCTT
* * *
87175 -GATGA-ATTCAA--ACAAAAGGTCGAAC-AAATTCTTCTCATTATGAACTTCTTCTTCC
60 CTATGATAGT-AATGA-AAAAGGTTGAACAAAATT-TTCTCATTATGAACTTCTTCTTCC
* * * * *** *
87230 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTG--AT-CCATC-GAAT-GA
1 -TCTTCAGATAAGTTCTTCTCATTATGAACTTTC-C-GCAAAAGATGATATACTATCTCCTTCTA
* * *
87290 TGA-ATTCAA-GCGAAAA-GTTGAAC-AAGTTCTTCTCATTATGAACTTCTTCTTCC
63 TGATAGT-AATG-AAAAAGGTTGAACAAAATT-TTCTCATTATGAACTTCTTCTTCC
* * * **** * * *** *
87343 TTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCACTGGGGATGTTGAT-CCATC-AAAT-GA
1 -TCTTCAGATAAGTTCTTCTCATTATGAACT-TTCCGCAAAAGATGAT-ATACTATCTCCTTCTA
*
87405 TGA-ATTCAA--ACAAAAGGTTGAAC-AAATTCTTCTCATTATGAACTTCTTCTTCC
63 TGATAGT-AATGA-AAAAGGTTGAACAAAATT-TTCTCATTATGAACTTCTTCTTCC
*
87458 TTCTTCAGATGAGTTCTTCTCATTATGAACTTT
1 -TCTTCAGATAAGTTCTTCTCATTATGAACTTT
87491 AACTGGAACT
Statistics
Matches: 514, Mismatches: 55, Indels: 68
0.81 0.09 0.11
Matches are distributed among these distances:
107 15 0.03
108 2 0.00
109 5 0.01
110 42 0.08
111 18 0.04
112 55 0.11
113 118 0.23
114 14 0.03
115 94 0.18
116 46 0.09
117 1 0.00
119 81 0.16
120 5 0.01
121 15 0.03
122 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (116 bp):
TCTTCAGATAAGTTCTTCTCATTATGAACTTTCCGCAAAAGATGATATACTATCTCCTTCTATGA
TAGTAATGAAAAAGGTTGAACAAAATTTTCTCATTATGAACTTCTTCTTCC
Found at i:87313 original size:113 final size:113
Alignment explanation
Indices: 86851--87519 Score: 790
Period size: 113 Copynumber: 5.9 Consensus size: 113
86841 TTTGGATAAG
* * *
86851 GGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTTAGATAAGTTCTTCTCATTATG
1 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
* *** * * *
86915 AAC-TT-TCTGGAAAAGTTGATATTGATCTATCTCCTTCTATGATAGTCATGA-AAAA
66 AACTTTCTCTGGAAAA---G---TTGATCCATC-GAAT-GATGA-ATTCA-AACAAAA
* *
86970 GGTTGAACAAAATT-TTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTATCATTAT
1 GGTTGAAC-AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
*
87033 GAAC-TT-TCTGGAAAAGTTGATTCATCGAATGATGAATTCAAACAAAA
65 GAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAACAAAA
*
87080 AGTTGAACAAATTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGACGAGTTCTTCTCATT
1 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATT
* * * *
87141 ATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAA
63 ATGAACT-TTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAACAAAA
*
87192 GGTCGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
1 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
* *
87257 AACTTTCTCTGGAAAAGCTGATCCATCGAATGATGAATTCAAGCGAAAA
66 AACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAAC-AAAA
*
87306 -GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
1 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
* ** * *
87370 AACTCTTTCACTGGGGATGTTGATCCATCAAATGATGAATTCAAACAAAA
66 AA--CTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAACAAAA
87420 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
1 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
** ** *
87485 AACTTTAACTGGAACTGTTGATCCATTGAATGATG
66 AACTTTCTCTGGAAAAGTTGATCCATCGAATGATG
87520 GATTTAAATC
Statistics
Matches: 488, Mismatches: 43, Indels: 44
0.85 0.07 0.08
Matches are distributed among these distances:
106 1 0.00
107 14 0.03
108 1 0.00
109 6 0.01
110 46 0.09
111 4 0.01
112 65 0.13
113 151 0.31
114 9 0.02
115 105 0.22
116 12 0.02
119 70 0.14
120 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
AACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAACAAAA
Found at i:87460 original size:228 final size:227
Alignment explanation
Indices: 86852--87519 Score: 865
Period size: 228 Copynumber: 2.9 Consensus size: 227
86842 TTGGATAAGG
* *
86852 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTTAGATAAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* ** ** * * *** * * *
86916 ACT-TTCTGGAAAAGTTGATATTGATCTATCTCCTTCTATGATAGTCATGA-AAAAGGTTGAACA
66 ACTCTT-T--CACTGGCGATGTTGATCCATC-AAAT-GATGA-ATTCA-AACAAAAGGTTGAAC-
* *
86979 AAATT-TTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTATCATTATGAAC-TTTC
123 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTC
*
87041 TGGAAAAGTTGATTCATCGAATGATGAATTCAAACAAAAA
188 TGGAAAAGTTGATCCATCGAATGATGAATTCAAACAAAAA
*
87081 GTTGAACAAATTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGACGAGTTCTTCTCATTA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTA
* * *
87142 TGAACTC-TAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAGGTCGAACAAATT
63 TGAACTCTTTCACTGGCGATGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAATT
87205 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
128 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-TCTGGA
* * *
87270 AAAGCTGATCCATCGAATGATGAATTCAAGCGAAAA
192 AAAGTTGATCCATCGAATGATGAATTCAAACAAAAA
87306 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
*
87371 ACTCTTTCACTGGGGATGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAATTCTT
66 ACTCTTTCACTGGCGATGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAATTCTT
* **
87436 CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAACTGGAACT
131 CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-TCTGGAAAA
*
87501 GTTGATCCATTGAATGATG
195 GTTGATCCATCGAATGATG
87520 GATTTAAATC
Statistics
Matches: 387, Mismatches: 36, Indels: 33
0.85 0.08 0.07
Matches are distributed among these distances:
221 6 0.02
222 39 0.10
223 31 0.08
224 3 0.01
225 76 0.20
226 35 0.09
227 4 0.01
228 136 0.35
229 57 0.15
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (227 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTCTTTCACTGGCGATGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAATTCTT
CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTCTGGAAAAG
TTGATCCATCGAATGATGAATTCAAACAAAAA
Found at i:88381 original size:114 final size:114
Alignment explanation
Indices: 88218--88437 Score: 323
Period size: 114 Copynumber: 1.9 Consensus size: 114
88208 GATCATGCAG
* * * * * **
88218 TTCATCTTTTAATTCCAATGATTGGTTCTGTGGTTCCTACTGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
88283 ACACTACCAGAAGATGCTATTAGGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTACCAGAAGATGCTATTAGGTCTCCTTATTTCTACTATGAGCAAA
* *
88332 TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* * *
88397 ATACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
66 ACACTACCAGAAGATGCTATTAGGTCTCCTTATTTCTACTA
88438 CGAGAACTTG
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 93 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGATTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTACCAGAAGATGCTATTAGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:89133 original size:9 final size:9
Alignment explanation
Indices: 89116--89254 Score: 104
Period size: 9 Copynumber: 16.6 Consensus size: 9
89106 CTTGACCCCC
*
89116 TCTTTTTTT
1 TCTTCTTTT
89125 TCTTCTTTT
1 TCTTCTTTT
*
89134 T-TTC-TCT
1 TCTTCTTTT
89141 T-TT-TTTT
1 TCTTCTTTT
89148 TCTT-TTTT
1 TCTTCTTTT
*
89156 TCTTTTTTT
1 TCTTCTTTT
*
89165 TCTTTTTTT
1 TCTTCTTTT
*
89174 TCTTTTTTT
1 TCTTCTTTT
*
89183 TCTTTTTTT
1 TCTTCTTTT
89192 TCTT-TTTT
1 TCTTCTTTT
89200 T-TTCTTTT
1 TCTTCTTTT
*
89208 TTTTCTTATT
1 TCTTCTT-TT
89218 T-TTCTTCTT
1 TCTTCTT-TT
89227 T-TT-TTTT
1 TCTTCTTTT
89234 TCTTC-TTT
1 TCTTCTTTT
*
89242 TCAT-TTTT
1 TCTTCTTTT
89250 TCTTC
1 TCTTC
89255 AAGCATAATA
Statistics
Matches: 114, Mismatches: 6, Indels: 20
0.81 0.04 0.14
Matches are distributed among these distances:
7 13 0.11
8 39 0.34
9 59 0.52
10 3 0.03
ACGTcount: A:0.01, C:0.14, G:0.00, T:0.84
Consensus pattern (9 bp):
TCTTCTTTT
Found at i:89153 original size:18 final size:18
Alignment explanation
Indices: 89119--89253 Score: 150
Period size: 19 Copynumber: 7.1 Consensus size: 18
89109 GACCCCCTCT
89119 TTTTTTTCTTCTTTTTTTCTC
1 TTTTTTT-TTC-TTTTTT-TC
89140 TTTTTTTTTCTTTTTTTC
1 TTTTTTTTTCTTTTTTTC
89158 -TTTTTTTTCTTTTTTT-
1 TTTTTTTTTCTTTTTTTC
89174 TCTTTTTTTTCTTTTTTTTC
1 T-TTTTTTTTC-TTTTTTTC
89194 TTTTTTTTTCTTTTTTTTC
1 TTTTTTTTTC-TTTTTTTC
89213 TTATTTTTCTTCTTTTTTT-
1 TT-TTTTT-TTCTTTTTTTC
*
89232 TTTCTTCTTTTCATTTTTTC
1 TTT-TT-TTTTCTTTTTTTC
89252 TT
1 TT
89254 CAAGCATAAT
Statistics
Matches: 104, Mismatches: 1, Indels: 19
0.84 0.01 0.15
Matches are distributed among these distances:
17 16 0.15
18 12 0.12
19 46 0.44
20 20 0.19
21 10 0.10
ACGTcount: A:0.01, C:0.13, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTCTTTTTTTC
Found at i:89158 original size:28 final size:29
Alignment explanation
Indices: 89120--89252 Score: 177
Period size: 28 Copynumber: 4.6 Consensus size: 29
89110 ACCCCCTCTT
89120 TTTTTTCTTCTTTTTTTCTCTTTTTTTTTC
1 TTTTTT-TTCTTTTTTTCTCTTTTTTTTTC
89150 -TTTTTTTCTTTTTTT-TC-TTTTTTTTC
1 TTTTTTTTCTTTTTTTCTCTTTTTTTTTC
89176 TTTTTTTTCTTTTTTT-TCTTTTTTTTTC
1 TTTTTTTTCTTTTTTTCTCTTTTTTTTTC
89204 TTTTTTTTCTTATTTTTCTTCTTTTTTTTT-
1 TTTTTTTTCTT-TTTTTC-TCTTTTTTTTTC
* *
89234 TCTTCTTTTCATTTTTTCT
1 T-TTTTTTTCTTTTTTTCT
89253 TCAAGCATAA
Statistics
Matches: 95, Mismatches: 2, Indels: 13
0.86 0.02 0.12
Matches are distributed among these distances:
26 9 0.09
27 19 0.20
28 30 0.32
29 11 0.12
30 7 0.07
31 19 0.20
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.85
Consensus pattern (29 bp):
TTTTTTTTCTTTTTTTCTCTTTTTTTTTC
Found at i:89171 original size:46 final size:46
Alignment explanation
Indices: 89120--89253 Score: 182
Period size: 46 Copynumber: 2.8 Consensus size: 46
89110 ACCCCCTCTT
89120 TTTTTTCTTCTTTTTTTCTCTTTTTTTTTCTTTTTTTCTTTTTTTTC
1 TTTTTTCTTCTTTTTTT-TCTTTTTTTTTCTTTTTTTCTTTTTTTTC
*
89167 TTTTTT-TTCTTTTTTTTCTTTTTTTTCTTTTTTTTTCTTTTTTTTC
1 TTTTTTCTTCTTTTTTTTCTTTTTTTT-TCTTTTTTTCTTTTTTTTC
* *
89213 TTATTTTTCTTCTTTTTTTT-TTCTTCTTTTCATTTTTTCTT
1 -T-TTTTTCTTCTTTTTTTTCTT-TTTTTTTCTTTTTTTCTT
89254 CAAGCATAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
45 10 0.13
46 28 0.36
47 7 0.09
48 17 0.22
49 16 0.21
ACGTcount: A:0.01, C:0.13, G:0.00, T:0.85
Consensus pattern (46 bp):
TTTTTTCTTCTTTTTTTTCTTTTTTTTTCTTTTTTTCTTTTTTTTC
Found at i:89250 original size:1 final size:1
Alignment explanation
Indices: 89118--89234 Score: 99
Period size: 1 Copynumber: 117.0 Consensus size: 1
89108 TGACCCCCTC
* * * * * * * *
89118 TTTTTTTTCTTCTTTTTTTCTCTTTTTTTTTCTTTTTTTCTTTTTTTTCTTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * *
89183 TCTTTTTTTTCTTTTTTTTTCTTTTTTTTCTTATTTTTCTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
89235 CTTCTTTTCA
Statistics
Matches: 86, Mismatches: 30, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 86 1.00
ACGTcount: A:0.01, C:0.12, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Done.