Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003592.1 Hibiscus syriacus cultivar Beakdansim tig00007583_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: 102361
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:7597 original size:48 final size:45
Alignment explanation
Indices: 7544--7657 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 45
7534 GTTCACTTGG
7544 CTCTCCATCACCTTGTCCACTGAGTTGCTCATGACTTCGATCACTAGAA
1 CTCTCCA-CACCTTGTCCACTGAGTTGCTCATGA-TTCG-TCA-TAGAA
* * *
7593 -TCTCCACCACCTTGTCCACTGAGTTGTTCATGATTTGTCATCGAA
1 CTCTCCA-CACCTTGTCCACTGAGTTGCTCATGATTCGTCATAGAA
7638 CTCTCCACACCTTGTCCACT
1 CTCTCCACACCTTGTCCACT
7658 AAGCTCATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
45 17 0.28
46 9 0.15
47 3 0.05
48 31 0.52
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (45 bp):
CTCTCCACACCTTGTCCACTGAGTTGCTCATGATTCGTCATAGAA
Found at i:24667 original size:22 final size:24
Alignment explanation
Indices: 24639--24687 Score: 84
Period size: 22 Copynumber: 2.1 Consensus size: 24
24629 ATCGCCTTCG
24639 TTGATTGTTGATCG-TGTTGAC-T
1 TTGATTGTTGATCGATGTTGACGT
24661 TTGATTGTTGATCGATGTTGACGT
1 TTGATTGTTGATCGATGTTGACGT
24685 TTG
1 TTG
24688 TCAAAAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 14 0.56
23 7 0.28
24 4 0.16
ACGTcount: A:0.14, C:0.08, G:0.29, T:0.49
Consensus pattern (24 bp):
TTGATTGTTGATCGATGTTGACGT
Found at i:25679 original size:3 final size:3
Alignment explanation
Indices: 25671--25708 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
25661 TGATTTTTAA
*
25671 TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
25709 AAAAATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:27477 original size:16 final size:16
Alignment explanation
Indices: 27456--27490 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27446 TCCAATCATT
27456 AATATTTTAAAACCCA
1 AATATTTTAAAACCCA
* *
27472 AATATTTTTAAACTCA
1 AATATTTTAAAACCCA
27488 AAT
1 AAT
27491 CAATTAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (16 bp):
AATATTTTAAAACCCA
Found at i:27820 original size:111 final size:107
Alignment explanation
Indices: 27698--28127 Score: 383
Period size: 110 Copynumber: 3.9 Consensus size: 107
27688 CATATATATC
* * *
27698 TATATATTATATAGTTTGCAAATGGTTTTTGAAAATATGTATATAATATATAATTTTTTTAAATA
1 TATATATTATATAGTTTGAAAAT-ATTTTT-AAAATAT-TATATAATATATAATTTTTTAAAATA
*
27763 TTTTTGAAAATATATATTATATAGTTTTTAAAGCATTTTTGAAAA
63 TTTTTGAAAATATATATTATATAGTTTTTAAAACATTTTTGAAAA
* * * * *
27808 GTATATACTATATAGTTTTTAAAACA-TTTTATAAATA-TATATATTATATATAGTTTTTAAAAT
1 -TATATATTATATAG-TTTGAAAATATTTTTA-AAATATTATATAATATATA-ATTTTTTAAAAT
**
27871 CA-TTTTGAAAATATATGCTATATAGTTTTTTTAAAACATTTTTGAAAA
62 -ATTTTTGAAAATATATATTATATAG--TTTTTAAAACATTTTTGAAAA
* * *
27919 CATATATTATATAGTTTTGAAAATATTTTTAAAATA-TATATAATATATATAGTTTTTGAAAACA
1 TATATATTATATAG-TTTGAAAATATTTTTAAAATATTATATAATATATA-A-TTTTTTAAAATA
* *
27983 TTTTTTAAAACTTATATATTATATAGTTTTAAAAACATTTTTGAAAACA
63 TTTTTGAAAA--TATATATTATATAGTTTTTAAAACATTTTTG-AAA-A
* * * * *
28032 TTTATCTATTATATAGATTTTAAAATATTTTTGAAATTTTATATAAAATATATAGTTTTTTTAAA
1 --TATATATTATATAG-TTTGAAAATATTTTTAAAATATTATAT--AATATATA-ATTTTTTAAA
* *
28097 A-A--TTT--AAATTTATATTATATAGTTTTAAAAA
60 ATATTTTTGAAAATATATATTATATAGTTTTTAAAA
28128 AATACTTTTT
Statistics
Matches: 268, Mismatches: 33, Indels: 37
0.79 0.10 0.11
Matches are distributed among these distances:
108 12 0.04
109 32 0.12
110 73 0.27
111 70 0.26
112 12 0.04
113 13 0.05
114 3 0.01
115 30 0.11
116 6 0.02
117 9 0.03
118 8 0.03
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (107 bp):
TATATATTATATAGTTTGAAAATATTTTTAAAATATTATATAATATATAATTTTTTAAAATATTT
TTGAAAATATATATTATATAGTTTTTAAAACATTTTTGAAAA
Found at i:27851 original size:110 final size:107
Alignment explanation
Indices: 27698--28127 Score: 397
Period size: 111 Copynumber: 3.9 Consensus size: 107
27688 CATATATATC
** * * *
27698 TATATATTATATAG-TTTGCAAATGGTTTTTGAAAATATGTATATAATATATAATTTTTTTAAAT
1 TATATATTATATAGTTTTTAAAAT-ATTTTT--AAATATATATATAATATATAATTTTTTAAAAT
*
27762 ATTTTTGAAAATATATATTATATAGTTTTTAAAGCATTTTTGAAAA
63 A-TTTTGAAAATATATATTATATAGTTTTTAAAACATTTTTGAAAA
* * * *
27808 GTATATACTATATAGTTTTTAAAACATTTTATAAATATATATATTATATAT-AGTTTTTAAAATC
1 -TATATATTATATAGTTTTTAAAATATTTT-TAAATATATATATAATATATAATTTTTTAAAAT-
**
27872 ATTTTGAAAATATATGCTATATAGTTTTTTTAAAACATTTTTGAAAA
63 ATTTTGAAAATATATATTATATAG--TTTTTAAAACATTTTTGAAAA
* * * *
27919 CATATATTATATAGTTTTGAAAATATTTTTAAA-ATATATATAATATATATAGTTTTTGAAAACA
1 TATATATTATATAGTTTTTAAAATATTTTTAAATATATATATAATATATA-A-TTTTTTAAAATA
* *
27983 TTTTTTAAAACTTATATATTATATAGTTTTAAAAACATTTTTGAAAACA
64 -TTTTGAAAA--TATATATTATATAGTTTTTAAAACATTTTTG-AAA-A
* * * * *
28032 TTTATCTATTATATAGATTTTAAAATATTTTTGAAATTTTATATAAAATATATAGTTTTTTTAAA
1 --TATATATTATATAGTTTTTAAAATATTTTT-AAA-TATATATATAATATATA-ATTTTTTAAA
* *
28097 A-A-TTT--AAATTTATATTATATAGTTTTAAAAA
61 ATATTTTGAAAATATATATTATATAGTTTTTAAAA
28128 AATACTTTTT
Statistics
Matches: 267, Mismatches: 34, Indels: 37
0.79 0.10 0.11
Matches are distributed among these distances:
108 14 0.05
109 35 0.13
110 67 0.25
111 69 0.26
112 13 0.05
113 13 0.05
114 3 0.01
115 26 0.10
116 4 0.01
117 9 0.03
118 14 0.05
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (107 bp):
TATATATTATATAGTTTTTAAAATATTTTTAAATATATATATAATATATAATTTTTTAAAATATT
TTGAAAATATATATTATATAGTTTTTAAAACATTTTTGAAAA
Found at i:28163 original size:3 final size:3
Alignment explanation
Indices: 28155--28205 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
28145 ATTTATTTAT
* *
28155 TTA TTA TTA TTA TTA TTTA TTA TTT TTA TTT TTA TTA TTA CTTA TT-
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
28201 TTA TT
1 TTA TT
28206 TTTTGTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 6 0.15
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:28168 original size:25 final size:23
Alignment explanation
Indices: 28135--28206 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 23
28125 AAAAATACTT
28135 TTTTA-TATTTATTTATTTATTTA
1 TTTTATTA-TTATTTATTTATTTA
*
28158 TTATTATTATTATTTATTATTTTTA
1 TT-TTATTATTATTTATT-TATTTA
*
28183 TTTTTATTATTACTTATTTTATTT
1 -TTTTATTATTATTTA-TTTATTT
28207 TTTGTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
23 2 0.05
24 12 0.29
25 23 0.56
26 4 0.10
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTATTATTATTTATTTATTTA
Found at i:28170 original size:16 final size:16
Alignment explanation
Indices: 28151--28200 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
28141 ATTTATTTAT
28151 TTATTTATTATTATTA
1 TTATTTATTATTATTA
*
28167 TTATTTATTATTTTTA
1 TTATTTATTATTATTA
28183 TT-TTTATTATTACTTA
1 TTATTTATTATTA-TTA
28199 TT
1 TT
28201 TTATTTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.29
16 22 0.71
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (16 bp):
TTATTTATTATTATTA
Found at i:28208 original size:6 final size:6
Alignment explanation
Indices: 28134--28190 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
28124 AAAAAATACT
* * * *
28134 TTTTTA TATTTA TTTATT- TATTTA TTATTA TTATTA TTTATTA TTTTTA
1 TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA
28183 TTTTTA TT
1 TTTTTA TT
28191 ATTACTTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
5 2 0.05
6 32 0.76
7 8 0.19
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:28208 original size:28 final size:27
Alignment explanation
Indices: 28137--28215 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 27
28127 AAATACTTTT
28137 TTATATTTATTTATTTATTTATTATTATTA
1 TTAT-TTTATTT-TTTATTT-TTATTATTA
28167 TTA-TTTATTATTTTTATTTTTATTATTA
1 TTATTTTA-T-TTTTTATTTTTATTATTA
*
28195 CTTATTTTATTTTTTGTTTTT
1 -TTATTTTATTTTTTATTTTT
28216 TGTTTCAAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
28 23 0.52
29 12 0.27
30 9 0.20
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (27 bp):
TTATTTTATTTTTTATTTTTATTATTA
Found at i:28672 original size:19 final size:20
Alignment explanation
Indices: 28634--28672 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
28624 AACAAACAGT
*
28634 AAACCATACACAACAGACAA
1 AAACCATACACAAAAGACAA
*
28654 AAACCAT-CACAAAATACAA
1 AAACCATACACAAAAGACAA
28673 GCCAAACAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.62, C:0.28, G:0.03, T:0.08
Consensus pattern (20 bp):
AAACCATACACAAAAGACAA
Found at i:29731 original size:22 final size:22
Alignment explanation
Indices: 29706--29875 Score: 115
Period size: 22 Copynumber: 7.5 Consensus size: 22
29696 TTAAAATAAA
*
29706 TTATTATAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
** * *
29728 TTATTTTAAAATAATTTATTTTAA
1 TTATTTTAAAAT-ATGGA-TTGAT
* * * * *
29752 ATAATTTATTAGTATGAATTGAT
1 TTATTTTA-AAATATGGATTGAT
29775 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
** * *
29797 TTATTTTAAAATAATTTATTTTAA
1 TTATTTTAAAAT-ATGGA-TTGAT
* * * * *
29821 ATAATTTATTAGTATGAATTGAT
1 TTATTTTA-AAATATGGATTGAT
29844 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
29866 TTATTTTAAA
1 TTATTTTAAA
29876 TAATTTATTT
Statistics
Matches: 107, Mismatches: 35, Indels: 12
0.69 0.23 0.08
Matches are distributed among these distances:
22 55 0.51
23 24 0.22
24 24 0.22
25 4 0.04
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (22 bp):
TTATTTTAAAATATGGATTGAT
Found at i:29755 original size:14 final size:15
Alignment explanation
Indices: 29674--29830 Score: 93
Period size: 15 Copynumber: 9.5 Consensus size: 15
29664 TAATAAGGTT
*
29674 ATTTAATTTAAAATA
1 ATTTATTTTAAAATA
29689 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
29704 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
29723 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
29741 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
* * *
29755 ATTTATTAGTATGAATTG
1 ATTTATT--T-TAAAATA
29773 ATTTATTTTAAAATATGGA
1 ATTTATTTT-AAA-AT--A
29792 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
29810 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
29824 ATTTATT
1 ATTTATT
29831 AGTATGAATT
Statistics
Matches: 114, Mismatches: 10, Indels: 37
0.71 0.06 0.23
Matches are distributed among these distances:
14 24 0.21
15 39 0.34
16 8 0.07
17 4 0.04
18 12 0.11
19 1 0.01
20 4 0.04
21 7 0.06
22 15 0.13
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:29773 original size:47 final size:52
Alignment explanation
Indices: 29674--29787 Score: 157
Period size: 47 Copynumber: 2.3 Consensus size: 52
29664 TAATAAGGTT
* *
29674 ATTTAATTTAAAATAATTTATTTTAAAATAAATTATTATAAAATATGGATTG
1 ATTTATTTTAAAATAATTTATTTTAAAATAAATTATTATAAAATATGAATTG
* *
29726 ATTTATTTTAAAATAATTTATTTT-AAAT-AA-T-TTAT-TAGTATGAATTG
1 ATTTATTTTAAAATAATTTATTTTAAAATAAATTATTATAAAATATGAATTG
29773 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
29788 TGGATTGATT
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
47 24 0.41
48 4 0.07
49 1 0.02
50 2 0.03
51 4 0.07
52 23 0.40
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (52 bp):
ATTTATTTTAAAATAATTTATTTTAAAATAAATTATTATAAAATATGAATTG
Found at i:29787 original size:69 final size:69
Alignment explanation
Indices: 29706--29885 Score: 344
Period size: 69 Copynumber: 2.6 Consensus size: 69
29696 TTAAAATAAA
*
29706 TTATTATAAAATATGGATTGATTTATTTTAAAATAATTTATTTTAAATAATTTATTAGTATGAAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAAATAATTTATTTTAAATAATTTATTAGTATGAAT
29771 TGAT
66 TGAT
29775 TTATTTTAAAATATGGATTGATTTATTTTAAAATAATTTATTTTAAATAATTTATTAGTATGAAT
1 TTATTTTAAAATATGGATTGATTTATTTTAAAATAATTTATTTTAAATAATTTATTAGTATGAAT
29840 TGAT
66 TGAT
29844 TTATTTTAAAATATGGATTGATTTATTTT-AAATAATTTATTT
1 TTATTTTAAAATATGGATTGATTTATTTTAAAATAATTTATTT
29886 GTATGGATTA
Statistics
Matches: 110, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
68 13 0.12
69 97 0.88
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (69 bp):
TTATTTTAAAATATGGATTGATTTATTTTAAAATAATTTATTTTAAATAATTTATTAGTATGAAT
TGAT
Found at i:29806 original size:54 final size:54
Alignment explanation
Indices: 29741--30315 Score: 554
Period size: 54 Copynumber: 10.8 Consensus size: 54
29731 TTTTAAAATA
*
29741 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * *
29795 ATTTATTTTAAAATAATTTATT--T-T-AAATAATTTA--TT--AGTATGAATTG
1 ATTTATTTT-AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
29842 ATTTA-TTT---TAA---A--A-TATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * ** * * ***
29882 ATTTGTATGGATTAATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
29944 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
29998 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
30052 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * ** * * * *** *
30102 ATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATAGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
30164 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
30218 ATTTATTTTGAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
30272 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
30316 TAATTTATTT
Statistics
Matches: 430, Mismatches: 50, Indels: 82
0.77 0.09 0.15
Matches are distributed among these distances:
38 1 0.00
39 2 0.00
40 14 0.03
41 1 0.00
42 5 0.01
43 3 0.01
44 3 0.01
46 3 0.01
47 15 0.03
49 2 0.00
50 16 0.04
51 8 0.02
52 3 0.01
53 7 0.02
54 246 0.57
55 18 0.04
56 8 0.02
57 4 0.01
58 30 0.07
59 4 0.01
60 4 0.01
62 33 0.08
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:29948 original size:80 final size:80
Alignment explanation
Indices: 29855--30004 Score: 282
Period size: 80 Copynumber: 1.9 Consensus size: 80
29845 TATTTTAAAA
*
29855 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTAATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGAT
29920 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
29935 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGAT
30000 TTATT
66 TTATT
30005 TTAAATAATT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:29975 original size:32 final size:32
Alignment explanation
Indices: 29934--30343 Score: 275
Period size: 32 Copynumber: 13.6 Consensus size: 32
29924 TATTGTAGTT
29934 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
29966 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
29989 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
30020 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
30043 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
30074 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
**
30106 GTATGGATTGATTTATTTTAAA-ATATGGATT-
1 GTATGGATTGATTTATTTTAAATA-ATTTATTA
** * *
30137 G-ATTTATT-ATTGTAGTTGTATAGATTGATTTATT-
1 GTATGGATTGATT-TA-TT-T-TA-AATAATTTATTA
* * * * * *
30171 -T-T-AAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATT--T-T-AAATAATTTA--TT--A
* *
30208 ATATGGATTGATTTATTTTGAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
30240 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
30263 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
30294 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
30326 GTATGGATTGATTGATTT
1 GTATGGATTGATTTATTT
30344 ATTTTAAAAT
Statistics
Matches: 309, Mismatches: 20, Indels: 98
0.72 0.05 0.23
Matches are distributed among these distances:
22 42 0.14
23 12 0.04
25 3 0.01
26 9 0.03
28 9 0.03
29 6 0.02
30 7 0.02
31 18 0.06
32 166 0.54
33 6 0.02
34 10 0.03
36 8 0.03
37 1 0.00
38 2 0.01
39 1 0.00
40 9 0.03
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:29976 original size:134 final size:134
Alignment explanation
Indices: 29810--30315 Score: 704
Period size: 134 Copynumber: 3.7 Consensus size: 134
29800 TTTTAAAATA
*
29810 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
* * *
29875 ATAATTTATTTGTATGGATTAATTTATTTTAAAATATGGATTGATTTA-TTATTGTAGTTGTATG
66 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTATTTTA-TTGTATG
29939 GATTG
130 GATTG
29944 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
30009 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
66 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT--AT--TTTATT-
30074 GTATGGATTG
125 GTATGGATTG
*
30084 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
* * * * * *
30145 AT--TGTAGTT-GTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
66 ATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTATTTATTTTAT
**
30207 AATATGGATTG
124 TGTATGGATTG
*
30218 ATTTATTTTGAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
30283 ATAATTTATTAGTATGGATTGATTTATTTTAAA
66 ATAATTTATTAGTATGGATTGATTTATTTTAAA
30316 TAATTTATTT
Statistics
Matches: 334, Mismatches: 17, Indels: 38
0.86 0.04 0.10
Matches are distributed among these distances:
134 197 0.59
135 8 0.02
136 8 0.02
137 2 0.01
138 9 0.03
139 10 0.03
140 100 0.30
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (134 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTATTTTATTGTATGG
ATTG
Found at i:29992 original size:22 final size:22
Alignment explanation
Indices: 29967--30009 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
29957 AATTTATTAG
29967 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
29989 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
30010 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:30046 original size:22 final size:22
Alignment explanation
Indices: 30021--30063 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
30011 AATTTATTAG
30021 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
30043 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
30064 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:30099 original size:220 final size:220
Alignment explanation
Indices: 29855--30394 Score: 1008
Period size: 220 Copynumber: 2.4 Consensus size: 220
29845 TATTTTAAAA
29855 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTAATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTAATTTATTTTAAAATATGGATTGAT
29920 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
29985 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
131 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
30050 TGATTTATTTTAAATAATTTATTAG
196 TGATTTATTTTAAATAATTTATTAG
*
30075 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTAATTTATTTTAAAATATGGATTGAT
*
30140 TTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
*
30205 AAAATATGGATTGATTTATTTTGAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
131 AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
30270 TGATTTATTTTAAATAATTTATTAG
196 TGATTTATTTTAAATAATTTATTAG
30295 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAATATGGAT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATT-A---ATTTATTTTAAAATATGGAT
*
30360 TGATTTATTATTGTAGTTATATGGATTGATTTATT
62 TGATTTATTATTGTAGTTGTATGGATTGATTTATT
30395 ATTGTAGTTG
Statistics
Matches: 310, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
220 257 0.83
224 53 0.17
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (220 bp):
TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTAATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
AAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
TGATTTATTTTAAATAATTTATTAG
Found at i:30212 original size:22 final size:22
Alignment explanation
Indices: 30187--30283 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 22
30177 AATTTATTAG
30187 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
30209 TATGGATTGATTTATTTTGAATAA
1 TATGGATTGATTTATTTT-AA-AA
* *
30233 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-T-GGATTGA-T---TTATTTTAAAA
30263 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
30284 TAATTTATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
22 28 0.46
23 2 0.03
24 2 0.03
25 1 0.02
26 7 0.11
27 2 0.03
28 7 0.11
29 1 0.02
30 2 0.03
31 2 0.03
32 7 0.11
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:30386 original size:22 final size:24
Alignment explanation
Indices: 30360--30420 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 24
30350 AAATATGGAT
30360 TGATTTATTATTGTAGTTATATGG
1 TGATTTATTATTGTAGTTATATGG
*
30384 ATTGATTTATTATTGTAGTTGTATGG
1 --TGATTTATTATTGTAGTTATATGG
30410 ATTGATTTATT
1 --TGATTTATT
30421 TTAAATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.56
Consensus pattern (24 bp):
TGATTTATTATTGTAGTTATATGG
Found at i:30484 original size:31 final size:31
Alignment explanation
Indices: 30449--30508 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
30439 TAGTTGTATG
* *
30449 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
30480 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
30509 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:30780 original size:22 final size:23
Alignment explanation
Indices: 30749--30803 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 23
30739 TATTATTTTT
30749 TATTTT-TTTTCATTTTCTTTA-
1 TATTTTATTTTCATTTTCTTTAC
*
30770 TATTTTATTTT-ATTTTGTTTAC
1 TATTTTATTTTCATTTTCTTTAC
30792 T-TATTTATTTTC
1 TAT-TTTATTTTC
30804 TTTCTGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (23 bp):
TATTTTATTTTCATTTTCTTTAC
Found at i:30839 original size:2 final size:2
Alignment explanation
Indices: 30832--30860 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30822 TATTTTATTT
30832 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30861 TATTTTTACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30955 original size:25 final size:25
Alignment explanation
Indices: 30902--30986 Score: 63
Period size: 25 Copynumber: 3.4 Consensus size: 25
30892 TTTTCTTTTA
* *
30902 TCTTTATTTT-TATTT-TTGTTCCTT
1 TCTTTATTTTAT-TTTCTTTTTTCTT
30926 ATCTTTATTTTATTTTCTTTTTTCTT
1 -TCTTTATTTTATTTTCTTTTTTCTT
*
30952 TCTTTCA--TTACTTTATCTTTTTTGTT
1 TCTTT-ATTTTA-TTT-TCTTTTTTCTT
30978 T-TTTATTTT
1 TCTTTATTTT
30987 TTTAGTTTCT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
24 4 0.08
25 24 0.48
26 22 0.44
ACGTcount: A:0.11, C:0.12, G:0.02, T:0.75
Consensus pattern (25 bp):
TCTTTATTTTATTTTCTTTTTTCTT
Found at i:30981 original size:33 final size:34
Alignment explanation
Indices: 30928--31004 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 34
30918 TGTTCCTTAT
* *
30928 CTTTATTTTATTTTCTTTTTTCTTTCTTTCA-TTA
1 CTTTATCTTATTTTCTTTTTTATTT-TTTCAGTTA
* * *
30962 CTTTATCTT-TTTTGTTTTTTATTTTTTTAGTTT
1 CTTTATCTTATTTTCTTTTTTATTTTTTCAGTTA
30995 CTTTATCTTA
1 CTTTATCTTA
31005 ATCTTCGTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 4 0.11
33 24 0.67
34 8 0.22
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.74
Consensus pattern (34 bp):
CTTTATCTTATTTTCTTTTTTATTTTTTCAGTTA
Found at i:30988 original size:16 final size:17
Alignment explanation
Indices: 30962--31003 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
30952 TCTTTCATTA
*
30962 CTTTATCTTTTTTGTTT
1 CTTTATCTTTTTAGTTT
*
30979 -TTTATTTTTTTAGTTT
1 CTTTATCTTTTTAGTTT
30995 CTTTATCTT
1 CTTTATCTT
31004 AATCTTCGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.76
Consensus pattern (17 bp):
CTTTATCTTTTTAGTTT
Found at i:34899 original size:95 final size:95
Alignment explanation
Indices: 34723--34977 Score: 331
Period size: 95 Copynumber: 2.7 Consensus size: 95
34713 CCAAATTATA
* * *
34723 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGTAATTAGTTAAACGCCCCGGCTTTA
1 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGAAATTAGTTAAACACCCCGGCTTTA
34788 TGGATAAGACTAAGCTAGCCTGATAAAGGCG
65 TGGATAAGACTAAGCTAGCCTGATAAAGGCG
* *
34819 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGAAATTGGTTAAACACCCTGGCTTTAT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGAAATTAGTTAAACACCCCGGCTTTAT
* * * * *
34884 GGATAATATTCAGCTAGTCTGATAAAGGTG
66 GGATAAGACTAAGCTAGCCTGATAAAGGCG
* * * * *
34914 ATTATAATAT-C--TATA--TTAAGTTGTCCCTCTAGAGCAATTAGTTAAACTCCCCGGCTATAT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGAAATTAGTTAAACACCCCGGCTTTAT
34974 GGAT
66 GGAT
34978 TCAGTTAACC
Statistics
Matches: 142, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
90 43 0.30
92 3 0.02
94 1 0.01
95 89 0.63
96 6 0.04
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGAAATTAGTTAAACACCCCGGCTTTAT
GGATAAGACTAAGCTAGCCTGATAAAGGCG
Found at i:36180 original size:84 final size:84
Alignment explanation
Indices: 36039--37094 Score: 940
Period size: 84 Copynumber: 13.0 Consensus size: 84
36029 CTATTTTTTA
* * * * * * * **
36039 GCAGCATAACTCAAGGCTAGAAAGGTTATCTTCTAGCAAAATACCTT-GAATTTCGACTATGCTC
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCG-AGTTCGACTACACTC
36103 AGCTCAAAGGCACATCATTT
65 AGCTCAAAGGCACATCATTT
* * *
36123 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAATACCTTCAAGTTCGACTACGCTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
*
36188 GCTCCAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * * * * * * *
36207 GCAACATAGATCAAGGCGAGAAGTGTTATTTGCCAACAAAAAACCTTCAAGTTTGACTACGCTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
* * *
36272 GCTCCAAGGAACATCATTA
66 GCTCAAAGGCACATCATTT
* * * * * *
36291 GCAGCATAACTCAAGGCTAGAAGGGTTATCTTCCAACAAAAGACCTTAGAGTTTGACTACGCTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
* * *
36356 GCTCCAAGGAATATCATTT
66 GCTCAAAGGCACATCATTT
* * * * * * *
36375 ACAACATAGCTCAAGGCTAGAATGGTTATTTGCCAACAAAAGACCTTCGATTTCGACTACGCTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
*
36440 GCTCCAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * ** * * * *
36459 GTAACATAGCTCAAGGAAAGAAGGGCTATTTGCCAACAAAAGACC-T--A--T-G-GT-CA---A
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
*
36513 -CTCAAAGGCATATCATTT
66 GCTCAAAGGCACATCATTT
* ** * * *
36531 ACAGCATAGCTCAAGGAAAAAAGGGCTATCT---ACC-AAAGACCTTCGAGTTCGACTGCACTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
*
36592 GCTCCAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * *
36611 GCAGCATAACTCAAGGCTAGAAGGGTTATCTG---CC-AAAGACCTTCGAGTTTGATTCCACTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
36672 GCTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * *
36691 GCAGCATAGCTCTAGGCAAGAAGGGTTATATG---CC-AAAGACCTTAGAGTTCGATTACACTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
36752 GCTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * *
36771 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTG---CC-AAAGACCTTCGAGTTGGATTACACTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
** *
36832 GCTCGGAGGCACGTCATTT
66 GCTCAAAGGCACATCATTT
* * * * *
36851 GCAGAATAACTCAAGGCTAGAAGGGTTATCTACCA--AATAAGACCTTCGAGTTCGATTACAATC
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAA-AAGACCTTCGAGTTCGACTACACTC
** *
36914 AGCTCATTGGCACGTCATTT
65 AGCTCAAAGGCACATCATTT
* * ** * *
36934 GCAGTATAACTCAATACTAGAAGGGTTATCTG---CC-AAATACCTTCGAGTTCGATTACACTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
*
36995 GCTCAAAGGTACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * * * * * * * *
37014 ACAGCATAGCTCAAGGCGAGAAGGTTTATTTGTCAGCACAAGACATTCGAGTTCAATTACATTCA
1 GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
*
37079 GCTCAAAGGCATATCA
66 GCTCAAAGGCACATCA
37095 AATTTACAAC
Statistics
Matches: 827, Mismatches: 120, Indels: 50
0.83 0.12 0.05
Matches are distributed among these distances:
68 7 0.01
69 3 0.00
71 1 0.00
72 42 0.05
73 2 0.00
74 1 0.00
75 1 0.00
76 3 0.00
77 1 0.00
78 1 0.00
79 2 0.00
80 322 0.39
81 2 0.00
82 1 0.00
83 70 0.08
84 368 0.44
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (84 bp):
GCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCA
GCTCAAAGGCACATCATTT
Found at i:36650 original size:80 final size:80
Alignment explanation
Indices: 36513--37094 Score: 714
Period size: 80 Copynumber: 7.2 Consensus size: 80
36503 CTATGGTCAA
* * * * * *
36513 CTCAAAGGCATATCATTTACAGCATAGCTCAAGGAAAAAAGGGCTATCTACCAAAGACCTTCGAG
1 CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAG
* *
36578 TTCGACTGCACTCAG
66 TTCGATTACACTCAG
* * *
36593 CTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAAGACCTTCGAG
1 CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAG
* *
36658 TTTGATTCCACTCAG
66 TTCGATTACACTCAG
* * *
36673 CTCAAAGGCACATCATTTGCAGCATAGCTCTAGGCAAGAAGGGTTATATGCCAAAGACCTTAGAG
1 CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAG
36738 TTCGATTACACTCAG
66 TTCGATTACACTCAG
36753 CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAG
1 CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAG
*
36818 TTGGATTACACTCAG
66 TTCGATTACACTCAG
** * * * * *
36833 CTCGGAGGCACGTCATTTGCAGAATAACTCAAGGCTAGAAGGGTTATCTACCAAATAAGACCTTC
1 CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCC--A-AAGACCTTC
*
36898 GAGTTCGATTACAATCAG
63 GAGTTCGATTACACTCAG
** * * * ** * *
36916 CTCATTGGCACGTCATTTGCAGTATAACTCAATACTAGAAGGGTTATCTGCCAAATACCTTCGAG
1 CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAG
36981 TTCGATTACACTCAG
66 TTCGATTACACTCAG
* * * * * *
36996 CTCAAAGGTACATCATTTACAGCATAGCTCAAGGCGAGAAGGTTTATTTGTCAGCACAAGACATT
1 CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTG-C--CA-AAGACCTT
* *
37061 CGAGTTCAATTACATTCAG
62 CGAGTTCGATTACACTCAG
*
37080 CTCAAAGGCATATCA
1 CTCAAAGGCACATCA
37095 AATTTACAAC
Statistics
Matches: 435, Mismatches: 60, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
80 324 0.74
81 2 0.00
82 1 0.00
83 72 0.17
84 36 0.08
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (80 bp):
CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAG
TTCGATTACACTCAG
Found at i:37568 original size:39 final size:39
Alignment explanation
Indices: 37519--37812 Score: 274
Period size: 39 Copynumber: 7.7 Consensus size: 39
37509 ATACATATAT
* * ***
37519 ATATCTATATATTATATAGTTTGTAAATGGTTTTTGAAA
1 ATATATATATATTATATAGTTTTTAAAACATTTTTGAAA
* *
37558 ATACATATATAATATATAGTTTTTTAAAAACA--TTT-AAGA
1 ATATATATATATTATATAG-TTTTT-AAAACATTTTTGAA-A
* *
37597 A-A-ATATATATTATATAGTTTTTAAAGCATTTTGGAAA
1 ATATATATATATTATATAGTTTTTAAAACATTTTTGAAA
37634 AT-TATATA-A-TATATAGTTTTTTAAAACATTTTTG--A
1 ATATATATATATTATATAG-TTTTTAAAACATTTTTGAAA
* * *
37669 A-AT-CATATATTATATAGTTTTGAAAATATTTTT-AAA
1 ATATATATATATTATATAGTTTTTAAAACATTTTTGAAA
37705 ATATATATA-ATATATATAGTTTTTGAAAACATTTTTGAAA
1 ATATATATATAT-TATATAGTTTTT-AAAACATTTTTGAAA
* * *
37745 ACATTTATATATTATATAGTTTTTAAAACATTTTTTAAA
1 ATATATATATATTATATAGTTTTTAAAACATTTTTGAAA
* *
37784 ATTTATATATAATATATAGTTTTTTAAAA
1 ATATATATATATTATATAG-TTTTTAAAA
37813 AAACATTTTT
Statistics
Matches: 209, Mismatches: 25, Indels: 41
0.76 0.09 0.15
Matches are distributed among these distances:
34 3 0.01
35 23 0.11
36 21 0.10
37 38 0.18
38 24 0.11
39 60 0.29
40 35 0.17
41 5 0.02
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (39 bp):
ATATATATATATTATATAGTTTTTAAAACATTTTTGAAA
Found at i:37741 original size:12 final size:12
Alignment explanation
Indices: 37724--37750 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37714 ATATATATAG
37724 TTTTTGAAAACA
1 TTTTTGAAAACA
37736 TTTTTGAAAACA
1 TTTTTGAAAACA
37748 TTT
1 TTT
37751 ATATATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:37852 original size:37 final size:35
Alignment explanation
Indices: 37524--37849 Score: 271
Period size: 37 Copynumber: 8.7 Consensus size: 35
37514 TATATATATC
* ***
37524 TATATATTATATAGTTTGTAAATGGTTTTTGAAAAT
1 TATATATTATATAGTTTTTAAAACATTTTT-AAAAT
* * *
37560 ACATATATAATATATAGTTTTTTAAAAACA-TTTAAGAAAA
1 ---TATATATTATATAG-TTTTT-AAAACATTTTTA-AAAT
* *
37600 TATATATTATATAGTTTTTAAAGCATTTTGGAAAAT
1 TATATATTATATAGTTTTTAAAACATTTT-TAAAAT
* *
37636 TATATAATATATAGTTTTTTAAAACATTTTTGAAAT
1 TATATATTATATAG-TTTTTAAAACATTTTTAAAAT
* * *
37672 CATATATTATATAGTTTTGAAAATATTTTTAAAAT
1 TATATATTATATAGTTTTTAAAACATTTTTAAAAT
37707 ATATATAATATATATAGTTTTTGAAAACATTTTTGAAAACATT
1 -TATAT-AT-TATATAGTTTTT-AAAACATTTTT--AAA-A-T
37750 TATATATTATATAGTTTTTAAAACATTTTTTAAAATT
1 TATATATTATATAGTTTTTAAAACA-TTTTTAAAA-T
37787 TATATATAATATATAGTTTTTTAAAAAAACATTTTT-AAAT
1 TATATAT--TATATAG-TTTTT---AAAACATTTTTAAAAT
37827 T-TATATTATATAGTTTTTTAAAA
1 TATATATTATATAG-TTTTTAAAA
37850 AAATAATTTT
Statistics
Matches: 243, Mismatches: 23, Indels: 47
0.78 0.07 0.15
Matches are distributed among these distances:
34 4 0.02
35 23 0.09
36 44 0.18
37 53 0.22
38 14 0.06
39 42 0.17
40 34 0.14
41 11 0.05
42 11 0.05
43 7 0.03
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (35 bp):
TATATATTATATAGTTTTTAAAACATTTTTAAAAT
Found at i:37852 original size:39 final size:37
Alignment explanation
Indices: 37791--37869 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
37781 AAAATTTATA
37791 TATAATATATAGTTTTTTAAAAA-AACATTTTTAAATT
1 TATAATATATAGTTTTTTAAAAATAA-ATTTTTAAATT
* * *
37828 TATATTATATAGTTTTTTAAAAAAATAATTTTTTATATT
1 TATAATATATAGTTTTTT--AAAAATAAATTTTTAAATT
37867 TAT
1 TAT
37870 TTTTTATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 17 0.47
39 17 0.47
40 2 0.06
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (37 bp):
TATAATATATAGTTTTTTAAAAATAAATTTTTAAATT
Found at i:38388 original size:19 final size:20
Alignment explanation
Indices: 38350--38388 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
38340 AAAAAACAGT
*
38350 AAACCATCAACAACAGACAA
1 AAACCATCAACAAAAGACAA
*
38370 AAACCATC-ACAAAATACAA
1 AAACCATCAACAAAAGACAA
38389 GCCAAACAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.62, C:0.28, G:0.03, T:0.08
Consensus pattern (20 bp):
AAACCATCAACAAAAGACAA
Found at i:39387 original size:27 final size:25
Alignment explanation
Indices: 39356--39429 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 25
39346 TATTTTATTT
*
39356 TTTATTCTTTTTTCTTTCTTTCATTA
1 TTTA-TCTTTTTTATTTCTTTCATTA
* * *
39382 CTTTATCTTTTTTTTTTGTTTCTTTA
1 -TTTATCTTTTTTATTTCTTTCATTA
*
39408 TCTTAATCTTCTTTATTTCTTT
1 T-TT-ATCTTTTTTATTTCTTT
39430 ATTTTATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.03
26 20 0.51
27 18 0.46
ACGTcount: A:0.11, C:0.15, G:0.01, T:0.73
Consensus pattern (25 bp):
TTTATCTTTTTTATTTCTTTCATTA
Found at i:39390 original size:26 final size:27
Alignment explanation
Indices: 39356--39429 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
39346 TATTTTATTT
*
39356 TTTATTCTTTTTTCTTTCTTTCATTA-C
1 TTTA-TCTTTTTTATTTCTTTCATTATC
* * *
39383 TTTATCTTTTTTTTTTGTTTCTTTATC
1 TTTATCTTTTTTATTTCTTTCATTATC
* *
39410 TTAATCTTCTTTATTTCTTT
1 TTTATCTTTTTTATTTCTTT
39430 ATTTTATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 18 0.46
27 21 0.54
ACGTcount: A:0.11, C:0.15, G:0.01, T:0.73
Consensus pattern (27 bp):
TTTATCTTTTTTATTTCTTTCATTATC
Found at i:39448 original size:23 final size:23
Alignment explanation
Indices: 39400--39448 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
39390 TTTTTTTTTG
*
39400 TTTCTTTATCTTAATCTTCTTTA
1 TTTCTTTATCTTAATCTTCTTCA
* *
39423 TTTCTTTAT-TTTATTTTCCTTCA
1 TTTCTTTATCTTAATCTT-CTTCA
39446 TTT
1 TTT
39449 ATTTTCGCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTCTTTATCTTAATCTTCTTCA
Found at i:44547 original size:25 final size:26
Alignment explanation
Indices: 44507--44558 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
44497 CTGATTTTTT
*
44507 TAAAATATTTTCAAATTATAATCATA
1 TAAAATATTTTAAAATTATAATCATA
* *
44533 TAAAAT-TTTTAAAATTTTAATTATA
1 TAAAATATTTTAAAATTATAATCATA
44558 T
1 T
44559 TATTTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
TAAAATATTTTAAAATTATAATCATA
Found at i:45726 original size:13 final size:13
Alignment explanation
Indices: 45696--45739 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
45686 TCAAAGAGTT
*
45696 AAATTTTAAACTA
1 AAATTTTAAACAA
*
45709 CAATTTTAAACAA
1 AAATTTTAAACAA
* *
45722 AAATTTCAAAAAA
1 AAATTTTAAACAA
45735 AAATT
1 AAATT
45740 AGTACACTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATTTTAAACAA
Found at i:46391 original size:17 final size:17
Alignment explanation
Indices: 46357--46410 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
46347 ACCGGACAAA
* *
46357 TTTATTATTTTAGAGAG
1 TTTATTAATTTAAAGAG
**
46374 TTTATTAATTTACCGAG
1 TTTATTAATTTAAAGAG
46391 --TATTAATTTAAAGAG
1 TTTATTAATTTAAAGAG
46406 TTTAT
1 TTTAT
46411 ATTGTATATC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 13 0.43
17 17 0.57
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (17 bp):
TTTATTAATTTAAAGAG
Found at i:57728 original size:21 final size:19
Alignment explanation
Indices: 57700--57761 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
57690 TAGAGATGGA
57700 AAAT-TATAAATTTACATAAT
1 AAATATATAAATTTA-A-AAT
*
57720 AAATATATATATTTAAAAT
1 AAATATATAAATTTAAAAT
*
57739 AAA-ATCATAAATATAAAAT
1 AAATAT-ATAAATTTAAAAT
57758 AAAT
1 AAAT
57762 TTAAAATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 2 0.06
19 20 0.56
20 5 0.14
21 9 0.25
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATATAAATTTAAAAT
Found at i:59182 original size:16 final size:17
Alignment explanation
Indices: 59161--59192 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
59151 ATTGTAAAAT
59161 AAAAAAATAA-TAATAG
1 AAAAAAATAATTAATAG
59177 AAAAAAATAATTAATA
1 AAAAAAATAATTAATA
59193 TAATAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
AAAAAAATAATTAATAG
Found at i:59185 original size:13 final size:14
Alignment explanation
Indices: 59158--59213 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
59148 CAGATTGTAA
59158 AATAAAAAAATAAT
1 AATAAAAAAATAAT
*
59172 AATAGAAAAA-AAT
1 AATAAAAAAATAAT
* *
59185 AATTAATATAATAAT
1 AA-TAAAAAAATAAT
59200 AATAAAACAAATAA
1 AATAAAA-AAATAA
59214 AATGGATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
13 5 0.15
14 18 0.55
15 10 0.30
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (14 bp):
AATAAAAAAATAAT
Found at i:59247 original size:13 final size:14
Alignment explanation
Indices: 59229--59261 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
59219 ATAAATAGAG
59229 ATAAAAATA-AAAA
1 ATAAAAATATAAAA
59242 ATAAAAATATTAAAA
1 ATAAAAATA-TAAAA
59257 ATAAA
1 ATAAA
59262 TAAATAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAAAAATATAAAA
Found at i:59270 original size:8 final size:7
Alignment explanation
Indices: 59231--59269 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
59221 AAATAGAGAT
59231 AAAAATA
1 AAAAATA
59238 AAAAATA
1 AAAAATA
*
59245 AAAATATT
1 AAAA-ATA
59253 AAAAATA
1 AAAAATA
59260 AATAAATA
1 AA-AAATA
59268 AA
1 AA
59270 TGAAGAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 15 0.54
8 13 0.46
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
AAAAATA
Found at i:61090 original size:84 final size:83
Alignment explanation
Indices: 60981--62702 Score: 1927
Period size: 84 Copynumber: 20.9 Consensus size: 83
60971 GTAGTTCCTC
* * *
60981 GAGCTGAATGAAATCGAACTCGAAGGTCTTTTGTTGGAAGATAACCCTTCTCGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGAAGATAACCCTTCTTGCCTTGAGCTATG
61046 CTGCAAATGATGTGCCTTT
65 CTGCAAATGATGTGCCTTT
* ** *
61065 GAGATGAGTGTAATCGAACTCGAAGGTC--T-TTGGAAGATAGTCATTCTTGCCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGAAGATAACCCTTCTTGCCTTGAGCTATGC
*
61127 TGCAAAAGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
* * * * * *
61145 GAGCTGAGTATAATCGAACTCGAAGGTCTTTGGTAGGTAG-T---CTTTATTGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGGAAGATAACCCTTCTTGCCTTGAGCTATG
* *
61206 CTGCAAAGGATGTGACTTT
65 CTGCAAATGATGTGCCTTT
* * *
61225 GAGCTGAGTGTAATCGAACTCGAAGGTC--T-TTGGCAGATAGCCCTTCTTGCCTTGAGCCATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGAAGATAACCCTTCTTGCCTTGAGCTATGC
* *
61287 TGTAAATGAAGTGCCTTT
66 TGCAAATGATGTGCCTTT
* * * * * *
61305 GGGCTGAGTGTAATCAAACTCGAAGG--TTT-TTGGCAGATAGCCCTTCTTGCCTTGAACTATGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGAAGATAACCCTTCTTGCCTTGAGCTATGC
* *
61367 TACAAATGATATGCCTTT
66 TGCAAATGATGTGCCTTT
* * * * *
61385 GAGCTAAGTGTAATCGAACTCGAAGGTC--T-TTGGCAGGTAATCATTCTTGCCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGAAGATAACCCTTCTTGCCTTGAGCTATGC
61447 TGCAAATGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
* * * *
61465 GAGCTGAGTGTAATCGAACTCGAAGGTTTTTGGTTTGCAA-ATATCCCTTCTTGTCTTGAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTT-G-TTGGAAGATAACCCTTCTTGCCTTGAGCTAT
*
61529 GCTGCAAATGATATGCCTTT
64 GCTGCAAATGATGTGCCTTT
* ** *
61549 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTGTT-GACAGATAACCCTTCTAACCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGA-AGATAACCCTTCTTGCCTTGAGCTATG
*
61613 CTGTAAATGATGTGCCTTT
65 CTGCAAATGATGTGCCTTT
* *
61632 GAGCTGAGTGTAATCGAACTCGAAGGTC--T-TTGGCAGATAGCCCTTCTTGCCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGAAGATAACCCTTCTTGCCTTGAGCTATGC
* *
61694 TGCAAATGATATGCCTTC
66 TGCAAATGATGTGCCTTT
* * * * * *
61712 GAGCTGAGTGTAATCGACCTCGAAGGTCTTTTGTTGGCATATAGCTCTTCTCGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGAAGATAACCCTTCTTGCCTTGAGCTATG
* *
61777 CTACAAATAATGTGCCTTT
65 CTGCAAATGATGTGCCTTT
* * *
61796 GAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTTGGGAGATAGA-CCTTCTCGCCTTGAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGAAGATA-ACCCTTCTTGCCTTGAGCTAT
*
61860 ACTGCAAATGATGTGCCTTT
64 GCTGCAAATGATGTGCCTTT
* * * * * * *
61880 GAGCTGAGTGTAATCAAACTCTAAAGTATTTATT-GACAGATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGA-AGATAACCCTTCTTGCCTTGAGCTATG
*
61944 CTGTAAATGATGTGCCTTT
65 CTGCAAATGATGTGCCTTT
* * * *
61963 AAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGTAGATAACCCTTTTTACCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGAAGATAACCCTTCTTGCCTTGAGCTATGC
* *
62028 TACAAATGATGTGCCTAT
66 TGCAAATGATGTGCCTTT
* *
62046 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTT-GACAGATAACTCTT-TTAGCCTTGAGTTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGA-AGATAACCCTTCTT-GCCTTGAGCTAT
* * *
62109 ACTGTAAATGATGTGCTTTT
64 GCTGCAAATGATGTGCCTTT
* * * * *
62129 GAGCTGAGTGTAATTGAACTCGAAGGTCTTTGTTGGCAGATAGCCCTTCTTGCCTTTAGATATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGAAGATAACCCTTCTTGCCTTGAGCTATGC
*
62194 TACAAATGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
* * ** *
62212 GAGTTGAGTATAATCGAACTCGAAGGTCTTTTGGCGGCAA-ATAACCCTTCTTGCCTTGATCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGG-AAGATAACCCTTCTTGCCTTGAGCTAT
* *
62276 GCTACAAATGTTGTGCCTTT
64 GCTGCAAATGATGTGCCTTT
* * * *
62296 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTCTTACCTTGAGTTGTG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGAAGATAACCCTTCTTGCCTTGAGCTATG
* *
62361 CTGCAAATGTTGTGCATTT
65 CTGCAAATGATGTGCCTTT
* * *
62380 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTT-GACATATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGA-AGATAACCCTTCTTGCCTTGAGCTATG
* *
62444 TTGTAAATGATGTGCCTTT
65 CTGCAAATGATGTGCCTTT
* ** * * *
62463 GAGCTGAGTGTAATCGAACTAGAAGGTCTTTTGGCGGCAGATAACCCTTCTTACCTTAAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGAAGATAACCCTTCTTGCCTTGAGCTATG
62528 CTGCAAATGATGTGCCTTT
65 CTGCAAATGATGTGCCTTT
* * ** * * * * * *
62547 GAGCTGAGTGTAATCAAACTCAAACATCTTGGTT-AACAAATAACCATTCTCGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGA-AGATAACCCTTCTTGCCTTGAGCTATG
*
62611 CTGTAAATGATGTGCCTTT
65 CTGCAAATGATGTGCCTTT
* * * * * *
62630 GATCTGAGTGTATTCGAACTCGAAGGTCTTTTGTT-GACAGATAGCCCTTCTCGCCTTCATCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGA-AGATAACCCTTCTTGCCTTGAGCTAT
*
62694 GCTGTAAAT
64 GCTGCAAAT
62703 AGAAAAAAAT
Statistics
Matches: 1386, Mismatches: 212, Indels: 80
0.83 0.13 0.05
Matches are distributed among these distances:
76 5 0.00
77 1 0.00
78 1 0.00
80 394 0.28
81 4 0.00
82 11 0.01
83 476 0.34
84 488 0.35
85 6 0.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (83 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGAAGATAACCCTTCTTGCCTTGAGCTATGC
TGCAAATGATGTGCCTTT
Found at i:61652 original size:83 final size:83
Alignment explanation
Indices: 60981--62702 Score: 2003
Period size: 83 Copynumber: 20.9 Consensus size: 83
60971 GTAGTTCCTC
* * *
60981 GAGCTGAATGAAATCGAACTCGAAGGTCTTTTGTTGGA-AGATAACCCTTCTCGCCTTGAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTT-GACAGATAACCCTTCTTGCCTTGAGCTAT
61045 GCTGCAAATGATGTGCCTTT
64 GCTGCAAATGATGTGCCTTT
* ** *
61065 GAGATGAGTGTAATCGAACTCGAAGGTCTTTG--GA-AGATAGTCATTCTTGCCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
*
61127 TGCAAAAGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
* * * ** * * *
61145 GAGCTGAGTATAATCGAACTCGAAGGTCTTTG--G-TAGGTAGTCTTTATTGCCTTGAGTTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
* *
61207 TGCAAAGGATGTGACTTT
66 TGCAAATGATGTGCCTTT
* *
61225 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAGCCCTTCTTGCCTTGAGCCATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
* *
61287 TGTAAATGAAGTGCCTTT
66 TGCAAATGATGTGCCTTT
* * * * * *
61305 GGGCTGAGTGTAATCAAACTCGAAGG--TTT-TTGGCAGATAGCCCTTCTTGCCTTGAACTATGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
* *
61367 TACAAATGATATGCCTTT
66 TGCAAATGATGTGCCTTT
* * * *
61385 GAGCTAAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGGTAATCATTCTTGCCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
61447 TGCAAATGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
* * * *
61465 GAGCTGAGTGTAATCGAACTCGAAGGTTTTTGGTTTG-CAAATATCCCTTCTTGTCTTGAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTT-G-TTGACAGATAACCCTTCTTGCCTTGAGCTAT
*
61529 GCTGCAAATGATATGCCTTT
64 GCTGCAAATGATGTGCCTTT
* ** *
61549 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAACCTTGAGTTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
*
61614 TGTAAATGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
*
61632 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAGCCCTTCTTGCCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
* *
61694 TGCAAATGATATGCCTTC
66 TGCAAATGATGTGCCTTT
* * * * * *
61712 GAGCTGAGTGTAATCGACCTCGAAGGTCTTTTGTTGGCATATAGCTCTTCTCGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATG
* *
61777 CTACAAATAATGTGCCTTT
65 CTGCAAATGATGTGCCTTT
* ** *
61796 GAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTTGGGAGATAGA-CCTTCTCGCCTTGAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATA-ACCCTTCTTGCCTTGAGCTAT
*
61860 ACTGCAAATGATGTGCCTTT
64 GCTGCAAATGATGTGCCTTT
* * * * * * *
61880 GAGCTGAGTGTAATCAAACTCTAAAGTATTTATTGACAGATAACCCTTCTAGCCTTGAGTTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
*
61945 TGTAAATGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
* ** * *
61963 AAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGTAGATAACCCTTTTTACCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
* *
62028 TACAAATGATGTGCCTAT
66 TGCAAATGATGTGCCTTT
* * *
62046 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACTCTT-TTAGCCTTGAGTTATA
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTT-GCCTTGAGCTATG
* *
62110 CTGTAAATGATGTGCTTTT
65 CTGCAAATGATGTGCCTTT
* * * * *
62129 GAGCTGAGTGTAATTGAACTCGAAGGTCTTTGTTGGCAGATAGCCCTTCTTGCCTTTAGATATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
*
62194 TACAAATGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
* * ** * * *
62212 GAGTTGAGTATAATCGAACTCGAAGGTCTTTTGGCGGCAAATAACCCTTCTTGCCTTGATCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATG
* *
62277 CTACAAATGTTGTGCCTTT
65 CTGCAAATGATGTGCCTTT
** * * *
62296 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTCTTACCTTGAGTTGTG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATG
* *
62361 CTGCAAATGTTGTGCATTT
65 CTGCAAATGATGTGCCTTT
* * * *
62380 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACATATAACCCTTCTAGCCTTGAGTTATGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
*
62445 TGTAAATGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
* ** * * *
62463 GAGCTGAGTGTAATCGAACTAGAAGGTCTTTTGGCGGCAGATAACCCTTCTTACCTTAAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATG
62528 CTGCAAATGATGTGCCTTT
65 CTGCAAATGATGTGCCTTT
* * ** * * * * * *
62547 GAGCTGAGTGTAATCAAACTCAAACATCTTGGTTAACAAATAACCATTCTCGCCTTGAGTTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
*
62612 TGTAAATGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
* * * * * *
62630 GATCTGAGTGTATTCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTCATCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATG
*
62695 CTGTAAAT
65 CTGCAAAT
62703 AGAAAAAAAT
Statistics
Matches: 1400, Mismatches: 215, Indels: 46
0.84 0.13 0.03
Matches are distributed among these distances:
78 3 0.00
79 1 0.00
80 404 0.29
81 7 0.00
82 9 0.01
83 491 0.35
84 485 0.35
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (83 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
TGCAAATGATGTGCCTTT
Found at i:61657 original size:167 final size:165
Alignment explanation
Indices: 60981--62702 Score: 2011
Period size: 167 Copynumber: 10.4 Consensus size: 165
60971 GTAGTTCCTC
* * * *
60981 GAGCTGAATGAAATCGAACTCGAAGGTCTTTTGTTGGAAGATAACCCTTCTCGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGT-TTTTG-TGGCAGATAACCCTTCTTGCCTTGAGCTATG
* ** *
61046 CTGCAAATGATGTGCCTTTGAGATGAGTGTAATCGAACTCGAAGGTCTTTG--GA-AGATAGTCA
64 CTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCC
* * * *
61108 TTCTTGCCTTGAGCTATGCTGCAAAAGATGTGCCTTT
129 TTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTT
* * * * ** * * *
61145 GAGCTGAGTATAATCGAACTCGAAGG-TCTT-TGGTAGGTAGTCTTTATTGCCTTGAGTTATGCT
1 GAGCTGAGTGTAATCGAACTCGAAGGTTTTTGTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
* * *
61208 GCAAAGGATGTGACTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAGCCCTT
66 GCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTT
* ** *
61270 CTTGCCTTGAGCCATGCTGTAAATGAAGTGCCTTT
131 CTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTT
* * * * *
61305 GGGCTGAGTGTAATCAAACTCGAAGG-TTTT-TGGCAGATAGCCCTTCTTGCCTTGAACTATGTT
1 GAGCTGAGTGTAATCGAACTCGAAGGTTTTTGTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
* * * * * *
61368 ACAAATGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGGTAATCATT
66 GCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTT
* * *
61430 CTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTT
131 CTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTT
* * * *
61465 GAGCTGAGTGTAATCGAACTCGAAGGTTTTTGGTTTGCAAATATCCCTTCTTGTCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTTTTT-G-TGGCAGATAACCCTTCTTGCCTTGAGCTATG
* *
61530 CTGCAAATGATATGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACCC
64 CTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCC
*
61595 TTCTAACCTTGAGTTATGCTGTAAATGATGTGCCTTT
129 TTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTT
* *
61632 GAGCTGAGTGTAATCGAACTCGAAGG-TCTT-TGGCAGATAGCCCTTCTTGCCTTGAGCTATGCT
1 GAGCTGAGTGTAATCGAACTCGAAGGTTTTTGTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
* * * * * * *
61695 GCAAATGATATGCCTTCGAGCTGAGTGTAATCGACCTCGAAGGTCTTTTGTTGGCATATAGCTCT
66 GCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCT
* * ** *
61760 TCTCGCCTTGAGCTATGCTACAAATAATGTGCCTTT
130 TCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTT
* * *
61796 GAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTTGGGAGATAGA-CCTTCTCGCCTTGAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGT-TTTTG-TGGCAGATA-ACCCTTCTTGCCTTGAGCTAT
* * * * * *
61860 ACTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCTAAAGTATTTATTGACAGATAACC
63 GCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACC
61925 CTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTT
128 CTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTT
* * * * *
61963 AAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGTAGATAACCCTTTTTACCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTTTTTG-TGGCAGATAACCCTTCTTGCCTTGAGCTATGC
* * *
62028 TACAAATGATGTGCCTATGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACTCT
65 TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCT
* * *
62093 TTTAGCCTTGAGTTATACTGTAAATGATGTGCTTTT
130 TCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTT
* * * * *
62129 GAGCTGAGTGTAATTGAACTCGAAGGTCTTTGTTGGCAGATAGCCCTTCTTGCCTTTAGATATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTTTTTG-TGGCAGATAACCCTTCTTGCCTTGAGCTATGC
* * * ** * *
62194 TACAAATGATGTGCCTTTGAGTTGAGTATAATCGAACTCGAAGGTCTTTTGGCGGCAAATAACCC
65 TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCC
* ** *
62259 TTCTTGCCTTGA-TCTATGCTACAAATGTTGTGCCTTT
129 TTCTAGCCTTGAGT-TATGCTGTAAATGATGTGCCTTT
* * * *
62296 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTCTTACCTTGAGTTGTG
1 GAGCTGAGTGTAATCGAACTCGAAGGT-TTTTG-TGGCAGATAACCCTTCTTGCCTTGAGCTATG
* * *
62361 CTGCAAATGTTGTGCATTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACATATAACCC
64 CTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCC
*
62426 TTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTT
129 TTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTT
* * * *
62463 GAGCTGAGTGTAATCGAACTAGAAGGTCTTTTGGCGGCAGATAACCCTTCTTACCTTAAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGT-TTTT-GTGGCAGATAACCCTTCTTGCCTTGAGCTATG
* * ** * * * *
62528 CTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCAAACATCTTGGTTAACAAATAACCA
64 CTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCC
*
62593 TTCTCGCCTTGAGTTATGCTGTAAATGATGTGCCTTT
129 TTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTT
* * * * * * *
62630 GATCTGAGTGTATTCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTCATCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGT-TTTTG-TGGCAGATAACCCTTCTTGCCTTGAGCTATG
*
62695 CTGTAAAT
64 CTGCAAAT
62703 AGAAAAAAAT
Statistics
Matches: 1340, Mismatches: 197, Indels: 39
0.85 0.12 0.02
Matches are distributed among these distances:
160 272 0.20
161 4 0.00
162 3 0.00
163 71 0.05
164 166 0.12
165 1 0.00
166 229 0.17
167 454 0.34
168 140 0.10
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (165 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTTTTTGTGGCAGATAACCCTTCTTGCCTTGAGCTATGCT
GCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTT
CTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTT
Found at i:69341 original size:21 final size:21
Alignment explanation
Indices: 69315--69354 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
69305 CCCCCTTTGA
*
69315 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
69336 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
69355 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:72136 original size:21 final size:21
Alignment explanation
Indices: 72110--72166 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
72100 TTTTACACTT
72110 AGGGAACCGATTCCCTATGAG
1 AGGGAACCGATTCCCTATGAG
72131 AGGGAACCGATTCCCTATGAG
1 AGGGAACCGATTCCCTATGAG
72152 AGGGAACCGATTCCC
1 AGGGAACCGATTCCC
72167 CCCACGCTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (21 bp):
AGGGAACCGATTCCCTATGAG
Found at i:73696 original size:95 final size:95
Alignment explanation
Indices: 73480--73740 Score: 310
Period size: 95 Copynumber: 2.7 Consensus size: 95
73470 GGCTAGCTAG
* * * *
73480 ATCCATAAAGCCTG-GGCGTTTAACCAATTGCTCTAGAGGGACAGCTCAATATCTTTGTATATAA
1 ATCCATAAAGCC-GAGGCATTTAACCAATTGCTCTAGAGGGACAGCTC-A-AGCTTTAT-TATAT
* *
73544 ATTATAATCACCTATATCAGGCTAGTTGAATATT
62 ATTATAATCACATATATCAGGCTAGCTGAATATT
* *
73578 ATCCATAAAACC-AGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTATATATT
1 ATCCATAAAGCCGA-GGCATTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTATATATT
* * * *
73642 ATAATCTCATTTATCGGGCTAGCTGAATCTT
65 ATAATCACATATATCAGGCTAGCTGAATATT
* * * *
73673 ATCCATAAAGCCGAGGCACTTAACCAATTGCTCTAGAGGGATAGTTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCCGAGGCATTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTATATAT-T
73738 ATA
65 ATA
73741 TAATATTATA
Statistics
Matches: 141, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
95 87 0.62
96 11 0.08
97 1 0.01
98 42 0.30
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (95 bp):
ATCCATAAAGCCGAGGCATTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTATATATTA
TAATCACATATATCAGGCTAGCTGAATATT
Found at i:79259 original size:3 final size:3
Alignment explanation
Indices: 79253--79282 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
79243 AATTATTATT
79253 TAA TAA TAA TAAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA
79283 TCGGGATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:81904 original size:51 final size:53
Alignment explanation
Indices: 81807--81911 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 53
81797 TTATTCGTCC
*
81807 TCAATCTATGACGTTCATTTTAAATTAGTCCCTAAAATTTTAAACATTTCAATT
1 TCAATCTATGACGTTCATTCTAAATTAGTCCCTAAAATTTTAAACATTT-AATT
* * *
81861 TCAA-CTATGAC-TT-ATTCTAAATTAGT-CTTCAAACTTTTGAACATTTAATT
1 TCAATCTATGACGTTCATTCTAAATTAGTCCCT-AAAATTTTAAACATTTAATT
81911 T
1 T
81912 TCATCCCCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
50 7 0.15
51 26 0.57
52 2 0.04
53 7 0.15
54 4 0.09
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (53 bp):
TCAATCTATGACGTTCATTCTAAATTAGTCCCTAAAATTTTAAACATTTAATT
Found at i:82258 original size:60 final size:59
Alignment explanation
Indices: 82109--82298 Score: 161
Period size: 60 Copynumber: 3.2 Consensus size: 59
82099 ATTTGGATGG
* * * * * * *
82109 ATTTAGGGATGAAATTGGAATATCTAAAAGTTTAGGGACCTATTTAGAATGAGATTCATA
1 ATTTGGGGATGAAATAGAAATGT-TAAAAGTTTAAGGACCAATTTAGAATGAGAGTCATA
* * * *
82169 GTTTGGGGATGAAATAGGAATGTTCAAAAGGTTAAGGACCAATTTAGAATGAGAGTCGTA
1 ATTTGGGGATGAAATAGAAATGTT-AAAAGTTTAAGGACCAATTTAGAATGAGAGTCATA
** * *
82229 ATTTGAGGG-TGAAATTA-AAATAGTTAAAAGTTTAAGGAATAATTT-GAAATGTGGGTCATA
1 ATTTG-GGGATGAAA-TAGAAAT-GTTAAAAGTTTAAGGACCAATTTAG-AATGAGAGTCATA
*
82289 GTTTGGGGAT
1 ATTTGGGGAT
82299 AAACTGATGC
Statistics
Matches: 106, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
59 5 0.05
60 93 0.88
61 8 0.08
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (59 bp):
ATTTGGGGATGAAATAGAAATGTTAAAAGTTTAAGGACCAATTTAGAATGAGAGTCATA
Found at i:84148 original size:21 final size:21
Alignment explanation
Indices: 84122--84174 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
84112 TTATAAAATT
84122 TATATTAAATTATTC-TAAAAA
1 TATATTAAATTA-TCATAAAAA
* *
84143 TATATTTATACTATCATAAAAA
1 TATA-TTAAATTATCATAAAAA
*
84165 TATTTTAAAT
1 TATATTAAAT
84175 ATTTATTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (21 bp):
TATATTAAATTATCATAAAAA
Found at i:84257 original size:34 final size:34
Alignment explanation
Indices: 84219--84292 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
84209 TTTAAAACAA
*
84219 TATTAATTATTTATTTGATAATGATATAAGTAAG
1 TATTAATTATTTATTTAATAATGATATAAGTAAG
*
84253 TATTATTTATTTATTTAATAATGATATAAGTAAG
1 TATTAATTATTTATTTAATAATGATATAAGTAAG
84287 TATTAA
1 TATTAA
84293 GTGCATTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (34 bp):
TATTAATTATTTATTTAATAATGATATAAGTAAG
Found at i:84788 original size:23 final size:23
Alignment explanation
Indices: 84762--84813 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
84752 AATAACATAT
**
84762 TAGGTAGCACTTATATAATGTAA
1 TAGGTAGCACTTATATAATAAAA
*
84785 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCACTTATATAATAAAA
84808 TAGGTA
1 TAGGTA
84814 TTTAACCGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (23 bp):
TAGGTAGCACTTATATAATAAAA
Found at i:85552 original size:201 final size:197
Alignment explanation
Indices: 84894--85608 Score: 804
Period size: 199 Copynumber: 3.6 Consensus size: 197
84884 ATATTGACCT
* *
84894 ATTTTTATAAGT-AAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATAA
1 ATTTTTATAA-TAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAA
* *
84958 TTATCGGTTTCGATGTTTTTTGGATCGATACAATTTT--AAATGTATCGACAGTTTATGCGTGCA
65 TTATCGGTTTCGATGTTTTTGGGATCGATAC--TTTTAAAAATGTATCGACACTTTATGCGTGCA
* * * * * *
85021 CCTAG-TTGGACATTCATTCTGGAAACAAGTATCGACACAAACTTAA-AGAATGTCGATGCATTA
128 CCTCGTTTGGGCATTCATTATGGAAA-AAGTATCGACACAAAATTAACA-AGTGTCGATACATTA
85084 T-TTAGACC
191 TGTT-GA-C
* * * * * * * *
85092 TATTTTTTTTATAAAATCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATCACATTGTAA
1 -ATTTTTATAATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAA
* * * * *
85157 TTATCGGTTTCAATATTTTTGGGATCGATACTTTTAATAAACGAATCGACACTTTATACGTGCAC
65 TTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAA-AAATGTATCGACACTTTATGCGTGCAC
* * * *
85222 C-CGTTT-GGCATTCATTATGGACAAAATGTATCGACACAAATTTAATATGTGTCGATACTTTAT
129 CTCGTTTGGGCATTCATTATGGA-AAAA-GTATCGACACAAAATTAACAAGTGTCGATACATTAT
*
85285 GATGAC
192 GTTGAC
* * * *
85291 CTATTTTATCATAAAACCGGTATATTTATACCAGTTACATTGTAAATTTACATATTACATTATAA
1 AT-TTTTATAATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAA
* *
85356 TTATCGGTTTCGAT-TTTATTGGGATCGATACTTTTAATAATTGTATCGACATTTTATGCGTGCA
65 TTATCGGTTTCGATGTTT-TTGGGATCGATACTTTTAA-AAATGTATCGACACTTTATGCGTGCA
* *
85420 CCTCGTTTGGGCAATCATTTTGGATAATAAGTATCGACACAAAATTACACAAGTGTCGATACATT
128 CCTCGTTTGGGCATTCATTATGGA-AA-AAGTATCGACACAAAATTA-ACAAGTGTCGATACATT
85485 ATGTTGAC
190 ATGTTGAC
* * * *
85493 ATGTTTTCTAAT-TAACCGATATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAA
1 AT-TTTTATAATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAA
*
85557 TTATTGGTTTCGATGTTTTTTGGG-TCGATACTTTTAGAAAATGTATCGACAC
65 TTATCGGTTTCGATG-TTTTTGGGATCGATACTTTTA-AAAATGTATCGACAC
85609 ATATTTAGGT
Statistics
Matches: 435, Mismatches: 63, Indels: 34
0.82 0.12 0.06
Matches are distributed among these distances:
197 4 0.01
198 5 0.01
199 205 0.47
200 64 0.15
201 117 0.27
202 37 0.09
203 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (197 bp):
ATTTTTATAATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAAT
TATCGGTTTCGATGTTTTTGGGATCGATACTTTTAAAAATGTATCGACACTTTATGCGTGCACCT
CGTTTGGGCATTCATTATGGAAAAAGTATCGACACAAAATTAACAAGTGTCGATACATTATGTTG
AC
Found at i:90104 original size:200 final size:199
Alignment explanation
Indices: 89727--91097 Score: 1614
Period size: 200 Copynumber: 6.8 Consensus size: 199
89717 TGTTATTTAT
* * ** * * *
89727 AAGTATCGAAACAAATTTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAAATCGGT
1 AAGTATCGACACAAATTCAAAA-GTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGT
** * *
89792 ATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATCAGTTTCAATATTTTTG
65 ATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* * * * *
89857 GGATCGATACGTTTTATAAATGTATCGACACTTTATTCATTCACCCTTTTGGGCATTCATTCTGG
130 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTGG
89922 ACAAA
195 ACAAA
* * * *
89927 AAGTATGGACACAACATTCAAAAGTGTCAACACATTATGTAGACCTATTCTCACATAAAACCGAT
1 AAGTATCGACACAA-ATTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGT
* * * * *
89992 ATATTTATACCAGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGATGTTTTAG
65 ATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* * * *
90057 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTTGG-ATTTTCCTTG
130 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCC-TTTTGGGCA--TTCATTC
*
90121 TGGACCAA
192 TGGACAAA
* * * * ** * *
90129 AAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTATATCTATTTTCTTAAAAAACCAGT
1 AAGTATCGACACAAATT-CAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGT
* * * ** *
90194 TTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTAGTTTCGATATTTTTG
65 ATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* * * *
90259 GGATCGATACTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTGGGCATTCATTCTGG
130 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTGG
90324 ACAAA
195 ACAAA
* * * * * *
90329 CAGTATCGACACAAAAGTCAAACGTGTCGACACATTATGTAGACCTATTCTCACATAAAATCAGT
1 AAGTATCGACAC-AAATTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGT
* * * * *
90394 ATATTTATACCGGTTATATTATAAAATTACCTATTACATTATATTTATGGGTTTCGATGTTTTAG
65 ATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* * * *
90459 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGAGTGCACCCTTTTTGG-ATTTTCCTTGT
130 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCA--TTCATTCT
*
90523 GGACCAA
193 GGACAAA
* * * * * * * *
90530 AAGTATCGACACAAATTCCACAAGTGTCGATACATTTTGTATATCTATTTTCTCAAAAAATCGGT
1 AAGTATCGACACAAATT-CAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGT
* * * *
90595 TTATTTATACCAGTTACATTGTATATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
65 ATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* * * * * *
90660 GGATTGATATTTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTTGGGCATTCATTCT
130 GGATCGATA-CTTTTTAAAAATGTATCGACACTTTATGCGTGCACC-CTTTTGGGCATTCATTCT
90725 GGACAAA
193 GGACAAA
* * *
90732 CAGTATCGACACAACATTAAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAA-CGGT
1 AAGTATCGACACAA-ATTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGT
* * * ** *
90796 ATATTTATACCGGTTATATTACAAAAATACTTATTACATTATAATTATGGGTTTCGATGTTTTTG
65 ATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* * * * *
90861 GGATCGATACTTTTTAAACATGTATCGACACTTTATGGGTGCTCCTTTTTGGGCATTCCTTCTGG
130 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTGG
90926 ACAAA
195 ACAAA
* * * *
90931 TAGTATCGACACAAATTCTAGAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAACCGGT
1 AAGTATCGACACAAATTC-AAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGT
* * * * ** *
90996 TTAGTTATACCAGTTACATTGTAAATTTACCTATTACATTATATTTATGAATTTCGATGTTTCTG
65 ATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
* *
91061 GGATCGATATTTTTTAAAATTGTATCGACACTTTATG
130 GGATCGATACTTTTTAAAAATGTATCGACACTTTATG
91098 GGAAACTTTA
Statistics
Matches: 980, Mismatches: 175, Indels: 32
0.83 0.15 0.03
Matches are distributed among these distances:
198 3 0.00
199 75 0.08
200 429 0.44
201 217 0.22
202 246 0.25
203 9 0.01
204 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (199 bp):
AAGTATCGACACAAATTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTA
TATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGG
GATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTGGA
CAAA
Found at i:90471 original size:402 final size:401
Alignment explanation
Indices: 89727--91097 Score: 2049
Period size: 402 Copynumber: 3.4 Consensus size: 401
89717 TGTTATTTAT
* * * * ** * *
89727 AAGTATCGAAACAAATT-TAAAACGTGTCGATACATTATGT-TCACCTATTTTAACATAAAATCG
1 AAGTATCGACACAAATTCCACAA-GTGTCGATACATTATGTAT-ATCTATTTTCTCAAAAAACCG
* * *
89790 GTATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATCAGTTTCAATATTTT
64 GTTTATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATATTTT
* * * * *
89855 TGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCATTCACCCTTTTGGGCATTCATTCT
129 TGGGATCGATACTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTGGGCATTCATTCT
* * *
89920 GGACAAAAAGTATGGACACAACATTCAAAAGTGTCAACACATTATGTAGACCTATTCTCACATAA
194 GGACAAACAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAA
* *
89985 AACCGATATATTTATACCAGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGAT
259 AACAG-TATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGAT
90050 GTTTTAGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTTGGATTT
323 GTTTTAGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTTGGATTT
90115 TCCTTGTGGACCAA
388 TCCTTGTGGACCAA
* *
90129 AAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTATATCTATTTTCTTAAAAAACCAGT
1 AAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTATATCTATTTTCTCAAAAAACCGGT
* *
90194 TTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTAGTTTCGATATTTTTG
66 TTATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATATTTTTG
90259 GGATCGATACTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTGGGCATTCATTCTGG
131 GGATCGATACTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTGGGCATTCATTCTGG
* * *
90324 ACAAACAGTATCGACACAAAAGTCAAACGTGTCGACACATTATGTAGACCTATTCTCACATAAAA
196 ACAAACAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAA
*
90389 TCAGTATATTTATACCGGTTATATTATAAAATTACCTATTACATTATATTTATGGGTTTCGATGT
261 -CAGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGATGT
*
90454 TTTAGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGAGTGCACCC-TTTTTGGATTTTC
325 TTTAGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTTGGATTTTC
90518 CTTGTGGACCAA
390 CTTGTGGACCAA
* *
90530 AAGTATCGACACAAATTCCACAAGTGTCGATACATTTTGTATATCTATTTTCTCAAAAAATCGGT
1 AAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTATATCTATTTTCTCAAAAAACCGGT
* * *
90595 TTATTTATACCAGTTACATTGTATATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
66 TTATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATATTTTTG
* *
90660 GGATTGATATTTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTTGGGCATTCATTCT
131 GGATCGATA-CTTTTTATAAATGTATCGACACTCTATGCGTTCACCA-TTTTGGGCATTCATTCT
*
90725 GGACAAACAGTATCGACACAACATTAAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAA
194 GGACAAACAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAA
* * * *
90790 AACGGTATATTTATACCGGTTATATTACAAAAATACTTATTACATTATAATTATGGGTTTCGATG
259 AACAGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGATG
* * * *
90855 TTTTTGGGATCGATACTTTTTAAACATGTATCGACACTTTATGGGTGC-TCCTTTTTGGGCA--T
324 TTTTAGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTTGG-ATTT
*
90917 TCCTTCTGGA-CAA
388 TCCTTGTGGACCAA
* * * * *
90930 ATAGTATCGACACAAATTCTAGAAGTGTCGATACATTATGTAGA-CATATTCTCTCATAAAACCG
1 A-AGTATCGACACAAATTCCACAAGTGTCGATACATTATGTATATC-TATTTTCTCAAAAAACCG
* * * * * *
90994 GTTTAGTTATACCAGTTACATTGTAAATTTACCTATTACATTATATTTATGAATTTCGATGTTTC
64 GTTTATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATATTTT
* *
91059 TGGGATCGATATTTTTTA-AAATTGTATCGACACTTTATG
129 TGGGATCGATACTTTTTATAAA-TGTATCGACACTCTATG
91098 GGAAACTTTA
Statistics
Matches: 887, Mismatches: 72, Indels: 22
0.90 0.07 0.02
Matches are distributed among these distances:
399 3 0.00
400 28 0.03
401 287 0.32
402 482 0.54
403 87 0.10
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (401 bp):
AAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTATATCTATTTTCTCAAAAAACCGGT
TTATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATATTTTTG
GGATCGATACTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTGGGCATTCATTCTGG
ACAAACAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAA
CAGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGATGTT
TTAGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTTGGATTTTCC
TTGTGGACCAA
Found at i:90872 original size:602 final size:599
Alignment explanation
Indices: 89728--91097 Score: 1696
Period size: 602 Copynumber: 2.3 Consensus size: 599
89718 GTTATTTATA
* * * ** * *
89728 AGTATCGAAACAAATTTAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAAATCGGTA
1 AGTATCGACACAAAATTCAAACGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCGGTA
* * * *
89793 TATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATCAGTTTCAATATTTTTGG
66 TATTTATACCAGTTACATTATAAATTTACCTATTACATTATATTTATGAGTTTCGAT-GTTTTGG
* * * *
89858 GATCGATACGTTTTATAAATGTATCGACACTTTATTCATTCACCCTTTTGGGCATTCATTCTGGA
130 GATCGATACTTTTTAAAAATGTATCGACACTTTA-TGATGCACCCTTTTGGGCATTCATTCTGGA
* *
89923 CAAAAAGTATGGACACAACATTCAAAAGTGTCAACACATTATGTAGACCTATTCTCACATAAAAC
194 CAAAAAGTATCGACACAACATTCAAAAGTGTCAACACATTATGTAGACCTATTCTCACAAAAAAC
* * *
89988 CGATATATTTATACCAGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGATGTT
259 CGATATATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATGTT
* * * * *
90053 TTAGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTTGGATTTTCC
324 TTAGGGATCGATACTTTTTAAAAATGTATCGACACTCTATGCGTGCACCATTTTTGGGA-TTTCA
* * * * * * * **
90118 TTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTATATCTATTTTCTT
388 TTCTGGACCAAAAGTATCGACACAAATTCAAAAAGTGTCGACACATTATGTAGACCTATTCTCAC
* ** ** *
90183 AAAAAACCAGTTTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTAGTTT
453 AAAAAACCAGTATATTTATACCGGTTACATTACAAAAATACCTATTACATTATAATTATGAGTTT
*
90248 CGATATTTTTGGGATCGATACTTTTTATAA-ATGTATCGACACTCTATGCGTTCACCATTTTGGG
518 CGATATTTTTGGGATCGATACTTTTTA-AACATGTATCGACACTCTATGCGTGCACCATTTTGGG
90312 CATTCATTCTGGACAAAC
582 CATTCATTCTGGACAAAC
* * *
90330 AGTATCGACACAAAAGTCAAACGTGTCGACACATTATGTAGACCTATTCTCACATAAAATCAGTA
1 AGTATCGACACAAAATTCAAACGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCGGTA
* * * *
90395 TATTTATACCGGTTATATTATAAAATTACCTATTACATTATATTTATGGGTTTCGATGTTTTAGG
66 TATTTATACCAGTTACATTATAAATTTACCTATTACATTATATTTATGAGTTTCGATGTTTT-GG
* * *
90460 GATCGATACTTTTTAAAAATGTATCGACACTTTATGAGTGCACCCTTTTTGG-ATTTTCCTTGTG
130 GATCGATACTTTTTAAAAATGTATCGACACTTTATGA-TGCACCCTTTTGGGCA--TTCATTCTG
* * * * * * * * *
90524 GACCAAAAGTATCGACACAA-ATTCCACAAGTGTCGATACATTTTGTATATCTATTTTCTCAAAA
192 GACAAAAAGTATCGACACAACATT-CAAAAGTGTCAACACATTATGTAGACCTATTCTCACAAAA
* * * ** * *
90588 AATCGGTTTATTTATACCAGTTACATTGTATATTTACCTATTACATTATAATTATCGGTTTCGAT
256 AACCGATATATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATCGGTTTCGAT
* * * * *
90653 GTTTTTGGGATTGATATTTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTTGGGCA-
321 GTTTTAGGGATCGATA-CTTTTTAAAAATGTATCGACACTCTATGCGTGCACCATTTTTGGG-AT
90717 TTCATTCTGGA-CAAACAGTATCGACACAACATT-AAAAAGTGTCGACACATTATGTAGACCTAT
384 TTCATTCTGGACCAAA-AGTATCGACACAA-ATTCAAAAAGTGTCGACACATTATGTAGACCTAT
* * * *
90780 TCTCACATAAAA-CGGTATATTTATACCGGTTATATTACAAAAATACTTATTACATTATAATTAT
447 TCTCACAAAAAACCAGTATATTTATACCGGTTACATTACAAAAATACCTATTACATTATAATTAT
* * * * * *
90844 GGGTTTCGATGTTTTTGGGATCGATACTTTTTAAACATGTATCGACACTTTATGGGTGCTCCTTT
512 GAGTTTCGATATTTTTGGGATCGATACTTTTTAAACATGTATCGACACTCTATGCGTGCACCATT
* *
90909 TTGGGCATTCCTTCTGGACAAAT
577 TTGGGCATTCATTCTGGACAAAC
* * *
90932 AGTATCGACAC-AAATTCTAGAA-GTGTCGATACATTATGTAGACATATTCTCTCATAAAACCGG
1 AGTATCGACACAAAATTC-A-AACGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCGG
* * * *
90995 TTTAGTTATACCAGTTACATTGTAAATTTACCTATTACATTATATTTATGAATTTCGATGTTTCT
64 TATATTTATACCAGTTACATTATAAATTTACCTATTACATTATATTTATGAGTTTCGATGTTT-T
* *
91060 GGGATCGATATTTTTTAAAATTGTATCGACACTTTATG
128 GGGATCGATACTTTTTAAAAATGTATCGACACTTTATG
91098 GGAAACTTTA
Statistics
Matches: 655, Mismatches: 100, Indels: 26
0.84 0.13 0.03
Matches are distributed among these distances:
601 14 0.02
602 416 0.64
603 183 0.28
604 41 0.06
605 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (599 bp):
AGTATCGACACAAAATTCAAACGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCGGTA
TATTTATACCAGTTACATTATAAATTTACCTATTACATTATATTTATGAGTTTCGATGTTTTGGG
ATCGATACTTTTTAAAAATGTATCGACACTTTATGATGCACCCTTTTGGGCATTCATTCTGGACA
AAAAGTATCGACACAACATTCAAAAGTGTCAACACATTATGTAGACCTATTCTCACAAAAAACCG
ATATATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTT
AGGGATCGATACTTTTTAAAAATGTATCGACACTCTATGCGTGCACCATTTTTGGGATTTCATTC
TGGACCAAAAGTATCGACACAAATTCAAAAAGTGTCGACACATTATGTAGACCTATTCTCACAAA
AAACCAGTATATTTATACCGGTTACATTACAAAAATACCTATTACATTATAATTATGAGTTTCGA
TATTTTTGGGATCGATACTTTTTAAACATGTATCGACACTCTATGCGTGCACCATTTTGGGCATT
CATTCTGGACAAAC
Found at i:92633 original size:18 final size:18
Alignment explanation
Indices: 92602--92651 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
92592 ACTTGTTTGG
**
92602 ATCATCATAATCATCATC
1 ATCATCATCTTCATCATC
**
92620 ATCATCATCTTCATTGTC
1 ATCATCATCTTCATCATC
*
92638 ATCTTCATCTTCAT
1 ATCATCATCTTCAT
92652 TGACCTGTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.28, C:0.28, G:0.02, T:0.42
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:92652 original size:18 final size:18
Alignment explanation
Indices: 92618--92653 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
92608 ATAATCATCA
92618 TCATCATCATCTTCATTG
1 TCATCATCATCTTCATTG
*
92636 TCATCTTCATCTTCATTG
1 TCATCATCATCTTCATTG
92654 ACCTGTTGGT
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:0.19, C:0.28, G:0.06, T:0.47
Consensus pattern (18 bp):
TCATCATCATCTTCATTG
Found at i:94695 original size:21 final size:21
Alignment explanation
Indices: 94670--94710 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94660 AATTCTGGAC
94670 AAAAGTATCGACACATTATGA
1 AAAAGTATCGACACATTATGA
* *
94691 AAAAGTGTCGATACATTATG
1 AAAAGTATCGACACATTATG
94711 TAGACCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (21 bp):
AAAAGTATCGACACATTATGA
Found at i:94770 original size:178 final size:180
Alignment explanation
Indices: 94446--94814 Score: 501
Period size: 178 Copynumber: 2.1 Consensus size: 180
94436 TTATAAATGT
* * **
94446 ATCGACACTTTTTGCGTGCACTCTTTTTGGGCATTTCTTCTGGACAAACAGTATCGACACAAATT
1 ATCGACACTTTATGCGTGCACTCATTTTGGGCATTAATTCTGGACAAACAGTATCGACACAAATT
* * * * *
94511 CCAGAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGATTTAATTATACCGGTCAC
66 CAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATATAATTATACCAGTCAC
** * * *
94576 ATTGTAAATTTACCTATTACATTATATTTATGGGTTTTGATGTTTCTGGG
131 ATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
* * *
94626 ATCGACACTTTATGTGTTCA-TCATTTTGGGCATTAATTCTGGACAAA-AGTATCGACAC-ATTA
1 ATCGACACTTTATGCGTGCACTCATTTTGGGCATTAATTCTGGACAAACAGTATCGACACAAAT-
* * * *
94688 TGAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCAGTTA
65 TCAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATATAATTATACCAGTCA
* *
94753 TATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGG
130 CATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
94804 ATCGACACTTT
1 ATCGACACTTT
94815 TTATAAATGT
Statistics
Matches: 165, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
177 2 0.01
178 122 0.74
179 24 0.15
180 17 0.10
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (180 bp):
ATCGACACTTTATGCGTGCACTCATTTTGGGCATTAATTCTGGACAAACAGTATCGACACAAATT
CAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATATAATTATACCAGTCAC
ATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
Found at i:96795 original size:18 final size:18
Alignment explanation
Indices: 96772--96832 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
96762 TCCTCCTCAT
*
96772 TTCCTCAATCTTTTCTTC
1 TTCCTCACTCTTTTCTTC
*
96790 TTCCTCCCTCTTTTCTTC
1 TTCCTCACTCTTTTCTTC
*
96808 TTCCTCCCTCTTTTCTTC
1 TTCCTCACTCTTTTCTTC
96826 TTCCTCA
1 TTCCTCA
96833 TATTTTTCAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.05, C:0.41, G:0.00, T:0.54
Consensus pattern (18 bp):
TTCCTCACTCTTTTCTTC
Found at i:96810 original size:21 final size:18
Alignment explanation
Indices: 96780--96831 Score: 104
Period size: 18 Copynumber: 2.9 Consensus size: 18
96770 ATTTCCTCAA
96780 TCTTTTCTTCTTCCTCCC
1 TCTTTTCTTCTTCCTCCC
96798 TCTTTTCTTCTTCCTCCC
1 TCTTTTCTTCTTCCTCCC
96816 TCTTTTCTTCTTCCTC
1 TCTTTTCTTCTTCCTC
96832 ATATTTTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (18 bp):
TCTTTTCTTCTTCCTCCC
Found at i:97051 original size:33 final size:33
Alignment explanation
Indices: 97014--97113 Score: 182
Period size: 33 Copynumber: 3.0 Consensus size: 33
97004 CCATCTTAAG
*
97014 TTCACCCCTCAACACCTCAACTTCTTTCACTAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
*
97047 TTCACCCCTCAACACCTCAACTTCTCTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
97080 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
97113 T
1 T
97114 CCATCTATTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.24, C:0.48, G:0.00, T:0.28
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:97172 original size:21 final size:21
Alignment explanation
Indices: 97147--97190 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
97137 CCCATTATGC
97147 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
* *
97168 CTCTCAAGTTTCTCTTTGACT
1 CTCTCAAGTGTCTCTTCGACT
97189 CT
1 CT
97191 TGATTGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.32, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTGTCTCTTCGACT
Found at i:99868 original size:182 final size:181
Alignment explanation
Indices: 99545--99894 Score: 567
Period size: 182 Copynumber: 1.9 Consensus size: 181
99535 CGATACGTTT
*
99545 TACCGGTTTTGTCATTTAGAGACCGGTTTTATCATATTTTTACCTGTTATATCGTTATGGATCGA
1 TACCGGGTTTGTCATTTAGAGACCGGTTTTATCATATTTTTACCTGTTATATCGTTATGGATCGA
* *
99610 TACATTTTTATAAAGTATTGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAG
66 TA-ATATTTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAG
99675 TGTCGATACTTATAGTAAAGTATCAACACTTTCAATATATATATGGTCGCTCTA
130 TGTCGATACTTATA-TAAAGTA-CAACACTTTCAATATATATATGGTCGCTCTA
* * * * *
99729 TACCGGGTTTGTCCTTTAGAGATCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATTGA
1 TACCGGGTTTGTCATTTAGAGACCGGTTTTATCATATTTTTACCTGTTATATCGTTATGGATCGA
*
99794 T-ATATTTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAATGT
66 TAATATTTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGT
* *
99858 GTCGATACTTATATTAAGTACGACACTTTCAATATAT
131 GTCGATACTTATATAAAGTACAACACTTTCAATATAT
99895 CCGGTAGCGC
Statistics
Matches: 155, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
180 16 0.10
181 6 0.04
182 73 0.47
184 60 0.39
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (181 bp):
TACCGGGTTTGTCATTTAGAGACCGGTTTTATCATATTTTTACCTGTTATATCGTTATGGATCGA
TAATATTTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGT
GTCGATACTTATATAAAGTACAACACTTTCAATATATATATGGTCGCTCTA
Done.