Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 20 of 240
Found at i:7154429 original size:18 final size:16
Alignment explanation
Indices: 7154397--7154520 Score: 67
Period size: 17 Copynumber: 7.5 Consensus size: 16
7154387 CCTCTTTTTT
7154397 TTTCATTTCATTTCTA
1 TTTCATTTCATTTCTA
7154413 TTTCTATTTCTATTTCTA
1 TTTC-ATTTC-ATTTCTA
* * *
7154431 TTTCAATTACGTTTAT-
1 TTTC-ATTTCATTTCTA
*
7154447 TTTGAATTTCTATTTC-A
1 TTT-CATTTC-ATTTCTA
* *
7154464 TTT-ATTTGAATTTCCA
1 TTTCATTT-CATTTCTA
* *
7154480 TTTCATTCCA-TTCCA
1 TTTCATTTCATTTCTA
*
7154495 TTTCCATTTTTATTTCTA
1 TTT-CA-TTTCATTTCTA
7154513 TTTCATTT
1 TTTCATTT
7154521 AAATTTATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
15 17 0.20
16 21 0.25
17 23 0.28
18 22 0.27
ACGTcount: A:0.20, C:0.17, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTCATTTCATTTCTA
Found at i:7154473 original size:21 final size:21
Alignment explanation
Indices: 7154406--7154486 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
7154396 TTTTCATTTC
**
7154406 ATTTCTATTTCTATTTCTATTTCT
1 ATTTCTATTTC-A-TT-TATTTGA
* * *
7154430 ATTTCAATTACGTTTATTTTGA
1 ATTTCTATTTCATTTA-TTTGA
7154452 ATTTCTATTTCATTTATTTGA
1 ATTTCTATTTCATTTATTTGA
*
7154473 ATTTCCATTTCATT
1 ATTTCTATTTCATT
7154487 CCATTCCATT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 20 0.43
22 18 0.38
24 9 0.19
ACGTcount: A:0.22, C:0.14, G:0.04, T:0.60
Consensus pattern (21 bp):
ATTTCTATTTCATTTATTTGA
Found at i:7154488 original size:10 final size:11
Alignment explanation
Indices: 7154452--7154520 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
7154442 TTTATTTTGA
*
7154452 ATTTCTATTTC
1 ATTTCCATTTC
*
7154463 ATTT--ATTTGA
1 ATTTCCATTT-C
7154473 ATTTCCATTTC
1 ATTTCCATTTC
*
7154484 A-TTCCATTCC
1 ATTTCCATTTC
*
7154494 ATTTCCATTTTT
1 ATTTCCA-TTTC
*
7154506 ATTTCTATTTC
1 ATTTCCATTTC
7154517 ATTT
1 ATTT
7154521 AAATTTATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
9 4 0.09
10 13 0.28
11 17 0.37
12 12 0.26
ACGTcount: A:0.20, C:0.19, G:0.01, T:0.59
Consensus pattern (11 bp):
ATTTCCATTTC
Found at i:7154539 original size:21 final size:22
Alignment explanation
Indices: 7154515--7154898 Score: 76
Period size: 22 Copynumber: 16.3 Consensus size: 22
7154505 TATTTCTATT
7154515 TCATTTAAATTTAT-TTTTTTC
1 TCATTTAAATTTATATTTTTTC
* * *
7154536 TCATTTTATTTAATTTATCTATCTTC
1 TCA-TTTA---AATTTATATTTTTTC
* *
7154562 CCATTTTAATTTA-ATTTTTTTC
1 TCATTTAAATTTATA-TTTTTTC
*
7154584 TCATTT-CATTTATATTTTTTC
1 TCATTTAAATTTATATTTTTTC
* *
7154605 TCATTT-CATTTAAATTATCTTTTTT
1 TCATTTAAATTT--A-TAT-TTTTTC
* *
7154630 TACATTTTAAAATTAAATTTTTTTC
1 T-CA-TTTAAATTTATA-TTTTTTC
*
7154655 TCATTT-CATTTAAATTATCTTTGTT-
1 TCATTTAAATTT--A-TAT-TTT-TTC
*
7154680 TACATTTTAATTTAATATTTTTCTC
1 T-CATTTAAATTT-ATATTTTT-TC
* * *
7154705 ATTTCATTTAAA-TTATCTATCTTC
1 ---TCATTTAAATTTATATTTTTTC
* ** *
7154729 CCATTTTCATTTATTTATTTTTC
1 TCATTTAAATTTATAT-TTTTTC
*
7154752 TCATTT-CATTTATATTATTTT-
1 TCATTTAAATTTATATT-TTTTC
* *
7154773 TCCATGTAAATTTAATTTTTTCTTAC
1 T-CATTTAAATTT-ATATTTT-TT-C
*
7154799 TTCATTTAAA-TTATCTTTTTT-
1 -TCATTTAAATTTATATTTTTTC
*
7154820 TCCATTTAAATTTA-ATTTCTTCCCCATT
1 T-CATTTAAATTTATATTT-TT-----TC
7154848 TCATTTAAA-TTATATTTCTTTC
1 TCATTTAAATTTATATTT-TTTC
* *
7154870 -CATTTTAATTTAATTTTTTTTTC
1 TCATTTAAATTT-A-TATTTTTTC
7154893 TCATTT
1 TCATTT
7154899 CATTTAAATT
Statistics
Matches: 273, Mismatches: 39, Indels: 99
0.66 0.09 0.24
Matches are distributed among these distances:
20 1 0.00
21 52 0.19
22 53 0.19
23 27 0.10
24 34 0.12
25 38 0.14
26 32 0.12
27 31 0.11
28 5 0.02
ACGTcount: A:0.25, C:0.14, G:0.01, T:0.61
Consensus pattern (22 bp):
TCATTTAAATTTATATTTTTTC
Found at i:7154615 original size:48 final size:45
Alignment explanation
Indices: 7154507--7154932 Score: 305
Period size: 48 Copynumber: 8.9 Consensus size: 45
7154497 TCCATTTTTA
*
7154507 TTTCT-ATTTCATTTAAATTTATTTTTTTCTCATTTTATTTAA-TT
1 TTTCTCATTTCATTTAAA-TTATTTTTTTCTCATTTAATTTAATTT
* * *
7154551 TATCT-ATCTTCCCATTTTAATTTAATTTTTTTCTCATTTCATTTATATTT
1 TTTCTCAT-TT--CA-TTTAAATT-ATTTTTTTCTCATTTAATTTA-ATTT
*
7154601 TTTCTCATTTCATTTAAATTATCTTTTTT-TACATTTTAAAATTAAATTTT
1 TTTCTCATTTCATTTAAATTAT-TTTTTTCT-CA-TTT--AATTTAA-TTT
*
7154651 TTTCTCATTTCATTTAAATTATCTTTGTTT-ACATTTTAATTTAATATT
1 TTTCTCATTTCATTTAAATTAT-TTT-TTTCTCA-TTTAATTTAAT-TT
* * * * *
7154699 TTTCTCATTTCATTTAAATTATCTATCTTCCCATTTTCATTTATTTATT
1 TTTCTCATTTCATTTAAATTAT-TTTTTTCTCA-TTTAATTTA-AT-TT
* *
7154748 TTTCTCATTTCATTTATATTA--TTTTTC-CATGTAAATTTAATTT
1 TTTCTCATTTCATTTAAATTATTTTTTTCTCAT-TTAATTTAATTT
* *
7154791 TTTCTTACTTCATTTAAATTATCTTTTTT-TCCATTTAAATTTAATTT
1 TTTCTCATTTCATTTAAATTAT-TTTTTTCT-CATTT-AATTTAATTT
* *
7154838 CTTCCCCATTTCATTTAAATTATATTTCTTTC-CATTTTAATTTAATTTTTT
1 -TTTCTCATTTCATTTAAATTAT-TTT-TTTCTCA-TTTAATTTAA---TTT
* *
7154889 TTTCTCATTTCATTTAAATTTAATTTTTTTCTCTTTTCATTTAA
1 TTTCTCATTTCATTTAAA-TT-ATTTTTTTCTCATTTAATTTAA
7154933 ATTATCTTTC
Statistics
Matches: 314, Mismatches: 33, Indels: 64
0.76 0.08 0.16
Matches are distributed among these distances:
43 20 0.06
44 8 0.03
45 10 0.03
46 13 0.04
47 35 0.11
48 104 0.33
49 32 0.10
50 76 0.24
51 14 0.04
52 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (45 bp):
TTTCTCATTTCATTTAAATTATTTTTTTCTCATTTAATTTAATTT
Found at i:7154616 original size:69 final size:69
Alignment explanation
Indices: 7154523--7154666 Score: 200
Period size: 69 Copynumber: 2.1 Consensus size: 69
7154513 TTTCATTTAA
* * * *
7154523 ATTTATTTTTTTCTCATTTTATTTAATTTATCTATCTTCCCATTTT-AATTTAATTTTTTTCTCA
1 ATTTATTTTTTTCTCATTTCATTTAAATTATCTATCTTCACATTTTAAATTAAATTTTTTTCTCA
7154587 TTTC
66 TTTC
* * *
7154591 ATTTATATTTTTTCTCATTTCATTTAAATTATCTTTTTTTACATTTTAAAATTAAATTTTTTTCT
1 ATTTAT-TTTTTTCTCATTTCATTTAAATTATCTATCTTCACATTTT-AAATTAAATTTTTTTCT
7154656 CATTTC
64 CATTTC
7154662 ATTTA
1 ATTTA
7154667 AATTATCTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
68 6 0.09
69 34 0.52
71 26 0.39
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (69 bp):
ATTTATTTTTTTCTCATTTCATTTAAATTATCTATCTTCACATTTTAAATTAAATTTTTTTCTCA
TTTC
Found at i:7154701 original size:71 final size:70
Alignment explanation
Indices: 7154569--7154701 Score: 153
Period size: 71 Copynumber: 1.9 Consensus size: 70
7154559 TTCCCATTTT
* * * * *
7154569 AATTTAATTTTTTTCTCATTTCATTTATATTTTTTCTCATTTCATTTAAATTATCTTTTTTTACA
1 AATTAAATTTTTTTCTCATTTCATTTAAATTTTTTCT-ATTACATTTAAATTATATATTTTTACA
7154634 TTTTAA
65 TTTTAA
* *
7154640 AATTAAATTTTTTTCTCATTTCATTTAAATTATCTTTGT-TTACATTTTAATT-TAATATTTTT
1 AATTAAATTTTTTTCTCATTTCATTTAAATT-T-TTTCTATTACATTTAAATTAT-ATATTTTT
7154702 CTCATTTCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
70 1 0.02
71 46 0.88
72 1 0.02
73 4 0.08
ACGTcount: A:0.27, C:0.10, G:0.01, T:0.62
Consensus pattern (70 bp):
AATTAAATTTTTTTCTCATTTCATTTAAATTTTTTCTATTACATTTAAATTATATATTTTTACAT
TTTAA
Found at i:7154736 original size:27 final size:25
Alignment explanation
Indices: 7154513--7154774 Score: 114
Period size: 26 Copynumber: 10.8 Consensus size: 25
7154503 TTTATTTCTA
* *
7154513 TTTCATTTAAATTTATTTTTTTCTCAT
1 TTTCATTTAAA-TTA-TCTTTTCACAT
* *
7154540 TTT-ATTTAATTTATCTATCTTCCCAT
1 TTTCATTTAAATTATCT-T-TTCACAT
* *
7154566 TTTAATTT-AATT-T-TTTTCTCA-
1 TTTCATTTAAATTATCTTTTCACAT
* *
7154587 TTTCATTT--A-TATTTTTTCTCA-
1 TTTCATTTAAATTATCTTTTCACAT
*
7154608 TTTCATTTAAATTATCTTTTTTTACAT
1 TTTCATTTAAATTATC--TTTTCACAT
* * *
7154635 TTTAAAATTAAATT-T-TTTTCTCA-
1 TTT-CATTTAAATTATCTTTTCACAT
*
7154658 TTTCATTTAAATTATCTTTGTTTACAT
1 TTTCATTTAAATTATC-TT-TTCACAT
* *
7154685 TTTAATTT-AA-TAT-TTTTCTCA-
1 TTTCATTTAAATTATCTTTTCACAT
*
7154706 TTTCATTTAAATTATCTATCTTCCCAT
1 TTTCATTTAAATTATCT-T-TTCACAT
* *
7154733 TTTCATTT-ATTTAT-TTTTCTCA-
1 TTTCATTTAAATTATCTTTTCACAT
*
7154755 TTTCATTTATATTAT-TTTTC
1 TTTCATTTAAATTATCTTTTC
7154775 CATGTAAATT
Statistics
Matches: 185, Mismatches: 26, Indels: 52
0.70 0.10 0.20
Matches are distributed among these distances:
19 1 0.01
20 2 0.01
21 30 0.16
22 27 0.15
23 25 0.14
24 14 0.08
25 12 0.06
26 40 0.22
27 26 0.14
28 8 0.04
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTCATTTAAATTATCTTTTCACAT
Found at i:7154815 original size:140 final size:144
Alignment explanation
Indices: 7154587--7154904 Score: 396
Period size: 140 Copynumber: 2.2 Consensus size: 144
7154577 TTTTTTCTCA
* * *
7154587 TTTCATTTATATTTTTTCTCATTTCATTTAAATTATCTTTTTTTACATTTTAAAATTAAATTTTT
1 TTTCATTTATTTTTTTTCTCATTTCATTT--ATTATCTATTTTTACATTGTAAAATTAAATTTTT
* * * *
7154652 TTCTCATTTCATTTAAATTATCTTTGTTTACATTTTAATTTAATATT-TTTCTCATTTCATTTAA
64 TTCTCACTTCATTTAAATTATCTTTGTTTACATTTAAATTTAAT-TTCTTCCCCATTTCATTTAA
*
7154716 ATTATCTATCTTCCCAT
128 ATTATATATCTTCCCAT
* *
7154733 TTTCATTTATTTATTTTTCTCATTTCATTTA-TAT-TATTTTTCCA-TGT-AAATTTAA-TTTTT
1 TTTCATTTATTT-TTTTTCTCATTTCATTTATTATCTATTTTTACATTGTAAAATTAAATTTTTT
* * *
7154793 TCTTACTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTCTTCCCCATTTCATTTAAAT
65 TCTCACTTCATTTAAATTATCTTTGTTTACATTTAAATTTAATTTCTTCCCCATTTCATTTAAAT
* *
7154858 TATATTTCTTTCCAT
130 TATATATCTTCCCAT
*
7154873 TTTAATTTAATTTTTTTTTCTCATTTCATTTA
1 TTTCATTT-A-TTTTTTTTCTCATTTCATTTA
7154905 AATTTAATTT
Statistics
Matches: 152, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
139 2 0.01
140 79 0.52
141 26 0.17
142 5 0.03
143 8 0.05
144 3 0.02
145 1 0.01
146 11 0.07
147 17 0.11
ACGTcount: A:0.25, C:0.14, G:0.01, T:0.61
Consensus pattern (144 bp):
TTTCATTTATTTTTTTTCTCATTTCATTTATTATCTATTTTTACATTGTAAAATTAAATTTTTTT
CTCACTTCATTTAAATTATCTTTGTTTACATTTAAATTTAATTTCTTCCCCATTTCATTTAAATT
ATATATCTTCCCAT
Found at i:7154832 original size:27 final size:26
Alignment explanation
Indices: 7154802--7154963 Score: 101
Period size: 27 Copynumber: 6.4 Consensus size: 26
7154792 TTCTTACTTC
*
7154802 ATTTAAATTATCTTTTTTTCCATTTAA
1 ATTTAAATT-TCTTTTTTTCCATTTTA
** *
7154829 ATTT-AATTTC---TTCCCCA-TTTC
1 ATTTAAATTTCTTTTTTTCCATTTTA
* *
7154850 ATTTAAATTATATTTCTTTCCATTTTA
1 ATTTAAATT-TCTTTTTTTCCATTTTA
*
7154877 ATTT-AA-TT-TTTTTTTCTCA-TTTC
1 ATTTAAATTTCTTTTTTTC-CATTTTA
* *
7154900 ATTTAAATTTAATTTTTTTCTC-TTTTC
1 ATTTAAATTT-CTTTTTTTC-CATTTTA
*
7154927 ATTTAAATTATCTTTCTTTCCATTTTA
1 ATTTAAATT-TCTTTTTTTCCATTTTA
*
7154954 ATTTACATTT
1 ATTTAAATTT
7154964 TTCTTATATT
Statistics
Matches: 106, Mismatches: 15, Indels: 29
0.71 0.10 0.19
Matches are distributed among these distances:
21 6 0.06
22 9 0.08
23 15 0.14
24 5 0.05
25 5 0.05
26 12 0.11
27 53 0.50
28 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTAAATTTCTTTTTTTCCATTTTA
Found at i:7154927 original size:77 final size:78
Alignment explanation
Indices: 7154822--7154965 Score: 236
Period size: 77 Copynumber: 1.9 Consensus size: 78
7154812 TCTTTTTTTC
7154822 CATTTAAATTTAATTTCTTCCCCATTTCATTTAAATTATATTTCTTTCCATTTTAATTTA-ATTT
1 CATTTAAATTTAATTTCTTCCCCATTTCATTTAAATTATATTTCTTTCCATTTTAATTTACATTT
7154886 TTTTTTCTCATTT
66 TTTTTTCTCATTT
* * * * *
7154899 CATTTAAATTTAATTTTTTTCTCTTTTCATTTAAATTATCTTTCTTTCCATTTTAATTTACATTT
1 CATTTAAATTTAATTTCTTCCCCATTTCATTTAAATTATATTTCTTTCCATTTTAATTTACATTT
7154964 TT
66 TT
7154966 CTTATATTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
77 55 0.90
78 6 0.10
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (78 bp):
CATTTAAATTTAATTTCTTCCCCATTTCATTTAAATTATATTTCTTTCCATTTTAATTTACATTT
TTTTTTCTCATTT
Found at i:7156036 original size:32 final size:32
Alignment explanation
Indices: 7155995--7156057 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
7155985 CTCCATCGAA
7155995 ATGAACATAAACAAACAAAATTTAGGAACTCC
1 ATGAACATAAACAAACAAAATTTAGGAACTCC
7156027 ATGAACATAAACAAACAAAATTTAGGAACTC
1 ATGAACATAAACAAACAAAATTTAGGAACTC
7156058 ATTTTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.54, C:0.17, G:0.10, T:0.19
Consensus pattern (32 bp):
ATGAACATAAACAAACAAAATTTAGGAACTCC
Found at i:7157842 original size:21 final size:21
Alignment explanation
Indices: 7157781--7157846 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
7157771 TTTTGGTTAA
7157781 GGTTTTGTTAAAATAATTTAG
1 GGTTTTGTTAAAATAATTTAG
** ** * *
7157802 GGTTAGGTTTGTAGT-GTTTAG
1 GGTTTTG-TTAAAATAATTTAG
7157823 GGTTTTGTTAAAATAATTTAG
1 GGTTTTGTTAAAATAATTTAG
7157844 GGT
1 GGT
7157847 CCTAGGCTTT
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
20 4 0.13
21 23 0.74
22 4 0.13
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (21 bp):
GGTTTTGTTAAAATAATTTAG
Found at i:7157954 original size:34 final size:34
Alignment explanation
Indices: 7157900--7157991 Score: 105
Period size: 34 Copynumber: 2.7 Consensus size: 34
7157890 TCTTTTTTTA
**
7157900 AAAATTAATTAAATCAGGGTTTAGGGGTTCTAA-
1 AAAATTAATTAAATTTGGGTTTAGGGGTTCTAAG
* * * * *
7157933 ATAAATTAATTAATTTTGGGTTCAGTGTTTTTAAG
1 A-AAATTAATTAAATTTGGGTTTAGGGGTTCTAAG
7157968 AAAATTAATTAAATTTGGGTTTAG
1 AAAATTAATTAAATTTGGGTTTAG
7157992 CTTTTTCTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
33 1 0.02
34 46 0.96
35 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.41
Consensus pattern (34 bp):
AAAATTAATTAAATTTGGGTTTAGGGGTTCTAAG
Found at i:7158349 original size:126 final size:126
Alignment explanation
Indices: 7158059--7158577 Score: 688
Period size: 125 Copynumber: 4.1 Consensus size: 126
7158049 TTTTGGTTTT
* * * *
7158059 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTAAGAAGACGGTTCTGAACAAATAATGTTAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAACAAATAGTGTTAAAA
* * ** *
7158124 ATGCTTCAAGCAGGATGCACTATC-ACCAAATTACTGAAAAAAGCTCCCACACGGACACTC
66 ATGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
7158184 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAACAAATAGTGTTAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAACAAATAGTGTTAAAA
* ** *
7158249 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTGA-TGAAAAAAGCTCTTACGTGGATGCTC
66 ATGCTTCAAGCAGGATGCACTGTCAACAAAATT-ACTGAAAAAAGCTCCCACGTGGACGCTC
** *
7158310 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACATTTTTGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAACAAATAGTGTTAAAA
* ** *
7158375 ATACTTCAAATAGGATGCACTGTCAACAAAATCGA-TGAAAAAAGCTCCCACGTGGACGCTC
66 ATGCTTCAAGCAGGATGCACTGTCAACAAAAT-TACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * * *
7158436 TTTTTCTACAATAGTTCCTG-AAAAATGATTTTGAGAATAC-ATTTCTGAATAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTT-TGAACAAATAGTGTTAAA
** * * *
7158499 AATGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCTCACGTGGATGCTA
65 AATGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
7158561 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
7158578 ATGTTTGGCA
Statistics
Matches: 347, Mismatches: 42, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
124 4 0.01
125 183 0.53
126 159 0.46
127 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAACAAATAGTGTTAAAA
ATGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:7158508 original size:251 final size:251
Alignment explanation
Indices: 7158059--7158577 Score: 722
Period size: 251 Copynumber: 2.1 Consensus size: 251
7158049 TTTTGGTTTT
* * *
7158059 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTAAGAAGACGGTTCTGAACAAATAATGTTAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACAGTTCTGAACAAATAATGTAAAAA
* * * *
7158124 ATGCTTCAAGCAGGATGCACTATCACCAAATTACTGAAAAAAGCTCCCACACGGACACTCTTTTT
66 ATACTTCAAACAGGATGCACTATCACAAAATGACTGAAAAAAGCTCCCACACGGACACTCTTTTT
* * * *
7158189 CTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAACAAATAGTGTTAAAAACGCT
131 CTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGATTTTGAACAAATAGTGTCAAAAACGCT
* *
7158254 TCAAGCAGGATGCACTGTCAACAAAATTGA-TGAAAAAAGCTCTTACGTGGATGCTC
196 TCAAGCAGGATGCACTGTCAACAAAATT-ACTGAAAAAAGCTCTCACGTGGATGCTA
* * * *
7158310 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACATTTTTGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACAGTTCTGAACAAATAATGTAAAAA
* * ** *
7158375 ATACTTCAAATAGGATGCACTGTCAACAAAATCGA-TGAAAAAAGCTCCCACGTGGACGCTCTTT
66 ATACTTCAAACAGGATGCACTATC-ACAAAAT-GACTGAAAAAAGCTCCCACACGGACACTCTTT
* * * *
7158439 TTCTACAATAGTTCCTG-AAAAATGATTTTGAGAATAC-ATTTCTGAATAAATAGTGTCAAAAAT
129 TTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGATTT-TGAACAAATAGTGTCAAAAAC
**
7158502 GCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCTCACGTGGATGCTA
193 GCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTCACGTGGATGCTA
7158561 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
7158578 ATGTTTGGCA
Statistics
Matches: 236, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
250 4 0.02
251 184 0.78
252 47 0.20
253 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (251 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACAGTTCTGAACAAATAATGTAAAAA
ATACTTCAAACAGGATGCACTATCACAAAATGACTGAAAAAAGCTCCCACACGGACACTCTTTTT
CTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGATTTTGAACAAATAGTGTCAAAAACGCT
TCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTCACGTGGATGCTA
Found at i:7160669 original size:21 final size:21
Alignment explanation
Indices: 7160640--7160760 Score: 109
Period size: 21 Copynumber: 5.8 Consensus size: 21
7160630 ATTCAACTCA
7160640 TATGAGTTTCAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
* * * *
7160661 TTTGGGTTTCAGTTCAACTCT
1 TATGAGTTTCAGTTTAACCCT
* *
7160682 TTTAAGTTTCAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
* * *
7160703 AATGAGTTTTAGTTTAGA-TCT
1 TATGAGTTTCAGTTTA-ACCCT
* *
7160724 TCTGAGCTTCAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
* *
7160745 AATGGGTTTCAGTTTA
1 TATGAGTTTCAGTTTA
7160761 GCTCTTCTGA
Statistics
Matches: 76, Mismatches: 22, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
20 1 0.01
21 74 0.97
22 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.45
Consensus pattern (21 bp):
TATGAGTTTCAGTTTAACCCT
Found at i:7160678 original size:42 final size:42
Alignment explanation
Indices: 7160627--7160777 Score: 153
Period size: 42 Copynumber: 3.6 Consensus size: 42
7160617 TCTCATGAGC
* **
7160627 TTCA-TTCAACTCATATGAGTTTCAGTTTAACCCTTTTGGGT
1 TTCAGTTCAACTCTTATGAGTTTCAGTTTAACCCTAATGGGT
* * *
7160668 TTCAGTTCAACTCTTTTAAGTTTCAGTTTAACCCTAATGAGT
1 TTCAGTTCAACTCTTATGAGTTTCAGTTTAACCCTAATGGGT
* * * *
7160710 TTTAGTTTAGA-TCTTCTGAGCTTCAGTTTAACCCTAATGGGT
1 TTCAGTTCA-ACTCTTATGAGTTTCAGTTTAACCCTAATGGGT
* * * *
7160752 TTCAGTTTAGCTCTTCTGAGCTTCAG
1 TTCAGTTCAACTCTTATGAGTTTCAG
7160778 ATTATCTTTT
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
41 4 0.04
42 88 0.95
43 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (42 bp):
TTCAGTTCAACTCTTATGAGTTTCAGTTTAACCCTAATGGGT
Found at i:7160776 original size:21 final size:21
Alignment explanation
Indices: 7160713--7160777 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
7160703 AATGAGTTTT
*
7160713 AGTTTAGATCTTCTGAGCTTC
1 AGTTTAGCTCTTCTGAGCTTC
* * ** * *
7160734 AGTTTAACCCTAATGGGTTTC
1 AGTTTAGCTCTTCTGAGCTTC
7160755 AGTTTAGCTCTTCTGAGCTTC
1 AGTTTAGCTCTTCTGAGCTTC
7160776 AG
1 AG
7160778 ATTATCTTTT
Statistics
Matches: 31, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (21 bp):
AGTTTAGCTCTTCTGAGCTTC
Found at i:7160806 original size:42 final size:42
Alignment explanation
Indices: 7160642--7160817 Score: 129
Period size: 42 Copynumber: 4.2 Consensus size: 42
7160632 TCAACTCATA
* * ** * * *
7160642 TGAGTTTCAGTTTAACCCTTTTGGGTTTCAGTTCAACTCTTT
1 TGAGCTTCAGATTAACCCTAATGGATTTCAGTTCAGCTCTTC
* * * * * *
7160684 TAAGTTTCAGTTTAACCCTAAT-GAGTTTTAGTTTAGATCTTC
1 TGAGCTTCAGATTAACCCTAATGGA-TTTCAGTTCAGCTCTTC
* * *
7160726 TGAGCTTCAGTTTAACCCTAATGGGTTTCAGTTTAGCTCTTC
1 TGAGCTTCAGATTAACCCTAATGGATTTCAGTTCAGCTCTTC
* ** * * * *
7160768 TGAGCTTCAGATTATCTTTTATGGATTTCCGTTCAGCTCCTA
1 TGAGCTTCAGATTAACCCTAATGGATTTCAGTTCAGCTCTTC
7160810 TGAGCTTC
1 TGAGCTTC
7160818 CATTTAACCC
Statistics
Matches: 108, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
41 1 0.01
42 106 0.98
43 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (42 bp):
TGAGCTTCAGATTAACCCTAATGGATTTCAGTTCAGCTCTTC
Found at i:7164555 original size:24 final size:25
Alignment explanation
Indices: 7164508--7164553 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
7164498 ACTTCTATTT
7164508 TATTAAAAATATAAAAATAATTTAC
1 TATTAAAAATATAAAAATAATTTAC
*
7164533 TATT-AAAATATTAAAA-AATTT
1 TATTAAAAATATAAAAATAATTT
7164554 TATTTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
TATTAAAAATATAAAAATAATTTAC
Found at i:7164566 original size:25 final size:27
Alignment explanation
Indices: 7164503--7164566 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 27
7164493 AAAGGACTTC
*
7164503 TATTTTATTAAAAATATAAAAATAATT
1 TATTTTATTAAATATATAAAAATAATT
* *
7164530 TA--CTATTAAA-ATATTAAAAA-ATTT
1 TATTTTATTAAATATA-TAAAAATAATT
7164554 TATTTTATTAAAT
1 TATTTTATTAAAT
7164567 GAAACAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
24 8 0.27
25 13 0.43
26 7 0.23
27 2 0.07
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TATTTTATTAAATATATAAAAATAATT
Found at i:7166044 original size:17 final size:17
Alignment explanation
Indices: 7166022--7166072 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
7166012 TTGATGAAGA
7166022 ATCTGTTTGGATTTTGC
1 ATCTGTTTGGATTTTGC
*
7166039 ATCTGTTT-G--TTT-A
1 ATCTGTTTGGATTTTGC
7166052 ATCTGTTTGGATTTTGC
1 ATCTGTTTGGATTTTGC
7166069 ATCT
1 ATCT
7166073 ATCTGTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 8 0.29
14 4 0.14
16 4 0.14
17 12 0.43
ACGTcount: A:0.14, C:0.12, G:0.20, T:0.55
Consensus pattern (17 bp):
ATCTGTTTGGATTTTGC
Found at i:7167699 original size:20 final size:20
Alignment explanation
Indices: 7167674--7167711 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7167664 ACAATTTAAA
7167674 ATATAAATATATTAATATGT
1 ATATAAATATATTAATATGT
*
7167694 ATATAAATTTATTAATAT
1 ATATAAATATATTAATAT
7167712 ATGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
ATATAAATATATTAATATGT
Found at i:7167721 original size:20 final size:20
Alignment explanation
Indices: 7167678--7167723 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
7167668 TTTAAAATAT
* *
7167678 AAATATATTAATATGTATAT
1 AAATATATTAATATATATAA
* *
7167698 AAATTTATTAATATATGTAA
1 AAATATATTAATATATATAA
7167718 AAATAT
1 AAATAT
7167724 TTTTTTTGAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (20 bp):
AAATATATTAATATATATAA
Found at i:7167845 original size:14 final size:14
Alignment explanation
Indices: 7167823--7167874 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
7167813 TCAGAAAAAT
*
7167823 AAATTATTTTCTAG
1 AAATCATTTTCTAG
7167837 AAATCATTTTCTAG
1 AAATCATTTTCTAG
* *
7167851 AAATTATTTTCCAG
1 AAATCATTTTCTAG
*
7167865 AAAACATTTT
1 AAATCATTTT
7167875 ACTGGCAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (14 bp):
AAATCATTTTCTAG
Found at i:7167919 original size:7 final size:7
Alignment explanation
Indices: 7167909--7167940 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
7167899 TTATATACAT
7167909 AATACTA
1 AATACTA
7167916 AATACTA
1 AATACTA
7167923 AATACTA
1 AATACTA
7167930 AATACTA
1 AATACTA
7167937 AATA
1 AATA
7167941 TTTTATGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:7169114 original size:30 final size:30
Alignment explanation
Indices: 7169078--7169141 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
7169068 TTAATTAAAT
7169078 AGAGCTTTGAGAAATTTAAGGAGAAATTTG
1 AGAGCTTTGAGAAATTTAAGGAGAAATTTG
*
7169108 AGAGCTTTGAGAAATTTAGGGAGAAATTTG
1 AGAGCTTTGAGAAATTTAAGGAGAAATTTG
7169138 AGAG
1 AGAG
7169142 TTTTTTGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.39, C:0.03, G:0.30, T:0.28
Consensus pattern (30 bp):
AGAGCTTTGAGAAATTTAAGGAGAAATTTG
Found at i:7184125 original size:65 final size:65
Alignment explanation
Indices: 7184046--7184175 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
7184036 AAATTAAAAC
7184046 ATCATCCCAAACACCTTTTACTCGCTTTTCTTATTTAAAAAAAAATACTAAGAAGTAAATAAGAG
1 ATCATCCCAAACACCTTTTACTCGCTTTTCTTATTTAAAAAAAAATACTAAGAAGTAAATAAGAG
7184111 ATCATCCCAAACACCTTTTACTCGCTTTTCTTATTTAAAAAAAAATACTAAGAAGTAAATAAGAG
1 ATCATCCCAAACACCTTTTACTCGCTTTTCTTATTTAAAAAAAAATACTAAGAAGTAAATAAGAG
7184176 GCCAATGAGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (65 bp):
ATCATCCCAAACACCTTTTACTCGCTTTTCTTATTTAAAAAAAAATACTAAGAAGTAAATAAGAG
Found at i:7188281 original size:36 final size:36
Alignment explanation
Indices: 7188241--7188310 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
7188231 AGGGATCTTA
*
7188241 ATGTCGCAACACTCTCAACAATGATACCATCTTGAC
1 ATGTCACAACACTCTCAACAATGATACCATCTTGAC
** *
7188277 ATGTCATGACACTCTCAACAGTGATACCATCTTG
1 ATGTCACAACACTCTCAACAATGATACCATCTTG
7188311 GCTTTGGGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (36 bp):
ATGTCACAACACTCTCAACAATGATACCATCTTGAC
Found at i:7196624 original size:29 final size:30
Alignment explanation
Indices: 7196585--7196642 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
7196575 ATAAACACCA
7196585 AAAATTTATTTAAAAAATAAAAAATATTTT
1 AAAATTTATTTAAAAAATAAAAAATATTTT
* *
7196615 AAAA-TTATTTTAAAATTAAAAAATATTT
1 AAAATTTATTTAAAAAATAAAAAATATTT
7196643 ATTTATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
AAAATTTATTTAAAAAATAAAAAATATTTT
Found at i:7196822 original size:13 final size:13
Alignment explanation
Indices: 7196804--7196828 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7196794 CCGCCCGGCC
7196804 CATGGACACCTCA
1 CATGGACACCTCA
7196817 CATGGACACCTC
1 CATGGACACCTC
7196829 TATTGTGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.40, G:0.16, T:0.16
Consensus pattern (13 bp):
CATGGACACCTCA
Found at i:7207245 original size:46 final size:46
Alignment explanation
Indices: 7207178--7207396 Score: 348
Period size: 46 Copynumber: 4.8 Consensus size: 46
7207168 TGGAATGTAT
*
7207178 GTATGGTATTTCAGTAAAGAAAACCATATTGAGTTGTGAAAAGTAG
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAAGTAG
*
7207224 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAGAAGTAG
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAAGTAG
* * *
7207270 GTATGTTATTTCAGTAATGAAAACCATACTGAGTTGTGAGAAGTAG
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAAGTAG
* * *
7207316 GTATGGTATTTCAGTAATGAAAACCATACTGAGTTATGAAAAGCAG
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAAGTAG
* *
7207362 GCATGGTATTTCAGTGAAGAAAACCATACTGAGTT
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
7207397 ATAGCATTGT
Statistics
Matches: 162, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 162 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.30
Consensus pattern (46 bp):
GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAAGTAG
Found at i:7211198 original size:46 final size:46
Alignment explanation
Indices: 7211115--7211283 Score: 151
Period size: 46 Copynumber: 3.5 Consensus size: 46
7211105 TTGCACATAG
* * *
7211115 TCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTATACGGA
1 TCACATATCAC--ACTGATGCCATAGCCCAGCTATGGTCTTATACGGA
* * *
7211163 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTA
1 TCACATATCACACTGATGCCATAGCCCAGCTATGGTCTTATAC-GGA
* *
7211210 GCACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAA
1 TCACATATCACA---CT--GATGCCATAGCCCAGCTATGGTCTTATACGG--A
* *
7211263 TCACATTTCACA-TGCTGCCAT
1 TCACATATCACACTGATGCCAT
7211284 GGTCCAACCA
Statistics
Matches: 98, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
46 27 0.28
47 19 0.19
48 11 0.11
49 1 0.01
50 2 0.02
51 1 0.01
52 26 0.27
53 11 0.11
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (46 bp):
TCACATATCACACTGATGCCATAGCCCAGCTATGGTCTTATACGGA
Found at i:7211243 original size:52 final size:48
Alignment explanation
Indices: 7211116--7211260 Score: 161
Period size: 52 Copynumber: 3.0 Consensus size: 48
7211106 TGCACATAGT
* * *
7211116 CACATATCACA-TACCGAGGCCATAGCCCAGCCATGGTCTTATACGGAT
1 CACATATCACACT-CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAG
* * * *
7211164 CACATATCACACT--GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTCCGAAGCCATAGCCCAGCTATGGTCTTATAC-GGAG
7211211 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGA
1 CACATATCACA---CTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGA
7211261 AATCACATTT
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
46 25 0.31
47 13 0.16
48 11 0.14
49 1 0.01
50 2 0.03
51 2 0.03
52 26 0.32
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (48 bp):
CACATATCACACTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAG
Found at i:7220142 original size:20 final size:20
Alignment explanation
Indices: 7220114--7220162 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
7220104 ATATATCCTG
* *
7220114 ATTTTATTTTATTCCAATCA
1 ATTTGATTTGATTCCAATCA
**
7220134 ATTTGATTTGATTTTAATCA
1 ATTTGATTTGATTCCAATCA
*
7220154 AATTGATTT
1 ATTTGATTT
7220163 AATTACTCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (20 bp):
ATTTGATTTGATTCCAATCA
Found at i:7220634 original size:8 final size:8
Alignment explanation
Indices: 7220621--7220648 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
7220611 ATTTTATTTT
7220621 ATATATAA
1 ATATATAA
7220629 ATATATAA
1 ATATATAA
7220637 ATATATAA
1 ATATATAA
7220645 ATAT
1 ATAT
7220649 TTATTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAA
Found at i:7220918 original size:29 final size:29
Alignment explanation
Indices: 7220881--7220947 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
7220871 CTTGAATTTT
* * *
7220881 TTATTAAAATAACATTAAAAATTAATTAA
1 TTATAAAAATAACATGAAAAATAAATTAA
*** *
7220910 TTATAAAAATAGGGTGGAAAATAAATTAA
1 TTATAAAAATAACATGAAAAATAAATTAA
7220939 TTATAAAAA
1 TTATAAAAA
7220948 ATAAGGTATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.33
Consensus pattern (29 bp):
TTATAAAAATAACATGAAAAATAAATTAA
Found at i:7221143 original size:28 final size:27
Alignment explanation
Indices: 7221112--7221184 Score: 94
Period size: 28 Copynumber: 2.7 Consensus size: 27
7221102 AATTTTAGGA
7221112 ATTAAATGCATAGAAAAAACATTAAGAC
1 ATTAAATGCA-AGAAAAAACATTAAGAC
**
7221140 ATTAAATGCAAGGAAAAATTATTAAGAC
1 ATTAAATGCAA-GAAAAAACATTAAGAC
*
7221168 ATTAAATG-AAGAGAAAA
1 ATTAAATGCAAGAAAAAA
7221185 TGCTATTGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
26 5 0.12
27 3 0.08
28 32 0.80
ACGTcount: A:0.58, C:0.07, G:0.14, T:0.22
Consensus pattern (27 bp):
ATTAAATGCAAGAAAAAACATTAAGAC
Found at i:7223929 original size:21 final size:21
Alignment explanation
Indices: 7223888--7223930 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
7223878 AATAAAGTAG
*
7223888 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
*
7223909 ATTATTTATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
7223930 A
1 A
7223931 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:7224006 original size:58 final size:58
Alignment explanation
Indices: 7223938--7224074 Score: 154
Period size: 58 Copynumber: 2.4 Consensus size: 58
7223928 GTAAATTCAT
* *
7223938 ATAATAATTATATTAAGAATTTTATTAGATT-ATATATT-TTTCTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATTTGATTAAATTAAT-TATTATTTCTATTAAATTATATTTA
* * * * * *
7223996 ATAATTATTATGTTAAAATATGGTTAAATTAATTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATTTGATTAAATTAATTATTATTTCTATTAAATTATATTTA
7224054 ATAATAATCT-TATTAAAATTT
1 ATAATAAT-TATATTAAAATTT
7224075 AATAATAATA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
57 14 0.22
58 50 0.77
59 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (58 bp):
ATAATAATTATATTAAAATTTGATTAAATTAATTATTATTTCTATTAAATTATATTTA
Found at i:7230249 original size:44 final size:44
Alignment explanation
Indices: 7230141--7230251 Score: 213
Period size: 44 Copynumber: 2.5 Consensus size: 44
7230131 AGTACTTCTA
*
7230141 ATCAGTGACAAGTGATAAGTAATAGCTTCAGCTACACTTATCTG
1 ATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTG
7230185 ATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTG
1 ATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTG
7230229 ATCAGTGACAAGTGATAAGTGAT
1 ATCAGTGACAAGTGATAAGTGAT
7230252 CATACGTAAG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (44 bp):
ATCAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTG
Found at i:7247363 original size:24 final size:24
Alignment explanation
Indices: 7247335--7247381 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
7247325 TTACCTTTAC
*
7247335 TTTTACGTATTTATGTAGTACATT
1 TTTTACGTATTTATATAGTACATT
* *
7247359 TTTTATGTATTTATATATTACAT
1 TTTTACGTATTTATATAGTACAT
7247382 ACATTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.57
Consensus pattern (24 bp):
TTTTACGTATTTATATAGTACATT
Found at i:7254310 original size:2 final size:2
Alignment explanation
Indices: 7254298--7254344 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
7254288 GTGTCTTGCT
*
7254298 TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7254340 TC TC T
1 TC TC T
7254345 GTGCACTTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:7258566 original size:21 final size:21
Alignment explanation
Indices: 7258542--7258586 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7258532 ATTTTTATGT
*
7258542 ATAAAATTATTATAAAGATAA
1 ATAAAATTATCATAAAGATAA
* *
7258563 ATAATATTATCATAAATATAA
1 ATAAAATTATCATAAAGATAA
7258584 ATA
1 ATA
7258587 TTCATCTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
ATAAAATTATCATAAAGATAA
Found at i:7274984 original size:40 final size:42
Alignment explanation
Indices: 7274909--7275028 Score: 110
Period size: 40 Copynumber: 2.9 Consensus size: 42
7274899 ACACTGTTTA
*
7274909 TGCCACGTCAGCAAATCGCGTCCTAGA-G-GG-TGCGATTTCCT-
1 TGCCACGTCAGCAAATCGCG--CT-GACGTGGACGCGATTTCCTG
7274950 T-CCACGTCAGCAAATCGCGCTGACGTGGACGCGATTTCCTG
1 TGCCACGTCAGCAAATCGCGCTGACGTGGACGCGATTTCCTG
* * * *
7274991 TGCGTAC-CCTG-ACATCGCGCTGACGTGGACGCGATTTC
1 TGC-CACGTCAGCAAATCGCGCTGACGTGGACGCGATTTC
7275029 GCGGAAAATG
Statistics
Matches: 68, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
37 2 0.03
38 3 0.04
39 2 0.03
40 28 0.41
41 28 0.41
42 3 0.04
43 2 0.03
ACGTcount: A:0.18, C:0.31, G:0.28, T:0.23
Consensus pattern (42 bp):
TGCCACGTCAGCAAATCGCGCTGACGTGGACGCGATTTCCTG
Found at i:7275091 original size:28 final size:27
Alignment explanation
Indices: 7275033--7275091 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
7275023 GATTTCGCGG
7275033 AAAATGGCCCATTCCGGTAAATAATTAA
1 AAAATGGCCCATTCCGGTAAAT-ATTAA
* *
7275061 AAAAGTGGCCTATTTCGGTAAAT-TTAA
1 AAAA-TGGCCCATTCCGGTAAATATTAA
7275088 AAAA
1 AAAA
7275092 AAATGCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.29
28 4 0.14
29 16 0.57
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAATGGCCCATTCCGGTAAATATTAA
Found at i:7288714 original size:18 final size:21
Alignment explanation
Indices: 7288672--7288714 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 21
7288662 GTAAAAATAA
7288672 ATTATATCCTTATAATAGTAT
1 ATTATATCCTTATAATAGTAT
7288693 -TTATAT-CTT-TAATA-TAT
1 ATTATATCCTTATAATAGTAT
7288710 ATTAT
1 ATTAT
7288715 TTTTGGTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.14
18 9 0.43
19 3 0.14
20 6 0.29
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTATATCCTTATAATAGTAT
Found at i:7294845 original size:18 final size:18
Alignment explanation
Indices: 7294824--7294858 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7294814 TCTATAGAAG
*
7294824 TTCTTCAGTTCAGATATA
1 TTCTTCAGCTCAGATATA
7294842 TTCTTCAGCTCAGATAT
1 TTCTTCAGCTCAGATAT
7294859 TACAAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (18 bp):
TTCTTCAGCTCAGATATA
Found at i:7296937 original size:22 final size:22
Alignment explanation
Indices: 7296910--7296964 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
7296900 GTCCGAATTA
*
7296910 GTTGTTTT-CATGTTGTTTCGTT
1 GTTGTTTTGC-TGCTGTTTCGTT
*
7296932 GTTGTTTTGCTGCTGTTTTGTT
1 GTTGTTTTGCTGCTGTTTCGTT
*
7296954 GTTATTTTGCT
1 GTTGTTTTGCT
7296965 ACCATATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.04, C:0.09, G:0.24, T:0.64
Consensus pattern (22 bp):
GTTGTTTTGCTGCTGTTTCGTT
Found at i:7325356 original size:3 final size:3
Alignment explanation
Indices: 7325350--7325385 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
7325340 AAAATAATAA
7325350 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
7325386 AGAATTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TAG
Found at i:7333296 original size:26 final size:26
Alignment explanation
Indices: 7333248--7333300 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
7333238 TAAATGAAAG
* **
7333248 TGACACTTCGGAGCATTTTAGTGATT
1 TGACACTTCGGAGCACTACAGTGATT
*
7333274 TGACACTTCGGCGCACTACAGTGATT
1 TGACACTTCGGAGCACTACAGTGATT
7333300 T
1 T
7333301 TGTACTTCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (26 bp):
TGACACTTCGGAGCACTACAGTGATT
Found at i:7337845 original size:21 final size:21
Alignment explanation
Indices: 7337821--7337867 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
7337811 TGCTTTGCTT
*
7337821 TGCTTCCCTCACTGTTGCCTC
1 TGCTTCCCTCACTGCTGCCTC
*
7337842 TGCTTCCCTCGCTGCTGCCTC
1 TGCTTCCCTCACTGCTGCCTC
7337863 TGCTT
1 TGCTT
7337868 TAAGTTGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.02, C:0.43, G:0.17, T:0.38
Consensus pattern (21 bp):
TGCTTCCCTCACTGCTGCCTC
Found at i:7345479 original size:9 final size:9
Alignment explanation
Indices: 7345465--7345511 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 9
7345455 TATGTATTAC
7345465 GTAAGTTAT
1 GTAAGTTAT
7345474 GTAAGTTAT
1 GTAAGTTAT
* *
7345483 GATATGATAT
1 G-TAAGTTAT
7345493 GTAAGTTAT
1 GTAAGTTAT
7345502 GTAAGTTAT
1 GTAAGTTAT
7345511 G
1 G
7345512 ATTATCATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 26 0.79
10 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:7346744 original size:24 final size:24
Alignment explanation
Indices: 7346717--7346762 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
7346707 TTATAATACA
7346717 ATATTAATTTTAGATACAAATATG
1 ATATTAATTTTAGATACAAATATG
**
7346741 ATATTAATTTTTTATACAAATA
1 ATATTAATTTTAGATACAAATA
7346763 GTATTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (24 bp):
ATATTAATTTTAGATACAAATATG
Found at i:7348413 original size:72 final size:73
Alignment explanation
Indices: 7348283--7348442 Score: 198
Period size: 72 Copynumber: 2.2 Consensus size: 73
7348273 GCTCGATCTA
* * *
7348283 TTGCGGCGTTTTTCACCTAGCACCGCTAATGCCACTAAAAACGAAGCCATTTGATTTAAAGTAAA
1 TTGCAGCGTTTTTTACCTAACACCGCTAATGCCACTAAAAACGAAGCCATTTGATTTAAAGTAAA
7348348 ATG-TTTT
66 ATGTTTTT
* * * ** **
7348355 TTGCTGCGTTTTTTACCTAACGCCGCTAATGCCACTAAAAATGGCGTCGTTTTG-TTTAAAGTAA
1 TTGCAGCGTTTTTTACCTAACACCGCTAATGCCACTAAAAACGAAG-CCATTTGATTTAAAGTAA
7348419 AATGTTTTT
65 AATGTTTTT
*
7348428 TTGCAGCATTTTTTA
1 TTGCAGCGTTTTTTA
7348443 TTAAAAAGCC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
72 53 0.71
73 22 0.29
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (73 bp):
TTGCAGCGTTTTTTACCTAACACCGCTAATGCCACTAAAAACGAAGCCATTTGATTTAAAGTAAA
ATGTTTTT
Found at i:7348595 original size:35 final size:35
Alignment explanation
Indices: 7348550--7348617 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
7348540 ATTTAATTTG
* *
7348550 TAATGTTTTATAATTGTGTACGAAAATAATTTTTA
1 TAATATTTTATAATTGTGTACAAAAATAATTTTTA
7348585 TAATATTTTATAATTGTGTACAAAAATAATTTT
1 TAATATTTTATAATTGTGTACAAAAATAATTTT
7348618 AAAAAATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (35 bp):
TAATATTTTATAATTGTGTACAAAAATAATTTTTA
Found at i:7348956 original size:7 final size:7
Alignment explanation
Indices: 7348938--7349005 Score: 73
Period size: 7 Copynumber: 9.6 Consensus size: 7
7348928 CTCAAAAAAA
*
7348938 CTAAACA
1 CTAAACC
7348945 CTAAACC
1 CTAAACC
*
7348952 ATAAAACC
1 CT-AAACC
7348960 CTAAACC
1 CTAAACC
*
7348967 CTAGACC
1 CTAAACC
*
7348974 TTAAACC
1 CTAAACC
* *
7348981 TTAAATC
1 CTAAACC
7348988 CTAAACC
1 CTAAACC
7348995 CTAAACC
1 CTAAACC
7349002 CTAA
1 CTAA
7349006 TATAAAATAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
7 45 0.88
8 6 0.12
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:7349176 original size:41 final size:41
Alignment explanation
Indices: 7349026--7349185 Score: 180
Period size: 41 Copynumber: 3.9 Consensus size: 41
7349016 TTTTTTGTGA
* * *
7349026 CGTTTTTATCAAAAACGCCGATATTGCTT-A-CTTATTGCGG
1 CGTTTTTATCATAAACGCCGCTACTGCTTGACCTT-TTGCGG
* * * *
7349066 CGTTTTTCTCATAAACGCCGCTACTGCTAGATCTTTTGCAG
1 CGTTTTTATCATAAACGCCGCTACTGCTTGACCTTTTGCGG
* * * *
7349107 CGTTTTTTTTATAAACGCCGCTATTGCTTGACCTTTTGTGG
1 CGTTTTTATCATAAACGCCGCTACTGCTTGACCTTTTGCGG
* *
7349148 CGTTTTTAACATAAACGCCGCTACTGCTTAACCTTTTG
1 CGTTTTTATCATAAACGCCGCTACTGCTTGACCTTTTG
7349186 GTGCATTTTC
Statistics
Matches: 100, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 24 0.24
41 73 0.73
42 3 0.03
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (41 bp):
CGTTTTTATCATAAACGCCGCTACTGCTTGACCTTTTGCGG
Found at i:7349780 original size:22 final size:22
Alignment explanation
Indices: 7349746--7349788 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
7349736 TATCAAAACA
7349746 ATAATAACAAAAT-AGTAGCAAT
1 ATAATAACAAAATGA-TAGCAAT
* *
7349768 ATAATAGCGAAATGATAGCAA
1 ATAATAACAAAATGATAGCAA
7349789 AACAATGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAATAACAAAATGATAGCAAT
Found at i:7351792 original size:46 final size:46
Alignment explanation
Indices: 7351737--7351828 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
7351727 AGGCAAAGTA
*
7351737 TGAATCAATTCCGTTCCAGCTCTCTACAATATTTTGAAAGATGTCT
1 TGAATCAATTCCATTCCAGCTCTCTACAATATTTTGAAAGATGTCT
7351783 TGAATCAATTCCATTCCAGCTCTCTACAATATTTTGAAAGATGTCT
1 TGAATCAATTCCATTCCAGCTCTCTACAATATTTTGAAAGATGTCT
7351829 CGTGCACTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (46 bp):
TGAATCAATTCCATTCCAGCTCTCTACAATATTTTGAAAGATGTCT
Found at i:7355606 original size:18 final size:18
Alignment explanation
Indices: 7355583--7355617 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7355573 ATTATTTTAA
*
7355583 AATTTTAAAATATAAATT
1 AATTTTAAAACATAAATT
*
7355601 AATTTTGAAACATAAAT
1 AATTTTAAAACATAAAT
7355618 ATTATTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
AATTTTAAAACATAAATT
Found at i:7359527 original size:2 final size:2
Alignment explanation
Indices: 7359520--7359545 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7359510 TATTTTACGA
7359520 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
7359546 TTATTTGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:7360024 original size:7 final size:7
Alignment explanation
Indices: 7360014--7360060 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
7360004 ATTTTACTTT
7360014 TTTTATA
1 TTTTATA
7360021 TTTTATA
1 TTTTATA
*
7360028 TTTTTTA
1 TTTTATA
7360035 GTTTTAT-
1 -TTTTATA
*
7360042 GTTTATA
1 TTTTATA
7360049 TTTTA-A
1 TTTTATA
7360055 TTTTAT
1 TTTTAT
7360061 TAATAAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 11 0.33
7 17 0.52
8 5 0.15
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (7 bp):
TTTTATA
Found at i:7360415 original size:89 final size:89
Alignment explanation
Indices: 7360259--7360436 Score: 196
Period size: 89 Copynumber: 2.0 Consensus size: 89
7360249 CATTCTACCG
* * * *
7360259 TTAAAATGTATTTAGTTACCAAACATAATTTCAATGTAGCCTTCCTTTGATTGATATAAAAATAA
1 TTAAAATGTATTTAGTTACCAAACAGAATGTCAATGTAGCCTTCCTTTGATGGATATAAAAACAA
* * *
7360324 ATTTAACTGTTAATATTTTACACA
66 ATTTAACCGCTAATATTTCACACA
* * * * * * * *
7360348 TTAAAATGTATTT-GATTACCAAATAGAGTGTCAATGTGGCCTTCTTTTTATGGGTTTAATAACA
1 TTAAAATGTATTTAG-TTACCAAACAGAATGTCAATGTAGCCTTCCTTTGATGGATATAAAAACA
*
7360412 AATTTAGCCGCTAATATTTCACACA
65 AATTTAACCGCTAATATTTCACACA
7360437 CCCTATCAAG
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
88 1 0.01
89 71 0.99
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (89 bp):
TTAAAATGTATTTAGTTACCAAACAGAATGTCAATGTAGCCTTCCTTTGATGGATATAAAAACAA
ATTTAACCGCTAATATTTCACACA
Found at i:7360571 original size:26 final size:25
Alignment explanation
Indices: 7360520--7360574 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
7360510 TTATTATTCT
* *
7360520 AAATATTTAAAAAATTATAATTATA
1 AAATATTTAAAAAACTATAATAATA
7360545 AAATATTTAAAAAAAACTATAA-AATA
1 AAATATTT--AAAAAACTATAATAATA
7360571 AAAT
1 AAAT
7360575 GATTCAACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 8 0.31
26 7 0.27
27 11 0.42
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
AAATATTTAAAAAACTATAATAATA
Found at i:7365112 original size:18 final size:17
Alignment explanation
Indices: 7365085--7365118 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7365075 ACTGCTGTAG
*
7365085 AAAGAAAGAAGAAAAGA
1 AAAGAAAGAAAAAAAGA
7365102 AAAGAAAAGAAAAAAAG
1 AAAG-AAAGAAAAAAAG
7365119 GAGTTCGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAAAAAAGA
Found at i:7374451 original size:7 final size:7
Alignment explanation
Indices: 7374439--7374464 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7374429 AGGGGGTTAG
7374439 TACCATA
1 TACCATA
7374446 TACCATA
1 TACCATA
7374453 TACCATA
1 TACCATA
7374460 TACCA
1 TACCA
7374465 CAAGCATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (7 bp):
TACCATA
Found at i:7380331 original size:21 final size:21
Alignment explanation
Indices: 7380289--7380331 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7380279 AACAGCGGTG
* ** *
7380289 GCGGTGAGATTGGTTACTATA
1 GCGGTGAGATTAGAAACAATA
7380310 GCGGTGAGATTAGAAACAATA
1 GCGGTGAGATTAGAAACAATA
7380331 G
1 G
7380332 TAGAGTACCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.09, G:0.33, T:0.26
Consensus pattern (21 bp):
GCGGTGAGATTAGAAACAATA
Found at i:7380387 original size:77 final size:77
Alignment explanation
Indices: 7380260--7380406 Score: 276
Period size: 77 Copynumber: 1.9 Consensus size: 77
7380250 TAGTAAGACA
7380260 TACCTCCGGTAAGGTTAAAAACAGCGGTGGCGGTGAGATTGGTTACTATAGCGGTGAGATTAGAA
1 TACCTCCGGTAAGGTTAAAAACAGCGGTGGCGGTGAGATTGGTTACTATAGCGGTGAGATTAGAA
7380325 ACAATAGTAGAG
66 ACAATAGTAGAG
* *
7380337 TACCTCCGGTGAGGTTAAAAATAGCGGTGGCGGTGAGATTGGTTACTATAGCGGTGAGATTAGAA
1 TACCTCCGGTAAGGTTAAAAACAGCGGTGGCGGTGAGATTGGTTACTATAGCGGTGAGATTAGAA
7380402 ACAAT
66 ACAAT
7380407 GGTGGAGTGT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 68 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.24
Consensus pattern (77 bp):
TACCTCCGGTAAGGTTAAAAACAGCGGTGGCGGTGAGATTGGTTACTATAGCGGTGAGATTAGAA
ACAATAGTAGAG
Found at i:7395472 original size:21 final size:20
Alignment explanation
Indices: 7395387--7395491 Score: 61
Period size: 20 Copynumber: 5.2 Consensus size: 20
7395377 CTTAGGGTTT
*
7395387 GGTTCGAGATT-AAGTTTCAG
1 GGTTCGAGGTTAAAGTTT-AG
* ** *
7395407 TGTTCG-GGTTTGAGTTTTG
1 GGTTCGAGGTTAAAGTTTAG
* * *
7395426 GATTCGAGGCTCAATGTTTAAG
1 GGTTCGAGG-TTAAAGTTT-AG
*
7395448 GGTTCGGGGTTACAAGTTTAG
1 GGTTCGAGGTTA-AAGTTTAG
* *
7395469 GGTTCGAGTTTAAAGTTTTG
1 GGTTCGAGGTTAAAGTTTAG
7395489 GGT
1 GGT
7395492 CTAAGGTTCA
Statistics
Matches: 62, Mismatches: 18, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
19 8 0.13
20 22 0.35
21 19 0.31
22 13 0.21
ACGTcount: A:0.19, C:0.09, G:0.33, T:0.39
Consensus pattern (20 bp):
GGTTCGAGGTTAAAGTTTAG
Found at i:7395486 original size:20 final size:21
Alignment explanation
Indices: 7395419--7395491 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
7395409 TTCGGGTTTG
* * *
7395419 AGTTTTGGATTCGAGGCT-CA
1 AGTTTAGGGTTCGAGGTTACA
*
7395439 ATGTTTAAGGGTTCGGGGTTACA
1 A-GTTT-AGGGTTCGAGGTTACA
*
7395462 AGTTTAGGGTTCGAGTTTA-A
1 AGTTTAGGGTTCGAGGTTACA
*
7395482 AGTTTTGGGT
1 AGTTTAGGGT
7395492 CTAAGGTTCA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 11 0.26
21 16 0.37
22 13 0.30
23 3 0.07
ACGTcount: A:0.21, C:0.08, G:0.33, T:0.38
Consensus pattern (21 bp):
AGTTTAGGGTTCGAGGTTACA
Found at i:7396165 original size:15 final size:14
Alignment explanation
Indices: 7396132--7396165 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7396122 CTAGTTGACA
7396132 ATTTTTTAAAAACT
1 ATTTTTTAAAAACT
* *
7396146 ATTTTTTGAAAATT
1 ATTTTTTAAAAACT
7396160 ATTTTT
1 ATTTTT
7396166 AATAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (14 bp):
ATTTTTTAAAAACT
Found at i:7396951 original size:26 final size:24
Alignment explanation
Indices: 7396914--7396965 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
7396904 TAAATATAAA
*
7396914 TATATATGTTTAATAATATTGAAAAT
1 TATATATGTTTAA-AA-ATTAAAAAT
7396940 TATAGTAT-TTTAAAAATTAAAAAT
1 TATA-TATGTTTAAAAATTAAAAAT
7396964 TA
1 TA
7396966 AAAATTTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 10 0.42
25 2 0.08
26 9 0.38
27 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (24 bp):
TATATATGTTTAAAAATTAAAAAT
Found at i:7403177 original size:85 final size:85
Alignment explanation
Indices: 7403034--7403204 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
7403024 ATCTTAAATG
7403034 GCTAATTGTGAGAATATTCCTTTCTTTCTCGGTGGGTGTCACCAATGGTGGTCGGGTCACTAAAA
1 GCTAATTGTGAGAATATTCCTTTCTTTCTCGGTGGGTGTCACCAATGGTGGTCGGGTCACTAAAA
7403099 AGGTTCGCCGGCGAGAGGAA
66 AGGTTCGCCGGCGAGAGGAA
7403119 GCTAATTGTGAGAATATTCCTTTCTTTCTCGGTGGGTGTCACCAATGGTGGTCGGGTCACTAAAA
1 GCTAATTGTGAGAATATTCCTTTCTTTCTCGGTGGGTGTCACCAATGGTGGTCGGGTCACTAAAA
7403184 AGGTTCGCCGGCGAGAGGAA
66 AGGTTCGCCGGCGAGAGGAA
7403204 G
1 G
7403205 AGTCGCTGGA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (85 bp):
GCTAATTGTGAGAATATTCCTTTCTTTCTCGGTGGGTGTCACCAATGGTGGTCGGGTCACTAAAA
AGGTTCGCCGGCGAGAGGAA
Found at i:7404146 original size:16 final size:17
Alignment explanation
Indices: 7404118--7404151 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
7404108 TTAAACAAGT
*
7404118 ATAAAAGACAAAATAAA
1 ATAAAAGACAAAACAAA
7404135 ATAAAA-ACAAAACAAA
1 ATAAAAGACAAAACAAA
7404151 A
1 A
7404152 CATTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.79, C:0.09, G:0.03, T:0.09
Consensus pattern (17 bp):
ATAAAAGACAAAACAAA
Found at i:7405173 original size:22 final size:22
Alignment explanation
Indices: 7405148--7405189 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7405138 TGATTCATAA
* *
7405148 ATGTTAGCTTGTGTGAGCAAAT
1 ATGTCAGCTTGTATGAGCAAAT
7405170 ATGTCAGCTTGTATGAGCAA
1 ATGTCAGCTTGTATGAGCAA
7405190 TTCTGATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (22 bp):
ATGTCAGCTTGTATGAGCAAAT
Found at i:7407425 original size:581 final size:581
Alignment explanation
Indices: 7406322--7407486 Score: 2102
Period size: 581 Copynumber: 2.0 Consensus size: 581
7406312 AGACTCAGAA
7406322 AAAAAATTGAGACTCAATGTGTTTAGAATATAACTAAATGTTTGAATGGTTTAATTACGGTATAT
1 AAAAAATTGAGACTCAATGTGTTTAGAATATAACTAAATGTTTGAATGGTTTAATTACGGTATAT
* *
7406387 TTTATAGTAATTACTCCAGAAACGGATGTGGCATCTTATAGCTTAGATCTAGCGGTCGGGTCGGG
66 TTTATAGTAATTACTCCAGAAACGAATGTGGCATCTTATAGCTTAGACCTAGCGGTCGGGTCGGG
*
7406452 TAAGGGGTGTTACAAAAACTATGTCTTTCAAAGATCGGCTTATGGCTAGTGATCAAGGATAAAAT
131 TAAGGGGTGTTACAAAAACTATGTCTTTCAAAGATCAGCTTATGGCTAGTGATCAAGGATAAAAT
* *
7406517 AAATTTAATACGATGGGCGGTTACAATAAGGACATTGTTATTGTGGATGGGGATTTTGCAACGAG
196 AAATTTAATACGATGGGCGGTTACAATAAGGACATTGTTATTATGGATGGGGATTTTACAACGAG
* *
7406582 AACGATTGATGAAGTCTGTTCTATCAAGTTCTCGGAGAGATTTCATAAGTTGATAGAGATAAGTA
261 AACGATTGATGAAGTCTGTTCTATCAAGTTCTCGGAGAGAGTTCATAAGTCGATAGAGATAAGTA
*
7406647 TAGAGCGAACGATGGTTGTTAAGTTGTTAGGAACGAGGACTAAACTTAACGCTTTGTACAATCAT
326 TAGAGCGAACAATGGTTGTTAAGTTGTTAGGAACGAGGACTAAACTTAACGCTTTGTACAATCAT
*
7406712 ATTTATGCTTTGTGAAAACCACAACCATATGTTCATCTTATGGATGTTGATAATGATTATTTTTT
391 ATTTATGCATTGTGAAAACCACAACCATATGTTCATCTTATGGATGTTGATAATGATTATTTTTT
*
7406777 GGCTAAGTTCAAAAATGAGAATAATTTTTTGACAGCTTTATCGAAAAGTCCATGAATCGTGTACG
456 GGCTAAGTTCAAAAATGAGAATAATTTTTCGACAGCTTTATCGAAAAGTCCATGAATCGTGTACG
*
7406842 ACCATTATGTTACTGTCCAACCATGGACTCCTATGTTCAATACAAGTCAACCTTATCCTCT
521 ACCATTATGTTACTGTCCAACCATGGACTCCCATGTTCAATACAAGTCAACCTTATCCTCT
*
7406903 AAAAAATTGAGACTCAATGTGTTTAGAATATAATTAAATGTTTGAATGGTTTAATTGA-GGTATA
1 AAAAAATTGAGACTCAATGTGTTTAGAATATAACTAAATGTTTGAATGGTTTAATT-ACGGTATA
*
7406967 TTTTATAGTAATTACTCCAGAAACGAATGTGGTATCTTATAGCTTAGACCTAGCGGTCGGGTCGG
65 TTTTATAGTAATTACTCCAGAAACGAATGTGGCATCTTATAGCTTAGACCTAGCGGTCGGGTCGG
*
7407032 GTAAGGGGTGTTACAAAAACTATGTCTTTCAAAGATCAGCTTATGGCTAGTGGTCAAGGATAAAA
130 GTAAGGGGTGTTACAAAAACTATGTCTTTCAAAGATCAGCTTATGGCTAGTGATCAAGGATAAAA
*
7407097 -AAATTTTAATACGATGGGTGGTTACAATAAGGACATTGTTATTATGGATGGGGATTTTACAACG
195 TAAA-TTTAATACGATGGGCGGTTACAATAAGGACATTGTTATTATGGATGGGGATTTTACAACG
7407161 AGAACGATTGATGAAGTCTGTTCTATCAAGTTCTCGGAGAGAGTTCATAAGTCGATAGAGATAAG
259 AGAACGATTGATGAAGTCTGTTCTATCAAGTTCTCGGAGAGAGTTCATAAGTCGATAGAGATAAG
* * *
7407226 TATAGAGCGAACAATGGTTGTTAAGTTGTTAGGAACGAGGACTGAATTTAACGCTTTGTACAATT
324 TATAGAGCGAACAATGGTTGTTAAGTTGTTAGGAACGAGGACTAAACTTAACGCTTTGTACAATC
7407291 ATATTTATGCATTGTGAAAACCACAACCATATGTTCATCTTATGGATGTTGATAATGATTATTTT
389 ATATTTATGCATTGTGAAAACCACAACCATATGTTCATCTTATGGATGTTGATAATGATTATTTT
* *
7407356 TTGGCTAAGTTCAAAAATGAGAATAATTTTTCGACAGCTTTATCGAAAGGTCCAT-AGGTCGTGT
454 TTGGCTAAGTTCAAAAATGAGAATAATTTTTCGACAGCTTTATCGAAAAGTCCATGA-ATCGTGT
7407420 ACGACCATTATGTTACTGTCCAACCATGGACTCCCATGTTCAATACAAGTCAACCTTATCCTCT
518 ACGACCATTATGTTACTGTCCAACCATGGACTCCCATGTTCAATACAAGTCAACCTTATCCTCT
7407484 AAA
1 AAA
7407487 TGTCGTTGCA
Statistics
Matches: 561, Mismatches: 20, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
580 4 0.01
581 556 0.99
582 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (581 bp):
AAAAAATTGAGACTCAATGTGTTTAGAATATAACTAAATGTTTGAATGGTTTAATTACGGTATAT
TTTATAGTAATTACTCCAGAAACGAATGTGGCATCTTATAGCTTAGACCTAGCGGTCGGGTCGGG
TAAGGGGTGTTACAAAAACTATGTCTTTCAAAGATCAGCTTATGGCTAGTGATCAAGGATAAAAT
AAATTTAATACGATGGGCGGTTACAATAAGGACATTGTTATTATGGATGGGGATTTTACAACGAG
AACGATTGATGAAGTCTGTTCTATCAAGTTCTCGGAGAGAGTTCATAAGTCGATAGAGATAAGTA
TAGAGCGAACAATGGTTGTTAAGTTGTTAGGAACGAGGACTAAACTTAACGCTTTGTACAATCAT
ATTTATGCATTGTGAAAACCACAACCATATGTTCATCTTATGGATGTTGATAATGATTATTTTTT
GGCTAAGTTCAAAAATGAGAATAATTTTTCGACAGCTTTATCGAAAAGTCCATGAATCGTGTACG
ACCATTATGTTACTGTCCAACCATGGACTCCCATGTTCAATACAAGTCAACCTTATCCTCT
Found at i:7409612 original size:40 final size:40
Alignment explanation
Indices: 7409575--7409839 Score: 342
Period size: 40 Copynumber: 6.7 Consensus size: 40
7409565 GCTACTCGTT
*
7409575 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
7409615 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
7409655 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
7409695 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
7409735 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
7409774 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
7409815 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
7409840 CATCATTCAA
Statistics
Matches: 199, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 34 0.17
40 148 0.74
41 15 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:7413075 original size:41 final size:41
Alignment explanation
Indices: 7413015--7413118 Score: 174
Period size: 41 Copynumber: 2.5 Consensus size: 41
7413005 TTTAACATAT
*
7413015 TCACCGGCACTTAGTCTGCTAGGCTTATAGA-CTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATA-ACCTGATTCAGA
*
7413056 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
7413097 TCACCGGCACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
7413119 ACATAAAGTC
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 1 0.02
41 59 0.98
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:7425635 original size:18 final size:18
Alignment explanation
Indices: 7425608--7425700 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
7425598 CCCAACTACT
*
7425608 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
7425626 GTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
7425644 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
7425662 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
7425680 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
7425698 GTA
1 GTA
7425701 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:7425660 original size:36 final size:36
Alignment explanation
Indices: 7425608--7425700 Score: 159
Period size: 36 Copynumber: 2.6 Consensus size: 36
7425598 CCCAACTACT
* *
7425608 GTATACGTGAACAGTACCGTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
7425644 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
7425680 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
7425701 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:7435493 original size:4 final size:4
Alignment explanation
Indices: 7435486--7435515 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
7435476 GATTATGGAT
7435486 GGAG GGAG GGAG GGAG GGAG GGAG GGAG GG
1 GGAG GGAG GGAG GGAG GGAG GGAG GGAG GG
7435516 GGGCCCACTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.77, T:0.00
Consensus pattern (4 bp):
GGAG
Found at i:7439661 original size:16 final size:16
Alignment explanation
Indices: 7439636--7439666 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7439626 TGATATACAA
*
7439636 AAAAAGGAAAAAAAAG
1 AAAAACGAAAAAAAAG
7439652 AAAAACGAAAAAAAA
1 AAAAACGAAAAAAAA
7439667 ATTTTGGGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAACGAAAAAAAAG
Found at i:7439913 original size:101 final size:101
Alignment explanation
Indices: 7439659--7439919 Score: 330
Period size: 101 Copynumber: 2.5 Consensus size: 101
7439649 AAGAAAAACG
*
7439659 AAAAAAAAATTTTGGGTGCTGGCCTTTCAATGGCCGGCACCCAGTACAATTTTTTTAAAAAAAAA
1 AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCC-GCACCCAGTACAA---TTTTAAAAAAAAA
** *
7439724 TTCTTTTTTTTGTCAGAGTCAGATATCAGTATACGAAAAAAAT
62 ---TTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAAT
* * * *
7439767 AAAAAAAAA-TTTGGGTGTTGGCCTGTCAATGACCTGGACCTAGTACAATTTT-AAAAAAAA-TT
1 AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCC-GCACCCAGTACAATTTTAAAAAAAAATTT
*
7439829 TTCGTGTCTGAATCAGATATCAGTATACGAAAAAAAT
65 TTCGTGTCAGAATCAGATATCAGTATACGAAAAAAAT
7439866 AAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAATTTT
1 -AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCG-CACCCAGTACAATTTT
7439920 TTTTTAAATT
Statistics
Matches: 136, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
99 35 0.26
100 10 0.07
101 37 0.27
103 8 0.06
104 4 0.03
107 33 0.24
108 9 0.07
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (101 bp):
AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGCACCCAGTACAATTTTAAAAAAAAATTTT
TCGTGTCAGAATCAGATATCAGTATACGAAAAAAAT
Found at i:7440185 original size:108 final size:110
Alignment explanation
Indices: 7439977--7440186 Score: 325
Period size: 108 Copynumber: 1.9 Consensus size: 110
7439967 CACAAAAAAA
* *
7439977 TTTTTAAAATTGTACTGGGTGCCGGCCATTCACAGGCCTGCAACCAAAAAATTTTTTTTATTTTT
1 TTTTTAAAATTGCACTGGGTGCCGGCCATTCACAGGCCAGCAACCAAAAAATTTTTTTTATTTTT
* *
7440042 TTCGTATACTGATATCTGATTCTAACACGAAAAAAAAGAATTTTT
66 TTCGTATACTGATATCTGACTCTAACACAAAAAAAAAGAATTTTT
* * *
7440087 TTTTTAAAATTGCACTGGGTGCCGGCCATTGACAGGCCAGC-ACC-CAAATTTTTTTTTATTTTT
1 TTTTTAAAATTGCACTGGGTGCCGGCCATTCACAGGCCAGCAACCAAAAAATTTTTTTTATTTTT
* *
7440150 TTCGTATACTGATATCTTACTCTGACACAAAAAAAAA
66 TTCGTATACTGATATCTGACTCTAACACAAAAAAAAA
7440187 TTTAAATTTG
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 50 0.55
109 3 0.03
110 38 0.42
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (110 bp):
TTTTTAAAATTGCACTGGGTGCCGGCCATTCACAGGCCAGCAACCAAAAAATTTTTTTTATTTTT
TTCGTATACTGATATCTGACTCTAACACAAAAAAAAAGAATTTTT
Found at i:7440844 original size:51 final size:50
Alignment explanation
Indices: 7440711--7440902 Score: 233
Period size: 51 Copynumber: 3.8 Consensus size: 50
7440701 TGACCATTGT
* * *
7440711 TATCTGATACACGTAGTAGCCTACACATAGTACTATACACGTGATCAAGC
1 TATCTGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGC
* * * *
7440761 TTTCCGGTTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGGC
1 TATCTGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAA-GC
* * * * *
7440812 CATCTGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATC
1 TATCTGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA--AGC
*
7440864 TATC-GATACACGTAGTAGCCTGCACTTAGTACTACACAC
1 TATCTGATACACGTAGTAGCCTGCACATAGTACTACACAC
7440903 ATGTTCCTAG
Statistics
Matches: 120, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
50 41 0.34
51 74 0.62
52 4 0.03
53 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
TATCTGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGC
Found at i:7444139 original size:23 final size:23
Alignment explanation
Indices: 7444112--7444233 Score: 172
Period size: 23 Copynumber: 5.3 Consensus size: 23
7444102 AGTGTTATTG
7444112 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
7444135 TTCAGTGATAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
7444158 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * ** *
7444181 TTCAGTGGTAGCTACAACTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
7444204 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
7444227 ATCAGTG
1 ATCAGTG
7444234 TGGCGCTTGT
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 83 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:7444165 original size:46 final size:46
Alignment explanation
Indices: 7444112--7444233 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
7444102 AGTGTTATTG
**
7444112 ATCAGTGGTAGCTTCGGCTACATTTCAGTGATAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGATAGCTACAACTACAT
* *
7444158 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACAACTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGATAGCTACAACTACAT
*
7444204 ATCAGTGGTAGCTTCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
7444234 TGGCGCTTGT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGATAGCTACAACTACAT
Found at i:7445476 original size:49 final size:49
Alignment explanation
Indices: 7445413--7445535 Score: 228
Period size: 49 Copynumber: 2.5 Consensus size: 49
7445403 CAATAAGTGA
*
7445413 TATGTGATTCCGTGTAAGACCATAGCTGCGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTGCGCTATGGCATCGGTATATGT
*
7445462 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTGCGCTATGGCATCGGTATATGT
7445511 TATGTGATTACGTGTAAGACCATAG
1 TATGTGATTACGTGTAAGACCATAG
7445536 TTGGACTATG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 72 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (49 bp):
TATGTGATTACGTGTAAGACCATAGCTGCGCTATGGCATCGGTATATGT
Found at i:7445545 original size:49 final size:48
Alignment explanation
Indices: 7445413--7445551 Score: 224
Period size: 49 Copynumber: 2.8 Consensus size: 48
7445403 CAATAAGTGA
*
7445413 TATGTGATTCCGTGTAAGACCATAGCTGCGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTG-GCTATGGCATCGGTATATGT
7445462 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCT-GGCTATGGCATCGGTATATGT
* *
7445511 TATGTGATTACGTGTAAGACCATAGTTGGACTATGACATCG
1 TATGTGATTACGTGTAAGACCATAGCTGG-CTATGGCATCG
7445552 AGAAAATAAG
Statistics
Matches: 85, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
48 2 0.02
49 82 0.96
50 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (48 bp):
TATGTGATTACGTGTAAGACCATAGCTGGCTATGGCATCGGTATATGT
Found at i:7446566 original size:21 final size:21
Alignment explanation
Indices: 7446524--7446650 Score: 89
Period size: 21 Copynumber: 6.1 Consensus size: 21
7446514 GTACATCATT
7446524 AACAGAAGCTCGA-AAG--CTG
1 AACAGAAGCTC-ATAAGAACTG
*
7446543 AACAGAAGCTCGTAAGAACTG
1 AACAGAAGCTCATAAGAACTG
* * * ** *
7446564 AACAAAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAACTG
7446585 AACAGAAGCTCATAAGAACTG
1 AACAGAAGCTCATAAGAACTG
* * ** *
7446606 AACAGAAACTCACAAGAGTTT
1 AACAGAAGCTCATAAGAACTG
* * *
7446627 AACAAAAGCTCAAAAGAGCTG
1 AACAGAAGCTCATAAGAACTG
7446648 AAC
1 AAC
7446651 GAAAACTCAT
Statistics
Matches: 81, Mismatches: 24, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
19 14 0.17
21 67 0.83
ACGTcount: A:0.48, C:0.19, G:0.18, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAACTG
Found at i:7446602 original size:42 final size:42
Alignment explanation
Indices: 7446543--7446679 Score: 193
Period size: 42 Copynumber: 3.3 Consensus size: 42
7446533 TCGAAAGCTG
*
7446543 AACAGAAGCTCGTAAGAACTGAACAAAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAACTGAACAAAAACTCATATGAGTTA
* * * *
7446585 AACAGAAGCTCATAAGAACTGAACAGAAACTCACAAGAGTTT
1 AACAGAAGCTCATAAGAACTGAACAAAAACTCATATGAGTTA
* * * *
7446627 AACAAAAGCTCAAAAGAGCTGAACGAAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAACTGAACAAAAACTCATATGAGTTA
7446669 AACAGAAGCTC
1 AACAGAAGCTC
7446680 GTAAAGCTAA
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 81 1.00
ACGTcount: A:0.48, C:0.18, G:0.17, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAACTGAACAAAAACTCATATGAGTTA
Found at i:7456471 original size:25 final size:25
Alignment explanation
Indices: 7456410--7456471 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
7456400 CAAGCTTCCC
* *
7456410 ATTAATAGCTCTTTGGAGCTTCCTG
1 ATTAATGGCTCTTTGGAACTTCCTG
*
7456435 A-TAACTGCCTCTTAT-GAACTTCCTG
1 ATTAA-TGGCTCTT-TGGAACTTCCTG
7456460 ATTAATGGCTCT
1 ATTAATGGCTCT
7456472 CCGGATCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
24 3 0.10
25 23 0.77
26 4 0.13
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (25 bp):
ATTAATGGCTCTTTGGAACTTCCTG
Found at i:7459897 original size:21 final size:21
Alignment explanation
Indices: 7459868--7459912 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
7459858 AAGTTTTAAG
*
7459868 CAAACACCAATCGTTATCATA
1 CAAACACCAATCGGTATCATA
* * *
7459889 CAAATACCATTCGGTATCTTA
1 CAAACACCAATCGGTATCATA
7459910 CAA
1 CAA
7459913 GTATTAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (21 bp):
CAAACACCAATCGGTATCATA
Found at i:7475741 original size:103 final size:106
Alignment explanation
Indices: 7475552--7475764 Score: 308
Period size: 103 Copynumber: 2.0 Consensus size: 106
7475542 TTTTTATTTA
7475552 TTTTGGGACACTGATGACCGGCACCAGTGTCATTTAAGAAAAAATTTTGAGTGCTGGCAAGTAGA
1 TTTTGGGACACTGATGACCGGCACCAGTGTCATTTAAGAAAAAATTTTGAGTGCTGGCAAGTAGA
* * *
7475617 TAGTCGGCACCAAGTATA-TTTTTCGACTCCCAATGCACTTT
66 TAGCCGACACCAAGTACATTTTTTC-ACTCCCAATGCACTTT
* * * *
7475658 TTTTGGGACACTGATGGCCGGCATCAGTGTCGTTT-A-AAAAAA-TTTGTGTGCTGGCAAGTAGA
1 TTTTGGGACACTGATGACCGGCACCAGTGTCATTTAAGAAAAAATTTTGAGTGCTGGCAAGTAGA
* *
7475720 TGGCCGACACCAAGTACATTTTTTCACTCCCAATGCATTTT
66 TAGCCGACACCAAGTACATTTTTTCACTCCCAATGCACTTT
7475761 TTTT
1 TTTT
7475765 ACTTTAGGAC
Statistics
Matches: 97, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
103 52 0.54
104 12 0.12
105 1 0.01
106 32 0.33
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (106 bp):
TTTTGGGACACTGATGACCGGCACCAGTGTCATTTAAGAAAAAATTTTGAGTGCTGGCAAGTAGA
TAGCCGACACCAAGTACATTTTTTCACTCCCAATGCACTTT
Found at i:7476706 original size:90 final size:91
Alignment explanation
Indices: 7476457--7476708 Score: 368
Period size: 90 Copynumber: 2.8 Consensus size: 91
7476447 TCATTTTTAT
*
7476457 ATTTTCGTGTATTAATTTTACCTATCTGTTTGTAGTTTGTTAGGTGTTTAAATTTAATTTAGTCT
1 ATTTTCGTGTATTAATTTTACCTATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCT
* * *
7476522 CTGTTATATATAGTTTGAATTTAAAA
66 GTATTATATATAGTTTAAATTTAAAA
* * * *
7476548 ATTTT-GTGCACTAATTTTATCC-ATCTATTTGTAGTTTGTTGGGTATTTAAATTTAATTTAGTC
1 ATTTTCGTGTATTAATTTTA-CCTATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTC
*
7476611 TGTATTATATGTAGTTTAAATTT-AAA
65 TGTATTATATATAGTTTAAATTTAAAA
*
7476637 ATTTTCGTATATTAATTTTACCTATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTGC
1 ATTTTCGTGTATTAATTTTACCTATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGT-C
7476702 -GTATTAT
65 TGTATTAT
7476709 TTTTGTTTGA
Statistics
Matches: 143, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
89 10 0.07
90 125 0.87
91 8 0.06
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.53
Consensus pattern (91 bp):
ATTTTCGTGTATTAATTTTACCTATCTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCT
GTATTATATATAGTTTAAATTTAAAA
Found at i:7480931 original size:20 final size:20
Alignment explanation
Indices: 7480894--7480932 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7480884 ATTTTAAAAT
**
7480894 ATTTTTAAAATACTTTTTTA
1 ATTTTTAAAATAAATTTTTA
7480914 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
7480933 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTTAAAATAAATTTTTA
Found at i:7481678 original size:21 final size:21
Alignment explanation
Indices: 7481614--7481680 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
7481604 TTTTTTTTTC
7481614 ATTTCATTTCCATTTAAATTT
1 ATTTCATTTCCATTTAAATTT
*
7481635 AATT-ATTTTCCATTTAAATTT
1 ATTTCA-TTTCCATTTAAATTT
7481656 ATTTCATTTCCATTTAAATTT
1 ATTTCATTTCCATTTAAATTT
7481677 ATTT
1 ATTT
7481681 TTCCTAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.02
21 40 0.95
22 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTCATTTCCATTTAAATTT
Found at i:7482004 original size:6 final size:5
Alignment explanation
Indices: 7481941--7482000 Score: 75
Period size: 6 Copynumber: 11.0 Consensus size: 5
7481931 TGACTTTTTT
7481941 TTTCA TTTCA TTTCTA TTTCTA TTTCTA TTTCA TTTCA TTTCA TTTTCA
1 TTTCA TTTCA TTTC-A TTTC-A TTTC-A TTTCA TTTCA TTTCA -TTTCA
7481990 TTTTCA TTTCA
1 -TTTCA TTTCA
7482001 ATTTTATTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
5 25 0.47
6 28 0.53
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTCA
Found at i:7482037 original size:27 final size:25
Alignment explanation
Indices: 7481996--7482085 Score: 80
Period size: 26 Copynumber: 3.6 Consensus size: 25
7481986 TTCATTTTCA
* *
7481996 TTTCAATTTTATTTAAATTATCTTT
1 TTTCCATTTAATTTAAATTATCTTT
7482021 TTATCCATTTAAATTT-AATT-T-TTT
1 TT-TCCATTT-AATTTAAATTATCTTT
* *
7482045 TCT-CATTTCATTTAAATTATCTTT
1 TTTCCATTTAATTTAAATTATCTTT
7482069 CTTTCCATTTTAATTTA
1 -TTTCCA-TTTAATTTA
7482086 TGTTTTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
21 4 0.08
22 9 0.18
23 2 0.04
24 7 0.14
25 5 0.10
26 12 0.24
27 12 0.24
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTCCATTTAATTTAAATTATCTTT
Found at i:7482063 original size:48 final size:48
Alignment explanation
Indices: 7482001--7482098 Score: 137
Period size: 48 Copynumber: 2.0 Consensus size: 48
7481991 TTTCATTTCA
*
7482001 ATTTTATTTAAATTATCTTT-TTATCCATTTAAATTTAAT-TTTTTTCTC
1 ATTTCATTTAAATTATCTTTCTT-TCCATTTAAATTT-ATGTTTTTTCTC
* *
7482049 ATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTATGTTTTTTTTC
1 ATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTATGTTTTTTCTC
7482097 AT
1 AT
7482099 ATTAATTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
47 2 0.04
48 41 0.91
49 2 0.04
ACGTcount: A:0.24, C:0.11, G:0.01, T:0.63
Consensus pattern (48 bp):
ATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTATGTTTTTTCTC
Found at i:7482077 original size:21 final size:21
Alignment explanation
Indices: 7482006--7482083 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 21
7481996 TTTCAATTTT
7482006 ATTTAAATTATCTTT-TTATCC
1 ATTTAAATTATCTTTCTT-TCC
* *
7482027 ATTTAAATTTAATTTTTTTCTCATTTC
1 ATTTAAA-TT-A--TCTTTCT--TTCC
7482054 ATTTAAATTATCTTTCTTTCC
1 ATTTAAATTATCTTTCTTTCC
*
7482075 ATTTTAATT
1 ATTTAAATT
7482084 TATGTTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
21 18 0.40
22 2 0.04
23 7 0.16
25 5 0.11
26 3 0.07
27 9 0.20
28 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAAATTATCTTTCTTTCC
Found at i:7482103 original size:22 final size:21
Alignment explanation
Indices: 7482033--7482106 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 21
7482023 ATCCATTTAA
7482033 ATTTAATTT-T-TTTCTCATTTC
1 ATTTAATTTATCTTTCT--TTTC
* *
7482054 ATTTAAATTATCTTTCTTTCC
1 ATTTAATTTATCTTTCTTTTC
* *
7482075 ATTTTAATTTATGTTTTTTTTC
1 A-TTTAATTTATCTTTCTTTTC
7482097 ATATTAATTT
1 AT-TTAATTT
7482107 TTCTCTCATT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
21 13 0.30
22 25 0.58
23 5 0.12
ACGTcount: A:0.23, C:0.11, G:0.01, T:0.65
Consensus pattern (21 bp):
ATTTAATTTATCTTTCTTTTC
Found at i:7482181 original size:44 final size:44
Alignment explanation
Indices: 7482129--7482323 Score: 311
Period size: 44 Copynumber: 4.5 Consensus size: 44
7482119 AATTTATTTC
**
7482129 ATTTAATGTGTTTTAAATTAAATATGTTTGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGCATGTATATTGTATTATA
7482173 ATTTAATGTG-TTTAAATTAAATATGCATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGCATGTATATTGTATTATA
* * *
7482216 ATTTAAGGTATTTTAAATTAAATATGCATGTATATTGTATAATA
1 ATTTAATGTGTTTTAAATTAAATATGCATGTATATTGTATTATA
* *
7482260 ATTTAATGTGCTTTAAATTAAATATTCATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGCATGTATATTGTATTATA
*
7482304 ATTTAACGTGTTTTAAATTA
1 ATTTAATGTGTTTTAAATTA
7482324 GGAATAAGAA
Statistics
Matches: 138, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
43 39 0.28
44 99 0.72
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.50
Consensus pattern (44 bp):
ATTTAATGTGTTTTAAATTAAATATGCATGTATATTGTATTATA
Found at i:7482343 original size:88 final size:87
Alignment explanation
Indices: 7482164--7482351 Score: 245
Period size: 88 Copynumber: 2.1 Consensus size: 87
7482154 GTTTGTATAT
* *
7482164 TGTATTATAATTTAATGTGTTTAAATTAAATATGCATGTATATTGTATTATAATTTAAGGTATTT
1 TGTATAATAATTTAATGTGTTTAAATTAAATATGCATGTATATTGTATTATAATTTAACGTATTT
* ** * *
7482229 TAAATTAAATATGCATGTATAT
66 TAAATTAAATAAGCATAAAAAA
* *
7482251 TGTATAATAATTTAATGTGCTTTAAATTAAATATTCATGTATATTGTATTATAATTTAACGTGTT
1 TGTATAATAATTTAATGTG-TTTAAATTAAATATGCATGTATATTGTATTATAATTTAACGTATT
7482316 TTAAATTAGGAATAAG-A-AAAAAA
65 TTAAATTA--AATAAGCATAAAAAA
7482339 TGTATTAATAATT
1 TGTA-TAATAATT
7482352 ATATTTAATC
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
87 18 0.20
88 56 0.64
89 9 0.10
90 5 0.06
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (87 bp):
TGTATAATAATTTAATGTGTTTAAATTAAATATGCATGTATATTGTATTATAATTTAACGTATTT
TAAATTAAATAAGCATAAAAAA
Found at i:7488506 original size:47 final size:48
Alignment explanation
Indices: 7488452--7488547 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
7488442 CTACAAGGTA
*
7488452 TTTGTAATAATAAA-CCTTTTAAAAATAGATCACCTCTGAGATTAAAT
1 TTTGTAATAATAAACCCTTTTAAAAATAGATCACCTATGAGATTAAAT
*
7488499 TTTGTAATAATAAACCCTTTTAAAAATAGATCATCTATGAGATTAAAT
1 TTTGTAATAATAAACCCTTTTAAAAATAGATCACCTATGAGATTAAAT
7488547 T
1 T
7488548 GGAAAGCATA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 14 0.30
48 32 0.70
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (48 bp):
TTTGTAATAATAAACCCTTTTAAAAATAGATCACCTATGAGATTAAAT
Found at i:7491194 original size:29 final size:30
Alignment explanation
Indices: 7491156--7491213 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
7491146 TAATATAAGC
*
7491156 TTGATAGTTTAGGGATGCAAT-TAAAATGAT
1 TTGATAGTTTAGGGA-CCAATGTAAAATGAT
7491186 TTGA-AGTTTAGGGACCAATGTAAAATGA
1 TTGATAGTTTAGGGACCAATGTAAAATGA
7491214 GGGGTCATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 4 0.15
29 18 0.69
30 4 0.15
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (30 bp):
TTGATAGTTTAGGGACCAATGTAAAATGAT
Found at i:7493272 original size:105 final size:105
Alignment explanation
Indices: 7493090--7493286 Score: 367
Period size: 105 Copynumber: 1.9 Consensus size: 105
7493080 GCTAAATTTA
7493090 GTTTTAAAAGTACAGTACTATTGCTAAATGTTTTTTTTTCCCTTTTTTTGGAGATTTTAAGAATG
1 GTTTTAAAAGTACAGTACTATTGCTAAATGTTTTTTTTTCCCTTTTTTTGGAGATTTTAAGAATG
7493155 TTAAAGAAGACATACTTTCAAGATTTTAAGAATGATAAAT
66 TTAAAGAAGACATACTTTCAAGATTTTAAGAATGATAAAT
* *
7493195 GTTTTAAAAGTACAGTACTATTGCTAAATGTTTTTTTTTTCCTTTTTTTGGCGATTTTAAGAATG
1 GTTTTAAAAGTACAGTACTATTGCTAAATGTTTTTTTTTCCCTTTTTTTGGAGATTTTAAGAATG
*
7493260 TTAAAGAAGACATACTTTCAAGGTTTT
66 TTAAAGAAGACATACTTTCAAGATTTT
7493287 TAGCGGAGAA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 89 1.00
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (105 bp):
GTTTTAAAAGTACAGTACTATTGCTAAATGTTTTTTTTTCCCTTTTTTTGGAGATTTTAAGAATG
TTAAAGAAGACATACTTTCAAGATTTTAAGAATGATAAAT
Found at i:7495463 original size:20 final size:21
Alignment explanation
Indices: 7495418--7495464 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
7495408 CAAAAATTAC
7495418 AAAAACATTCAAAATAATTTT
1 AAAAACATTCAAAATAATTTT
*
7495439 CAAAA-ATTCAAAAT-ATTTAT
1 AAAAACATTCAAAATAATTT-T
7495459 AAAAAC
1 AAAAAC
7495465 TACAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.18
20 14 0.64
21 4 0.18
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAACATTCAAAATAATTTT
Found at i:7502742 original size:30 final size:31
Alignment explanation
Indices: 7502703--7502762 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
7502693 AGAGATGAGA
*
7502703 TGGGAAGGGAATAAAAGTTTTAGG-GGAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGCGGAAAAG
*
7502734 TGGG-AGGGAGTAAAAATTTTGGCGGAAAA
1 TGGGAAGGGAATAAAAATTTTGGCGGAAAA
7502763 TAAAAGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.08
30 20 0.77
31 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGCGGAAAAG
Found at i:7503041 original size:12 final size:12
Alignment explanation
Indices: 7503024--7503053 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
7503014 ACTCAACTCG
7503024 ATTCGAAAAAAA
1 ATTCGAAAAAAA
7503036 ATTCGAAAAAAA
1 ATTCGAAAAAAA
7503048 ATTCGA
1 ATTCGA
7503054 GTTGATTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (12 bp):
ATTCGAAAAAAA
Found at i:7503728 original size:19 final size:19
Alignment explanation
Indices: 7503704--7503757 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
7503694 AATCTTCAAG
7503704 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7503723 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
7503742 AATATGCAATCTTAGA
1 GATATGCAATCTTAGA
7503758 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:7504100 original size:26 final size:26
Alignment explanation
Indices: 7504047--7504120 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 26
7504037 CCCCTCCGCC
* ***
7504047 TTTTAATATTTTTTTAATTAAGTTTTT
1 TTTTAAT-TTTTTTTAATTTACCCTTT
7504074 TTTTAATTTTTTTTAATTTACCCTTT
1 TTTTAATTTTTTTTAATTTACCCTTT
7504100 TATTT-ATTTTTATTTCAATTT
1 T-TTTAATTTTT-TTT-AATTT
7504121 GGTCTAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 22 0.55
27 13 0.32
28 5 0.12
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.70
Consensus pattern (26 bp):
TTTTAATTTTTTTTAATTTACCCTTT
Found at i:7504100 original size:27 final size:27
Alignment explanation
Indices: 7504047--7504120 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
7504037 CCCCTCCGCC
**
7504047 TTTTAATATTTTTTTAA-TTAAGTTTTT
1 TTTTAAT-TTTTTTTAATTTAACCTTTT
*
7504074 TTTTAATTTTTTTTAATTTACCCTTTT
1 TTTTAATTTTTTTTAATTTAACCTTTT
*
7504101 ATTT-ATTTTTATTTCAATTT
1 TTTTAATTTTT-TTT-AATTT
7504121 GGTCTAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 15 0.38
27 20 0.50
28 5 0.12
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.70
Consensus pattern (27 bp):
TTTTAATTTTTTTTAATTTAACCTTTT
Found at i:7509764 original size:12 final size:13
Alignment explanation
Indices: 7509731--7509756 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7509721 TCACAAATAT
7509731 ATATACAAGTAAA
1 ATATACAAGTAAA
7509744 ATATACAAGTAAA
1 ATATACAAGTAAA
7509757 TTTACAAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
ATATACAAGTAAA
Found at i:7510892 original size:22 final size:22
Alignment explanation
Indices: 7510867--7510912 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
7510857 TGAAAAAATA
*
7510867 AAAAAATAAGATAAAA-AAGAAC
1 AAAAAATAAAATAAAATAA-AAC
7510889 AAAAAATAAAATAAAATAAAAC
1 AAAAAATAAAATAAAATAAAAC
7510911 AA
1 AA
7510913 TAGACACGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.11
Consensus pattern (22 bp):
AAAAAATAAAATAAAATAAAAC
Found at i:7511514 original size:46 final size:45
Alignment explanation
Indices: 7511447--7511808 Score: 422
Period size: 46 Copynumber: 8.6 Consensus size: 45
7511437 TTTGAGTACT
* *
7511447 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
7511493 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
7511529 TCTGATCAAGTGAAAAAGTGATAA---GT-G-TTA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
7511565 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
7511601 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
7511647 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
7511693 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
7511739 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
7511784 TCTGATCAAG-G-ACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
7511809 ATTATACGTA
Statistics
Matches: 295, Mismatches: 8, Indels: 29
0.89 0.02 0.09
Matches are distributed among these distances:
36 98 0.33
38 1 0.00
39 2 0.01
40 4 0.01
42 4 0.01
43 15 0.05
44 2 0.01
45 23 0.08
46 145 0.49
47 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:7511529 original size:36 final size:36
Alignment explanation
Indices: 7511483--7511627 Score: 263
Period size: 36 Copynumber: 4.0 Consensus size: 36
7511473 GGTAGCTTTA
*
7511483 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
7511519 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
7511555 GTTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
7511591 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
7511627 G
1 G
7511628 GTAGCTTTAG
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 105 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (36 bp):
GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:7519999 original size:30 final size:31
Alignment explanation
Indices: 7519932--7520000 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
7519922 ATTTTTTAAA
* *
7519932 ATGTATATAGTTAAATCAAAATTAATGTTTC
1 ATGTATATAGTTAAACCAAAATTAAAGTTTC
* * *
7519963 A-ATATATATTTAAACCACAATTAAAG-TTC
1 ATGTATATAGTTAAACCAAAATTAAAGTTTC
7519992 ATGTATATA
1 ATGTATATA
7520001 ATTGCACATT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
29 4 0.13
30 26 0.84
31 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (31 bp):
ATGTATATAGTTAAACCAAAATTAAAGTTTC
Done.