Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000880.1 Hibiscus syriacus cultivar Beakdansim tig00001713_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: 1459553
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:532 original size:10 final size:10
Alignment explanation
Indices: 517--570 Score: 76
Period size: 10 Copynumber: 5.6 Consensus size: 10
507 AACGTTGGAA
517 ACCGGTTTTG
1 ACCGGTTTTG
*
527 ACCGG-TTTA
1 ACCGGTTTTG
536 ACCGGTTTTG
1 ACCGGTTTTG
*
546 AACGGTTTTG
1 ACCGGTTTTG
556 ACCGG-TTTG
1 ACCGGTTTTG
565 ACCGGT
1 ACCGGT
571 CACGACCCGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
9 17 0.45
10 21 0.55
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:540 original size:19 final size:19
Alignment explanation
Indices: 516--570 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
506 GAACGTTGGA
516 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
*
535 AACCGGTTTTGAACGGTTTT
1 AACCGGTTTTGACCGG-TTT
*
555 GACCGG-TTTGACCGGT
1 AACCGGTTTTGACCGGT
571 CACGACCCGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 23 0.72
20 8 0.25
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.35
Consensus pattern (19 bp):
AACCGGTTTTGACCGGTTT
Found at i:606 original size:18 final size:18
Alignment explanation
Indices: 583--621 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
573 CGACCCGTTT
583 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
601 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
619 ACC
1 ACC
622 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.18, C:0.51, G:0.21, T:0.10
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCG
Found at i:628 original size:12 final size:13
Alignment explanation
Indices: 573--605 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
563 TGACCGGTCA
*
573 CGACCCGTTTACC
1 CGACCCGTTGACC
586 CGACCCGTTGACC
1 CGACCCGTTGACC
599 CGACCCG
1 CGACCCG
606 ACCCGTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.48, G:0.21, T:0.15
Consensus pattern (13 bp):
CGACCCGTTGACC
Found at i:696 original size:29 final size:29
Alignment explanation
Indices: 636--701 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
626 ACCGTTGACC
* *** *
636 GTGCTATTCTGGGAATTAATTCGGTTTTG
1 GTGCTATTCTGGGAAGTAATTCGAAATGG
665 GTGCTATTCTGGGAAGTAATTCGAAATGG
1 GTGCTATTCTGGGAAGTAATTCGAAATGG
694 GTGCTATT
1 GTGCTATT
702 TCGGTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (29 bp):
GTGCTATTCTGGGAAGTAATTCGAAATGG
Found at i:7708 original size:19 final size:19
Alignment explanation
Indices: 7684--7739 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
7674 GAACGTTGGA
7684 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
7703 AACCGGTTTTGAACCGGTTTT
1 AACCGGTTTTG-ACCGG-TTT
*
7724 GACCGG-TTTGACCGGT
1 AACCGGTTTTGACCGGT
7740 CACGACCCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.03
19 16 0.47
20 9 0.26
21 8 0.24
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (19 bp):
AACCGGTTTTGACCGGTTT
Found at i:7719 original size:11 final size:11
Alignment explanation
Indices: 7684--7732 Score: 70
Period size: 10 Copynumber: 4.8 Consensus size: 11
7674 GAACGTTGGA
7684 AACCGGTTTTG
1 AACCGGTTTTG
7695 -ACCGG-TTT-
1 AACCGGTTTTG
7703 AACCGGTTTTG
1 AACCGGTTTTG
7714 AACCGGTTTTG
1 AACCGGTTTTG
7725 -ACCGGTTT
1 AACCGGTTT
7733 GACCGGTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.23
10 16 0.46
11 11 0.31
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:7735 original size:9 final size:10
Alignment explanation
Indices: 7685--7739 Score: 78
Period size: 9 Copynumber: 5.6 Consensus size: 10
7675 AACGTTGGAA
7685 ACCGGTTTTG
1 ACCGGTTTTG
*
7695 ACCGG-TTTA
1 ACCGGTTTTG
7704 ACCGGTTTTG
1 ACCGGTTTTG
7714 AACCGGTTTTG
1 -ACCGGTTTTG
7725 ACCGG-TTTG
1 ACCGGTTTTG
7734 ACCGGT
1 ACCGGT
7740 CACGACCCGT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
9 17 0.43
10 13 0.32
11 10 0.25
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.35
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:7775 original size:18 final size:18
Alignment explanation
Indices: 7752--7792 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
7742 CGACCCGTTT
7752 ACCCGACCCGTTTGACCC-
1 ACCCGACCCG-TTGACCCG
7770 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
7788 ACCCG
1 ACCCG
7793 TTGACCGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.17, C:0.51, G:0.20, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCG
Found at i:7795 original size:13 final size:13
Alignment explanation
Indices: 7742--7798 Score: 60
Period size: 13 Copynumber: 4.0 Consensus size: 13
7732 TGACCGGTCA
*
7742 CGACCCGTTTACC
1 CGACCCGTTGACC
7755 CGACCCGTTTGACCCACC
1 CGACCCG-TTG----ACC
7773 CGACCCGTTGACC
1 CGACCCGTTGACC
7786 CGACCCGTTGACC
1 CGACCCGTTGACC
7799 GTTGACCGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 23 0.61
14 2 0.05
17 3 0.08
18 10 0.26
ACGTcount: A:0.16, C:0.47, G:0.19, T:0.18
Consensus pattern (13 bp):
CGACCCGTTGACC
Found at i:23569 original size:37 final size:38
Alignment explanation
Indices: 23519--23592 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 38
23509 AATTCAATCT
23519 TAAGCCTTCACGGAAGAGTAGTGAAGCAAA-TCATTTA
1 TAAGCCTTCACGGAAGAGTAGTGAAGCAAACTCATTTA
*
23556 TAAGCCTTCACGGAAGAGTTGTGAAGCAAACTCATTT
1 TAAGCCTTCACGGAAGAGTAGTGAAGCAAACTCATTT
23593 TATGAAGATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 29 0.83
38 6 0.17
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (38 bp):
TAAGCCTTCACGGAAGAGTAGTGAAGCAAACTCATTTA
Found at i:23673 original size:51 final size:51
Alignment explanation
Indices: 23597--23864 Score: 259
Period size: 51 Copynumber: 5.1 Consensus size: 51
23587 TCATTTTATG
* *
23597 AAGATCGAGTCCTATACTCTCTGAAGGAATAGACAGCGGACCCGTTTGCTA
1 AAGATCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTA
* *
23648 AAGATCGAGTCCTATACTCTTTGAAGGAATAGAGAGCGGACCCGTTT-TATG
1 AAGATCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGT-TA
* * * * *
23699 AAGATTTTTCGAGTTCTATACTCCCTGAACGAATAGGGAGCGGACCTGTTTGTTGAA
1 AAGA----TCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTT--A
* * ** * *
23756 AATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACATGTTTATTG
1 AA--GATCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTA
* * * * * *
23809 AAGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACTCGTTTGTTG
1 AAGATCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTA
23860 AAGAT
1 AAGAT
23865 TATTCGAGTC
Statistics
Matches: 182, Mismatches: 25, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
51 97 0.53
53 2 0.01
55 79 0.43
56 1 0.01
57 2 0.01
59 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (51 bp):
AAGATCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTA
Found at i:23733 original size:55 final size:55
Alignment explanation
Indices: 23601--24040 Score: 409
Period size: 55 Copynumber: 8.1 Consensus size: 55
23591 TTTATGAAGA
* * ** * *
23601 TCGAGTCCTATACTCTCTGAAGGAATAGACAGCGGACCCGTTTGCTAAAGA----
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTTT
* ** *
23652 TCGAGTCCTATACTCTTTGAAGGAATAGAGAGCGGACCCGTTT-TATGAAGATTTT
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGGACCCGTTTGT-TGAAGATTTT
* * * *
23707 TCGAGT-TCTATACTCCCTGAACGAATAGGGAGCGGACCTGTTTGTTGAAAATTGT
1 TCGAGTCT-TATACTCCCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTTT
* * ** *
23762 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACATGTTTATTGAAGA----
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTTT
* * * * *
23813 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACTCGTTTGTTGAAGATTAT
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTTT
** * ** *
23868 TCGAGTCTTATACTCCCTGAACAAACAGGGAGCAAACACGTTTGTTGAAGATTGTT
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATT-TT
* * * * *
23924 T-GAGTCTTATACTCCCTGAATGAATAGGGAGCAGACACGTTTGTCGAAGATTGT
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTTT
* * *
23978 TCGAGTCTTATACTCCCTAAAAGAATAGGGAGCGGACCCGTCAT-TTGAAGATTTT
1 TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGGACCCGT-TTGTTGAAGATTTT
*
24033 TCAAGTCT
1 TCGAGTCT
24041 CGCTTATCTA
Statistics
Matches: 330, Mismatches: 44, Indels: 26
0.82 0.11 0.06
Matches are distributed among these distances:
51 91 0.28
54 2 0.01
55 233 0.71
56 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (55 bp):
TCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTTT
Found at i:23873 original size:161 final size:161
Alignment explanation
Indices: 23601--24040 Score: 485
Period size: 161 Copynumber: 2.7 Consensus size: 161
23591 TTTATGAAGA
** * * * *
23601 TCGAGTCCTATACTCTCTGAAGGAATAGACAGCGGACCCGTTTGCTAAAGATCGAGTCCTATACT
1 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATCGAGTCTTATACT
* * * * * *
23666 CTTTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTTTTCGAGT-TCTATACTCCCTGAACG
66 CTCTGAAGAAATAGGGAGCAGACCCGTTTTATGAAGATTATTCGAGTCT-TATACTCCCTGAACA
* **
23730 AATAGGGAGCGGAC-CTGTTTGTTGAAAATTGT
130 AACAGGGAGCAAACAC-GTTTGTTGAAAATTGT
* *
23762 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACATGTTTATTGAAGATCGAGTCTTATACT
1 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATCGAGTCTTATACT
*
23827 CTCTGAAGAAATAGGGAGCAGACTCGTTTGT-TGAAGATTATTCGAGTCTTATACTCCCTGAACA
66 CTCTGAAGAAATAGGGAGCAGACCCGTTT-TATGAAGATTATTCGAGTCTTATACTCCCTGAACA
*
23891 AACAGGGAGCAAACACGTTTGTTGAAGATTGT
130 AACAGGGAGCAAACACGTTTGTTGAAAATTGT
* * * * * *
23923 TTGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACACGTTTGTCGAAGATTGTTCGAGTCTTA
1 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGA----TCGAGTCTTA
* * * * * *
23988 TACTCCCT-AAAAGAATAGGGAGCGGACCCGTCATT-TGAAGATTTTTCAAGTCT
62 TACTCTCTGAAGA-AATAGGGAGCAGACCCGT-TTTATGAAGATTATTCGAGTCT
24041 CGCTTATCTA
Statistics
Matches: 236, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
161 179 0.76
162 3 0.01
164 3 0.01
165 50 0.21
166 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (161 bp):
TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAGATCGAGTCTTATACT
CTCTGAAGAAATAGGGAGCAGACCCGTTTTATGAAGATTATTCGAGTCTTATACTCCCTGAACAA
ACAGGGAGCAAACACGTTTGTTGAAAATTGT
Found at i:27893 original size:13 final size:13
Alignment explanation
Indices: 27875--27899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27865 TAGTTGAAAA
27875 TCGCGTTGCGATC
1 TCGCGTTGCGATC
27888 TCGCGTTGCGAT
1 TCGCGTTGCGAT
27900 GGTCTACAAT
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:0.08, C:0.28, G:0.32, T:0.32
Consensus pattern (13 bp):
TCGCGTTGCGATC
Found at i:27955 original size:20 final size:20
Alignment explanation
Indices: 27930--27996 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
27920 TTTTCCCAAT
27930 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
27950 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
27971 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
27991 TCGCAA
1 TCGCAA
27997 CGTGAATTGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:27973 original size:21 final size:21
Alignment explanation
Indices: 27947--28022 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
27937 GCGAATAAGT
27947 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
27968 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
*
27988 AAATCGCAACGTGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
28009 AAATCGCAATGCGA
1 AAATCGCAACGCGA
28023 TACTTACTAT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 15 0.35
21 28 0.65
ACGTcount: A:0.41, C:0.17, G:0.25, T:0.17
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:28036 original size:20 final size:20
Alignment explanation
Indices: 28011--28104 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
28001 AATTGGGAAA
*
28011 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
28031 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
28052 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
28072 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
28092 TTCGCAACGCGAT
1 ATCGCAACGCGAT
28105 TTACATAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:28037 original size:41 final size:41
Alignment explanation
Indices: 27930--28022 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
27920 TTTTCCCAAT
27930 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
27971 TCGCAATGCGAATAAGTAAATCGCAACGTGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
28012 TCGCAATGCGA
1 TCGCAATGCGA
28023 TACTTACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:28053 original size:41 final size:41
Alignment explanation
Indices: 28008--28085 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
27998 GTGAATTGGG
* * *
28008 AAAATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAC
*
28049 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATA
28086 CTGACTTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAC
Found at i:28632 original size:19 final size:19
Alignment explanation
Indices: 28594--28660 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
28584 TTCGAGAATG
28594 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
28614 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
28633 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
28652 AAAATCGCA
1 AAAATCGCA
28661 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:28678 original size:19 final size:19
Alignment explanation
Indices: 28656--28802 Score: 157
Period size: 19 Copynumber: 8.1 Consensus size: 19
28646 GAAACCAAAA
*
28656 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
28675 TCGCGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
*
28693 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
28712 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
28731 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
28747 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
28764 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
28783 ATCTCG-TGCGA-TTTCATT
1 -TCGCGTTGCGATTTTCATT
28801 TC
1 TC
28803 AACCAAAGAC
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
14 10 0.09
15 1 0.01
16 1 0.01
17 3 0.03
18 25 0.23
19 66 0.60
20 4 0.04
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:28713 original size:37 final size:38
Alignment explanation
Indices: 28656--28802 Score: 157
Period size: 37 Copynumber: 4.1 Consensus size: 38
28646 GAAACCAAAA
*
28656 TCGCATTGCGATTTTCATTTCGCGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
28693 TCGCGTTGCGATTTTTATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* * **
28731 TCGCGTTGCGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
28764 TCGCGTTGCGATTCTCATTATCTCG-TGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCATT
28801 TC
1 TC
28803 AACCAAAGAC
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
33 27 0.30
34 1 0.01
35 1 0.01
37 36 0.40
38 25 0.27
39 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:30798 original size:42 final size:42
Alignment explanation
Indices: 30738--30860 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
30728 GCCCGACTCG
* * *
30738 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
30780 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
30822 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
30861 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:30818 original size:21 final size:21
Alignment explanation
Indices: 30794--30860 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
30784 TCATTCCTCG
30794 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
30815 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
30836 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
30857 AGAG
1 AGAG
30861 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:31126 original size:19 final size:19
Alignment explanation
Indices: 31104--31205 Score: 168
Period size: 19 Copynumber: 5.4 Consensus size: 19
31094 GATTTTCTCG
31104 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
31123 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
31142 TTGCGATTTTCATTTCACA
1 TTGCGATTTTCATTTCGCA
*
31161 TTGCGATTTTTATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
31180 TTGCGATTTCCATTTCGCG
1 TTGCGATTTTCATTTCGCA
31199 TTGCGAT
1 TTGCGAT
31206 AGTCTGTTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 77 1.00
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:31129 original size:33 final size:35
Alignment explanation
Indices: 31087--31205 Score: 134
Period size: 38 Copynumber: 3.3 Consensus size: 35
31077 ACTGACATAT
31087 GCATTGCGATTTTC-TCG-TTGCGATTTTCATTTC
1 GCATTGCGATTTTCTTCGATTGCGATTTTCATTTC
31120 GCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTC
1 GCATTGCGATTTTC--TTCG-ATTGCGATTTTCATTTC
* * *
31158 ACATTGCGATTTTTATTTCGCATTGCGATTTCCATTTC
1 GCATTGCGA-TTTT-CTTCG-ATTGCGATTTTCATTTC
*
31196 GCGTTGCGAT
1 GCATTGCGAT
31206 AGTCTGTTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
33 14 0.19
36 3 0.04
37 1 0.01
38 52 0.70
39 4 0.05
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (35 bp):
GCATTGCGATTTTCTTCGATTGCGATTTTCATTTC
Found at i:33221 original size:20 final size:19
Alignment explanation
Indices: 33186--33252 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
33176 AAAACTTAAA
33186 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
33205 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
33225 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
33244 ATCGCAACG
1 ATCGCAACG
33253 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:33283 original size:32 final size:32
Alignment explanation
Indices: 33225--33302 Score: 131
Period size: 31 Copynumber: 2.4 Consensus size: 32
33215 GGAAATGGCT
*
33225 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAC-AA
33258 ATCGCAACGCGAAATG-AAATCGCAACGACAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAA
33289 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
33303 CACAAATCGC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
31 16 0.36
32 13 0.30
33 15 0.34
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (32 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAA
Found at i:33290 original size:18 final size:18
Alignment explanation
Indices: 33236--33290 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
33226 TCGCAATGCG
33236 AAATGAAAATCGCAACGAC
1 AAATG-AAATCGCAACGAC
33255 --A--AAATCGCAACG-C
1 AAATGAAATCGCAACGAC
33268 GAAATGAAATCGCAACGAC
1 -AAATGAAATCGCAACGAC
33287 AAAT
1 AAAT
33291 CGCAACGCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 13
0.70 0.00 0.30
Matches are distributed among these distances:
13 1 0.03
14 11 0.37
16 1 0.03
17 1 0.03
18 15 0.50
19 1 0.03
ACGTcount: A:0.51, C:0.22, G:0.16, T:0.11
Consensus pattern (18 bp):
AAATGAAATCGCAACGAC
Found at i:33310 original size:32 final size:31
Alignment explanation
Indices: 33225--33313 Score: 108
Period size: 32 Copynumber: 2.7 Consensus size: 31
33215 GGAAATGGCT
*
33225 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAA--AAAATCGCAACGACAAA
*
33258 ATCGCAACGCGAAATGAAATCGCAACGAC-AA
1 ATCGCAACGCGAAA-AAAATCGCAACGACAAA
33289 ATCGCAACGCGAAACACAAATCGCA
1 ATCGCAACGCGAAA-A-AAATCGCA
33314 TTGCGATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
31 16 0.32
32 21 0.42
33 13 0.26
ACGTcount: A:0.46, C:0.26, G:0.18, T:0.10
Consensus pattern (31 bp):
ATCGCAACGCGAAAAAAATCGCAACGACAAA
Found at i:33331 original size:19 final size:17
Alignment explanation
Indices: 33309--33404 Score: 69
Period size: 19 Copynumber: 5.6 Consensus size: 17
33299 GAAACACAAA
33309 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
* *
33328 TCGCGTTGTGATTT--TG
1 TCGC-TTGCGATTTCATT
33344 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
33360 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
33376 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
33393 TCGCATTGCGAT
1 TCGC-TTGCGAT
33405 AGCCATTTCC
Statistics
Matches: 61, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
14 14 0.23
15 3 0.05
16 12 0.20
17 4 0.07
18 13 0.21
19 15 0.25
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:33354 original size:14 final size:14
Alignment explanation
Indices: 33331--33388 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
33321 TTTCATTTCG
*
33331 CGTTGTGATTTTGT
1 CGTTGCGATTTTGT
*
33345 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
33361 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
33377 CGTTGCGATTTT
1 CGTTGCGATTTT
33389 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 22 0.59
16 4 0.11
18 11 0.30
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:33395 original size:33 final size:33
Alignment explanation
Indices: 33314--33404 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
33304 ACAAATCGCA
*
33314 TTGCGATTTTCATTTCGCGTTGTGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
33347 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
33379 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
33405 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:33423 original size:20 final size:20
Alignment explanation
Indices: 33389--33433 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
33379 TTGCGATTTT
33389 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
* *
33408 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCATTGCGATAGC
33428 CATTTC
1 CATTTC
33434 ATGTTGCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:33441 original size:19 final size:20
Alignment explanation
Indices: 33398--33442 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
33388 TCATTTCGCA
*
33398 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCACG
* *
33418 TTGCGATAGTCATTT-CATG
1 TTGCGATAGCCATTTCCACG
33437 TTGCGA
1 TTGCGA
33443 AAGTAAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCACG
Found at i:33938 original size:18 final size:18
Alignment explanation
Indices: 33912--33956 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
33902 GTCGATCAGA
* *
33912 TGATGGCTCTGGGTGGGG
1 TGATGGCTCTGGGCGAGG
*
33930 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
33948 TGATGGCTC
1 TGATGGCTC
33957 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.47, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:35283 original size:18 final size:19
Alignment explanation
Indices: 35242--35291 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
35232 GAAACTAAAA
35242 TCGCGTTGCGATTTGCATT
1 TCGCGTTGCGATTTGCATT
35261 TCGCGTTGCGATTTGCA-T
1 TCGCGTTGCGATTTGCATT
35279 TCGCGTTGCGATT
1 TCGCGTTGCGATT
35292 CTTGGTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.10, C:0.22, G:0.28, T:0.40
Consensus pattern (19 bp):
TCGCGTTGCGATTTGCATT
Found at i:35515 original size:22 final size:22
Alignment explanation
Indices: 35490--35533 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
35480 GATTTAGATA
35490 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
35512 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
35534 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:35814 original size:20 final size:20
Alignment explanation
Indices: 35701--35814 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
35691 CGCTTTGAAA
35701 ATCGCATTGCGATTATGTAA--
1 ATCGCATTGCGA-TA-GTAAGT
* * *
35721 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* *
35741 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTAAGT
* * * *
35761 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTAAGT
35782 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
35802 ATCGCATTGCGAT
1 ATCGCATTGCGAT
35815 TTTCCCAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 56 0.73
21 12 0.16
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:35832 original size:21 final size:21
Alignment explanation
Indices: 35803--35895 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
35793 ATAGTAAGTA
35803 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
35824 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
35844 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
35865 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
35885 TCGCATTGCGA
1 TCGCATTGCGA
35896 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:35833 original size:41 final size:41
Alignment explanation
Indices: 35742--35876 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
35732 AAAGTCAGTA
* * * ** *
35742 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
35782 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
35824 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
35865 TCGCGTTGCGAT
1 TCGCGTTGCGAT
35877 TTACTTATTC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 4 0.05
41 75 0.93
42 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:35877 original size:41 final size:41
Alignment explanation
Indices: 35803--35895 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
35793 ATAGTAAGTA
35803 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
35844 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
35885 TCGCATTGCGA
1 TCGCATTGCGA
35896 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:36772 original size:55 final size:55
Alignment explanation
Indices: 36659--36765 Score: 187
Period size: 55 Copynumber: 1.9 Consensus size: 55
36649 AAGTAGAACC
* *
36659 TTATCCATTAGTGGTTACCTACATGAGATCAACATACTTACCTTTTGTACATCAA
1 TTATCCATTAGTGGTTACCTACATCAGATAAACATACTTACCTTTTGTACATCAA
*
36714 TTATCCATTAGTGGTTACCTACATCAGATAAACATGCTTACCTTTTGTACAT
1 TTATCCATTAGTGGTTACCTACATCAGATAAACATACTTACCTTTTGTACAT
36766 ATATTATGTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.37
Consensus pattern (55 bp):
TTATCCATTAGTGGTTACCTACATCAGATAAACATACTTACCTTTTGTACATCAA
Found at i:37346 original size:22 final size:21
Alignment explanation
Indices: 37321--37361 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
37311 ATAAAATAAA
37321 TAATATTATTTATTATAAAACT
1 TAATATTA-TTATTATAAAACT
*
37343 TAATATTATTATTTTAAAA
1 TAATATTATTATTATAAAA
37362 TATTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATATTATTATTATAAAACT
Found at i:37489 original size:29 final size:30
Alignment explanation
Indices: 37457--37559 Score: 101
Period size: 29 Copynumber: 3.5 Consensus size: 30
37447 AATATTATAA
*
37457 ATTATATTAATATTTATTAAAGTAA-TAGT
1 ATTATATTAATATTTATTAAAATAATTAGT
37486 ATTATATT-ATATTTA--AAAATAATTAGT
1 ATTATATTAATATTTATTAAAATAATTAGT
37513 A-TAT-TTAATATATTATTAAAATATTATTAGATT
1 ATTATATTAATAT-TTATTAAAATA--ATTAG--T
*
37546 ATTAGATTAATATT
1 ATTATATTAATATT
37560 AAATATATAA
Statistics
Matches: 61, Mismatches: 2, Indels: 17
0.76 0.03 0.21
Matches are distributed among these distances:
25 2 0.03
26 13 0.21
27 8 0.13
28 7 0.11
29 14 0.23
31 5 0.08
33 2 0.03
34 3 0.05
35 7 0.11
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.50
Consensus pattern (30 bp):
ATTATATTAATATTTATTAAAATAATTAGT
Found at i:37538 original size:28 final size:28
Alignment explanation
Indices: 37459--37538 Score: 78
Period size: 26 Copynumber: 3.0 Consensus size: 28
37449 TATTATAAAT
* *
37459 TATA-TTAATAT-TTATTAAAGTAATAG
1 TATATTTAATATATTATTAAAATATTAG
* * *
37485 TAT-TATATTATATT-TAAAAATAATTAG
1 TATATTTAATATATTATTAAAAT-ATTAG
37512 TATATTTAATATATTATTAAAATATTA
1 TATATTTAATATATTATTAAAATATTA
37539 TTAGATTATT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
26 13 0.32
27 9 0.22
28 13 0.32
29 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (28 bp):
TATATTTAATATATTATTAAAATATTAG
Found at i:37583 original size:24 final size:26
Alignment explanation
Indices: 37556--37607 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
37546 ATTAGATTAA
37556 TATTA-AAT-ATATAATAATATTATT
1 TATTATAATGATATAATAATATTATT
* *
37580 TATTATTAATGATTTAATAGTATTATT
1 TATTA-TAATGATATAATAATATTATT
37607 T
1 T
37608 CTATGAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.22
26 3 0.13
27 15 0.65
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (26 bp):
TATTATAATGATATAATAATATTATT
Found at i:37728 original size:47 final size:46
Alignment explanation
Indices: 37635--37733 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 46
37625 AATATAAATT
*
37635 TTATTATAATTTATTATTATTATTAAAATAAAATATAATATCTTATA
1 TTATTATAATTAATTATTATTATTAAAATAAAATATAATA-CTTATA
* *
37682 TTATTATAATATAATTATT-TTTTTAATATTAAAAATATAATA-TTATA
1 TTATTATAAT-TAATTATTATTATTAA-AAT-AAAATATAATACTTATA
37729 -TATTA
1 TTATTA
37734 AAAATATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
46 5 0.11
47 21 0.46
48 9 0.20
49 11 0.24
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (46 bp):
TTATTATAATTAATTATTATTATTAAAATAAAATATAATACTTATA
Found at i:37750 original size:21 final size:21
Alignment explanation
Indices: 37707--37752 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
37697 TATTTTTTTA
*
37707 ATATTAAAAATATAATATTAT
1 ATATTAAAAATATAATATAAT
37728 ATATTAAAAATATTAATA-AAT
1 ATATTAAAAATA-TAATATAAT
37749 ATAT
1 ATAT
37753 CTTAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATATTAAAAATATAATATAAT
Found at i:37757 original size:23 final size:23
Alignment explanation
Indices: 37707--37777 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
37697 TATTTTTTTA
*
37707 ATATTAAAAATA-TAAT-ATTAT
1 ATATTAAAAATATTAATAAATAT
37728 ATATTAAAAATATTAATAAATAT
1 ATATTAAAAATATTAATAAATAT
* * * *
37751 ATCTTAAATATTTTAATAATTA-
1 ATATTAAAAATATTAATAAATAT
37773 ATATT
1 ATATT
37778 TTGATTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
21 12 0.29
22 8 0.19
23 22 0.52
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATTAAAAATATTAATAAATAT
Found at i:37762 original size:30 final size:30
Alignment explanation
Indices: 37706--37762 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37696 TTATTTTTTT
*
37706 AATATTAAAAATATAATATTATATATTAAA
1 AATATTAAAAATATAATATTAAATATTAAA
*
37736 AATATTAATAAATAT-ATCTTAAATATT
1 AATATTAA-AAATATAATATTAAATATT
37763 TTAATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (30 bp):
AATATTAAAAATATAATATTAAATATTAAA
Found at i:37791 original size:24 final size:24
Alignment explanation
Indices: 37649--37809 Score: 71
Period size: 25 Copynumber: 6.5 Consensus size: 24
37639 TATAATTTAT
*
37649 TATTATTATTAAAATAA-AATATAA
1 TATT-TTATTAAAATAATAATAAAA
** *
37673 TATCTTATATTATTATAAT-AT-AAT
1 TAT-TT-TATTAAAATAATAATAAAA
* * * *
37697 TATTTTTTTAATATTAAAAATATAA
1 TATTTTATTAA-AATAATAATAAAA
*
37722 TATTATATATTAAAAATATTAATAAATA
1 TATT-T-TATT-AAAATAATAATAAA-A
* * **
37750 TATCTTA--AATATTTTAATAATTAA
1 TATTTTATTAAAATAATAATAA--AA
37774 TATTTTGATTAAAATAATAATAAAA
1 TATTTT-ATTAAAATAATAATAAAA
37799 TATTTTATTAA
1 TATTTTATTAA
37810 TATTAAATTT
Statistics
Matches: 99, Mismatches: 23, Indels: 30
0.65 0.15 0.20
Matches are distributed among these distances:
22 4 0.04
23 16 0.16
24 21 0.21
25 27 0.27
26 3 0.03
27 22 0.22
28 6 0.06
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (24 bp):
TATTTTATTAAAATAATAATAAAA
Found at i:37812 original size:51 final size:54
Alignment explanation
Indices: 37687--37813 Score: 126
Period size: 53 Copynumber: 2.4 Consensus size: 54
37677 TTATATTATT
* *
37687 ATAATATAATTATTTTTTTAATA--TTAAAAATATAATATTATATATTAAAAATA
1 ATAATA-AAATATTTTATTAATATTTTAAAAATATAATATTATATATTAAAAATA
* * *
37740 TTAATAAATATATCTTA--AATATTTTAATAAT-TAATATT-T-TGATT-AAAATA
1 ATAATAAA-ATATTTTATTAATATTTTAAAAATATAATATTATAT-ATTAAAAATA
37790 ATAATAAAATATTTTATTAATATT
1 ATAATAAAATATTTTATTAATATT
37814 AAATTTATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
49 7 0.11
50 14 0.23
51 14 0.23
52 9 0.15
53 17 0.28
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (54 bp):
ATAATAAAATATTTTATTAATATTTTAAAAATATAATATTATATATTAAAAATA
Found at i:39156 original size:20 final size:21
Alignment explanation
Indices: 39131--39182 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
39121 TTTTCCCAAT
*
39131 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
39151 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
39172 TCGCAATGCGA
1 TCGCAATGCGA
39183 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:39196 original size:20 final size:20
Alignment explanation
Indices: 39171--39284 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
39161 AATTGGGAAA
*
39171 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
39191 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
39211 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
39232 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
39252 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
39272 TTCGCAACGCGAT
1 ATCGCAACGCGAT
39285 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:39215 original size:61 final size:61
Alignment explanation
Indices: 39168--39284 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
39158 GCGAATTGGG
* * * * *
39168 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
39229 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
39285 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:39814 original size:19 final size:19
Alignment explanation
Indices: 39776--39842 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
39766 TTCGAGAATG
39776 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
39796 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
39815 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
39834 AAAATCGCA
1 AAAATCGCA
39843 TTGTGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:39860 original size:19 final size:19
Alignment explanation
Indices: 39838--39888 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
39828 GAAACCAAAA
*
39838 TCGCATTGTGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
39857 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
39876 TCGCGTTGCGATT
1 TCGCATTGCGATT
39889 CTCTCGTCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:39908 original size:33 final size:33
Alignment explanation
Indices: 39871--39958 Score: 158
Period size: 33 Copynumber: 2.6 Consensus size: 33
39861 GTTGCGATTT
39871 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
39904 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
39937 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
39959 ATTATCTCGT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 38 0.72
34 15 0.28
ACGTcount: A:0.11, C:0.27, G:0.23, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:39960 original size:20 final size:19
Alignment explanation
Indices: 39847--39983 Score: 105
Period size: 19 Copynumber: 7.6 Consensus size: 19
39837 ATCGCATTGT
*
39847 GATTTTCATTTCGCGTTGC
1 GATTCTCATTTCGCGTTGC
*
39866 GATTTTCATTTCGCGTTGC
1 GATTCTCATTTCGCGTTGC
*
39885 GATTCTC---T--CGTCGC
1 GATTCTCATTTCGCGTTGC
**
39899 GATAGTCATTTCGCGTTGC
1 GATTCTCATTTCGCGTTGC
39918 GATTCTC---T--CGTTGC
1 GATTCTCATTTCGCGTTGC
**
39932 GATAGTCATTTCCGCGTTGC
1 GATTCTCATTT-CGCGTTGC
*
39952 GATTCTCATTATCTCGTTGC
1 GATTCTCATT-TCGCGTTGC
*
39972 GATTTTCATTTC
1 GATTCTCATTTC
39984 AACCAAAAGA
Statistics
Matches: 93, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
14 21 0.23
16 2 0.02
17 2 0.02
19 37 0.40
20 30 0.32
21 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.43
Consensus pattern (19 bp):
GATTCTCATTTCGCGTTGC
Found at i:43574 original size:14 final size:14
Alignment explanation
Indices: 43538--43574 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
43528 GATTGTTTAA
43538 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
* *
43552 GTGACTTGTAAAAG
1 TTGATTTGTAAAAG
43566 TTGATTTGT
1 TTGATTTGT
43575 TTAATTGATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.24, T:0.43
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:43725 original size:19 final size:19
Alignment explanation
Indices: 43701--43792 Score: 87
Period size: 19 Copynumber: 5.4 Consensus size: 19
43691 GAAATTTGCG
43701 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
43720 TTGCGA-----AATTCGCG
1 TTGCGATTTTCATTTCGCA
43734 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
43753 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
43767 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
43786 TTGCGAT
1 TTGCGAT
43793 AGTAATTTCC
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 18 0.32
16 7 0.12
17 7 0.12
19 25 0.44
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:43725 original size:33 final size:33
Alignment explanation
Indices: 43682--43791 Score: 161
Period size: 33 Copynumber: 3.3 Consensus size: 33
43672 AAAAGTACTA
*
43682 TCGCAATGCGAAATTTGCGTTGCGATTTTCATT
1 TCGCATTGCGAAATTTGCGTTGCGATTTTCATT
*
43715 TCGCATTGCGAAATTCGCGTTGCGATTTTCATT
1 TCGCATTGCGAAATTTGCGTTGCGATTTTCATT
*
43748 TCGCATTGCG--ATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATT-T-GCGTTGCGATTTTCATT
43781 TCGCATTGCGA
1 TCGCATTGCGA
43792 TAGTAATTTC
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
31 3 0.04
33 67 0.96
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (33 bp):
TCGCATTGCGAAATTTGCGTTGCGATTTTCATT
Found at i:46103 original size:12 final size:12
Alignment explanation
Indices: 46086--46110 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46076 TCTTCGGGGA
46086 CTTTTTCTTCTT
1 CTTTTTCTTCTT
46098 CTTTTTCTTCTT
1 CTTTTTCTTCTT
46110 C
1 C
46111 CGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:46319 original size:24 final size:24
Alignment explanation
Indices: 46285--46338 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
46275 CTGAAACATC
*
46285 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
46309 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
46333 ATCAAA
1 ATCAAA
46339 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:47194 original size:20 final size:20
Alignment explanation
Indices: 47080--47193 Score: 140
Period size: 20 Copynumber: 5.7 Consensus size: 20
47070 GATTCTGTAT
*
47080 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
47100 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
47120 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
47140 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
47161 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
47181 TATCGCATTGCGA
1 TATCGCGTTGCGA
47194 TTTTACCAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.77
21 14 0.17
22 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:47196 original size:41 final size:41
Alignment explanation
Indices: 47060--47197 Score: 172
Period size: 41 Copynumber: 3.4 Consensus size: 41
47050 AACTTTGAAA
* * *
47060 ATCGCATTGCGATTCTGTATTATCTCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* ** *
47101 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGT-ATTATCGCGTTGCGAAAGTCAGT
* *
47141 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
47182 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
47198 ACCAATTTGC
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.02
40 32 0.39
41 47 0.57
42 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
Found at i:47210 original size:41 final size:41
Alignment explanation
Indices: 47060--47215 Score: 138
Period size: 41 Copynumber: 3.8 Consensus size: 41
47050 AACTTTGAAA
* ** * * *
47060 ATCGCATTGCGATTCTGTATTATCTCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTTTCAATTATCGCGTTGCGATAGTCAGT
* *** * *
47101 ATCGCGTTGCGAAAGTC-AGTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCAATTATCGCGTTGCGATAGTCAGT
* **
47141 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCAATTATCGCGTTGCGATAGTCAGT
47182 ATCGCATTGCGATTTTACCAATT-T-GCGTTGCGAT
1 ATCGCATTGCGATTTT--CAATTATCGCGTTGCGAT
47216 TTACTTATTC
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
40 33 0.35
41 58 0.61
42 1 0.01
43 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (41 bp):
ATCGCATTGCGATTTTCAATTATCGCGTTGCGATAGTCAGT
Found at i:47232 original size:20 final size:21
Alignment explanation
Indices: 47183--47234 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
47173 ATAGTCAGTA
47183 TCGCATTGCGATTTTACCAAT
1 TCGCATTGCGATTTTACCAAT
* * **
47204 TTGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACCAAT
47224 TCGCATTGCGA
1 TCGCATTGCGA
47235 ATTGGGAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTACCAAT
Found at i:48083 original size:30 final size:30
Alignment explanation
Indices: 48033--48133 Score: 98
Period size: 31 Copynumber: 3.4 Consensus size: 30
48023 AAATTATCTC
* *
48033 TTTATTTTT-GTTTAACTTATTAAATAT-T
1 TTTATTTTTATTTTAATTTATTAAATATAT
*
48061 TTTATTTTTTTTCTTAATTTATTAAATATAT
1 TTTATTTTTATT-TTAATTTATTAAATATAT
* * **
48092 TTTGTTTTTATTTTAATGTAAAAATATATAT
1 TTTATTTTTATTTTAATTTATTAA-ATATAT
*
48123 TTTATCTTTAT
1 TTTATTTTTAT
48134 CATCACTTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 9 0.15
29 1 0.02
30 24 0.40
31 26 0.43
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (30 bp):
TTTATTTTTATTTTAATTTATTAAATATAT
Found at i:48271 original size:28 final size:29
Alignment explanation
Indices: 48232--48294 Score: 110
Period size: 28 Copynumber: 2.2 Consensus size: 29
48222 ACTCTTATTT
48232 TTAATTAAAAAACATTTAATATTTTACTA
1 TTAATTAAAAAACATTTAATATTTTACTA
*
48261 TTAATT-AAAAATATTTAATATTTTACTA
1 TTAATTAAAAAACATTTAATATTTTACTA
48289 TTAATT
1 TTAATT
48295 TATTTGGCGG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 27 0.82
29 6 0.18
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (29 bp):
TTAATTAAAAAACATTTAATATTTTACTA
Found at i:50241 original size:18 final size:18
Alignment explanation
Indices: 50214--50284 Score: 117
Period size: 18 Copynumber: 4.0 Consensus size: 18
50204 GAAAGCAATA
50214 TACG-AATATTGTATTCG
1 TACGAAATATTGTATTCG
50231 TACGAAATATTGTATTCG
1 TACGAAATATTGTATTCG
*
50249 TATGAAATATTGTATTCG
1 TACGAAATATTGTATTCG
*
50267 TATGAAATATTGTATTCG
1 TACGAAATATTGTATTCG
50285 ACATTCATAT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
17 4 0.08
18 48 0.92
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.42
Consensus pattern (18 bp):
TACGAAATATTGTATTCG
Found at i:50733 original size:5 final size:5
Alignment explanation
Indices: 50723--50906 Score: 93
Period size: 5 Copynumber: 36.0 Consensus size: 5
50713 GGGATAGTAA
*
50723 TATAT TATAT TATAT T-TAT TAT-T TATACG T-TA- TATAT TATAT ATATAT
1 TATAT TATAT TATAT TATAT TATAT TATA-T TATAT TATAT TATAT -TATAT
* *
50771 ATATAT TATAG TAGTA- TATAT TATAT ACGATAT TATA- TAGTAT TATA-
1 -TATAT TATAT TA-TAT TATAT TATAT --TATAT TATAT TA-TAT TATAT
* * *
50818 TATGTT ATATAT TATAT TATAT AATATAT TACAT TATA- TATGT TATA-
1 TAT-AT -TATAT TATAT TATAT --TATAT TATAT TATAT TATAT TATAT
*
50865 TAT-T CTATAT TATAG TAGTA- TATATT ATATAT TATAT TATAT
1 TATAT -TATAT TATAT TA-TAT TATA-T -TATAT TATAT TATAT
50907 ACTTTTTATA
Statistics
Matches: 143, Mismatches: 11, Indels: 50
0.70 0.05 0.25
Matches are distributed among these distances:
3 1 0.01
4 25 0.17
5 80 0.56
6 21 0.15
7 16 0.11
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (5 bp):
TATAT
Found at i:50762 original size:7 final size:7
Alignment explanation
Indices: 50728--51020 Score: 153
Period size: 7 Copynumber: 40.1 Consensus size: 7
50718 AGTAATATAT
50728 TATATTA
1 TATATTA
50735 TAT-TTA
1 TATATTA
50741 T-TATT-
1 TATATTA
50746 TATACGTTA
1 TATA--TTA
50755 TATATTATA
1 TATA-T-TA
50764 TATATATA
1 TATAT-TA
50772 TATATTA
1 TATATTA
*
50779 TAGTAGTA
1 TA-TATTA
50787 TATATTA
1 TATATTA
**
50794 TATACGA
1 TATATTA
50801 TAT-TATA
1 TATAT-TA
50808 TAGTATTA
1 TA-TATTA
50816 TATATGTTA
1 TATA--TTA
50825 TATATTA
1 TATATTA
50832 TATTATATAA
1 TA-TAT-T-A
50842 TATATTA
1 TATATTA
*
50849 CAT-TATA
1 TATAT-TA
*
50856 TATGTTA
1 TATATTA
*
50863 TATATTC
1 TATATTA
50870 TATATTA
1 TATATTA
*
50877 TAGTAGTA
1 TA-TATTA
50885 TATATTA
1 TATATTA
50892 TATATTA
1 TATATTA
50899 TAT-TATA
1 TATAT-TA
*
50906 TACTTTTTA
1 TA--TATTA
*
50915 TATGTTA
1 TATATTA
*
50922 TGTATGTA
1 TATAT-TA
*
50930 T-TAGTA
1 TATATTA
50936 TATATATA
1 TATAT-TA
*
50944 TATTTTA
1 TATATTA
50951 TATATT-
1 TATATTA
50957 TATATTA
1 TATATTA
50964 TATA-TA
1 TATATTA
50970 TATA-TA
1 TATATTA
50976 TCAT-TTA
1 T-ATATTA
50983 TAGTATTA
1 TA-TATTA
*
50991 TGTGTTATTA
1 --T-ATATTA
51001 TATATTA
1 TATATTA
51008 T-TATTA
1 TATATTA
51014 T-TATTA
1 TATATTA
51020 T
1 T
51021 TCGTTTTTAG
Statistics
Matches: 230, Mismatches: 23, Indels: 67
0.72 0.07 0.21
Matches are distributed among these distances:
5 2 0.01
6 41 0.18
7 103 0.45
8 47 0.20
9 27 0.12
10 10 0.04
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (7 bp):
TATATTA
Found at i:50765 original size:2 final size:2
Alignment explanation
Indices: 50753--50976 Score: 121
Period size: 2 Copynumber: 118.5 Consensus size: 2
50743 ATTTATACGT
50753 TA TA TA T- TA TA TA TA TA TA TA TA T- TA TA GTA GTA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA -TA TA TA TA TA
* *
50794 TA TA CGA TA T- TA TA TA GTA T- TA TA TA TG T- TA TA TA T- TA TA
1 TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
50834 T- TA TA TA -A TA TA T- TA CA T- TA TA TA TG T- TA TA TA T- TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
50870 TA TA T- TA TA GTA GTA TA TA T- TA TA TA T- TA TA T- TA TA TA CTT
1 TA TA TA TA TA -TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * *
50911 TT TA TA TG T- TA TG TA TG TA T- TA GTA TA TA TA TA TA T- TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
*
50951 TA TA TT TA TA T- TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
50977 CATTTATAGT
Statistics
Matches: 178, Mismatches: 17, Indels: 54
0.71 0.07 0.22
Matches are distributed among these distances:
1 21 0.12
2 141 0.79
3 16 0.09
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (2 bp):
TA
Found at i:50827 original size:38 final size:35
Alignment explanation
Indices: 50722--50984 Score: 183
Period size: 38 Copynumber: 7.8 Consensus size: 35
50712 CGGGATAGTA
* *
50722 ATATATTATAT-TATATTTAT-TATT-TATACGTT
1 ATATATTATATATATATATATATATTATATATGTT
50754 ATATA-T-TATATATATATATATATTATAGTA-G-T
1 ATATATTATATATATATATATATATTATA-TATGTT
*
50786 ATATATTATATACGATATTATATAGTATTATATATGTT
1 ATATATTATATA-TATA-TATATA-TATTATATATGTT
*
50824 ATATATTATATTATATAATATATTACATTATATATGTT
1 ATATATTATA-TATAT-ATATA-TATATTATATATGTT
* * *
50862 ATATA-T-TCTATAT-TATA-GTAGTATATA--TT
1 ATATATTATATATATATATATATATTATATATGTT
50891 ATATATTATAT-TATATACT-T-T-TTATAT--GTT
1 ATATATTATATATATATA-TATATATTATATATGTT
* * *
50921 ATGTATGTAT-TAGTATATATATATATTTTATATATT
1 ATATAT-TATATA-TATATATATATATTATATATGTT
50957 -TATATTATATATATATATATCAT-TTATA
1 ATATATTATATATATATATAT-ATATTATA
50985 GTATTATGTG
Statistics
Matches: 186, Mismatches: 15, Indels: 58
0.72 0.06 0.22
Matches are distributed among these distances:
29 7 0.04
30 20 0.11
31 25 0.13
32 23 0.12
33 9 0.05
34 27 0.15
35 16 0.09
36 11 0.06
37 9 0.05
38 34 0.18
39 5 0.03
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (35 bp):
ATATATTATATATATATATATATATTATATATGTT
Found at i:50984 original size:13 final size:12
Alignment explanation
Indices: 50722--51006 Score: 103
Period size: 12 Copynumber: 22.6 Consensus size: 12
50712 CGGGATAGTA
50722 ATATA-TTATAT
1 ATATATTTATAT
50733 -TATATTTATTAT
1 ATATATTTA-TAT
* *
50745 TTATACGTTATAT
1 ATATA-TTTATAT
*
50758 ATTATATATATAT
1 A-TATATTTATAT
50771 ATATATTATAGTAGT
1 ATATATT-TA-TA-T
*
50786 ATATATTATATACG
1 ATATATT-TATA-T
*
50800 ATATTATATAGTATT
1 ATA-TATTTA-TA-T
50815 ATATATGTTATAT
1 ATATAT-TTATAT
50828 AT-TATATTATAT
1 ATATAT-TTATAT
*
50840 A-ATATATTACATT
1 ATATAT-TTATA-T
50853 ATATATGTTATAT
1 ATATAT-TTATAT
*
50866 ATTCTATATTATAGT
1 A-TATAT-TTATA-T
50881 AGTATATATTATAT
1 A-TATAT-TTATAT
50895 AT-TATATTATAT
1 ATATAT-TTATAT
50907 ACT-T-TTTATAT
1 A-TATATTTATAT
* * *
50918 GT-TATGTATGT
1 ATATATTTATAT
*
50929 AT-TA-GTATAT
1 ATATATTTATAT
50939 ATATATATT-T-T
1 ATATAT-TTATAT
50950 ATATATTTATAT
1 ATATATTTATAT
*
50962 -TATATATATAT
1 ATATATTTATAT
50973 ATATCATTTATAGT
1 ATAT-ATTTATA-T
*
50987 ATTATGTGTTAT-T
1 A-TATAT-TTATAT
51000 ATATATT
1 ATATATT
51007 ATTATTATTA
Statistics
Matches: 217, Mismatches: 29, Indels: 56
0.72 0.10 0.19
Matches are distributed among these distances:
10 15 0.07
11 38 0.18
12 47 0.22
13 34 0.16
14 43 0.20
15 40 0.18
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (12 bp):
ATATATTTATAT
Found at i:51408 original size:28 final size:28
Alignment explanation
Indices: 51374--51437 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
51364 CCTTCGATCT
51374 AACGGTCCAGATTACA-TCAGGGGTTCTC
1 AACGGTCCAGATTACACT-AGGGGTTCTC
* *
51402 AATGGTCCATATTACACTAGGGGTTCTC
1 AACGGTCCAGATTACACTAGGGGTTCTC
51430 AACGGTCC
1 AACGGTCC
51438 TTTCAACGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (28 bp):
AACGGTCCAGATTACACTAGGGGTTCTC
Found at i:52506 original size:19 final size:18
Alignment explanation
Indices: 52482--52534 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
52472 TTAATTTTTG
52482 TTTTATTTTATTTAATTCT
1 TTTTATTTTATTTAA-TCT
* *
52501 TTTTATTACTATTTTATCT
1 TTTTATT-TTATTTAATCT
* *
52520 TTTTGTATTATTTAA
1 TTTTATTTTATTTAA
52535 CATTAATTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
18 6 0.22
19 15 0.56
20 6 0.22
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTATTTTATTTAATCT
Found at i:56097 original size:24 final size:24
Alignment explanation
Indices: 56070--56119 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
56060 TAAAGGGGAC
*
56070 TCATCTGCTGCAAAAGCACAAGCT
1 TCATATGCTGCAAAAGCACAAGCT
* *
56094 TCATATGTTGTAAAAGCACAAGCT
1 TCATATGCTGCAAAAGCACAAGCT
56118 TC
1 TC
56120 CGTAACCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (24 bp):
TCATATGCTGCAAAAGCACAAGCT
Found at i:64508 original size:2 final size:2
Alignment explanation
Indices: 64493--64698 Score: 176
Period size: 2 Copynumber: 109.0 Consensus size: 2
64483 TCGGATAACA
*
64493 AT AT AT -T AT A- AT AT AT AT AT GT -T AT AT AT -T AT AT AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
64532 AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
64572 AGT AGT AT AT AT AT -T AT AT TT AT AT -T AT AT AT -T AT AT AT TT
1 A-T A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
64613 AT AT GGT AT AT -T AT AT -T AT AT AT AT -T TT AT AT AT -T AC AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
64652 AT GT AT -T A- AT AT AT AT AT AT AT AT -T AT AT AGC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
64692 -T AT AT AT
1 AT AT AT AT
64699 CATTTATAGT
Statistics
Matches: 169, Mismatches: 14, Indels: 42
0.75 0.06 0.19
Matches are distributed among these distances:
1 17 0.10
2 143 0.85
3 9 0.05
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (2 bp):
AT
Found at i:64518 original size:7 final size:7
Alignment explanation
Indices: 64493--64751 Score: 163
Period size: 7 Copynumber: 37.3 Consensus size: 7
64483 TCGGATAACA
64493 ATATATT
1 ATATATT
64500 ATAATATAT
1 AT-ATAT-T
*
64509 ATATGTT
1 ATATATT
64516 ATATATT
1 ATATATT
64523 ATATA--
1 ATATATT
*
64528 GTATATT
1 ATATATT
64535 ATATA-T
1 ATATATT
64541 ATATATAT
1 ATATAT-T
64549 ATATATAT
1 ATATAT-T
*
64557 ATATATA
1 ATATATT
64564 ATATA-T
1 ATATATT
*
64570 ATAGTAGT
1 ATA-TATT
64578 ATATA-T
1 ATATATT
64584 ATTATATT
1 A-TATATT
64592 -TATATT
1 ATATATT
64598 ATATATT
1 ATATATT
64605 ATATATT
1 ATATATT
*
64612 -TATATG
1 ATATATT
*
64618 GTATATT
1 ATATATT
64625 ATATTATAT
1 ATA-TAT-T
*
64634 ATATTTT
1 ATATATT
64641 ATATATT
1 ATATATT
*
64648 ACATATGT
1 ATATAT-T
*
64656 AT-TAAT
1 ATATATT
64662 ATATATAT
1 ATATAT-T
64670 ATATATT
1 ATATATT
**
64677 ATATAGC
1 ATATATT
64684 ATATA-T
1 ATATATT
64690 AT-TA-T
1 ATATATT
64695 ATATCATTT
1 ATAT-A-TT
64704 ATAGTATT
1 ATA-TATT
* *
64712 ATGTGTT
1 ATATATT
64719 AT-TA-T
1 ATATATT
64724 ATGATATT
1 AT-ATATT
64732 AT-TATT
1 ATATATT
64738 AT-TATT
1 ATATATT
64744 AT-TATT
1 ATATATT
64750 AT
1 AT
64752 TTTTCCTTTT
Statistics
Matches: 206, Mismatches: 21, Indels: 51
0.74 0.08 0.18
Matches are distributed among these distances:
5 12 0.06
6 47 0.23
7 86 0.42
8 48 0.23
9 12 0.06
10 1 0.00
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (7 bp):
ATATATT
Found at i:64571 original size:52 final size:50
Alignment explanation
Indices: 64493--64698 Score: 203
Period size: 54 Copynumber: 4.1 Consensus size: 50
64483 TCGGATAACA
*
64493 ATATAT-TATA-ATATATATATGT-TATATATTATATAGTATATTATATAT
1 ATATATATATATATATATATATATATATATATTATATA-TATATTATATAT
* *
64541 ATATATATATATATATATATATAATATATATAGTAGTATATATATTATATTT
1 ATATATATATATATATATATAT-ATATATATATTA-TATATATATTATATAT
* * *
64593 ATATTATATATTATATATTTATATGGTATATTATATTATATATATTTTATATAT
1 ATA-TATATA-TATATATATATAT-ATATA-TATATTATATATATATTATATAT
* * *
64647 -TACATATGTAT-TA-ATATATATATATATATTATATAGCATA-TATAT-T
1 ATATATATATATATATATATATATATATATATTATATA-TATATTATATAT
64693 ATATAT
1 ATATAT
64699 CATTTATAGT
Statistics
Matches: 132, Mismatches: 16, Indels: 21
0.78 0.09 0.12
Matches are distributed among these distances:
46 1 0.01
47 20 0.15
48 12 0.09
49 9 0.07
50 12 0.09
51 4 0.03
52 26 0.20
53 12 0.09
54 30 0.23
55 6 0.05
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (50 bp):
ATATATATATATATATATATATATATATATATTATATATATATTATATAT
Found at i:64706 original size:9 final size:9
Alignment explanation
Indices: 64493--64751 Score: 174
Period size: 9 Copynumber: 29.0 Consensus size: 9
64483 TCGGATAACA
64493 ATATATTAT
1 ATATATTAT
64502 A-ATA-TAT
1 ATATATTAT
*
64509 ATATGTTAT
1 ATATATTAT
64518 ATAT-TATAT
1 ATATAT-TAT
64527 AGTATATTAT
1 A-TATATTAT
64537 ATATA-TAT
1 ATATATTAT
64545 ATATA-TAT
1 ATATATTAT
64553 ATATA-TAT
1 ATATATTAT
64561 ATA-ATATAT
1 ATATAT-TAT
*
64570 ATAGTAGTAT
1 ATA-TATTAT
64580 ATATATTAT
1 ATATATTAT
*
64589 ATTTA-TATT
1 ATATATTA-T
64598 ATATATTAT
1 ATATATTAT
64607 ATAT-TTAT
1 ATATATTAT
*
64615 ATGGTA-TAT
1 AT-ATATTAT
64624 -TATATTAT
1 ATATATTAT
*
64632 ATATATTTT
1 ATATATTAT
64641 ATATATTACAT
1 ATATATT--AT
*
64652 ATGTATTA-
1 ATATATTAT
64660 ATATA-TAT
1 ATATATTAT
64668 ATATA-TATT
1 ATATATTA-T
**
64677 ATATAGCAT
1 ATATATTAT
64686 ATATATTAT
1 ATATATTAT
64695 ATATCATT-T
1 ATAT-ATTAT
64704 ATAGTATTAT
1 ATA-TATTAT
* *
64714 GTGTTATTAT
1 AT-ATATTAT
64724 ATGATATTAT
1 AT-ATATTAT
64734 -TATTATTAT
1 ATA-TATTAT
64743 -TATTATTAT
1 ATA-TATTAT
64752 TTTTCCTTTT
Statistics
Matches: 207, Mismatches: 18, Indels: 50
0.75 0.07 0.18
Matches are distributed among these distances:
7 9 0.04
8 52 0.25
9 101 0.49
10 36 0.17
11 9 0.04
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (9 bp):
ATATATTAT
Found at i:64734 original size:3 final size:3
Alignment explanation
Indices: 64728--64752 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
64718 TATTATATGA
64728 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
64753 TTTCCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:65073 original size:13 final size:13
Alignment explanation
Indices: 65055--65088 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
65045 GATAATGGTC
65055 TTGATGAAGGATG
1 TTGATGAAGGATG
*
65068 TTGATGATGGATG
1 TTGATGAAGGATG
*
65081 ATGATGAA
1 TTGATGAA
65089 ATGGCAATGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (13 bp):
TTGATGAAGGATG
Found at i:68587 original size:19 final size:17
Alignment explanation
Indices: 68586--68635 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
68576 TTTTTCTTTC
*
68586 TTTTCTTCTTTTCTGAATT
1 TTTTCTTCTTTT-T-AAAT
*
68605 TTTTCTTCTTTTTATAT
1 TTTTCTTCTTTTTAAAT
68622 TTTTCTTTCTTTTT
1 TTTTC-TTCTTTTT
68636 TCACTCCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 7 0.25
18 9 0.32
19 12 0.43
ACGTcount: A:0.08, C:0.14, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTCTTCTTTTTAAAT
Found at i:68587 original size:29 final size:28
Alignment explanation
Indices: 68561--68616 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
68551 TGCCTCTTGC
*
68561 TTTC-TCTTTT-TGATTTTTTTCTTTCT
1 TTTCTTCTTTTCTGAATTTTTTCTTTCT
68587 TTTCTTCTTTTCTGAATTTTTTC-TTCT
1 TTTCTTCTTTTCTGAATTTTTTCTTTCT
68614 TTT
1 TTT
68617 TATATTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 13 0.48
28 10 0.37
ACGTcount: A:0.05, C:0.16, G:0.04, T:0.75
Consensus pattern (28 bp):
TTTCTTCTTTTCTGAATTTTTTCTTTCT
Found at i:68597 original size:18 final size:17
Alignment explanation
Indices: 68576--68635 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 17
68566 CTTTTTGATT
68576 TTTTTCTTTCTTTTCTTC
1 TTTTTCTTT-TTTTCTTC
68594 -TTTTCTGAATTTTTTCTTC
1 TTTTTCT---TTTTTTCTTC
* *
68613 TTTTTATATTTTTCTTTC
1 TTTTTCTTTTTTTC-TTC
68631 TTTTT
1 TTTTT
68636 TCACTCCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
17 12 0.34
18 8 0.23
19 8 0.23
20 7 0.20
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTTCTTTTTTTCTTC
Found at i:71272 original size:32 final size:31
Alignment explanation
Indices: 71231--71296 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 31
71221 ATACTATTAG
* *
71231 TATTAAAATATAAAAATTTAAAATTTAATAA
1 TATTAAAATATAAAAATTTAAAATATAAAAA
** *
71262 TATTATAAATATTTAATTTTAAAATATAAAAA
1 TATTA-AAATATAAAAATTTAAAATATAAAAA
71294 TAT
1 TAT
71297 CAGTATTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 5 0.17
32 24 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
TATTAAAATATAAAAATTTAAAATATAAAAA
Found at i:71279 original size:24 final size:23
Alignment explanation
Indices: 71233--71296 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
71223 ACTATTAGTA
* *
71233 TTAAAATATAAAAAT-TTAAAAT
1 TTAAAATATAAAAATATTTAATT
*
71255 TTAATAATATTATAAATATTTAATT
1 TTAA-AATA-TAAAAATATTTAATT
71280 TTAAAATATAAAAATAT
1 TTAAAATATAAAAATAT
71297 CAGTATTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 4 0.11
23 12 0.34
24 10 0.29
25 9 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TTAAAATATAAAAATATTTAATT
Found at i:71380 original size:19 final size:22
Alignment explanation
Indices: 71356--71400 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
71346 ATAATCTAAT
71356 TAATAAAA-T-AAAAGATTA-A
1 TAATAAAACTAAAAAGATTATA
71375 TAATAAAACTAAAAAGATTATA
1 TAATAAAACTAAAAAGATTATA
71397 TAAT
1 TAAT
71401 TAAGTGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.35
20 1 0.04
21 9 0.39
22 5 0.22
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (22 bp):
TAATAAAACTAAAAAGATTATA
Found at i:71789 original size:29 final size:29
Alignment explanation
Indices: 71757--71815 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
71747 AAAATTAGTA
*
71757 AAAAATAATCAAAAATATTATTAGACGCT
1 AAAAATAATCAAAAACATTATTAGACGCT
* *
71786 AAAAATGATCGAAAACATTATTAGACGCT
1 AAAAATAATCAAAAACATTATTAGACGCT
71815 A
1 A
71816 TCGGTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (29 bp):
AAAAATAATCAAAAACATTATTAGACGCT
Found at i:79308 original size:30 final size:30
Alignment explanation
Indices: 79243--79310 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
79233 TGGCGGAAGA
* *
79243 AGTGGTGGTAGGAGTGGAGGAAGAGACGGT
1 AGTGGTGGTAGAAATGGAGGAAGAGACGGT
* * *
79273 GGTGGTGGTAGAAATGGAGGAAGAGATGTT
1 AGTGGTGGTAGAAATGGAGGAAGAGACGGT
79303 AGTGGTGG
1 AGTGGTGG
79311 ATGGAGTGGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.01, G:0.51, T:0.21
Consensus pattern (30 bp):
AGTGGTGGTAGAAATGGAGGAAGAGACGGT
Found at i:79557 original size:3 final size:3
Alignment explanation
Indices: 79549--79574 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
79539 TTTGTGATAG
79549 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
79575 AAAATCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:80212 original size:57 final size:58
Alignment explanation
Indices: 80146--80261 Score: 171
Period size: 58 Copynumber: 2.0 Consensus size: 58
80136 AACGCCGTAA
* ** * *
80146 TAGTTTTAATCAATAGTGGTGC-TTTTAGACAAACACCGCAATAGTGTTAATCAATAG
1 TAGTGTTAATCAATAGTGACGCTTTTTAAACAAACACCACAATAGTGTTAATCAATAG
*
80203 TAGTGTTAATCAATCGTGACGCTTTTTAAACAAACACCACAATAGTGTTAATCAATAG
1 TAGTGTTAATCAATAGTGACGCTTTTTAAACAAACACCACAATAGTGTTAATCAATAG
80261 T
1 T
80262 GGCATTTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 18 0.35
58 34 0.65
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (58 bp):
TAGTGTTAATCAATAGTGACGCTTTTTAAACAAACACCACAATAGTGTTAATCAATAG
Found at i:81752 original size:40 final size:41
Alignment explanation
Indices: 81658--81781 Score: 103
Period size: 40 Copynumber: 3.0 Consensus size: 41
81648 ACCCCAAACA
* * * *
81658 CGCTAAAAAGTTGTACTTTAATGGCGTTTTTGACATAAACGT
1 CGCTAAAAAGTTGTA-TTTAGTGGCATTTTTGACACAAACGC
*
81700 CGC-AATAGAGTTGTATTTAGTGGCATTTGTT-AC-CAAACGC
1 CGCTAA-AAAGTTGTATTTAGTGGCATTT-TTGACACAAACGC
* ** * *
81740 CGCTAAAAAGTTG-AATTAGTGGCGCTTTTGAAATAAACGC
1 CGCTAAAAAGTTGTATTTAGTGGCATTTTTGACACAAACGC
81780 CG
1 CG
81782 TAATGTTTTC
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
38 2 0.03
39 12 0.18
40 22 0.33
41 17 0.26
42 13 0.20
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (41 bp):
CGCTAAAAAGTTGTATTTAGTGGCATTTTTGACACAAACGC
Found at i:81803 original size:41 final size:40
Alignment explanation
Indices: 81754--81861 Score: 144
Period size: 41 Copynumber: 2.6 Consensus size: 40
81744 AAAAAGTTGA
81754 ATTAGTGGCGCTTTTGAAATAAACGCCGTAATGTTTTCTCC
1 ATTAGTGGCG-TTTTGAAATAAACGCCGTAATGTTTTCTCC
* * * *
81795 TTTAGTGGCGTTTTCATAATAAACACTGTAATGTTTTCTCC
1 ATTAGTGGCGTTTTGA-AATAAACGCCGTAATGTTTTCTCC
*
81836 ATTAGTGGCGTTTTTGTAATAAACGC
1 ATTAGTGGCG-TTTTGAAATAAACGC
81862 TGCCCCTATT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
40 5 0.09
41 48 0.84
42 4 0.07
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (40 bp):
ATTAGTGGCGTTTTGAAATAAACGCCGTAATGTTTTCTCC
Found at i:90196 original size:2 final size:2
Alignment explanation
Indices: 90189--90219 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
90179 TGGTTTGATG
90189 TA 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 TA T
90220 CATTGGAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:98059 original size:202 final size:203
Alignment explanation
Indices: 97756--98159 Score: 677
Period size: 202 Copynumber: 2.0 Consensus size: 203
97746 CGTTTTTTCA
* * * *
97756 AAACCAGTATCTATTGACCGGTTATATTGTATATTGAAATTGGTTTTATCAATTTTTAACTTTTT
1 AAACCAGTATCTAATGACCGGTTACATTGTATATTGAAACTGGTTTTATCAATTTTTAACCTTTT
*
97821 ATATCATAATGTATCGATACATTTTTATAAGTATCGATACTTCTTACGTGCATGTAGTTTTGAGA
66 ATATCATAATGTATCGATACATATTTATAAGTATCGATACTTCTTACGTGCATGTAGTTTTGAGA
97886 AGCATACTGGACAAAAAGTATCGATACATATACAAA-A-AGTATCGATACTTTATATAAACTTAT
131 AGCATACTGGACAAAAAGTATCGATACATATA-AAATAGAGTATCGATACTTTATATAAACTTAT
97949 GTTACCATT
195 GTTACCATT
*
97958 AAACCGGTATCTAATGACCGGTTACATTGTATATTGAAACTGGTTTTATCAATTTTTAACCTTTT
1 AAACCAGTATCTAATGACCGGTTACATTGTATATTGAAACTGGTTTTATCAATTTTTAACCTTTT
* * * *
98023 ATATCATTATGTATCGATATATATTTATAGGTATCGATACTTCTTACGTGTATGTAGTTTTGAGA
66 ATATCATAATGTATCGATACATATTTATAAGTATCGATACTTCTTACGTGCATGTAGTTTTGAGA
* *
98088 AGCATATTGGACAAAAAGTATCGATACATATAAAATAGCGTATCGATACTTTATATAAACTTATG
131 AGCATACTGGACAAAAAGTATCGATACATATAAAATAGAGTATCGATACTTTATATAAACTTATG
98153 TTACCAT
196 TTACCAT
98160 AATACAGTTA
Statistics
Matches: 188, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
201 3 0.02
202 152 0.81
203 33 0.18
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (203 bp):
AAACCAGTATCTAATGACCGGTTACATTGTATATTGAAACTGGTTTTATCAATTTTTAACCTTTT
ATATCATAATGTATCGATACATATTTATAAGTATCGATACTTCTTACGTGCATGTAGTTTTGAGA
AGCATACTGGACAAAAAGTATCGATACATATAAAATAGAGTATCGATACTTTATATAAACTTATG
TTACCATT
Found at i:102414 original size:21 final size:18
Alignment explanation
Indices: 102374--102433 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 18
102364 ATTTGGTTAG
*
102374 AAGAAGAGCTTGGTTGAG
1 AAGAAGAGCTTGGTTGAA
102392 AAGAAG-G-TTGTCGTTGAA
1 AAGAAGAGCTTG--GTTGAA
102410 AAGAAGAGCTTGGTTGAA
1 AAGAAGAGCTTGGTTGAA
102428 AAGAAG
1 AAGAAG
102434 GTTGTCGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
16 3 0.08
17 1 0.03
18 29 0.78
19 1 0.03
20 3 0.08
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (18 bp):
AAGAAGAGCTTGGTTGAA
Found at i:102421 original size:36 final size:36
Alignment explanation
Indices: 102374--102442 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
102364 ATTTGGTTAG
*
102374 AAGAAGAGCTTGGTTGAGAAGAAGGTTGTCGTTGAA
1 AAGAAGAGCTTGGTTGAAAAGAAGGTTGTCGTTGAA
102410 AAGAAGAGCTTGGTTGAAAAGAAGGTTGTCGTT
1 AAGAAGAGCTTGGTTGAAAAGAAGGTTGTCGTT
102443 TAGAAGGACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.33, C:0.06, G:0.35, T:0.26
Consensus pattern (36 bp):
AAGAAGAGCTTGGTTGAAAAGAAGGTTGTCGTTGAA
Found at i:103078 original size:200 final size:200
Alignment explanation
Indices: 102725--104278 Score: 2390
Period size: 200 Copynumber: 7.8 Consensus size: 200
102715 GTAATTTAAC
* * * * * *
102725 AAAAGTATCTATAAAATTTAATAAAGTATCGATACATTATGTTTACATATTCTCTCAATAAACTA
1 AAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACCA
* *
102790 ATATATTTTTATTGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTT
66 GTATATTTTTATCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTT
* **
102855 TGGGATTGATACTTA-ATATAAATGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTC
131 TGGGATCGATACTTATA-ATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTC
102919 TGGACA
195 TGGACA
*
102925 AAAAGTATCGATATAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACCA
1 AAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACCA
* * * *
102990 ATATATTTTTACCAGTTACATTGTAAATTTACCTATTACTTTATAATTATTGGTTTCGATG-TTT
66 GTATATTTTTATCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTT
* * ** * * * *
103054 TGAGGATTGATATTTATAATAAATGTATCGACAGTTTATGCGTGCATCTCATTTGACATTCATTC
131 TG-GGATCGATACTTATAATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTC
103119 TGGACA
195 TGGACA
**
103125 AAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACTG
1 AAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACCA
* * *
103190 GTATATTTTTACCGATTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTTGAT-TTTT
66 GTATATTTTTATCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTT
* *
103254 TGGGATCGATACTTATAATACTTGTATCGACAATTTATGCGTGCATCTCGTTTGGCATTCATTCT
131 TGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTCT
*
103319 AGACA
196 GGACA
* * *
103324 AAATGTATCGATACAATTTAAAAAAGTATCGATAAATTATGTTTACCTATTCTCTCATTAAACCG
1 AAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACCA
* *
103389 GTATATTTTTATCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCAATATTTT
66 GTATATTTTTATCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTT
*
103454 TGGGATCGATACATATAATACTTGTATCGACACTTTA--TGTGCATCTCGTTTGGCATTCATTCT
131 TGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTCT
103517 GGACA
196 GGACA
* * **
103522 AAAAGTATTGATACAATTT-AAAAAGTATCGATACATTATGTTTACATATTCTCTCATTAAATTA
1 AAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACCA
* *
103586 GTAGATTTTTATC-GTTAACATTGTAAATTAACCTATTACTTTATAATTATCGGTTTCGATGTTT
66 GTATATTTTTATCGGTT-ACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTT
103650 TTGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTC
130 TTGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTC
103715 TGGACA
195 TGGACA
* * **
103721 AAAAGTATCGATACAATTTAAAAAAGTATCGATAAATTATGTTTACCGATTCTCTCATTAAACTG
1 AAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACCA
* * *
103786 GTATATTTTTATCAGTTACATTGTAAATTTACCTATTACTTTATAATTATCAGTTTCAATGTTTT
66 GTATATTTTTATCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTT
* *
103851 TGGGATCGATACTTATAATACTTGTATCGACACTTTA--TGTGCATATCGTTTGTCATTCATTCT
131 TGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTCT
103914 GGACA
196 GGACA
* * * * *
103919 AAACGTATTGATACAATTTAAAAAAGTAGCGATACATTATGTTTACATATTCTCTCATTAAATCA
1 AAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACCA
* * *
103984 GTATATTTTTACCGGTAACATTGCAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTT
66 GTATATTTTTATCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTT
104049 TGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTCT
131 TGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTCT
104114 GGACA
196 GGACA
* ** * *
104119 AAACGTATCGATACAATTTAAAAAAGTATTAATACATTATGTTTACCCATTCTCTCATGAAA-CA
1 AAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACCA
* *
104183 GGTATATTTTTTTCGGTTACATTGTAAATTTACCTGTTACTTTATAATTATCGGTTTCGATGTTT
66 -GTATATTTTTATCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTT
104248 TTGGGATCGATACTTATAATACTTGTATCGA
130 TTGGGATCGATACTTATAATACTTGTATCGA
104279 TACCTCAAGT
Statistics
Matches: 1247, Mismatches: 95, Indels: 24
0.91 0.07 0.02
Matches are distributed among these distances:
196 3 0.00
197 133 0.11
198 227 0.18
199 234 0.19
200 646 0.52
201 4 0.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (200 bp):
AAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACCA
GTATATTTTTATCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTT
TGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTCT
GGACA
Found at i:103361 original size:20 final size:21
Alignment explanation
Indices: 103323--103361 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
103313 CATTCTAGAC
*
103323 AAAATGTATCGATACAATTTA
1 AAAAAGTATCGATACAATTTA
103344 AAAAAGTATCGATA-AATT
1 AAAAAGTATCGATACAATT
103362 ATGTTTACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (21 bp):
AAAAAGTATCGATACAATTTA
Found at i:103758 original size:20 final size:21
Alignment explanation
Indices: 103720--103758 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
103710 CATTCTGGAC
103720 AAAAAGTATCGATACAATTTA
1 AAAAAGTATCGATACAATTTA
103741 AAAAAGTATCGATA-AATT
1 AAAAAGTATCGATACAATT
103759 ATGTTTACCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (21 bp):
AAAAAGTATCGATACAATTTA
Found at i:104164 original size:398 final size:398
Alignment explanation
Indices: 102725--104278 Score: 2463
Period size: 397 Copynumber: 3.9 Consensus size: 398
102715 GTAATTTAAC
* * *
102725 AAAAGTATCT-ATAAAATTTAATAAAGTATCGATACATTATGTTTACATATTCTCTCAATAAACT
1 AAAAGTAT-TGATACAATTTAAAAAAGTATCGATACATTATGTTTACATATTCTCTCATTAAACT
* ** *
102789 AATATATTTTTATTGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTT
65 AGTATATTTTTACCGGTAACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTT
* **
102854 TTGGGATTGATACTTA-ATATAAATGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATT
130 TTGGGATCGATACTTATA-ATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATT
* *
102918 CTGGACAAAAAGTATCGATATAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCAT
194 CTGGACAAAAAGTATCGATACAATTTAAAAAAGTATCGATAAATTATGTTTACCTATTCTCTCAT
** * * *
102983 TAAACCAATATATTTTTACCAGTTACATTGTAAATTTACCTATTACTTTATAATTATTGGTTTCG
259 TAAACCGGTATATTTTTATCAGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCA
* * ** * *
103048 ATG-TTTTGAGGATTGATATTTATAATAAATGTATCGACAGTTTATGCGTGCATCTCATTTGACA
324 ATGTTTTTG-GGATCGATACTTATAATACTTGTATCGACACTTTAT--GTGCATCTCGTTTGACA
103112 TTCATTCTGGACA
386 TTCATTCTGGACA
* * *
103125 AAAAGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACTG
1 AAAAGTATTGATACAATTTAAAAAAGTATCGATACATTATGTTTACATATTCTCTCATTAAACTA
* * *
103190 GTATATTTTTACCGATTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTTGAT-TTTT
66 GTATATTTTTACCGGTAACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTT
* *
103254 TGGGATCGATACTTATAATACTTGTATCGACAATTTATGCGTGCATCTCGTTTGGCATTCATTCT
131 TGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTCT
* *
103319 AGACAAAATGTATCGATACAATTTAAAAAAGTATCGATAAATTATGTTTACCTATTCTCTCATTA
196 GGACAAAAAGTATCGATACAATTTAAAAAAGTATCGATAAATTATGTTTACCTATTCTCTCATTA
*
103384 AACCGGTATATTTTTATCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCAAT
261 AACCGGTATATTTTTATCAGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCAAT
* * *
103449 ATTTTTGGGATCGATACATATAATACTTGTATCGACACTTTATGTGCATCTCGTTTGGCATTCAT
326 GTTTTTGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGCATCTCGTTTGACATTCAT
103514 TCTGGACA
391 TCTGGACA
*
103522 AAAAGTATTGATACAATTT-AAAAAGTATCGATACATTATGTTTACATATTCTCTCATTAAATTA
1 AAAAGTATTGATACAATTTAAAAAAGTATCGATACATTATGTTTACATATTCTCTCATTAAACTA
* * * *
103586 GTAGATTTTTATCGTTAACATTGTAAATTAACCTATTACTTTATAATTATCGGTTTCGATGTTTT
66 GTATATTTTTACCGGTAACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTT
103651 TGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTCT
131 TGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTCT
*
103716 GGACAAAAAGTATCGATACAATTTAAAAAAGTATCGATAAATTATGTTTACCGATTCTCTCATTA
196 GGACAAAAAGTATCGATACAATTTAAAAAAGTATCGATAAATTATGTTTACCTATTCTCTCATTA
* *
103781 AACTGGTATATTTTTATCAGTTACATTGTAAATTTACCTATTACTTTATAATTATCAGTTTCAAT
261 AACCGGTATATTTTTATCAGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCAAT
* *
103846 GTTTTTGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGCATATCGTTTGTCATTCAT
326 GTTTTTGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGCATCTCGTTTGACATTCAT
103911 TCTGGACA
391 TCTGGACA
* *
103919 AAACGTATTGATACAATTTAAAAAAGTAGCGATACATTATGTTTACATATTCTCTCATTAAA-TC
1 AAAAGTATTGATACAATTTAAAAAAGTATCGATACATTATGTTTACATATTCTCTCATTAAACT-
*
103983 AGTATATTTTTACCGGTAACATTGCAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTT
65 AGTATATTTTTACCGGTAACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTT
104048 TTGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTC
130 TTGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTC
* ** * * *
104113 TGGACAAAACGTATCGATACAATTTAAAAAAGTATTAATACATTATGTTTACCCATTCTCTCATG
195 TGGACAAAAAGTATCGATACAATTTAAAAAAGTATCGATAAATTATGTTTACCTATTCTCTCATT
* * * * *
104178 AAACAGGTATATTTTTTTCGGTTACATTGTAAATTTACCTGTTACTTTATAATTATCGGTTTCGA
260 AAACCGGTATATTTTTATCAGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCAA
104243 TGTTTTTGGGATCGATACTTATAATACTTGTATCGA
325 TGTTTTTGGGATCGATACTTATAATACTTGTATCGA
104279 TACCTCAAGT
Statistics
Matches: 1072, Mismatches: 76, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
396 96 0.09
397 325 0.30
398 320 0.30
399 212 0.20
400 119 0.11
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (398 bp):
AAAAGTATTGATACAATTTAAAAAAGTATCGATACATTATGTTTACATATTCTCTCATTAAACTA
GTATATTTTTACCGGTAACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTTT
TGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTCT
GGACAAAAAGTATCGATACAATTTAAAAAAGTATCGATAAATTATGTTTACCTATTCTCTCATTA
AACCGGTATATTTTTATCAGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCAAT
GTTTTTGGGATCGATACTTATAATACTTGTATCGACACTTTATGTGCATCTCGTTTGACATTCAT
TCTGGACA
Found at i:108908 original size:9 final size:9
Alignment explanation
Indices: 108896--108942 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
108886 TCTCCTCTTT
108896 CTCCTCTAC
1 CTCCTCTAC
108905 CT-C-CT-C
1 CTCCTCTAC
108911 CTCCTCTAC
1 CTCCTCTAC
*
108920 CTCCTCTGC
1 CTCCTCTAC
108929 CTCCTCTAC
1 CTCCTCTAC
108938 CTCCT
1 CTCCT
108943 TGCCAATAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 3 0.09
7 3 0.09
8 3 0.09
9 24 0.73
ACGTcount: A:0.06, C:0.57, G:0.02, T:0.34
Consensus pattern (9 bp):
CTCCTCTAC
Found at i:108910 original size:18 final size:16
Alignment explanation
Indices: 108895--108942 Score: 71
Period size: 15 Copynumber: 2.9 Consensus size: 16
108885 TTCTCCTCTT
108895 TCTCCTCTACCTCCTC
1 TCTCCTCTACCTCCTC
108911 -CTCCTCTACCTCCTC
1 TCTCCTCTACCTCCTC
108926 TGCCTCCTCTACCTCCT
1 T--CTCCTCTACCTCCT
108943 TGCCAATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 15 0.52
18 14 0.48
ACGTcount: A:0.06, C:0.56, G:0.02, T:0.35
Consensus pattern (16 bp):
TCTCCTCTACCTCCTC
Found at i:108914 original size:24 final size:24
Alignment explanation
Indices: 108887--108934 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
108877 CTTCTTCTTT
**
108887 CTCCTCTTTCTCCTCTACCTCCTC
1 CTCCTCTACCTCCTCTACCTCCTC
*
108911 CTCCTCTACCTCCTCTGCCTCCTC
1 CTCCTCTACCTCCTCTACCTCCTC
108935 TACCTCCTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.04, C:0.56, G:0.02, T:0.38
Consensus pattern (24 bp):
CTCCTCTACCTCCTCTACCTCCTC
Found at i:111403 original size:183 final size:183
Alignment explanation
Indices: 111185--111670 Score: 692
Period size: 183 Copynumber: 2.7 Consensus size: 183
111175 TTATTAAAGT
*
111185 ATCGATACATTCAACATATCTGGTAGCGCTTTACCGATTTTGTCATAATGAAACCGGTTTTGTCA
1 ATCGATACATTCAACATATCTGGTAGCGCTTTACCGATTTTGTCATAATGAAACCGGTTTTCTCA
*
111250 TATTTTTACCTGTTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATATGCG
66 TATTTTTACCTGTTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
*
111315 CTATTATTGCTTTTCTTTTAAATTCCAAAAGT-ATCGATACTTATTTGAATGAA
131 CTATTATTGCTTTTCTTTTAAATTCCAAAAGTGCT-GATACTTATTTGAATGAA
* * * *
111368 ATCGATACATTCAACATATCTGGTAGCGATTTACCGGTTTTGTCATAATGAAACCGATTTTTTCA
1 ATCGATACATTCAACATATCTGGTAGCGCTTTACCGATTTTGTCATAATGAAACCGGTTTTCTCA
* * * *
111433 TATTTTTACCTGTTATATTGTTACGTATCGATACCTGTTTATAAATTATCAATACTTTATAGGCG
66 TATTTTTACCTGTTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
* *
111498 CTATTATTGCTTTTCTTTTAAATTCTAAAAGTGCTGATACTTATTTGAATGGA
131 CTATTATTGCTTTTCTTTTAAATTCCAAAAGTGCTGATACTTATTTGAATGAA
* * * * * *
111551 ATCGATACCTTCAACATATCCGATAGCGCTTTA-CTAGTTTTGTCATATTGAACCCGGTTTTCTC
1 ATCGATACATTCAACATATCTGGTAGCGCTTTACCGA-TTTTGTCATAATGAAACCGGTTTTCTC
* ** * *
111615 ATATTTTTACCAT-ATATATTGTTATGTATTAATACATATTT-TAATGGTATCGATAC
65 ATATTTTTACC-TGTTATATTGTTATGTATCGATACATGTTTATAA-AGTATCGATAC
111671 GTACCGACAA
Statistics
Matches: 268, Mismatches: 31, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
182 4 0.01
183 262 0.98
184 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (183 bp):
ATCGATACATTCAACATATCTGGTAGCGCTTTACCGATTTTGTCATAATGAAACCGGTTTTCTCA
TATTTTTACCTGTTATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTATAGGCG
CTATTATTGCTTTTCTTTTAAATTCCAAAAGTGCTGATACTTATTTGAATGAA
Found at i:125066 original size:215 final size:215
Alignment explanation
Indices: 124808--125707 Score: 1373
Period size: 214 Copynumber: 4.2 Consensus size: 215
124798 ATTTAAGAAT
* **
124808 TAAATTGAACAAATATGAAATTACAAATAAAACTTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATAAAATTACAAATAAAA-AATAAATAAATTAAACAACACACATTGATGAG
124873 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATAC-AAAAAGTACTAAATTATAC
65 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
*
124937 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGAATGGGTCAATTTCAGA
130 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
125002 TGCAAATAAAATTTGGAGGAC
195 TGCAAATAAAATTTGGAGGAC
125023 TAAATTGAACAAATATAAAATTACAAATAAAAATATAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATAAAATTACAAATAAAAA-ATAAATAAATTAAACAACACACATTGATGAG
125088 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
65 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * *
125153 ACATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGATCAATTTCATA
130 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
125218 TGCAAATAAAATTTGGAGGAC
195 TGCAAATAAAATTTGGAGGAC
* * * * *
125239 TAAATTGAAC--ATAT---A-T-GAAATTAAAAA-AAAT---TT-AACAATATACATTGATAAGG
1 TAAATTGAACAAATATAAAATTACAAATAAAAAATAAATAAATTAAACAACACACATTGATGAGG
** * *
125292 GATCAAATTGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACT
66 GATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACC
* * * * *
125357 CATTTAAAAAGTTATGGGACAATTAAAAAGTAGAAATAAGGAATAAGTAT-GGTTAATTTCATAT
131 CATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGAT
125421 GCAAATAAAATTTGGAGGAC
196 GCAAATAAAATTTGGAGGAC
*
125441 TAAATTGAACAAATATGAAATTA-AAATAAAAAATCAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATAAAATTACAAATAAAAAAT-AAATAAATTAAACAACACACATTGATGAG
* * *
125505 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTTCTATATTATAC
65 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * ** *
125570 CCATTTAAAAATTTATGGGCCAATTAAAAAA-AGATATAAACAATAAGTATGGGTCAATTTTAGA
130 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
125634 TGCAAATAAAATTTGGAGGAC
195 TGCAAATAAAATTTGGAGGAC
*
125655 TAAATTGAACAAATATAAAATTGCAAATAAAAAATTAAATAAATTAAACAACA
1 TAAATTGAACAAATATAAAATTACAAATAAAAAA-TAAATAAATTAAACAACA
125708 GAAAGGGATC
Statistics
Matches: 626, Mismatches: 41, Indels: 36
0.89 0.06 0.05
Matches are distributed among these distances:
202 42 0.07
203 125 0.20
204 6 0.01
207 5 0.01
208 11 0.02
209 8 0.01
210 5 0.01
211 1 0.00
213 18 0.03
214 160 0.26
215 133 0.21
216 112 0.18
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (215 bp):
TAAATTGAACAAATATAAAATTACAAATAAAAAATAAATAAATTAAACAACACACATTGATGAGG
GATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACC
CATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGAT
GCAAATAAAATTTGGAGGAC
Found at i:125425 original size:418 final size:416
Alignment explanation
Indices: 124830--125676 Score: 1358
Period size: 417 Copynumber: 2.0 Consensus size: 416
124820 ATATGAAATT
* * * *
124830 ACAAATA-AAACTTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCAAAATAATTTT
1 ACAAATATAAAATTAAAAAAAATTAAACAACACACATTGATAAGGGATCAAATCAAAATAATTTT
*
124894 AAATTGTGAGGTTGAAATTAATACAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCA
66 AAATTGTGAGGTTGAAATTAATACAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGACA
*
124959 ATTAAAAAATAGAAATAAGTAATAAGAATGGGTCAATTTCAGATGCAAATAAAATTTGGAGGACT
131 ATTAAAAAATAGAAATAAGGAATAAGAATGGGTCAATTTCAGATGCAAATAAAATTTGGAGGACT
125024 AAATTGAACAAATATAAAATTACAAATAAAAATAT-AAATAAATTAAACAACACACATTGATGAG
196 AAATTGAACAAATATAAAATTA-AAATAAAAA-ATCAAATAAATTAAACAACACACATTGATGAG
125088 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
259 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
** *
125153 ACATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGATCAATTTCATA
324 ACATTTAAAAAGTTATGGGCCAATTAAAAAA-AGAAATAAACAATAAGTATGGATCAATTTCAGA
125218 TGCAAATAAAATTTGGAGGACTAAATTGA
388 TGCAAATAAAATTTGGAGGACTAAATTGA
* * * * * **
125247 ACATATATGAAATTAAAAAAAATTTAACAATATACATTGATAAGGGATCAAATTGAAATAATTTT
1 ACAAATATAAAATTAAAAAAAATTAAACAACACACATTGATAAGGGATCAAATCAAAATAATTTT
* *
125312 AAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACTCATTTAAAAAGTTATGGGAC
66 AAATTGTGAGGTTGAAATTAATAC-AAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGAC
* * * *
125377 AATTAAAAAGTAGAAATAAGGAATAAGTAT-GGTTAATTTCATATGCAAATAAAATTTGGAGGAC
130 AATTAAAAAATAGAAATAAGGAATAAGAATGGGTCAATTTCAGATGCAAATAAAATTTGGAGGAC
*
125441 TAAATTGAACAAATATGAAATTAAAATAAAAAATCAAATAAATTAAACAACACACATTGATGAGG
195 TAAATTGAACAAATATAAAATTAAAATAAAAAATCAAATAAATTAAACAACACACATTGATGAGG
* * * *
125506 GATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTTCTATATTATACC
260 GATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACA
* * * *
125571 CATTTAAAAATTTATGGGCCAATTAAAAAAAGATATAAACAATAAGTATGGGTCAATTTTAGATG
325 CATTTAAAAAGTTATGGGCCAATTAAAAAAAGAAATAAACAATAAGTATGGATCAATTTCAGATG
125636 CAAATAAAATTTGGAGGACTAAATTGA
390 CAAATAAAATTTGGAGGACTAAATTGA
125663 ACAAATATAAAATT
1 ACAAATATAAAATT
125677 GCAAATAAAA
Statistics
Matches: 394, Mismatches: 33, Indels: 7
0.91 0.08 0.02
Matches are distributed among these distances:
416 70 0.18
417 135 0.34
418 124 0.31
419 65 0.16
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (416 bp):
ACAAATATAAAATTAAAAAAAATTAAACAACACACATTGATAAGGGATCAAATCAAAATAATTTT
AAATTGTGAGGTTGAAATTAATACAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGACA
ATTAAAAAATAGAAATAAGGAATAAGAATGGGTCAATTTCAGATGCAAATAAAATTTGGAGGACT
AAATTGAACAAATATAAAATTAAAATAAAAAATCAAATAAATTAAACAACACACATTGATGAGGG
ATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACAC
ATTTAAAAAGTTATGGGCCAATTAAAAAAAGAAATAAACAATAAGTATGGATCAATTTCAGATGC
AAATAAAATTTGGAGGACTAAATTGA
Found at i:125819 original size:20 final size:20
Alignment explanation
Indices: 125796--125862 Score: 91
Period size: 20 Copynumber: 3.2 Consensus size: 20
125786 CTAATATATA
125796 ATATAAACTATATAGTTTAT
1 ATATAAACTATATAGTTTAT
*
125816 ATATAAAGTATAT-GTATTAT
1 ATATAAACTATATAGT-TTAT
125836 ATATATGAACTATATAGTTTAT
1 ATATA--AACTATATAGTTTAT
125858 ATATA
1 ATATA
125863 TATTATGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.05
20 21 0.51
22 16 0.39
23 2 0.05
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (20 bp):
ATATAAACTATATAGTTTAT
Found at i:125841 original size:22 final size:22
Alignment explanation
Indices: 125790--125864 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
125780 AAACAACTAA
125790 TATATAATATAAACTATATAG-T
1 TATAT-ATATAAACTATATAGTT
*
125812 T-TATATATAAAGTATAT-GTAT
1 TATATATATAAACTATATAGT-T
*
125833 TATATATATGAACTATATAGTT
1 TATATATATAAACTATATAGTT
125855 TATATATATA
1 TATATATATA
125865 TTATGTATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.02
20 12 0.27
21 5 0.11
22 25 0.56
23 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (22 bp):
TATATATATAAACTATATAGTT
Found at i:125880 original size:20 final size:20
Alignment explanation
Indices: 125857--125904 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
125847 ATATAGTTTA
** *
125857 TATATATATTATGTATAAAC
1 TATATATACCATGCATAAAC
125877 TATATATACCATGCATAAAC
1 TATATATACCATGCATAAAC
125897 TATA-ATAC
1 TATATATAC
125905 TATATAGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (20 bp):
TATATATACCATGCATAAAC
Found at i:125881 original size:42 final size:42
Alignment explanation
Indices: 125791--125884 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 42
125781 AACAACTAAT
*
125791 ATATAATATAAACTATATAGTTTATATATAAAGTATATGTATT
1 ATAT-ATATAAACTATATAGTTTATATATAAAGTATATGTATA
* *
125834 ATATATATGAACTATATAGTTTATATATATA-T-TATGTATAA
1 ATATATATAAACTATATAGTTTATATATAAAGTATATGTAT-A
125875 ACTATATATA
1 A-TATATATA
125885 CCATGCATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
40 7 0.16
41 2 0.04
42 32 0.71
43 4 0.09
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (42 bp):
ATATATATAAACTATATAGTTTATATATAAAGTATATGTATA
Found at i:127283 original size:27 final size:29
Alignment explanation
Indices: 127216--127283 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
127206 ATCCTTTACA
* *
127216 TTTTTTATTTGTTTACTTTATATATATAT
1 TTTTTTATTTCTTTAATTTATATATATAT
*
127245 TTTTTCATTTTCTTCTAATTT-TA-ATAT-T
1 TTTTTTA-TTTCTT-TAATTTATATATATAT
127273 TTTTTTATTTC
1 TTTTTTATTTC
127284 ATTTTACATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 4 0.12
28 7 0.21
29 10 0.30
30 7 0.21
31 5 0.15
ACGTcount: A:0.21, C:0.07, G:0.01, T:0.71
Consensus pattern (29 bp):
TTTTTTATTTCTTTAATTTATATATATAT
Found at i:127350 original size:21 final size:21
Alignment explanation
Indices: 127324--127363 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
127314 TTATTATCGT
127324 TTTTTGTTTTTAT-TTTTTACC
1 TTTTTGTTTTT-TGTTTTTACC
127345 TTTTTGTTTTTTGTTTTTA
1 TTTTTGTTTTTTGTTTTTA
127364 TTATTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTTGTTTTTTGTTTTTACC
Found at i:127475 original size:27 final size:26
Alignment explanation
Indices: 127438--127511 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 26
127428 TTCTAAACAT
* *
127438 TTTTTAACTTTTTTAACTTTTTCCTT
1 TTTTCAACTTTTTTAACTTTTTCCTA
*
127464 TTTTCCAACTTTTTCAACCTTTTT-CTA
1 TTTT-CAACTTTTTTAA-CTTTTTCCTA
*
127491 TTTTCAAC-TATTT-ACTTTTTC
1 TTTTCAACTTTTTTAACTTTTTC
127512 AAACTTTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
23 6 0.15
24 1 0.03
25 3 0.08
26 8 0.20
27 16 0.40
28 6 0.15
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTTCAACTTTTTTAACTTTTTCCTA
Done.