Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 142 of 349
Found at i:45453640 original size:54 final size:54
Alignment explanation
Indices: 45453479--45453687 Score: 183
Period size: 54 Copynumber: 3.9 Consensus size: 54
45453469 CTCGATTTAC
* * ** **
45453479 AAAATTATTGAAATACCCTT-AGTTTACAAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACTAAAATACCCTTGA-TTTGTAAAATTACCAAAATACCCCT-GATTTGT
* * * * * * *
45453533 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATAACCTTGGTTTGT
1 AAAATTACTAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGATTTGT
*
45453587 AAAATTACTAAAATACCCTTGACTTGTAAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACTAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGATTTGT
* * * * * *
45453641 GAAATTA-TCAAAATACTCTCGATTTGTATAA-TATCGAAATACCCCTG
1 AAAATTACT-AAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTG
45453688 TAGGATAGAA
Statistics
Matches: 125, Mismatches: 27, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
53 15 0.12
54 107 0.86
55 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGATTTGT
Found at i:45453714 original size:27 final size:27
Alignment explanation
Indices: 45453676--45453915 Score: 317
Period size: 27 Copynumber: 9.0 Consensus size: 27
45453666 GTATAATATC
*
45453676 GAAATACCCCTGTAGGATAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
45453703 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
45453730 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
*
45453757 GAAATACCCCTGTAGAGTAGAATTA-T
1 GAAATACCCCTGTAGGGTAGAATTACT
*
45453783 CGAAATACCCCTATAGGGTAGAATTA-T
1 -GAAATACCCCTGTAGGGTAGAATTACT
* *
45453810 CGCAATA-CCCTGTAGGGTAGAATTACC
1 -GAAATACCCCTGTAGGGTAGAATTACT
45453837 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
45453864 AAAATACCCCTGTAGGGTGGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
45453891 GAGATA-CCTTGTGGGGTAAAATTAC
1 GAAATACCCCTGTAGGGTAGAATTAC
45453916 CATTTTGCCT
Statistics
Matches: 190, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
26 37 0.19
27 153 0.81
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:45453735 original size:134 final size:134
Alignment explanation
Indices: 45453589--45453890 Score: 353
Period size: 134 Copynumber: 2.3 Consensus size: 134
45453579 TGGTTTGTAA
* ** **
45453589 AATTACTAAAATACCCTTG-ACTTGTAAAATTACCAAAATACCCCTG-ATTTGT-GAAATTATCA
1 AATTACTAAAATACCCCTGTA-GGGTAAAATTACCAAAATACCCCTGTA-GAGTAG-AATTATCA
* ** * *
45453651 AAATACTCTCGAT-TTGTATAA-TATCGAAATACCCCTGTAGGATAGAATTACTGAAATACCCCT
63 AAATAC-CCCGATAGGGTAGAATTATCGAAATA-CCCTGTAGGATAGAATTACCGAAATACCCCT
45453714 GTAGGGTAG
126 GTAGGGTAG
* * * *
45453723 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGAGTAGAATTATCGAAA
1 AATTACTAAAATACCCCTGTAGGGTAAAATTACCAAAATACCCCTGTAGAGTAGAATTATCAAAA
* * *
45453788 TACCCCTATAGGGTAGAATTATCGCAATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
66 TACCCCGATAGGGTAGAATTATCGAAATACCCTGTAGGATAGAATTACCGAAATACCCCTGTAGG
45453853 GTAG
131 GTAG
**
45453857 AATTACTAAAATACCCCTGTAGGGTGGAATTACC
1 AATTACTAAAATACCCCTGTAGGGTAAAATTACC
45453891 GAGATACCTT
Statistics
Matches: 144, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
133 4 0.03
134 128 0.89
135 12 0.08
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (134 bp):
AATTACTAAAATACCCCTGTAGGGTAAAATTACCAAAATACCCCTGTAGAGTAGAATTATCAAAA
TACCCCGATAGGGTAGAATTATCGAAATACCCTGTAGGATAGAATTACCGAAATACCCCTGTAGG
GTAG
Found at i:45453898 original size:80 final size:79
Alignment explanation
Indices: 45453675--45453916 Score: 342
Period size: 80 Copynumber: 3.0 Consensus size: 79
45453665 TGTATAATAT
* *
45453675 CGAAATACCCCTGTAGGATAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCC
1 CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCG-AATA-CCC
45453740 TGTAGGGTAGAATTAC
64 TGTAGGGTAGAATTAC
* * *
45453756 CGAAATACCCCTGTAGAGTAGAATTA-TCGAAATACCCCTATAGGGTAGAATTATCGCAATACCC
1 CGAAATACCCCTGTAGGGTAGAATTACT-GAAATACCCCTGTAGGGTAGAATTACCG-AATACCC
45453820 TGTAGGGTAGAATTAC
64 TGTAGGGTAGAATTAC
* * *
45453836 CGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTGGAATTACCGAGATACCTT
1 CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGA-ATACCCT
* *
45453901 GTGGGGTAAAATTAC
65 GTAGGGTAGAATTAC
45453916 C
1 C
45453917 ATTTTGCCTC
Statistics
Matches: 144, Mismatches: 14, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
79 1 0.01
80 89 0.62
81 54 0.38
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (79 bp):
CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAATACCCTG
TAGGGTAGAATTAC
Found at i:45454395 original size:22 final size:21
Alignment explanation
Indices: 45454346--45454407 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
45454336 AAGCCTTCTA
* *
45454346 ATTATGGCTTTGTGTCAACCT
1 ATTATGGCTCTGTGCCAACCT
*
45454367 ACATATGGCTCTGTGCCAACCT
1 A-TTATGGCTCTGTGCCAACCT
*
45454389 GATTATGGCTGTGTGCCAA
1 -ATTATGGCTCTGTGCCAA
45454408 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (21 bp):
ATTATGGCTCTGTGCCAACCT
Found at i:45454596 original size:27 final size:26
Alignment explanation
Indices: 45454566--45454666 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
45454556 ATTCTGTTAA
* *
45454566 GTGGCTTTGCCACATTATCTATTTCTG
1 GTGGCTCTGCCACAATATCT-TTTCTG
* *
45454593 GTGGCTATGCCACTAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTTTTCTG
45454620 GTGGCTCTGCCACAATAT-TTGTATCTG
1 GTGGCTCTGCCACAATATCTT-T-TCTG
*
45454647 GTGACTCTGCCACAATATCT
1 GTGGCTCTGCCACAATATCT
45454667 GATAACTGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
25 1 0.02
26 6 0.09
27 50 0.78
28 7 0.11
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTTTTCTG
Found at i:45454624 original size:54 final size:53
Alignment explanation
Indices: 45454566--45454667 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 53
45454556 ATTCTGTTAA
* * * *
45454566 GTGGCTTTGCCACATTATCTATTTCTGGTGGCTATGCCACTAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCAC-AATATCTGTTCTG
* * *
45454620 GTGGCTCTGCCACAATATTTGTATCTGGTGACTCTGCCACAATATCTG
1 GTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCACAATATCTG
45454668 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.37
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTATATCTGGTGACTATGCCACAATATCTGTTCTG
Found at i:45454848 original size:31 final size:31
Alignment explanation
Indices: 45454811--45454883 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
45454801 ACATTCTGAT
45454811 TTTTGATTCTGTTACCTGATACTGATTATGA
1 TTTTGATTCTGTTACCTGATACTGATTATGA
*
45454842 TTTTGATTCTGTTACCTGATACTGATTCTGA
1 TTTTGATTCTGTTACCTGATACTGATTATGA
*
45454873 TTCTGATTCTG
1 TTTTGATTCTG
45454884 ATTCTAGTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.49
Consensus pattern (31 bp):
TTTTGATTCTGTTACCTGATACTGATTATGA
Found at i:45454866 original size:6 final size:6
Alignment explanation
Indices: 45454803--45454897 Score: 70
Period size: 6 Copynumber: 15.3 Consensus size: 6
45454793 TTGCATTCAC
* * * *
45454803 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTATG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
45454853 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
45454898 AATGTTTCTT
Statistics
Matches: 71, Mismatches: 9, Indels: 18
0.72 0.09 0.18
Matches are distributed among these distances:
5 5 0.07
6 52 0.73
7 12 0.17
8 2 0.03
ACGTcount: A:0.20, C:0.15, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:45462159 original size:16 final size:16
Alignment explanation
Indices: 45462138--45462172 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45462128 TTTCAATTTC
*
45462138 TTTGTTATTTAACTTG
1 TTTGTTATTTAACTGG
*
45462154 TTTGTTGTTTAACTGG
1 TTTGTTATTTAACTGG
45462170 TTT
1 TTT
45462173 ATCCCTAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.06, G:0.17, T:0.63
Consensus pattern (16 bp):
TTTGTTATTTAACTGG
Found at i:45463819 original size:25 final size:27
Alignment explanation
Indices: 45463782--45463834 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
45463772 TCAAACATGC
45463782 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
45463808 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
45463834 A
1 A
45463835 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:45465350 original size:26 final size:26
Alignment explanation
Indices: 45465320--45465401 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
45465310 TGAAATGCCC
45465320 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
45465346 ATCATGGAATATTTACCTAATCCGTT
1 ATCATGGAACATTTACCTAACCCATT
45465372 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45465398 ATCA
1 ATCA
45465402 ATTTGTACCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45471537 original size:37 final size:37
Alignment explanation
Indices: 45471514--45471657 Score: 171
Period size: 37 Copynumber: 3.9 Consensus size: 37
45471504 ATAGATTTTT
45471514 CTCATTTGAGCTTCATTCAGTATAACAGTAGAAATTG
1 CTCATTTGAGCTTCATTCAGTATAACAGTAGAAATTG
* * * *
45471551 CTCGTTTGAGCTTCATTCAATATAACAGTGGAATTTG
1 CTCATTTGAGCTTCATTCAGTATAACAGTAGAAATTG
* * * ** *
45471588 TTCGTTTGAGCTTCATTTAGTATAACAAAAGAATTTG
1 CTCATTTGAGCTTCATTCAGTATAACAGTAGAAATTG
** *
45471625 CTCCCTTAAGCTTCATTCAGTATAACAGTAGAA
1 CTCATTTGAGCTTCATTCAGTATAACAGTAGAA
45471658 CTTGTTATTG
Statistics
Matches: 90, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (37 bp):
CTCATTTGAGCTTCATTCAGTATAACAGTAGAAATTG
Found at i:45471602 original size:74 final size:74
Alignment explanation
Indices: 45471518--45471663 Score: 202
Period size: 74 Copynumber: 2.0 Consensus size: 74
45471508 ATTTTTCTCA
** ** * *
45471518 TTTGAGCTTCATTCAGTATAACAGTAGAAATTGCTCGTTTGAGCTTCATTCAATATAACAGTGGA
1 TTTGAGCTTCATTCAGTATAACAAAAGAAATTGCTCCCTTAAGCTTCATTCAATATAACAGTAGA
*
45471583 ATTTGTTCG
66 ACTTGTTCG
* * *
45471592 TTTGAGCTTCATTTAGTATAACAAAAGAATTTGCTCCCTTAAGCTTCATTCAGTATAACAGTAGA
1 TTTGAGCTTCATTCAGTATAACAAAAGAAATTGCTCCCTTAAGCTTCATTCAATATAACAGTAGA
45471657 ACTTGTT
66 ACTTGTT
45471664 ATTGGCTCGT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (74 bp):
TTTGAGCTTCATTCAGTATAACAAAAGAAATTGCTCCCTTAAGCTTCATTCAATATAACAGTAGA
ACTTGTTCG
Found at i:45474775 original size:16 final size:16
Alignment explanation
Indices: 45474754--45474786 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45474744 TTGTTGTATG
45474754 AGTGCTTGAACAAACT
1 AGTGCTTGAACAAACT
45474770 AGTGCTTGAACAAACT
1 AGTGCTTGAACAAACT
45474786 A
1 A
45474787 TGATTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (16 bp):
AGTGCTTGAACAAACT
Found at i:45475833 original size:42 final size:41
Alignment explanation
Indices: 45475753--45475902 Score: 162
Period size: 41 Copynumber: 3.6 Consensus size: 41
45475743 GAGCTTGGTC
45475753 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
45475794 TCGAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * *
45475836 CCGAAGGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
*
45475877 TCGAAGGGCTTTTGAGCCGGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
45475903 GAGTCGGACT
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 4 0.04
40 9 0.10
41 37 0.41
42 28 0.31
43 12 0.13
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:45475885 original size:41 final size:40
Alignment explanation
Indices: 45475733--45475902 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
45475723 GCTAATCGGG
*
45475733 GTCTGAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
45475774 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
45475817 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
45475857 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
45475898 G-CTAA
1 GTCTAA
45475903 GAGTCGGACT
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 7 0.07
40 14 0.13
41 50 0.47
42 23 0.21
43 9 0.08
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:45477581 original size:48 final size:48
Alignment explanation
Indices: 45477529--45477634 Score: 212
Period size: 48 Copynumber: 2.2 Consensus size: 48
45477519 TATGAGAGCC
45477529 AGTGTAAGACCATCTCTGGGATATGGCATCAGCATTGAGACGAGTGCT
1 AGTGTAAGACCATCTCTGGGATATGGCATCAGCATTGAGACGAGTGCT
45477577 AGTGTAAGACCATCTCTGGGATATGGCATCAGCATTGAGACGAGTGCT
1 AGTGTAAGACCATCTCTGGGATATGGCATCAGCATTGAGACGAGTGCT
45477625 AGTGTAAGAC
1 AGTGTAAGAC
45477635 ATGTCTAGCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATCTCTGGGATATGGCATCAGCATTGAGACGAGTGCT
Found at i:45477678 original size:46 final size:44
Alignment explanation
Indices: 45477620--45477724 Score: 140
Period size: 46 Copynumber: 2.3 Consensus size: 44
45477610 ATTGAGACGA
*
45477620 GTGCTAGTGTAAGACATGTCTAGCACATGCATCGGCCT-CGAGAT
1 GTGCCAGTGTAAGACATGTCTAGCACATGCATCGG-CTACGAGAT
* *
45477664 GTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAT
1 GT--GCCAGTGTAAGACATGTCTAGCACATGCATCGGCTACGAGAT
*
45477710 GTGTCAGTGTAAGAC
1 GTGCCAGTGTAAGAC
45477725 CATTTCTGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
44 14 0.26
45 2 0.04
46 38 0.70
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (44 bp):
GTGCCAGTGTAAGACATGTCTAGCACATGCATCGGCTACGAGAT
Found at i:45477744 original size:46 final size:47
Alignment explanation
Indices: 45477528--45477745 Score: 198
Period size: 48 Copynumber: 4.7 Consensus size: 47
45477518 TTATGAGAGC
* * *
45477528 CAGTGTAAGACCATCTCTGGGATATGGCATCAGCATTGAGACGAGTG
1 CAGTGTAAGACCATCTCTGGGACATGGCATCGGCATCGAGACGAGTG
* * *
45477575 CTAGTGTAAGACCATCTCTGGGATATGGCATCAGCATTGAGACGAGTG
1 C-AGTGTAAGACCATCTCTGGGACATGGCATCGGCATCGAGACGAGTG
* * * * * *
45477623 CTAGTGTAAGA-CATGTCTAGCACAT-GCATCGGCCTCGAGATGTAAG-C
1 C-AGTGTAAGACCATCTCTGGGACATGGCATCGGCATCGAGACG--AGTG
* * *
45477670 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACGAGATGTGT-
1 CAGTGTAAGACCATCTCTGGGACATGGCATCGGCAT-CGAGACGAGTG
*
45477714 CAGTGTAAGACCATTTCTGGGACATGGCATCG
1 CAGTGTAAGACCATCTCTGGGACATGGCATCG
45477746 ACACAAATAT
Statistics
Matches: 151, Mismatches: 13, Indels: 15
0.84 0.07 0.08
Matches are distributed among these distances:
44 11 0.07
45 14 0.09
46 55 0.36
47 12 0.08
48 59 0.39
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
CAGTGTAAGACCATCTCTGGGACATGGCATCGGCATCGAGACGAGTG
Found at i:45482618 original size:29 final size:28
Alignment explanation
Indices: 45482582--45482659 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
45482572 TCATGAGATT
45482582 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
45482612 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
45482639 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
45482660 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:45483031 original size:174 final size:174
Alignment explanation
Indices: 45482612--45483112 Score: 932
Period size: 174 Copynumber: 2.9 Consensus size: 174
45482602 AAATTGTACA
*
45482612 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
45482677 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
45482742 TTTTGGACAGCGGAAAAGGT-AGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
45482785 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
45482850 TGTGCGAACCCAATATACATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
45482915 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
45482959 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
45483024 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
45483089 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
45483113 ACCTTGAGTT
Statistics
Matches: 317, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
173 146 0.46
174 171 0.54
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:45490929 original size:29 final size:28
Alignment explanation
Indices: 45490893--45490970 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
45490883 TCATGAGATT
45490893 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
45490923 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
45490950 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
45490971 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:45491188 original size:174 final size:174
Alignment explanation
Indices: 45490923--45491424 Score: 950
Period size: 174 Copynumber: 2.9 Consensus size: 174
45490913 AAATTGTACA
*
45490923 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
45490988 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
45491053 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
45491097 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
45491162 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
45491227 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
45491271 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
45491336 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
45491401 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
45491425 ACCTTGAGTT
Statistics
Matches: 320, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 320 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:45495750 original size:13 final size:13
Alignment explanation
Indices: 45495732--45495758 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45495722 GTAAAGTAAA
45495732 TTATTAAGGTATG
1 TTATTAAGGTATG
45495745 TTATTAAGGTATG
1 TTATTAAGGTATG
45495758 T
1 T
45495759 GATATCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TTATTAAGGTATG
Found at i:45496292 original size:38 final size:38
Alignment explanation
Indices: 45496228--45496302 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
45496218 GATGTGTATT
* * * *
45496228 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAAGCCTAGTGCTGGTATTATATC
45496266 CGGGATAAATCCCGCAAGCCTAGTGCTGGTATTATAT
1 CGGGATAAATCCCGCAAGCCTAGTGCTGGTATTATAT
45496303 TCGAGCCTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAAGCCTAGTGCTGGTATTATATC
Found at i:45496348 original size:43 final size:43
Alignment explanation
Indices: 45496300--45496467 Score: 257
Period size: 43 Copynumber: 3.9 Consensus size: 43
45496290 GCTGGTATTA
45496300 TATTCGAGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGAGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
45496343 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGAGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
45496386 TATT-TAGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGA-GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
45496429 TATTCTAGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGAGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
45496468 AATGATATGT
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
43 112 0.98
44 2 0.02
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.30
Consensus pattern (43 bp):
TATTCGAGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:45496851 original size:45 final size:42
Alignment explanation
Indices: 45496784--45496891 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 42
45496774 TTGACTTGAT
* * *
45496784 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGT--GA-AC
**
45496829 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
45496871 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
45496892 ACAGGCGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 33 0.59
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
Found at i:45498497 original size:43 final size:43
Alignment explanation
Indices: 45498443--45498528 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
45498433 TGTTCAGAGA
*
45498443 TAGAGTTTGTGTACCCAAGAACAATGAACTTATTCAAGAGATT
1 TAGAGTTTGTGTACCCAAGAACAATAAACTTATTCAAGAGATT
45498486 TAGAGTTTGTGTACCCAAGAACAATAAACTTATTCAAGAGATT
1 TAGAGTTTGTGTACCCAAGAACAATAAACTTATTCAAGAGATT
45498529 CTGCGAGAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (43 bp):
TAGAGTTTGTGTACCCAAGAACAATAAACTTATTCAAGAGATT
Found at i:45506223 original size:17 final size:16
Alignment explanation
Indices: 45506178--45506242 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
45506168 TATATATAAC
** *
45506178 ATATTTAATGTAACTA
1 ATATTTAAAATAAATA
45506194 ATATTTAAAATAAATA
1 ATATTTAAAATAAATA
45506210 ATATTTAGAAATAAA-A
1 ATATTTA-AAATAAATA
*
45506226 A-ATTAAAAATAATATA
1 ATATTTAAAATAA-ATA
45506242 A
1 A
45506243 AATTAAGTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
14 6 0.14
15 5 0.12
16 24 0.57
17 7 0.17
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (16 bp):
ATATTTAAAATAAATA
Found at i:45506905 original size:29 final size:27
Alignment explanation
Indices: 45506837--45506905 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 27
45506827 TAGAGTTTCA
*
45506837 CATGTATAATTGCACAAAATTAAGGTT
1 CATGTATAATTGCACAAAATCAAGGTT
* *
45506864 CATGTATACAATTGCATATTAAATCAATGTT
1 CATGTAT--AATTGCACA--AAATCAAGGTT
45506895 CATGTATAATT
1 CATGTATAATT
45506906 CTGAGATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 7 0.20
29 12 0.34
31 16 0.46
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (27 bp):
CATGTATAATTGCACAAAATCAAGGTT
Found at i:45508247 original size:14 final size:13
Alignment explanation
Indices: 45508229--45508257 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
45508219 TAAAAATTTT
45508229 AATAT-TAAAATA
1 AATATATAAAATA
45508241 AATATATAAAATA
1 AATATATAAAATA
45508254 AATA
1 AATA
45508258 ATTTGTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATATATAAAATA
Found at i:45508357 original size:16 final size:16
Alignment explanation
Indices: 45508336--45508366 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45508326 TTTTGTATTA
*
45508336 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
45508352 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
45508367 ACGTTAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:45510014 original size:3 final size:3
Alignment explanation
Indices: 45510006--45510035 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
45509996 AATTGTTTCT
45510006 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
45510036 CATTGAGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:45522151 original size:18 final size:16
Alignment explanation
Indices: 45522128--45522165 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
45522118 ATCATTATTT
45522128 AAATAAAATAAAGTAGTA
1 AAATAAAATAAA--AGTA
45522146 AAATAAAATAAAAGTA
1 AAATAAAATAAAAGTA
45522162 AAAT
1 AAAT
45522166 CCATATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
18 12 0.60
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (16 bp):
AAATAAAATAAAAGTA
Found at i:45522327 original size:41 final size:41
Alignment explanation
Indices: 45522277--45522357 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
45522267 CTTACTACAC
45522277 CCTATTAGAATATGATTTTACAAGCCTATAAATAGACATAA
1 CCTATTAGAATATGATTTTACAAGCCTATAAATAGACATAA
45522318 CCTATTAGAATATGATTTTACAAGCCTATAAATAGACATA
1 CCTATTAGAATATGATTTTACAAGCCTATAAATAGACATA
45522358 GTTTACCCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (41 bp):
CCTATTAGAATATGATTTTACAAGCCTATAAATAGACATAA
Found at i:45524341 original size:18 final size:19
Alignment explanation
Indices: 45524318--45524357 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
45524308 GATTGCTTGT
45524318 TTAAATGAATT-GTTTTA-A
1 TTAAATG-ATTAGTTTTAGA
45524336 TTAAATGATTAGTTTTAGA
1 TTAAATGATTAGTTTTAGA
45524355 TTA
1 TTA
45524358 TTGAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.15
18 13 0.65
19 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (19 bp):
TTAAATGATTAGTTTTAGA
Found at i:45525005 original size:14 final size:14
Alignment explanation
Indices: 45524986--45525016 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
45524976 ACATTTACTG
45524986 ACCTAATTAGAATA
1 ACCTAATTAGAATA
45525000 ACCTAATTAGAATA
1 ACCTAATTAGAATA
45525014 ACC
1 ACC
45525017 AAATGTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.26
Consensus pattern (14 bp):
ACCTAATTAGAATA
Found at i:45526714 original size:46 final size:44
Alignment explanation
Indices: 45526569--45526785 Score: 170
Period size: 46 Copynumber: 4.7 Consensus size: 44
45526559 TGTGTGAGCT
* * *
45526569 AGTGTAAGACATGTCTGGTACATGCATCGGCCA-CATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATCA-AAT--GTGCC
* * * * * * * *
45526615 AGTATAAGACCATATCTGGGACATGGTATC-GACATTGAGACGAGCGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-TCAAATGTGC-C
*
45526662 TAGTGTAAGACATGTCTGAGACATGCATCGGCC-TCAAGATGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCATCAA-ATGT--GCC
* *
45526709 AGTGTAAGACATGTCTGGGACATGCATCGGCCATGAAATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATCAAATGTGCC
45526753 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
45526786 ACCTTACCCC
Statistics
Matches: 138, Mismatches: 20, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 61 0.44
47 34 0.25
48 15 0.11
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATCAAATGTGCC
Found at i:45530131 original size:47 final size:49
Alignment explanation
Indices: 45530039--45530132 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 49
45530029 ATCCATGATA
* * * *
45530039 AATGGATGTCCATAACCCCCTCAAATTTATCCTATTGTAATCCCTAAAG
1 AATGAATGTCCATAACCCCCTCAAATTCATCATATTGTAACCCCTAAAG
*
45530088 AATGAATGTCCATAA-CCCCT-AAATTCATTATATTGTAACCCCTAA
1 AATGAATGTCCATAACCCCCTCAAATTCATCATATTGTAACCCCTAA
45530133 GTCATTTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 21 0.52
48 5 0.12
49 14 0.35
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.31
Consensus pattern (49 bp):
AATGAATGTCCATAACCCCCTCAAATTCATCATATTGTAACCCCTAAAG
Found at i:45535132 original size:3 final size:3
Alignment explanation
Indices: 45535124--45535168 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
45535114 ACCTTTCATG
45535124 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45535169 AGAAAACCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:45549128 original size:12 final size:11
Alignment explanation
Indices: 45549072--45549141 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 11
45549062 ATTTAAAAGT
*
45549072 TTTTAATTAT-
1 TTTTAAATATA
*
45549082 TTTTAAA-AAA
1 TTTTAAATATA
*
45549092 TTTAAAATATA
1 TTTTAAATATA
45549103 TATTT-AA-ATA
1 T-TTTAAATATA
45549113 -TTTAAATATA
1 TTTTAAATATA
45549123 CTTTTAAAATATA
1 -TTTT-AAATATA
45549136 TTTTAA
1 TTTTAA
45549142 TGTTGTTTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
8 3 0.06
9 3 0.06
10 18 0.38
11 7 0.15
12 9 0.19
13 7 0.15
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (11 bp):
TTTTAAATATA
Found at i:45549128 original size:20 final size:21
Alignment explanation
Indices: 45549091--45549130 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
45549081 TTTTTAAAAA
45549091 ATTTAAAATATATATTTAAAT
1 ATTTAAAATATATATTTAAAT
45549112 ATTT-AAATATACT-TTTAAA
1 ATTTAAAATATA-TATTTAAA
45549131 ATATATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTAAAATATATATTTAAAT
Found at i:45549132 original size:21 final size:21
Alignment explanation
Indices: 45549082--45549134 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
45549072 TTTTAATTAT
*
45549082 TTTTAAAAAATTTAAAATATA
1 TTTTAAAATATTTAAAATATA
45549103 TATTT-AAATATTT-AAATATA
1 T-TTTAAAATATTTAAAATATA
45549123 CTTTTAAAATAT
1 -TTTTAAAATAT
45549135 ATTTTAATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 10 0.36
21 15 0.54
22 3 0.11
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTAAAATATTTAAAATATA
Found at i:45550819 original size:16 final size:16
Alignment explanation
Indices: 45550773--45550819 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
45550763 AATTAAATAC
45550773 TAAATGATAAATACAAA
1 TAAATGATAAATA-AAA
*
45550790 TAAA-GATAATTAAAGA
1 TAAATGATAAATAAA-A
45550806 TAAATGA-AAATAAA
1 TAAATGATAAATAAA
45550820 TCCTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 18 0.69
17 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (16 bp):
TAAATGATAAATAAAA
Found at i:45551552 original size:17 final size:18
Alignment explanation
Indices: 45551532--45551565 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45551522 AAGTGAATTG
45551532 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
45551549 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
45551566 ATGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:45552326 original size:16 final size:16
Alignment explanation
Indices: 45552280--45552326 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
45552270 AATTAAATAC
45552280 TAAATGATAAATACAAA
1 TAAATGATAAATA-AAA
*
45552297 TAAA-GATAATTAAAGA
1 TAAATGATAAATAAA-A
45552313 TAAATGA-AAATAAA
1 TAAATGATAAATAAA
45552327 TCCTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 18 0.69
17 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (16 bp):
TAAATGATAAATAAAA
Found at i:45553832 original size:16 final size:16
Alignment explanation
Indices: 45553786--45553832 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
45553776 AATTAAATAC
45553786 TAAATGATAAATACAAA
1 TAAATGATAAATA-AAA
*
45553803 TAAA-GATAATTAAAGA
1 TAAATGATAAATAAA-A
45553819 TAAATGA-AAATAAA
1 TAAATGATAAATAAA
45553833 TCCTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 18 0.69
17 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (16 bp):
TAAATGATAAATAAAA
Found at i:45555557 original size:20 final size:20
Alignment explanation
Indices: 45555528--45555565 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
45555518 GTAATAAATC
*
45555528 ATTAAGATAAAATAATAATA
1 ATTAAAATAAAATAATAATA
45555548 ATTAAAATAAAATAATAA
1 ATTAAAATAAAATAATAA
45555566 GGAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (20 bp):
ATTAAAATAAAATAATAATA
Found at i:45555581 original size:33 final size:33
Alignment explanation
Indices: 45555503--45555590 Score: 85
Period size: 33 Copynumber: 2.7 Consensus size: 33
45555493 TATCCAAAAT
* *
45555503 AAAAT-AAATAATTAAGTAAT-AAATCATTAAGAT
1 AAAATAAAATAATTAA--AATAAAATCAATAAGAA
45555536 AAAATAATAATAATTAAAATAAAAT-AATAAGGAA
1 AAAATAA-AATAATTAAAATAAAATCAATAA-GAA
*
45555570 AAAATAAAATAA-AAAAATAAA
1 AAAATAAAATAATTAAAATAAA
45555591 GAGAAATAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
32 8 0.17
33 17 0.35
34 14 0.29
35 9 0.19
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.24
Consensus pattern (33 bp):
AAAATAAAATAATTAAAATAAAATCAATAAGAA
Found at i:45555603 original size:24 final size:24
Alignment explanation
Indices: 45555550--45555601 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
45555540 TAATAATAAT
* *
45555550 TAAAATAAAATAATAAGGAAAAAA
1 TAAAATAAAAAAATAAAGAAAAAA
*
45555574 TAAAATAAAAAAATAAAG-AGAAA
1 TAAAATAAAAAAATAAAGAAAAAA
45555597 TAAAA
1 TAAAA
45555602 ATTGGGTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (24 bp):
TAAAATAAAAAAATAAAGAAAAAA
Found at i:45559336 original size:16 final size:16
Alignment explanation
Indices: 45559290--45559336 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
45559280 AATTAAATAC
45559290 TAAATGATAAATACAAA
1 TAAATGATAAATA-AAA
*
45559307 TAAA-GATAATTAAAGA
1 TAAATGATAAATAAA-A
45559323 TAAATGA-AAATAAA
1 TAAATGATAAATAAA
45559337 TCCTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 18 0.69
17 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (16 bp):
TAAATGATAAATAAAA
Found at i:45561081 original size:15 final size:15
Alignment explanation
Indices: 45561061--45561106 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
45561051 TCCAAAATAA
45561061 AATAAATAATTAAGT
1 AATAAATAATTAAGT
*
45561076 AATAAATCATTAAG-
1 AATAAATAATTAAGT
45561090 -ATAAAATAA-TAAGT
1 AAT-AAATAATTAAGT
45561104 AAT
1 AAT
45561107 TAAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 6 0.23
14 5 0.19
15 15 0.58
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (15 bp):
AATAAATAATTAAGT
Found at i:45561101 original size:21 final size:21
Alignment explanation
Indices: 45561075--45561123 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
45561065 AATAATTAAG
* *
45561075 TAATAAATCATTAAGATAAAA
1 TAATAAATAATTAAAATAAAA
*
45561096 TAATAAGTAATTAAAATAAAA
1 TAATAAATAATTAAAATAAAA
45561117 TAATAAA
1 TAATAAA
45561124 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (21 bp):
TAATAAATAATTAAAATAAAA
Found at i:45561142 original size:27 final size:26
Alignment explanation
Indices: 45561108--45561163 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 26
45561098 ATAAGTAATT
*
45561108 AAAAT-AAAATAATAAAGGAGAAAATAA
1 AAAATAAAAAAAATAAA-GAG-AAATAA
45561135 AAAATAAAAAAAATAAAGAGAAATAA
1 AAAATAAAAAAAATAAAGAGAAATAA
45561161 AAA
1 AAA
45561164 TTGGGTTGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 9 0.33
27 8 0.30
28 10 0.37
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (26 bp):
AAAATAAAAAAAATAAAGAGAAATAA
Found at i:45564110 original size:17 final size:18
Alignment explanation
Indices: 45564090--45564123 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45564080 AAGTGAATTG
45564090 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
45564107 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
45564124 ATGAGGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:45564886 original size:16 final size:16
Alignment explanation
Indices: 45564840--45564886 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
45564830 AATTAAATAC
45564840 TAAATGATAAATACAAA
1 TAAATGATAAATA-AAA
*
45564857 TAAA-GATAATTAAAGA
1 TAAATGATAAATAAA-A
45564873 TAAATGA-AAATAAA
1 TAAATGATAAATAAA
45564887 TTCTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 18 0.69
17 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (16 bp):
TAAATGATAAATAAAA
Found at i:45569916 original size:61 final size:60
Alignment explanation
Indices: 45569833--45570004 Score: 199
Period size: 61 Copynumber: 2.8 Consensus size: 60
45569823 TATTATTAAA
* *
45569833 TTTTAACAAAGATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATCATA-
1 TTTTAACATA-ATTATTATTAAATATAATTTAATAAAAAT--AAATAAATAATTTAATAATAT
* * *
45569895 TTTTCACATAATTATTATTAAATACAATTTAAT-AAAAT-AATATATAATTTAATAATAT
1 TTTTAACATAATTATTATTAAATATAATTTAATAAAAATAAATAAATAATTTAATAATAT
* *
45569953 TTTTAATATAATTATTATTAAAATATGAA-TTAATAAAAATATAATATATAAT
1 TTTTAACATAATTATTATT-AAATAT-AATTTAATAAAAATA-AATAAATAAT
45570005 ATTAGAAAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
57 17 0.18
58 17 0.18
59 10 0.10
60 12 0.12
61 22 0.23
62 18 0.19
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (60 bp):
TTTTAACATAATTATTATTAAATATAATTTAATAAAAATAAATAAATAATTTAATAATAT
Found at i:45569931 original size:55 final size:57
Alignment explanation
Indices: 45569870--45569998 Score: 156
Period size: 58 Copynumber: 2.2 Consensus size: 57
45569860 ATTTAATAAA
* *
45569870 AATAAAAATAAATAATTTAATCATA-TTTTCACATAATTATTATT-AAATA-CAATTT
1 AATAAAAATAAATAATTTAATAATATTTTTAACATAATTATTATTAAAATATCAA-TT
* * *
45569925 AATAAAATAATATATAATTTAATAATATTTTTAATATAATTATTATTAAAATATGAATT
1 AAT-AAA-AATAAATAATTTAATAATATTTTTAACATAATTATTATTAAAATATCAATT
45569984 AATAAAAATATAATA
1 AATAAAAATA-AATA
45569999 TATAATATTA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
55 3 0.05
56 3 0.05
57 21 0.34
58 23 0.37
59 10 0.16
60 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (57 bp):
AATAAAAATAAATAATTTAATAATATTTTTAACATAATTATTATTAAAATATCAATT
Found at i:45571792 original size:17 final size:17
Alignment explanation
Indices: 45571766--45571809 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
45571756 CTCCGCTTCA
*
45571766 ATAGGATCAAGACTCAT
1 ATAGGTTCAAGACTCAT
45571783 ATAGGTTCAAGACTCAT
1 ATAGGTTCAAGACTCAT
45571800 ATAGGTTCAA
1 ATAGGTTCAA
45571810 ATAAAGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (17 bp):
ATAGGTTCAAGACTCAT
Found at i:45573818 original size:19 final size:19
Alignment explanation
Indices: 45573796--45573841 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
45573786 TAGAATATAG
*
45573796 AATAAAATAAATTTTAAAT
1 AATAAAATAAAATTTAAAT
* *
45573815 AATAGAACAAAATTTAAAT
1 AATAAAATAAAATTTAAAT
*
45573834 AATGAAAT
1 AATAAAAT
45573842 TGACAGTTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (19 bp):
AATAAAATAAAATTTAAAT
Found at i:45575451 original size:16 final size:16
Alignment explanation
Indices: 45575416--45575450 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
45575406 ATTTTATTTG
45575416 AAAATAGCTTACCTTC
1 AAAATAGCTTACCTTC
45575432 AAAATAGCTTACC-TC
1 AAAATAGCTTACCTTC
45575447 AAAA
1 AAAA
45575451 ACCTAGCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.26
Consensus pattern (16 bp):
AAAATAGCTTACCTTC
Found at i:45581024 original size:15 final size:16
Alignment explanation
Indices: 45580984--45581025 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
45580974 ATTTATTAAA
45580984 TTATTATTTTTAATCAAT
1 TTATTA-TTTTAA-CAAT
45581002 TT-TTATTTTAA-AAT
1 TTATTATTTTAACAAT
45581016 TTATTATTTT
1 TTATTATTTT
45581026 TCATTATCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.22
15 7 0.30
16 6 0.26
17 3 0.13
18 2 0.09
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTATTTTAACAAT
Found at i:45582350 original size:24 final size:23
Alignment explanation
Indices: 45582323--45582377 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
45582313 AGTACTACAG
45582323 AATTTAATTAAAATTAATATAAAT
1 AATTTAATTAAAATTAATA-AAAT
* * *
45582347 AATTTATAATAAATTTAGTAAAAT
1 AATTTA-ATTAAAATTAATAAAAT
45582371 -ATTTAAT
1 AATTTAAT
45582378 AGATCCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.04
23 5 0.19
24 10 0.38
25 10 0.38
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
AATTTAATTAAAATTAATAAAAT
Found at i:45584895 original size:7 final size:7
Alignment explanation
Indices: 45584883--45584909 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
45584873 ATGATGTTAA
45584883 AAATAAC
1 AAATAAC
45584890 AAATAAC
1 AAATAAC
45584897 AAATAAC
1 AAATAAC
45584904 AAATAA
1 AAATAA
45584910 TGAAGCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATAAC
Found at i:45585260 original size:20 final size:20
Alignment explanation
Indices: 45585235--45585281 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
45585225 ATAAAATAAA
* *
45585235 TAAAATGTGTACAATAAA-AT
1 TAAAATGTATA-AAAAAATAT
45585255 TAAAATGTATAAAAAAATAT
1 TAAAATGTATAAAAAAATAT
45585275 TAAAATG
1 TAAAATG
45585282 AAGTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.30
Consensus pattern (20 bp):
TAAAATGTATAAAAAAATAT
Found at i:45585271 original size:18 final size:18
Alignment explanation
Indices: 45585225--45585272 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
45585215 TATAGAATTG
45585225 ATAAAATAAA-TAAAATGT
1 ATAAAA-AAATTAAAATGT
*
45585243 GTACAATAAAATTAAAATGT
1 ATA-AA-AAAATTAAAATGT
45585263 ATAAAAAAAT
1 ATAAAAAAAT
45585273 ATTAAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 7 0.28
19 7 0.28
20 11 0.44
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (18 bp):
ATAAAAAAATTAAAATGT
Found at i:45590000 original size:46 final size:47
Alignment explanation
Indices: 45589948--45590041 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 47
45589938 ACTATCATAT
45589948 CAGATATATGTGGTCAAGCCACTA-TATTACAGCCAAGCTGCCAGAA
1 CAGATATATGTGGTCAAGCCACTATTATTACAGCCAAGCTGCCAGAA
* * * * * *
45589994 CAGATATGTGTGGTCGAGCCACTATTATTGCAGTCGAGTTGCCAGAA
1 CAGATATATGTGGTCAAGCCACTATTATTACAGCCAAGCTGCCAGAA
45590041 C
1 C
45590042 TAAAATATGG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
46 22 0.54
47 19 0.46
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (47 bp):
CAGATATATGTGGTCAAGCCACTATTATTACAGCCAAGCTGCCAGAA
Found at i:45592441 original size:16 final size:17
Alignment explanation
Indices: 45592410--45592442 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45592400 TTCATAAGTA
45592410 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
45592427 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
45592443 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:45592790 original size:46 final size:46
Alignment explanation
Indices: 45592728--45593183 Score: 639
Period size: 46 Copynumber: 10.0 Consensus size: 46
45592718 TTTGACATGA
* * * * * *
45592728 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* * * * *
45592774 TGCCATGGTATTTTTCAACCATGGTCCTACACATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** *** *
45592820 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* ** *** *
45592866 TGCCATGGTATCTTTCAACCATCGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
**
45592912 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
45592958 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
45593004 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
45593050 TGCCATGGTATCTTTCAACCATGGTCTT--ACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
45593094 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
45593140 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
45593184 AGAGCACCCT
Statistics
Matches: 381, Mismatches: 26, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
44 43 0.11
45 4 0.01
46 334 0.88
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:45595341 original size:13 final size:12
Alignment explanation
Indices: 45595319--45595378 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
45595309 TTTATACTAA
45595319 ATAAATAATAAT
1 ATAAATAATAAT
45595331 ATAATATAATAAT
1 ATAA-ATAATAAT
* *
45595344 AATAAATATCTCAT
1 -ATAAATA-ATAAT
* *
45595358 AAAAATATTAAT
1 ATAAATAATAAT
45595370 A-AAATAATA
1 ATAAATAATA
45595379 TTTATCTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
11 7 0.18
12 8 0.21
13 17 0.44
14 7 0.18
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:45599462 original size:5 final size:5
Alignment explanation
Indices: 45599452--45599485 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
45599442 TACAAGTGTG
45599452 AAAAT AAAAT AAAAT AAACAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AAA
45599486 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:45599476 original size:16 final size:16
Alignment explanation
Indices: 45599455--45599485 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
45599445 AAGTGTGAAA
45599455 ATAAAATAAAATAAAC
1 ATAAAATAAAATAAAC
45599471 ATAAAATAAAATAAA
1 ATAAAATAAAATAAA
45599486 GAACACACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAAAATAAAATAAAC
Found at i:45602229 original size:40 final size:40
Alignment explanation
Indices: 45602174--45602354 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
45602164 TATTCGAATG
*
45602174 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
45602214 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
45602254 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAATGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
45602294 ATATCAGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
45602334 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
45602355 ATACTTGGGC
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 13 0.10
40 111 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:45602622 original size:22 final size:22
Alignment explanation
Indices: 45602582--45602623 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
45602572 GAATGTGCAT
*
45602582 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
45602604 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
45602624 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:45604066 original size:22 final size:22
Alignment explanation
Indices: 45604041--45604083 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
45604031 GTACCCCTTT
*
45604041 TGACTTAGGTACAATTTACTTC
1 TGACTTAAGTACAATTTACTTC
45604063 TGACTTAAGTACAATTTACTT
1 TGACTTAAGTACAATTTACTT
45604084 GCTTTTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (22 bp):
TGACTTAAGTACAATTTACTTC
Found at i:45620028 original size:28 final size:28
Alignment explanation
Indices: 45619988--45620045 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
45619978 TATATACAAA
* *
45619988 GAATGGTTATATCCGTCTAAGTAATGAT
1 GAATGCTTATATCAGTCTAAGTAATGAT
45620016 GAATGCTTATATCAGTCTAAGTAATGAT
1 GAATGCTTATATCAGTCTAAGTAATGAT
45620044 GA
1 GA
45620046 GTTTATGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (28 bp):
GAATGCTTATATCAGTCTAAGTAATGAT
Found at i:45623576 original size:26 final size:25
Alignment explanation
Indices: 45623524--45623577 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
45623514 CATGGAATGG
** *
45623524 AAATTTTATTTTATTTTACTTAGTT
1 AAATTTTATTTTAAATTACTTACTT
*
45623549 AAATTTTAGTTTTAAATTACTTCCTT
1 AAATTTTA-TTTTAAATTACTTACTT
45623575 AAA
1 AAA
45623578 ATCAAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (25 bp):
AAATTTTATTTTAAATTACTTACTT
Found at i:45628463 original size:43 final size:44
Alignment explanation
Indices: 45628414--45628580 Score: 171
Period size: 43 Copynumber: 3.9 Consensus size: 44
45628404 GATTACCGAG
*
45628414 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * * *
45628458 -TGTGATTACGTGTAAGACCATTTTTGGGATATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * * * * * **
45628500 ATATGATTTCGTATAAGACTATGTCTAAGACATTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* *
45628543 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCAT
45628581 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
42 7 0.07
43 90 0.93
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:45634309 original size:16 final size:15
Alignment explanation
Indices: 45634282--45634315 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
45634272 ATAACTAGTA
*
45634282 TATAATTATATTTAT
1 TATAATTATATTAAT
45634297 TATAATATATATTAAT
1 TATAAT-TATATTAAT
45634313 TAT
1 TAT
45634316 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:45635057 original size:25 final size:24
Alignment explanation
Indices: 45635029--45635087 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
45635019 AGTTTTCTCC
* *
45635029 TAAATTTTAATTTTATTTAATTATT
1 TAAATTTTAAATTTATTGAATTA-T
*
45635054 TAAAATTTAAATTTATTGAATTAT
1 TAAATTTTAAATTTATTGAATTAT
45635078 TAATATTTTA
1 TAA-ATTTTA
45635088 TACTCATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TAAATTTTAAATTTATTGAATTAT
Found at i:45637353 original size:20 final size:19
Alignment explanation
Indices: 45637301--45637353 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
45637291 CCAGTAGTTC
45637301 ATCCGTATAACCAATAATTT
1 ATCCGTATAA-CAATAATTT
* *
45637321 ATCAGTAGTAACAGTAATTT
1 ATCCGTA-TAACAATAATTT
45637341 ATCCGTATCAACA
1 ATCCGTAT-AACA
45637354 TAGCTTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 24 0.86
21 3 0.11
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (19 bp):
ATCCGTATAACAATAATTT
Found at i:45637538 original size:24 final size:24
Alignment explanation
Indices: 45637500--45637611 Score: 140
Period size: 24 Copynumber: 4.8 Consensus size: 24
45637490 TCCTCCTGAT
* *
45637500 CTGATAAACAATAAGCTGTATTGAG
1 CTGA-AAACAGTAAGCTCTATTGAG
45637525 CTGAAAACAGTAAGCTCTATTGAG
1 CTGAAAACAGTAAGCTCTATTGAG
*
45637549 CTGAAAACAGTAAGCTCTATCGAG
1 CTGAAAACAGTAAGCTCTATTGAG
* *
45637573 CTG--AATAGTAAGCTCTAATGAG
1 CTGAAAACAGTAAGCTCTATTGAG
*
45637595 CTG-AAACGGTAAGCTCT
1 CTGAAAACAGTAAGCTCT
45637612 TACGAGCTGA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
22 19 0.24
23 11 0.14
24 44 0.56
25 4 0.05
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (24 bp):
CTGAAAACAGTAAGCTCTATTGAG
Found at i:45637610 original size:23 final size:23
Alignment explanation
Indices: 45637505--45637643 Score: 131
Period size: 24 Copynumber: 6.0 Consensus size: 23
45637495 CTGATCTGAT
* * *
45637505 AAACAATAAGCTGTATTGAGCTG
1 AAACAGTAAGCTCTAATGAGCTG
*
45637528 AAAACAGTAAGCTCTATTGAGCTG
1 -AAACAGTAAGCTCTAATGAGCTG
45637552 AAAACAGTAAGCTCT-ATCGAGCTG
1 -AAACAGTAAGCTCTAAT-GAGCTG
*
45637576 -AATAGTAAGCTCTAATGAGCTG
1 AAACAGTAAGCTCTAATGAGCTG
* * *
45637598 AAACGGTAAGCTCTTACGAGCTG
1 AAACAGTAAGCTCTAATGAGCTG
* *
45637621 AATCGGTAAGCTC-ATATGAGCTG
1 AAACAGTAAGCTCTA-ATGAGCTG
45637644 TGGTGAGTCC
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
22 18 0.18
23 40 0.40
24 42 0.42
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (23 bp):
AAACAGTAAGCTCTAATGAGCTG
Found at i:45637622 original size:45 final size:47
Alignment explanation
Indices: 45637500--45637643 Score: 161
Period size: 46 Copynumber: 3.1 Consensus size: 47
45637490 TCCTCCTGAT
* * * * *
45637500 CTGATAAACAATAAGCTGTATTGAGCTGAAAACAGTAAGCTCTATTGAG
1 CTGA-AAACAGTAAGCTCTATCGAGCTG-AATCAGTAAGCTCTAATGAG
45637549 CTGAAAACAGTAAGCTCTATCGAGCTGAAT-AGTAAGCTCTAATGAG
1 CTGAAAACAGTAAGCTCTATCGAGCTGAATCAGTAAGCTCTAATGAG
* *
45637595 CTG-AAACGGTAAGCTCT-TACGAGCTGAATCGGTAAGCTC-ATATGAG
1 CTGAAAACAGTAAGCTCTAT-CGAGCTGAATCAGTAAGCTCTA-ATGAG
45637641 CTG
1 CTG
45637644 TGGTGAGTCC
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
44 1 0.01
45 24 0.28
46 34 0.40
47 2 0.02
48 20 0.24
49 4 0.05
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (47 bp):
CTGAAAACAGTAAGCTCTATCGAGCTGAATCAGTAAGCTCTAATGAG
Found at i:45643847 original size:20 final size:20
Alignment explanation
Indices: 45643819--45643877 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
45643809 ATTCATTTTT
* *
45643819 ATTCGTATAAACTGTAATTC
1 ATTCATATAAACAGTAATTC
* *
45643839 ATTCATATAACCAGTAGTTC
1 ATTCATATAAACAGTAATTC
* *
45643859 ATCCATATAACCAGTAATT
1 ATTCATATAAACAGTAATT
45643878 TATCAATAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (20 bp):
ATTCATATAAACAGTAATTC
Found at i:45644095 original size:23 final size:22
Alignment explanation
Indices: 45644065--45644153 Score: 88
Period size: 23 Copynumber: 3.9 Consensus size: 22
45644055 AGCTGAAAAA
45644065 CAGTAAGCTCTATCGAGCTGAAT
1 CAGTAAGCTCTAT-GAGCTGAAT
* *
45644088 CAGTAAGCTCCAATGAGCTGAAA
1 CAGTAAGCT-CTATGAGCTGAAT
* **
45644111 CGGTAAGCTCTTACAAGCTGAAT
1 CAGTAAGCTC-TATGAGCTGAAT
*
45644134 CGGTAAGCTCATATGAGCTG
1 CAGTAAGCTC-TATGAGCTG
45644154 TGGTGAGTCT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
22 1 0.02
23 50 0.93
24 3 0.06
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (22 bp):
CAGTAAGCTCTATGAGCTGAAT
Found at i:45644121 original size:46 final size:46
Alignment explanation
Indices: 45644062--45644153 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
45644052 CCGAGCTGAA
*
45644062 AAACAGTAAGCTC-TATCGAGCTGAATCAGTAAGCTCCA-ATGAGCTG
1 AAACAGTAAGCTCTTA-CAAGCTGAATCAGTAAGCT-CATATGAGCTG
* *
45644108 AAACGGTAAGCTCTTACAAGCTGAATCGGTAAGCTCATATGAGCTG
1 AAACAGTAAGCTCTTACAAGCTGAATCAGTAAGCTCATATGAGCTG
45644154 TGGTGAGTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
45 2 0.05
46 37 0.90
47 2 0.05
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (46 bp):
AAACAGTAAGCTCTTACAAGCTGAATCAGTAAGCTCATATGAGCTG
Found at i:45646594 original size:12 final size:12
Alignment explanation
Indices: 45646577--45646604 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
45646567 CAAAATGTTC
45646577 TTTGAAAATAAG
1 TTTGAAAATAAG
45646589 TTTGAAAATAAG
1 TTTGAAAATAAG
45646601 TTTG
1 TTTG
45646605 GGTGAGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.39
Consensus pattern (12 bp):
TTTGAAAATAAG
Found at i:45649339 original size:12 final size:12
Alignment explanation
Indices: 45649322--45649346 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45649312 TTCATTCATT
45649322 AATCATAAAATA
1 AATCATAAAATA
45649334 AATCATAAAATA
1 AATCATAAAATA
45649346 A
1 A
45649347 GTACTAAACT
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AATCATAAAATA
Found at i:45650050 original size:12 final size:12
Alignment explanation
Indices: 45650033--45650057 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45650023 TTCATTCATT
45650033 AATCATAAAATA
1 AATCATAAAATA
45650045 AATCATAAAATA
1 AATCATAAAATA
45650057 A
1 A
45650058 GTACTAAACT
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AATCATAAAATA
Found at i:45650614 original size:712 final size:711
Alignment explanation
Indices: 45648779--45650903 Score: 4150
Period size: 711 Copynumber: 3.0 Consensus size: 711
45648769 TTTTGGTAGG
45648779 TGAGTCTGTTTATAAGTTAGCAAATTACTAAGTTGCCGTGAATTTATTCGTAACAACATGAACAT
1 TGAGTCTGTTTATAAGTTAGCAAATTACTAAGTTGCCGTGAATTTATTCGTAACAACATGAACAT
*
45648844 GAGTTTAATAATTCTAAGTTAAGAAATGTAATTAATCTAACATAGTTATGTTATCTTGATTAAAA
66 GAGTTTAATAGTTCTAAGTTAAGAAATGTAATTAATCTAACATAGTTATGTTATCTTGATTAAAA
45648909 TCATCTTTTGAAATCGTGCATTGGAA-TTTTTTTATTTTATTTAGTTAAATTTTAGCTTTAAATC
131 TCATCTTTTGAAATCGTGCATTGGAATTTTTTTTATTTTATTTAGTTAAATTTTAGCTTTAAATC
*
45648973 ACTTCTTCAAAATCAAAATA--TTTCCTTCACCAAAGCGTTTTAATTACATTCATAAATAAATTC
196 ACTTCTTCAAAATCAAAATATTTTTCCTTCACCAAAGTGTTTTAATTACATTCATAAATAAATTC
45649036 TTCTCACAGTTACTGTGGGTACAATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCGATT
261 TTCTCACAGTTACTGTGGGTACAATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCGATT
45649101 GTGTACACTTGTACATTTCCGTCATTCCAGTAACAGCCTATACTCGGCCTTATTGCCGAGCCTAA
326 GTGTACACTTGTACATTTCCGTCATTCCAGTAACAGCCTATACTCGGCCTTATTGCCGAGCCTAA
*
45649166 AAACTAGAATGCTACATCACCGTCTCACTTCATGTTCATCACAAACTGTCACATTATTATGCATG
391 AAACTAGAATGCTACATCACCGTCTCACTTCATGTTCATCACAAACTGTCACATTATTACGCATG
45649231 CATTTTTTTTCTTTTAACATAATAGCACTTACATGAAACGTAATCCATACATGCTCTAAGGAGAT
456 CATTTTTTTTCTTTTAACATAATAGCACTTACATGAAACGTAATCCATACATGCTCTAAGGAGAT
45649296 TGAATTATGTTAAACATTCATTCATTAATCATAAAATAAATCATAAAATAAGTACTAAACTTGCA
521 TGAATTATGTTAAACATTCATTCATTAATCATAAAATAAATCATAAAATAAGTACTAAACTTGCA
45649361 TTAGGACCATTTAGCAAAATTTCCCAAAACTATTACGTAGATATTAATAAGGGAAGAGCGGTATC
586 TTAGGACCATTTAGCAAAATTTCCCAAAACTATTACGTAGATATTAATAAGGGAAGAGCGGTATC
45649426 GATATCGCTTGGAAATTTGATACCAAATTAGCTTACTATTTCTCGACTTAAAAACCATACA
651 GATATCGCTTGGAAATTTGATACCAAATTAGCTTACTATTTCTCGACTTAAAAACCATACA
45649487 TGAGTCTGTTTATAAGTTAGCAAATTACTAAGTTGCCGTGAATTTATTCGTAACAACATGAACAT
1 TGAGTCTGTTTATAAGTTAGCAAATTACTAAGTTGCCGTGAATTTATTCGTAACAACATGAACAT
45649552 GAGTTTAATAGTTCTAAGTTAAGAAATGTAATTAATCTAACATAGTTATGTTATCTTGATTAAAA
66 GAGTTTAATAGTTCTAAGTTAAGAAATGTAATTAATCTAACATAGTTATGTTATCTTGATTAAAA
45649617 TCATCTTTTGAAATCGTGCATTGGAATTTTTTTTATTTTATTTAGTTAAATTTTAGCTTTAAATC
131 TCATCTTTTGAAATCGTGCATTGGAATTTTTTTTATTTTATTTAGTTAAATTTTAGCTTTAAATC
45649682 ACTTCTTCAAAATCAAAATATTTTTCCTTCACCAAAGTGTTTTAATTACATTCATAAATAAATTC
196 ACTTCTTCAAAATCAAAATATTTTTCCTTCACCAAAGTGTTTTAATTACATTCATAAATAAATTC
45649747 TTCTCACAGTTACTGTGGGTACAATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCGATT
261 TTCTCACAGTTACTGTGGGTACAATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCGATT
*
45649812 GTGTACACTTGTACATTTCCGTCATTCCAGTAACAGCCTATACTCGGCCTTATTGACGAGCCTAA
326 GTGTACACTTGTACATTTCCGTCATTCCAGTAACAGCCTATACTCGGCCTTATTGCCGAGCCTAA
45649877 AAACTAGAATGCTACATCACCGTCTCACTTCATGTTCATCACAAACTGTCACATTATTACGCATG
391 AAACTAGAATGCTACATCACCGTCTCACTTCATGTTCATCACAAACTGTCACATTATTACGCATG
45649942 CATTTTTTTTCTTTTAACATAATAGCACTTACATGAAACGTAATCCATACATGCTCTAAGGAGAT
456 CATTTTTTTTCTTTTAACATAATAGCACTTACATGAAACGTAATCCATACATGCTCTAAGGAGAT
45650007 TGAATTATGTTAAACATTCATTCATTAATCATAAAATAAATCATAAAATAAGTACTAAACTTGCA
521 TGAATTATGTTAAACATTCATTCATTAATCATAAAATAAATCATAAAATAAGTACTAAACTTGCA
45650072 TTAGGACCATTTAGCAAAATTTCCCAAAACTATTACGTAGATATTAATAAGGGAAGAGCGGTATC
586 TTAGGACCATTTAGCAAAATTTCCCAAAACTATTACGTAGATATTAATAAGGGAAGAGCGGTATC
45650137 GATATCGCTTGGAAATTTGATACCAAATTAGCTTACTATTTCTCGACTTAAAAACCATACA
651 GATATCGCTTGGAAATTTGATACCAAATTAGCTTACTATTTCTCGACTTAAAAACCATACA
45650198 TGAGTCTGTTTATAAGTTAGCAAATTACTAAGTTGCCGTGAATTTATTCGTAACAACATGAACAT
1 TGAGTCTGTTTATAAGTTAGCAAATTACTAAGTTGCCGTGAATTTATTCGTAACAACATGAACAT
45650263 GAGTTTAATAGTTCTAAGTTAAGAAATGTAATTAATCTAACATAGTTATGTTATCTTGATTAAAA
66 GAGTTTAATAGTTCTAAGTTAAGAAATGTAATTAATCTAACATAGTTATGTTATCTTGATTAAAA
45650328 TCATCTTTTGAAATCGTGCATTGGAATTTTTTTTTATTTTATTTAGTTAAATTTTAGCTTTAAAT
131 TCATCTTTTGAAATCGTGCATTGGAA-TTTTTTTTATTTTATTTAGTTAAATTTTAGCTTTAAAT
45650393 CACTTCTTCAAAATCAAAATATTTTTCCTTCACCAAAGTGTTTTAATTACATTCATAAATAAATT
195 CACTTCTTCAAAATCAAAATATTTTTCCTTCACCAAAGTGTTTTAATTACATTCATAAATAAATT
45650458 CTTCTCACAGTTACTGTGGGTACAATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCGAT
260 CTTCTCACAGTTACTGTGGGTACAATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCGAT
*
45650523 TGTGTACACTTGTACATTTCTGTCATTCCAGTAACAGCCTATACTCGGCCTTATTGCCGAGCCTA
325 TGTGTACACTTGTACATTTCCGTCATTCCAGTAACAGCCTATACTCGGCCTTATTGCCGAGCCTA
*
45650588 AAAACTAGAATGCTACATCACCGTCTCACTTCATGTTCATCACAAACTGTCACATTATTGCGCAT
390 AAAACTAGAATGCTACATCACCGTCTCACTTCATGTTCATCACAAACTGTCACATTATTACGCAT
45650653 GCA-TTTTTTTCTTTTAACATAATAGCACTTACATGAAACGTAATCCATACATGCTCTAAGGAGA
455 GCATTTTTTTTCTTTTAACATAATAGCACTTACATGAAACGTAATCCATACATGCTCTAAGGAGA
45650717 TTGAATTATGTTAAACATTCATTCATTAATCATAAAATAAATCATAAAATAAGTACTAAACTTGC
520 TTGAATTATGTTAAACATTCATTCATTAATCATAAAATAAATCATAAAATAAGTACTAAACTTGC
*
45650782 ATTAGGACCATTTAGCAAAATTTCCCAAAACTATTACGTAGATATTAATAAGGGAAAAGCGGTAT
585 ATTAGGACCATTTAGCAAAATTTCCCAAAACTATTACGTAGATATTAATAAGGGAAGAGCGGTAT
45650847 CGATATCGCTTGGAAATTTGATACCAAATTAGCTTACTATTTCTCGACTTAAAAACC
650 CGATATCGCTTGGAAATTTGATACCAAATTAGCTTACTATTTCTCGACTTAAAAACC
45650904 CAACTTTCGA
Statistics
Matches: 1405, Mismatches: 8, Indels: 5
0.99 0.01 0.00
Matches are distributed among these distances:
708 155 0.11
709 58 0.04
711 894 0.64
712 298 0.21
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (711 bp):
TGAGTCTGTTTATAAGTTAGCAAATTACTAAGTTGCCGTGAATTTATTCGTAACAACATGAACAT
GAGTTTAATAGTTCTAAGTTAAGAAATGTAATTAATCTAACATAGTTATGTTATCTTGATTAAAA
TCATCTTTTGAAATCGTGCATTGGAATTTTTTTTATTTTATTTAGTTAAATTTTAGCTTTAAATC
ACTTCTTCAAAATCAAAATATTTTTCCTTCACCAAAGTGTTTTAATTACATTCATAAATAAATTC
TTCTCACAGTTACTGTGGGTACAATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCGATT
GTGTACACTTGTACATTTCCGTCATTCCAGTAACAGCCTATACTCGGCCTTATTGCCGAGCCTAA
AAACTAGAATGCTACATCACCGTCTCACTTCATGTTCATCACAAACTGTCACATTATTACGCATG
CATTTTTTTTCTTTTAACATAATAGCACTTACATGAAACGTAATCCATACATGCTCTAAGGAGAT
TGAATTATGTTAAACATTCATTCATTAATCATAAAATAAATCATAAAATAAGTACTAAACTTGCA
TTAGGACCATTTAGCAAAATTTCCCAAAACTATTACGTAGATATTAATAAGGGAAGAGCGGTATC
GATATCGCTTGGAAATTTGATACCAAATTAGCTTACTATTTCTCGACTTAAAAACCATACA
Found at i:45650761 original size:12 final size:12
Alignment explanation
Indices: 45650744--45650768 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45650734 TTCATTCATT
45650744 AATCATAAAATA
1 AATCATAAAATA
45650756 AATCATAAAATA
1 AATCATAAAATA
45650768 A
1 A
45650769 GTACTAAACT
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AATCATAAAATA
Found at i:45656737 original size:43 final size:43
Alignment explanation
Indices: 45656612--45656900 Score: 224
Period size: 43 Copynumber: 6.7 Consensus size: 43
45656602 TTTTGTGGAA
* * * ** ** * *
45656612 AAATGCCGCTATAGAACTTGACCTTTAATGGTGCTTTTCACAA
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCCCAC
* * * *
45656655 AAATGCCAATATAGACCATGACTTTTAGCGGCACTTTTCCCAC
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCCCAC
* * * * * *
45656698 AAACGCCGCTATAGAACATGACATTTAGCAGCGCTTTTCCTC-C
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCC-CAC
* * * * * *
45656741 AAACGCTACTATAGATCATGACCTTTAGTGGCGCTTCTT-CCAC
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTT-TTCCCAC
* *
45656784 AAATGCCACTAAATAAAATGACCTTTAGCGGCACTTTT-CCAC
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCCCAC
* * * * *
45656826 AAATACCACTAAAGAACACGACCTTTAGCGACACTTTGCCTAC
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCCCAC
* * *
45656869 AAATGCCGCTAAAGAACACGATCTTTAGCGGC
1 AAATGCCACTAAAGAACATGACCTTTAGCGGC
45656901 GTTTTTATAA
Statistics
Matches: 199, Mismatches: 43, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
42 39 0.20
43 157 0.79
44 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (43 bp):
AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCCCAC
Found at i:45657289 original size:21 final size:21
Alignment explanation
Indices: 45657265--45657309 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
45657255 CTTTGCTTTG
* * *
45657265 CTTCTCTCACTGCTGCCTCTA
1 CTTCCCTCACTGCTACCTCCA
*
45657286 CTTCCCTCGCTGCTACCTCCA
1 CTTCCCTCACTGCTACCTCCA
45657307 CTT
1 CTT
45657310 TAAGTTGTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.47, G:0.09, T:0.36
Consensus pattern (21 bp):
CTTCCCTCACTGCTACCTCCA
Found at i:45658966 original size:46 final size:46
Alignment explanation
Indices: 45658916--45659088 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
45658906 TGGTTGAGCA
*
45658916 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
45658962 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
45659009 TCCGAACTCGTTGAGTTGAGTCCG-GTTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATGCAAACG
* *
45659055 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45659089 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 57 0.55
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:45659072 original size:93 final size:93
Alignment explanation
Indices: 45658913--45659083 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
45658903 GGATGGTTGA
* *
45658913 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
45658978 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
45659006 GCATCCGAACTCGTTGAGTTGAGTCCG-GTTTCATTTATGGATGCGAACG-CCTGAGCTCATTGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATGCAAACGTCC-GAACTCATTGA
45659069 GTTGAGTCCGAGTTC
64 GTTGAGTCCGAGTTC
45659084 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45666552 original size:46 final size:46
Alignment explanation
Indices: 45666502--45666675 Score: 194
Period size: 47 Copynumber: 3.7 Consensus size: 46
45666492 TGGTTGAGCA
*
45666502 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
45666548 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
45666595 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
45666641 -CCGAGCTCGTTGAGTTGAGTGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGA--GTCCGAGTTCACTTA
45666676 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 20 0.19
46 30 0.28
47 43 0.40
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:45668170 original size:13 final size:14
Alignment explanation
Indices: 45668144--45668172 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
45668134 ACAAACGACA
45668144 AATTAAACCATTAT
1 AATTAAACCATTAT
45668158 AATTAAA-CATTAT
1 AATTAAACCATTAT
45668171 AA
1 AA
45668173 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:45674124 original size:40 final size:40
Alignment explanation
Indices: 45674063--45674147 Score: 152
Period size: 40 Copynumber: 2.1 Consensus size: 40
45674053 CGTTTGTTAT
*
45674063 TGCTTACCTTTTGTAGTGTTTTTCTCATAAACACCGCTAA
1 TGCTTACCTTTTGTAGCGTTTTTCTCATAAACACCGCTAA
*
45674103 TGCTTACCTTTTGTGGCGTTTTTCTCATAAACACCGCTAA
1 TGCTTACCTTTTGTAGCGTTTTTCTCATAAACACCGCTAA
45674143 TGCTT
1 TGCTT
45674148 GAATTTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (40 bp):
TGCTTACCTTTTGTAGCGTTTTTCTCATAAACACCGCTAA
Found at i:45674463 original size:20 final size:20
Alignment explanation
Indices: 45674438--45674500 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
45674428 AATATCTTGC
45674438 ATAATTTTGCATAATTTAAT
1 ATAATTTTGCATAATTTAAT
*
45674458 ATAATTAAATT--A-AAATTAAT
1 ATAATT---TTGCATAATTTAAT
45674478 ATAATTTTGCATAATTTTAAT
1 ATAATTTTGCATAA-TTTAAT
45674499 AT
1 AT
45674501 CTTTAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
17 2 0.06
19 1 0.03
20 21 0.62
21 8 0.24
23 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (20 bp):
ATAATTTTGCATAATTTAAT
Found at i:45674482 original size:40 final size:41
Alignment explanation
Indices: 45674438--45674515 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
45674428 AATATCTTGC
45674438 ATAATTTTGCATAA-TTTAATATAATTAAATTAAAATTAAT
1 ATAATTTTGCATAATTTTAATATAATTAAATTAAAATTAAT
**
45674478 ATAATTTTGCATAATTTTAATATCTTTAAATTAAAATT
1 ATAATTTTGCATAATTTTAATATAATTAAATTAAAATT
45674516 TTAATTTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 14 0.40
41 21 0.60
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (41 bp):
ATAATTTTGCATAATTTTAATATAATTAAATTAAAATTAAT
Found at i:45676024 original size:20 final size:21
Alignment explanation
Indices: 45675999--45676053 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
45675989 TGGGGGGTCA
45675999 ACACG-CTCATGTGGAA-AGGC
1 ACACGCCT-ATGTGGAAGAGGC
45676019 ACACGCCTATGTGGAAGGAGGC
1 ACACGCCTATGTGGAA-GAGGC
* *
45676041 ACACACCTGTGTG
1 ACACGCCTATGTG
45676054 ACCTAGGGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 13 0.43
21 2 0.07
22 15 0.50
ACGTcount: A:0.27, C:0.25, G:0.31, T:0.16
Consensus pattern (21 bp):
ACACGCCTATGTGGAAGAGGC
Found at i:45680265 original size:25 final size:25
Alignment explanation
Indices: 45680223--45680272 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
45680213 CTTTATTATT
* *
45680223 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
45680248 ATCATTATCATGAGTTATATGATTA
1 ATCATTATCAAGAATTATATGATTA
45680273 GTCCTTTGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:45687190 original size:442 final size:443
Alignment explanation
Indices: 45686325--45687213 Score: 1528
Period size: 442 Copynumber: 2.0 Consensus size: 443
45686315 TGGTTTCTGG
*
45686325 ACCACAAATCTGACAAGGAAAATTTTATTTTTATTATATTTTTATGGTCTAAAATTTCACGGAAT
1 ACCACAAATCCGACAAGGAAAATTTTATTTTTATTATATTTTTATGGTCTAAAATTTCACGGAAT
*
45686390 GATTCCGTGAAAATTTCGTTCGAAAATTTTAACGTTTGGGCACTCAATTTAGTCAAAAGGACTAA
66 GATTCCGTGAAAATTTCGTTCGAAAATTTTAACGTTTGGGCACTCAATTTAGTCAAAAGAACTAA
* * *
45686455 ATTGTAAAAATTATAAAATACGTAGTAAAAGTGTGTTCTAGTGGAAATTGTGGGCTATTATAGTT
131 ATTGTAAAAATTATAAAATACATAGTAAAAGTGTGCTCTAGTAGAAATTGTGGGCTATTATAGTT
* * *
45686520 ATGAAAATGGTTCGGCTAAGCTTAAAGTACAAAGAAATTGAATAAATTTCATTTTACGAGCCTGG
196 ATGAAAATGGTTCGGATAAGCTTAAAGTACAAAGAAATTGAATAAATTTCATTTTAAGAGCCTAG
* *
45686585 GGGCAAAAGTGTAAATATGACAAAGTTTAGGGGTAAAAATGTAATTTTTCTATAATATGATTTTC
261 GGGCAAAAGTATAAATATGACAAAGTTTAGGGGCAAAAATGTAATTTTTCTATAATATGATTTTC
*
45686650 GGGTCACAATGAATAATGTGATTAATAAATAAGCTAAATGTGATATTTTAGATCAAGGAAAACAA
326 GGGTCACAATGAATAATGTGAATAATAAATAAGCTAAATGTGATATTTTAGATCAAGGAAAACAA
* *
45686715 GGTTTGGACCTAAAATAAGGGAAAAATGCATATTTGACGGTTAGGTCTTTTTC
391 GGTTTGGACCTAAAACAAGGGAAAAACGCATATTTGACGGTTAGGTCTTTTTC
** *
45686768 ACCACAAATCCGATGAGGAAAATTTTATTTTTATTATA-TTTTATGGTCTAAAATTTCATGGAAT
1 ACCACAAATCCGACAAGGAAAATTTTATTTTTATTATATTTTTATGGTCTAAAATTTCACGGAAT
* * *
45686832 GATTCCGTGAAAATTTCGTTTGAAAATTTTGATGTTTGGGCACTCAATTTAGTCAAAAGAACTAA
66 GATTCCGTGAAAATTTCGTTCGAAAATTTTAACGTTTGGGCACTCAATTTAGTCAAAAGAACTAA
*
45686897 ATTGTAAAAATTATAAAATACATAGTAAAAGTGTGCTCTAGTAGAAATTGTGGGCTGTTATAGTT
131 ATTGTAAAAATTATAAAATACATAGTAAAAGTGTGCTCTAGTAGAAATTGTGGGCTATTATAGTT
** *
45686962 ATGAAAATGGTTCGGATATTCTTAAAGTACAAATAAATTGAATAAATTTCATTTTAAGAGCCTAG
196 ATGAAAATGGTTCGGATAAGCTTAAAGTACAAAGAAATTGAATAAATTTCATTTTAAGAGCCTAG
*
45687027 GGGCAAAAGTATAAATATGACAAAGTTTAGGGGCAAAAATGTAATTTTTCTATAATATGATTTTT
261 GGGCAAAAGTATAAATATGACAAAGTTTAGGGGCAAAAATGTAATTTTTCTATAATATGATTTTC
*
45687092 GGGTCACAATGAATAATGTGAATAATAAATAAGCTAAATGTGATATTTTAGATCAAGGAAAACGA
326 GGGTCACAATGAATAATGTGAATAATAAATAAGCTAAATGTGATATTTTAGATCAAGGAAAACAA
* *
45687157 GGTTTGGACCTAGAACAGGGGAAAAACGCATATTTGACGGTTAGGTCTTTTTC
391 GGTTTGGACCTAAAACAAGGGAAAAACGCATATTTGACGGTTAGGTCTTTTTC
45687210 ACCA
1 ACCA
45687214 TTTTTGGTAT
Statistics
Matches: 419, Mismatches: 27, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
442 384 0.92
443 35 0.08
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.34
Consensus pattern (443 bp):
ACCACAAATCCGACAAGGAAAATTTTATTTTTATTATATTTTTATGGTCTAAAATTTCACGGAAT
GATTCCGTGAAAATTTCGTTCGAAAATTTTAACGTTTGGGCACTCAATTTAGTCAAAAGAACTAA
ATTGTAAAAATTATAAAATACATAGTAAAAGTGTGCTCTAGTAGAAATTGTGGGCTATTATAGTT
ATGAAAATGGTTCGGATAAGCTTAAAGTACAAAGAAATTGAATAAATTTCATTTTAAGAGCCTAG
GGGCAAAAGTATAAATATGACAAAGTTTAGGGGCAAAAATGTAATTTTTCTATAATATGATTTTC
GGGTCACAATGAATAATGTGAATAATAAATAAGCTAAATGTGATATTTTAGATCAAGGAAAACAA
GGTTTGGACCTAAAACAAGGGAAAAACGCATATTTGACGGTTAGGTCTTTTTC
Found at i:45689977 original size:35 final size:35
Alignment explanation
Indices: 45689937--45690024 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
45689927 ATGTACTCAA
* *
45689937 TCAGATACAAATACAGATTCGGGCTTAAGCCCAT-
1 TCAGATACAGATACAGATTCGGGCCTAAGCCCATC
* **
45689971 TACAGATACAGATGCAGATTTTGGCCTAAGCCCATC
1 T-CAGATACAGATACAGATTCGGGCCTAAGCCCATC
*
45690007 TCAGATACAGATATAGAT
1 TCAGATACAGATACAGAT
45690025 GTACAAATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
34 1 0.02
35 43 0.96
36 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (35 bp):
TCAGATACAGATACAGATTCGGGCCTAAGCCCATC
Found at i:45700166 original size:20 final size:20
Alignment explanation
Indices: 45700141--45700187 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
45700131 ATTTTGATAT
45700141 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
45700161 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
45700181 ACATGAT
1 ACATGAT
45700188 GTATTCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:45700266 original size:25 final size:24
Alignment explanation
Indices: 45700236--45700307 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 24
45700226 GGACGAAGTG
*
45700236 CAAAAAGGGCTATGCCCCAGTTTA
1 CAAAAAGGGCTTTGCCCCAGTTTA
*
45700260 CCGAAAAGGGCTTTTGCCCCAGTTTA
1 -CAAAAAGGGC-TTTGCCCCAGTTTA
*
45700286 TAAAAAGGGCTTTGCCCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTT
45700308 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 12 0.29
25 17 0.40
26 13 0.31
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (24 bp):
CAAAAAGGGCTTTGCCCCAGTTTA
Found at i:45700299 original size:24 final size:24
Alignment explanation
Indices: 45700237--45700320 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
45700227 GACGAAGTGC
* *
45700237 AAAAAGGGCTATGCCCCAGTTTACC
1 AAAAAGGGCTTTGCCCCAGTTTA-T
*
45700262 GAAAAGGGCTTTTGCCCCAGTTTAT
1 AAAAAGGGC-TTTGCCCCAGTTTAT
45700287 AAAAAGGGCTTTGCCCCAG-TTAT
1 AAAAAGGGCTTTGCCCCAGTTTAT
*
45700310 TAAAAGAGGCT
1 AAAAAG-GGCT
45700321 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.17
24 14 0.27
25 16 0.31
26 13 0.25
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAAGGGCTTTGCCCCAGTTTAT
Found at i:45700573 original size:31 final size:31
Alignment explanation
Indices: 45700538--45700619 Score: 85
Period size: 38 Copynumber: 2.5 Consensus size: 31
45700528 TGAAGGATTT
45700538 GGCCCAGTAATATGAAATATGAAAAGGCTTC
1 GGCCCAGTAATATGAAATATGAAAAGGCTTC
45700569 GGCCCAGTGTTATGAGATATGAAATATGAAAAGGCTTC
1 GGCCCA--G---T-A-ATATGAAATATGAAAAGGCTTC
*
45700607 GGCCGAGT-ATATG
1 GGCCCAGTAATATG
45700620 CTGAGATGGA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
30 5 0.12
31 6 0.14
33 2 0.05
36 2 0.05
37 1 0.02
38 27 0.63
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (31 bp):
GGCCCAGTAATATGAAATATGAAAAGGCTTC
Found at i:45701546 original size:33 final size:33
Alignment explanation
Indices: 45701509--45701574 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
45701499 TGAAGATGAA
*
45701509 TTAGATTCTAACTCAGTTTTTGTTATCACTTTT
1 TTAGATTCTAACTCAGTTTCTGTTATCACTTTT
45701542 TTAGATTCTAACTCAGTTTCTGTTATCACTTTT
1 TTAGATTCTAACTCAGTTTCTGTTATCACTTTT
45701575 GACGATGTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (33 bp):
TTAGATTCTAACTCAGTTTCTGTTATCACTTTT
Found at i:45708027 original size:89 final size:90
Alignment explanation
Indices: 45707807--45708050 Score: 237
Period size: 89 Copynumber: 2.7 Consensus size: 90
45707797 AACCAAAAAA
* * * * ** * *
45707807 GTTGCAAGTTAATACATTCCCAGATGGTTGTGAATACACAACATATTTGCAGATAAGTGCTTCTA
1 GTTGCAGGTTAATACACTACCAGATGGTTGTGAATACACAACATATTTGCAAATAAGAACTGCCA
* *
45707872 GATATTGGGTGGATGAACCAACGAT
66 GAAAGTGGGTGGATGAACCAACGAT
* * * * *
45707897 GTTGCAGGTTAATACACTACTAGATAGTAGTGAGTATACAACATATTCT-CAAATAAGAACTGCC
1 GTTGCAGGTTAATACACTACCAGATGGTTGTGAATACACAACATATT-TGCAAATAAGAACTGCC
*
45707961 A-AAAGTGGTTGGATGAACC-ACTTG-T
65 AGAAAGTGGGTGGATGAACCAAC--GAT
* * **
45707986 GTTTCAGGTTAATACGCTACCAGATGGTTGTGAATACACAACATGGTTGCAAATAA-AAGCTGCC
1 GTTGCAGGTTAATACACTACCAGATGGTTGTGAATACACAACATATTTGCAAATAAGAA-CTGCC
45708050 A
65 A
45708051 AATAATTTGT
Statistics
Matches: 124, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
88 5 0.04
89 67 0.54
90 51 0.41
91 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (90 bp):
GTTGCAGGTTAATACACTACCAGATGGTTGTGAATACACAACATATTTGCAAATAAGAACTGCCA
GAAAGTGGGTGGATGAACCAACGAT
Found at i:45709659 original size:12 final size:12
Alignment explanation
Indices: 45709642--45709666 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45709632 TAGACTCAAT
45709642 AATATTTAATTC
1 AATATTTAATTC
45709654 AATATTTAATTC
1 AATATTTAATTC
45709666 A
1 A
45709667 TCCTCTAACT
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
AATATTTAATTC
Found at i:45710313 original size:46 final size:47
Alignment explanation
Indices: 45710159--45710418 Score: 236
Period size: 46 Copynumber: 5.6 Consensus size: 47
45710149 ATGTCGATTC
* *
45710159 CATGTCCCAGACATGGTCTTACACTAGCTCTCAAATATTCG-TGCAGATGA
1 CATGTCCCAGACAT-GTCTTACACTAGCTCT-ACATATT-GATGCCGAT-A
*
45710209 -ATGTCCCAGACATGTCTTACACTAG--C-ACAT-TTCGTAT-CCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATATT-G-ATGCCGATA
* *
45710252 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTTGATGCCGATA
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATATTGATGCCGATA
* * ** *
45710298 CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGCCGATGT
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATATTGATGCCGAT-A
* * *
45710345 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATG-TGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTACATATTGAT-GCCGATA
*
45710392 CATGTCCCAGATATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
45710419 ACACACACAT
Statistics
Matches: 179, Mismatches: 19, Indels: 28
0.79 0.08 0.12
Matches are distributed among these distances:
43 4 0.02
44 31 0.17
45 3 0.02
46 62 0.35
47 31 0.17
48 35 0.20
49 13 0.07
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTACATATTGATGCCGATA
Found at i:45710397 original size:94 final size:91
Alignment explanation
Indices: 45710159--45710421 Score: 304
Period size: 94 Copynumber: 2.8 Consensus size: 91
45710149 ATGTCGATTC
* * * *
45710159 CATGTCCCAGACATGGTCTTACACTAGCTCTCA-AATATTCGTGCAGATGAATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GT-G-GCCGATGCATGTCCCAGACATG
*
45710223 TCTTACACTAGCACATTTCGTATCCGATG
63 TCTTACACTAGCACATTTCGAATCCGATG
** *
45710252 CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTTGAT-GCCGATACATGTCCCAGACATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATG-TGGCCGATGCATGTCCCAGACATGT
*
45710314 CTTACACTAGCTC-TCGTCTC-AATGCCGATG
64 CTTACACTAGCACAT--T-TCGAAT-CCGATG
*
45710344 TCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGATATGTC
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTC
45710409 TTACACTAGCACA
65 TTACACTAGCACA
45710422 CACACATCGC
Statistics
Matches: 144, Mismatches: 14, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
89 1 0.01
90 32 0.22
91 4 0.03
92 23 0.16
93 31 0.22
94 52 0.36
95 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (91 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCT
TACACTAGCACATTTCGAATCCGATG
Found at i:45715811 original size:39 final size:40
Alignment explanation
Indices: 45715699--45715859 Score: 263
Period size: 40 Copynumber: 4.0 Consensus size: 40
45715689 CGAGATTTAA
*
45715699 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
**
45715739 CCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
45715779 CCGGATATAGTAACTCG-ACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
45715818 CTGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
45715858 CC
1 CC
45715860 CGTTATCATC
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 39 0.35
40 73 0.65
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:45715816 original size:79 final size:80
Alignment explanation
Indices: 45715699--45715859 Score: 263
Period size: 79 Copynumber: 2.0 Consensus size: 80
45715689 CGAGATTTAA
* **
45715699 CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45715764 CCTTCGGGACTTAGC
66 CCTTCGGGACTTAGC
*
45715779 CCGGATATAG-TAACTCG-ACAAATGCCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAAT
1 CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
45715842 GCCTTCGGGACTTAGC
65 GCCTTCGGGACTTAGC
45715858 CC
1 CC
45715860 CGTTATCATC
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
79 61 0.80
80 15 0.20
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
CCTTCGGGACTTAGC
Found at i:45720247 original size:44 final size:45
Alignment explanation
Indices: 45720152--45720368 Score: 174
Period size: 44 Copynumber: 4.7 Consensus size: 45
45720142 ATGTCGATTC
* * *
45720152 CATGTCCCAGACATGGTCTTACACTGGCTCTCAAATATCCGT-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAG----CACATATTCGTAGCCGATG
45720201 CATGTCCCAGACATGTCTTACACTAGCACAT-TTCGTAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACATATTCGTAGCCGATG
* * ** *
45720245 CATGTCCC-GAACATGTCTTACACTAGCTC-TCGTCTCAAACCCGATG
1 CATGTCCCAG-ACATGTCTTACACTAGCACAT-AT-TCGTAGCCGATG
* * * * *
45720291 CCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAG--CACATATTCGTAGCCGATG
45720339 CATGTCCCAGACATGTCTTACACTAGCACA
1 CATGTCCCAGACATGTCTTACACTAGCACA
45720369 CACACATCGC
Statistics
Matches: 139, Mismatches: 18, Indels: 27
0.76 0.10 0.15
Matches are distributed among these distances:
43 6 0.04
44 40 0.29
45 1 0.01
46 20 0.14
47 24 0.17
48 29 0.21
49 15 0.11
50 3 0.02
51 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCACATATTCGTAGCCGATG
Found at i:45725716 original size:20 final size:20
Alignment explanation
Indices: 45725671--45725720 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
45725661 ATAAAATTTT
*
45725671 GGTATCAATAAAATTCAATA
1 GGTATCGATAAAATTCAATA
* *
45725691 GATATCGATAAAATTTTAA-A
1 GGTATCGATAAAA-TTCAATA
45725711 GGTATCGATA
1 GGTATCGATA
45725721 CCTAATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (20 bp):
GGTATCGATAAAATTCAATA
Found at i:45742716 original size:13 final size:13
Alignment explanation
Indices: 45742698--45742736 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 13
45742688 ATTTGAAGAA
45742698 TATTATTTAAAAT
1 TATTATTTAAAAT
45742711 TATTATTTTAAAAT
1 TATTA-TTTAAAAT
45742725 TATTA-TTAAAAT
1 TATTATTTAAAAT
45742737 AAAACTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.28
13 5 0.20
14 13 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTATTTAAAAT
Done.