Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold45
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: 1930935
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 50924 characters in sequence are not A, C, G, or T
File 6 of 7
Found at i:1599298 original size:81 final size:81
Alignment explanation
Indices: 1599200--1599376 Score: 347
Period size: 81 Copynumber: 2.2 Consensus size: 81
1599190 GTACATATAT
1599200 ATTATTTATTTCAAAATTTTCCGTATATAATATTTTTTTGAATTGTTTTGTATATAGTTGATGTT
1 ATTATTTATTTCAAAATTTTCCGTATATAATATTTTTTTGAATTGTTTTGTATATAGTTGATGTT
1599265 TAAATTTCTTTTTCAC
66 TAAATTTCTTTTTCAC
1599281 ATTATTTATTTCAAAATTTTCCGTATATAATATTTTTTTGAATTGTTTTGTATATAGTTGATGTT
1 ATTATTTATTTCAAAATTTTCCGTATATAATATTTTTTTGAATTGTTTTGTATATAGTTGATGTT
1599346 TAAATTTCTTTTTCAC
66 TAAATTTCTTTTTCAC
1599362 ATTATTTATTT-AAAA
1 ATTATTTATTTCAAAA
1599377 CTCATTTATT
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 4 0.04
81 92 0.96
ACGTcount: A:0.29, C:0.07, G:0.08, T:0.56
Consensus pattern (81 bp):
ATTATTTATTTCAAAATTTTCCGTATATAATATTTTTTTGAATTGTTTTGTATATAGTTGATGTT
TAAATTTCTTTTTCAC
Found at i:1617766 original size:17 final size:17
Alignment explanation
Indices: 1617744--1617776 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1617734 CATGGAAAAT
1617744 TAAATTAAGAAA-ATGAC
1 TAAATT-AGAAAGATGAC
1617761 TAAATTAGAAAGATGA
1 TAAATTAGAAAGATGA
1617777 AATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.58, C:0.03, G:0.15, T:0.24
Consensus pattern (17 bp):
TAAATTAGAAAGATGAC
Found at i:1618851 original size:26 final size:26
Alignment explanation
Indices: 1618822--1618879 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
1618812 CCCTATATAT
1618822 GGCTCTTCATGAGCTTCCCGATTAAA
1 GGCTCTTCATGAGCTTCCCGATTAAA
** * *
1618848 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCATGAGCTTCCCGATTAAA
1618874 GGCTCT
1 GGCTCT
1618880 CTAGAGCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCCGATTAAA
Found at i:1618891 original size:26 final size:26
Alignment explanation
Indices: 1618832--1618888 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
1618822 GGCTCTTCAT
* *
1618832 GAGCTTCCCGATTAAAGGCTCTTTGT
1 GAGCTTCCCGATTAAAGGCTCTCTGA
* *
1618858 GAGCTTCCTGATTAATGGCTCTCT-A
1 GAGCTTCCCGATTAAAGGCTCTCTGA
1618883 GAGCTT
1 GAGCTT
1618889 TCCAATATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
GAGCTTCCCGATTAAAGGCTCTCTGA
Found at i:1618937 original size:25 final size:25
Alignment explanation
Indices: 1618909--1618960 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
1618899 CTCGCTTGAA
1618909 CTTCCCGA-TATATGGCTATCCGGAG
1 CTTCCCGATTA-ATGGCTATCCGGAG
* *
1618934 CTTCCCGATTAATGGCTCTTCGGAG
1 CTTCCCGATTAATGGCTATCCGGAG
1618959 CT
1 CT
1618961 ACCTGTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.17, C:0.29, G:0.23, T:0.31
Consensus pattern (25 bp):
CTTCCCGATTAATGGCTATCCGGAG
Found at i:1619056 original size:25 final size:25
Alignment explanation
Indices: 1619007--1619069 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
1618997 CTCTTTATGG
* *
1619007 GCTTCTCGTTATACAGCCTAGATAA
1 GCTTCCCGTTATACAGCCGAGATAA
*
1619032 GTTTCCCGTTATACAGCCCGA-ATAA
1 GCTTCCCGTTATACAG-CCGAGATAA
*
1619057 GCTTCTCGTTATA
1 GCTTCCCGTTATA
1619070 TAGCTCACAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 29 0.91
26 3 0.09
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (25 bp):
GCTTCCCGTTATACAGCCGAGATAA
Found at i:1625752 original size:25 final size:25
Alignment explanation
Indices: 1625724--1625772 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1625714 AAAAAAACTT
*
1625724 AAAATA-ATATTACATAATAAAATAA
1 AAAATATATA-TACATAAAAAAATAA
*
1625749 AAAATGTATATACATAAAAAAATA
1 AAAATATATATACATAAAAAAATA
1625773 GGTAGATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAATATATATACATAAAAAAATAA
Found at i:1625828 original size:24 final size:24
Alignment explanation
Indices: 1625796--1625849 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
1625786 ATAAACTAGT
*
1625796 ATAATAACAAT-ATCAATAATATTA
1 ATAATAACAATGATC-ATAATAATA
1625820 ATAATAACAATGATCATAATAATA
1 ATAATAACAATGATCATAATAATA
*
1625844 GTAATA
1 ATAATA
1625850 GTAAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (24 bp):
ATAATAACAATGATCATAATAATA
Found at i:1626931 original size:50 final size:50
Alignment explanation
Indices: 1626869--1627470 Score: 547
Period size: 50 Copynumber: 12.2 Consensus size: 50
1626859 GTGTCTGTAA
* * * * **
1626869 GGAACTAAGATTCGCTTTTGTAGCTTTAATCGGTTCCACTGCACCGCCAT
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGG
* * * * * **
1626919 GGAAGTAAGATTCGCTTTTGTAGCTTTGATCAGTTCCACTGCACCACCAT
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGG
** * * * *
1626969 GGAAGTAAGATTCTTTGTTGTAGCTTTAATCTATTTCAGTGCAACACCGG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGG
* * * * * ** *
1627019 GGAAGTAGGATTCACTGTTGTAGCGTTAATATGTTTCATTGCAATGTCGG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGG
* *
1627069 GGAAGTAAGATTCACTGTTGTAGCTTTAATCTGTTCCACTGCACCGCCGG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGG
* * *
1627119 GGAAATAAGATTCGTTGTTGTAGCTTTAATCTGTTTCACTGC-CATGCCGG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAC-CGCCGG
* * * * ** *
1627169 GGAAGTAAGATTCGCTATTGTAGCTTTAATATATTTCATTGCAATGCCGA
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGG
* * *
1627219 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACCGCAACACCGG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGG
* * * * **
1627269 GGAAGTAAGATTCGCTGTT-TAG---T--T-TGTTCCATTGCACTGTCAA
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGG
* * * *
1627312 TGAAGTAAGATTCGTTGTTGTAGCTTTAATCTGTTTCACTAC-CACACCGG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCAC-CGCCGG
* ** **
1627362 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCAATGCTAG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGG
* * * * ***
1627412 GGAAGTAATATTCACTGTTGTAGCTTCAATCTGTTTCACTGTAATACCGG
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGG
1627462 GGAAGTAAG
1 GGAAGTAAG
1627471 GTTTGTGGCT
Statistics
Matches: 450, Mismatches: 91, Indels: 22
0.80 0.16 0.04
Matches are distributed among these distances:
43 27 0.06
44 4 0.01
46 1 0.00
47 1 0.00
49 6 0.01
50 411 0.91
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (50 bp):
GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTGTTTCACTGCACCGCCGG
Found at i:1627148 original size:150 final size:150
Alignment explanation
Indices: 1626869--1627470 Score: 626
Period size: 150 Copynumber: 4.1 Consensus size: 150
1626859 GTGTCTGTAA
* * ** * * ** **
1626869 GGAACTAAGATTCGCTTTTGTAGCTTTAATCGGTTCCACTGCACCGCCATGGAAGTAAGATTCGC
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATATGTTTCATTGCAATGCCGGGGAAGTAAGATTCGC
* * * * * **
1626934 TTTTGTAGCTTTGATCAGTTCCACTGCACCACCATGGAAGTAAGATTCTTTGTTGTAGCTTTAAT
66 TGTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAAT
* *
1626999 CTATTTCAGTGCAACACCGG
131 CTATTTCACTGCAATACCGG
* * * * *
1627019 GGAAGTAGGATTCACTGTTGTAGCGTTAATATGTTTCATTGCAATGTCGGGGAAGTAAGATTCAC
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATATGTTTCATTGCAATGCCGGGGAAGTAAGATTCGC
* * * * *
1627084 TGTTGTAGCTTTAATCTGTTCCACTGCACCGCCGGGGAAATAAGATTCGTTGTTGTAGCTTTAAT
66 TGTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAAT
* * *
1627149 CTGTTTCACTGCCATGCCGG
131 CTATTTCACTGCAATACCGG
* * *
1627169 GGAAGTAAGATTCGCTATTGTAGCTTTAATATATTTCATTGCAATGCCGAGGAAGTAAGATTCGC
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATATGTTTCATTGCAATGCCGGGGAAGTAAGATTCGC
* * * **
1627234 TGTTGTAGCTTTAATCTGTTTCACCGCAACACCGGGGAAGTAAGATTCGCTGTT-TAG-TTTGTT
66 TGTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAAT
* *
1627297 CCATTGCACTGTCAAT-----
131 CTATTTCACTG-CAATACCGG
* * * * * **
1627313 -GAAGTAAGATTCGTTGTTGTAGCTTTAATCTGTTTCACTACCACACCGGGGAAGTAAGATTCGC
1 GGAAGTAAGATTCGCTGTTGTAGCTTTAATATGTTTCATTGCAATGCCGGGGAAGTAAGATTCGC
** * * * *
1627377 TGTTGTAGCTTTAATCTGTTCCACTGCAATGCTAGGGAAGTAATATTCACTGTTGTAGCTTCAAT
66 TGTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAAT
* *
1627442 CTGTTTCACTGTAATACCGG
131 CTATTTCACTGCAATACCGG
1627462 GGAAGTAAG
1 GGAAGTAAG
1627471 GTTTGTGGCT
Statistics
Matches: 370, Mismatches: 73, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
143 100 0.27
144 6 0.02
145 11 0.03
148 12 0.03
149 6 0.02
150 235 0.64
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (150 bp):
GGAAGTAAGATTCGCTGTTGTAGCTTTAATATGTTTCATTGCAATGCCGGGGAAGTAAGATTCGC
TGTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAGTAAGATTCGCTGTTGTAGCTTTAAT
CTATTTCACTGCAATACCGG
Found at i:1627430 original size:143 final size:143
Alignment explanation
Indices: 1627170--1627430 Score: 360
Period size: 143 Copynumber: 1.8 Consensus size: 143
1627160 CCATGCCGGG
* * **
1627170 GAAGTAAGATTCGCTATTGTAGCTTTAATATATTTCATTGCAATGCCGAGGAAGTAAGATTCGCT
1 GAAGTAAGATTCGCTATTGTAGCTTTAATATATTTCACTACAACACCGAGGAAGTAAGATTCGCT
* * *
1627235 GTTGTAGCTTTAATCTGTTTCACCGCAACACCGGGGAAGTAAGATTCGCTGTTTAGTTTGTTCCA
66 GTTGTAGCTTTAATCTGTTCCACCGCAACACCAGGGAAGTAAGATTCACTGTTTAGTTTGTTCCA
1627300 TTGCACTGTCAAT
131 TTGCACTGTCAAT
* * * * * *
1627313 GAAGTAAGATTCGTTGTTGTAGCTTTAATCTGTTTCACTACCACACCGGGGAAGTAAGATTCGCT
1 GAAGTAAGATTCGCTATTGTAGCTTTAATATATTTCACTACAACACCGAGGAAGTAAGATTCGCT
* ** * *
1627378 GTTGTAGCTTTAATCTGTTCCACTGCAATGCTAGGGAAGTAATATTCACTGTT
66 GTTGTAGCTTTAATCTGTTCCACCGCAACACCAGGGAAGTAAGATTCACTGTT
1627431 GTAGCTTCAA
Statistics
Matches: 100, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
143 100 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (143 bp):
GAAGTAAGATTCGCTATTGTAGCTTTAATATATTTCACTACAACACCGAGGAAGTAAGATTCGCT
GTTGTAGCTTTAATCTGTTCCACCGCAACACCAGGGAAGTAAGATTCACTGTTTAGTTTGTTCCA
TTGCACTGTCAAT
Found at i:1634832 original size:24 final size:24
Alignment explanation
Indices: 1634800--1634853 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
1634790 ATAAACTAGT
*
1634800 ATAATAACAAT-ATCAATAATATTA
1 ATAATAACAATGATC-ATAATAATA
1634824 ATAATAACAATGATCATAATAATA
1 ATAATAACAATGATCATAATAATA
*
1634848 GTAATA
1 ATAATA
1634854 GTAAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (24 bp):
ATAATAACAATGATCATAATAATA
Found at i:1636467 original size:38 final size:38
Alignment explanation
Indices: 1636400--1636556 Score: 208
Period size: 38 Copynumber: 4.2 Consensus size: 38
1636390 AGTCCCGTTA
*
1636400 AACACCGGCACGAA-GCCTGCTAGGCACATAGCCCGAT
1 AACACCGGCACGAAGGCCTGCTAGGCACATAGCCCAAT
* * *
1636437 AACACCGGCATGAAGGCTTGCTAGGTACATAGCCCAAT
1 AACACCGGCACGAAGGCCTGCTAGGCACATAGCCCAAT
* * *
1636475 AACACCGGCACGAAGGCTTGCTAGGCACATAGCCTAAA
1 AACACCGGCACGAAGGCCTGCTAGGCACATAGCCCAAT
* * * *
1636513 AACACCGGCACAAAGGCCTACTAGGCATATAGCCCGAT
1 AACACCGGCACGAAGGCCTGCTAGGCACATAGCCCAAT
1636551 AACACC
1 AACACC
1636557 TTATAGACAA
Statistics
Matches: 104, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
37 13 0.12
38 91 0.88
ACGTcount: A:0.33, C:0.31, G:0.22, T:0.13
Consensus pattern (38 bp):
AACACCGGCACGAAGGCCTGCTAGGCACATAGCCCAAT
Found at i:1643552 original size:13 final size:13
Alignment explanation
Indices: 1643534--1643560 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1643524 AAACAACCAT
1643534 AAATAATCAATTA
1 AAATAATCAATTA
1643547 AAATAATCAATTA
1 AAATAATCAATTA
1643560 A
1 A
1643561 GCTACTAATT
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:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAATCAATTA
Found at i:1651276 original size:17 final size:17
Alignment explanation
Indices: 1651246--1651279 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1651236 TAAGAGGAAT
* *
1651246 AAAAATAAATAAATAAC
1 AAAAAGAAAAAAATAAC
1651263 AAAAAGAAAAAAATAAC
1 AAAAAGAAAAAAATAAC
1651280 GATAAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (17 bp):
AAAAAGAAAAAAATAAC
Found at i:1652532 original size:19 final size:19
Alignment explanation
Indices: 1652504--1652549 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
1652494 GTATGGGTTT
* *
1652504 ATACAATTCGTGTGCCAAG
1 ATACACTTCGTATGCCAAG
*
1652523 ATACACTTCGTATGCCAAT
1 ATACACTTCGTATGCCAAG
1652542 ATACACTT
1 ATACACTT
1652550 TATGTGCCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (19 bp):
ATACACTTCGTATGCCAAG
Found at i:1652557 original size:19 final size:19
Alignment explanation
Indices: 1652504--1652558 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 19
1652494 GTATGGGTTT
* *
1652504 ATACAATTCGTGTGCCAAG
1 ATACACTTCATGTGCCAAG
* * *
1652523 ATACACTTCGTATGCCAAT
1 ATACACTTCATGTGCCAAG
*
1652542 ATACACTTTATGTGCCA
1 ATACACTTCATGTGCCA
1652559 GTTTATTTGC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (19 bp):
ATACACTTCATGTGCCAAG
Found at i:1652790 original size:22 final size:22
Alignment explanation
Indices: 1652762--1652806 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1652752 AAACAGTTGG
1652762 ATCTCTCCAACCCTTTATACAA
1 ATCTCTCCAACCCTTTATACAA
1652784 ATCTCTCCAACCCTTTATACAA
1 ATCTCTCCAACCCTTTATACAA
1652806 A
1 A
1652807 ACAATCTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (22 bp):
ATCTCTCCAACCCTTTATACAA
Found at i:1658847 original size:42 final size:41
Alignment explanation
Indices: 1658732--1658849 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 41
1658722 AAAAAGCTCG
* *
1658732 TACGATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAA
1 TACGATGCCAATGTCCCAGACATGGTCTTACA-CAAATCAAA
* * * * * *
1658774 TAAC-AGTGTCACTATCCCAAACAAGGTCTTACACATAATCATA
1 T-ACGA-TGCCAATGTCCCAGACATGGTCTTACACA-AATCAAA
1658817 TACGATGCCAATGTCCCAGACATGGTCTTACAC
1 TACGATGCCAATGTCCCAGACATGGTCTTACAC
1658850 GTAAATCACA
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
42 28 0.47
43 31 0.53
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (41 bp):
TACGATGCCAATGTCCCAGACATGGTCTTACACAAATCAAA
Found at i:1666005 original size:47 final size:45
Alignment explanation
Indices: 1665954--1666045 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 45
1665944 ATATCTGATA
1665954 TATTTGGACAATCACTATAATTAATTGGTTTTGATGTAATTATAT
1 TATTTGGACAATCACTATAATTAATTGGTTTTGATGTAATTATAT
**
1665999 NNTATTTGGACAATCACTATAATTAATTTTTTTTGATGTAATTATAT
1 --TATTTGGACAATCACTATAATTAATTGGTTTTGATGTAATTATAT
1666046 ATATATATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.48
Consensus pattern (45 bp):
TATTTGGACAATCACTATAATTAATTGGTTTTGATGTAATTATAT
Found at i:1666046 original size:2 final size:2
Alignment explanation
Indices: 1666041--1666075 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1666031 TTGATGTAAT
1666041 TA TA 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 TA TA T
1666076 GGCATGTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1666206 original size:21 final size:20
Alignment explanation
Indices: 1666159--1666199 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
1666149 TTGGAAGATG
*
1666159 AAAATTAAAATAATTACACA
1 AAAATTAAAATAATCACACA
1666179 AATAATTATAAATAATCACAC
1 AA-AATTA-AAATAATCACAC
1666200 TCAAATTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 5 0.28
22 11 0.61
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAATTAAAATAATCACACA
Found at i:1666467 original size:45 final size:45
Alignment explanation
Indices: 1666407--1666492 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
1666397 CACTGTCTAA
* *
1666407 TTAACTAAATTACATATTATATACTATAAATTATTTATACTAAAT
1 TTAACTAAATCACATAGTATATACTATAAATTATTTATACTAAAT
* * * * *
1666452 TTAAGTAAATCACATAGTATTTATTGTTAATTATTTATACT
1 TTAACTAAATCACATAGTATATACTATAAATTATTTATACT
1666493 CGGTGGAAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (45 bp):
TTAACTAAATCACATAGTATATACTATAAATTATTTATACTAAAT
Found at i:1694629 original size:51 final size:51
Alignment explanation
Indices: 1694553--1694720 Score: 329
Period size: 51 Copynumber: 3.3 Consensus size: 51
1694543 TTCATTTATT
1694553 CAATTTAGTCCCTAATGTTACAAAGTTAACTAACAAGCTTAACTAACTTTA
1 CAATTTAGTCCCTAATGTTACAAAGTTAACTAACAAGCTTAACTAACTTTA
1694604 CAATTTAGTCCCTAATGTTACAAAGTTAACTAACAAGCTTAACTAACTTTA
1 CAATTTAGTCCCTAATGTTACAAAGTTAACTAACAAGCTTAACTAACTTTA
1694655 CAATTTAGTCCCTAATGTTACAAAGTTAACTAACAAGCTTAACTAACTTTA
1 CAATTTAGTCCCTAATGTTACAAAGTTAACTAACAAGCTTAACTAACTTTA
1694706 CAATTTAGT-CCTAAT
1 CAATTTAGTCCCTAAT
1694721 CATGATCTAA
Statistics
Matches: 117, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
50 6 0.05
51 111 0.95
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.34
Consensus pattern (51 bp):
CAATTTAGTCCCTAATGTTACAAAGTTAACTAACAAGCTTAACTAACTTTA
Found at i:1696838 original size:21 final size:21
Alignment explanation
Indices: 1696798--1696908 Score: 75
Period size: 21 Copynumber: 5.3 Consensus size: 21
1696788 CACGGGCTAC
1696798 TCACA-AGGC-TGTGTAACTCTA
1 TCACACAGGCATGTGT--CTCTA
1696819 TCACACAGGCATGTGTCTCTA
1 TCACACAGGCATGTGTCTCTA
* * * *
1696840 CCACAC-GGCCGTGTGCCTCTT
1 TCACACAGG-CATGTGTCTCTA
* * **
1696861 TCACACGGGTATGTCACTCTA
1 TCACACAGGCATGTGTCTCTA
* *
1696882 TCATACAGGCGTGTGTCTCTA
1 TCACACAGGCATGTGTCTCTA
*
1696903 CCACAC
1 TCACAC
1696909 GGCCGTGTGC
Statistics
Matches: 68, Mismatches: 18, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
20 2 0.03
21 55 0.81
22 6 0.09
23 5 0.07
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.27
Consensus pattern (21 bp):
TCACACAGGCATGTGTCTCTA
Found at i:1696897 original size:63 final size:63
Alignment explanation
Indices: 1696813--1696950 Score: 240
Period size: 63 Copynumber: 2.2 Consensus size: 63
1696803 AGGCTGTGTA
1696813 ACTCTATCACACAGGCATGTGTCTCTACCACACGGCCGTGTGCCTCTTTCACACGGGTATGTC
1 ACTCTATCACACAGGCATGTGTCTCTACCACACGGCCGTGTGCCTCTTTCACACGGGTATGTC
* *
1696876 ACTCTATCATACAGGCGTGTGTCTCTACCACACGGCCGTGTGCCTCTTTCACACGGGTATGTC
1 ACTCTATCACACAGGCATGTGTCTCTACCACACGGCCGTGTGCCTCTTTCACACGGGTATGTC
* *
1696939 ACTTTTTCACAC
1 ACTCTATCACAC
1696951 GACCGTGTAG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 70 1.00
ACGTcount: A:0.19, C:0.33, G:0.20, T:0.29
Consensus pattern (63 bp):
ACTCTATCACACAGGCATGTGTCTCTACCACACGGCCGTGTGCCTCTTTCACACGGGTATGTC
Found at i:1696915 original size:21 final size:20
Alignment explanation
Indices: 1696814--1696931 Score: 94
Period size: 21 Copynumber: 5.7 Consensus size: 20
1696804 GGCTGTGTAA
*
1696814 CTCTATCACACAGGCATGTGT
1 CTCTATCACAC-GGCGTGTGT
* *
1696835 CTCTACCACACGGCCGTGTGC
1 CTCTATCACACGG-CGTGTGT
* *
1696856 CTCTTTCACACGG-GTATGT
1 CTCTATCACACGGCGTGTGT
*
1696875 CACTCTATCATACAGGCGTGTGT
1 --CTCTATCACAC-GGCGTGTGT
* *
1696898 CTCTACCACACGGCCGTGTGC
1 CTCTATCACACGG-CGTGTGT
*
1696919 CTCTTTCACACGG
1 CTCTATCACACGG
1696932 GTATGTCACT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
19 4 0.05
20 4 0.05
21 61 0.80
22 2 0.03
23 5 0.07
ACGTcount: A:0.18, C:0.34, G:0.21, T:0.27
Consensus pattern (20 bp):
CTCTATCACACGGCGTGTGT
Found at i:1697495 original size:7 final size:8
Alignment explanation
Indices: 1697483--1697547 Score: 93
Period size: 7 Copynumber: 8.5 Consensus size: 8
1697473 ATCAATATTG
1697483 CCCT-AAA
1 CCCTAAAA
1697490 CCCTAAAA
1 CCCTAAAA
1697498 CCCT-AAA
1 CCCTAAAA
1697505 CCCT-AAA
1 CCCTAAAA
1697512 CCCTAAAA
1 CCCTAAAA
1697520 CCCTAAAAA
1 CCCT-AAAA
1697529 CCCTAAAA
1 CCCTAAAA
1697537 CCCT-AAA
1 CCCTAAAA
1697544 CCCT
1 CCCT
1697548 TAACTATTTC
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
7 25 0.45
8 22 0.40
9 8 0.15
ACGTcount: A:0.45, C:0.42, G:0.00, T:0.14
Consensus pattern (8 bp):
CCCTAAAA
Found at i:1697503 original size:15 final size:15
Alignment explanation
Indices: 1697483--1697547 Score: 89
Period size: 15 Copynumber: 4.3 Consensus size: 15
1697473 ATCAATATTG
1697483 CCCTAAACCCTAAAA
1 CCCTAAACCCTAAAA
1697498 CCCTAAACCCT-AAA
1 CCCTAAACCCTAAAA
1697512 CCCTAAAACCCTAAAAA
1 CCCT-AAACCCT-AAAA
1697529 CCCTAAAACCCT-AAA
1 CCCT-AAACCCTAAAA
1697544 CCCT
1 CCCT
1697548 TAACTATTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.15
15 25 0.53
17 15 0.32
ACGTcount: A:0.45, C:0.42, G:0.00, T:0.14
Consensus pattern (15 bp):
CCCTAAACCCTAAAA
Found at i:1697877 original size:24 final size:24
Alignment explanation
Indices: 1697850--1697897 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
1697840 GTACAGAGTG
1697850 TATAGGGACTTAAAGCATATTTTA
1 TATAGGGACTTAAAGCATATTTTA
*
1697874 TATAGGGACTTAGAGCATATTTTA
1 TATAGGGACTTAAAGCATATTTTA
1697898 ACTTTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (24 bp):
TATAGGGACTTAAAGCATATTTTA
Found at i:1699341 original size:20 final size:20
Alignment explanation
Indices: 1699295--1699342 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1699285 ATCTAGTTTA
*
1699295 ATTAAATAAATTATTAAAAAT
1 ATTAAA-AAATTAATAAAAAT
* *
1699316 AATAAAAAATTAATAAAAGT
1 ATTAAAAAATTAATAAAAAT
1699336 ATTAAAA
1 ATTAAAA
1699343 TAGGGAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
ATTAAAAAATTAATAAAAAT
Found at i:1700388 original size:218 final size:219
Alignment explanation
Indices: 1699994--1700436 Score: 872
Period size: 218 Copynumber: 2.0 Consensus size: 219
1699984 TTTCTAAAAA
1699994 TTTTG-AAACACATAGTTGAAACTTGCAAGAAGTTGATATTTACAAAATAGAGTTGAGCATTGAA
1 TTTTGCAAACACATAGTTGAAACTTGCAAGAAGTTGATATTTACAAAATAGAGTTGAGCATTGAA
1700058 AGGCGCAGTGCTACGAGCAATGGCCACTAAGTTTTGCATTGCGAGAAATTAAAGATGGACACAAT
66 AGGCGCAGTGCTACGAGCAATGGCCACTAAGTTTTGCATTGCGAGAAATTAAAGATGGACACAAT
1700123 GCAATTGTTTACGTAGTTTGGTTTTTCTATCTTTTAACCTCGTAAACAAGTGATTTCATTCCTAA
131 GCAATTGTTTACGTAGTTTGGTTTTTCTATCTTTTAACCTCGTAAACAAGTGATTTCATTCCTAA
1700188 AACACATTGGTTTAACAACCTCAC
196 AACACATTGGTTTAACAACCTCAC
1700212 TTTTGCAAACACATAG-TGAAACTTGCAAGAAGTTGATATTTACAAAATAGAGTTGAGCATTGAA
1 TTTTGCAAACACATAGTTGAAACTTGCAAGAAGTTGATATTTACAAAATAGAGTTGAGCATTGAA
1700276 AGGCGCAGTGCTACGAGCAATGGCCACTAAGTTTTGCATTGCGAGAAATTAAAGATGGACACAAT
66 AGGCGCAGTGCTACGAGCAATGGCCACTAAGTTTTGCATTGCGAGAAATTAAAGATGGACACAAT
1700341 GCAATTGTTTACGTAGTTTGGTTTTTCTATCTTTTAACCTCGTAAACAAGTGATTTCATTCCTAA
131 GCAATTGTTTACGTAGTTTGGTTTTTCTATCTTTTAACCTCGTAAACAAGTGATTTCATTCCTAA
1700406 AACACATTGGTTTAACAACCTCAC
196 AACACATTGGTTTAACAACCTCAC
1700430 TTTTGCA
1 TTTTGCA
1700437 CCTAAAGATC
Statistics
Matches: 224, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
218 214 0.96
219 10 0.04
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (219 bp):
TTTTGCAAACACATAGTTGAAACTTGCAAGAAGTTGATATTTACAAAATAGAGTTGAGCATTGAA
AGGCGCAGTGCTACGAGCAATGGCCACTAAGTTTTGCATTGCGAGAAATTAAAGATGGACACAAT
GCAATTGTTTACGTAGTTTGGTTTTTCTATCTTTTAACCTCGTAAACAAGTGATTTCATTCCTAA
AACACATTGGTTTAACAACCTCAC
Found at i:1702410 original size:48 final size:48
Alignment explanation
Indices: 1702336--1702428 Score: 143
Period size: 48 Copynumber: 1.9 Consensus size: 48
1702326 TGCTATGCAA
* * *
1702336 TGCTAAACTTGGTTTTCCACTTTCTACACTTTTATC-CATATTTATCTT
1 TGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCAC-TATTTATCTT
1702384 TGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTAT
1 TGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTAT
1702429 TCCCTCTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 40 0.98
49 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.08, T:0.46
Consensus pattern (48 bp):
TGCTAAACTTGGTCTTCCACTGTCTACACTCTTATCACTATTTATCTT
Found at i:1703849 original size:18 final size:19
Alignment explanation
Indices: 1703807--1703854 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
1703797 GATTCATATC
* *
1703807 TCATTTCATCATTTCATATT
1 TCATTTC-TCATCTCATAGT
1703827 TCATTTCTCATCTCAT-GT
1 TCATTTCTCATCTCATAGT
1703845 TCATTTCTCA
1 TCATTTCTCA
1703855 ACTTTTCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 11 0.42
19 8 0.31
20 7 0.27
ACGTcount: A:0.21, C:0.25, G:0.02, T:0.52
Consensus pattern (19 bp):
TCATTTCTCATCTCATAGT
Found at i:1704743 original size:40 final size:40
Alignment explanation
Indices: 1704688--1704779 Score: 166
Period size: 40 Copynumber: 2.3 Consensus size: 40
1704678 TTAAATTTTA
* *
1704688 ACAATTTAGTCCATATTGCTCAAAATTAACAATTAATTCC
1 ACAATTTAGTCCATATTACTCAAAATAAACAATTAATTCC
1704728 ACAATTTAGTCCATATTACTCAAAATAAACAATTAATTCC
1 ACAATTTAGTCCATATTACTCAAAATAAACAATTAATTCC
1704768 ACAATTTAGTCC
1 ACAATTTAGTCC
1704780 TTTTCTACTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (40 bp):
ACAATTTAGTCCATATTACTCAAAATAAACAATTAATTCC
Found at i:1705531 original size:17 final size:17
Alignment explanation
Indices: 1705509--1705541 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1705499 TTTAAATAAA
*
1705509 TAAATATTTTTCTCAAT
1 TAAATAATTTTCTCAAT
1705526 TAAATAATTTTCTCAA
1 TAAATAATTTTCTCAA
1705542 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATAATTTTCTCAAT
Found at i:1715520 original size:45 final size:45
Alignment explanation
Indices: 1715453--1715555 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
1715443 GTTGAAAAAC
1715453 GCTATGGCATCATAATAAAAATGAGTAAGA-CCATGGCTGAAAGAT
1 GCTATGGCATCATAATAAAAATGAGTAAGATCC-TGGCTGAAAGAT
** * * *
1715498 GCTATGGTGTCATGATATAAATGAGTAAGATCCTGGTTGAAAGAT
1 GCTATGGCATCATAATAAAAATGAGTAAGATCCTGGCTGAAAGAT
*
1715543 AGC-ATGACATCAT
1 -GCTATGGCATCAT
1715556 GGAAAGAAGA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
45 44 0.92
46 4 0.08
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (45 bp):
GCTATGGCATCATAATAAAAATGAGTAAGATCCTGGCTGAAAGAT
Found at i:1722011 original size:16 final size:18
Alignment explanation
Indices: 1721987--1722027 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1721977 AACAGCATAA
*
1721987 AAATTAAAT-AAATT-GG
1 AAATAAAATAAAATTGGG
1722003 AAATAAAATAAAATTGGG
1 AAATAAAATAAAATTGGG
1722021 AAATAAA
1 AAATAAA
1722028 TTTGTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 5 0.23
18 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.24
Consensus pattern (18 bp):
AAATAAAATAAAATTGGG
Found at i:1726548 original size:25 final size:25
Alignment explanation
Indices: 1726520--1726567 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
1726510 TGGGCTTGTG
1726520 GGGTGTTGGGTATTGGATTTATTTT
1 GGGTGTTGGGTATTGGATTTATTTT
*
1726545 GGGTGTTGGGTATTGGGTTTATT
1 GGGTGTTGGGTATTGGATTTATT
1726568 GTGTGGCTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.40, T:0.50
Consensus pattern (25 bp):
GGGTGTTGGGTATTGGATTTATTTT
Found at i:1732391 original size:17 final size:18
Alignment explanation
Indices: 1732369--1732404 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1732359 AAAAATTAAA
1732369 TAAATTG-GAAATAAATT
1 TAAATTGCGAAATAAATT
1732386 TAAATTGCGAAATAAATT
1 TAAATTGCGAAATAAATT
1732404 T
1 T
1732405 GTATTTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (18 bp):
TAAATTGCGAAATAAATT
Found at i:1734256 original size:40 final size:38
Alignment explanation
Indices: 1734194--1734284 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 38
1734184 ATCGCCAGAT
1734194 CAACCGAACACACCAGAAAGAAGCTCACAAGAGCTAATC
1 CAACCGAA-ACACCAGAAAGAAGCTCACAAGAGCTAATC
* *
1734233 CAACCGAAACACGCTAGACAGAAGCTCATAAGAGCTAATC
1 CAACCGAAACAC-C-AGAAAGAAGCTCACAAGAGCTAATC
* *
1734273 TAATCGAAACAC
1 CAACCGAAACAC
1734285 AACAGATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
38 4 0.09
39 9 0.20
40 33 0.72
ACGTcount: A:0.45, C:0.29, G:0.15, T:0.11
Consensus pattern (38 bp):
CAACCGAAACACCAGAAAGAAGCTCACAAGAGCTAATC
Found at i:1742604 original size:76 final size:77
Alignment explanation
Indices: 1742512--1742657 Score: 240
Period size: 77 Copynumber: 1.9 Consensus size: 77
1742502 TTTTTCTTGG
* * *
1742512 TTTAGGAATTACTTAATTCCTTAAA-ACTCTTTAAGGTTTTAAGTAACCTTTAATAAATTAAGTA
1 TTTAAGAATTACTTAATTCCTTAAACACACTTTAAGGTTTTAAGTAACCCTTAATAAATTAAGTA
1742576 TTTTTCCCGTGA
66 TTTTTCCCGTGA
* *
1742588 TTTAAGAATTACTTAATTTCTTAAACACACTTTAAGGTTTTAAGTAACCCTTCATAAATTAAGTA
1 TTTAAGAATTACTTAATTCCTTAAACACACTTTAAGGTTTTAAGTAACCCTTAATAAATTAAGTA
1742653 TTTTT
66 TTTTT
1742658 TTTTCCTGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
76 23 0.36
77 41 0.64
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (77 bp):
TTTAAGAATTACTTAATTCCTTAAACACACTTTAAGGTTTTAAGTAACCCTTAATAAATTAAGTA
TTTTTCCCGTGA
Found at i:1742635 original size:77 final size:76
Alignment explanation
Indices: 1742512--1742719 Score: 249
Period size: 79 Copynumber: 2.7 Consensus size: 76
1742502 TTTTTCTTGG
* * *
1742512 TTTAGGAATTACTTAATTCCTTAAAACTCTTTAAGGTTTTAAGTAACCTTTAATAAATTAAGTA-
1 TTTAAGAATTACTTAATTTCTTAAAACACTTTAAGGTTTTAAGTAACCTTTAATAAATTAAGTAT
1742576 TTTTTCCCGTGA
66 TTTTTCCC-TGA
* *
1742588 TTTAAGAATTACTTAATTTCTTAAACACACTTTAAGGTTTTAAGTAACCCTTCATAAATTAAGTA
1 TTTAAGAATTACTTAATTTCTTAAA-ACACTTTAAGGTTTTAAGTAACCTTTAATAAATTAAGTA
*
1742653 TTTTTTTTTCCTGA
65 --TTTTTTCCCTGA
* * * * *
1742667 TGT-AGAAATTACTTAATTTCTTAAAGATATTTTAAGGTTTAAAGCAACCTTTA
1 TTTAAG-AATTACTTAATTTCTTAAA-ACACTTTAAGGTTTTAAGTAACCTTTA
1742720 TGTAATTTTC
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
76 23 0.20
77 36 0.32
78 2 0.02
79 45 0.40
80 7 0.06
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (76 bp):
TTTAAGAATTACTTAATTTCTTAAAACACTTTAAGGTTTTAAGTAACCTTTAATAAATTAAGTAT
TTTTTCCCTGA
Found at i:1743665 original size:16 final size:16
Alignment explanation
Indices: 1743641--1743678 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1743631 TTTGGTTCGC
* *
1743641 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
1743657 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
1743673 TGTAAT
1 TGTAAT
1743679 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:1743762 original size:39 final size:43
Alignment explanation
Indices: 1743657--1743766 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
1743647 GGATTAGAGG
1743657 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
1743702 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
1743742 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
1743767 TAATGNNNNN
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:1747333 original size:76 final size:77
Alignment explanation
Indices: 1747212--1747391 Score: 188
Period size: 76 Copynumber: 2.4 Consensus size: 77
1747202 TAGTTTTCTC
** * **
1747212 ATGATTTAAAAATTACTTAATTTCTTAAACATCAGATAAGATTTTAAGTAAGGTTAAAG-AGTTA
1 ATGATTTAGGAATTACTTAATTTCTTAAACACCAGATAAGATTTTAAGTAACATTAAAGAAGTTA
1747276 AGTAACTATCCA
66 AGTAACTATCCA
* * * * *
1747288 AT-ATTGTATGAGATT-CTTAATTTCTTAAAGACCA-ATTACGGTTTTAAGTAACATTAAAGAAT
1 ATGATT-TAGGA-ATTACTTAATTTCTTAAACACCAGA-TAAGATTTTAAGTAACATTAAAGAAG
* *
1747350 TTAAGTAATTTTCCA
63 TTAAGTAACTATCCA
*
1747365 TTGATTTAGGAATTACTTAATTTCTTA
1 ATGATTTAGGAATTACTTAATTTCTTA
1747392 GAAAAAAAAT
Statistics
Matches: 85, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
75 4 0.05
76 44 0.52
77 34 0.40
78 3 0.04
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (77 bp):
ATGATTTAGGAATTACTTAATTTCTTAAACACCAGATAAGATTTTAAGTAACATTAAAGAAGTTA
AGTAACTATCCA
Found at i:1749492 original size:24 final size:23
Alignment explanation
Indices: 1749456--1749503 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
1749446 AGTTGGTGTC
1749456 ATTTTTTTACAATATTAGAGATA
1 ATTTTTTTACAATATTAGAGATA
* *
1749479 ATTTTTTATGCAATATTAGGGATA
1 ATTTTTT-TACAATATTAGAGATA
1749503 A
1 A
1749504 GAGATATGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (23 bp):
ATTTTTTTACAATATTAGAGATA
Found at i:1754018 original size:7 final size:7
Alignment explanation
Indices: 1754006--1754031 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1753996 ATGTCTAATT
1754006 ATATATA
1 ATATATA
1754013 ATATATA
1 ATATATA
1754020 ATATATA
1 ATATATA
1754027 ATATA
1 ATATA
1754032 AAAGAAGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATATATA
Found at i:1755649 original size:21 final size:21
Alignment explanation
Indices: 1755625--1755665 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1755615 ATAATAAGTA
1755625 TATTAATATAAAAT-TATAAAC
1 TATTAA-ATAAAATATATAAAC
*
1755646 TATTAAATATAATATATAAA
1 TATTAAATAAAATATATAAA
1755666 TTTATACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TATTAAATAAAATATATAAAC
Found at i:1755990 original size:21 final size:21
Alignment explanation
Indices: 1755948--1755995 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1755938 TTTAAAATCC
1755948 AAATTTCAAAAATATAATATA
1 AAATTTCAAAAATATAATATA
*
1755969 AAATTATCATAAATATAA-ATA
1 AAATT-TCAAAAATATAATATA
*
1755990 ATATTT
1 AAATTT
1755996 ATCGTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 12 0.50
22 11 0.46
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATTTCAAAAATATAATATA
Found at i:1756005 original size:21 final size:22
Alignment explanation
Indices: 1755948--1755990 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1755938 TTTAAAATCC
*
1755948 AAATT-TCAAAAATATAATATA
1 AAATTATCATAAATATAATATA
1755969 AAATTATCATAAATATAA-ATA
1 AAATTATCATAAATATAATATA
1755990 A
1 A
1755991 TATTTATCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATTATCATAAATATAATATA
Found at i:1760917 original size:18 final size:18
Alignment explanation
Indices: 1760873--1760918 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
1760863 TATTCGGAAA
* *
1760873 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
1760891 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
1760909 AGGAAACATA
1 AGGATACATA
1760919 CCTGGCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:1761573 original size:7 final size:7
Alignment explanation
Indices: 1761563--1761587 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1761553 TTATATACAT
1761563 AATACTA
1 AATACTA
1761570 AATACTA
1 AATACTA
1761577 AATACTA
1 AATACTA
1761584 AATA
1 AATA
1761588 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:1763722 original size:2 final size:2
Alignment explanation
Indices: 1763715--1763747 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1763705 ACGCAACATA
*
1763715 AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1763748 ACAAGGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 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):
AT
Found at i:1763995 original size:232 final size:233
Alignment explanation
Indices: 1763740--1764205 Score: 916
Period size: 232 Copynumber: 2.0 Consensus size: 233
1763730 TATATATATA
1763740 TATATATAACAAGGTTTTGGTGCAATTCTTGACCACTGCATAGCTTAGCAGTTGTCACTAACAAT
1 TATATATAAC-AGGTTTTGGTGCAATTCTTGACCACTGCATAGCTTAGCAGTTGTCACTAACAAT
1763805 GAGCTCACACATCATCAATTTTTAAAACAAGTTAATGTATACAGCTATTGAATTTCCATGTCAAG
65 GAGCTCACACATCATCAATTTTTAAAACAAGTTAATGTATACAGCTATTGAATTTCCATGTCAAG
1763870 AAATTTATGTTTAGATGTATAATTTTGCATAGATAATTCATATTTAATTTTTAGTAATTCCGATT
130 AAATTTATGTTTAGATGTATAATTTTGCATAGATAATTCATATTTAATTTTTAGTAATTCCGATT
1763935 GCATTAAAAAGTCAGCACCAAATAATTTCCAAATACTTC
195 GCATTAAAAAGTCAGCACCAAATAATTTCCAAATACTTC
1763974 TATATATAAC-GGTTTTGGTGCAATTCTTGACCACTGCATAGCTTAGCAGTTGTCACTAACAATG
1 TATATATAACAGGTTTTGGTGCAATTCTTGACCACTGCATAGCTTAGCAGTTGTCACTAACAATG
1764038 AGCTCACACATCATCAATTTTTAAAACAAGTTAATGTATACAGCTATTGAATTTCCATGTCAAGA
66 AGCTCACACATCATCAATTTTTAAAACAAGTTAATGTATACAGCTATTGAATTTCCATGTCAAGA
1764103 AATTTATGTTTAGATGTATAATTTTGCATAGATAATTCATATTTAATTTTTAGTAATTCCGATTG
131 AATTTATGTTTAGATGTATAATTTTGCATAGATAATTCATATTTAATTTTTAGTAATTCCGATTG
1764168 CATTAAAAAGTCAGCACCAAATAATTTCCAAATACTTC
196 CATTAAAAAGTCAGCACCAAATAATTTCCAAATACTTC
1764206 AATTTTTGAA
Statistics
Matches: 232, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
232 222 0.96
234 10 0.04
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.36
Consensus pattern (233 bp):
TATATATAACAGGTTTTGGTGCAATTCTTGACCACTGCATAGCTTAGCAGTTGTCACTAACAATG
AGCTCACACATCATCAATTTTTAAAACAAGTTAATGTATACAGCTATTGAATTTCCATGTCAAGA
AATTTATGTTTAGATGTATAATTTTGCATAGATAATTCATATTTAATTTTTAGTAATTCCGATTG
CATTAAAAAGTCAGCACCAAATAATTTCCAAATACTTC
Found at i:1767516 original size:19 final size:21
Alignment explanation
Indices: 1767474--1767517 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
1767464 AATTAATTTT
1767474 TATAGTATTTTAATTTTAAGA
1 TATAGTATTTTAATTTTAAGA
*
1767495 TATA-TATTTTATTTTTAA-A
1 TATAGTATTTTAATTTTAAGA
1767514 TATA
1 TATA
1767518 ATTATATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 13 0.59
21 4 0.18
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TATAGTATTTTAATTTTAAGA
Found at i:1767659 original size:24 final size:23
Alignment explanation
Indices: 1767614--1767684 Score: 97
Period size: 23 Copynumber: 3.0 Consensus size: 23
1767604 AATTACATAG
1767614 TATTTATTATAAATTATTTATAC
1 TATTTATTATAAATTATTTATAC
* * *
1767637 TATTTTTTATGAAATTATATATAT
1 TATTTATTAT-AAATTATTTATAC
*
1767661 TATTTATTATTAATTATTTATAC
1 TATTTATTATAAATTATTTATAC
1767684 T
1 T
1767685 TGATTAAGGA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 20 0.50
24 20 0.50
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (23 bp):
TATTTATTATAAATTATTTATAC
Found at i:1771557 original size:39 final size:38
Alignment explanation
Indices: 1771432--1771557 Score: 119
Period size: 40 Copynumber: 3.2 Consensus size: 38
1771422 AAAAACACTA
* *
1771432 CTAAAAATCAAGCATTAGCGGCGCTTTTACAAAATCGCCG
1 CTAAAAATCAAGCATTAGTGGCG-TTTT-CAAAAACGCCG
* * * * *
1771472 CTAAAGATCGAGCATTAGTGGCACATTTTTAAAAACACCG
1 CTAAAAATCAAGCATTAGTGG--CGTTTTCAAAAACGCCG
1771512 CTAAAAAT-AAGCATTAGTGGCGTTTTCCAAAAAGCGCCG
1 CTAAAAATCAAGCATTAGTGGCGTTTT-CAAAAA-CGCCG
*
1771551 CAAAAAA
1 CTAAAAA
1771558 CCTATGCCCA
Statistics
Matches: 69, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
37 5 0.07
38 5 0.07
39 21 0.30
40 33 0.48
41 4 0.06
42 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.22
Consensus pattern (38 bp):
CTAAAAATCAAGCATTAGTGGCGTTTTCAAAAACGCCG
Found at i:1771654 original size:41 final size:41
Alignment explanation
Indices: 1771597--1771867 Score: 373
Period size: 41 Copynumber: 6.6 Consensus size: 41
1771587 TTTTGGGGTA
* *
1771597 TTTAGCCGCGTTTTTTCAGAAGCGCCGCTAATGCTCAGGCC
1 TTTAGCGGCGTTTTTTCAGAAGCGCCGCTAATGCTCGGGCC
* *
1771638 TTTAGCGGCGTTTTTTCAGAAGCGCCGCTAATGGTTGGGCC
1 TTTAGCGGCGTTTTTTCAGAAGCGCCGCTAATGCTCGGGCC
* * * **
1771679 TTTAGCGGCTTTTTTTCAGAAGCACCACTAATGCTCTAGCC
1 TTTAGCGGCGTTTTTTCAGAAGCGCCGCTAATGCTCGGGCC
* *
1771720 TTTAGCGGCG-TTTTTCAGAAGCGCTGCTAATGCTTGGGCC
1 TTTAGCGGCGTTTTTTCAGAAGCGCCGCTAATGCTCGGGCC
* *
1771760 TTTAGCGACGTTTTTTCAGAAGCGCTGCTAATGCTCGGGCC
1 TTTAGCGGCGTTTTTTCAGAAGCGCCGCTAATGCTCGGGCC
* * *
1771801 TTTAGCGGCATTTTTTTTAAAAGCGCCGCTAATGCTCGGGCC
1 TTTAGCGGC-GTTTTTTCAGAAGCGCCGCTAATGCTCGGGCC
*
1771843 TTTAGCGGCGTTTTTTCAAAAGCGC
1 TTTAGCGGCGTTTTTTCAGAAGCGC
1771868 TAATGGTGGA
Statistics
Matches: 201, Mismatches: 27, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
40 33 0.16
41 131 0.65
42 37 0.18
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTTCAGAAGCGCCGCTAATGCTCGGGCC
Found at i:1771757 original size:81 final size:80
Alignment explanation
Indices: 1771597--1771867 Score: 362
Period size: 81 Copynumber: 3.3 Consensus size: 80
1771587 TTTTGGGGTA
*
1771597 TTTAGCCGCGTTTTTTCAGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTTCAGAAGCG
1 TTTAGCGGCGTTTTTTCAGAAGCGCCGCTAATGCTCA-GCCTTTAGCGGCG-TTTTTCAGAAGCG
*
1771662 CCGCTAATGGTTGGGCC
64 CCGCTAATGCTTGGGCC
* * *
1771679 TTTAGCGGCTTTTTTTCAGAAGCACCACTAATGCTCTAGCCTTTAGCGGCGTTTTTCAGAAGCGC
1 TTTAGCGGCGTTTTTTCAGAAGCGCCGCTAATGCTC-AGCCTTTAGCGGCGTTTTTCAGAAGCGC
*
1771744 TGCTAATGCTTGGGCC
65 CGCTAATGCTTGGGCC
* * * * * *
1771760 TTTAGCGACGTTTTTTCAGAAGCGCTGCTAATGCTCGGGCCTTTAGCGGCATTTTTTTTAAAAGC
1 TTTAGCGGCGTTTTTTCAGAAGCGCCGCTAATGCTC-AGCCTTTAGCGGC--GTTTTTCAGAAGC
*
1771825 GCCGCTAATGCTCGGGCC
63 GCCGCTAATGCTTGGGCC
*
1771843 TTTAGCGGCGTTTTTTCAAAAGCGC
1 TTTAGCGGCGTTTTTTCAGAAGCGC
1771868 TAATGGTGGA
Statistics
Matches: 166, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
81 71 0.43
82 45 0.27
83 50 0.30
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.32
Consensus pattern (80 bp):
TTTAGCGGCGTTTTTTCAGAAGCGCCGCTAATGCTCAGCCTTTAGCGGCGTTTTTCAGAAGCGCC
GCTAATGCTTGGGCC
Found at i:1771760 original size:122 final size:124
Alignment explanation
Indices: 1771597--1771868 Score: 395
Period size: 122 Copynumber: 2.2 Consensus size: 124
1771587 TTTTGGGGTA
* * *
1771597 TTTAGCCGCGTTTTTTCAGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTTCAGAAGCG
1 TTTAGCGGCGTTTTTTCAGAAGCGCTGCTAATGCTCAGGCCTTTAGCGACGTTTTTTCAGAAGCG
* * * *
1771662 CCGCTAATGGTTGGGCCTTTAGCGGC-TTTTTTTCAGAAGCACCACTAATGCTCTAGCC
66 CCGCTAATGCTCGGGCCTTTAGCGGCATTTTTTTCAAAAGCACCACTAATGCTCGAGCC
**
1771720 TTTAGCGGCG-TTTTTCAGAAGCGCTGCTAATGCTTGGGCCTTTAGCGACGTTTTTTCAGAAGCG
1 TTTAGCGGCGTTTTTTCAGAAGCGCTGCTAATGCTCAGGCCTTTAGCGACGTTTTTTCAGAAGCG
* * * * *
1771784 CTGCTAATGCTCGGGCCTTTAGCGGCATTTTTTTTAAAAGCGCCGCTAATGCTCGGGCC
66 CCGCTAATGCTCGGGCCTTTAGCGGCATTTTTTTCAAAAGCACCACTAATGCTCGAGCC
*
1771843 TTTAGCGGCGTTTTTTCAAAAGCGCT
1 TTTAGCGGCGTTTTTTCAGAAGCGCT
1771869 AATGGTGGAC
Statistics
Matches: 132, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
122 73 0.55
123 45 0.34
124 14 0.11
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (124 bp):
TTTAGCGGCGTTTTTTCAGAAGCGCTGCTAATGCTCAGGCCTTTAGCGACGTTTTTTCAGAAGCG
CCGCTAATGCTCGGGCCTTTAGCGGCATTTTTTTCAAAAGCACCACTAATGCTCGAGCC
Found at i:1775563 original size:5 final size:5
Alignment explanation
Indices: 1775553--1775619 Score: 50
Period size: 5 Copynumber: 13.2 Consensus size: 5
1775543 TTATAATGTT
* * *
1775553 TTTTA TTTTA TTTTA -TGTA -TTTA CATTTC TTTTA TTTTA TTTTA TAATGTT-
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA T--T-TTA
1775604 TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA T
1775620 GTATTTACAT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
4 8 0.16
5 36 0.71
6 3 0.06
7 2 0.04
8 2 0.04
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:1775574 original size:51 final size:51
Alignment explanation
Indices: 1775532--1775632 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 51
1775522 TTCCTTGTTG
1775532 GTTAAATCT-GTTTATAATGTTTTTTATTTTATTTTATGTATTTACATTTC
1 GTTAAATCTAGTTTATAATGTTTTTTATTTTATTTTATGTATTTACATTTC
* * * * *
1775582 TTTTATTTTATTTTATAATGTTTTTTATTTTATTTTATGTATTTACATTTC
1 GTTAAATCTAGTTTATAATGTTTTTTATTTTATTTTATGTATTTACATTTC
1775633 TTTTTTGACT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 5 0.11
51 40 0.89
ACGTcount: A:0.23, C:0.05, G:0.06, T:0.66
Consensus pattern (51 bp):
GTTAAATCTAGTTTATAATGTTTTTTATTTTATTTTATGTATTTACATTTC
Found at i:1777698 original size:43 final size:42
Alignment explanation
Indices: 1777635--1777986 Score: 330
Period size: 43 Copynumber: 8.3 Consensus size: 42
1777625 TTATGACCTT
* * *
1777635 TAGCGGCGTTTATGAGAAAAGCGCTGCTAAAGGCCATGTTCTA
1 TAGCGGCGTTTGTGA-AAAAGCGCCGCTAAAGGTCATGTTCTA
* *
1777678 TAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAGGTTA-GATTCTT
1 TAGCGGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCATG-TTCTA
* * *
1777721 TAGTGGCGTTTGTGAGAAAAGCGTCGCTAAAGGTCTTGTTCTA
1 TAGCGGCGTTTGTGA-AAAAGCGCCGCTAAAGGTCATGTTCTA
* * * * *
1777764 TAGCGGCGTTTGTGGAAAAAGTGCCGTTAAAAGTCATGATCTT
1 TAGCGGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCATGTTCTA
* * * ** * *
1777807 TAGTGGCGTTTTTGGGAGGAGTGCCGCTAAAGGTCTTGTTCTA
1 TAGCGGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCATGTTCTA
* * * * * *
1777850 TAGCAGCGTTTGTGATAAAAGTGTCGCTAAAGGTTATGATCTT
1 TAGCGGCGTTTGTGA-AAAAGCGCCGCTAAAGGTCATGTTCTA
* * *
1777893 TAGCGGCGTTTTTGAGAAAGCGCCGCTAAAGGTCTTGTTCTA
1 TAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCATGTTCTA
* * *
1777935 TA-CGGCGTTTGTGAGAAAGCGCCGCTAAAGATCATGGTCTA
1 TAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCATGTTCTA
*
1777976 TAGTGGCGTTT
1 TAGCGGCGTTT
1777987 ATTTATAAAA
Statistics
Matches: 249, Mismatches: 53, Indels: 15
0.79 0.17 0.05
Matches are distributed among these distances:
41 37 0.15
42 33 0.13
43 174 0.70
44 5 0.02
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (42 bp):
TAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCATGTTCTA
Found at i:1777782 original size:86 final size:85
Alignment explanation
Indices: 1777625--1777964 Score: 434
Period size: 86 Copynumber: 4.0 Consensus size: 85
1777615 TTTTTATTTT
* * * * *
1777625 TTATGACCTTTAGCGGCGTTTATGAGAAAAGCGCTGCTAAAGGCCATGTTCTATAGCGGCGTTTG
1 TTATGATCTTTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCTTGTTCTATAGCGGCGTTTG
1777690 TAGAAAAAGCGCCGCTAAAGG
66 T-GAAAAAGCGCCGCTAAAGG
* * *
1777711 TTA-GATTCTTTAGTGGCGTTTGTGAGAAAAGCGTCGCTAAAGGTCTTGTTCTATAGCGGCGTTT
1 TTATGA-TCTTTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCTTGTTCTATAGCGGCGTTT
* * *
1777775 GTGGAAAAAGTGCCGTTAAAAG
65 GT-GAAAAAGCGCCGCTAAAGG
* * * ** * *
1777797 TCATGATCTTTAGTGGCGTTTTTGGGAGGAGTGCCGCTAAAGGTCTTGTTCTATAGCAGCGTTTG
1 TTATGATCTTTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCTTGTTCTATAGCGGCGTTTG
* *
1777862 TGATAAAAGTGTCGCTAAAGG
66 TGA-AAAAGCGCCGCTAAAGG
1777883 TTATGATCTTTAGCGGCGTTTTTGAG-AAAGCGCCGCTAAAGGTCTTGTTCTATA-CGGCGTTTG
1 TTATGATCTTTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCTTGTTCTATAGCGGCGTTTG
*
1777946 TGAGAAAGCGCCGCTAAAG
66 TGAAAAAGCGCCGCTAAAG
1777965 ATCATGGTCT
Statistics
Matches: 219, Mismatches: 32, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
83 13 0.06
84 11 0.05
85 29 0.13
86 164 0.75
87 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (85 bp):
TTATGATCTTTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGTCTTGTTCTATAGCGGCGTTTG
TGAAAAAGCGCCGCTAAAGG
Found at i:1782117 original size:35 final size:35
Alignment explanation
Indices: 1782072--1782138 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
1782062 AATAGTAATA
1782072 GTAAATATTTGTAAATAAATTACCAGTAATTTATT
1 GTAAATATTTGTAAATAAATTACCAGTAATTTATT
1782107 GTAAATATTTGTAAATAAATTACCAGTAATTT
1 GTAAATATTTGTAAATAAATTACCAGTAATTT
1782139 GCGTTCAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (35 bp):
GTAAATATTTGTAAATAAATTACCAGTAATTTATT
Found at i:1787403 original size:18 final size:17
Alignment explanation
Indices: 1787377--1787412 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1787367 GATTATGGAG
*
1787377 AAAGTAAAAAAAGGAAAA
1 AAAG-AAAAAAAAGAAAA
1787395 AAAGAAAAAAAAGAAAA
1 AAAGAAAAAAAAGAAAA
1787412 A
1 A
1787413 TGAGTAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAGAAAAAAAAGAAAA
Found at i:1791309 original size:27 final size:27
Alignment explanation
Indices: 1791271--1791361 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
1791261 GGAGGGTTTT
* *
1791271 TGATCGGCGGCACCAAAGGTGCCATAC
1 TGATTGGCGGCACCAATGGTGCCATAC
* *
1791298 TGATTGGCGGCACCGATGGTACCA-AC
1 TGATTGGCGGCACCAATGGTGCCATAC
*
1791324 -GAGGTTGGCGGCACCAATGGTGCCATAT
1 TGA--TTGGCGGCACCAATGGTGCCATAC
*
1791352 TGACTGGCGG
1 TGATTGGCGG
1791362 GACTACTCGT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.04
26 2 0.04
27 45 0.87
28 1 0.02
29 2 0.04
ACGTcount: A:0.22, C:0.25, G:0.34, T:0.19
Consensus pattern (27 bp):
TGATTGGCGGCACCAATGGTGCCATAC
Found at i:1791612 original size:3 final size:3
Alignment explanation
Indices: 1791604--1791638 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1791594 TTTTAGTTAG
* *
1791604 TAT TAT TAT TAT TAT TAT TAT TAT TGT TAG TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1791639 AGATGTTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1794139 original size:27 final size:27
Alignment explanation
Indices: 1794108--1794161 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
1794098 ACATTATTTC
*
1794108 AGTGCATAATGTTTGAAATTTATTAAT
1 AGTGCATAATGTTTGAAACTTATTAAT
*
1794135 AGTGCGTAATGTTTGAAACTTATTAAT
1 AGTGCATAATGTTTGAAACTTATTAAT
1794162 TTAGTGTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.43
Consensus pattern (27 bp):
AGTGCATAATGTTTGAAACTTATTAAT
Found at i:1794892 original size:10 final size:10
Alignment explanation
Indices: 1794877--1794961 Score: 68
Period size: 10 Copynumber: 8.3 Consensus size: 10
1794867 CTCTTCTCCA
1794877 TTCCTTTTCT
1 TTCCTTTTCT
*
1794887 TTCCTTCTTTT
1 TTCCTT-TTCT
*
1794898 TTCTTCTTCTCCT
1 TTC--CTT-TTCT
1794911 TTCCTTTTCT
1 TTCCTTTTCT
1794921 TTCCTTCTT-T
1 TTCCTT-TTCT
1794931 TT-C-TTTCT
1 TTCCTTTTCT
* *
1794939 TTCCTCTCCT
1 TTCCTTTTCT
1794949 TTCCTTTTCT
1 TTCCTTTTCT
1794959 TTC
1 TTC
1794962 TTTCTTCTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
7 2 0.03
8 4 0.07
9 2 0.03
10 32 0.53
11 11 0.18
13 9 0.15
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (10 bp):
TTCCTTTTCT
Found at i:1794915 original size:34 final size:34
Alignment explanation
Indices: 1794862--1794967 Score: 142
Period size: 34 Copynumber: 3.0 Consensus size: 34
1794852 CTTTCTTTTC
*
1794862 TTTTTC-TCTTCTCCATTCCTTTTCTTTCCTTCT
1 TTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCT
1794895 TTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTT
1 TTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTC--T
* *
1794931 TTCTTTCTTTCCTCTCCTTTCCTTTTCTTTCTTTCT
1 TT-TTTC-TTCTTCTCCTTTCCTTTTCTTTCCTTCT
1794967 T
1 T
1794968 CTTCTTTCCC
Statistics
Matches: 65, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
33 6 0.09
34 25 0.38
36 5 0.08
37 4 0.06
38 25 0.38
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (34 bp):
TTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCT
Found at i:1794956 original size:38 final size:38
Alignment explanation
Indices: 1794857--1794975 Score: 158
Period size: 38 Copynumber: 3.2 Consensus size: 38
1794847 TTCTTCTTTC
*
1794857 TTTTCTTT-TTCTCTTCTCCATTCCTTTTCTTTCCTTC-
1 TTTTCTTTCTT-TCTTCTCCTTTCCTTTTCTTTCCTTCT
1794894 -TTT-TTTC-TTCTTCTCCTTTCCTTTTCTTTCCTTCT
1 TTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCCTTCT
* *
1794929 TTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTTCTTTCT
1 TTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCCTTCT
*
1794967 TCTTCTTTC
1 TTTTCTTTC
1794976 CCTCTCATTC
Statistics
Matches: 73, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
34 25 0.34
35 4 0.05
36 6 0.08
37 4 0.05
38 34 0.47
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (38 bp):
TTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCCTTCT
Found at i:1794973 original size:34 final size:34
Alignment explanation
Indices: 1794816--1794981 Score: 123
Period size: 34 Copynumber: 4.8 Consensus size: 34
1794806 GTACCTTTTT
* *
1794816 TTTTCTTTTTTTTTTCCTTCTTTCC-CT-C-TT-C
1 TTTTCTTTCTTTCTT-CTTCTTTCCTCTCCTTTCC
*
1794847 TTCTTCTTTC-TT-TTCTT-TTTCTCTTCTCCATTCC
1 TT-TTCTTTCTTTCTTCTTCTTTC-C-TCTCCTTTCC
* * *
1794881 TTTTCTTTCCTTCTT-TTTTCTTCTTCTCCTTTCC
1 TTTTCTTTCTTTCTTCTTCT-TTCCTCTCCTTTCC
*
1794915 TTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTCCTTTCC
1 TTTTCTTT-C-T-TTCTTC-TTCTTTCCTCTCCTTTCC
1794953 TTTTCTTTCTTTCTTCTTCTTTCCCTCTC
1 TTTTCTTTCTTTCTTCTTCTTT-CCTCTC
1794982 ATTCTCTTCC
Statistics
Matches: 110, Mismatches: 8, Indels: 30
0.74 0.05 0.20
Matches are distributed among these distances:
28 4 0.04
29 4 0.04
30 2 0.02
31 6 0.05
32 7 0.06
33 9 0.08
34 30 0.27
35 15 0.14
36 4 0.04
37 5 0.05
38 21 0.19
39 3 0.03
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.67
Consensus pattern (34 bp):
TTTTCTTTCTTTCTTCTTCTTTCCTCTCCTTTCC
Found at i:1794974 original size:24 final size:24
Alignment explanation
Indices: 1794844--1794976 Score: 105
Period size: 24 Copynumber: 5.6 Consensus size: 24
1794834 TCTTTCCCTC
1794844 TTCTTCTTCTTT-CTTTTCTTT-T
1 TTCTTCTTCTTTCCTTTTCTTTCT
* * *
1794866 TCTCTTCTCCATTCCTTTTCTTTCC
1 T-TCTTCTTCTTTCCTTTTCTTTCT
* * *
1794891 TTCTT-TT-TTCTTCTTCTCCTTTCC
1 TTCTTCTTCTT-TCCTT-TTCTTTCT
* *
1794915 TT-TTCTTTCCTTCTTTTTCTTTCT
1 TTCTTC-TTCTTTCCTTTTCTTTCT
* *
1794939 TTCCTCTCCTTTCCTTTTCTTTCT
1 TTCTTCTTCTTTCCTTTTCTTTCT
1794963 TTCTTCTTCTTTCC
1 TTCTTCTTCTTTCC
1794977 CTCTCATTCT
Statistics
Matches: 84, Mismatches: 18, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
22 2 0.02
23 16 0.19
24 57 0.68
25 8 0.10
26 1 0.01
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (24 bp):
TTCTTCTTCTTTCCTTTTCTTTCT
Found at i:1794986 original size:24 final size:24
Alignment explanation
Indices: 1794935--1794991 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
1794925 TTCTTTTTCT
* * *
1794935 TTCTTTCCTCTCCTTTCCTTTTCT
1 TTCTTTCCTCTCCTTTCCCTCTCA
* *
1794959 TTCTTTCTTCTTCTTTCCCTCTCA
1 TTCTTTCCTCTCCTTTCCCTCTCA
1794983 TTCTCTTCC
1 TTCT-TTCC
1794992 ACCCCCACCG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.60
Consensus pattern (24 bp):
TTCTTTCCTCTCCTTTCCCTCTCA
Found at i:1795069 original size:27 final size:27
Alignment explanation
Indices: 1795039--1795090 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
1795029 CCAACCTCAT
1795039 TGGCACCATCGGTGCCGCCAATCAGTA
1 TGGCACCATCGGTGCCGCCAATCAGTA
* *
1795066 TGGCACCTTTGGTGCCGCCAATCAG
1 TGGCACCATCGGTGCCGCCAATCAG
1795091 AACCCCTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.33, G:0.27, T:0.21
Consensus pattern (27 bp):
TGGCACCATCGGTGCCGCCAATCAGTA
Found at i:1797963 original size:29 final size:29
Alignment explanation
Indices: 1797918--1797992 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
1797908 GCAGATATAC
* *
1797918 TGCCAGAACTCCAATATTTACGGATTAAT
1 TGCCAGAACTCCCATATTTACGGATAAAT
**
1797947 CT-CCAGAACTCCCATATTTGTGGATAAAT
1 -TGCCAGAACTCCCATATTTACGGATAAAT
1797976 TGCCAGAACTCCACATA
1 TGCCAGAACTCC-CATA
1797993 ACTCCTCTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 1 0.03
29 33 0.85
30 5 0.13
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (29 bp):
TGCCAGAACTCCCATATTTACGGATAAAT
Found at i:1798858 original size:32 final size:32
Alignment explanation
Indices: 1798818--1798955 Score: 276
Period size: 32 Copynumber: 4.3 Consensus size: 32
1798808 AAAGAATGCA
1798818 AAAAAGAAAAGATGTTGCGACAATGGTGAATC
1 AAAAAGAAAAGATGTTGCGACAATGGTGAATC
1798850 AAAAAGAAAAGATGTTGCGACAATGGTGAATC
1 AAAAAGAAAAGATGTTGCGACAATGGTGAATC
1798882 AAAAAGAAAAGATGTTGCGACAATGGTGAATC
1 AAAAAGAAAAGATGTTGCGACAATGGTGAATC
1798914 AAAAAGAAAAGATGTTGCGACAATGGTGAATC
1 AAAAAGAAAAGATGTTGCGACAATGGTGAATC
1798946 AAAAAGAAAA
1 AAAAAGAAAA
1798956 AAGAGTAGTG
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 106 1.00
ACGTcount: A:0.50, C:0.09, G:0.24, T:0.17
Consensus pattern (32 bp):
AAAAAGAAAAGATGTTGCGACAATGGTGAATC
Found at i:1806031 original size:8 final size:8
Alignment explanation
Indices: 1806018--1806052 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
1806008 GATATGATAG
1806018 TTTAATAT
1 TTTAATAT
1806026 TTTAATAT
1 TTTAATAT
1806034 TTTAATAT
1 TTTAATAT
1806042 TTTAATAT
1 TTTAATAT
1806050 TTT
1 TTT
1806053 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TTTAATAT
Found at i:1806209 original size:8 final size:8
Alignment explanation
Indices: 1806196--1806230 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
1806186 GATATGATAG
1806196 TTTAATAT
1 TTTAATAT
1806204 TTTAATAT
1 TTTAATAT
1806212 TTTAATAT
1 TTTAATAT
1806220 TTTAATAT
1 TTTAATAT
1806228 TTT
1 TTT
1806231 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TTTAATAT
Found at i:1806293 original size:178 final size:179
Alignment explanation
Indices: 1805982--1806339 Score: 709
Period size: 178 Copynumber: 2.0 Consensus size: 179
1805972 GGAGAGACTA
1805982 AAGAGACATGATAATGGAGAGAGAGAGATATGATAGTTTAATATTTTAATATTTTAATATTTTAA
1 AAGAGACATGATAATGGAGAGAGAGAGATATGATAGTTTAATATTTTAATATTTTAATATTTTAA
1806047 TATTTTTTTAAAAAATTTCAACGTTTGGACTTTTAGTTTTATGAGTTCTAGTTATACTCCTTTAC
66 TATTTTTTTAAAAAATTTCAACGTTTGGACTTTTAGTTTTATGAGTTCTAGTTATACTCCTTTAC
1806112 ACTTATTTAGAGCCAAAAAACGAGTAGGCTTAAGTCGGGATTATTTTGG
131 ACTTATTTAGAGCCAAAAAACGAGTAGGCTTAAGTCGGGATTATTTTGG
1806161 AAGAGACATGA-AATGGAGAGAGAGAGATATGATAGTTTAATATTTTAATATTTTAATATTTTAA
1 AAGAGACATGATAATGGAGAGAGAGAGATATGATAGTTTAATATTTTAATATTTTAATATTTTAA
1806225 TATTTTTTTAAAAAATTTCAACGTTTGGACTTTTAGTTTTATGAGTTCTAGTTATACTCCTTTAC
66 TATTTTTTTAAAAAATTTCAACGTTTGGACTTTTAGTTTTATGAGTTCTAGTTATACTCCTTTAC
1806290 ACTTATTTAGAGCCAAAAAACGAGTAGGCTTAAGTCGGGATTATTTTGG
131 ACTTATTTAGAGCCAAAAAACGAGTAGGCTTAAGTCGGGATTATTTTGG
1806339 A
1 A
1806340 CTTAGATTTT
Statistics
Matches: 179, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
178 168 0.94
179 11 0.06
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.40
Consensus pattern (179 bp):
AAGAGACATGATAATGGAGAGAGAGAGATATGATAGTTTAATATTTTAATATTTTAATATTTTAA
TATTTTTTTAAAAAATTTCAACGTTTGGACTTTTAGTTTTATGAGTTCTAGTTATACTCCTTTAC
ACTTATTTAGAGCCAAAAAACGAGTAGGCTTAAGTCGGGATTATTTTGG
Found at i:1811637 original size:27 final size:27
Alignment explanation
Indices: 1811599--1811665 Score: 102
Period size: 26 Copynumber: 2.5 Consensus size: 27
1811589 AGATCAAAAT
1811599 TTTATTTTAAAAAATTTAAACTTT-TCC
1 TTTATTTTAAAAAATTTAAACTTTCT-C
1811626 TTTATTTT-AAAAATTTAAACTTTCTC
1 TTTATTTTAAAAAATTTAAACTTTCTC
*
1811652 TTTTTTTTAAAAAA
1 TTTATTTTAAAAAA
1811666 ATCAAAACTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 23 0.62
27 14 0.38
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (27 bp):
TTTATTTTAAAAAATTTAAACTTTCTC
Found at i:1812275 original size:10 final size:10
Alignment explanation
Indices: 1812260--1812289 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1812250 CACTCCTACT
1812260 ATATTATATA
1 ATATTATATA
1812270 ATATTATATA
1 ATATTATATA
*
1812280 ATATCATATA
1 ATATTATATA
1812290 GTAGACAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (10 bp):
ATATTATATA
Found at i:1812512 original size:246 final size:248
Alignment explanation
Indices: 1812159--1812765 Score: 660
Period size: 246 Copynumber: 2.5 Consensus size: 248
1812149 CAACAGTTAT
* ** * *
1812159 ATATTAATTATTATCATATATTATTGTTTATTATTATAGTGGTTGAAAATATGCTCTAAGTCTCT
1 ATATTAATTATTATCATATATTATTGTTTATTATTATACTAATTGAAAATAGGCTCTAAGTCCCT
* * *
1812224 ATACTATTCGTACATTTGAAAGTTAACACTCCTACTATATTATATAATATTATATAATATCATAT
66 ATACTATTCATACATTTAAAAGTTAACACTCCTACTATATTATATAATACTATATAATATCATAT
* * ** *
1812289 AGTAGACAGTATATTAATAATTTATATATATTTATCAATGATTTAACATTATAATATCATGCAAT
131 AGTAGACAATATATTAAT-AGTT-TATATATGCATCAATGATTAAACATTATAATATCATGCAAT
*
1812354 ACTATATTTTTTATTATAATATATAATATAATATTTATATATAATAATACATTAC
194 ACTATATCTTTTATTATAATATATAATATAATATTTATATATAATAATACATTAC
* *
1812409 ATATTAATTATTAT-A-A-ATTATTGTTTATTATTATACTAATTG-AAATAGGTTTTAAGTCCCT
1 ATATTAATTATTATCATATATTATTGTTTATTATTATACTAATTGAAAATAGGCTCTAAGTCCCT
* * * * * *
1812470 ATACTTTTCATACATTTAAAAGTTAACATTCTTACTATATTATATAATGCTATATCATATCATGT
66 ATACTATTCATACATTTAAAAGTTAACACTCCTACTATATTATATAATACTATATAATATCATAT
* * * *
1812535 TGTATATAATATATTAATAGTTTATATATGCATCAATGATTAAACATTATAATATCATGTAATAC
131 AGTAGACAATATATTAATAGTTTATATATGCATCAATGATTAAACATTATAATATCATGCAATAC
* * * ** *
1812600 TGTATCTTTTA-T-T-ATA-AT-CTGT-A-A--TATA-ATAAT-GCACATTAT
196 TATATCTTTTATTATAATATATAATATAATATTTATATATAATAATACATTAC
** * *
1812642 ATATTAA-T-TT-TCATATATTATTGTTTATTATTATACTGGTT-AAAATATGCTCTAAGTCCTT
1 ATATTAATTATTATCATATATTATTGTTTATTATTATACTAATTGAAAATAGGCTCTAAGTCCCT
* * * * * ** *
1812703 ATACTTTTCGTACATTTGAAAGTTAGC-CCCCTACTATATTATATAATGTTATATCATATCATA
66 ATACTATTCATACATTTAAAAGTTAACACTCCTACTATATTATATAATACTATATAATATCATA
1812766 CTTTTTATTG
Statistics
Matches: 307, Mismatches: 46, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
230 1 0.00
231 3 0.01
232 33 0.11
233 75 0.24
234 5 0.02
235 4 0.01
237 1 0.00
238 1 0.00
239 2 0.01
240 2 0.01
241 3 0.01
242 1 0.00
243 1 0.00
244 48 0.16
245 3 0.01
246 85 0.28
247 23 0.07
248 1 0.00
249 1 0.00
250 14 0.05
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (248 bp):
ATATTAATTATTATCATATATTATTGTTTATTATTATACTAATTGAAAATAGGCTCTAAGTCCCT
ATACTATTCATACATTTAAAAGTTAACACTCCTACTATATTATATAATACTATATAATATCATAT
AGTAGACAATATATTAATAGTTTATATATGCATCAATGATTAAACATTATAATATCATGCAATAC
TATATCTTTTATTATAATATATAATATAATATTTATATATAATAATACATTAC
Found at i:1812984 original size:19 final size:20
Alignment explanation
Indices: 1812956--1812999 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
1812946 TATTATAATC
*
1812956 TATATTATAGTAATA-GTTA
1 TATATAATAGTAATACGTTA
*
1812975 TATATAATAGTAGTACGTTA
1 TATATAATAGTAATACGTTA
1812995 TATAT
1 TATAT
1813000 TACTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.45
Consensus pattern (20 bp):
TATATAATAGTAATACGTTA
Found at i:1816374 original size:18 final size:19
Alignment explanation
Indices: 1816333--1816376 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
1816323 ACTTCAACTT
*
1816333 TTTACTTATCTCTCTTACAA
1 TTTA-TTATCCCTCTTACAA
1816353 TTTATTATCCCTCTTA-AA
1 TTTATTATCCCTCTTACAA
1816371 TTTATT
1 TTTATT
1816377 TTGAAGTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.35
19 11 0.48
20 4 0.17
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTATTATCCCTCTTACAA
Found at i:1817758 original size:26 final size:26
Alignment explanation
Indices: 1817722--1817772 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
1817712 GCGGCGCTTT
1817722 GAAAAAAACGCCGCTAAAGAACATGA
1 GAAAAAAACGCCGCTAAAGAACATGA
* *
1817748 GAAAAAAACGCCTCTAAAGACCATG
1 GAAAAAAACGCCGCTAAAGAACATG
1817773 TTCTTTAGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.51, C:0.22, G:0.18, T:0.10
Consensus pattern (26 bp):
GAAAAAAACGCCGCTAAAGAACATGA
Found at i:1817808 original size:67 final size:67
Alignment explanation
Indices: 1817683--1817813 Score: 219
Period size: 68 Copynumber: 1.9 Consensus size: 67
1817673 GTTTACAAAC
1817683 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTGAAAAAAACGCCGCTAAAGAACATGA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTT-AAAAAAACGCCGCTAAAGAACATGA
1817748 GAA
65 GAA
* *
1817751 AAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGC-TTATAAAAAACGCCGCTAAAGACCATG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTA-AAAAAACGCCGCTAAAGAACATG
1817814 TCTTTTAGCG
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
66 1 0.02
67 24 0.40
68 35 0.58
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (67 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTAAAAAAACGCCGCTAAAGAACATGAG
AA
Found at i:1817834 original size:30 final size:30
Alignment explanation
Indices: 1817798--1817857 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1817788 TATAAAAAAC
1817798 GCCGCTAAAGACCATG-TCTTTTAGCGGCGT
1 GCCGCTAAAGACCATGTTC-TTTAGCGGCGT
**
1817828 GCCGCTAAAGATGATGTTCTTTAGCGGCGT
1 GCCGCTAAAGACCATGTTCTTTAGCGGCGT
1817858 TTATTCTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.28
Consensus pattern (30 bp):
GCCGCTAAAGACCATGTTCTTTAGCGGCGT
Found at i:1818287 original size:21 final size:21
Alignment explanation
Indices: 1818261--1818318 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
1818251 TTTGGCCTGC
*
1818261 TCTGCTTCTCTTGCTGCAGCT
1 TCTGCTTCTCTCGCTGCAGCT
1818282 TCTGCTTCTCTCGCTGCAGCT
1 TCTGCTTCTCTCGCTGCAGCT
*
1818303 TCTGCTTCTCGCGCTG
1 TCTGCTTCTCTCGCTG
1818319 TCGCCTCTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.03, C:0.36, G:0.21, T:0.40
Consensus pattern (21 bp):
TCTGCTTCTCTCGCTGCAGCT
Found at i:1818327 original size:21 final size:21
Alignment explanation
Indices: 1818260--1818330 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
1818250 TTTTGGCCTG
*
1818260 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCTCTCGCTGCAGC
*
1818281 TTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCTCTCGCTGCAGC
* *
1818302 TTCTGCTTCTCGCGCTGTC-GC
1 CTCTGCTTCTCTCGCTG-CAGC
1818323 CTCTGCTT
1 CTCTGCTT
1818331 TAAGTTGTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 44 0.98
22 1 0.02
ACGTcount: A:0.03, C:0.38, G:0.20, T:0.39
Consensus pattern (21 bp):
CTCTGCTTCTCTCGCTGCAGC
Found at i:1825633 original size:249 final size:250
Alignment explanation
Indices: 1825003--1825670 Score: 1248
Period size: 250 Copynumber: 2.7 Consensus size: 250
1824993 NNNNNNNNNN
*
1825003 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGAAGACCATTTGCTCAAATTGATGT
1 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
1825068 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATA
66 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATA
*
1825133 GTATTTACTTTATTTTTATTAATCATATTTTTTAGTTATTTATTTATTTAATTTAATTTTTTTGT
131 GTATTTACTTTATTTTTATTAATCATATGTTTTAGTTATTTATTTATTTAATTTAATTTTTTTGT
*
1825198 TTTATATAATTTTTTCACGTAATGTTATGTCGATTTAAAGTTTAGAAAAAAAAAA
196 TTTATATAATTTTTTAACGTAATGTTATGTCGATTTAAAGTTTAGAAAAAAAAAA
1825253 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
1 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
* *
1825318 TATACTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTATACTTATGTAAGTATA
66 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATA
1825383 GTATTTACTTTATTTTTATTAATCATATGTTTTAGTTATTTATTTATTTAATTTAATTTTTTTGT
131 GTATTTACTTTATTTTTATTAATCATATGTTTTAGTTATTTATTTATTTAATTTAATTTTTTTGT
*
1825448 TTTATATAATTTTTTAACGTAATGTTATGTCGATTTAAAGTTTAG-AAAAAATAA
196 TTTATATAATTTTTTAACGTAATGTTATGTCGATTTAAAGTTTAGAAAAAAAAAA
*
1825502 TTTACATATGATTAATGAAAAGAAATGAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
1 TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
*
1825567 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTGAGTATA
66 TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATA
*
1825632 GTATTTACTTTATTTTTATTAATCATGTGTTTTAGTTAT
131 GTATTTACTTTATTTTTATTAATCATATGTTTTAGTTAT
1825671 GTCGATTTAA
Statistics
Matches: 407, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
249 172 0.42
250 235 0.58
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (250 bp):
TTTACATATGATTAATGAAAAGAAATAAACACTTTAAAAAGATGACCATTTGCTCAAATTGATGT
TATATTTCCTTAATTAATCATATCTACTTTATGATGATGTTAACGGTTTTACTTATGTAAGTATA
GTATTTACTTTATTTTTATTAATCATATGTTTTAGTTATTTATTTATTTAATTTAATTTTTTTGT
TTTATATAATTTTTTAACGTAATGTTATGTCGATTTAAAGTTTAGAAAAAAAAAA
Found at i:1834026 original size:16 final size:17
Alignment explanation
Indices: 1833989--1834060 Score: 121
Period size: 16 Copynumber: 4.4 Consensus size: 17
1833979 ACATTATATA
1833989 ATATAATAAACTACATT
1 ATATAATAAACTACATT
1834006 ATATAATAAACTACA-T
1 ATATAATAAACTACATT
*
1834022 ATATAATAAACTA-AAT
1 ATATAATAAACTACATT
1834038 ATATAATAAACTACATT
1 ATATAATAAACTACATT
1834055 ATATAA
1 ATATAA
1834061 CAATCTAGCG
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 28 0.54
17 23 0.44
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAATAAACTACATT
Found at i:1834269 original size:113 final size:113
Alignment explanation
Indices: 1834083--1834412 Score: 387
Period size: 114 Copynumber: 2.9 Consensus size: 113
1834073 GCTTCCCACA
* * *
1834083 ACGCGCCGCTAATAATATGTTTTAGCGGCGTTTTACCATAAGCGCCAC-AACTGCTAGTATACAT
1 ACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTACCATAAGCGCCACTAA-TGCTAATATACAT
*
1834147 CAAGACCAAAGAGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAAT
65 CAAGACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAAT
* * * * * *
1834196 ACGCGCCGCTTATACTATGCTTTAGCGGCGTTTT-CAAATAAACGCCACTAATCCTAATGTACCT
1 ACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTAC-CATAAGCGCCACTAATGCTAATATACAT
* * * ** * * *
1834260 CAACACCAAA-CTCTGCGTTTTGGTTAAGAAAGATTGCAGCGCTTTTCAGT
65 CAAGACCAAAGCGCTGCGTTTTGGTT-A-ATATTTTGCGGCGCTTTACAAT
** * * *
1834310 ACTTGCCGCTAATACTATACTTTAGCGGCGTTTTAGCATAAGCGCCACTAATGCTACTATACATC
1 ACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTACCATAAGCGCCACTAATGCTAATATACATC
*
1834375 AAGACCAAAGCGCAGCGTTTTGGTTAATATTTTGCGGC
66 AAGACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGC
1834413 ATTTTCCAAA
Statistics
Matches: 175, Mismatches: 36, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
112 14 0.08
113 68 0.39
114 80 0.46
115 13 0.07
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (113 bp):
ACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTACCATAAGCGCCACTAATGCTAATATACATC
AAGACCAAAGCGCTGCGTTTTGGTTAATATTTTGCGGCGCTTTACAAT
Found at i:1834657 original size:114 final size:112
Alignment explanation
Indices: 1834425--1834702 Score: 294
Period size: 114 Copynumber: 2.5 Consensus size: 112
1834415 TTTCCAAATG
* * * ** * *
1834425 AGCGCCACTAATCCTAATATACCACAAGACCAAACTCTGCGTTTTGGTT-AATATTTTGTGGCAC
1 AGCGCCACTAATCGTAATATACCTCAAGACCAAACTCTGCGTTTTGGTTAAAAAGATTGCGACAC
*
1834489 TTTACAACACGCGCCGCTAATACAATGCTTTAGCGGCGTTTGCATATA
66 TTTACAACACGCGCCGCTAATACAATACTTTAGCGGCGTTTGCA-ATA
* * *
1834537 AGCGCCACTAATCGTAATGTACCTCAACACCAAACTCTGCGTTTTGGTTAAGAAAGATTGCGACG
1 AGCGCCACTAATCGTAATATACCTCAAGACCAAACTCTGCGTTTTGGTTAA-AAAGATTGCGACA
** * *
1834602 CTTTTA-AGTACTCGCCGCTAATACTATACTTTAGCGGCGTTTTAGC-ATA
65 C-TTTACAACACGCGCCGCTAATACAATACTTTAGCGGCG-TTT-GCAATA
* * * *
1834651 AGCGCCACTAAT-GCTACTATACATCAAGACCAAAGCGCAGCGTTTTGGTTAA
1 AGCGCCACTAATCG-TAATATACCTCAAGACCAAA-CTCTGCGTTTTGGTTAA
1834703 TATTTTGCGG
Statistics
Matches: 138, Mismatches: 21, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
112 45 0.33
113 2 0.01
114 67 0.49
115 22 0.16
116 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (112 bp):
AGCGCCACTAATCGTAATATACCTCAAGACCAAACTCTGCGTTTTGGTTAAAAAGATTGCGACAC
TTTACAACACGCGCCGCTAATACAATACTTTAGCGGCGTTTGCAATA
Found at i:1834752 original size:74 final size:73
Alignment explanation
Indices: 1834635--1834775 Score: 194
Period size: 74 Copynumber: 1.9 Consensus size: 73
1834625 CTATACTTTA
* * * *
1834635 GCGGCGTTTTAGCATAAGCGCCACTAATGCTACTATACATCAAGACCAAAGCGCAGCGTTTTGGT
1 GCGGCGTTTTACCATAAGCGCCACTAATCCTAATACACATCAAGACCAAA-CGCAGCGTTTTGGT
1834700 TAATATTTT
65 TAATATTTT
* * *
1834709 GCGGCGTTTT-CCAATAAGCGCCACTAATCCTAATACACCTCAAGACCAAACTCTGCGTTTTGGT
1 GCGGCGTTTTACC-ATAAGCGCCACTAATCCTAATACACATCAAGACCAAACGCAGCGTTTTGGT
1834773 TAA
65 TAA
1834776 GAAATATTGC
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
73 16 0.27
74 43 0.73
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (73 bp):
GCGGCGTTTTACCATAAGCGCCACTAATCCTAATACACATCAAGACCAAACGCAGCGTTTTGGTT
AATATTTT
Found at i:1834869 original size:187 final size:188
Alignment explanation
Indices: 1834521--1834902 Score: 522
Period size: 188 Copynumber: 2.0 Consensus size: 188
1834511 CAATGCTTTA
* * **
1834521 GCGGCGTTTGCATATAAGCGCCACTAATCGTAATGTACCTCAACACCAAACTCTGCGTTTTGGTT
1 GCGGCGTTTCCATATAAGCGCCACTAATCCTAATACACCTCAACACCAAACTCTGCGTTTTGGTT
*
1834586 AAGAAAGATTGCGACGCTTTTAAGTACTCGCCGCTAATACTATACTTTAGCGGCGTTTTAGCATA
66 AAGAAAGATTGCGACGCTTTT-ACTACTCGCCGCTAATACTATACTTTAGCGGCGTTTTAGCATA
* *
1834651 AGCGCCACTAATGCTACTATACATCAAGACCAAAGCGCAGCGTTTTGGTTAATAT-T-TT
130 AGCGCCACTAATGCTACTATACATCAAGACCAAA-CGCAGCGTTTTCGTTAAGATGTATT
*
1834709 GCGGCGTTTTCCA-ATAAGCGCCACTAATCCTAATACACCTCAAGACCAAACTCTGCGTTTTGGT
1 GCGGCG-TTTCCATATAAGCGCCACTAATCCTAATACACCTCAACACCAAACTCTGCGTTTTGGT
* * * *
1834773 TAAGAAATATTGCGGCGCTTTCT-CTACTCGCCGCTAATACTATGA-TTTAGCGGCGTTTTCGTA
65 TAAGAAAGATTGCGACGCTTT-TACTACTCGCCGCTAATACTAT-ACTTTAGCGGCGTTTTAGCA
* * * * * *
1834836 TAAGCGCCACTAATGCTAGTGTACCTTAAGACCAAACTCTGCGTTTTCGTTAAGATGTATT
128 TAAGCGCCACTAATGCTACTATACATCAAGACCAAACGCAGCGTTTTCGTTAAGATGTATT
1834897 GCGGCG
1 GCGGCG
1834903 CTTGGTAGTA
Statistics
Matches: 171, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
186 16 0.09
187 68 0.40
188 81 0.47
189 6 0.04
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (188 bp):
GCGGCGTTTCCATATAAGCGCCACTAATCCTAATACACCTCAACACCAAACTCTGCGTTTTGGTT
AAGAAAGATTGCGACGCTTTTACTACTCGCCGCTAATACTATACTTTAGCGGCGTTTTAGCATAA
GCGCCACTAATGCTACTATACATCAAGACCAAACGCAGCGTTTTCGTTAAGATGTATT
Found at i:1834944 original size:301 final size:299
Alignment explanation
Indices: 1834102--1834905 Score: 1177
Period size: 301 Copynumber: 2.7 Consensus size: 299
1834092 TAATAATATG
* * * **
1834102 TTTTAGCGGCGTTTTACC-ATAAGCGCCAC-AACTGCTAGTATACATCAAGACCAAAGAGCTGCG
1 TTTT-GCGGCGTTTT-CCAATAAGCGCCACTAA-TCCTAATATACCTCAAGACCAAA-CTCTGCG
* *
1834165 TTTTGGTTAATATTTTGCGGCGCTTTACAATACGCGCCGCTTATACTATGCTTTAGCGGCGTTTT
62 TTTTGGTTAATATTTTGCGGCGCTTTACACTACGCGCCGCTAATACTATGCTTTAGCGGCGTTTT
* *
1834230 CAAATAAACGCCACTAATCCTAATGTACCTCAACACCAAACTCTGCGTTTTGGTTAAGAAAGATT
127 CATATAAGCGCCACTAAT-CTAATGTACCTCAACACCAAACTCTGCGTTTTGGTTAAGAAAGATT
* * *
1834295 GCAGCGCTTTTCAGTACTTGCCGCTAATACTATACTTTAGCGGCGTTTTAGCATAAGCGCCACTA
191 GCGGCGCTTTTAAGTACTCGCCGCTAATACTATACTTTAGCGGCGTTTTAGCATAAGCGCCACTA
1834360 ATGCTACTATACATCAAGACCAAAGCGCAGCGTTTTGGTTAATA
256 ATGCTACTATACATCAAGACCAAAGCGCAGCGTTTTGGTTAATA
* * *
1834404 TTTTGCGGCATTTTCCAAATGAGCGCCACTAATCCTAATATACCACAAGACCAAACTCTGCGTTT
1 TTTTGCGGCGTTTTCC-AATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACTCTGCGTTT
* * * *
1834469 TGGTTAATATTTTGTGGCACTTTACAAC-ACGCGCCGCTAATACAATGCTTTAGCGGCGTTTGCA
65 TGGTTAATATTTTGCGGCGCTTTAC-ACTACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCA
1834533 TATAAGCGCCACTAATCGTAATGTACCTCAACACCAAACTCTGCGTTTTGGTTAAGAAAGATTGC
129 TATAAGCGCCACTAATC-TAATGTACCTCAACACCAAACTCTGCGTTTTGGTTAAGAAAGATTGC
*
1834598 GACGCTTTTAAGTACTCGCCGCTAATACTATACTTTAGCGGCGTTTTAGCATAAGCGCCACTAAT
193 GGCGCTTTTAAGTACTCGCCGCTAATACTATACTTTAGCGGCGTTTTAGCATAAGCGCCACTAAT
1834663 GCTACTATACATCAAGACCAAAGCGCAGCGTTTTGGTTAATA
258 GCTACTATACATCAAGACCAAAGCGCAGCGTTTTGGTTAATA
*
1834705 TTTTGCGGCGTTTTCCAATAAGCGCCACTAATCCTAATACACCTCAAGACCAAACTCTGCGTTTT
1 TTTTGCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACTCTGCGTTTT
* * * * * *
1834770 GGTTAAGAAATATTGCGGCGCTTT-CTCTACTCGCCGCTAATACTATGATTTAGCGGCGTTTTCG
66 GGTT-A-ATATTTTGCGGCGCTTTACACTACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCA
* * * * *
1834834 TATAAGCGCCACTAATGCTAGTGTACCTTAAGACCAAACTCTGCGTTTTCGTTAAG-ATGTATTG
129 TATAAGCGCCACTAAT-CTAATGTACCTCAACACCAAACTCTGCGTTTTGGTTAAGAAAG-ATTG
1834898 CGGCGCTT
192 CGGCGCTT
1834906 GGTAGTAAAC
Statistics
Matches: 452, Mismatches: 40, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
300 56 0.12
301 346 0.77
302 48 0.11
303 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (299 bp):
TTTTGCGGCGTTTTCCAATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACTCTGCGTTTT
GGTTAATATTTTGCGGCGCTTTACACTACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCATA
TAAGCGCCACTAATCTAATGTACCTCAACACCAAACTCTGCGTTTTGGTTAAGAAAGATTGCGGC
GCTTTTAAGTACTCGCCGCTAATACTATACTTTAGCGGCGTTTTAGCATAAGCGCCACTAATGCT
ACTATACATCAAGACCAAAGCGCAGCGTTTTGGTTAATA
Found at i:1836614 original size:2 final size:2
Alignment explanation
Indices: 1836607--1836631 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1836597 ATCATACATC
1836607 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1836632 NNNNNNNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1836649 original size:2 final size:2
Alignment explanation
Indices: 1836644--1836682 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
1836634 NNNNNNNNNC
1836644 AT AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1836683 ACAAGGTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1836799 original size:21 final size:24
Alignment explanation
Indices: 1836770--1836818 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
1836760 TATACATTTA
*
1836770 ATTTCTATA-CTTTTTAA-AAATT
1 ATTTCTATACCTTTCTAACAAATT
1836792 ATTT-TATACCTTTCTAATCAAATT
1 ATTTCTATACCTTTCTAA-CAAATT
1836816 ATT
1 ATT
1836819 CTTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
24 8 0.35
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTCTATACCTTTCTAACAAATT
Found at i:1842142 original size:2 final size:2
Alignment explanation
Indices: 1842130--1842168 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
1842120 NNNNNNNNNC
1842130 AT AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1842169 ACAAGGTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1842285 original size:21 final size:24
Alignment explanation
Indices: 1842256--1842304 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
1842246 TATACATTTA
*
1842256 ATTTCTATA-CTTTTTAA-AAATT
1 ATTTCTATACCTTTCTAACAAATT
1842278 ATTT-TATACCTTTCTAATCAAATT
1 ATTTCTATACCTTTCTAA-CAAATT
1842302 ATT
1 ATT
1842305 CTTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
24 8 0.35
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTCTATACCTTTCTAACAAATT
Found at i:1845709 original size:18 final size:18
Alignment explanation
Indices: 1845665--1845709 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1845655 GCAATAAGAA
1845665 AACGTTTTGAAAATGAAT
1 AACGTTTTGAAAATGAAT
* *
1845683 AACGATTTGTAAATGAAT
1 AACGTTTTGAAAATGAAT
*
1845701 AATGTTTTG
1 AACGTTTTG
1845710 GAAACGAACG
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:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (18 bp):
AACGTTTTGAAAATGAAT
Found at i:1847529 original size:18 final size:18
Alignment explanation
Indices: 1847485--1847529 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1847475 GCAATAAGAA
1847485 AACGTTTTGAAAATGAAT
1 AACGTTTTGAAAATGAAT
* *
1847503 AACGATTTGTAAATGAAT
1 AACGTTTTGAAAATGAAT
*
1847521 AATGTTTTG
1 AACGTTTTG
1847530 GAAACGAACG
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:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (18 bp):
AACGTTTTGAAAATGAAT
Found at i:1857432 original size:14 final size:14
Alignment explanation
Indices: 1857407--1857439 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1857397 TATAAATGGC
1857407 TAAAAATGATTTTTT
1 TAAAAATGA-TTTTT
1857422 TAAAAAT-ATTTTT
1 TAAAAATGATTTTT
1857435 TAAAA
1 TAAAA
1857440 TTTCTAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 1 0.06
15 7 0.39
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
TAAAAATGATTTTT
Found at i:1858242 original size:12 final size:12
Alignment explanation
Indices: 1858224--1858253 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1858214 TATCGTAAAG
1858224 AAAATAGAAATA
1 AAAATAGAAATA
*
1858236 GAAATAGAAATA
1 AAAATAGAAATA
1858248 AAAATA
1 AAAATA
1858254 AAGAACACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (12 bp):
AAAATAGAAATA
Found at i:1872877 original size:6 final size:6
Alignment explanation
Indices: 1872868--1872894 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1872858 AAATAAAATT
1872868 CTAAAA CTAAAA CTAAAA CTAAAA CTA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTA
1872895 GAGGCTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.19, G:0.00, T:0.19
Consensus pattern (6 bp):
CTAAAA
Found at i:1875945 original size:26 final size:26
Alignment explanation
Indices: 1875914--1876111 Score: 227
Period size: 26 Copynumber: 7.5 Consensus size: 26
1875904 CAGATAAGGA
*
1875914 AAAGCCTTTGTGGCGTAGTATGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
*
1875940 AAAGCCTTTGTGGCGTAGTATGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
*
1875966 AAAGCCTTTATGGCGTAATATGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
*
1875992 AAAGCCTTTGTGGCATAATATGAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
* * * *
1876018 AAAGCCTTTGTAGTGCAATATAAAAG
1 AAAGCCTTTGTGGCGTAATATGAAAG
* * *
1876044 AATAGCTTTTGTGGCGTAAAATGAATTG
1 AA-AGCCTTTGTGGCGTAATATGAA-AG
* *
1876072 AAAGCCTTTGTGGC-AAACCATGAAAAG
1 AAAGCCTTTGTGGCGTAA-TATG-AAAG
*
1876099 AAAGCCTCTGTGG
1 AAAGCCTTTGTGG
1876112 TAAATCACGA
Statistics
Matches: 147, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
26 99 0.67
27 43 0.29
28 5 0.03
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (26 bp):
AAAGCCTTTGTGGCGTAATATGAAAG
Found at i:1876128 original size:27 final size:27
Alignment explanation
Indices: 1876070--1876128 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
1876060 TAAAATGAAT
* *
1876070 TGAAAGCCTTTGTGGCAAACCATGAAA
1 TGAAAGCCTCTGTGGCAAACCACGAAA
* * * *
1876097 AGAAAGCCTCTGTGGTAAATCACGAGA
1 TGAAAGCCTCTGTGGCAAACCACGAAA
1876124 TGAAA
1 TGAAA
1876129 ACTTTTGTAG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (27 bp):
TGAAAGCCTCTGTGGCAAACCACGAAA
Found at i:1883178 original size:16 final size:17
Alignment explanation
Indices: 1883152--1883184 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1883142 ATAAACGGCT
1883152 AAAAATGATTTTTTAAA
1 AAAAATGATTTTTTAAA
1883169 AAAAAT-ATTTTTTAAA
1 AAAAATGATTTTTTAAA
1883185 GTTTTTAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AAAAATGATTTTTTAAA
Found at i:1884870 original size:22 final size:22
Alignment explanation
Indices: 1884826--1884872 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1884816 CGAATAGTAT
* *
1884826 ATGTATATATATATTATAAAAA
1 ATGTATATATATATGAGAAAAA
1884848 ATGTATATATATATGAGATAAAA
1 ATGTATATATATATGAGA-AAAA
1884871 AT
1 AT
1884873 AGGATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (22 bp):
ATGTATATATATATGAGAAAAA
Found at i:1885504 original size:30 final size:30
Alignment explanation
Indices: 1885460--1885517 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
1885450 TTTGTGAAGA
*
1885460 AAAGAATAAAGG-AAAACAAAAGAAAAAGG
1 AAAGAATAAAGGAAAAAAAAAAGAAAAAGG
*
1885489 AAAGAAATAGAGGAAAAAAAAAAGAAAAA
1 AAAG-AATAAAGGAAAAAAAAAAGAAAAA
1885518 CCTTCAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.16
30 7 0.28
31 14 0.56
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.03
Consensus pattern (30 bp):
AAAGAATAAAGGAAAAAAAAAAGAAAAAGG
Found at i:1886540 original size:116 final size:116
Alignment explanation
Indices: 1886326--1886606 Score: 339
Period size: 116 Copynumber: 2.4 Consensus size: 116
1886316 GAGACAAGAT
*
1886326 CTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGAAGGGATTGATGGCTTAAATCTGCTTCC
1 CTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGAAGGAATTGATGGCTTAAATCTGCTTCC
* * * *
1886391 CTACTACCTTGGGAAGATAGGATTTACCATCTTCGATCTGCTCCACTACTG
66 CTACTACCTTGGGAAGATAAGATTCACCATCTTCAATCTGCCCCACTACTG
* * * *
1886442 CTACAATCTTCAACCTACTCCACTATTGCTTAGGGAGATA-GAATTGGTGGCTTAAATTTGCTTC
1 CTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGA-AGGAATTGATGGCTTAAATCTGCTTC
* ** *
1886506 CCTACTACTTTGGGAAGATAAGATTCGTCGTCTTCAATCTGCCCCACTACTGCAG
65 CCTACTACCTTGGGAAGATAAGATTCACCATCTTCAATCTGCCCCACTACT---G
* * *
1886561 AATCTACAAACTTCAACCTACTTCACTGCTGCTCAGGGAGATAGGA
1 ---CTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGA-AGGA
1886607 CTGGTGTCTT
Statistics
Matches: 139, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
116 100 0.72
117 1 0.01
119 1 0.01
122 35 0.25
123 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (116 bp):
CTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGAAGGAATTGATGGCTTAAATCTGCTTCC
CTACTACCTTGGGAAGATAAGATTCACCATCTTCAATCTGCCCCACTACTG
Found at i:1886664 original size:45 final size:45
Alignment explanation
Indices: 1886613--1886889 Score: 324
Period size: 45 Copynumber: 6.0 Consensus size: 45
1886603 AGGACTGGTG
* *
1886613 TCTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTACTA
1 TCTTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTA
** * * * * *
1886658 TCTTTGATCTACTTTGCTGCTCCACTGCTACTCAGGGAGATAAGA-CTGCCA
1 TCTTTGATCTACTTCACTG--CCA---ATA--CAGGAAGACAAGATCTACTA
1886709 -CATTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTA
1 TC-TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTA
* *
1886754 TCTTTGATCTACTTCACTGCCAATACAGGAAGATAAGATCTATTA
1 TCTTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTA
* * * *
1886799 TCTTCGATCTACTTCACTACCAATATATGAAGACAAGATCTACTA
1 TCTTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTA
*
1886844 TCTTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTA
1886889 T
1 T
1886890 TTTCAACCTG
Statistics
Matches: 196, Mismatches: 26, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
44 11 0.06
45 143 0.73
46 3 0.02
47 3 0.02
49 3 0.02
50 3 0.02
51 19 0.10
52 11 0.06
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (45 bp):
TCTTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTA
Found at i:1886748 original size:96 final size:94
Alignment explanation
Indices: 1886584--1886865 Score: 310
Period size: 96 Copynumber: 3.0 Consensus size: 94
1886574 CAACCTACTT
* * *** * *
1886584 CACTGCTGCTCAGGGAGATAGGACTGGTGTC-TTTGATCTACTTCGCTGCCAGTACAGGAAGACA
1 CACTGCTACTCAGGGAGATAAGACT-GCCACATTTGATCTACTTCACTGCCAATACAGGAAGACA
**
1886648 AGATCTACTATCTTTGATCTACTTTGCTGCTC
65 AGATCTACTATCTTTGATCTACTTCACTG--C
1886680 CACTGCTACTCAGGGAGATAAGACTGCCACATTTGATCTACTTCACTGCCAATACAGGAAGACAA
1 CACTGCTACTCAGGGAGATAAGACTGCCACATTTGATCTACTTCACTGCCAATACAGGAAGACAA
1886745 GATCTACTATCTTTGATCTACTTCACTGC
66 GATCTACTATCTTTGATCTACTTCACTGC
* * * * * * *
1886774 CA---ATA--CAGGAAGATAAGA-T-CTATTATCTTCGATCTACTTCACTACCAATATATGAAGA
1 CACTGCTACTCAGGGAGATAAGACTGCCA-CAT-TT-GATCTACTTCACTGCCAATACAGGAAGA
1886832 CAAGATCTACTATCTTTGATCTACTTCACTGC
63 CAAGATCTACTATCTTTGATCTACTTCACTGC
1886864 CA
1 CA
1886866 ATACAGGAAG
Statistics
Matches: 166, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
87 2 0.01
88 3 0.02
89 14 0.08
90 59 0.36
91 2 0.01
94 3 0.02
95 2 0.01
96 81 0.49
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (94 bp):
CACTGCTACTCAGGGAGATAAGACTGCCACATTTGATCTACTTCACTGCCAATACAGGAAGACAA
GATCTACTATCTTTGATCTACTTCACTGC
Found at i:1886954 original size:135 final size:135
Alignment explanation
Indices: 1886711--1886950 Score: 326
Period size: 135 Copynumber: 1.8 Consensus size: 135
1886701 GACTGCCACA
* * *
1886711 TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATCTTTGATCTACTTCACTGCCA
1 TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATCTTTAACCTACTCCACTGCCA
* **
1886776 ATACAGGAAGATAAGATCTATTATCTTCGATCTACTTCACTACCAATATATGAAGACAAGATCTA
66 ATACAGGAAGATAAGAGCTATTATCTTAAATCTACTTCACTACCAATATATGAAGACAAGATCTA
1886841 CTATC
131 CTATC
* * *
1886846 TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTAT-TTTCAACCTGCTCCACTGCT
1 TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATCTTT-AACCTACTCCACTGCC
* * * *
1886910 ACT-CAGGGAGATAAG-GCT-TTATCTTAAATCTGCTTCCCTAC
65 AATACAGGAAGATAAGAGCTATTATCTTAAATCTACTTCACTAC
1886951 TACCTTTGGA
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
132 19 0.21
133 2 0.02
134 14 0.15
135 56 0.62
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (135 bp):
TTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATCTTTAACCTACTCCACTGCCA
ATACAGGAAGATAAGAGCTATTATCTTAAATCTACTTCACTACCAATATATGAAGACAAGATCTA
CTATC
Found at i:1887399 original size:88 final size:87
Alignment explanation
Indices: 1887237--1887442 Score: 268
Period size: 88 Copynumber: 2.3 Consensus size: 87
1887227 CCGCTACAAC
* * * * * * *
1887237 CCAGGGGGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
1 CCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTACTA
* *
1887302 TTTTTAACCTGGTCCACTGCAA
66 TCTTCAACCTGGTCCACTGCAA
*
1887324 CTCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGTAAGATCTACT
1 C-CAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTACT
* **
1887389 ATCTTCAACCTGTTCTGCTGCAA
65 ATCTTCAACCTGGTCCACTGCAA
*
1887412 CCGAGAGAGGCAAGGCTAGTGTCTTCGATCT
1 CC-AGGGAGGCAAGGCTAGTGTCTTCGATCT
1887443 ACTCCACTAC
Statistics
Matches: 103, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
87 2 0.02
88 101 0.98
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.27
Consensus pattern (87 bp):
CCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTACTA
TCTTCAACCTGGTCCACTGCAA
Found at i:1887515 original size:87 final size:87
Alignment explanation
Indices: 1887423--1887589 Score: 253
Period size: 87 Copynumber: 1.9 Consensus size: 87
1887413 CGAGAGAGGC
* * * *
1887423 AAGGCTAGTGTCTTCGATCTACTCCACTACTGCTTAGGGAGATTAGATCTGTAATTTTCAACCTA
1 AAGGCTAGGGACTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTCTCAACCTA
* *
1887488 CTCCGCTGCTGCTCAGGGAAAT
66 CTCCACTACTGCTCAGGGAAAT
* * *
1887510 AAGGCTGGGGACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTCTCAGCCTA
1 AAGGCTAGGGACTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTCTCAACCTA
1887575 CTCCACTACTGCTCA
66 CTCCACTACTGCTCA
1887590 AGGAGATAGG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (87 bp):
AAGGCTAGGGACTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTCTCAACCTA
CTCCACTACTGCTCAGGGAAAT
Done.