Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 6 of 373
Found at i:1648589 original size:48 final size:48
Alignment explanation
Indices: 1648478--1648618 Score: 122
Period size: 48 Copynumber: 2.9 Consensus size: 48
1648468 CAACTCCTGG
** * * ****
1648478 TGCACCAGCAGCAACACCAAGCACATCAATAGGAACGCCACCTCTTTG
1 TGCACCAGCAGCAACACCAAGCACGCCAATAGGAGCACCACCTCCCAA
*
1648526 TGCACCGGCCA-CAACACCAAGCACGCCAATAGGAGCACCACCTCCCAA
1 TGCACCAG-CAGCAACACCAAGCACGCCAATAGGAGCACCACCTCCCAA
* ** * * * *
1648574 TGCACCAGCTGCAACAGTAGGAAAGCCAATTGGAGCACCACCTCC
1 TGCACCAGCAGCAACACCAAGCACGCCAATAGGAGCACCACCTCC
1648619 TGGTGCACCT
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
47 1 0.01
48 71 0.96
49 2 0.03
ACGTcount: A:0.33, C:0.38, G:0.18, T:0.11
Consensus pattern (48 bp):
TGCACCAGCAGCAACACCAAGCACGCCAATAGGAGCACCACCTCCCAA
Found at i:1651630 original size:13 final size:13
Alignment explanation
Indices: 1651612--1651656 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
1651602 TATGTTTGCT
1651612 TATTATATAAATA
1 TATTATATAAATA
1651625 TATTATAT--AT-
1 TATTATATAAATA
*
1651635 TATTATATAAGTA
1 TATTATATAAATA
1651648 TATTATATA
1 TATTATATA
1651657 TTATTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 8 0.29
11 2 0.07
12 1 0.04
13 17 0.61
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
TATTATATAAATA
Found at i:1651637 original size:23 final size:23
Alignment explanation
Indices: 1651611--1651667 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
1651601 ATATGTTTGC
1651611 TTATTATATAAATATATTATATA
1 TTATTATATAAATATATTATATA
*
1651634 TTATTATATAAGTATATTATATA
1 TTATTATATAAATATATTATATA
1651657 TTATTAT-TAAA
1 TTATTATATAAA
1651668 AGTAAAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 3 0.09
23 29 0.91
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TTATTATATAAATATATTATATA
Found at i:1651664 original size:13 final size:13
Alignment explanation
Indices: 1651611--1651665 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
1651601 ATATGTTTGC
*
1651611 TTATTATATA-AA
1 TTATTATATATTA
1651623 TATATTATATATTA
1 T-TATTATATATTA
*
1651637 TTA-TATA-AGTA
1 TTATTATATATTA
1651648 -TATTATATATTA
1 TTATTATATATTA
1651660 TTATTA
1 TTATTA
1651666 AAAGTAAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
10 2 0.06
11 7 0.20
12 8 0.23
13 16 0.46
14 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
TTATTATATATTA
Found at i:1651769 original size:17 final size:19
Alignment explanation
Indices: 1651747--1651784 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1651737 CAGGGGAAGG
1651747 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
1651764 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
1651783 AA
1 AA
1651785 TTCAATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:1656510 original size:32 final size:32
Alignment explanation
Indices: 1656458--1656529 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
1656448 TGGCAAACTC
*
1656458 AAATGACCCTAAACCAAAACAACCCGAACATG
1 AAATGACCCTAAACCAAAACAACACGAACATG
* *
1656490 AAATGACCC-AAACCCGAAACAACATGAACATG
1 AAATGACCCTAAA-CCAAAACAACACGAACATG
*
1656522 AATTGACC
1 AAATGACC
1656530 TGAATTTGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 3 0.09
32 32 0.91
ACGTcount: A:0.49, C:0.29, G:0.11, T:0.11
Consensus pattern (32 bp):
AAATGACCCTAAACCAAAACAACACGAACATG
Found at i:1663238 original size:15 final size:15
Alignment explanation
Indices: 1663218--1663247 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1663208 TGCTTTGCGT
1663218 ACATTGAACCTTGAG
1 ACATTGAACCTTGAG
1663233 ACATTGAACCTTGAG
1 ACATTGAACCTTGAG
1663248 GGCTGCCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (15 bp):
ACATTGAACCTTGAG
Found at i:1664249 original size:16 final size:16
Alignment explanation
Indices: 1664218--1664251 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
1664208 AGTTAGACCT
1664218 AAATTTTAAAATTTAA
1 AAATTTTAAAATTTAA
1664234 AAATTCTTAAAA-TTAA
1 AAATT-TTAAAATTTAA
1664250 AA
1 AA
1664252 TTACATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTTTAAAATTTAA
Found at i:1664705 original size:6 final size:6
Alignment explanation
Indices: 1664666--1664717 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
1664656 TTTCGATTCG
* *
1664666 TTTTAA TTTTTA TATTTT- TTATTATA TTTTTA TTTGTA TTTTTA TTTTTA
1 TTTTTA TTTTTA T-TTTTA TT-TT-TA TTTTTA TTTTTA TTTTTA TTTTTA
1664716 TT
1 TT
1664718 GTAATATTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 1 0.03
6 29 0.74
7 7 0.18
8 2 0.05
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:1668478 original size:39 final size:39
Alignment explanation
Indices: 1668429--1668508 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
1668419 AGCACTGGCA
* *
1668429 GTCATTGAATTTATACCGA-AGGCCTATCCATCATAACAT
1 GTCATAGAATTTATA-CGATAGGCCCATCCATCATAACAT
*
1668468 GTCATAGAATTTATACGATAGGCCCATGCATCATAACAT
1 GTCATAGAATTTATACGATAGGCCCATCCATCATAACAT
1668507 GT
1 GT
1668509 TTGCAATTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 3 0.08
39 34 0.92
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (39 bp):
GTCATAGAATTTATACGATAGGCCCATCCATCATAACAT
Found at i:1670282 original size:21 final size:21
Alignment explanation
Indices: 1670258--1670304 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1670248 TAAAATTTGA
1670258 ATAATTATAAAAAAAATAACT
1 ATAATTATAAAAAAAATAACT
* * *
1670279 ATAAATCTAAAAAAATTAACT
1 ATAATTATAAAAAAAATAACT
1670300 -TAATT
1 ATAATT
1670305 TGAATAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAATTATAAAAAAAATAACT
Found at i:1675498 original size:14 final size:14
Alignment explanation
Indices: 1675479--1675512 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
1675469 TGATGTTCAT
1675479 GATTTAAGATTCGA
1 GATTTAAGATTCGA
1675493 GATTTAAGATTCGA
1 GATTTAAGATTCGA
*
1675507 AATTTA
1 GATTTA
1675513 GGATAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (14 bp):
GATTTAAGATTCGA
Found at i:1683916 original size:21 final size:20
Alignment explanation
Indices: 1683882--1683923 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
1683872 AACCAAATTT
*
1683882 AAAAATTAATAAATTAATAA
1 AAAAATTAAAAAATTAATAA
1683902 AAAAATTGAAAAAATTAATAA
1 AAAAATT-AAAAAATTAATAA
1683923 A
1 A
1683924 TTAATCAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAATTAAAAAATTAATAA
Found at i:1697068 original size:70 final size:70
Alignment explanation
Indices: 1696985--1697125 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
1696975 ATATCTTGAA
1696985 AAAGAATAGAGCTCAAATTTCTAATTTTCTTTCGGTCTAAGCCAACCAAGGTCTATGAATAGAGG
1 AAAGAATAGAGCTCAAATTTCTAATTTTCTTTCGGTCTAAGCCAACCAAGGTCTATGAATAGAGG
1697050 AACTG
66 AACTG
1697055 AAAGAATAGAGCTCAAATTTCTAATTTTCTTTCGGTCTAAGCCAACCAAGGTCTATGAATAGAGG
1 AAAGAATAGAGCTCAAATTTCTAATTTTCTTTCGGTCTAAGCCAACCAAGGTCTATGAATAGAGG
1697120 AACTG
66 AACTG
1697125 A
1 A
1697126 CAGGTACTTC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (70 bp):
AAAGAATAGAGCTCAAATTTCTAATTTTCTTTCGGTCTAAGCCAACCAAGGTCTATGAATAGAGG
AACTG
Found at i:1701381 original size:31 final size:31
Alignment explanation
Indices: 1701343--1701403 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
1701333 GCAAGTTTGA
* *
1701343 AGGAATATAATGAATTGTATAATAAATAAAG
1 AGGAATATAATCAATTATATAATAAATAAAG
*
1701374 AGGAATATAATCAATTATATGATAAATAAA
1 AGGAATATAATCAATTATATAATAAATAAA
1701404 ATATCAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.30
Consensus pattern (31 bp):
AGGAATATAATCAATTATATAATAAATAAAG
Found at i:1702161 original size:24 final size:22
Alignment explanation
Indices: 1702129--1702174 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1702119 TTATTACAAA
1702129 ATTTGTAAAAAATTGTAAAAAAAT
1 ATTTGT-AAAAATT-TAAAAAAAT
* *
1702153 ATTTTTAAAAGTTTAAAAAAAT
1 ATTTGTAAAAATTTAAAAAAAT
1702175 TATAAAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
23 6 0.30
24 5 0.25
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (22 bp):
ATTTGTAAAAATTTAAAAAAAT
Found at i:1702181 original size:8 final size:8
Alignment explanation
Indices: 1702170--1702217 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
1702160 AAAGTTTAAA
1702170 AAAATTAT
1 AAAATTAT
*
1702178 AAAATTCT
1 AAAATTAT
1702186 AAAA-TAT
1 AAAATTAT
*
1702193 ATAATTAT
1 AAAATTAT
*
1702201 AAAATTCT
1 AAAATTAT
1702209 AAAAATTAT
1 -AAAATTAT
1702218 TTAAATTTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
7 5 0.16
8 20 0.62
9 7 0.22
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (8 bp):
AAAATTAT
Found at i:1702310 original size:21 final size:21
Alignment explanation
Indices: 1702264--1702311 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1702254 AGTTAAATAC
1702264 CTTTTTTATAACATTTTTTAT
1 CTTTTTTATAACATTTTTTAT
*
1702285 ATTTTTTAT-ACATTATTTTGA-
1 CTTTTTTATAACATT-TTTT-AT
1702306 CTTTTT
1 CTTTTT
1702312 ACAATTTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.22
21 17 0.74
22 1 0.04
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (21 bp):
CTTTTTTATAACATTTTTTAT
Found at i:1703871 original size:19 final size:18
Alignment explanation
Indices: 1703844--1703887 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
1703834 TCTCTCACAA
*
1703844 AAAAATTAAAATAATTTTT
1 AAAAATTAAAAT-ATTTAT
*
1703863 AAAATTTAAAATATTTAT
1 AAAAATTAAAATATTTAT
1703881 AAAAATT
1 AAAAATT
1703888 TCAAATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAAATTAAAATATTTAT
Found at i:1703888 original size:19 final size:19
Alignment explanation
Indices: 1703843--1703899 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
1703833 TTCTCTCACA
*
1703843 AAAAAATTAAAATAATTT-T
1 AAAAATTTAAAAT-ATTTAT
*
1703862 TAAAATTTAAAATATTTAT
1 AAAAATTTAAAATATTTAT
*
1703881 AAAAATTTCAAAT-TTTAT
1 AAAAATTTAAAATATTTAT
1703899 A
1 A
1703900 TTTAAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 10 0.30
19 23 0.70
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAAATTTAAAATATTTAT
Found at i:1704198 original size:31 final size:26
Alignment explanation
Indices: 1704175--1704235 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 26
1704165 TTCACTTGAT
1704175 TCGATTCGACTCGAATTACATTTCAC
1 TCGATTCGACTCGAATTACATTTCAC
1704201 TCGATTCGACTCGAATTACATTTCA-
1 TCGATTCGACTCGAATTACATTTCAC
1704226 TCCGATTCGA
1 T-CGATTCGA
1704236 TTTAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 1 0.03
26 33 0.97
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.34
Consensus pattern (26 bp):
TCGATTCGACTCGAATTACATTTCAC
Found at i:1704236 original size:31 final size:29
Alignment explanation
Indices: 1704163--1704237 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 29
1704153 AACTCAAATA
1704163 ATTTCACTTGATTCGATTCGACTCGAATTAC
1 ATTTCAC--GATTCGATTCGACTCGAATTAC
1704194 ATTTCAC---TCGATTCGACTCGAATTAC
1 ATTTCACGATTCGATTCGACTCGAATTAC
1704220 ATTTCATCCGATTCGATT
1 ATTTCA--CGATTCGATT
1704238 TAAAAAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
26 25 0.64
28 1 0.03
31 13 0.33
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (29 bp):
ATTTCACGATTCGATTCGACTCGAATTAC
Found at i:1705008 original size:53 final size:53
Alignment explanation
Indices: 1704950--1705050 Score: 175
Period size: 53 Copynumber: 1.9 Consensus size: 53
1704940 ATAAATGTTA
*
1704950 AATCAACATTCATTCCAGAATAATAAACCCTAAATCTTAAACTATACCGAGCC
1 AATCAACATTCATTCCAGAATAATAAACCCTAAATCCTAAACTATACCGAGCC
* *
1705003 AATCAACATTCATTCGAGAATAATAAACCCTAAATCCTAAATTATACC
1 AATCAACATTCATTCCAGAATAATAAACCCTAAATCCTAAACTATACC
1705051 AAACTAATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.26
Consensus pattern (53 bp):
AATCAACATTCATTCCAGAATAATAAACCCTAAATCCTAAACTATACCGAGCC
Found at i:1708607 original size:17 final size:17
Alignment explanation
Indices: 1708585--1708618 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1708575 ATCCACTAAT
*
1708585 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1708602 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1708619 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1713246 original size:17 final size:17
Alignment explanation
Indices: 1713224--1713257 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1713214 ATCCACTAAT
*
1713224 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1713241 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1713258 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1720633 original size:13 final size:13
Alignment explanation
Indices: 1720615--1720641 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1720605 TGACATGCCC
1720615 CATGTACTTTATT
1 CATGTACTTTATT
1720628 CATGTACTTTATT
1 CATGTACTTTATT
1720641 C
1 C
1720642 TGACATACAA
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:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (13 bp):
CATGTACTTTATT
Found at i:1722091 original size:9 final size:9
Alignment explanation
Indices: 1722077--1722113 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
1722067 TATAGTTTAA
1722077 TATTCGAAT
1 TATTCGAAT
1722086 TATTCGAAT
1 TATTCGAAT
*
1722095 TATTCGAGT
1 TATTCGAAT
1722104 TATTCGAAT
1 TATTCGAAT
1722113 T
1 T
1722114 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:1739379 original size:39 final size:39
Alignment explanation
Indices: 1739335--1739413 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
1739325 AAATACATAG
1739335 CACCGATAAAGCTAGATATACAATTTGAAGGTATTGTTA
1 CACCGATAAAGCTAGATATACAATTTGAAGGTATTGTTA
1739374 CACCGATAAAGCTAGATATACAATTTGAAGGTATTGTTA
1 CACCGATAAAGCTAGATATACAATTTGAAGGTATTGTTA
1739413 C
1 C
1739414 TTTGCCCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (39 bp):
CACCGATAAAGCTAGATATACAATTTGAAGGTATTGTTA
Found at i:1743073 original size:21 final size:22
Alignment explanation
Indices: 1743040--1743082 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1743030 ATTAAAATTG
1743040 TTAATACAATTAATCAAT-TTGT
1 TTAATACAATTAA-CAATGTTGT
*
1743062 TTAAT-CACTTAACAATGTTGT
1 TTAATACAATTAACAATGTTGT
1743083 AATTTTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (22 bp):
TTAATACAATTAACAATGTTGT
Found at i:1750992 original size:26 final size:26
Alignment explanation
Indices: 1750936--1750995 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
1750926 ATATTAAATT
1750936 TATTTTAATGTGTAATTTAATACATA
1 TATTTTAATGTGTAATTTAATACATA
* * **
1750962 AATTTTAAT-TTTAATTTAATTATGTA
1 TATTTTAATGTGTAATTTAA-TACATA
1750988 TATTTTAA
1 TATTTTAA
1750996 GAAATAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (26 bp):
TATTTTAATGTGTAATTTAATACATA
Found at i:1757475 original size:16 final size:15
Alignment explanation
Indices: 1757449--1757480 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
1757439 CGTGCGTTTA
1757449 CTGAAAAGAACAATG
1 CTGAAAAGAACAATG
1757464 CTGAAGAAGAACAATG
1 CTGAA-AAGAACAATG
1757480 C
1 C
1757481 AATGAAGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.16, G:0.22, T:0.12
Consensus pattern (15 bp):
CTGAAAAGAACAATG
Found at i:1758591 original size:13 final size:12
Alignment explanation
Indices: 1758573--1758632 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 12
1758563 AAAAACATTA
1758573 AAATTAATTAAAT
1 AAATTAATT-AAT
*
1758586 AAATTATTTAAT
1 AAATTAATTAAT
** *
1758598 TTATTACTGTAAT
1 AAATTAAT-TAAT
1758611 AAATTAATTAAT
1 AAATTAATTAAT
1758623 AAATTTAATT
1 AAA-TTAATT
1758633 TCATTCTGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 15 0.39
13 23 0.61
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (12 bp):
AAATTAATTAAT
Found at i:1758603 original size:25 final size:25
Alignment explanation
Indices: 1758575--1758622 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1758565 AAACATTAAA
*
1758575 ATTAAT-TAAATAAATTATTTAATTT
1 ATTAATGT-AATAAATTAATTAATTT
*
1758600 ATTACTGTAATAAATTAATTAAT
1 ATTAATGTAATAAATTAATTAAT
1758623 AAATTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
ATTAATGTAATAAATTAATTAATTT
Found at i:1758762 original size:14 final size:15
Alignment explanation
Indices: 1758725--1758756 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1758715 TCTACAAAAC
1758725 TTAAA-AAATCATGT
1 TTAAATAAATCATGT
1758739 TTAAATAAATCATGT
1 TTAAATAAATCATGT
1758754 TTA
1 TTA
1758757 GTAAATAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (15 bp):
TTAAATAAATCATGT
Found at i:1762652 original size:18 final size:19
Alignment explanation
Indices: 1762608--1762654 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
1762598 ATATGTCACT
1762608 TTAACAAATA-ATTTAAAAG
1 TTAA-AAATATATTTAAAAG
* *
1762627 TTATAAATATATTTTAAA-
1 TTAAAAATATATTTAAAAG
1762645 TTAAAAATAT
1 TTAAAAATAT
1762655 CAAACTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TTAAAAATATATTTAAAAG
Found at i:1765564 original size:31 final size:31
Alignment explanation
Indices: 1765529--1765589 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
1765519 CATTACTGTA
*
1765529 ACTTAACTAAAAAAGTTCAAATAGTTCAATG
1 ACTTAAATAAAAAAGTTCAAATAGTTCAATG
* ** *
1765560 ACTTAAATGAAAACTTTCATATAGTTCAAT
1 ACTTAAATAAAAAAGTTCAAATAGTTCAAT
1765590 TATTATTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (31 bp):
ACTTAAATAAAAAAGTTCAAATAGTTCAATG
Found at i:1777558 original size:22 final size:22
Alignment explanation
Indices: 1777520--1777563 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1777510 TTTATTAATT
1777520 AAATTTAATTATGAAAATATATA
1 AAATTTAATTA-GAAAATATATA
1777543 AAATATTAATTA-AAAATATAT
1 AAAT-TTAATTAGAAAATATAT
1777564 TTTTATATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 4 0.20
24 7 0.35
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AAATTTAATTAGAAAATATATA
Found at i:1777840 original size:35 final size:35
Alignment explanation
Indices: 1777794--1777863 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
1777784 ATAAAATAAG
1777794 TTAGTACATGATAAAATTACACTTTTTGTCATTCA
1 TTAGTACATGATAAAATTACACTTTTTGTCATTCA
1777829 TTAGTACATGATAAAATTACACTTTTTGTCATTCA
1 TTAGTACATGATAAAATTACACTTTTTGTCATTCA
1777864 ATAATTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (35 bp):
TTAGTACATGATAAAATTACACTTTTTGTCATTCA
Found at i:1781733 original size:32 final size:32
Alignment explanation
Indices: 1781684--1781750 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 32
1781674 AACTTTTATG
*
1781684 AAATATTTTCAGAAAATTTA-TCAAACAACCAA
1 AAATATTTTCAGAAAATTCATTCAAA-AACCAA
* *
1781716 AAATATTTTACA-TAAATTCATTCAAATACCAA
1 AAATATTTT-CAGAAAATTCATTCAAAAACCAA
1781748 AAA
1 AAA
1781751 ATTATTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
32 23 0.77
33 7 0.23
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (32 bp):
AAATATTTTCAGAAAATTCATTCAAAAACCAA
Found at i:1784788 original size:60 final size:60
Alignment explanation
Indices: 1784712--1784850 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 60
1784702 TTTTTTCTTT
* * * * *
1784712 ATCCAATTATGAAAGTTACT-AAATGGTTACTTAATTA-CTAGTATATTTCTTTTTTTG-CC
1 ATCCAAATATGAAAGTTACTAAAATGGTCACTCAACTATC-AGTAAATTTC-TTTTTTGACC
* *
1784771 ATTCAAATATGAGAAGTTA-TAAAATGGTCACTCAACTATCAGTAAATTTCTTTTTTGATC
1 ATCCAAATATGA-AAGTTACTAAAATGGTCACTCAACTATCAGTAAATTTCTTTTTTGACC
1784831 ATCCAAATATGAAAAGTTAC
1 ATCCAAATATG-AAAGTTAC
1784851 AACATAGCTA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
59 18 0.27
60 46 0.70
61 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (60 bp):
ATCCAAATATGAAAGTTACTAAAATGGTCACTCAACTATCAGTAAATTTCTTTTTTGACC
Found at i:1785760 original size:13 final size:13
Alignment explanation
Indices: 1785742--1785774 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1785732 TTTTTTCATC
1785742 TTAATTATTTTTT
1 TTAATTATTTTTT
1785755 TTAATTATTTTTT
1 TTAATTATTTTTT
*
1785768 TCAATTA
1 TTAATTA
1785775 ATAGATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (13 bp):
TTAATTATTTTTT
Found at i:1794636 original size:18 final size:18
Alignment explanation
Indices: 1794613--1794648 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1794603 AGAAGAAATG
1794613 TAGTTCTATACGGATTCT
1 TAGTTCTATACGGATTCT
1794631 TAGTTCTATACGGATTCT
1 TAGTTCTATACGGATTCT
1794649 ACTTGTGCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (18 bp):
TAGTTCTATACGGATTCT
Found at i:1796124 original size:23 final size:23
Alignment explanation
Indices: 1796063--1796128 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 23
1796053 ATATAGATAT
*
1796063 TTATTAATTATTATT-CTATTAAA
1 TTATT-ATTATTATTATTATTAAA
*
1796086 TTA-TAAT-TTA-TATTATTAAA
1 TTATTATTATTATTATTATTAAA
1796106 TTATTATTATTATTATTATTAAA
1 TTATTATTATTATTATTATTAAA
1796129 AATAAATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
19 1 0.03
20 13 0.36
21 5 0.14
22 4 0.11
23 13 0.36
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
TTATTATTATTATTATTATTAAA
Found at i:1796424 original size:13 final size:14
Alignment explanation
Indices: 1796406--1796452 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 14
1796396 TTATAAAGGT
1796406 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
1796419 AATAAAAGAAATGA
1 AATAAAATAAAAGA
1796433 AATAAAAT-AAAGA
1 AATAAAATAAAAGA
1796446 AATAAAA
1 AATAAAA
1796453 CAAAGTAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 22 0.76
14 7 0.24
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.15
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:1796446 original size:18 final size:18
Alignment explanation
Indices: 1796410--1796464 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
1796400 AAAGGTAATA
* *
1796410 AAATAAAAGAATA-AAAG
1 AAATAAAACAAAATAAAG
* *
1796427 AAATGAAATAAAATAAAG
1 AAATAAAACAAAATAAAG
*
1796445 AAATAAAACAAAGTAAAG
1 AAATAAAACAAAATAAAG
1796463 AA
1 AA
1796465 GAAACATAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
17 10 0.32
18 21 0.68
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.13
Consensus pattern (18 bp):
AAATAAAACAAAATAAAG
Found at i:1797182 original size:45 final size:45
Alignment explanation
Indices: 1797076--1797182 Score: 162
Period size: 45 Copynumber: 2.4 Consensus size: 45
1797066 CGATTACTGT
* *
1797076 TACTGTTACCGTTACTATTACCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCGACACTTTGTGTGTCGAA
*
1797121 TACTGTTACCGTTACTGTTACAGATTC-AGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCGA-CACTTTGTGTGTCGAA
*
1797166 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
1797183 CTACTGCTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
44 1 0.02
45 56 0.98
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCGACACTTTGTGTGTCGAA
Found at i:1799751 original size:25 final size:25
Alignment explanation
Indices: 1799717--1799767 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
1799707 ACATCATAGT
1799717 TAAGGTTTTTAGACAATCTTTACTC
1 TAAGGTTTTTAGACAATCTTTACTC
1799742 TAAGGTTTTTAGACAATCTTTACTC
1 TAAGGTTTTTAGACAATCTTTACTC
1799767 T
1 T
1799768 TACTCTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (25 bp):
TAAGGTTTTTAGACAATCTTTACTC
Found at i:1815000 original size:58 final size:60
Alignment explanation
Indices: 1814892--1815013 Score: 158
Period size: 58 Copynumber: 2.0 Consensus size: 60
1814882 TACAAAACCA
*
1814892 ATTCAATCAATAAATTCCGAAAAAAAAAACATAATCAAACAAGAACACTTATGTTACTC-G
1 ATTCAATCAATAAATTCCG-AAAAAAAAACATAATCAAACAAGAACACTTATATTACTCTG
* * * * * *
1814952 ATTCAATTAATAAATTTCG-AAGAAAAACATGATCGAACAAGAATACTTATATTACTCTG
1 ATTCAATCAATAAATTCCGAAAAAAAAACATAATCAAACAAGAACACTTATATTACTCTG
1815011 ATT
1 ATT
1815014 TGGGTGTGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 33 0.61
59 4 0.07
60 17 0.31
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (60 bp):
ATTCAATCAATAAATTCCGAAAAAAAAACATAATCAAACAAGAACACTTATATTACTCTG
Found at i:1820570 original size:14 final size:13
Alignment explanation
Indices: 1820548--1820584 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
1820538 ACTCACTTAT
*
1820548 TTAAAATATATTA
1 TTAAAATATATAA
1820561 -TAAAATATATAA
1 TTAAAATATATAA
1820573 TTAAAATA-ATAA
1 TTAAAATATATAA
1820585 AAATAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAATATATAA
Found at i:1821012 original size:25 final size:26
Alignment explanation
Indices: 1820979--1821030 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
1820969 TACAATGTTA
*
1820979 AAATTAAATAA-TATTTAAAAAAATT
1 AAATAAAATAATTATTTAAAAAAATT
**
1821004 AAATAAAATAATTATTTTTAAAAATT
1 AAATAAAATAATTATTTAAAAAAATT
1821030 A
1 A
1821031 GAAATAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
AAATAAAATAATTATTTAAAAAAATT
Found at i:1821579 original size:30 final size:31
Alignment explanation
Indices: 1821523--1821581 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
1821513 TATATCAAAT
1821523 CAAAATTCATGTATTAAATTACACATTTAAC
1 CAAAATTCATGTATTAAATTACACATTTAAC
* **
1821554 CAAAGTTCATGTA-TAAATTTGACATTTA
1 CAAAATTCATGTATTAAATTACACATTTA
1821582 TCTTTTACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (31 bp):
CAAAATTCATGTATTAAATTACACATTTAAC
Found at i:1821942 original size:32 final size:33
Alignment explanation
Indices: 1821889--1821959 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 33
1821879 AAACTTATCC
* * *
1821889 AAAAGTACCTAGTTGGTACCTGAA-TTGTCTAA
1 AAAAATACGTAGTTGGCACCTGAACTTGTCTAA
*
1821921 ACAAATACGTAGTTGGCACCTGAACTTGTCTAA
1 AAAAATACGTAGTTGGCACCTGAACTTGTCTAA
1821954 AAAAAT
1 AAAAAT
1821960 TGTACTCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
32 20 0.61
33 13 0.39
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (33 bp):
AAAAATACGTAGTTGGCACCTGAACTTGTCTAA
Found at i:1825127 original size:38 final size:38
Alignment explanation
Indices: 1825038--1825126 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 38
1825028 AACAATAATA
* * **
1825038 TTTAATACAATGAAATATTTATTATATTTATTTGTTTT
1 TTTAATATAATAAAATATTTATTATATTTATAAGTTTT
1825076 TTTAATATAATAAAATATTTATTATATTTATGGAAGTGTTT
1 TTTAATATAATAAAATATTTATTATATTTAT--AAGT-TTT
1825117 TTTAATATAA
1 TTTAATATAA
1825127 ATACTTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 29 0.66
40 2 0.05
41 13 0.30
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (38 bp):
TTTAATATAATAAAATATTTATTATATTTATAAGTTTT
Found at i:1825796 original size:17 final size:19
Alignment explanation
Indices: 1825761--1825796 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
1825751 TAATGACAAT
1825761 AAAATAATTTAATAACATA
1 AAAATAATTTAATAACATA
1825780 AAAAT-ATTTAA-AACATA
1 AAAATAATTTAATAACATA
1825797 TATTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATAATTTAATAACATA
Found at i:1826334 original size:3 final size:3
Alignment explanation
Indices: 1826326--1826364 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1826316 TTAGACTTCT
1826326 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1826365 TGAACTTTCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1826390 original size:3 final size:3
Alignment explanation
Indices: 1826382--1826417 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1826372 TCGAGATTCA
1826382 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1826418 TACCTTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1834485 original size:71 final size:71
Alignment explanation
Indices: 1834399--1834539 Score: 255
Period size: 71 Copynumber: 2.0 Consensus size: 71
1834389 GAAAATAACT
* *
1834399 CTTAAATTTTATCAAACTGTCCATGCCGTAAGTACACAAGTACTTCAGACTTCAGAGTTTGATTC
1 CTTAAATTTTATCAAACTGTCCATGCCATAAGTACACAAGTACTTAAGACTTCAGAGTTTGATTC
1834464 ACGTGA
66 ACGTGA
*
1834470 CTTAAATTTTATCAAACTGTCCATGCCATAAGTACACAAGTACTTAAGACTTTAGAGTTTGATTC
1 CTTAAATTTTATCAAACTGTCCATGCCATAAGTACACAAGTACTTAAGACTTCAGAGTTTGATTC
1834535 ACGTG
66 ACGTG
1834540 CTTCAAGTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (71 bp):
CTTAAATTTTATCAAACTGTCCATGCCATAAGTACACAAGTACTTAAGACTTCAGAGTTTGATTC
ACGTGA
Found at i:1834897 original size:49 final size:53
Alignment explanation
Indices: 1834843--1834951 Score: 136
Period size: 53 Copynumber: 2.1 Consensus size: 53
1834833 AAAACAATCA
* *
1834843 TCAAAA-AGAAAAG-T-GTAATGCCATCCAAATTGTCA-TCGAATCAAGAAAC
1 TCAAAAGAGAAAAGTTAATAATGCCATCCAAATTATCATTCGAATCAAGAAAC
* ***
1834892 TCAAAAGGGAGGGGTTAATAATGCCATCCAAATTATCATTCGAATCAAGAAAC
1 TCAAAAGAGAAAAGTTAATAATGCCATCCAAATTATCATTCGAATCAAGAAAC
1834945 TCAAAAG
1 TCAAAAG
1834952 GGAGGGGTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
49 6 0.12
50 3 0.06
51 1 0.02
52 19 0.38
53 21 0.42
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (53 bp):
TCAAAAGAGAAAAGTTAATAATGCCATCCAAATTATCATTCGAATCAAGAAAC
Found at i:1834918 original size:52 final size:53
Alignment explanation
Indices: 1834858--1834962 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
1834848 AAGAAAAGTG
*
1834858 TAATGCCATCCAAATTGTCA-TCGAATCAAGAAACTCAAAAGGGAGGGGTTAA
1 TAATGCCATCCAAATTATCATTCGAATCAAGAAACTCAAAAGGGAGGGGTTAA
1834910 TAATGCCATCCAAATTATCATTCGAATCAAGAAACTCAAAAGGGAGGGGTTAA
1 TAATGCCATCCAAATTATCATTCGAATCAAGAAACTCAAAAGGGAGGGGTTAA
1834963 CCTTACTTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 19 0.37
53 32 0.63
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (53 bp):
TAATGCCATCCAAATTATCATTCGAATCAAGAAACTCAAAAGGGAGGGGTTAA
Found at i:1842225 original size:20 final size:20
Alignment explanation
Indices: 1842199--1842240 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
1842189 CAAATTTAAT
1842199 AAAAAAAAATTACAA-GAAATG
1 AAAAAAAAA-T-CAATGAAATG
1842220 AAAAAAAAATCAATGAAATG
1 AAAAAAAAATCAATGAAATG
1842240 A
1 A
1842241 GAGAATTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 8 0.40
21 9 0.45
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.14
Consensus pattern (20 bp):
AAAAAAAAATCAATGAAATG
Found at i:1844084 original size:17 final size:16
Alignment explanation
Indices: 1844048--1844100 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
1844038 TTTTCTTTAT
*
1844048 TTTTCATTCTCT-TCTG
1 TTTT-ATTCTCTCTCTA
1844064 TTTTACTTCTCTCTCTA
1 TTTTA-TTCTCTCTCTA
*
1844081 TTTTATTCCCTTCTCTA
1 TTTTATTCTC-TCTCTA
1844098 TTT
1 TTT
1844101 ATTTTAACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 1 0.03
16 14 0.44
17 17 0.53
ACGTcount: A:0.09, C:0.26, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTATTCTCTCTCTA
Found at i:1845757 original size:17 final size:17
Alignment explanation
Indices: 1845735--1845769 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1845725 TCCATTGCCT
*
1845735 CTGAATAAATGAGACTG
1 CTGAATAAACGAGACTG
1845752 CTGAATAAACGAGACTG
1 CTGAATAAACGAGACTG
1845769 C
1 C
1845770 AAATCTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (17 bp):
CTGAATAAACGAGACTG
Found at i:1853280 original size:28 final size:28
Alignment explanation
Indices: 1853249--1853319 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
1853239 ATATTGATTT
* * * *
1853249 TTAAATCTATTAAGTCAAATTAGTTCAA
1 TTAAATCTATTAAATCAAAATAATTAAA
1853277 TTAAATCTATTAAATCAAAATAATTAAA
1 TTAAATCTATTAAATCAAAATAATTAAA
*
1853305 TTAAATCTATAAAAT
1 TTAAATCTATTAAAT
1853320 AGGTTTAAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (28 bp):
TTAAATCTATTAAATCAAAATAATTAAA
Found at i:1853319 original size:14 final size:14
Alignment explanation
Indices: 1853249--1853319 Score: 56
Period size: 14 Copynumber: 5.1 Consensus size: 14
1853239 ATATTGATTT
*
1853249 TTAAATCTATTAAG
1 TTAAATCTATTAAA
* *
1853263 TCAAAT-TAGTTCAA
1 TTAAATCTA-TTAAA
1853277 TTAAATCTATTAAA
1 TTAAATCTATTAAA
* *
1853291 TCAAAAT-AATTAAA
1 T-TAAATCTATTAAA
*
1853305 TTAAATCTATAAAA
1 TTAAATCTATTAAA
1853319 T
1 T
1853320 AGGTTTAAGT
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
13 6 0.14
14 31 0.72
15 6 0.14
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (14 bp):
TTAAATCTATTAAA
Found at i:1855969 original size:17 final size:16
Alignment explanation
Indices: 1855949--1855991 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
1855939 TCTTTCGAAA
*
1855949 TTTCTTTTTTTTCTTTT
1 TTTCTTTTTTTT-TTTC
1855966 TTTCTTTTATTTTTTTC
1 TTTCTTTT-TTTTTTTC
*
1855983 TCTCTTTTT
1 TTTCTTTTT
1855992 ATGTACATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 18 0.78
18 4 0.17
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTCTTTTTTTTTTTC
Found at i:1856902 original size:25 final size:25
Alignment explanation
Indices: 1856851--1856907 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
1856841 TTTGTAACTA
* * *
1856851 TATTGTGCATATATTTTATATATAT
1 TATTATGCATATATTTTACATACAT
1856876 TATTATGCATATATTTTAGCAT-CAT
1 TATTATGCATATATTTTA-CATACAT
1856901 TAGTTAT
1 TA-TTAT
1856908 ACATTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.53
Consensus pattern (25 bp):
TATTATGCATATATTTTACATACAT
Found at i:1857397 original size:16 final size:16
Alignment explanation
Indices: 1857354--1857403 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
1857344 CCGTTAGCCC
1857354 AACTAACCTAAACCCA
1 AACTAACCTAAACCCA
* **
1857370 TTAC-AAATTAAACCCA
1 -AACTAACCTAAACCCA
1857386 AACTAACCTAAACCCA
1 AACTAACCTAAACCCA
1857402 AA
1 AA
1857404 ACCCTGTAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
15 2 0.08
16 22 0.85
17 2 0.08
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (16 bp):
AACTAACCTAAACCCA
Found at i:1858445 original size:3 final size:3
Alignment explanation
Indices: 1858422--1858472 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
1858412 ATTTTTATAA
* * *
1858422 TAT TAG TAT TTT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
1858471 TA
1 TA
1858473 GCTTATGTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1859988 original size:19 final size:20
Alignment explanation
Indices: 1859945--1859990 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 20
1859935 CAACAATAAT
1859945 ATAAAATA-ATGATATGTAC
1 ATAAAATATATGATATGTAC
1859964 --AAAATATAT-ATATGTAC
1 ATAAAATATATGATATGTAC
1859981 ATAAAATATA
1 ATAAAATATA
1859991 CACTAATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 14 0.58
18 2 0.08
19 8 0.33
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (20 bp):
ATAAAATATATGATATGTAC
Found at i:1860288 original size:29 final size:30
Alignment explanation
Indices: 1860256--1860315 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
1860246 AACACACTAC
1860256 ATAAGTAAATAAAATA-TAATAAT-ACTAAA
1 ATAAGTAAATAAAATAGTAA-AATAACTAAA
* * *
1860285 ATAATTAATTTAAATAGTAAAATAACTAAA
1 ATAAGTAAATAAAATAGTAAAATAACTAAA
1860315 A
1 A
1860316 AAGGATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (30 bp):
ATAAGTAAATAAAATAGTAAAATAACTAAA
Found at i:1861067 original size:18 final size:18
Alignment explanation
Indices: 1861015--1861071 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
1861005 GGTTTCTTAG
1861015 TTTTTTTTTGGGTTAGGT
1 TTTTTTTTTGGGTTAGGT
*
1861033 TTTTTCTTTT---TT--CT
1 TTTTT-TTTTGGGTTAGGT
1861047 TTTTTTTTTGGGTTAGGT
1 TTTTTTTTTGGGTTAGGT
1861065 TTTTTTT
1 TTTTTTT
1861072 GGGGGGGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
13 4 0.13
14 6 0.19
16 4 0.13
18 13 0.42
19 4 0.13
ACGTcount: A:0.04, C:0.04, G:0.18, T:0.75
Consensus pattern (18 bp):
TTTTTTTTTGGGTTAGGT
Found at i:1862127 original size:75 final size:74
Alignment explanation
Indices: 1861824--1862857 Score: 995
Period size: 72 Copynumber: 13.7 Consensus size: 74
1861814 GTGATCTGAA
* *
1861824 GCTCAACGCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAAAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAA-ACAGAAATTGAAAATACCTCA
* * *
1861889 GTATGTGAAC-CGAG
63 G--CGTG-TCTTGAG
* * *
1861903 GCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAA-A-AAAATGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
1861965 TGTCTTGAG
66 TGTCTTGAG
** * * *
1861974 GCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
**
1862037 TGTCCCGAG
66 TGTCTTGAG
*
1862046 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
*
1862111 ATGTCTTGAG
65 GTGTCTTGAG
** * * *
1862121 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTACAACAGAAATTGAAATTACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
*
1862186 GTGTCCTGAG
65 GTGTCTTGAG
* * *
1862196 GCTCAACTCACCTCTCGTAATATAAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
1862261 GTGTCTTGAG
65 GTGTCTTGAG
* ** * * *
1862271 GCTCAACTTATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAAAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
1862334 TGTCTTGAG
66 TGTCTTGAG
** * * * *
1862343 GCTCAACTCATTTCTCACAATATGAGTTGA--ATTTTGAAAACATAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
**
1862406 TGTCCCGAG
66 TGTCTTGAG
* ** ** ** * * * *
1862415 GCTCAACTCACCTCTCACAGAAATTAAAAAGCTCAACTCACCTTTCG-CAATATAAATTGAAAAA
1 GCTCAACTCACCTCT--C-GCAA-T-ATGAG-TTGA-T--TTTTTTGAAAACAGAAATTG---AA
* * *
1862479 AATACCACAATGTGTGATC-TGAA
54 AATACCTC-A-GCGTG-TCTTGAG
1862502 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAA-ACAGAAATTGAAAATACCTC
* **
1862567 AGCATG-CGAACCGAG
62 AGCGTGTC---TTGAG
* * *
1862582 GCTCAATTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
1862647 TGTCTTGAG
66 TGTCTTGAG
** * *
1862656 GCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCA--G
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
1862717 TGTCTTGAG
66 TGTCTTGAG
** * * *
1862726 GCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAACAGAAATTGAAAATACCTCAG
*
1862791 CGTGTCCTGAG
64 CGTGTCTTGAG
* *
1862802 GCTCCACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAA
1862858 ACGGAAATTG
Statistics
Matches: 801, Mismatches: 114, Indels: 84
0.80 0.11 0.08
Matches are distributed among these distances:
70 49 0.06
71 34 0.04
72 197 0.25
73 16 0.02
74 77 0.10
75 190 0.24
76 80 0.10
77 15 0.02
78 5 0.01
79 29 0.04
80 39 0.05
81 6 0.01
82 14 0.02
83 14 0.02
84 3 0.00
85 9 0.01
86 1 0.00
87 21 0.03
88 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (74 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
TGTCTTGAG
Found at i:1862252 original size:297 final size:297
Alignment explanation
Indices: 1861836--1862993 Score: 1182
Period size: 297 Copynumber: 3.8 Consensus size: 297
1861826 TCAACGCACC
* * * *
1861836 TCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAAAAATTGAAAATACCTCAGTATGTGAACC-
1 TCTCGCAATATGAGTTGATTTTTTTTTGACA-ACAGAAATTGAAAATACCTCAG--CGTGATCCT
*
1861900 GAGGCTCAACTCACCTCTCGCAATATAAGTTGA---TTTTTTGAAAA-A-AAAATGAAAATACCT
63 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATACCT
* **
1861960 CAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGA
128 CAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTGAAAACAGAAATTGA
* ** * *
1862024 AATTACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGA
193 AAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAA-A
*
1862089 CAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATT
255 CAAAAATTGAAATTACCTCAGC-TGTCTTGAGGCTCAACTCATT
*
1862133 TCTCGCAATATGAGTTGATTTTTTTTT-ACAACAGAAATTGAAATTACCTCAGCGTG-TCCTGAG
1 TCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAAATACCTCAGCGTGATCCTGAG
*
1862196 GCTCAACTCACCTCTCGTAATATAAGTTGA-TTTTTTTTGAAAACAGAAATTGAAAATACCTCAA
66 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATACCTCAA
* * ** *
1862260 CGTGTCTTGAGGCTCAACTTATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAAAAATTGAAAA
131 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTGAAAACAGAAATTGAAAA
* ** * *
1862324 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAATTTTGAAAACATAAA
196 TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAAAAA
** *
1862389 TTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTC
261 TTGAAATTACCTCAGC-TGTCTTGAGGCTCAACTCA--TT
* * ** ** **** * * * * *
1862429 TCACAGAAATTAAAAAGCTCAACTCACCTTTCG-CAATATAAATTGAAAAAAATACCACAATGTG
1 TCTC-GCAA-T-ATGAG-TTGA-TTTTTTTTTGACAACAGAAATTG---AAAATACCTC-A-GCG
* *
1862493 TGAT-CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTG
56 TGATCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTTTTGAAA-ACAGAAATTG
* * * * * *
1862557 AAAATACCTCAGCATG-CGAACCGAGGCTCAATTCACCTCTCGCAATATAAGTTGATTTTTTTGA
119 AAAATACCTCAACGTGTC---CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TATTTTGA
* **
1862621 AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
180 AAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
1862686 ATTTTGAAAACAGAAATTGAAATTACCTCAG-TGTCTTGAGGCTCAACTCATT
245 ATTTTGAAAACAAAAATTGAAATTACCTCAGCTGTCTTGAGGCTCAACTCATT
* *
1862738 TCTCACAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTG-TCCTGAG
1 TCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAAATACCTCAGCGTGATCCTGAG
* * *
1862802 GCTCCACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATT
66 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTT------------TTG-AAAACAGAAATT
** * * * *
1862867 GAAAATACCTCGGCGTGTAACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGA
118 GAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TATTTTGA
* *
1862932 CAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAA-TCACCTCTCGCAATATGAGTT
180 AAACAGAAATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1862994 TATTTTTTTA
Statistics
Matches: 723, Mismatches: 92, Indels: 79
0.81 0.10 0.09
Matches are distributed among these distances:
292 2 0.00
293 35 0.05
294 38 0.05
295 39 0.05
296 7 0.01
297 150 0.21
298 1 0.00
299 11 0.02
300 39 0.05
301 15 0.02
302 8 0.01
304 13 0.02
305 13 0.02
306 39 0.05
307 2 0.00
308 15 0.02
309 28 0.04
310 23 0.03
311 142 0.20
312 3 0.00
313 99 0.14
314 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (297 bp):
TCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAAATACCTCAGCGTGATCCTGAG
GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATACCTCAA
CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTGAAAACAGAAATTGAAAA
TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAAAAA
TTGAAATTACCTCAGCTGTCTTGAGGCTCAACTCATT
Found at i:1862925 original size:91 final size:87
Alignment explanation
Indices: 1862772--1862946 Score: 244
Period size: 91 Copynumber: 2.0 Consensus size: 87
1862762 TTTGACAACA
* * * *
1862772 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCCACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTT
1862837 TTGA-AAGGCAGAAATTGAAAAACG
66 TTGACAA--CAGAAATT-AAAAACG
* *
1862861 GAAATTGAAAATACCTCGGCGTGTAACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT--CCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTT
1862926 TTTTGACAACAGAAATTAAAA
64 TTTTGACAACAGAAATTAAAA
1862947 TTACCTCAGC
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
89 26 0.34
90 8 0.10
91 41 0.53
92 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (87 bp):
GAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTT
TTGACAACAGAAATTAAAAACG
Found at i:1862954 original size:311 final size:308
Alignment explanation
Indices: 1861903--1862993 Score: 939
Period size: 311 Copynumber: 3.6 Consensus size: 308
1861893 GTGAACCGAG
*
1861903 GCTCAACTCACCTCTCGCAATATAAGTTGA---TTTT-TTGAAAAA-A-AAA-TGAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATTGAAAAACAGAAATTGAAAATACCTC
* * ** *
1861961 AACGTGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATT
66 AGCGTGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATT
* ** ** ** *
1862022 GAAATTACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
131 GAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAA
* * * ** ** * **
1862087 GACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGC-AA-T-ATGAG-T
194 -ACAGAAATTGAAATTACCTCA-CGTGTCCCGAGGCTCAACTCACCTCTCACAAATTAAAAAGCT
** **** ** * * *
1862148 TGA-TTTTTTTTTACAACAGAAATTG-AAATTACCTC-A-GCGTG-TCCTGAG
257 CAACTCACCTTTCGCAACAGAAATTGAAAAATACCACAATGCGTGAT-CTGAA
* *
1862196 GCTCAACTCACCTCTCGTAATATAAGTTGA-TTTTTT-TTG-AAAACAGAAATTGAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATTGAAAAACAGAAATTGAAAATACCTC
* * * ** * *
1862258 AACGTGT--CTTGAGGCTCAACTTATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAAAAATT
66 AGCGTGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATT
*
1862319 GAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAATTTTGAAAAC
131 GAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
*
1862384 ATAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAGAAATTAAAAAGCTC
196 AGAAATTGAAATTACCTCA-CGTGTCCCGAGGCTCAACTCACCTCTCAC--AAATTAAAAAGCTC
* * *
1862449 AACTCACCTTTCGCAATATAAATTGAAAAAAATACCACAATGTGTGATCTGAA
258 AACTCACCTTTCGCAACAGAAATTG--AAAAATACCACAATGCGTGATCTGAA
* *
1862502 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATTGAAAAACAGAAATTGAAAATACCTC
* * * *
1862567 AGCATGCGAACC-GAGGCTCAATTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAAT
66 AGCGTG-TAACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAAT
1862631 TGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
130 TGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
** ** ** **
1862696 CAGAAATTGAAATTACCTCA-GTGTCTTGAGGCTCAACTCATTTCTCAC-AA-T-ATGAG-TTGA
195 CAGAAATTGAAATTACCTCACGTGTCCCGAGGCTCAACTCACCTCTCACAAATTAAAAAGCTCAA
**** * * * *
1862756 -TTTTTTTTTGACAACAGAAATTG-AAATTACCTC-A-GCGTG-TCCTGAG
260 CTCACCTTTCG-CAACAGAAATTGAAAAATACCACAATGCGTGAT-CTGAA
* *
1862802 GCTCCACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-----------ATTGAAAAACAGAAATT
* * * *
1862867 GAAAATACCTCGGCGTGTAACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGA
55 GAAAATACCTCAGCGTGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* * * **
1862932 CAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAA-TCACCTCTCGCAATATGAGTT
120 AAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1862994 TATTTTTTTA
Statistics
Matches: 669, Mismatches: 88, Indels: 65
0.81 0.11 0.08
Matches are distributed among these distances:
293 29 0.04
294 47 0.07
295 16 0.02
296 3 0.00
297 119 0.18
298 1 0.00
299 4 0.01
300 46 0.07
301 15 0.02
302 8 0.01
304 13 0.02
305 13 0.02
306 39 0.06
307 8 0.01
308 5 0.01
309 26 0.04
310 27 0.04
311 151 0.23
312 1 0.00
313 98 0.15
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (308 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTATTGAAAAACAGAAATTGAAAATACCTC
AGCGTGTAACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATT
GAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
AGAAATTGAAATTACCTCACGTGTCCCGAGGCTCAACTCACCTCTCACAAATTAAAAAGCTCAAC
TCACCTTTCGCAACAGAAATTGAAAAATACCACAATGCGTGATCTGAA
Found at i:1862999 original size:73 final size:73
Alignment explanation
Indices: 1862861--1863130 Score: 256
Period size: 68 Copynumber: 3.9 Consensus size: 73
1862851 TTGAAAAACG
* * * *
1862861 GAAATTGAAAATACCTCGGCGTGTAACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1862926 TTTTGACAACA
64 TTTT-ACAACA
*
1862937 GAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAA-TCACCTCTCGCAATATGAGTTTATTTT
1 GAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1863000 TTT------
65 TTTACAACA
*
1863003 --AA---AAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1863058 --ACATACA
66 TTACA-ACA
* * * *
1863065 GAAAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTT
1 G-AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1863130 T
65 T
1863131 GAAATAAAAC
Statistics
Matches: 163, Mismatches: 11, Indels: 43
0.75 0.05 0.20
Matches are distributed among these distances:
61 24 0.15
62 26 0.16
64 2 0.01
65 2 0.01
68 49 0.30
73 27 0.17
74 11 0.07
75 4 0.02
76 18 0.11
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (73 bp):
GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TTACAACA
Found at i:1873325 original size:11 final size:11
Alignment explanation
Indices: 1873296--1873340 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
1873286 AATTGCATTA
1873296 AAAATATATAT
1 AAAATATATAT
1873307 ACATAATATATAT
1 A-A-AATATATAT
*
1873320 AAAATACATAT
1 AAAATATATAT
*
1873331 AATATATATA
1 AAAATATATA
1873341 CGTATTAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 17 0.59
12 2 0.07
13 10 0.34
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATATATAT
Found at i:1875985 original size:26 final size:26
Alignment explanation
Indices: 1875939--1875991 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
1875929 TCAAACATGC
*
1875939 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGAGGT
* *
1875965 ATTTCGGT-AATTTATCTCCTAGAGGT
1 ATTTAGGTCAATTTAAC-CCTAGAGGT
1875991 A
1 A
1875992 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGAGGT
Found at i:1877522 original size:26 final size:26
Alignment explanation
Indices: 1877482--1877565 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
1877472 CATGAAATTC
*
1877482 TTATCATGAAGCATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
1877508 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
1877534 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
1877560 TTATCA
1 TTATCA
1877566 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:1878926 original size:15 final size:15
Alignment explanation
Indices: 1878906--1878936 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1878896 TATATTATGT
*
1878906 TTTTTTAATACTATA
1 TTTTTTAATACCATA
1878921 TTTTTTAATACCATA
1 TTTTTTAATACCATA
1878936 T
1 T
1878937 GTATTGTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTTTAATACCATA
Found at i:1878957 original size:27 final size:27
Alignment explanation
Indices: 1878925--1879004 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
1878915 ACTATATTTT
*
1878925 TTAATACCATATGTAT-TGTGTATATTC
1 TTAATACTATAT-TATATGTGTATATTC
* *
1878952 TTAATACTATA-TATTATATGTATTTTC
1 TTAATACTATATTA-TATGTGTATATTC
*
1878979 TTAATAACTATATTATGTGTGTATAT
1 TTAAT-ACTATATTATATGTGTATAT
1879005 ATATTGTGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
25 2 0.05
26 1 0.02
27 24 0.56
28 14 0.33
29 2 0.05
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (27 bp):
TTAATACTATATTATATGTGTATATTC
Found at i:1879041 original size:17 final size:19
Alignment explanation
Indices: 1879019--1879055 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
1879009 TGTGTACGTA
1879019 TTTTTAATAT-TAT-TATG
1 TTTTTAATATATATATATG
1879036 TTTTTAATATATATATATG
1 TTTTTAATATATATATATG
1879055 T
1 T
1879056 GTATATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 3 0.17
19 5 0.28
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTTAATATATATATATG
Found at i:1879280 original size:21 final size:21
Alignment explanation
Indices: 1879224--1879280 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
1879214 ATATACTTCG
*
1879224 AATACTATATTAT-ATTTTTT
1 AATACTATATTATGTTTTTTT
* * *
1879244 ACATATTATCTCATGTTTTTTT
1 A-ATACTATATTATGTTTTTTT
*
1879266 AATACTATGTTATGT
1 AATACTATATTATGT
1879281 ATGTATTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
20 1 0.04
21 20 0.71
22 7 0.25
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (21 bp):
AATACTATATTATGTTTTTTT
Found at i:1879289 original size:25 final size:25
Alignment explanation
Indices: 1879256--1879326 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 25
1879246 ATATTATCTC
* *
1879256 ATGTTTTTTTAATACTATGTTATGT
1 ATGTATTTTTAATGCTATGTTATGT
* * *
1879281 ATGTATTTTTCAACGCCATATTATGT
1 ATGTATTTTT-AATGCTATGTTATGT
**
1879307 ACATATTTTTAATGCTATGT
1 ATGTATTTTTAATGCTATGT
1879327 ATACACTTTG
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
25 16 0.46
26 19 0.54
ACGTcount: A:0.27, C:0.10, G:0.11, T:0.52
Consensus pattern (25 bp):
ATGTATTTTTAATGCTATGTTATGT
Found at i:1886420 original size:55 final size:55
Alignment explanation
Indices: 1886355--1886470 Score: 232
Period size: 55 Copynumber: 2.1 Consensus size: 55
1886345 TTGACCCCCA
1886355 AAAATGATAAATTTTTTATTTGATTCTTTAAAAAGTTATAAAGATATAAGCTATT
1 AAAATGATAAATTTTTTATTTGATTCTTTAAAAAGTTATAAAGATATAAGCTATT
1886410 AAAATGATAAATTTTTTATTTGATTCTTTAAAAAGTTATAAAGATATAAGCTATT
1 AAAATGATAAATTTTTTATTTGATTCTTTAAAAAGTTATAAAGATATAAGCTATT
1886465 AAAATG
1 AAAATG
1886471 GTGAAATTAC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 61 1.00
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (55 bp):
AAAATGATAAATTTTTTATTTGATTCTTTAAAAAGTTATAAAGATATAAGCTATT
Found at i:1886564 original size:3 final size:3
Alignment explanation
Indices: 1886558--1886617 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
1886548 GTTGTTTACC
1886558 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1886606 ATA ATA ATA ATA
1 ATA ATA ATA ATA
1886618 CCTGAGGTGG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1904234 original size:29 final size:29
Alignment explanation
Indices: 1904172--1904260 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 29
1904162 AGCTATTATT
*
1904172 AATTTTA-AATCTATTTTA-TATCAAATTA
1 AATTTTATATTCTATTTTACTATC-AATTA
* *
1904200 TTATTTTATATTCTATTTTACTTTCAATTA
1 -AATTTTATATTCTATTTTACTATCAATTA
1904230 AATTTTAT-TTACTATTTT-CTAATCAATTA
1 AATTTTATATT-CTATTTTACT-ATCAATTA
1904259 AA
1 AA
1904261 ACCCCATTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
28 4 0.08
29 29 0.57
30 15 0.29
31 3 0.06
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (29 bp):
AATTTTATATTCTATTTTACTATCAATTA
Found at i:1916251 original size:5 final size:5
Alignment explanation
Indices: 1916238--1916274 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
1916228 TTCTTTAGTT
1916238 TATATA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA T
1916275 TAAAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:1923289 original size:16 final size:16
Alignment explanation
Indices: 1923268--1923307 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1923258 TTTGGGAACC
*
1923268 TTAAAATAATTTATTT
1 TTAAAATAATCTATTT
*
1923284 TTAAAAAAATCTATTT
1 TTAAAATAATCTATTT
*
1923300 TTACAATA
1 TTAAAATA
1923308 TTCATATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATAATCTATTT
Found at i:1924765 original size:14 final size:14
Alignment explanation
Indices: 1924742--1924770 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1924732 GAAATTTCAA
1924742 TTCTTCTTTTTTTT
1 TTCTTCTTTTTTTT
1924756 TTCTT-TTTTTTTT
1 TTCTTCTTTTTTTT
1924769 TT
1 TT
1924771 GAAATTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTCTTCTTTTTTTT
Found at i:1928881 original size:19 final size:19
Alignment explanation
Indices: 1928846--1928888 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1928836 TACGGTTAGG
1928846 TTAAATAAAAATATTAAAT
1 TTAAATAAAAATATTAAAT
*
1928865 TTAAA-AAATAATTTTAAA-
1 TTAAATAAA-AATATTAAAT
1928883 TTAAAT
1 TTAAAT
1928889 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAATAAAAATATTAAAT
Found at i:1932752 original size:12 final size:12
Alignment explanation
Indices: 1932735--1932780 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
1932725 TTAGTGATTT
*
1932735 AATATAAATATA
1 AATATATATATA
1932747 AATATATATAATA
1 AATATATAT-ATA
1932760 AA-ATATATATA
1 AATATATATATA
*
1932771 ATTA-ATATAT
1 AATATATATAT
1932781 TATTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 10 0.33
12 15 0.50
13 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATATATATATA
Found at i:1932763 original size:14 final size:15
Alignment explanation
Indices: 1932736--1932780 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
1932726 TAGTGATTTA
1932736 ATATA-AATATAAAT
1 ATATATAATATAAAT
1932750 ATATATAATA-AAAT
1 ATATATAATATAAAT
1932764 ATATATAAT-T-AAT
1 ATATATAATATAAAT
1932777 ATAT
1 ATAT
1932781 TATTTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.24
14 18 0.62
15 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATATATAATATAAAT
Found at i:1932776 original size:18 final size:20
Alignment explanation
Indices: 1932733--1932779 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
1932723 TGTTAGTGAT
1932733 TTAATATAAATATAAATATA
1 TTAATATAAATATAAATATA
*
1932753 TATAATA-AAATATATATA-A
1 T-TAATATAAATATAAATATA
1932772 TTAATATA
1 TTAATATA
1932780 TTATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.21
19 3 0.12
20 11 0.46
21 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAATATAAATATAAATATA
Found at i:1932919 original size:19 final size:17
Alignment explanation
Indices: 1932881--1932922 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
1932871 TATCCAAACT
*
1932881 TATTTT-TCAAACCTCG
1 TATTTTATCAAACCTCC
1932897 TATTTTATCTAAACCCTCC
1 TATTTTATC-AAA-CCTCC
1932916 TATTTTA
1 TATTTTA
1932923 CTGACAGGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 2 0.09
18 3 0.14
19 11 0.50
ACGTcount: A:0.26, C:0.24, G:0.02, T:0.48
Consensus pattern (17 bp):
TATTTTATCAAACCTCC
Found at i:1939539 original size:13 final size:13
Alignment explanation
Indices: 1939523--1939588 Score: 73
Period size: 13 Copynumber: 5.1 Consensus size: 13
1939513 TTTAAACCAA
1939523 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
1939536 ACTTATCAAAAGC
1 ACTTTTCAAAAGC
* *
1939549 ACTTTTTC-ACATC
1 AC-TTTTCAAAAGC
1939562 ACTTTTCAAGAA-C
1 ACTTTTCAA-AAGC
1939575 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
1939588 A
1 A
1939589 TTGCCAAACT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
12 7 0.16
13 32 0.73
14 5 0.11
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:1942014 original size:25 final size:26
Alignment explanation
Indices: 1941967--1942017 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1941957 TAAATAAAAA
* * *
1941967 ATTTTAAAAATATATAAATCAAATAT
1 ATTTAAAAAACATATAAAACAAATAT
1941993 ATTTAAAAAACATA-AAAACAAATAT
1 ATTTAAAAAACATATAAAACAAATAT
1942018 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (26 bp):
ATTTAAAAAACATATAAAACAAATAT
Found at i:1942029 original size:22 final size:22
Alignment explanation
Indices: 1941995--1942046 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
1941985 TCAAATATAT
1941995 TTAAAA-AACATAAAAACAAATA
1 TTAAAACAACATAAAAA-AAATA
*
1942017 TTAAAACAA-ATAAAAATAATA
1 TTAAAACAACATAAAAAAAATA
*
1942038 CTAAAACAA
1 TTAAAACAA
1942047 TTCTTAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 12 0.44
22 13 0.48
23 2 0.07
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (22 bp):
TTAAAACAACATAAAAAAAATA
Found at i:1942031 original size:21 final size:20
Alignment explanation
Indices: 1941999--1942046 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
1941989 ATATATTTAA
* *
1941999 AAAACATAAAAACA-AATATT
1 AAAACA-AAAAAAATAATACT
1942019 AAAACAAATAAAAATAATACT
1 AAAACAAA-AAAAATAATACT
1942040 AAAACAA
1 AAAACAA
1942047 TTCTTAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.42
21 12 0.50
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAACAAAAAAAATAATACT
Found at i:1942658 original size:15 final size:15
Alignment explanation
Indices: 1942639--1942674 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1942629 ATTATCTCTA
1942639 ATATATGTATATATT
1 ATATATGTATATATT
* *
1942654 GTATATGTTTATATT
1 ATATATGTATATATT
1942669 ATATAT
1 ATATAT
1942675 ATTATTTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
ATATATGTATATATT
Found at i:1947659 original size:25 final size:27
Alignment explanation
Indices: 1947603--1947661 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
1947593 TTTATTTAAT
* *
1947603 TATTATACAAATTACTATTTTTTGAAA
1 TATTATACAAATTACTATGTTTAGAAA
*
1947630 AATTATA-AAATTACT-TGTTTAGAAA
1 TATTATACAAATTACTATGTTTAGAAA
1947655 TATTATA
1 TATTATA
1947662 TTATCAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 14 0.50
26 8 0.29
27 6 0.21
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (27 bp):
TATTATACAAATTACTATGTTTAGAAA
Found at i:1948275 original size:22 final size:20
Alignment explanation
Indices: 1948250--1948293 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1948240 TGTCTAAAGC
*
1948250 TTCCATTCCAATTCTATTTTTT
1 TTCC-TTCCAA-TCTACTTTTT
*
1948272 TTCCTTTCAATCTACTTTTT
1 TTCCTTCCAATCTACTTTTT
1948292 TT
1 TT
1948294 GAGGGTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 5 0.25
22 4 0.20
ACGTcount: A:0.16, C:0.23, G:0.00, T:0.61
Consensus pattern (20 bp):
TTCCTTCCAATCTACTTTTT
Found at i:1964595 original size:37 final size:37
Alignment explanation
Indices: 1964545--1964620 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
1964535 TAGAATATGT
1964545 TAGTCAATCACTCTATCTTTGTCCCATATCATGATTA
1 TAGTCAATCACTCTATCTTTGTCCCATATCATGATTA
1964582 TAGTCAATCACTCTATCTTTGTCCCATATCATGATTA
1 TAGTCAATCACTCTATCTTTGTCCCATATCATGATTA
1964619 TA
1 TA
1964621 CCATTGCATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.41
Consensus pattern (37 bp):
TAGTCAATCACTCTATCTTTGTCCCATATCATGATTA
Found at i:1964612 original size:21 final size:21
Alignment explanation
Indices: 1964551--1964612 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1964541 ATGTTAGTCA
1964551 ATCACTCTATCTTTGTCCCAT
1 ATCACTCTATCTTTGTCCCAT
* *
1964572 ATCA-T-GAT-TATAGT--CA-
1 ATCACTCTATCT-TTGTCCCAT
1964588 ATCACTCTATCTTTGTCCCAT
1 ATCACTCTATCTTTGTCCCAT
1964609 ATCA
1 ATCA
1964613 TGATTATACC
Statistics
Matches: 30, Mismatches: 4, Indels: 14
0.62 0.08 0.29
Matches are distributed among these distances:
16 4 0.13
17 3 0.10
18 6 0.20
19 6 0.20
20 3 0.10
21 8 0.27
ACGTcount: A:0.26, C:0.27, G:0.06, T:0.40
Consensus pattern (21 bp):
ATCACTCTATCTTTGTCCCAT
Found at i:1967109 original size:25 final size:25
Alignment explanation
Indices: 1967075--1967122 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
1967065 GATTTCTAAC
*
1967075 CTCTATGATACTTTTACCCTTAAAA
1 CTCTATGATACTTTCACCCTTAAAA
1967100 CTCTATGATACTTTCACCCTTAA
1 CTCTATGATACTTTCACCCTTAA
1967123 GACACGGCTG
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:0.29, C:0.27, G:0.04, T:0.40
Consensus pattern (25 bp):
CTCTATGATACTTTCACCCTTAAAA
Found at i:1973932 original size:19 final size:22
Alignment explanation
Indices: 1973885--1973933 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 22
1973875 TCAAACATTT
*
1973885 AATCAAACACCTTACAGGCAATT
1 AATCAAACACCTTACAGG-AATC
1973908 AATCAAACA-CTTAC-GG-ATC
1 AATCAAACACCTTACAGGAATC
1973927 AATCAAA
1 AATCAAA
1973934 AAACTGCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 9 0.36
21 2 0.08
22 5 0.20
23 9 0.36
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.20
Consensus pattern (22 bp):
AATCAAACACCTTACAGGAATC
Found at i:1976338 original size:30 final size:32
Alignment explanation
Indices: 1976304--1976373 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 32
1976294 ATGATTATTT
*
1976304 TATAATTTTTTTAA-AATTAAGTGA-CTAAAA
1 TATAATTTTATTAATAATTAAGTGACCTAAAA
* * *
1976334 TATAAATTTATTAATAATTTAGTGACCTAAAG
1 TATAATTTTATTAATAATTAAGTGACCTAAAA
1976366 TATAATTT
1 TATAATTT
1976374 ACCCTTAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 12 0.36
31 9 0.27
32 12 0.36
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (32 bp):
TATAATTTTATTAATAATTAAGTGACCTAAAA
Found at i:1976342 original size:31 final size:32
Alignment explanation
Indices: 1976304--1976374 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
1976294 ATGATTATTT
* *
1976304 TATAATTTTTTTAA-AATTAAGTGA-CTAAAA
1 TATAAATTTATTAATAATTAAGTGACCTAAAA
* *
1976334 TATAAATTTATTAATAATTTAGTGACCTAAAG
1 TATAAATTTATTAATAATTAAGTGACCTAAAA
1976366 TAT-AATTTA
1 TATAAATTTA
1976375 CCCTTAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 12 0.34
31 15 0.43
32 8 0.23
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (32 bp):
TATAAATTTATTAATAATTAAGTGACCTAAAA
Found at i:1981627 original size:39 final size:39
Alignment explanation
Indices: 1981563--1981641 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
1981553 TTTTTAAATT
*
1981563 CATATATTTAGAAAGATCTTGAAGAATCATATCTCCGTA
1 CATATATTTAGAAAGATCTTCAAGAATCATATCTCCGTA
* *
1981602 CATATATTTAGGAAGTTCTTCAAGAATCATATCTCCGTA
1 CATATATTTAGAAAGATCTTCAAGAATCATATCTCCGTA
1981641 C
1 C
1981642 TTAAATCCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (39 bp):
CATATATTTAGAAAGATCTTCAAGAATCATATCTCCGTA
Found at i:1983150 original size:13 final size:13
Alignment explanation
Indices: 1983132--1983159 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1983122 TTTTTAACAA
1983132 ATTAAAAATATAT
1 ATTAAAAATATAT
1983145 ATTAAAAATATAT
1 ATTAAAAATATAT
1983158 AT
1 AT
1983160 ACTTAACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATTAAAAATATAT
Found at i:1983322 original size:24 final size:23
Alignment explanation
Indices: 1983284--1983328 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1983274 AAATAAGGAG
*
1983284 AAAATAATAAGAAAATAATATTAA
1 AAAATAAAAAGAAAAT-ATATTAA
*
1983308 AAAATAAAAATAAAATATATT
1 AAAATAAAAAGAAAATATATT
1983329 TTCTTGTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAAAAGAAAATATATTAA
Found at i:1988858 original size:26 final size:25
Alignment explanation
Indices: 1988829--1988881 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
1988819 TTTTAAAATA
1988829 TAATA-AAATATATATTTATTTTTATT
1 TAATATAAATA-AT-TTTATTTTTATT
*
1988855 TAATATTTAATAATTTTATTTTTATT
1 TAATA-TAAATAATTTTATTTTTATT
1988881 T
1 T
1988882 TCACTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 18 0.75
27 2 0.08
28 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TAATATAAATAATTTTATTTTTATT
Found at i:1994231 original size:14 final size:14
Alignment explanation
Indices: 1994208--1994242 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1994198 CACAATACCC
*
1994208 AAATAATAACAACA
1 AAATAGTAACAACA
1994222 AAATAGTAACAACA
1 AAATAGTAACAACA
*
1994236 TAATAGT
1 AAATAGT
1994243 GAAATGGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.06, T:0.20
Consensus pattern (14 bp):
AAATAGTAACAACA
Found at i:1996192 original size:3 final size:3
Alignment explanation
Indices: 1996184--1996213 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1996174 ACATGGAAGC
1996184 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1996214 CTGAACCGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1998790 original size:3 final size:3
Alignment explanation
Indices: 1998782--1998815 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
1998772 GGGATTTTTT
1998782 ATA ATA ATA ATA ATA ATA ATAA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
1998816 TTATTATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1999111 original size:31 final size:30
Alignment explanation
Indices: 1999047--1999113 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
1999037 AGTTTATATC
* *
1999047 TTTA-TAATTTTTAAATAATTAAATTAATCT
1 TTTATTAATTTTAAAAGAATTAAATTAA-CT
1999077 TTTATTAATTTTAAAAGAATTAAAGTATAA-T
1 TTTATTAATTTTAAAAGAATTAAA-T-TAACT
1999108 TTTATT
1 TTTATT
1999114 TTTATTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 4 0.12
31 24 0.75
32 1 0.03
33 3 0.09
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (30 bp):
TTTATTAATTTTAAAAGAATTAAATTAACT
Found at i:2000796 original size:14 final size:16
Alignment explanation
Indices: 2000777--2000808 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
2000767 AATTAAAACC
2000777 AATAATT-CA-TTAGA
1 AATAATTACACTTAGA
2000791 AATAATTACACTTAGA
1 AATAATTACACTTAGA
2000807 AA
1 AA
2000809 AAAAAAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 2 0.12
16 7 0.44
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.31
Consensus pattern (16 bp):
AATAATTACACTTAGA
Found at i:2003464 original size:15 final size:16
Alignment explanation
Indices: 2003434--2003473 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
2003424 TAATAAAAAT
2003434 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
2003451 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
2003466 ATAATTTA
1 ATAATTTA
2003474 AAAAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 4 0.18
17 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:2007360 original size:23 final size:23
Alignment explanation
Indices: 2007333--2007377 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
2007323 TTTATGTTGC
2007333 TCCAATTCTTCATTTTGCTTGAG
1 TCCAATTCTTCATTTTGCTTGAG
2007356 TCCAATTCTTCATTTTGCTTGA
1 TCCAATTCTTCATTTTGCTTGA
2007378 AGTACATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.22, G:0.11, T:0.49
Consensus pattern (23 bp):
TCCAATTCTTCATTTTGCTTGAG
Found at i:2019117 original size:8 final size:8
Alignment explanation
Indices: 2019104--2019130 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
2019094 AAGTGAAAAT
2019104 AAAAATTA
1 AAAAATTA
2019112 AAAAATTA
1 AAAAATTA
2019120 AAAAATTA
1 AAAAATTA
2019128 AAA
1 AAA
2019131 CTGAAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAAATTA
Done.