Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 128 of 240
Found at i:39787775 original size:20 final size:20
Alignment explanation
Indices: 39787732--39787776 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
39787722 TATTATTGTG
* *
39787732 GTTTTGTCCACAATTTCGTG
1 GTTTTGTCCACAATTTCATA
39787752 GTTTTGTCCACAATTTCATA
1 GTTTTGTCCACAATTTCATA
39787772 GTTTT
1 GTTTT
39787777 ATCCCGTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (20 bp):
GTTTTGTCCACAATTTCATA
Found at i:39787993 original size:3 final size:3
Alignment explanation
Indices: 39787987--39788012 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
39787977 TGATGATGAT
39787987 GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GA
39788013 CAAGCCATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:39789569 original size:14 final size:14
Alignment explanation
Indices: 39789535--39789563 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39789525 ATTTTTTTGC
39789535 AACAGTTATAAGGT
1 AACAGTTATAAGGT
39789549 AACAGTTATAAGGT
1 AACAGTTATAAGGT
39789563 A
1 A
39789564 TTAGTTCGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
AACAGTTATAAGGT
Found at i:39796167 original size:40 final size:40
Alignment explanation
Indices: 39796123--39796266 Score: 173
Period size: 40 Copynumber: 3.6 Consensus size: 40
39796113 AAGTGTAAAT
* *
39796123 AGGGGCACGTAAGTGCAATCAAGAGTACCGAAGTACGAAC
1 AGGGGCACGTATGTGCAATCAAGGGTACCGAAGTACGAAC
* * *
39796163 AGGGGCACATATGTGCAATTAAGGGTACCAAAGTACGAAC
1 AGGGGCACGTATGTGCAATCAAGGGTACCGAAGTACGAAC
* * * *
39796203 AGGGGCACGTATGTGTAATTAGGGGTACCGAAGTAC-AATT
1 AGGGGCACGTATGTGCAATCAAGGGTACCGAAGTACGAA-C
* *
39796243 AAGGGAACGTATGTGCAATCAAGG
1 AGGGGCACGTATGTGCAATCAAGG
39796267 TATGATTTAC
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.02
40 86 0.98
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (40 bp):
AGGGGCACGTATGTGCAATCAAGGGTACCGAAGTACGAAC
Found at i:39799686 original size:26 final size:26
Alignment explanation
Indices: 39799656--39800072 Score: 429
Period size: 26 Copynumber: 16.0 Consensus size: 26
39799646 AAATGGGCCC
39799656 AAATTATCGAAATACCCTCGATGGGT
1 AAATTATCGAAATACCCTCGATGGGT
* *
39799682 AAATTA-CTGAAATACCCTTGATGGTT
1 AAATTATC-GAAATACCCTCGATGGGT
* **
39799708 AAATTATCGAAATACCCTTGATCAGT
1 AAATTATCGAAATACCCTCGATGGGT
* *
39799734 AAATT-TCCAAAATACCCTCGAAGGGT
1 AAATTAT-CGAAATACCCTCGATGGGT
39799760 AAATTATCGAAATACCCTCGATGGGT
1 AAATTATCGAAATACCCTCGATGGGT
* *
39799786 AAATTA-CTAAAATACCCTCGAAGGGT
1 AAATTATC-GAAATACCCTCGATGGGT
* * * *
39799812 AAATTTTTGAAATACCCTCAAAGGGT
1 AAATTATCGAAATACCCTCGATGGGT
* *
39799838 AAATTA-CTGAAATACCCTTGATAGGT
1 AAATTATC-GAAATACCCTCGATGGGT
* * *
39799864 AAATTACCAAAATACCCTCGAAGGGT
1 AAATTATCGAAATACCCTCGATGGGT
* *
39799890 AAATTATCGAAATACCCTTGAAGGGT
1 AAATTATCGAAATACCCTCGATGGGT
** *
39799916 AAATTATATAAAATACCCTCGATGAGT
1 AAATTAT-CGAAATACCCTCGATGGGT
*
39799943 AAATTA-CTGAAATACCCT-TAGTGGGT
1 AAATTATC-GAAATACCCTCGA-TGGGT
39799969 AAATTA-CAGAAATACCCTCGATGGGT
1 AAATTATC-GAAATACCCTCGATGGGT
*
39799995 AAATTATTGAAATACCCTCGAT-GGT
1 AAATTATCGAAATACCCTCGATGGGT
* *
39800020 AAATTA-CTAAAATAACCTCGATGGGT
1 AAATTATC-GAAATACCCTCGATGGGT
* *
39800046 AAATTATCGAAATACCCTTGAAGGGT
1 AAATTATCGAAATACCCTCGATGGGT
39800072 A
1 A
39800073 GAATGACCGT
Statistics
Matches: 325, Mismatches: 50, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
25 25 0.08
26 275 0.85
27 25 0.08
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (26 bp):
AAATTATCGAAATACCCTCGATGGGT
Found at i:39799736 original size:52 final size:52
Alignment explanation
Indices: 39799656--39800072 Score: 477
Period size: 52 Copynumber: 8.0 Consensus size: 52
39799646 AAATGGGCCC
*
39799656 AAATTATCGAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGATGGTT
1 AAATTATCGAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGATGGGT
* ** * ** * *
39799708 AAATTATCGAAATACCCTTGATCAGTAAATTTCCAAAATACCCTCGAAGGGT
1 AAATTATCGAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGATGGGT
* * *
39799760 AAATTATCGAAATACCCTCGATGGGTAAATTACTAAAATACCCTCGAAGGGT
1 AAATTATCGAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGATGGGT
* * * * *
39799812 AAATTTTTGAAATACCCTCAAAGGGTAAATTACTGAAATACCCTTGATAGGT
1 AAATTATCGAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGATGGGT
* * * *
39799864 AAATTACCAAAATACCCTCGAAGGGTAAATTA-TCGAAATACCCTTGAAGGGT
1 AAATTATCGAAATACCCTCGATGGGTAAATTACT-GAAATACCCTTGATGGGT
** *
39799916 AAATTATATAAAATACCCTCGATGAGTAAATTACTGAAATACCCTT-AGTGGGT
1 AAATTAT-CGAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGA-TGGGT
* *
39799969 AAATTA-CAGAAATACCCTCGATGGGTAAATTATTGAAATACCCTCGAT-GGT
1 AAATTATC-GAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGATGGGT
* * *
39800020 AAATTA-CTAAAATAACCTCGATGGGTAAATTA-TCGAAATACCCTTGAAGGGT
1 AAATTATC-GAAATACCCTCGATGGGTAAATTACT-GAAATACCCTTGATGGGT
39800072 A
1 A
39800073 GAATGACCGT
Statistics
Matches: 313, Mismatches: 44, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.00
51 45 0.14
52 222 0.71
53 44 0.14
54 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (52 bp):
AAATTATCGAAATACCCTCGATGGGTAAATTACTGAAATACCCTTGATGGGT
Found at i:39800317 original size:26 final size:26
Alignment explanation
Indices: 39800274--39800323 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
39800264 ACATATACTG
* * *
39800274 TACTGGCAGCTCTACTGCGATATTAT
1 TACTCGCAGCTATACTGCAATATTAT
*
39800300 TACTCGCAGCTATGCTGCAATATT
1 TACTCGCAGCTATACTGCAATATT
39800324 GGTGTGTGGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (26 bp):
TACTCGCAGCTATACTGCAATATTAT
Found at i:39800785 original size:18 final size:18
Alignment explanation
Indices: 39800762--39800796 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
39800752 AAAACAAATA
39800762 TGTTTTCATA-ACAAACAT
1 TGTTTTCA-AGACAAACAT
39800780 TGTTTTCAAGACAAACA
1 TGTTTTCAAGACAAACA
39800797 CATATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (18 bp):
TGTTTTCAAGACAAACAT
Found at i:39806959 original size:56 final size:55
Alignment explanation
Indices: 39806862--39807008 Score: 172
Period size: 56 Copynumber: 2.6 Consensus size: 55
39806852 CATTTGGGTA
* * * **
39806862 AAGAGATCTCATGTTAGACCATGTCTGGGACATGGCATTGGCA-T-CATTGAGATT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTACACCGAGA-T
* *
39806916 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCATTAGCACCGAGAT
1 A--AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTA-CACCGAGAT
*
39806974 AAGAGGTCCCATATAAGACCATGTCTGGGACATGG
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGG
39807009 TGTAACACCC
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
54 1 0.01
56 69 0.87
57 1 0.01
58 2 0.03
59 6 0.08
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (55 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTACACCGAGAT
Found at i:39808388 original size:27 final size:27
Alignment explanation
Indices: 39808358--39808532 Score: 181
Period size: 27 Copynumber: 6.4 Consensus size: 27
39808348 ATATTGAGTC
* *
39808358 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
39808385 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
39808412 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
39808440 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
39808467 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
39808494 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
39808521 CGCACACTTAGT
1 CGCACACTTAGT
39808533 TCTGTACAAT
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:39808497 original size:82 final size:81
Alignment explanation
Indices: 39808379--39808532 Score: 229
Period size: 82 Copynumber: 1.9 Consensus size: 81
39808369 TGCTATATAA
* *
39808379 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
39808444 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
39808461 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
39808525 CACTTAGT
65 CACTTAGT
39808533 TCTGTACAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.22
82 51 0.78
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39808518 original size:54 final size:54
Alignment explanation
Indices: 39808358--39808532 Score: 201
Period size: 54 Copynumber: 3.2 Consensus size: 54
39808348 ATATTGAGTC
* * * *
39808358 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
39808412 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
39808467 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
39808521 CGCACACTTAGT
1 CGCACACTTAGT
39808533 TCTGTACAAT
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
54 55 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:39816485 original size:27 final size:27
Alignment explanation
Indices: 39816455--39816629 Score: 181
Period size: 27 Copynumber: 6.4 Consensus size: 27
39816445 ATATTGAGTC
* *
39816455 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
39816482 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
39816509 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
39816537 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
39816564 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
39816591 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
39816618 CGCACACTTAGT
1 CGCACACTTAGT
39816630 TCTGTACAAT
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:39816594 original size:82 final size:81
Alignment explanation
Indices: 39816476--39816629 Score: 229
Period size: 82 Copynumber: 1.9 Consensus size: 81
39816466 TGCTATATAA
* *
39816476 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
39816541 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
39816558 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
39816622 CACTTAGT
65 CACTTAGT
39816630 TCTGTACAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.22
82 51 0.78
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39816615 original size:54 final size:54
Alignment explanation
Indices: 39816455--39816629 Score: 201
Period size: 54 Copynumber: 3.2 Consensus size: 54
39816445 ATATTGAGTC
* * * *
39816455 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
39816509 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
39816564 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
39816618 CGCACACTTAGT
1 CGCACACTTAGT
39816630 TCTGTACAAT
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
54 55 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:39821725 original size:26 final size:26
Alignment explanation
Indices: 39821686--39821805 Score: 168
Period size: 26 Copynumber: 4.6 Consensus size: 26
39821676 GAAATAGGTC
* * *
39821686 TAAATTATCGAAATGCCCTCGATGGG
1 TAAATTACCAAAATACCCTCGATGGG
*
39821712 TAAATTACCAAAATACCCTCGATGGA
1 TAAATTACCAAAATACCCTCGATGGG
*
39821738 TAAATTACCAAATTACCCTCGATGGG
1 TAAATTACCAAAATACCCTCGATGGG
* * *
39821764 TAAAGTATCGAAATACCCTCGATGGG
1 TAAATTACCAAAATACCCTCGATGGG
39821790 TAAATTACCAAAATAC
1 TAAATTACCAAAATAC
39821806 TTCAAATATC
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (26 bp):
TAAATTACCAAAATACCCTCGATGGG
Found at i:39829541 original size:40 final size:40
Alignment explanation
Indices: 39829443--39829705 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
39829433 TCCTCGTTCA
* * ** *
39829443 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
39829482 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
39829522 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
39829562 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
39829602 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
39829642 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
39829682 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
39829706 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:39833986 original size:51 final size:51
Alignment explanation
Indices: 39833911--39834022 Score: 118
Period size: 51 Copynumber: 2.2 Consensus size: 51
39833901 CCCTTGTAGT
* * *
39833911 CAAAGCTACCTTCTGCACAAAGTGGCATTCACACAGTACCACAC-TCGTGAC
1 CAAAGCTATCTTCTACACAAAGTGGCATGCACACAGTACCACACAT-GTGAC
* * * ** *
39833962 CAAAGCTATCTTTTACACATAGTGGCCTGCACTTAGTACCACACATGTGAT
1 CAAAGCTATCTTCTACACAAAGTGGCATGCACACAGTACCACACATGTGAC
*
39834013 CAAAGATATC
1 CAAAGCTATC
39834023 GGGTACTCAT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
51 49 0.98
52 1 0.02
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (51 bp):
CAAAGCTATCTTCTACACAAAGTGGCATGCACACAGTACCACACATGTGAC
Found at i:39834116 original size:50 final size:50
Alignment explanation
Indices: 39833975--39834159 Score: 181
Period size: 50 Copynumber: 3.6 Consensus size: 50
39833965 AGCTATCTTT
* * * * ** *
39833975 TACACATAGTGGCCTGCACTTAGTACCACACATGTGATCAAAGATATCGGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CCATCTGG
* **
39834026 TACTCATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACCATCTGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGG
* * **
39834076 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTA
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGG
* * **
39834128 AACACATAATAGCCTGCAGATAGTACTACACA
1 TACACATAGTAGCCTGCACTTAGTACTACACA
39834160 AATGTTCTCA
Statistics
Matches: 111, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
50 41 0.37
51 35 0.32
52 35 0.32
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.24
Consensus pattern (50 bp):
TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGG
Found at i:39834144 original size:52 final size:50
Alignment explanation
Indices: 39834030--39834159 Score: 152
Period size: 52 Copynumber: 2.6 Consensus size: 50
39834020 ATCGGGTACT
* **
39834030 CATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACCATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCAACCTAACCATCTGAAACA
** * *
39834080 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCAACCT--AACCATCTGAAACA
* **
39834132 CATAATAGCCTGCAGATAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
39834160 AATGTTCTCA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 33 0.49
52 35 0.51
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCAACCTAACCATCTGAAACA
Found at i:39835125 original size:10 final size:10
Alignment explanation
Indices: 39835110--39835135 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
39835100 ATCTCATTCA
39835110 CCATTTAATT
1 CCATTTAATT
39835120 CCATTTAATT
1 CCATTTAATT
39835130 CCATTT
1 CCATTT
39835136 CTACAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (10 bp):
CCATTTAATT
Found at i:39835832 original size:55 final size:53
Alignment explanation
Indices: 39835690--39835883 Score: 174
Period size: 55 Copynumber: 3.6 Consensus size: 53
39835680 TTACCATTGA
* *
39835690 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACATACCATTAC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACATACCAATAC
* * * * *** * *
39835743 CATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACATACCAATAC
* * * * * *
39835798 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACATACCAATAC
* *
39835852 CATGCCTTCG-CATGGTCTTACTTGGTATCCTT
1 CATGTCTT-GACATGGTCTTACATGGTATCCTT
39835884 AAACCCTAAT
Statistics
Matches: 111, Mismatches: 27, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 34 0.31
54 37 0.33
55 40 0.36
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACATACCAATAC
Found at i:39864856 original size:16 final size:16
Alignment explanation
Indices: 39864818--39864858 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
39864808 ATTTTTAAAC
* *
39864818 TTAAAACTAATTGTTA
1 TTAAAATTAATTATTA
39864834 TTAAAATTAATTATTA
1 TTAAAATTAATTATTA
39864850 TTAAAATTA
1 TTAAAATTA
39864859 TATAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
TTAAAATTAATTATTA
Found at i:39868012 original size:28 final size:28
Alignment explanation
Indices: 39867972--39868070 Score: 171
Period size: 28 Copynumber: 3.5 Consensus size: 28
39867962 AACAGTACAG
39867972 TGTGGGCCTTAGCCCAATACAACAACAA
1 TGTGGGCCTTAGCCCAATACAACAACAA
39868000 TGTGGGCCTTAGCCCAATACAACAACAA
1 TGTGGGCCTTAGCCCAATACAACAACAA
**
39868028 TGTGGGCCTTAGCCCAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAACAACAA
*
39868056 TGTGGGACTTAGCCC
1 TGTGGGCCTTAGCCC
39868071 TAAACAGTAT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAACAACAA
Found at i:39868077 original size:28 final size:28
Alignment explanation
Indices: 39867963--39868079 Score: 157
Period size: 28 Copynumber: 4.2 Consensus size: 28
39867953 CTATTCAGTA
*
39867963 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
**
39867990 ACAACAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
**
39868018 ACAACAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
39868046 ACAGTAACAATGTGGGACTTAGCCCTAA-
1 ACAGTAACAATGTGGGCCTTAGCCC-AAT
39868074 ACAGTA
1 ACAGTA
39868080 TCAGTACCGT
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
27 3 0.04
28 77 0.94
29 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.20
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:39868238 original size:25 final size:25
Alignment explanation
Indices: 39868195--39868259 Score: 123
Period size: 25 Copynumber: 2.6 Consensus size: 25
39868185 CAATATCGCA
39868195 ACAAAGCTG-CAGTAATAGAATCAC
1 ACAAAGCTGCCAGTAATAGAATCAC
39868219 ACAAAGCTGCCAGTAATAGAATCAC
1 ACAAAGCTGCCAGTAATAGAATCAC
39868244 ACAAAGCTGCCAGTAA
1 ACAAAGCTGCCAGTAA
39868260 CAGTATACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 9 0.22
25 31 0.77
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (25 bp):
ACAAAGCTGCCAGTAATAGAATCAC
Found at i:39868418 original size:27 final size:27
Alignment explanation
Indices: 39868387--39868932 Score: 442
Period size: 27 Copynumber: 20.3 Consensus size: 27
39868377 GGGTACAATA
*
39868387 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
39868414 ATCATTTTACCCTATTAGGGTAATTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
39868441 ATCATTTTACCCT-TCGAGGGTATTTCG
1 GTCATTTTACCCTAT-GAGGGTATTTCG
* * * * *
39868468 ATTATTTGACCCT-TTAGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
*
39868494 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
39868521 GTCATTTCT-CCCTACGAGGGTATTTCA
1 GTCATTT-TACCCTATGAGGGTATTTCG
* * * *
39868548 GTTATTTCACACTTTG-GGGATATTTCG
1 GTCATTTTACCCTATGAGGG-TATTTCG
* *
39868575 GTTATTTTACCC-ATCGAGGGTATTTTG
1 GTCATTTTACCCTAT-GAGGGTATTTCG
* * * *
39868602 GTGATTTTACCCT-TCAAGGGCATTTCA
1 GTCATTTTACCCTAT-GAGGGTATTTCG
* *
39868629 GTCATTTTACCCCAT-AGGGGTGTTTCG
1 GTCATTTTACCCTATGA-GGGTATTTCG
*
39868656 GTCATTTTACCC-ATTGAGGATATATT-G
1 GTCATTTTACCCTA-TGAGGGTAT-TTCG
* * *
39868683 GTCTTTTTACCCT-TCGAGGGCATTTCT
1 GTCATTTTACCCTAT-GAGGGTATTTCG
*
39868710 GTCATTTTACCCT-TCGAGGGTATTTCA
1 GTCATTTTACCCTAT-GAGGGTATTTCG
* *
39868737 ATCATTTT-CCCT-TCGAGGGTATTTGG
1 GTCATTTTACCCTAT-GAGGGTATTTCG
* *
39868763 GTCATTTTACCCTTTGGGGGTA-TTCTG
1 GTCATTTTACCCTATGAGGGTATTTC-G
* * *
39868790 GTCATTTTACCC-ATCGAAGATATTTTG
1 GTCATTTTACCCTAT-GAGGGTATTTCG
* *
39868817 GTCATTTTACCCTTTGAGGGCATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
39868844 GTTATTTTACCCTCTGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
39868871 GTCATTTTACCCTAT-AGGGGTATTTCG
1 GTCATTTTACCCTATGA-GGGTATTTCG
* * *
39868898 ATCATTTTACCCGT-CGAGGGTATTTTG
1 GTCATTTTACCC-TATGAGGGTATTTCG
39868925 GTCATTTT
1 GTCATTTT
39868933 CCCACAAATC
Statistics
Matches: 421, Mismatches: 73, Indels: 50
0.77 0.13 0.09
Matches are distributed among these distances:
26 57 0.14
27 350 0.83
28 14 0.03
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:39869892 original size:56 final size:56
Alignment explanation
Indices: 39869806--39869925 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
39869796 ACAAGGGATG
39869806 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
39869862 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
39869918 ATGGGCAA
1 ATGGGCAA
39869926 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:39871292 original size:40 final size:40
Alignment explanation
Indices: 39871056--39871278 Score: 292
Period size: 40 Copynumber: 5.6 Consensus size: 40
39871046 GAATGATGTT
* * * *
39871056 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATC
* * *
39871096 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATC
*
39871136 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
*
39871175 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
*
39871215 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATC
*
39871255 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
39871279 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:39871300 original size:119 final size:119
Alignment explanation
Indices: 39871056--39871311 Score: 288
Period size: 119 Copynumber: 2.2 Consensus size: 119
39871046 GAATGATGTT
* *
39871056 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGT
1 CGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGT
* **
39871121 GCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
66 GCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
* * * **
39871175 CGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 CGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTT
* * * *
39871238 GTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC
64 GTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAATC
* *
39871295 C-GGTTAAATTCCGAAGG
1 CGGGTTAAGTCCCGAAGG
39871312 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.71
120 31 0.27
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
CGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGT
GCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
Found at i:39877839 original size:56 final size:56
Alignment explanation
Indices: 39877753--39877872 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
39877743 ACAAGGGATG
39877753 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
39877809 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
39877865 ATGGGCAA
1 ATGGGCAA
39877873 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:39879230 original size:40 final size:40
Alignment explanation
Indices: 39878999--39879223 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
39878989 TCGAATGATG
* * * *
39878999 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
39879039 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39879079 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
39879118 TCCAGGTTAAGTCCCGAAGACATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39879158 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
39879199 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39879224 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 33 0.21
40 115 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39879230 original size:80 final size:78
Alignment explanation
Indices: 39879052--39879246 Score: 223
Period size: 80 Copynumber: 2.5 Consensus size: 78
39879042 GGACTAAGAT
* * *
39879052 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGCCCAAAGGCATTGGTGCGAGTTACTAA
*
39879117 ATCCAGGTTAAGTC
65 ATCCAGGCTAAGTC
* *
39879131 CCGAAGACATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAG-CCCAAAGGCATTGGTGCGAGTTACTA
** *
39879196 TAA-CTGGGCTATGTC
64 -AATCCAGGCTAAGTC
** *
39879211 CCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAA
1 CCGAAGGCATTTGTGCGAGTA-CTAAATCCGGGTTAA
39879247 ATTCCGAAGG
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 42 0.42
80 55 0.56
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTACTAAATCCGGGTTAAGCCCAAAGGCATTGGTGCGAGTTACTAAA
TCCAGGCTAAGTC
Found at i:39882303 original size:16 final size:15
Alignment explanation
Indices: 39882278--39882311 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
39882268 AAAATTGATA
*
39882278 ATAATTAATATATATT
1 ATAATAAATATA-ATT
39882294 ATAATAAATATAATT
1 ATAATAAATATAATT
39882309 ATA
1 ATA
39882312 CACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:39888949 original size:15 final size:15
Alignment explanation
Indices: 39888929--39888957 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39888919 CTGTGATGAG
39888929 GGACTCATCATACAA
1 GGACTCATCATACAA
39888944 GGACTCATCATACA
1 GGACTCATCATACA
39888958 TTTGTTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (15 bp):
GGACTCATCATACAA
Found at i:39892933 original size:26 final size:26
Alignment explanation
Indices: 39892889--39892939 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
39892879 TCTTGTACAT
*
39892889 ATATGCTAACACGAGCTGTGAAATGA
1 ATATGCTAACACGAACTGTGAAATGA
* *
39892915 ATATGCTCACATGAACTGTGAAATG
1 ATATGCTAACACGAACTGTGAAATG
39892940 GGCCTACTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (26 bp):
ATATGCTAACACGAACTGTGAAATGA
Found at i:39899930 original size:50 final size:50
Alignment explanation
Indices: 39899648--39900430 Score: 453
Period size: 50 Copynumber: 15.7 Consensus size: 50
39899638 TTTGCATTAC
***
39899648 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCATTGT
* * * * ** ** *
39899698 AGTGGAACAGATTGAAGCTACGACGACGAATCTTGTTTCTCC-AACATTGCA
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTC-CCTGGCATTG-T
* * * * ***
39899749 ACT-AAATAGATTGAAGCCACAACGACGAATCTTACTTCCTTGGTGGTGT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCATTGT
* * * * * ** ***
39899798 AGTGGAACAGATTGAAGCTACGACAGTGAATCTTGTTTCCCCAACATTGT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCATTGT
** ** **
39899848 AGTTAAATAGATTGAAGCCACAACAACGAATCTTACTTCCCTGGCGGTGT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCATTGT
* * * * * * * * *
39899898 AGTGAAACAGATTGAAGCTACGACGGCAAATC-TAGTTTCCCCGACATTGC
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTA-CTTCCCTGGCATTGT
** * * ** **
39899948 AGTTAAATAGATTAAAGCCACAAGGGCGAATCTTA-TCTCTTTGGCATTAC
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACT-TCCCTGGCATTGT
*
39899998 AGTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCATTGT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCATTGT
* * *** * * *
39900048 AGTGGAATAGATTGAAGCTACGACGGCGAATCTGGTTTCCCCGACATTGC
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCATTGT
** * * * * ** **
39900098 AGTTAAATAGATTAAAGCTACAAGGGCTAATCTTA-TCTCTTTGGCATTAC
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACT-TCCCTGGCATTGT
* * * ***
39900148 AGTGGAATAGATTGAAGCCACAACGGCAAATCTTACTTCTCTAGTGGTGT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCATTGT
** * * * ** * **
39900198 AGTGGAGCAGATTGAAGCTACGACGGTGAATCTTGTTTCTCC-AGCATTAC
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTC-CCTGGCATTGT
* ** * * * **
39900248 AATTAAATAGATTGAAGCCACAACGACGAATCTTACATCCTTGGCGGTGT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCATTGT
* * * * ** ** *
39900298 AGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCAGCATTGC
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCATTGT
** * * * **
39900348 AGTTAAATAAATTGAAGCCACAACGGCGAGTCTTACTTCCTTGGCGGTGT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCATTGT
* *
39900398 AGTGGAATAGATTGAAGCTACGACGGCGAATCT
1 AGTGGAATAGATTGAAGCCACAACGGCGAATCT
39900431 GGTTTCCCCA
Statistics
Matches: 524, Mismatches: 197, Indels: 24
0.70 0.26 0.03
Matches are distributed among these distances:
49 8 0.02
50 507 0.97
51 9 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (50 bp):
AGTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCATTGT
Found at i:39900362 original size:150 final size:150
Alignment explanation
Indices: 39899853--39900376 Score: 602
Period size: 150 Copynumber: 3.5 Consensus size: 150
39899843 ATTGTAGTTA
*** * ** * *
39899853 AATAGATTGAAGCCACAACAACGAATCTTACTTCCCTGGCGGTGTAGTGAAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTAGCATTGTAGTGGAATAGATTGAAGCTA
*
39899918 CGACGGCAAATCTAGTTTCCCCGACATTGCAGTTAAATAGATTAAAGCCACAAGGGCGAATCTTA
66 CGACGGCGAATCTAGTTTCCCCGACATTGCAGTTAAATAGATTAAAGCCACAAGGGCGAATCTTA
39899983 TCTCTTTGGCATTACAGTGG
131 TCTCTTTGGCATTACAGTGG
*
39900003 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCATTGTAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTAGCATTGTAGTGGAATAGATTGAAGCTA
* * *
39900068 CGACGGCGAATCTGGTTTCCCCGACATTGCAGTTAAATAGATTAAAGCTACAAGGGCTAATCTTA
66 CGACGGCGAATCTAGTTTCCCCGACATTGCAGTTAAATAGATTAAAGCCACAAGGGCGAATCTTA
39900133 TCTCTTTGGCATTACAGTGG
131 TCTCTTTGGCATTACAGTGG
** * *** **
39900153 AATAGATTGAAGCCACAACGGCAAATCTTACTTCTCTAGTGGTGTAGTGGAGCAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTAGCATTGTAGTGGAATAGATTGAAGCTA
* * * * * * * *
39900218 CGACGGTGAATCTTGTTTCTCC-AGCATTACAATTAAATAGATTGAAGCCACAACGACGAATCTT
66 CGACGGCGAATCTAGTTTCCCCGA-CATTGCAGTTAAATAGATTAAAGCCACAAGGGCGAATCTT
* ** **
39900282 A-CATCCTTGGCGGTGTAGTGG
130 ATC-TCTTTGGCATTACAGTGG
* * * ** * * ** * *
39900303 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCAGCATTGCAGTTAAATAAATTGAAGCCA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTAGCATTGTAGTGGAATAGATTGAAGCTA
*
39900368 CAACGGCGA
66 CGACGGCGA
39900377 GTCTTACTTC
Statistics
Matches: 316, Mismatches: 56, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
149 2 0.01
150 314 0.99
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (150 bp):
AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTAGCATTGTAGTGGAATAGATTGAAGCTA
CGACGGCGAATCTAGTTTCCCCGACATTGCAGTTAAATAGATTAAAGCCACAAGGGCGAATCTTA
TCTCTTTGGCATTACAGTGG
Found at i:39900510 original size:100 final size:100
Alignment explanation
Indices: 39899653--39900493 Score: 851
Period size: 100 Copynumber: 8.4 Consensus size: 100
39899643 ATTACAGTGG
* *
39899653 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * **
39899718 CGACGACGAATCTTGTTTCTCCAACATTGCAACTA
66 CGACGGCGAATCTTGTTTCCCCAACATTGCAGTTA
* *
39899753 AATAGATTGAAGCCACAACGACGAATCTTACTTCCTTGGTGGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
39899818 CGACAGTGAATCTTGTTTCCCCAACATTGTAGTTA
66 CGACGGCGAATCTTGTTTCCCCAACATTGCAGTTA
** * *
39899853 AATAGATTGAAGCCACAACAACGAATCTTACTTCCCTGGCGGTGTAGTGAAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * *
39899918 CGACGGCAAATCTAGTTTCCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCAACATTGCAGTTA
* * * ** ** * *
39899953 AATAGATTAAAGCCACAAGGGCGAATCTTA-TCTCTTTGGCATTACAGTGGAATAGATTGAAGCC
1 AATAGATTGAAGCCACAACGGCGAATCTTACT-TCCTTGGCGGTGTAGTGGAACAGATTGAAGCT
* * ** *** * **
39900017 ACAACGGTGAATCTTACTTCCCTGGCATTGTAGTGG
65 ACGACGGCGAATCTTGTTTCCCCAACATTGCAGTTA
* * *** ** * ** * ** * *
39900053 AATAGATTGAAGCTACGACGGCGAATCTGGTTTCCCCGACATTGCAGTTAAATAGATTAAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * * * * ***** * **
39900118 CAAGGGCTAATCTTATCTCTTTGGCATTACAGTGG
66 CGACGGCGAATCTTGTTTCCCCAACATTGCAGTTA
* * * *
39900153 AATAGATTGAAGCCACAACGGCAAATCTTACTT-CTCTAGTGGTGTAGTGGAGCAGATTGAAGCT
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCT-TGGCGGTGTAGTGGAACAGATTGAAGCT
* * * * *
39900217 ACGACGGTGAATCTTGTTTCTCCAGCATTACAATTA
65 ACGACGGCGAATCTTGTTTCCCCAACATTGCAGTTA
* *
39900253 AATAGATTGAAGCCACAACGACGAATCTTACATCCTTGGCGGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
39900318 CGACGGTGAATCTTGTTTCCCCAGCATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCAACATTGCAGTTA
* * *
39900353 AATAAATTGAAGCCACAACGGCGAGTCTTACTTCCTTGGCGGTGTAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
39900418 CGACGGCGAATCTGGTTTCCCCAAAATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCAACATTGCAGTTA
* * * *
39900453 AATAGATTAAAGTCACAACTGTGAATCTTA-TCTCCTTGGCG
1 AATAGATTGAAGCCACAACGGCGAATCTTACT-TCCTTGGCG
39900494 TTACAGTAGA
Statistics
Matches: 614, Mismatches: 122, Indels: 10
0.82 0.16 0.01
Matches are distributed among these distances:
99 3 0.00
100 608 0.99
101 3 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (100 bp):
AATAGATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGTAGTGGAACAGATTGAAGCTA
CGACGGCGAATCTTGTTTCCCCAACATTGCAGTTA
Found at i:39900560 original size:51 final size:51
Alignment explanation
Indices: 39900475--39900598 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
39900465 TCACAACTGT
* * * * *
39900475 GAATCTTATCTCCTTGGCGTTACAGTAGAATAGATTAAAGCTTAAGGTAGC
1 GAATCTTATCTCCCTGGTGTTACAGCAGAATAGATGAAAGCTGAAGGTAGC
* * * *
39900526 GAATCTTATTTCCCTGGTGTTGCAGCAGAGTAGATGAAAGCTGAGGGTAGC
1 GAATCTTATCTCCCTGGTGTTACAGCAGAATAGATGAAAGCTGAAGGTAGC
*
39900577 GAATTTTATCTCCCTGGTGTTA
1 GAATCTTATCTCCCTGGTGTTA
39900599 AGACTCAGAA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (51 bp):
GAATCTTATCTCCCTGGTGTTACAGCAGAATAGATGAAAGCTGAAGGTAGC
Found at i:39900781 original size:169 final size:169
Alignment explanation
Indices: 39900475--39900930 Score: 592
Period size: 169 Copynumber: 2.7 Consensus size: 169
39900465 TCACAACTGT
* * * * * * *
39900475 GAATCTTATCTCCTTGGCGTTACAGTAGAATAGATTAAAGCTTAAGGTAGCGAATCTTATTTCCC
1 GAATCCTATCTCTTTGGCATTATAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
* * * * ***
39900540 TGGTGTTGCAGCAGAGTAG-ATGAAAGCTGAGGGTAGCGAATTTTATCTCCCTGGTGTTAAGACT
66 TGGTGTTGCAGCGGAGCAGAAT-AAAGCTGAGGGCAGCGAATCTTATCTCCCTAACGTTAAGACT
*
39900604 CAGAATAGCTGAGGTGGAGCGGATTAAAGCTGTGGGCAGC
130 CAGAATAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGC
*
39900644 GGATCCTATCTCTTTGGCATTATAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
1 GAATCCTATCTCTTTGGCATTATAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
*
39900709 TAGTGTTGCAGCGGAGCAGAATAAAGCAT-AGGGCAGCGAATCTTATCTCCCTAACGTTAAGACT
66 TGGTGTTGCAGCGGAGCAGAATAAAGC-TGAGGGCAGCGAATCTTATCTCCCTAACGTTAAGACT
** *
39900773 TGGAATAGCTGAAGTGGAGCGGGTTAAAGCTGTGGGCAGC
130 CAGAATAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGC
* * * * * *
39900813 GAATCCTATCTCTTTTGCATTATAGAGGAATAGATTAAGGCTAAAGGTAGCAAATCTGGTTTCCT
1 GAATCCTATCTCTTTGGCATTATAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
* * ** * *
39900878 TGGTGTTGTAGCGGAGCAGATTAAAGCTGAATGCAACGAATCTCATCTCCCTA
66 TGGTGTTGCAGCGGAGCAGAATAAAGCTGAGGGCAGCGAATCTTATCTCCCTA
39900931 GCATTAAAAT
Statistics
Matches: 250, Mismatches: 34, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
168 1 0.00
169 246 0.98
170 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (169 bp):
GAATCCTATCTCTTTGGCATTATAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
TGGTGTTGCAGCGGAGCAGAATAAAGCTGAGGGCAGCGAATCTTATCTCCCTAACGTTAAGACTC
AGAATAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGC
Found at i:39901784 original size:23 final size:23
Alignment explanation
Indices: 39901740--39901784 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
39901730 TCTTATTTTG
* *
39901740 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTCATTTA
**
39901763 TTGATTTGTATATTGTTCATTT
1 TTGATTTGTATATAATTCATTT
39901785 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.02, G:0.13, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTCATTTA
Found at i:39902145 original size:36 final size:36
Alignment explanation
Indices: 39902070--39902145 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
39902060 CATATATACG
*
39902070 TTTTATAATATATACATATACGTACACATTTTTTAAT
1 TTTTATAATATATACATATACG-ACACATTTTATAAT
* *
39902107 TTTTATAA-ATATATATATAC-ACATACTTTTATATAT
1 TTTTATAATATATACATATACGACACA-TTTTATA-AT
39902143 TTT
1 TTT
39902146 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 4 0.12
35 6 0.18
36 16 0.47
37 8 0.24
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (36 bp):
TTTTATAATATATACATATACGACACATTTTATAAT
Found at i:39902417 original size:3 final size:3
Alignment explanation
Indices: 39902411--39902449 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
39902401 TTATCTTTTC
39902411 ATT 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 ATT
39902450 TTTGTTCTTG
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:39905215 original size:51 final size:51
Alignment explanation
Indices: 39905052--39905236 Score: 205
Period size: 51 Copynumber: 3.6 Consensus size: 51
39905042 GAAGTTGTTA
* *
39905052 GGTCACATGTGTAGTACAATGTGCAGGCTACTACGTGTACCAGAATG-ATA-
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGAAAAT
* * * * * ***
39905102 GGTCTCATGTGTAGTACTATGTCCAGGCAACTATGCGTACCGAAT-AGCTT
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGAAAAT
* * * *
39905152 CGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAAT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGAAAAT
39905204 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
39905237 TTTGAACTGG
Statistics
Matches: 108, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
49 4 0.04
50 35 0.32
51 67 0.62
52 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGAAAAT
Found at i:39907978 original size:48 final size:47
Alignment explanation
Indices: 39907919--39908015 Score: 122
Period size: 47 Copynumber: 2.0 Consensus size: 47
39907909 CCATGTCAAC
* * * *
39907919 ATGTGATATGTGATTTCCGTATAAGACCATATCTGGGATATGGCATCA
1 ATGTGATATGTG-CTACCGTATAAGACCATAGCAGGGATATGGCATCA
* * *
39907967 ATGTGATATGTGCTACTGTGTAAGACCATAGCAGGGCTATGGCATCA
1 ATGTGATATGTGCTACCGTATAAGACCATAGCAGGGATATGGCATCA
39908014 AT
1 AT
39908016 ATGTAAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
47 30 0.71
48 12 0.29
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (47 bp):
ATGTGATATGTGCTACCGTATAAGACCATAGCAGGGATATGGCATCA
Found at i:39910890 original size:51 final size:50
Alignment explanation
Indices: 39910751--39910929 Score: 153
Period size: 51 Copynumber: 3.5 Consensus size: 50
39910741 GCTAGGTCAT
* * * * *
39910751 GTGTGTAGTACTATGTGCAGGCTACTACGTGTGCCGGAAAGATAGGTCGC
1 GTGTGTAGTACTATGTACAGGCTACTACGTGTACCGGATAGATAGATCAC
* * * * ** * *
39910801 ATGTGTAGTACTATGTCCAGACTACTATGCATACCGGATAGCTTCGATCAC
1 GTGTGTAGTACTATGTACAGGCTACTACGTGTACCGGATAG-ATAGATCAC
* * *
39910852 GTGTGTAGTACTATGTACAGGCTACTACGTGTATCGGAT-GAAAATGGTCAC
1 GTGTGTAGTACTATGTACAGGCTACTACGTGTACCGGATAG-ATA-GATCAC
* * *
39910903 ATGTGCAGTACTATGTGCAGGCTACTA
1 GTGTGTAGTACTATGTACAGGCTACTA
39910930 TGTGAACTGG
Statistics
Matches: 100, Mismatches: 27, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
50 34 0.34
51 66 0.66
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
GTGTGTAGTACTATGTACAGGCTACTACGTGTACCGGATAGATAGATCAC
Found at i:39917032 original size:26 final size:27
Alignment explanation
Indices: 39917003--39917053 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
39916993 AACCGTAATG
* *
39917003 CCCCTGGAGGGTAAATGACT-ATTTTT
1 CCCCTCGAGGGTAAATCACTGATTTTT
39917029 CCCCTCGAGGGTAAATCACTGATTT
1 CCCCTCGAGGGTAAATCACTGATTT
39917054 GTGCTATGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (27 bp):
CCCCTCGAGGGTAAATCACTGATTTTT
Found at i:39918912 original size:29 final size:29
Alignment explanation
Indices: 39918857--39919051 Score: 151
Period size: 29 Copynumber: 6.7 Consensus size: 29
39918847 GTTGTAATCG
*
39918857 TCCCTTTTCATTAATTGATGGTCGTCACCA
1 TCCCTTTTCA-TAATTGATAGTCGTCACCA
* * * *
39918887 TCCCTTTTCATAGTTGATGGTTGTCACAA
1 TCCCTTTTCATAATTGATAGTCGTCACCA
* * * ** *
39918916 TCCCTTTTCAAAATCGATAGCCGAAACTA
1 TCCCTTTTCATAATTGATAGTCGTCACCA
* * * *
39918945 TCCCTTTTCATAATCGATAGTTG-AAGCTA
1 TCCCTTTTCATAATTGATAGTCGTCA-CCA
* * * *
39918974 TCCTTTTTCAT-ATTCGATGGTTGTTACCA
1 TCCCTTTTCATAATT-GATAGTCGTCACCA
*
39919003 TCCCTTTTCATAGTTGATAGTCGTCACCA
1 TCCCTTTTCATAATTGATAGTCGTCACCA
* *
39919032 TCCTTTTTCATGATTGATAG
1 TCCCTTTTCATAATTGATAG
39919052 CCGAAGCTTT
Statistics
Matches: 133, Mismatches: 28, Indels: 9
0.78 0.16 0.05
Matches are distributed among these distances:
28 4 0.03
29 116 0.87
30 13 0.10
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (29 bp):
TCCCTTTTCATAATTGATAGTCGTCACCA
Found at i:39918991 original size:58 final size:58
Alignment explanation
Indices: 39918886--39919071 Score: 142
Period size: 58 Copynumber: 3.2 Consensus size: 58
39918876 GGTCGTCACC
* * * * * * * * *
39918886 ATCCCTTTTCATAGTTGATGGTTGTCACAATCCCTTTTCAAAATCGATAGCCGAAACT
1 ATCCCTTTTCATAATCGATAGTCGTAACCATCCTTTTTCATATTCGATAGCCGAAACT
* * * ** ** *
39918944 ATCCCTTTTCATAATCGATAGTTG-AAGCTATCCTTTTTCATATTCGATGGTTGTTACC
1 ATCCCTTTTCATAATCGATAGTCGTAA-CCATCCTTTTTCATATTCGATAGCCGAAACT
* * * *
39919002 ATCCCTTTTCATAGTTGATAGTCGTCACCATCCTTTTTCATGATT-GATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGTCGTAACCATCCTTTTTCAT-ATTCGATAGCCGAAACT
*
39919060 TTCCCTTTTCAT
1 ATCCCTTTTCAT
39919072 TGGTCGATGA
Statistics
Matches: 98, Mismatches: 27, Indels: 6
0.75 0.21 0.05
Matches are distributed among these distances:
57 1 0.01
58 93 0.95
59 4 0.04
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (58 bp):
ATCCCTTTTCATAATCGATAGTCGTAACCATCCTTTTTCATATTCGATAGCCGAAACT
Found at i:39919040 original size:87 final size:87
Alignment explanation
Indices: 39918886--39919071 Score: 212
Period size: 87 Copynumber: 2.1 Consensus size: 87
39918876 GGTCGTCACC
*
39918886 ATCCCTTTTCATAGTTGATGGTTGTCACAATCCCTTTTCAAAATCGATAGCCGAAACTATCCCTT
1 ATCCCTTTTCATAGTTGATGGTTGTCACAATCCCTTTTCAAAATCGATAGCCGAAACCATCCCTT
**
39918951 TTCATAATCGATAGTTGAAGCT
66 TTCATAATCGATAGCCGAAGCT
* * * * * * * ** *
39918973 ATCCTTTTTCATA-TTCGATGGTTGTTACCATCCCTTTTCATAGTTGATAGTCGTCACCATCCTT
1 ATCCCTTTTCATAGTT-GATGGTTGTCACAATCCCTTTTCAAAATCGATAGCCGAAACCATCCCT
* *
39919037 TTTCATGATTGATAGCCGAAGCT
65 TTTCATAATCGATAGCCGAAGCT
*
39919060 TTCCCTTTTCAT
1 ATCCCTTTTCAT
39919072 TGGTCGATGA
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
86 2 0.02
87 79 0.98
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (87 bp):
ATCCCTTTTCATAGTTGATGGTTGTCACAATCCCTTTTCAAAATCGATAGCCGAAACCATCCCTT
TTCATAATCGATAGCCGAAGCT
Found at i:39919610 original size:169 final size:169
Alignment explanation
Indices: 39919328--39919669 Score: 657
Period size: 169 Copynumber: 2.0 Consensus size: 169
39919318 AATTTCGTTC
39919328 AATCTATTAATTTCAACAGTAAAACAATGTATTTTATGAAATTTAGTCATTTTTAACCTTTTAAA
1 AATCTATTAATTTCAACAGTAAAACAATGTATTTTATGAAATTTAGTCATTTTTAACCTTTTAAA
* *
39919393 AAAATTGCCCCTAAAGTTTTACTTTTATCCAATTTAGTCCCTAAGCCTAAAACATGCAATTTAAC
66 AAAATTACCCCTAAAGTTTTACTTTTATCCAATTTAGTCCCAAAGCCTAAAACATGCAATTTAAC
39919458 CATTTTTTCCCAAATTCAAGCTTAGCCAAATGCTCATGG
131 CATTTTTTCCCAAATTCAAGCTTAGCCAAATGCTCATGG
*
39919497 AATCTATTAATTTCAACAGTAAAACAATGTATTTTATGAAATTTAGTCATTTTTAACCTTTTTAA
1 AATCTATTAATTTCAACAGTAAAACAATGTATTTTATGAAATTTAGTCATTTTTAACCTTTTAAA
39919562 AAAATTACCCCTAAAGTTTTACTTTTATCCAATTTAGTCCCAAAGCCTAAAACATGCAATTTAAC
66 AAAATTACCCCTAAAGTTTTACTTTTATCCAATTTAGTCCCAAAGCCTAAAACATGCAATTTAAC
39919627 CATTTTTTCCCAAATTCAAGCTTAGCCAAATGCTCATGG
131 CATTTTTTCCCAAATTCAAGCTTAGCCAAATGCTCATGG
39919666 AATC
1 AATC
39919670 AAGTAAAACC
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
169 170 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (169 bp):
AATCTATTAATTTCAACAGTAAAACAATGTATTTTATGAAATTTAGTCATTTTTAACCTTTTAAA
AAAATTACCCCTAAAGTTTTACTTTTATCCAATTTAGTCCCAAAGCCTAAAACATGCAATTTAAC
CATTTTTTCCCAAATTCAAGCTTAGCCAAATGCTCATGG
Found at i:39929149 original size:24 final size:26
Alignment explanation
Indices: 39929110--39929159 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
39929100 TAATATTATT
39929110 TAATGTTTATACTTATTT-TATATTTA
1 TAATGTTTATACTTATTTGTA-ATTTA
39929136 TAATGTTT-TA-TTATTTGTAATTTA
1 TAATGTTTATACTTATTTGTAATTTA
39929160 CCAATATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 11 0.48
25 4 0.17
26 8 0.35
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (26 bp):
TAATGTTTATACTTATTTGTAATTTA
Found at i:39929239 original size:24 final size:23
Alignment explanation
Indices: 39929144--39929356 Score: 106
Period size: 24 Copynumber: 9.3 Consensus size: 23
39929134 TATAATGTTT
* * *
39929144 TATTATTTGT-AATTTACCAATAT
1 TATTATTT-TAAATTTATCATTAA
* *
39929167 TATTATTTTAAATTCATCGTTAA
1 TATTATTTTAAATTTATCATTAA
*
39929190 CATTATTTTAAATTTATCATCT-A
1 TATTATTTTAAATTTATCAT-TAA
*
39929213 TATCTATTTCAAATTTATCATTAA
1 TAT-TATTTTAAATTTATCATTAA
* *
39929237 TA-T-TTTTAAATTTATTATATAC
1 TATTATTTTAAATTTATCAT-TAA
** *
39929259 TATTATTTTGGATTTATCACGT-A
1 TATTATTTTAAATTTATCA-TTAA
* *
39929282 TGATTATTCTAGAA-TTATCATCAA
1 T-ATTATTTTA-AATTTATCATTAA
* *
39929306 -AAT-TTTTAAATTTTAT-ATGTAT
1 TATTATTTTAAA-TTTATCAT-TAA
* *
39929328 TATTATTTCAAATTTATTA-T-A
1 TATTATTTTAAATTTATCATTAA
39929349 TATTATTT
1 TATTATTT
39929357 ATTGTAAATT
Statistics
Matches: 143, Mismatches: 30, Indels: 36
0.68 0.14 0.17
Matches are distributed among these distances:
20 2 0.01
21 27 0.19
22 14 0.10
23 46 0.32
24 53 0.37
25 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (23 bp):
TATTATTTTAAATTTATCATTAA
Found at i:39929266 original size:45 final size:46
Alignment explanation
Indices: 39929145--39929266 Score: 117
Period size: 45 Copynumber: 2.7 Consensus size: 46
39929135 ATAATGTTTT
* * *
39929145 ATTATTTGT-AATTTACCA-ATATTATTATTTTAAATTCATCGTTAAC
1 ATTATTT-TAAATTTATCATATA-TATTATTTCAAATTCATCATTAAC
* * *
39929191 ATTATTTTAAATTTATCATCTATATCTATTTCAAATTTATCATTAAT
1 ATTATTTTAAATTTATCATATATAT-TATTTCAAATTCATCATTAAC
*
39929238 A-T-TTTTAAATTTATTATATACTATTATTT
1 ATTATTTTAAATTTATCATATA-TATTATTT
39929267 TGGATTTATC
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
45 22 0.34
46 22 0.34
47 20 0.31
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (46 bp):
ATTATTTTAAATTTATCATATATATTATTTCAAATTCATCATTAAC
Found at i:39929276 original size:69 final size:69
Alignment explanation
Indices: 39929191--39929344 Score: 165
Period size: 69 Copynumber: 2.2 Consensus size: 69
39929181 CATCGTTAAC
* *
39929191 ATTATTTTAAATTTATCATC-TAT-ATCTATT-TCA-AATTTATCATTAATATTTTTAAA-TTTA
1 ATTATTTTAAATTTATCA-CGTATGAT-TATTCT-AGAA-TTATCATCAAAATTTTTAAATTTTA
39929251 TTATATACT
62 -TATATACT
** *
39929260 ATTATTTTGGATTTATCACGTATGATTATTCTAGAATTATCATCAAAATTTTTAAATTTTATATG
1 ATTATTTTAAATTTATCACGTATGATTATTCTAGAATTATCATCAAAATTTTTAAATTTTATATA
*
39929325 TATT
66 TACT
*
39929329 ATTATTTCAAATTTAT
1 ATTATTTTAAATTTAT
39929345 TATATATTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
68 1 0.01
69 61 0.86
70 9 0.13
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (69 bp):
ATTATTTTAAATTTATCACGTATGATTATTCTAGAATTATCATCAAAATTTTTAAATTTTATATA
TACT
Found at i:39929368 original size:24 final size:23
Alignment explanation
Indices: 39929310--39929368 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
39929300 CATCAAAATT
39929310 TTTAAATT-TTATATGTATTATTA
1 TTTAAATTATTATA-GTATTATTA
39929333 TTTCAAATTTATTATA-TATTATTTA
1 TTT-AAA-TTATTATAGTATTA-TTA
39929358 TTGTAAATTAT
1 TT-TAAATTAT
39929369 CCAATTCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 12 0.39
25 10 0.32
26 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTAAATTATTATAGTATTATTA
Found at i:39932992 original size:15 final size:15
Alignment explanation
Indices: 39932972--39933016 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
39932962 ATTCAATCAC
39932972 AAAAAAAATCAAAAT
1 AAAAAAAATCAAAAT
*
39932987 AAAAAAAATCGAAAT
1 AAAAAAAATCAAAAT
* *
39933002 CAAAAAAATGAAAAT
1 AAAAAAAATCAAAAT
39933017 GATGGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.76, C:0.07, G:0.04, T:0.13
Consensus pattern (15 bp):
AAAAAAAATCAAAAT
Found at i:39935317 original size:45 final size:45
Alignment explanation
Indices: 39935268--39935486 Score: 123
Period size: 45 Copynumber: 4.9 Consensus size: 45
39935258 CCTGAGTTTA
*
39935268 CAGTGGAGCATACTAAAGATTGCAGATCTTGCCTTCCTGTACTGG
1 CAGTGGAGCATACTAAAGATAGCAGATCTTGCCTTCCTGTACTGG
* * * * *
39935313 CAGTGAAGCATA-TCAAAGACA-CTAG-CCTTGCC-TCTCTG-AGTTTG
1 CAGTGGAGCATACT-AAAGATAGC-AGATCTTGCCTTC-CTGTA-CTGG
* * *
39935357 CAGCGGAGTAGACTAAAGATAGCAGATCTTGCCTTCCTGTACTGG
1 CAGTGGAGCATACTAAAGATAGCAGATCTTGCCTTCCTGTACTGG
* * * * * * * *
39935402 CAGCGAAGCAGATCGAAA-ACA-CTAG-CCTTGCCTTCCTG-AGTTTG
1 CAGTGGAGCATA-CTAAAGATAGC-AGATCTTGCCTTCCTGTA-CTGG
* * * *
39935446 CGGTGGAGCAAACTGAAGATAGCAGATCTTGTCTTCCTGTA
1 CAGTGGAGCATACTAAAGATAGCAGATCTTGCCTTCCTGTA
39935487 TTAGCAGCGA
Statistics
Matches: 128, Mismatches: 30, Indels: 31
0.68 0.16 0.16
Matches are distributed among these distances:
43 7 0.05
44 56 0.44
45 57 0.45
46 8 0.06
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (45 bp):
CAGTGGAGCATACTAAAGATAGCAGATCTTGCCTTCCTGTACTGG
Found at i:39935398 original size:89 final size:89
Alignment explanation
Indices: 39935247--39935623 Score: 486
Period size: 89 Copynumber: 4.2 Consensus size: 89
39935237 TGAAACTATA
* * * *
39935247 AGCCTTGCCTCCCTGAGTTTACAGTGGAGCATACTAAAGATTGCAGATCTTGCCTTCCTGTACTG
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAAACTAAAGATAGCAGATCTTGCCTTCCTGTACTA
* * *
39935312 GCAGTGAAGCATATC-AAAGACACT
66 GCAGCGAAGCAGATCGAAA-ACACC
* * * * *
39935336 AGCCTTGCCTCTCTGAGTTTGCAGCGGAGTAGACTAAAGATAGCAGATCTTGCCTTCCTGTACTG
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAAACTAAAGATAGCAGATCTTGCCTTCCTGTACTA
*
39935401 GCAGCGAAGCAGATCGAAAACACT
66 GCAGCGAAGCAGATCGAAAACACC
* * * * *
39935425 AGCCTTGCCTTCCTGAGTTTGCGGTGGAGCAAACTGAAGATAGCAGATCTTGTCTTCCTGTATTA
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAAACTAAAGATAGCAGATCTTGCCTTCCTGTACTA
* *
39935490 GCAGCGAAGTAGATCGAAGACACC
66 GCAGCGAAGCAGATCGAAAACACC
* * * * *
39935514 AGCCTTGCCTCCCTGAGTTCGCAGTGGAGCAAACTAAAAATAGCAAATATTGTCTTCCTGTACTA
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAAACTAAAGATAGCAGATCTTGCCTTCCTGTACTA
* *
39935579 GCAGTGAAGTAGATCGAAAACACC
66 GCAGCGAAGCAGATCGAAAACACC
*
39935603 AGCCTTGCCTCACTGAGTTTG
1 AGCCTTGCCTCCCTGAGTTTG
39935624 TAATGAAGTA
Statistics
Matches: 254, Mismatches: 33, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
89 251 0.99
90 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (89 bp):
AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAAACTAAAGATAGCAGATCTTGCCTTCCTGTACTA
GCAGCGAAGCAGATCGAAAACACC
Found at i:39935435 original size:44 final size:44
Alignment explanation
Indices: 39935295--39935439 Score: 129
Period size: 44 Copynumber: 3.3 Consensus size: 44
39935285 GATTGCAGAT
* *
39935295 CTTGCCTTCCTGTACTGGCAGTGAAGCATATCAAAGACACTAGC
1 CTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACTAGC
* * * * * *
39935339 CTTGCC-TCTCTG-AGTTTGCAGCGGAGTAGA-CTAAAGATAGC-AGAT
1 CTTGCCTTC-CTGTA-CTGGCAGCGAAGCAGATC-AAAGACA-CTAG-C
39935384 CTTGCCTTCCTGTACTGGCAGCGAAGCAGATCGAAA-ACACTAGC
1 CTTGCCTTCCTGTACTGGCAGCGAAGCAGATC-AAAGACACTAGC
39935428 CTTGCCTTCCTG
1 CTTGCCTTCCTG
39935440 AGTTTGCGGT
Statistics
Matches: 77, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
43 4 0.05
44 40 0.52
45 26 0.34
46 7 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (44 bp):
CTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACTAGC
Found at i:39935939 original size:174 final size:171
Alignment explanation
Indices: 39935733--39936251 Score: 639
Period size: 174 Copynumber: 3.0 Consensus size: 171
39935723 GATTTAAGCC
* * * *
39935733 ACCAGTCTCATCTCCCTGAAGTTGCAGCGGAGCAGATTGAATCTAATAATTCTATCTCCCTGAAG
1 ACCAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAACCAATAATTCTATCTCCCTGAAG
* *
39935798 TTACAGTGGAGTGGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCACAT
66 TTGCAGTGGAGTGGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCGCAT
* * *
39935863 CCAATCTTACCTCCCTGAAGTTCCAGTGGGGCAGACTAAAG
131 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
* * *
39935904 ACGGCGAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCCAATAATCCTATATCCCTG
1 AC--C-AATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAACCAATAATTCTATCTCCCTG
* * * * * *
39935969 AAGTTGTAGTGGAGCGGATTAAAATGCTAGATTTTATCTCTCTAAAGTTGCAGTAGAGCAAATTG
63 AAGTTGCAGTGGAGTGGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCG
* * *
39936034 CATCCAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAATAA
128 CATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AA-AG
* ** * * *
39936080 ACCAATCTTATCTCCGTGAAGTTGCAATGGAGCAGATTAAAACCAATAA-TCTTATCTCTCTAAA
1 ACCAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAACCAATAATTC-TATCTCCCTGAA
* * * *
39936144 GTTGCAGT-GAATCGGATTAGAATGATGGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCGC
65 GTTGCAGTGGAGT-GGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCGC
* * *
39936208 -TACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAG
129 ATCCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
39936251 A
1 A
39936252 TAGCAAATTT
Statistics
Matches: 295, Mismatches: 45, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
171 4 0.01
172 7 0.02
173 133 0.45
174 146 0.49
175 2 0.01
176 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (171 bp):
ACCAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAACCAATAATTCTATCTCCCTGAAG
TTGCAGTGGAGTGGATTAAAATGCTAGATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATCGCAT
CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
Found at i:39935940 original size:86 final size:86
Alignment explanation
Indices: 39935742--39936116 Score: 217
Period size: 85 Copynumber: 4.3 Consensus size: 86
39935732 CACCAGTCTC
* * * *
39935742 ATCTCCCTGAAGTTGCAGCGGAGCAGATTGAATCTAATAATTCTATCTCCCTGAAGTTACAGTGG
1 ATCTCCCTGAAGTTGCAGCGGAGCAGA-TCAATCCAAT-ACTCTACCTCCCTGAAGTTACAGTGG
** * * *
39935807 AGTGGATTAAAATGCTAGATCTT
64 AGCAGACTAAAAGGCGAGATCTT
* * * ** * *
39935830 ATCTCTCTAAAGTTGTAGTAGAGCAGATCACATCCAAT-CT-TACCTCCCTGAAGTTCCAGTGGG
1 ATCTCCCTGAAGTTGCAGCGGAGCAGATCA-ATCCAATACTCTACCTCCCTGAAGTTACAGTGGA
39935893 GCAGACTAAAGACGGCGA-ATCTT
65 GCAGACTAAA-A-GGCGAGATCTT
* * * ** **
39935916 ATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCCAATAATCCTATATCCCTGAAGTTGTAGTGG
1 ATCTCCCTGAAGTTGCAGCGGAGCAGA-TCAATCCAATACT-CTACCTCCCTGAAGTTACAGTGG
* * * * *
39935981 AGCGGATTAAAATGCTAGATTTT
64 AGCAGACTAAAAGGCGAGATCTT
* * ** * * * * *
39936004 ATCTCTCTAAAGTTGCAGTAGAGCAAATTGC-ATCCAGT-CT-TATCTCCCTGAAGTTGCAGTAG
1 ATCTCCCTGAAGTTGCAGCGGAGCAGA-T-CAATCCAATACTCTACCTCCCTGAAGTTACAGTGG
* *
39936066 AGCAGACTGAATAA-ACCA-ATCTT
64 AGCAGACT-AA-AAGGCGAGATCTT
* **
39936089 ATCTCCGTGAAGTTGCAATGGAGCAGAT
1 ATCTCCCTGAAGTTGCAGCGGAGCAGAT
39936117 TAAAACCAAT
Statistics
Matches: 219, Mismatches: 57, Indels: 26
0.73 0.19 0.09
Matches are distributed among these distances:
84 1 0.00
85 77 0.35
86 39 0.18
87 14 0.06
88 62 0.28
89 26 0.12
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (86 bp):
ATCTCCCTGAAGTTGCAGCGGAGCAGATCAATCCAATACTCTACCTCCCTGAAGTTACAGTGGAG
CAGACTAAAAGGCGAGATCTT
Found at i:39936131 original size:44 final size:42
Alignment explanation
Indices: 39935742--39936152 Score: 254
Period size: 44 Copynumber: 9.5 Consensus size: 42
39935732 CACCAGTCTC
* * * *
39935742 ATCTCCCTGAAGTTGCAGCGGAGCAGATT-GAATCTAATAATTCT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAAT--CT-T
* ** *
39935786 ATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATGCTAGATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-CCTA-ATCTT
* * * * * * *
39935830 ATCTCTCTAAAGTTGTAGTAGAGCAGATCACATCC-AATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAATCTT
* * * * *
39935871 ACCTCCCTGAAGTTCCAGTGGGGCAGACTAAAGACGGCGAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-AC--CTAATCTT
* * * *
39935916 ATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCCAATAATCCT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC--TAATCTT
* * * * *
39935960 ATATCCCTGAAGTTGTAGTGGAGCGGATTAAAATGCTAGATTTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-CCTA-ATCTT
* * * * ** * *
39936004 ATCTCTCTAAAGTTGCAGTAGAGCAAATTGCATCC-AGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAATCTT
* *
39936045 ATCTCCCTGAAGTTGCAGTAGAGCAGACTGAATAAACC-AATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA-T-TA-AAACCTAATCTT
* *
39936089 ATCTCCGTGAAGTTGCAATGGAGCAGATTAAAACCAATAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC--TAATCTT
* *
39936133 ATCTCTCTAAAGTTGCAGTG
1 ATCTCCCTGAAGTTGCAGTG
39936153 AATCGGATTA
Statistics
Matches: 274, Mismatches: 76, Indels: 34
0.71 0.20 0.09
Matches are distributed among these distances:
41 59 0.22
42 6 0.02
43 5 0.02
44 163 0.59
45 36 0.13
46 3 0.01
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTAATCTT
Found at i:39936142 original size:129 final size:129
Alignment explanation
Indices: 39935912--39936151 Score: 306
Period size: 129 Copynumber: 1.9 Consensus size: 129
39935902 AGACGGCGAA
* * * * *
39935912 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGCCAATAATCCTATATCCCTGAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGCAAACAATCCTATATCCCTGAAGTTGCA
* * * *
39935977 GTGGAGCGGATTAAAATGCTAGATTTTATCTCTCTAAAGTTGCAGTAGAGCAAATTGCATCCAG
66 ATGGAGCAGATTAAAATCCTAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAAATTGCATCCAG
* * * * *
39936041 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAA-TAAACCAATCTTATCTCCGTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGCAAA-CAATCCTATATCCCTGAAGTTGC
39936105 AATGGAGCAGATTAAAA-CCAATA-ATCTTATCTCTCTAAAGTTGCAGT
65 AATGGAGCAGATTAAAATCC--TAGATCTTATCTCTCTAAAGTTGCAGT
39936152 GAATCGGATT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
128 3 0.03
129 89 0.95
130 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGCAAACAATCCTATATCCCTGAAGTTGCA
ATGGAGCAGATTAAAATCCTAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAAATTGCATCCAG
Found at i:39936162 original size:44 final size:44
Alignment explanation
Indices: 39936083--39936191 Score: 105
Period size: 44 Copynumber: 2.5 Consensus size: 44
39936073 TGAATAAACC
* *
39936083 AATCTTATCTC-CGTGAAGTTGCAATGGAGCAGATTAAAACCAAT-
1 AATCTTATCTCTC-TAAAGTTGCAATGAAGCAGATTAAAA-CAATG
* * * * **
39936127 AATCTTATCTCTCTAAAGTTGCAGTGAATCGGATTAGAATGATG
1 AATCTTATCTCTCTAAAGTTGCAATGAAGCAGATTAAAACAATG
*
39936171 GATCTTATCTCTCTAAAGTTG
1 AATCTTATCTCTCTAAAGTTG
39936192 TAGTAGAGCA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 2 0.04
44 51 0.94
45 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (44 bp):
AATCTTATCTCTCTAAAGTTGCAATGAAGCAGATTAAAACAATG
Found at i:39937661 original size:24 final size:24
Alignment explanation
Indices: 39937632--39937746 Score: 96
Period size: 23 Copynumber: 4.9 Consensus size: 24
39937622 GTATTGTATA
*
39937632 TTATTATTTTAGATTTATCATGTT
1 TTATTATTTTAAATTTATCATGTT
* *
39937656 TTATTATTTGT-AATTTATCA-ATA
1 TTATTATTT-TAAATTTATCATGTT
*
39937679 TTATTATTTTAAATTCATC--GTT
1 TTATTATTTTAAATTTATCATGTT
**
39937701 AACATTATTTTAAATTTATCATG-T
1 -TTATTATTTTAAATTTATCATGTT
* *
39937725 ATATCTATTTCAAATTTATCAT
1 TTAT-TATTTTAAATTTATCAT
39937747 TAATATTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
22 2 0.03
23 36 0.49
24 34 0.46
25 2 0.03
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (24 bp):
TTATTATTTTAAATTTATCATGTT
Found at i:39937719 original size:46 final size:46
Alignment explanation
Indices: 39937629--39937780 Score: 123
Period size: 47 Copynumber: 3.3 Consensus size: 46
39937619 AGTGTATTGT
* * ***
39937629 ATATTATTATTTTAGATTTATCATGTTTTATTATTTGT-AATTTATCA
1 ATATTATTATTTTAAATTCATCAT-TAACATTATTT-TAAATTTATCA
*
39937676 ATATTATTATTTTAAATTCATCGTTAACATTATTTTAAATTTATC-
1 ATATTATTATTTTAAATTCATCATTAACATTATTTTAAATTTATCA
* * * * *
39937721 ATGTATATCTATTTCAAATTTATCATTAATA-T-TTTTAAATTTATTA
1 ATAT-TAT-TATTTTAAATTCATCATTAACATTATTTTAAATTTATCA
*
39937767 TATACTATTATTTT
1 -ATATTATTATTTT
39937781 GGATTTATCA
Statistics
Matches: 85, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
45 21 0.25
46 23 0.27
47 41 0.48
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.57
Consensus pattern (46 bp):
ATATTATTATTTTAAATTCATCATTAACATTATTTTAAATTTATCA
Found at i:39937734 original size:47 final size:46
Alignment explanation
Indices: 39937658--39937779 Score: 117
Period size: 46 Copynumber: 2.7 Consensus size: 46
39937648 ATCATGTTTT
* *
39937658 ATTATTTGT-AATTTATCAATATTATTATTTTAAATTCATCGTTAAC
1 ATTATTT-TAAATTTATCAATATTATTATTTCAAATTCATCATTAAC
* * *
39937704 ATTATTTTAAATTTATC-ATGTATATCTATTTCAAATTTATCATTAAT
1 ATTATTTTAAATTTATCAATAT-TAT-TATTTCAAATTCATCATTAAC
* *
39937751 A-T-TTTTAAATTTATTATATACTATTATTT
1 ATTATTTTAAATTTATCA-ATATTATTATTT
39937780 TGGATTTATC
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
45 21 0.33
46 22 0.35
47 20 0.32
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.55
Consensus pattern (46 bp):
ATTATTTTAAATTTATCAATATTATTATTTCAAATTCATCATTAAC
Found at i:39937752 original size:24 final size:23
Alignment explanation
Indices: 39937588--39937790 Score: 128
Period size: 24 Copynumber: 8.7 Consensus size: 23
39937578 ATATTTATAC
*
39937588 TTATTATTAAATTAATCATTAATA
1 TTATT-TTAAATTTATCATTAATA
* * * ** *
39937612 TTA-TCTAAGTGTATTGTATATTA
1 TTATTTTAAATTTATCAT-TAATA
* **
39937635 TTATTTTAGATTTATCATGTTTTA
1 TTATTTTAAATTTATCAT-TAATA
* *
39937659 TTATTTGT-AATTTATCAATATTA
1 TTATTT-TAAATTTATCATTAATA
* * *
39937682 TTATTTTAAATTCATCGTTAACA
1 TTATTTTAAATTTATCATTAATA
39937705 TTATTTTAAATTTATCATGT-ATA
1 TTATTTTAAATTTATCAT-TAATA
*
39937728 TCTATTTCAAATTTATCATTAATA
1 T-TATTTTAAATTTATCATTAATA
* *
39937752 -T-TTTTAAATTTATTATATACTA
1 TTATTTTAAATTTATCAT-TAATA
**
39937774 TTATTTTGGATTTATCA
1 TTATTTTAAATTTATCA
39937791 CGTATGATTA
Statistics
Matches: 136, Mismatches: 33, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
21 13 0.10
22 13 0.10
23 49 0.36
24 60 0.44
25 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (23 bp):
TTATTTTAAATTTATCATTAATA
Found at i:39937856 original size:69 final size:69
Alignment explanation
Indices: 39937704--39937857 Score: 165
Period size: 69 Copynumber: 2.2 Consensus size: 69
39937694 CATCGTTAAC
* * *
39937704 ATTATTTTAAATTTATCATGTATATCTATTTCAAATTTATCATTAATATTTTTAAATTTATTATA
1 ATTATTTTAAATTTATCACGTATATCTATTTCAAATTCATCATTAAAATTTTTAAATTTATTATA
39937769 TACT
66 TACT
**
39937773 ATTATTTTGGATTTATCACGTATGAT-TA-TTCTAGAA-TCATCATTAAAATTTTTAAA-TT-TT
1 ATTATTTTAAATTTATCACGTAT-ATCTATTTC-A-AATTCATCATTAAAATTTTTAAATTTATT
*
39937833 ATAAGTATT
63 AT-A-TACT
*
39937842 ATTATTTCAAATTTAT
1 ATTATTTTAAATTTAT
39937858 TATATATTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
67 4 0.06
68 6 0.08
69 57 0.80
70 4 0.06
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.53
Consensus pattern (69 bp):
ATTATTTTAAATTTATCACGTATATCTATTTCAAATTCATCATTAAAATTTTTAAATTTATTATA
TACT
Found at i:39940188 original size:26 final size:26
Alignment explanation
Indices: 39940141--39940191 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
39940131 TCCTGTACAT
** *
39940141 ATATGCTCACATGAGCTATGAAATGA
1 ATATGCTCACAAAAACTATGAAATGA
*
39940167 ATATGCTCACAAAAACTGTGAAATG
1 ATATGCTCACAAAAACTATGAAATG
39940192 GGCTTGCTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (26 bp):
ATATGCTCACAAAAACTATGAAATGA
Found at i:39943926 original size:17 final size:17
Alignment explanation
Indices: 39943904--39943936 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
39943894 GATAAAACTA
39943904 AACCCTGAAAAACAAAG
1 AACCCTGAAAAACAAAG
39943921 AACCCTGAAAAACAAA
1 AACCCTGAAAAACAAA
39943937 ATTCTCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.24, G:0.09, T:0.06
Consensus pattern (17 bp):
AACCCTGAAAAACAAAG
Found at i:39944296 original size:7 final size:7
Alignment explanation
Indices: 39944284--39944314 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
39944274 TATCGAATAA
39944284 AATTTAC
1 AATTTAC
39944291 AATTTAC
1 AATTTAC
39944298 AATTTAC
1 AATTTAC
39944305 AATTTAC
1 AATTTAC
39944312 AAT
1 AAT
39944315 AAAATAGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (7 bp):
AATTTAC
Found at i:39947919 original size:47 final size:47
Alignment explanation
Indices: 39947867--39948319 Score: 710
Period size: 47 Copynumber: 9.6 Consensus size: 47
39947857 GATAATTGTG
* *
39947867 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
39947914 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39947961 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39948010 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39948059 ATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39948106 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39948153 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39948200 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
39948247 ATGTGAAAGTGTATATATGTGACATA-GCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATA-AGGCCTAATGGCCGATGTGATGA
*
39948294 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
39948320 TCCCGAAGGG
Statistics
Matches: 378, Mismatches: 24, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 284 0.75
48 1 0.00
49 92 0.24
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:39950516 original size:38 final size:38
Alignment explanation
Indices: 39950452--39950526 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
39950442 AATCCGAGTT
*
39950452 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
39950490 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
39950527 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:39950639 original size:40 final size:40
Alignment explanation
Indices: 39950580--39950921 Score: 551
Period size: 40 Copynumber: 8.6 Consensus size: 40
39950570 AGGTCTCGAC
39950580 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
39950619 GATGTATCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
39950659 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
39950699 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
39950739 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
39950779 GATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
39950819 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
39950859 GATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
39950899 GTTGTATCCGGACTAAGTTCCGA
1 GATGTATCCGGGCTAAGTCCCGA
39950922 CCGGACTAAG
Statistics
Matches: 277, Mismatches: 25, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
39 4 0.01
40 273 0.99
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:39950927 original size:16 final size:16
Alignment explanation
Indices: 39950906--39950937 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
39950896 AGTGTTGTAT
39950906 CCGGACTAAGTTCCGA
1 CCGGACTAAGTTCCGA
39950922 CCGGACTAAGTTCCGA
1 CCGGACTAAGTTCCGA
39950938 AGAGCATTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (16 bp):
CCGGACTAAGTTCCGA
Found at i:39950982 original size:40 final size:40
Alignment explanation
Indices: 39950922--39951023 Score: 141
Period size: 40 Copynumber: 2.5 Consensus size: 40
39950912 TAAGTTCCGA
*
39950922 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
39950962 CCGTGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
39951002 CTGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTTCCGAAGAGCA
39951024 ATCATGCTGG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:39950990 original size:96 final size:96
Alignment explanation
Indices: 39950826--39951002 Score: 309
Period size: 96 Copynumber: 1.8 Consensus size: 96
39950816 AGTGATGTAT
39950826 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
1 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
*
39950891 GTGCTAGTGTTGTATCCGGACTAAGTTCCGA
66 GTGCTAGTGTTATATCCGGACTAAGTTCCGA
* * *
39950922 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAGTTCCGAAGAGCATTC
1 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
*
39950987 GTGCTGGTGTTATATC
66 GTGCTAGTGTTATATC
39951003 TGGGCTAGGT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 76 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (96 bp):
CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
GTGCTAGTGTTATATCCGGACTAAGTTCCGA
Found at i:39951032 original size:40 final size:40
Alignment explanation
Indices: 39950922--39951036 Score: 140
Period size: 40 Copynumber: 2.9 Consensus size: 40
39950912 TAAGTTCCGA
* * *
39950922 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATAT
* * *
39950962 CCGTGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATAT
* * * *
39951002 CTGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
39951037 CGTGTATTCG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATAT
Found at i:39966346 original size:16 final size:16
Alignment explanation
Indices: 39966322--39966352 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39966312 TTAACATCAA
*
39966322 TTAACCTAAAAATTAT
1 TTAAACTAAAAATTAT
39966338 TTAAACTAAAAATTA
1 TTAAACTAAAAATTA
39966353 ACCAATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAACTAAAAATTAT
Found at i:39970139 original size:43 final size:43
Alignment explanation
Indices: 39970077--39970271 Score: 187
Period size: 43 Copynumber: 4.5 Consensus size: 43
39970067 CATGTAAGTC
* * * * *
39970077 CATCATTAGATATAACTGAAGCAAATATACTGACAAACGTAGTG
1 CATCATCAGATAT-ACCGAAGCAACTATACTGACACACATAGTG
* * * * *
39970121 CATCATCAGATATACTGAAACAACTATACTAACACACATAATA
1 CATCATCAGATATACCGAAGCAACTATACTGACACACATAGTG
* * * *
39970164 CATCATTAGATTTACCGAA-CTAACTATACTGGCACACAAAGTG
1 CATCATCAGATATACCGAAGC-AACTATACTGACACACATAGTG
* * * *
39970207 CATCATCAGATATACCGAAGTAATTATACTGGCACACACAGTG
1 CATCATCAGATATACCGAAGCAACTATACTGACACACATAGTG
39970250 CATCATC-GAATATACCGAAGCA
1 CATCATCAG-ATATACCGAAGCA
39970272 TAATCAGATC
Statistics
Matches: 126, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
42 2 0.02
43 112 0.89
44 12 0.10
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.24
Consensus pattern (43 bp):
CATCATCAGATATACCGAAGCAACTATACTGACACACATAGTG
Found at i:39977837 original size:4 final size:4
Alignment explanation
Indices: 39977828--39977866 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
39977818 TGCTTCTTCT
* * *
39977828 TTAC TTAC TTTC TTAC TTGC TTAC TTAC TTGC TTAC TTA
1 TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTA
39977867 GATAACTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.54
Consensus pattern (4 bp):
TTAC
Found at i:39978190 original size:50 final size:50
Alignment explanation
Indices: 39978120--39978253 Score: 142
Period size: 50 Copynumber: 2.7 Consensus size: 50
39978110 ACTGCCAATG
* * ** * *
39978120 CCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCTCATA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCTAACA
** * *
39978170 CCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCTAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCTAACA
* * * *
39978220 CCATGTCCCTGACATGGTTTTACTTGGGATCTCT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCT
39978254 TTACCCAAAT
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCTAACA
Found at i:39982166 original size:14 final size:14
Alignment explanation
Indices: 39982147--39982177 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
39982137 AACTCAATCG
39982147 ATAACTACCATCAT
1 ATAACTACCATCAT
39982161 ATAACTACCATCAT
1 ATAACTACCATCAT
39982175 ATA
1 ATA
39982178 CAAACTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAACTACCATCAT
Found at i:39990494 original size:27 final size:27
Alignment explanation
Indices: 39990454--39990521 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
39990444 TCTGACCCAC
**
39990454 AGCTCGTGTGAGCAGGCCCATTTTCAT
1 AGCTCGTGTGAGCAAACCCATTTTCAT
* *
39990481 AGCTTGTGTAAGCAAACCCATTTTCAT
1 AGCTCGTGTGAGCAAACCCATTTTCAT
39990508 AGCTCGTGTGAGCA
1 AGCTCGTGTGAGCA
39990522 TACATGTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (27 bp):
AGCTCGTGTGAGCAAACCCATTTTCAT
Found at i:39993948 original size:17 final size:17
Alignment explanation
Indices: 39993928--39993985 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
39993918 ATTTTAATAG
*
39993928 ATTTAATATTTATTTTA
1 ATTTAATATTTATATTA
* *
39993945 ATTTAATACTTATCTTA
1 ATTTAATATTTATATTA
*
39993962 A--TAGTATTT-TATTA
1 ATTTAATATTTATATTA
39993976 ATTTAATATT
1 ATTTAATATT
39993986 AAAGCGATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
14 5 0.15
15 6 0.18
16 6 0.18
17 16 0.48
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTTAATATTTATATTA
Found at i:39994069 original size:62 final size:59
Alignment explanation
Indices: 39993997--39994112 Score: 160
Period size: 62 Copynumber: 1.9 Consensus size: 59
39993987 AAGCGATTAT
* * * *
39993997 TTTAATATTAAATTTAATTTAATGTTTATCTTATAGATAAATTTTCTATTAATTTAATAAGA
1 TTTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAAGA
*
39994059 TTTAATATTAACTTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAA
1 TTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAA
39994113 AATTAGTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.41
60 1 0.02
61 1 0.02
62 27 0.55
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (59 bp):
TTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAGA
Found at i:39994775 original size:14 final size:14
Alignment explanation
Indices: 39994756--39994782 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39994746 TTCGGGTTAA
39994756 TATTGTTGATAAGG
1 TATTGTTGATAAGG
39994770 TATTGTTGATAAG
1 TATTGTTGATAAG
39994783 AACTATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (14 bp):
TATTGTTGATAAGG
Found at i:39995889 original size:22 final size:22
Alignment explanation
Indices: 39995863--39995918 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
39995853 AATATGTAAA
* *
39995863 ATATCAGAGCATATCATATAAC
1 ATATCAGAGCATAACACATAAC
* * *
39995885 TTATCAAAACATAACACATAAC
1 ATATCAGAGCATAACACATAAC
*
39995907 ATAACAGAGCAT
1 ATATCAGAGCAT
39995919 GTCCTACCCC
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (22 bp):
ATATCAGAGCATAACACATAAC
Found at i:39996633 original size:34 final size:36
Alignment explanation
Indices: 39996572--39996643 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 36
39996562 ACTCAATGAA
* * *
39996572 GAAAGTAAAAGACAAGAAGTAGGAACGTG-ACAAAG
1 GAAAGGAAAAGACAAAAAGTAGAAACGTGTACAAAG
* *
39996607 GAAAGGAAAA-ACAAAAAGTATAAACGTGTAGAAAG
1 GAAAGGAAAAGACAAAAAGTAGAAACGTGTACAAAG
39996642 GA
1 GA
39996644 GAAAAAGTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 15 0.48
35 16 0.52
ACGTcount: A:0.57, C:0.07, G:0.26, T:0.10
Consensus pattern (36 bp):
GAAAGGAAAAGACAAAAAGTAGAAACGTGTACAAAG
Found at i:40000907 original size:39 final size:39
Alignment explanation
Indices: 40000810--40000945 Score: 163
Period size: 39 Copynumber: 3.5 Consensus size: 39
40000800 TTGAATGATG
*
40000810 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
40000848 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
40000889 TCCGGGCTAAGCCTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
40000928 TCCGGGCTAAGCCCGAAG
1 TCCGGGCTAAGCCCGAAG
40000946 ATACTAATTC
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
39 61 0.72
40 12 0.14
41 11 0.13
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:40000947 original size:26 final size:26
Alignment explanation
Indices: 40000918--40000971 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
40000908 CATTTGTGCG
40000918 AGATACTAATTCCGGGCTAAGCCCGA
1 AGATACTAATTCCGGGCTAAGCCCGA
40000944 AGATACTAATTCCGGGCTAAGCCCGA
1 AGATACTAATTCCGGGCTAAGCCCGA
40000970 AG
1 AG
40000972 GCATTTGTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (26 bp):
AGATACTAATTCCGGGCTAAGCCCGA
Found at i:40000983 original size:65 final size:66
Alignment explanation
Indices: 40000879--40001011 Score: 223
Period size: 65 Copynumber: 2.0 Consensus size: 66
40000869 CATTTGTGCG
* *
40000879 AGATACTAATTCCGGGCTAAGCCTGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCG
1 AGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCG
40000943 A
66 A
* *
40000944 AGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
1 AGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCG
40001009 A
66 A
40001010 AG
1 AG
40001012 GCATTTGTGC
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
65 56 0.89
66 7 0.11
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (66 bp):
AGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCG
A
Found at i:40001016 original size:40 final size:40
Alignment explanation
Indices: 40000947--40001058 Score: 165
Period size: 40 Copynumber: 2.8 Consensus size: 40
40000937 AGCCCGAAGA
* *
40000947 TACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGT
1 TACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAT
*
40000986 TACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAAT
1 TACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAT
*
40001026 TACTATAA-CCGGGCTATGTCCCGAAGGCATTTG
1 TACTA-AATCCGGGCTAAGTCCCGAAGGCATTTG
40001059 AACGAGGAGC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
39 16 0.24
40 48 0.73
41 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
TACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAT
Found at i:40031873 original size:37 final size:38
Alignment explanation
Indices: 40031807--40031895 Score: 96
Period size: 38 Copynumber: 2.3 Consensus size: 38
40031797 TTTTAATCTT
*
40031807 TTTTTGTTGTTTCAAACATTCTTGCACAAA-ATAG-TTTG
1 TTTTTGTT-TTTCAAACATTCTTGAACAAATAT-GTTTTG
40031845 TTTTTGTTTTTCAAATCAATTC-T-AACAAATATGTTTTG
1 TTTTTGTTTTTCAAA-C-ATTCTTGAACAAATATGTTTTG
40031883 TATTTTGTTTTTC
1 T-TTTTGTTTTTC
40031896 CAGATCTGGT
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
37 13 0.29
38 17 0.38
39 15 0.33
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.54
Consensus pattern (38 bp):
TTTTTGTTTTTCAAACATTCTTGAACAAATATGTTTTG
Found at i:40033714 original size:45 final size:45
Alignment explanation
Indices: 40033601--40033701 Score: 148
Period size: 45 Copynumber: 2.2 Consensus size: 45
40033591 GATAAAAACA
** *
40033601 AGTAAGACCATAGCCGAAAGACATTATGGCATCAGGATGGAAGTG
1 AGTAAGACCATAGCCGAAAGACGCTATGGAATCAGGATGGAAGTG
* * *
40033646 TGTAAGCCCATAGCCGAAAGACGCTATGGAATCATGATGGAAGTG
1 AGTAAGACCATAGCCGAAAGACGCTATGGAATCAGGATGGAAGTG
40033691 AGTAAGACCAT
1 AGTAAGACCAT
40033702 GGTTGAAAGA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.19
Consensus pattern (45 bp):
AGTAAGACCATAGCCGAAAGACGCTATGGAATCAGGATGGAAGTG
Found at i:40033725 original size:45 final size:45
Alignment explanation
Indices: 40033601--40033725 Score: 133
Period size: 45 Copynumber: 2.8 Consensus size: 45
40033591 GATAAAAACA
*** * *
40033601 AGTAAGACCATAGCCGAAAGACATTATGGCATCAGGATGGAAGTG
1 AGTAAGACCATAGCCGAAAGACGCAATCGCATCATGATGGAAGTG
* * * * *
40033646 TGTAAGCCCATAGCCGAAAGACGCTATGGAATCATGATGGAAGTG
1 AGTAAGACCATAGCCGAAAGACGCAATCGCATCATGATGGAAGTG
* **
40033691 AGTAAGACCATGGTTGAAAGACGCAATCGCATCAT
1 AGTAAGACCATAGCCGAAAGACGCAATCGCATCAT
40033726 TGTAAATAGG
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (45 bp):
AGTAAGACCATAGCCGAAAGACGCAATCGCATCATGATGGAAGTG
Found at i:40036864 original size:19 final size:20
Alignment explanation
Indices: 40036829--40036866 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
40036819 AAATCATAAG
40036829 TTAAACTCAGCATTTTCAGC
1 TTAAACTCAGCATTTTCAGC
*
40036849 TTAAACTTAG-ATTTTCAG
1 TTAAACTCAGCATTTTCAG
40036867 AAACATGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
TTAAACTCAGCATTTTCAGC
Found at i:40040989 original size:30 final size:30
Alignment explanation
Indices: 40040951--40041030 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
40040941 ACACGAGAAT
*
40040951 AAGTTGCTCACACAAGCTGACAATATATCA
1 AAGTTGCTCACACAAGCTGACAATATAACA
** * *
40040981 GGGTTGCTCACACAAGCTTACATTATAACA
1 AAGTTGCTCACACAAGCTGACAATATAACA
* *
40041011 AAATTGCTCACACAAACTGA
1 AAGTTGCTCACACAAGCTGA
40041031 TATTATATTA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.24
Consensus pattern (30 bp):
AAGTTGCTCACACAAGCTGACAATATAACA
Found at i:40050139 original size:6 final size:6
Alignment explanation
Indices: 40050128--40050158 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
40050118 ATTGATAATA
40050128 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
40050159 AAAATATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:40051498 original size:29 final size:29
Alignment explanation
Indices: 40051401--40051522 Score: 140
Period size: 29 Copynumber: 4.2 Consensus size: 29
40051391 CACTATTGAT
* * *
40051401 GCCACACGGTCATGTGCCAGACCAGGTGA
1 GCCACACGGTCGTGTGCCAGGCCATGTGA
**
40051430 GCCACACAATCGTGTGCC-GGACCATGTGA
1 GCCACACGGTCGTGTGCCAGG-CCATGTGA
40051459 GCCACACGGTCGTGTGCCAGGCCATGTGA
1 GCCACACGGTCGTGTGCCAGGCCATGTGA
* * *
40051488 GTCACATGGTCGTGTGTCAGGCCATGT-A
1 GCCACACGGTCGTGTGCCAGGCCATGTGA
40051516 GGCCACA
1 -GCCACA
40051523 TGGGCTGGAT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
28 2 0.03
29 75 0.95
30 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.31, T:0.18
Consensus pattern (29 bp):
GCCACACGGTCGTGTGCCAGGCCATGTGA
Found at i:40053343 original size:15 final size:15
Alignment explanation
Indices: 40053323--40053379 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
40053313 ATTCAATATT
40053323 AATATTTTAATAATA
1 AATATTTTAATAATA
*
40053338 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
40053357 AATATATTAATAATA
1 AATATTTTAATAATA
40053372 AATATTTT
1 AATATTTT
40053380 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:40053367 original size:34 final size:32
Alignment explanation
Indices: 40053311--40053378 Score: 100
Period size: 34 Copynumber: 2.1 Consensus size: 32
40053301 ATCATTGAAA
* *
40053311 TTATTCAATATTAATATTTTAATAATAAATAT
1 TTATTCAATATAAATATATTAATAATAAATAT
40053343 TTATTACAATTATAAATATATTAATAATAAATAT
1 TTATT-CAA-TATAAATATATTAATAATAAATAT
40053377 TT
1 TT
40053379 TGTAGTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 5 0.16
33 3 0.09
34 24 0.75
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (32 bp):
TTATTCAATATAAATATATTAATAATAAATAT
Found at i:40056207 original size:3 final size:3
Alignment explanation
Indices: 40056199--40056247 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
40056189 TTTAACAGTG
40056199 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
40056247 A
1 A
40056248 TGAAAAGCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:40059807 original size:20 final size:20
Alignment explanation
Indices: 40059784--40059824 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
40059774 GAAAAGATTG
40059784 AGAAAATAAGAAAAAAATAA
1 AGAAAATAAGAAAAAAATAA
* *
40059804 AGAAAATGAGAGAAAAATAA
1 AGAAAATAAGAAAAAAATAA
40059824 A
1 A
40059825 AAATTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.10
Consensus pattern (20 bp):
AGAAAATAAGAAAAAAATAA
Found at i:40072307 original size:126 final size:126
Alignment explanation
Indices: 40072177--40072554 Score: 299
Period size: 123 Copynumber: 3.0 Consensus size: 126
40072167 ATTTTCTAAT
40072177 AGTAATGATCAACTAGAAAGAGTTGAATACTTAAAACTAATAGAAGAACTTTATGAAAAACATAA
1 AGTAATGATCAACTAGAAAGAGTTGAATACTTAAAACTAATAGAAGAACTTTATGAAAAACATAA
40072242 AGATCTATTTAGTCTGTTTAATTATCATTATATGTTAAAATATGATGATAGTAGCAGTTCA
66 AGATCTATTTAGTCTGTTTAATTATCATTATATGTTAAAATATGATGATAGTAGCAGTTCA
** * * * * * * * **
40072303 AGTAATTCTGAA-AACACAGAATT--AT--TTAAGAAAC-AATCTGATGAA----AAAAATAAAC
1 AGTAATGATCAACTAGAAAGAGTTGAATACTT-A-AAACTAAT-AGAAGAACTTTATGAA-AAAC
* * * * * * * * * **
40072358 AAAAAGAATATGATTTCCAATC-CTATAA-AACTC-TTATA-G--AACAT-TG--GAAAGAAAAA
62 ATAAAG-ATCT-ATTT--AGTCTGTTTAATTA-TCATTATATGTTAAAATATGATGATAGTAGCA
*
40072414 TTTTCTAA
122 -GTTC--A
40072422 TAGTAATGATCAACTAGAAAGAGTTGAATACTTAAAACTAATAGAAGAACTTTATGAAAAACATA
1 -AGTAATGATCAACTAGAAAGAGTTGAATACTTAAAACTAATAGAAGAACTTTATGAAAAACATA
40072487 AAGATCTATTTAGTCTGTTTAATTATCATTATATGTTAAAATATGATGATAGTAGCAGTTCA
65 AAGATCTATTTAGTCTGTTTAATTATCATTATATGTTAAAATATGATGATAGTAGCAGTTCA
40072549 AGTAAT
1 AGTAAT
40072555 TCTGAAAACA
Statistics
Matches: 174, Mismatches: 46, Indels: 64
0.61 0.16 0.23
Matches are distributed among these distances:
116 6 0.03
117 3 0.02
118 2 0.01
119 8 0.05
120 18 0.10
121 13 0.07
122 17 0.10
123 34 0.20
124 17 0.10
125 13 0.07
126 24 0.14
127 8 0.05
128 2 0.01
129 3 0.02
130 6 0.03
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (126 bp):
AGTAATGATCAACTAGAAAGAGTTGAATACTTAAAACTAATAGAAGAACTTTATGAAAAACATAA
AGATCTATTTAGTCTGTTTAATTATCATTATATGTTAAAATATGATGATAGTAGCAGTTCA
Found at i:40072534 original size:246 final size:246
Alignment explanation
Indices: 40072100--40072599 Score: 991
Period size: 246 Copynumber: 2.0 Consensus size: 246
40072090 AAAAAACGTA
40072100 AAAAAAATAAACAAAAAGAATATGATTTCCAATCCTATAAAACTCTTATAGAACATTGGAAAGAA
1 AAAAAAATAAACAAAAAGAATATGATTTCCAATCCTATAAAACTCTTATAGAACATTGGAAAGAA
40072165 AAATTTTCTAATAGTAATGATCAACTAGAAAGAGTTGAATACTTAAAACTAATAGAAGAACTTTA
66 AAATTTTCTAATAGTAATGATCAACTAGAAAGAGTTGAATACTTAAAACTAATAGAAGAACTTTA
40072230 TGAAAAACATAAAGATCTATTTAGTCTGTTTAATTATCATTATATGTTAAAATATGATGATAGTA
131 TGAAAAACATAAAGATCTATTTAGTCTGTTTAATTATCATTATATGTTAAAATATGATGATAGTA
40072295 GCAGTTCAAGTAATTCTGAAAACACAGAATTATTTAAGAAACAATCTGATG
196 GCAGTTCAAGTAATTCTGAAAACACAGAATTATTTAAGAAACAATCTGATG
40072346 AAAAAAATAAACAAAAAGAATATGATTTCCAATCCTATAAAACTCTTATAGAACATTGGAAAGAA
1 AAAAAAATAAACAAAAAGAATATGATTTCCAATCCTATAAAACTCTTATAGAACATTGGAAAGAA
40072411 AAATTTTCTAATAGTAATGATCAACTAGAAAGAGTTGAATACTTAAAACTAATAGAAGAACTTTA
66 AAATTTTCTAATAGTAATGATCAACTAGAAAGAGTTGAATACTTAAAACTAATAGAAGAACTTTA
40072476 TGAAAAACATAAAGATCTATTTAGTCTGTTTAATTATCATTATATGTTAAAATATGATGATAGTA
131 TGAAAAACATAAAGATCTATTTAGTCTGTTTAATTATCATTATATGTTAAAATATGATGATAGTA
40072541 GCAGTTCAAGTAATTCTGAAAACACAGAATTATTTAAGAAACAATCTGATG
196 GCAGTTCAAGTAATTCTGAAAACACAGAATTATTTAAGAAACAATCTGATG
40072592 AAGAAAAA
1 AA-AAAAA
40072600 ACTTCAACAG
Statistics
Matches: 253, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
246 248 0.98
247 5 0.02
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (246 bp):
AAAAAAATAAACAAAAAGAATATGATTTCCAATCCTATAAAACTCTTATAGAACATTGGAAAGAA
AAATTTTCTAATAGTAATGATCAACTAGAAAGAGTTGAATACTTAAAACTAATAGAAGAACTTTA
TGAAAAACATAAAGATCTATTTAGTCTGTTTAATTATCATTATATGTTAAAATATGATGATAGTA
GCAGTTCAAGTAATTCTGAAAACACAGAATTATTTAAGAAACAATCTGATG
Found at i:40075428 original size:21 final size:20
Alignment explanation
Indices: 40075404--40075443 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
40075394 CACCAATTAA
*
40075404 AATTAATTAGTTAATATTTGT
1 AATTAATTA-CTAATATTTGT
*
40075425 AATTTATTACTAATATTTG
1 AATTAATTACTAATATTTG
40075444 CTGATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (20 bp):
AATTAATTACTAATATTTGT
Found at i:40077758 original size:13 final size:13
Alignment explanation
Indices: 40077740--40077765 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40077730 GGTTTTAGTC
40077740 CGGGTCTTTTCAG
1 CGGGTCTTTTCAG
40077753 CGGGTCTTTTCAG
1 CGGGTCTTTTCAG
40077766 AGCAGGCTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.31, T:0.38
Consensus pattern (13 bp):
CGGGTCTTTTCAG
Found at i:40079287 original size:14 final size:13
Alignment explanation
Indices: 40079268--40079303 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
40079258 TTTTATTTCA
40079268 TATTATTTTAAACT
1 TATTATTTTAAA-T
40079282 TATTATTTTAAAT
1 TATTATTTTAAAT
*
40079295 TAATATTTT
1 TATTATTTT
40079304 TAATACATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATTTTAAAT
Found at i:40079306 original size:14 final size:14
Alignment explanation
Indices: 40079271--40079303 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
40079261 TATTTCATAT
*
40079271 TATTTTAAACTTAT
1 TATTTTAAACTTAA
40079285 TATTTTAAA-TTAA
1 TATTTTAAACTTAA
40079298 TATTTT
1 TATTTT
40079304 TAATACATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTTTAAACTTAA
Found at i:40083018 original size:23 final size:23
Alignment explanation
Indices: 40082973--40083743 Score: 428
Period size: 23 Copynumber: 33.8 Consensus size: 23
40082963 ACATAGTTTC
* *
40082973 CAGCACTTAAACACTTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* * *
40082996 CATCATTTGAGCACCTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* * *
40083019 CAGCAATCAAACACTTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
*
40083042 CAGCATTTAAACACCTCAACTTA
1 CAGCATTTAAACACCTCAATTTA
* *
40083065 CAACACTTT-AACATCC-CAATTAA
1 CAGCA-TTTAAACA-CCTCAATTTA
* *
40083088 CAACATTTATACACCTCAA-TTA
1 CAGCATTTAAACACCTCAATTTA
* *
40083110 CAGCGA--TAAACATCTCAATTTC
1 CAGC-ATTTAAACACCTCAATTTA
** ** *
40083132 CAGCAACTAAACAATTCAATTTG
1 CAGCATTTAAACACCTCAATTTA
* *
40083155 CAGCACTTAAACACTTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
** *
40083178 CATAATTTAAGCACCTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* * *
40083201 CAACAATTAAACACTTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* *
40083224 CAGCATTTAAACACCTCAACTTC
1 CAGCATTTAAACACCTCAATTTA
* *
40083247 CAACACTTT-AACATCC-CAATTAA
1 CAGCA-TTTAAACA-CCTCAATTTA
* *
40083270 CAACATTTATACACCTCAA-TTA
1 CAGCATTTAAACACCTCAATTTA
* * * *
40083292 CAACA-ATAAACATCTCAATTTC
1 CAGCATTTAAACACCTCAATTTA
** * *
40083314 CAGCAACTAAACA-TTCAATTTG
1 CAGCATTTAAACACCTCAATTTA
* * *
40083336 TAGCACTTAAACACTTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* * *
40083359 CATCATTTGAGCACCTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* * *
40083382 CAGTAATTAAACACTTCAATTTA
1 CAGCATTTAAACACCTCAATTTA
* *
40083405 TAGCATTTAAACACCTCAACTTA
1 CAGCATTTAAACACCTCAATTTA
* *
40083428 CAACACTTT-AACATCC-CAATTAA
1 CAGCA-TTTAAACA-CCTCAATTTA
* *
40083451 CAACATTTATACACCTCAA-TTA
1 CAGCATTTAAACACCTCAATTTA
* * *
40083473 CAG--TGATAAACATCTCAATTTC
1 CAGCAT-TTAAACACCTCAATTTA
** ** *
40083495 CAGCAACTAAACAATTCAATTTG
1 CAGCATTTAAACACCTCAATTTA
* * *
40083518 CAGTACTTAAAACACTTCAATTTA
1 CAGCA-TTTAAACACCTCAATTTA
* * * *
40083542 CAACATTTAAACACTTAAATTTG
1 CAGCATTTAAACACCTCAATTTA
* *
40083565 CAGCACTTT-AACACTTCAATTCA
1 CAGCA-TTTAAACACCTCAATTTA
* * * *
40083588 CAACATTTAAATACTTCAATTTG
1 CAGCATTTAAACACCTCAATTTA
* *
40083611 CAACAGTTT-AACACTTCAATTTA
1 CAGCA-TTTAAACACCTCAATTTA
** * *
40083634 CAATATTTAAACACTTCAATTTG
1 CAGCATTTAAACACCTCAATTTA
* * *
40083657 CAGCACTTT-AACATCTCTATTAA
1 CAGCA-TTTAAACACCTCAATTTA
* *
40083680 CAACATTTATACACCTCAA-TTA
1 CAGCATTTAAACACCTCAATTTA
* * * * *
40083702 CAGCAATAAAACATCTTAATTTC
1 CAGCATTTAAACACCTCAATTTA
** *
40083725 CAGCAACTAAACACTTCAA
1 CAGCATTTAAACACCTCAA
40083744 ATTGCAGTAC
Statistics
Matches: 573, Mismatches: 144, Indels: 62
0.74 0.18 0.08
Matches are distributed among these distances:
20 1 0.00
21 31 0.05
22 89 0.16
23 412 0.72
24 40 0.07
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.31
Consensus pattern (23 bp):
CAGCATTTAAACACCTCAATTTA
Found at i:40083031 original size:46 final size:46
Alignment explanation
Indices: 40082973--40083743 Score: 503
Period size: 46 Copynumber: 16.9 Consensus size: 46
40082963 ACATAGTTTC
* * * *
40082973 CAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTA
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* *
40083019 CAGCAATCAAACACTTCAATTTACAGCATTTAAACACCTCAACTTA
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * * * * * *
40083065 CAACACTTTAACA-TCCCAATTAACAACATTTATACACCTCAA-TTA
1 CAGCAATTAAACACT-TCAATTTACAGCATTTAAACACCTCAATTTA
* * ** ** *
40083110 CAGCGA-TAAACA-TCTCAATTTCCAGCAACTAAACAATTCAATTTG
1 CAGCAATTAAACACT-TCAATTTACAGCATTTAAACACCTCAATTTA
* ** *
40083155 CAGCACTTAAACACTTCAATTTACATAATTTAAGCACCTCAATTTA
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * *
40083201 CAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTC
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * * * * * *
40083247 CAACACTTTAACA-TCCCAATTAACAACATTTATACACCTCAA-TTA
1 CAGCAATTAAACACT-TCAATTTACAGCATTTAAACACCTCAATTTA
* * ** * *
40083292 CAACAA-TAAACA-TCTCAATTTCCAGCAACTAAACA-TTCAATTTG
1 CAGCAATTAAACACT-TCAATTTACAGCATTTAAACACCTCAATTTA
* * * * *
40083336 TAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTA
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * *
40083382 CAGTAATTAAACACTTCAATTTATAGCATTTAAACACCTCAACTTA
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * * * * * *
40083428 CAACACTTTAACA-TCCCAATTAACAACATTTATACACCTCAA-TTA
1 CAGCAATTAAACACT-TCAATTTACAGCATTTAAACACCTCAATTTA
** * ** ** *
40083473 CAGTGA-TAAACA-TCTCAATTTCCAGCAACTAAACAATTCAATTTG
1 CAGCAATTAAACACT-TCAATTTACAGCATTTAAACACCTCAATTTA
* * * * * *
40083518 CAGTACTTAAAACACTTCAATTTACAACATTTAAACACTTAAATTTG
1 CAGCAATT-AAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * * * * * *
40083565 CAGCACTTTAACACTTCAATTCACAACATTTAAATACTTCAATTTG
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * * ** * *
40083611 CAACAGTTTAACACTTCAATTTACAATATTTAAACACTTCAATTTG
1 CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
* * * * * *
40083657 CAGCACTTTAACA-TCTCTATTAACAACATTTATACACCTCAA-TTA
1 CAGCAATTAAACACT-TCAATTTACAGCATTTAAACACCTCAATTTA
* * ** *
40083702 CAGCAATAAAACATCTT-AATTTCCAGCAACTAAACACTTCAA
1 CAGCAATTAAACA-CTTCAATTTACAGCATTTAAACACCTCAA
40083744 ATTGCAGTAC
Statistics
Matches: 564, Mismatches: 144, Indels: 35
0.76 0.19 0.05
Matches are distributed among these distances:
43 4 0.01
44 76 0.13
45 84 0.15
46 360 0.64
47 39 0.07
48 1 0.00
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.31
Consensus pattern (46 bp):
CAGCAATTAAACACTTCAATTTACAGCATTTAAACACCTCAATTTA
Found at i:40083220 original size:113 final size:114
Alignment explanation
Indices: 40083010--40083227 Score: 275
Period size: 113 Copynumber: 1.9 Consensus size: 114
40083000 ATTTGAGCAC
* *
40083010 CTCAATTTACAGCAATCAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTA
1 CTCAATTTACAGCAATCAAACAATTCAATTTACAGCACTTAAACACCTCAACTTACAACACTTTA
* *
40083075 ACATCCCAATTAACAACATTTATACACCTCAA-TTACAGCGATAAACAT
66 ACATCCCAATTAACAACAATTAAACACCTCAATTTACAGCGATAAACAT
* * * *
40083123 CTCAATTTCCAGCAA-CTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACATA-A-TT
1 CTCAATTTACAGCAATC-AAACAATTCAATTTACAGCACTTAAACACCTCAACTTACA-ACACTT
* *
40083185 TAAGCA-CCTCAATTTACAACAATTAAACACTTCAATTTACAGC
64 TAA-CATCC-CAATTAACAACAATTAAACACCTCAATTTACAGC
40083228 ATTTAAACAC
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
112 8 0.09
113 74 0.82
114 8 0.09
ACGTcount: A:0.41, C:0.26, G:0.04, T:0.29
Consensus pattern (114 bp):
CTCAATTTACAGCAATCAAACAATTCAATTTACAGCACTTAAACACCTCAACTTACAACACTTTA
ACATCCCAATTAACAACAATTAAACACCTCAATTTACAGCGATAAACAT
Found at i:40085648 original size:24 final size:25
Alignment explanation
Indices: 40085616--40085666 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
40085606 ACTTATTTTG
*
40085616 AAAT-TTTTTTTTCATTAGATGTAC
1 AAATGTTTTTTTTCACTAGATGTAC
40085640 AAATGTTTTTTTTTCACTAGATGTAC
1 AAATG-TTTTTTTTCACTAGATGTAC
40085666 A
1 A
40085667 TTTACTGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 4 0.17
26 20 0.83
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (25 bp):
AAATGTTTTTTTTCACTAGATGTAC
Found at i:40087431 original size:21 final size:21
Alignment explanation
Indices: 40087405--40087447 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
40087395 TACTTGAGAT
40087405 TAATGATGATTGGATTTACAA
1 TAATGATGATTGGATTTACAA
40087426 TAATGATGATTGGATTTACAA
1 TAATGATGATTGGATTTACAA
40087447 T
1 T
40087448 TGGGAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.40
Consensus pattern (21 bp):
TAATGATGATTGGATTTACAA
Found at i:40089273 original size:39 final size:39
Alignment explanation
Indices: 40089251--40089367 Score: 180
Period size: 39 Copynumber: 3.0 Consensus size: 39
40089241 ACATTACACG
*
40089251 TATAATTACATAATGTTCAAGCACATGTTGCAATACTCA
1 TATAATTACATAATGTTCAAGCACATATTGCAATACTCA
* *
40089290 TATAATTATATAATGTTCAAGCACATCTTGCAATACTCA
1 TATAATTACATAATGTTCAAGCACATATTGCAATACTCA
** *
40089329 TATAATCGCATAATGTTCAAGCATATATTGCAATACTCA
1 TATAATTACATAATGTTCAAGCACATATTGCAATACTCA
40089368 AAAACATTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.34
Consensus pattern (39 bp):
TATAATTACATAATGTTCAAGCACATATTGCAATACTCA
Found at i:40089532 original size:43 final size:43
Alignment explanation
Indices: 40089471--40089555 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
40089461 TGAAACATAA
40089471 AAGTGAGCTCTATCATCACTCATCGGATACACGGATCTCCAAC
1 AAGTGAGCTCTATCATCACTCATCGGATACACGGATCTCCAAC
*
40089514 AAGTGAGCTCTATCATCACTCATTGGATACACGGATCTCCAA
1 AAGTGAGCTCTATCATCACTCATCGGATACACGGATCTCCAA
40089556 TACACCAAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
AAGTGAGCTCTATCATCACTCATCGGATACACGGATCTCCAAC
Done.