Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 230 of 433
Found at i:71753930 original size:25 final size:25
Alignment explanation
Indices: 71753902--71753958 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
71753892 TAAGTTTAAG
*
71753902 CTGAAAATACTATAGATAGTATATT
1 CTGAAAATACTATAGATAGTATACT
* * *
71753927 CTGAAACTACTGTAGGTAGTATACT
1 CTGAAAATACTATAGATAGTATACT
*
71753952 ATGAAAA
1 CTGAAAA
71753959 CATTTTAGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (25 bp):
CTGAAAATACTATAGATAGTATACT
Found at i:71766818 original size:19 final size:19
Alignment explanation
Indices: 71766790--71766828 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
71766780 AGAGTGAAAG
71766790 AAATGAG-AAACGGGCCAA
1 AAATGAGAAAACGGGCCAA
*
71766808 AAATGGAGAAAATGGGCCAA
1 AAAT-GAGAAAACGGGCCAA
71766828 A
1 A
71766829 GTACAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.51, C:0.13, G:0.28, T:0.08
Consensus pattern (19 bp):
AAATGAGAAAACGGGCCAA
Found at i:71774692 original size:31 final size:31
Alignment explanation
Indices: 71774593--71774702 Score: 166
Period size: 31 Copynumber: 3.5 Consensus size: 31
71774583 TTTAACGGCT
*
71774593 ACTGGGCCGAAGCCTTTTCATAAATCATATA
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
71774624 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
71774655 ACTGGGCCGAAGCCTTTTAATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
71774686 ATTGGGCTGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
71774703 ACTGTAAACG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:71774771 original size:42 final size:42
Alignment explanation
Indices: 71774724--71774817 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
71774714 TATGGCCCAT
* ** *
71774724 AAGCCCATTTCAATATCACATGTAATGTCAATGGATGTATGC
1 AAGCCCATTTCAATATCACATGAAATACCAATGAATGTATGC
*
71774766 AAGCCCATTTCAATATCATATGAAATACCAATGAATGTATGC
1 AAGCCCATTTCAATATCACATGAAATACCAATGAATGTATGC
71774808 AAGCCCATTT
1 AAGCCCATTT
71774818 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (42 bp):
AAGCCCATTTCAATATCACATGAAATACCAATGAATGTATGC
Found at i:71775032 original size:26 final size:26
Alignment explanation
Indices: 71774963--71775111 Score: 230
Period size: 26 Copynumber: 5.8 Consensus size: 26
71774953 CTCTTTTAAT
*
71774963 AACTGGGGCA-AAGCCTTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
71774988 AACTGGGGCA-AAGTCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
71775013 AACTGGGGCATAAGCACTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
71775039 AACTGAGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
71775065 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
71775091 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
71775112 GCACTTCCTC
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 31 0.28
26 81 0.72
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:71775190 original size:20 final size:20
Alignment explanation
Indices: 71775161--71775247 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
71775151 TTATGAATAC
71775161 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
71775181 ATCATATGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
71775201 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
71775221 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
71775241 ATCATGT
1 ATCATGT
71775248 ATATCATATC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:71775985 original size:27 final size:27
Alignment explanation
Indices: 71775955--71776019 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
71775945 GGGCATATTC
71775955 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
71775982 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
71776009 GTCTTTTTACC
1 GTCATTTTACC
71776020 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:71776093 original size:27 final size:27
Alignment explanation
Indices: 71776063--71776115 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
71776053 GGGTGTTTTG
71776063 GTAAATCTACAAACCAAAGGTATTTCA
1 GTAAATCTACAAACCAAAGGTATTTCA
* * **
71776090 GTAATTTTGTAAACCAAAGGTATTTC
1 GTAAATCTACAAACCAAAGGTATTTC
71776116 TATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (27 bp):
GTAAATCTACAAACCAAAGGTATTTCA
Found at i:71776121 original size:27 final size:27
Alignment explanation
Indices: 71776073--71776158 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
71776063 GTAAATCTAC
71776073 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
71776100 AAACCAAAGGTATTTCTATAATTTT-T
1 AAACCAAAGGTATTTCTATAATTTTGT
* * *
71776126 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAAGGTATTTCTATAATTTTGT
71776156 AAA
1 AAA
71776159 TCAGGGGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
26 1 0.02
27 23 0.45
28 7 0.14
29 19 0.37
30 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:71776176 original size:27 final size:27
Alignment explanation
Indices: 71776136--71776259 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
71776126 AGAAAGTCAA
**
71776136 GGGTATTTCT-GTAATTTTGTAAA-TCAG
1 GGGTATTT-TGGTAATTTTACAAACT-AG
* *
71776163 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
71776190 AGGTATTTCGGCAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
71776217 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
71776244 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
71776260 CTATCCTACA
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 81 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:71776178 original size:56 final size:54
Alignment explanation
Indices: 71776070--71776239 Score: 157
Period size: 54 Copynumber: 3.1 Consensus size: 54
71776060 TTGGTAAATC
* * *
71776070 TACAAACCAAAGGTATTTCAGTAATTTTGTAAACCAAAGGTATTTCT-ATAATTTT
1 TACAAATCAAAGGTATTTCAGTAATTTTGTAAA-CAGAGGTATTT-TGGTAATTTT
* * * *
71776125 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAAGGTATTTCAGTAATTTTGTAAA-CAGAGGTATTTTGGTAATTTT
* * * ** *
71776180 TACAAATTAAAGGTATTTCGGCAATTTTACAAACTAGTGGTATTTTGGTAA-TTT
1 TACAAATCAAAGGTATTTCAGTAATTTTGTAAAC-AGAGGTATTTTGGTAATTTT
71776234 TACAAA
1 TACAAA
71776240 CTAGGGGTAT
Statistics
Matches: 96, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
53 1 0.01
54 45 0.47
55 14 0.15
56 36 0.38
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.39
Consensus pattern (54 bp):
TACAAATCAAAGGTATTTCAGTAATTTTGTAAACAGAGGTATTTTGGTAATTTT
Found at i:71776276 original size:54 final size:53
Alignment explanation
Indices: 71776160--71776287 Score: 139
Period size: 54 Copynumber: 2.4 Consensus size: 53
71776150 TTTTGTAAAT
* *
71776160 CAGGGGTATTTTGGTAATTTTACAAATTAAAGGTATTTCGGCAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAACTAAAGGTATTTCGGCAATTCTACAAA
* ** * * **
71776213 CTAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTA
1 C-AGGGGTATTTTGGTAATTTTACAAACTAAAGGTATTTCGGCAATTCTA-CAAA
**
71776268 CAGGGGTATTTCAGTAATTT
1 CAGGGGTATTTTGGTAATTT
71776288 CAAAATCGAG
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
53 1 0.02
54 57 0.93
55 3 0.05
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (53 bp):
CAGGGGTATTTTGGTAATTTTACAAACTAAAGGTATTTCGGCAATTCTACAAA
Found at i:71776320 original size:27 final size:27
Alignment explanation
Indices: 71776290--71776409 Score: 186
Period size: 27 Copynumber: 4.4 Consensus size: 27
71776280 AGTAATTTCA
*
71776290 AAATCGAGGGTAAAATGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAT
*
71776317 AAATCGAGGGTAAAACGGTAATTCTGT
1 AAATCGAGGGTAAAACGGTAATTCTAT
*
71776344 AAATCGAGGATAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAT
* * *
71776371 AAATCAAGGGTAAAACGGTAATTTTTT
1 AAATCGAGGGTAAAACGGTAATTCTAT
71776398 AAATCGAGGGTA
1 AAATCGAGGGTA
71776410 CTTTGGTAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AAATCGAGGGTAAAACGGTAATTCTAT
Found at i:71780770 original size:27 final size:26
Alignment explanation
Indices: 71780733--71780796 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 26
71780723 TTTATGAAGG
*
71780733 TTATTAGTTTATCGATAAATGAATATT
1 TTATTAATTTATCGATAAATGAATA-T
*
71780760 TTATTAATTTATCGATAAATTAATAT
1 TTATTAATTTATCGATAAATGAATAT
71780786 TTATTAATTTA
1 TTATTAATTTA
71780797 GAGAATATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 12 0.34
27 23 0.66
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (26 bp):
TTATTAATTTATCGATAAATGAATAT
Found at i:71781378 original size:20 final size:20
Alignment explanation
Indices: 71781353--71781390 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
71781343 TTGTAATTAA
71781353 ATATTATT-TAATTATAATGT
1 ATATTATTAT-ATTATAATGT
71781373 ATATTATTATATTATAAT
1 ATATTATTATATTATAAT
71781391 ATTGTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATATTATTATATTATAATGT
Found at i:71781437 original size:20 final size:18
Alignment explanation
Indices: 71781401--71781437 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
71781391 ATTGTAATTT
71781401 ATATTAATTATAAATAAG
1 ATATTAATTATAAATAAG
71781419 ATATTATATTATGAAATAA
1 ATATTA-ATTAT-AAATAA
71781438 ATAAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
ATATTAATTATAAATAAG
Found at i:71785578 original size:38 final size:38
Alignment explanation
Indices: 71785534--71785617 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 38
71785524 GGCTTAAAGA
71785534 CCGCAGGCTAT-ATGCTAGAATTATATCCGGGTTAAATC
1 CCGCAGGCT-TCATGCTAGAATTATATCCGGGTTAAATC
* * *
71785572 CCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTCATGCTAGAATTATATCCGGGTTAAATC
71785610 CCGCAGGC
1 CCGCAGGC
71785618 CTAGTGCTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
37 1 0.02
38 41 0.98
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (38 bp):
CCGCAGGCTTCATGCTAGAATTATATCCGGGTTAAATC
Found at i:71785625 original size:38 final size:38
Alignment explanation
Indices: 71785553--71785636 Score: 150
Period size: 38 Copynumber: 2.2 Consensus size: 38
71785543 ATATGCTAGA
* *
71785553 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
71785591 ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
71785629 ATTATATC
1 ATTATATC
71785637 TAAGTTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (38 bp):
ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
Found at i:71787281 original size:43 final size:43
Alignment explanation
Indices: 71787217--71787395 Score: 259
Period size: 43 Copynumber: 4.2 Consensus size: 43
71787207 GTATGAAACT
*
71787217 CGGTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
71787260 CGTTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * * *
71787303 CGGTGATGTGTATTCAGGCCTTCGGGCCCAGCAGGCTTTGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * **
71787346 CGGTGATGTGTATTCGGGTCTTTGTGCCTAGCAGGCTTAATGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
71787389 CGGTGAT
1 CGGTGAT
71787396 TCGAGCAAGG
Statistics
Matches: 120, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 120 1.00
ACGTcount: A:0.12, C:0.23, G:0.33, T:0.31
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:71787590 original size:29 final size:29
Alignment explanation
Indices: 71787552--71787708 Score: 92
Period size: 29 Copynumber: 5.4 Consensus size: 29
71787542 ATGATTAAAG
*
71787552 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCAAATTCCTTTAACCGA
* ** **
71787581 ACACTATGTGTGCAAGA-T-CGGTAATTGA
1 GCACTATGTGTGCAA-ATTCCTTTAACCGA
*
71787609 GGCAC-AGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTA-TGTGTGCAAATTCCTTTAACCGA
* ** **
71787639 GCACTATGTGTGCGAGA-T-CGGTAATTGA
1 GCACTATGTGTGC-AAATTCCTTTAACCGA
* * *
71787667 GGCACTATGTGTGCGAGTT-CTTCAACCGA
1 -GCACTATGTGTGCAAATTCCTTTAACCGA
71787696 GCACTATGTGTGC
1 GCACTATGTGTGC
71787709 GAGATCGGTC
Statistics
Matches: 93, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
28 27 0.29
29 57 0.61
30 9 0.10
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (29 bp):
GCACTATGTGTGCAAATTCCTTTAACCGA
Found at i:71787619 original size:58 final size:58
Alignment explanation
Indices: 71787550--71787717 Score: 259
Period size: 58 Copynumber: 2.9 Consensus size: 58
71787540 GAATGATTAA
* * * *
71787550 AGGCACTGTGTGTGCAAATTCCTTTAACCGAACACTATGTGTGCAAGATCGGTAATTG
1 AGGCACAGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATTG
71787608 AGGCACAGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATTG
1 AGGCACAGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATTG
* *
71787666 AGGCACTA-TGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 AGGCAC-AGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
71787718 CAGTGGGCAC
Statistics
Matches: 103, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
57 31 0.30
58 71 0.69
59 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (58 bp):
AGGCACAGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATTG
Found at i:71787708 original size:28 final size:27
Alignment explanation
Indices: 71787616--71787711 Score: 102
Period size: 29 Copynumber: 3.4 Consensus size: 27
71787606 TGAGGCACAG
*
71787616 TGTGTGCGAATTCCTTTAACCGAGCACTA
1 TGTGTGCGAGTT-C-TTAACCGAGCACTA
* * **
71787645 TGTGTGCGAGATCGGTAATTGAGGCACTA
1 TGTGTGCGAGTTC-TTAACCGA-GCACTA
71787674 TGTGTGCGAGTTCTTCAACCGAGCACTA
1 TGTGTGCGAGTTCTT-AACCGAGCACTA
71787702 TGTGTGCGAG
1 TGTGTGCGAG
71787712 ATCGGTCAGT
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
28 23 0.42
29 32 0.58
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (27 bp):
TGTGTGCGAGTTCTTAACCGAGCACTA
Found at i:71787727 original size:28 final size:28
Alignment explanation
Indices: 71787639--71787735 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 28
71787629 CTTTAACCGA
* *
71787639 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTCACTG-G
* * * *
71787668 GCACTATGTGTGCGAGTTC-TTCAACCGA
1 GCACTATGTGTGCGAGATCGGTC-ACTGG
*
71787696 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCACTGG
*
71787724 GCACTAAGTGTG
1 GCACTATGTGTG
71787736 TGAAATGAGA
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
28 32 0.59
29 22 0.41
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.27
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTCACTGG
Found at i:71788011 original size:21 final size:21
Alignment explanation
Indices: 71787985--71788031 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
71787975 TTTGAGTTTG
*
71787985 AATTGGGGATTAATAGATATA
1 AATTGGGGATTAATACATATA
71788006 AATTGGGGATTAATACATATA
1 AATTGGGGATTAATACATATA
71788027 AATTG
1 AATTG
71788032 ACGATTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (21 bp):
AATTGGGGATTAATACATATA
Found at i:71788037 original size:21 final size:21
Alignment explanation
Indices: 71787992--71788037 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
71787982 TTGAATTGGG
* **
71787992 GATTAATAGATATAAATTGGG
1 GATTAATACATATAAATTGAC
71788013 GATTAATACATATAAATTGAC
1 GATTAATACATATAAATTGAC
71788034 GATT
1 GATT
71788038 GATTATTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.35
Consensus pattern (21 bp):
GATTAATACATATAAATTGAC
Found at i:71791338 original size:39 final size:38
Alignment explanation
Indices: 71791278--71791379 Score: 116
Period size: 39 Copynumber: 2.6 Consensus size: 38
71791268 ATTTGATGTG
*
71791278 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTAGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCATGCTAGAATTA
* * *
71791318 TATCCGGGTTAAATCGCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATC-CCGCAGGCTTCATGCTAGAATTA
*
71791357 TATCCGGGTTAATTCCCGCAGGC
1 TATCCGGGTTAAATCCCGCAGGC
71791380 CTAGTGCTGG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
38 10 0.18
39 37 0.67
40 8 0.15
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTAGAATTA
Found at i:71791387 original size:38 final size:39
Alignment explanation
Indices: 71791314--71791398 Score: 136
Period size: 38 Copynumber: 2.2 Consensus size: 39
71791304 ATATGCTAGA
* *
71791314 ATTATATCCGGGTTAAATCGCCGCAGGCTTCGTGCTGGT
1 ATTATATCCGGGTTAAATCGCCGCAGGCCTAGTGCTGGT
*
71791353 ATTATATCCGGGTTAATTC-CCGCAGGCCTAGTGCTGGT
1 ATTATATCCGGGTTAAATCGCCGCAGGCCTAGTGCTGGT
71791391 ATTATATC
1 ATTATATC
71791399 TAAGTTTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
38 25 0.58
39 18 0.42
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (39 bp):
ATTATATCCGGGTTAAATCGCCGCAGGCCTAGTGCTGGT
Found at i:71792912 original size:38 final size:38
Alignment explanation
Indices: 71792804--71792923 Score: 143
Period size: 38 Copynumber: 3.1 Consensus size: 38
71792794 ATTTGATGTG
* * * *
71792804 TATCCGGGCTTAAAGACCCGCAGG-CTATATGCTAGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCCTA-GTGCTGGTATTA
* *
71792844 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
*
71792882 TATCCGGGTTAATTCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
71792920 TATC
1 TATC
71792924 AAAGTTTAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 56 0.80
39 6 0.09
40 8 0.11
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
Found at i:71792954 original size:40 final size:38
Alignment explanation
Indices: 71792840--71792960 Score: 125
Period size: 38 Copynumber: 3.1 Consensus size: 38
71792830 ATATGCTAGA
**
71792840 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGT
** * * *
71792878 ATTATATCCGGGTTAATTCCCGCAGGCCTAGTGCTGGT
1 ATTATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGT
* * *
71792916 ATTATATCAAAGTTTAAAGTCCCGTAGGCTTCGCGCTGGT
1 ATTATATC-AAGGTTAAA-TCCCGCAGGCTTCGTGCTGGT
*
71792956 GTTAT
1 ATTAT
71792961 GTTCGGGTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
38 43 0.62
39 5 0.07
40 21 0.30
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (38 bp):
ATTATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:71794449 original size:38 final size:38
Alignment explanation
Indices: 71794357--71794460 Score: 149
Period size: 38 Copynumber: 2.7 Consensus size: 38
71794347 GGCTTAAAGA
* *
71794357 CCCGCAGGCTATA-TGCTAGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TAGTGCTGGTATTATATCCGGGTTAAAT
*
71794395 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAAT
71794433 CCCGCAGGAC-TAGTGCTGGTATTATATC
1 CCCGCAGG-CTTAGTGCTGGTATTATATC
71794461 TAAGTTTAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
37 1 0.02
38 58 0.97
39 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAAT
Found at i:71796102 original size:43 final size:43
Alignment explanation
Indices: 71796041--71796176 Score: 227
Period size: 43 Copynumber: 3.2 Consensus size: 43
71796031 GCATGAAATT
71796041 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
71796084 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * * **
71796127 CGGTGATGTGTATTCGTGTCTTTGTGCCTAGCAGGCTTAATGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
71796170 CGGTGAT
1 CGGTGAT
71796177 TCGAGCAAGG
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.11, C:0.23, G:0.34, T:0.32
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:71796366 original size:29 final size:29
Alignment explanation
Indices: 71796333--71796491 Score: 112
Period size: 29 Copynumber: 5.5 Consensus size: 29
71796323 ATGATTAGAG
*
71796333 GCACTGTGTGTGCGAATTCCTTTAACCGA
1 GCACTATGTGTGCGAATTCCTTTAACCGA
** **
71796362 GCACTATGTGTGCGAGA-T-CGGTAATTGAA
1 GCACTATGTGTGCGA-ATTCCTTTAACCG-A
* *
71796391 GTACTGTGTGTGCGAATTCCTTTAACCGA
1 GCACTATGTGTGCGAATTCCTTTAACCGA
* ** **
71796420 GCACTATATGTGCGAGA-T-CGATAATTGA
1 GCACTATGTGTGCGA-ATTCCTTTAACCGA
* * *
71796448 GGCACTATGTGTGCGAGTT-CTTCAATCGA
1 -GCACTATGTGTGCGAATTCCTTTAACCGA
71796477 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
71796492 GATCGGTCAG
Statistics
Matches: 99, Mismatches: 24, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
28 27 0.27
29 65 0.66
30 7 0.07
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (29 bp):
GCACTATGTGTGCGAATTCCTTTAACCGA
Found at i:71796408 original size:58 final size:58
Alignment explanation
Indices: 71796333--71796498 Score: 253
Period size: 58 Copynumber: 2.9 Consensus size: 58
71796323 ATGATTAGAG
71796333 GCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATTGAA
1 GCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATTGAA
* * * *
71796391 GTACTGTGTGTGCGAATTCCTTTAACCGAGCACTATATGTGCGAGATCGATAATTGAG
1 GCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATTGAA
* * * *
71796449 GCACTATGTGTGCGAGTT-CTTCAATCGAGCACTATGTGTGCGAGATCGGT
1 GCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
71796499 CAGTGGGCAC
Statistics
Matches: 97, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
57 28 0.29
58 69 0.71
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (58 bp):
GCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATTGAA
Found at i:71796508 original size:28 final size:28
Alignment explanation
Indices: 71796420--71796516 Score: 90
Period size: 28 Copynumber: 3.4 Consensus size: 28
71796410 CTTTAACCGA
*
71796420 GCACTATATGTGCGAGATCGAT-AATTGAG
1 GCACTATGTGTGCGAGATCGATCAA-TG-G
* * *
71796449 GCACTATGTGTGCGAGTTC-TTCAATCGA
1 GCACTATGTGTGCGAGATCGATCAAT-GG
* *
71796477 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGATCAATGG
*
71796505 GCACTAAGTGTG
1 GCACTATGTGTG
71796517 TGAAATGAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
28 32 0.57
29 24 0.43
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGATCAATGG
Found at i:71796791 original size:21 final size:21
Alignment explanation
Indices: 71796765--71796811 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
71796755 TTTGAGTTTG
71796765 AATTGGGGATTAATAGATATA
1 AATTGGGGATTAATAGATATA
71796786 AATTGGGGATTAATAGATATA
1 AATTGGGGATTAATAGATATA
71796807 AATTG
1 AATTG
71796812 ACGATTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.34
Consensus pattern (21 bp):
AATTGGGGATTAATAGATATA
Found at i:71796817 original size:21 final size:21
Alignment explanation
Indices: 71796772--71796817 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
71796762 TTGAATTGGG
**
71796772 GATTAATAGATATAAATTGGG
1 GATTAATAGATATAAATTGAC
71796793 GATTAATAGATATAAATTGAC
1 GATTAATAGATATAAATTGAC
71796814 GATT
1 GATT
71796818 GATTATTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.35
Consensus pattern (21 bp):
GATTAATAGATATAAATTGAC
Found at i:71800141 original size:38 final size:38
Alignment explanation
Indices: 71800027--71800146 Score: 125
Period size: 38 Copynumber: 3.1 Consensus size: 38
71800017 ATTTGATGTG
* * * *
71800027 TATCCGGGCTTAAAGACCCGCAGG-CTATATGTTAGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCCTA-GTGATAGTATTA
* * * *
71800067 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCCTAGTGATAGTATTA
*
71800105 TATCCGGGTTAAATCTCGCAGGCCTAGTGATAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCCTAGTGATAGTATTA
71800143 TATC
1 TATC
71800147 TAAGTTTAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 53 0.79
39 6 0.09
40 8 0.12
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCCTAGTGATAGTATTA
Found at i:71805832 original size:47 final size:47
Alignment explanation
Indices: 71805778--71806210 Score: 335
Period size: 47 Copynumber: 9.1 Consensus size: 47
71805768 TTAGGATTTT
* *
71805778 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
*
71805825 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
** * *
71805872 ATGTGATGAATGTGAGCATGCATATGTATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
71805919 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCTAATGGCTA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
** * * * *
71805966 ATGTGAAAAATGTATGAGAAATG--TATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATG--TGA-ATATGCATATATGTGATAAGGCCGAATGGCCA
* * * ** *
71806014 ATGTGA-AATATGTATGAGATATGC--ATATGTGGTAAAGCTAAATGGTCA
1 ATGTGATGA-ATG--TGA-ATATGCATATATGTGATAAGGCCGAATGGCCA
* * **
71806062 ATGTGAAATATATATATGAGATATGC--ATATGTGATAAGGCCGAATGGTTA
1 ATGTG--AT-GA-ATGTGA-ATATGCATATATGTGATAAGGCCGAATGGCCA
** *
71806112 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
* * * * **
71806159 ATGTGGTGAATATGAGATATGC--ATATGTGGTAAAGCCGAATGGTAA
1 ATGTGATGAATGTGA-ATATGCATATATGTGATAAGGCCGAATGGCCA
71806205 ATGTGA
1 ATGTGA
71806211 AATATATATA
Statistics
Matches: 324, Mismatches: 50, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
45 4 0.01
46 29 0.09
47 171 0.53
48 74 0.23
49 3 0.01
50 39 0.12
52 4 0.01
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:71805878 original size:22 final size:22
Alignment explanation
Indices: 71805807--71805878 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
71805797 GCATATATGA
71805807 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
71805829 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
71805854 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
71805876 GAT
1 GAT
71805879 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:71806000 original size:48 final size:48
Alignment explanation
Indices: 71805942--71806268 Score: 335
Period size: 48 Copynumber: 6.8 Consensus size: 48
71805932 GAACATGCAT
* * *
71805942 ATATGTGGTAAAGCCTAATGGCTAATGTGAAAAATGTATGAGAAATGT
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGATATGC
*
71805990 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGATATGC
** *
71806038 ATATGTGGTAAAGCTAAATGG-TCAATGTGAAATATATATATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTGAAA-A-ATGTATGAGATATGC
* * * ** *
71806088 ATATGTGATAAGGCCGAATGGTTAATGTGATGAATG--TGAG-CATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGATATGC
* * ***
71806133 ATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAA--TATGAGATATGC
1 ATATGTG-G-TAAAGCCGAATGGCTAATGTGAAAAATGTATGAGATATGC
* *
71806181 ATATGTGGTAAAGCCGAATGG-TAAATGTGAAATATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTGAAA-A-ATGTATGAGATATGC
* *
71806231 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTA
71806269 GGCGATGTGT
Statistics
Matches: 234, Mismatches: 30, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
45 11 0.05
46 22 0.09
47 30 0.13
48 90 0.38
49 1 0.00
50 78 0.33
51 2 0.01
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGATATGC
Found at i:71806175 original size:143 final size:143
Alignment explanation
Indices: 71805801--71806260 Score: 488
Period size: 143 Copynumber: 3.2 Consensus size: 143
71805791 GAATGTGCAT
* * * * *
71805801 ATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAA
1 ATATGTGATAAAGCCGAATGGCTAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAA
* * * * * * *
71805866 TGGCCAATGTGATGAATGTGAG-CATGCATATGTATGATAAGGCCGAATGGCCAATGTG--GT-G
66 TGGCCAATGTGATGAATATGAGATATGCATATG--TGGTAAAGCCGAATGGTCAATGTGAAATAT
*
71805927 A-ATATGA-ACATGC
129 ATATATGAGATATGC
* * ** * * *
71805940 ATATATGTGGTAAAGCCTAATGGCTAATGTGAAAAATGTATGAGAAATGTATATGTG-G-TAAAG
1 --ATATGTGATAAAGCCGAATGGCTAATGTGATGAATG--TGAG-CATGCATATGTGTGATAAGG
* * **
71806003 CCGAATGGCTAATGTGAAAT-ATGTATGAGATATGCATATGTGGTAAAGCTAAATGGTCAATGTG
61 CCGAATGGCCAATGTG--ATGA-ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTG
71806067 AAATATATATATGAGATATGC
123 AAATATATATATGAGATATGC
* *
71806088 ATATGTGATAAGGCCGAATGGTTAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAA
1 ATATGTGATAAAGCCGAATGGCTAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAA
* *
71806153 TGGCCAATGTGGTGAATATGAGATATGCATATGTGGTAAAGCCGAATGGTAAATGTGAAATATAT
66 TGGCCAATGTGATGAATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
*
71806218 ATATGAGATATGT
131 ATATGAGATATGC
* *
71806231 ATATGTGGTAAAGCCGAATGGCTAGTGTGA
1 ATATGTGATAAAGCCGAATGGCTAATGTGA
71806261 AATATGTAGG
Statistics
Matches: 260, Mismatches: 44, Indels: 28
0.78 0.13 0.08
Matches are distributed among these distances:
141 29 0.11
142 19 0.07
143 119 0.46
144 22 0.08
145 29 0.11
146 31 0.12
147 6 0.02
148 5 0.02
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (143 bp):
ATATGTGATAAAGCCGAATGGCTAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAA
TGGCCAATGTGATGAATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
ATATGAGATATGC
Found at i:71806241 original size:193 final size:193
Alignment explanation
Indices: 71805889--71806244 Score: 493
Period size: 193 Copynumber: 1.8 Consensus size: 193
71805879 GAATGTGAGC
* *
71805889 ATGCATATGTATGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAA
1 ATGCATATG-ATGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAA
* * *
71805954 GCCTAATGGCTAATGTGAAAAATGTATGAGAAATGTATATGTGGTAAAGCCGAATGGCTAATGTG
65 GCCGAATGGCCAATGTGAAAAA-GTATGAGAAATGCATATGTGGTAAAGCCGAATGGCTAATGTG
*
71806019 AAATATGTATGAGATATGCATATGTGGTAAAGCTAAATGGTCAATGTGAAATATATATATGAGAT
129 AAATATATATGAGATATGCATATGTGGTAAAGCTAAATGGTCAATGTGAAATATATATATGAGAT
** * * * *
71806084 ATGCATATG-TGATAAGGCCGAATGGTTAATGTGATGAATGTGAGCATGCATATGTGTGATAAGG
1 ATGCATATGATGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAG
*** *
71806148 CCGAATGGCCAATGTGGTGAA-TATGAGATATGCATATGTGGTAAAGCCGAATGG-TAAATGTGA
66 CCGAATGGCCAATGTGAAAAAGTATGAGAAATGCATATGTGGTAAAGCCGAATGGCT-AATGTG-
*
71806211 AATATATATATGAGATATGTATATGTGGTAAAGC
129 AA-ATATATATGAGATATGCATATGTGGTAAAGC
71806245 CGAATGGCTA
Statistics
Matches: 141, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
190 1 0.01
191 37 0.26
192 2 0.01
193 92 0.65
195 9 0.06
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.29
Consensus pattern (193 bp):
ATGCATATGATGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAG
CCGAATGGCCAATGTGAAAAAGTATGAGAAATGCATATGTGGTAAAGCCGAATGGCTAATGTGAA
ATATATATGAGATATGCATATGTGGTAAAGCTAAATGGTCAATGTGAAATATATATATGAGAT
Found at i:71806560 original size:37 final size:37
Alignment explanation
Indices: 71806415--71806559 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
71806405 GGAAATATAT
71806415 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
71806452 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
71806489 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
71806526 TCCGGGTAAGACCCGATAACTTCGTGTGGTGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
71806560 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:71813037 original size:25 final size:25
Alignment explanation
Indices: 71813009--71813069 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
71812999 CCTTAGCGCA
71813009 CTCTCTGATTATTAGCACGTCAGTG
1 CTCTCTGATTATTAGCACGTCAGTG
*
71813034 CTCTCTGATTATTAGCACGTTAGTG
1 CTCTCTGATTATTAGCACGTCAGTG
*
71813059 CTTTCTGATTA
1 CTCTCTGATTA
71813070 GCACATTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.41
Consensus pattern (25 bp):
CTCTCTGATTATTAGCACGTCAGTG
Found at i:71813072 original size:22 final size:23
Alignment explanation
Indices: 71813018--71813110 Score: 82
Period size: 22 Copynumber: 4.0 Consensus size: 23
71813008 ACTCTCTGAT
* *
71813018 TATTAGCACGTCAGTGCTCTCTG
1 TATTAGCACGTTAGTGCTTTCTG
71813041 ATTATTAGCACGTTAGTGCTTTCTG
1 --TATTAGCACGTTAGTGCTTTCTG
* * *
71813066 -ATTAGCACATTTGTGCTTTCCG
1 TATTAGCACGTTAGTGCTTTCTG
* * *
71813088 TA-TAGCTCTTTAGTGCTCTCTG
1 TATTAGCACGTTAGTGCTTTCTG
71813110 T
1 T
71813111 TCATTAGTGT
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
22 35 0.61
23 1 0.02
25 21 0.37
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (23 bp):
TATTAGCACGTTAGTGCTTTCTG
Found at i:71818244 original size:19 final size:19
Alignment explanation
Indices: 71818220--71818256 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
71818210 GAAAATGTGT
*
71818220 AAGTTATGTCTACAAATTC
1 AAGTTATGCCTACAAATTC
*
71818239 AAGTTATGCCTACGAATT
1 AAGTTATGCCTACAAATT
71818257 TATGATGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (19 bp):
AAGTTATGCCTACAAATTC
Found at i:71819351 original size:31 final size:31
Alignment explanation
Indices: 71819313--71819389 Score: 154
Period size: 31 Copynumber: 2.5 Consensus size: 31
71819303 GAGTCCCAAG
71819313 CCACACGGGCGTGTGTGACAACACAGTCTAC
1 CCACACGGGCGTGTGTGACAACACAGTCTAC
71819344 CCACACGGGCGTGTGTGACAACACAGTCTAC
1 CCACACGGGCGTGTGTGACAACACAGTCTAC
71819375 CCACACGGGCGTGTG
1 CCACACGGGCGTGTG
71819390 ACCTTGTTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.23, C:0.32, G:0.29, T:0.16
Consensus pattern (31 bp):
CCACACGGGCGTGTGTGACAACACAGTCTAC
Found at i:71821943 original size:7 final size:8
Alignment explanation
Indices: 71821926--71821956 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
71821916 ATACTCCAAA
71821926 TTTTTATT
1 TTTTTATT
71821934 TTTTTATT
1 TTTTTATT
71821942 TTTTTATT
1 TTTTTATT
71821950 TTTTTAT
1 TTTTTAT
71821957 AAATTTCGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:71822711 original size:18 final size:18
Alignment explanation
Indices: 71822688--71822722 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71822678 AATAAGTAAT
* *
71822688 CAGTAACGGTAGCAGTAG
1 CAGTAACAGTAACAGTAG
71822706 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
71822723 ATAGTATTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAACAGTAG
Found at i:71822775 original size:45 final size:45
Alignment explanation
Indices: 71822708--71822818 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
71822698 AGCAGTAGCA
* *
71822708 GTAACAGTAACAGTAATAGTATTCAACACACAAAATG-CTGAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAATGTC-GAATCG
* * * *
71822753 GTAACAATAACGGTAACAGTATTCGACACACAAAGTGTCGAATCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAATGTCGAATCG
71822798 GTAACAGTAACAGTAACAGTA
1 GTAACAGTAACAGTAACAGTA
71822819 GTCGGCACAT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 56 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAATGTCGAATCG
Found at i:71822961 original size:29 final size:29
Alignment explanation
Indices: 71822928--71822996 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
71822918 GGGTATTTAA
71822928 ATCAATTTTCAGTATAATTT-CCATTTTG
1 ATCAATTTTCAGTATAATTTACCATTTTG
* * * **
71822956 ATTCAATATTAATTATAATTTATTATTTTG
1 A-TCAATTTTCAGTATAATTTACCATTTTG
71822986 ATCAATTTTCA
1 ATCAATTTTCA
71822997 CAGTAATAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 1 0.03
29 24 0.75
30 7 0.22
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.52
Consensus pattern (29 bp):
ATCAATTTTCAGTATAATTTACCATTTTG
Found at i:71823925 original size:2 final size:2
Alignment explanation
Indices: 71823918--71823945 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
71823908 ATAATAACAA
71823918 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71823946 TACAATTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71824166 original size:20 final size:20
Alignment explanation
Indices: 71824143--71824199 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
71824133 TTAATTTATT
71824143 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATCATAA
*
71824163 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAAT-AATCATAA
71824183 TTTAATAGAATAATAAT
1 TTTAAT--AATAATAAT
71824200 AAATAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.06
20 22 0.69
22 6 0.19
23 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTAATAATAATAATCATAA
Found at i:71824242 original size:37 final size:37
Alignment explanation
Indices: 71824166--71824265 Score: 93
Period size: 37 Copynumber: 2.8 Consensus size: 37
71824156 ATCATAATTT
*
71824166 AATAATATAAATTATA-AT--TT-AATAGAATAATAATA
1 AATAAT-TAAATTATATATACTTAAATA-AAAAATAATA
* *
71824201 AATAA-TAAATATCTATATACTTAAATAAAAAATAATT
1 AATAATTAAAT-TATATATACTTAAATAAAAAATAATA
* *
71824238 AATAATTAAATTATATATATTTACATAA
1 AATAATTAAATTATATATACTTAAATAA
71824266 TTAAAATCTA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
33 5 0.09
34 3 0.06
35 7 0.13
37 29 0.55
38 9 0.17
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (37 bp):
AATAATTAAATTATATATACTTAAATAAAAAATAATA
Found at i:71827350 original size:26 final size:27
Alignment explanation
Indices: 71827321--71827392 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
71827311 AATGTATAAA
*
71827321 ATGAAATAGATATAAGAAAT-TGTTAT
1 ATGAAATAGATATAAGAAATCGGTTAT
* *
71827347 ATGAAATGGATATATG-AATCGGTTAT
1 ATGAAATAGATATAAGAAATCGGTTAT
71827373 ATGAAAATAGATATACAGAA
1 ATG-AAATAGATATA-AGAA
71827393 TGATTTTATG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
25 3 0.08
26 22 0.59
27 10 0.27
28 1 0.03
29 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.18, T:0.31
Consensus pattern (27 bp):
ATGAAATAGATATAAGAAATCGGTTAT
Found at i:71827360 original size:13 final size:13
Alignment explanation
Indices: 71827321--71827378 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
71827311 AATGTATAAA
*
71827321 ATGAAATAGATAT
1 ATGAAATGGATAT
* * *
71827334 AAGAAATTGTTAT
1 ATGAAATGGATAT
71827347 ATGAAATGGATAT
1 ATGAAATGGATAT
*
71827360 ATG-AATCGGTTAT
1 ATGAAAT-GGATAT
71827373 ATGAAA
1 ATGAAA
71827379 ATAGATATAC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 3 0.08
13 31 0.86
14 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (13 bp):
ATGAAATGGATAT
Found at i:71827414 original size:40 final size:40
Alignment explanation
Indices: 71827359--71827444 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
71827349 GAAATGGATA
*
71827359 TATGAATCGGTTATATGAAAATAGATATACAGAA-TGATTT
1 TATGAATCGATTATATGAAAATAGATATA-AGAAGTGATTT
* * * *
71827399 TATGAATCGATTATATGGAAATAGTTATATGAAGTGTTTT
1 TATGAATCGATTATATGAAAATAGATATAAGAAGTGATTT
71827439 TATGAA
1 TATGAA
71827445 ATGTTTATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.08
40 37 0.93
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.38
Consensus pattern (40 bp):
TATGAATCGATTATATGAAAATAGATATAAGAAGTGATTT
Found at i:71827497 original size:13 final size:13
Alignment explanation
Indices: 71827479--71827514 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
71827469 AAAAAGGGAC
*
71827479 ATTTGAAATGAAT
1 ATTTGAAATGAAG
71827492 ATTTGAAATGAAG
1 ATTTGAAATGAAG
*
71827505 ATGTGAAATG
1 ATTTGAAATG
71827515 TTAAATGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (13 bp):
ATTTGAAATGAAG
Found at i:71831635 original size:2 final size:2
Alignment explanation
Indices: 71831630--71831660 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
71831620 AGGAGAGATC
71831630 CT CT CT CT CT CT CT CT CT CT CT CT CT -T CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
71831661 TTTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:71835586 original size:14 final size:15
Alignment explanation
Indices: 71835569--71835602 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
71835559 CTCAAATAGA
*
71835569 AAAAAAAT-AATAAT
1 AAAAAAATAAAAAAT
71835583 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
71835598 AAAAA
1 AAAAA
71835603 GTAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:71835594 original size:21 final size:22
Alignment explanation
Indices: 71835570--71835611 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
71835560 TCAAATAGAA
*
71835570 AAAAAATAATAA-TAAAAAAAT
1 AAAAAATAAAAAGTAAAAAAAT
71835591 AAAAAATAAAAAGTAAAAAAA
1 AAAAAATAAAAAGTAAAAAAA
71835612 AACATTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.14
Consensus pattern (22 bp):
AAAAAATAAAAAGTAAAAAAAT
Found at i:71835596 original size:25 final size:24
Alignment explanation
Indices: 71835562--71835613 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
71835552 TTCAAACCTC
*
71835562 AAATAGAAAAA-AAATAATAATAAAA
1 AAATA-AAAAATAAAAAATAA-AAAA
*
71835587 AAATAAAAAATAAAAAGTAAAAAA
1 AAATAAAAAATAAAAAATAAAAAA
71835611 AAA
1 AAA
71835614 CATTTTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (24 bp):
AAATAAAAAATAAAAAATAAAAAA
Found at i:71836103 original size:16 final size:18
Alignment explanation
Indices: 71836072--71836105 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
71836062 AAGGTTTAAA
71836072 TAAATAAAATTAGGGTTT
1 TAAATAAAATTAGGGTTT
71836090 TAAAT-AAA-TAGGGTTT
1 TAAATAAAATTAGGGTTT
71836106 ATGGTGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 3 0.19
18 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (18 bp):
TAAATAAAATTAGGGTTT
Found at i:71836120 original size:24 final size:24
Alignment explanation
Indices: 71836043--71836123 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
71836033 TTTAAATGAA
*
71836043 TTAAATAAATTAGGGTTTAAAG-GT
1 TTAAATAAA-TAGGGTTTAAGGTGT
*** *
71836067 TTAAATAAATA-AAATTAGGGT-T
1 TTAAATAAATAGGGTTTAAGGTGT
*
71836089 TTAAATAAATAGGGTTTATGGTGT
1 TTAAATAAATAGGGTTTAAGGTGT
71836113 TTAAATAAATA
1 TTAAATAAATA
71836124 AATTAAATTA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
22 16 0.36
23 8 0.18
24 21 0.47
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.38
Consensus pattern (24 bp):
TTAAATAAATAGGGTTTAAGGTGT
Found at i:71836576 original size:125 final size:126
Alignment explanation
Indices: 71836271--71836644 Score: 583
Period size: 125 Copynumber: 3.0 Consensus size: 126
71836261 TTTGACCCTA
* * *
71836271 AAAAAATGATTTTGAGAAGACGTTTTTGAACAAATAGTGTCAAAAATGCTTCAAGAAGGATGCAC
1 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCAC
* * * * *
71836336 TGTTAGC-AAATTTATAGAAAAAAGCTCCCACGCGGACGCTCTTTTTCTACAGTAGTTCTTG
66 TGTCAGCAAAATTTCT-GAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAATAGTTCCTG
* *
71836397 AAAGAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAATGATGCAC
1 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCAC
*
71836462 TGTCAGCAAAATTTCTGAAAAAAGCTCCCACGTAGACGC-CTTTTTTCTACAATAGTTCCT-
66 TGTCAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTC-TTTTTCTACAATAGTTCCTG
* *
71836522 AAAAAATAATTTTGAGAAAACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCAC
*
71836587 TGTCAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAATAGTTC
66 TGTCAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAATAGTTC
71836645 ATGCTTGGCC
Statistics
Matches: 228, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
125 116 0.51
126 105 0.46
127 7 0.03
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (126 bp):
AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCAC
TGTCAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAATAGTTCCTG
Found at i:71837550 original size:3 final size:3
Alignment explanation
Indices: 71837535--71837578 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
71837525 GGGTTCAGAT
*
71837535 GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
71837579 TCTACGGTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:71840308 original size:30 final size:30
Alignment explanation
Indices: 71840274--71840339 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
71840264 ATTGAGCCAT
*
71840274 TGGGCCC-GATGATTTTGTGAGTACTATTGA
1 TGGGCCCAG-TGATTGTGTGAGTACTATTGA
* *
71840304 TGGGCCCAGTGATTGTGTGGGTGCTATTGA
1 TGGGCCCAGTGATTGTGTGAGTACTATTGA
71840334 TGGGCC
1 TGGGCC
71840340 AATTCATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.15, C:0.15, G:0.36, T:0.33
Consensus pattern (30 bp):
TGGGCCCAGTGATTGTGTGAGTACTATTGA
Found at i:71843288 original size:39 final size:40
Alignment explanation
Indices: 71843188--71843369 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
71843178 TCGAATGATG
* * *
71843188 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
71843228 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
71843268 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
71843306 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
71843347 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
71843370 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:71843333 original size:78 final size:80
Alignment explanation
Indices: 71843188--71843369 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
71843178 TCGAATGATG
* * * *
71843188 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
71843253 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
71843268 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
71843330 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
71843347 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
71843370 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:71850758 original size:39 final size:40
Alignment explanation
Indices: 71850658--71850839 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
71850648 TCGAATGATG
* * *
71850658 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
71850698 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
71850738 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
71850776 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
71850817 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
71850840 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:71850803 original size:78 final size:80
Alignment explanation
Indices: 71850658--71850839 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
71850648 TCGAATGATG
* * * *
71850658 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
71850723 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
71850738 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
71850800 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
71850817 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
71850840 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:71852467 original size:21 final size:20
Alignment explanation
Indices: 71852441--71852486 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
71852431 TAACATGATC
*
71852441 AAATATTTTTGAAATTATAAA
1 AAATATTATT-AAATTATAAA
* *
71852462 AAATATTATTAATTTTTAAA
1 AAATATTATTAAATTATAAA
71852482 AAATA
1 AAATA
71852487 AAGTAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
AAATATTATTAAATTATAAA
Found at i:71857158 original size:20 final size:20
Alignment explanation
Indices: 71857133--71857173 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
71857123 ATTGGCTACT
71857133 ATAGTATATCTCAAGAGAAG
1 ATAGTATATCTCAAGAGAAG
71857153 ATAGTATATCTCAAGAGAAG
1 ATAGTATATCTCAAGAGAAG
71857173 A
1 A
71857174 AAATAGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.24
Consensus pattern (20 bp):
ATAGTATATCTCAAGAGAAG
Found at i:71857462 original size:15 final size:17
Alignment explanation
Indices: 71857436--71857474 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
71857426 TCCATTAAAA
71857436 TTTCTATTAAATAT-T-T
1 TTTCT-TTAAATATATAT
71857452 TTTCTTTAAATATATAT
1 TTTCTTTAAATATATAT
71857469 TTTCTT
1 TTTCTT
71857475 AAAAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.38
16 6 0.29
17 7 0.33
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTCTTTAAATATATAT
Found at i:71859604 original size:40 final size:40
Alignment explanation
Indices: 71859496--71859745 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
71859486 CGGGATTTAA
* * * * *
71859496 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
71859536 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71859576 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71859616 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71859656 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71859696 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71859736 CCGGATATAT
1 CCGGATATAT
71859746 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:71867708 original size:40 final size:40
Alignment explanation
Indices: 71867600--71867849 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
71867590 CGGGATTTAA
* * * * *
71867600 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
71867640 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71867680 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71867720 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71867760 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71867800 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
71867840 CCGGATATAT
1 CCGGATATAT
71867850 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:71872474 original size:28 final size:26
Alignment explanation
Indices: 71872441--71872501 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 26
71872431 TGAATTAAAT
* *
71872441 TTAAATTTTATGTATAAAATTATACAAA
1 TTAAATTTAAAGTATAAAA--ATACAAA
* *
71872469 TTAAATTTAAAGTATGAAAATACACA
1 TTAAATTTAAAGTATAAAAATACAAA
71872495 TTAAATT
1 TTAAATT
71872502 AAAATTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 13 0.45
28 16 0.55
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (26 bp):
TTAAATTTAAAGTATAAAAATACAAA
Found at i:71874553 original size:41 final size:40
Alignment explanation
Indices: 71874505--71874586 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
71874495 AGGGACTTTT
* * * * *
71874505 TTGGGAAAAGTACTGCTAAAGGTCATGTTCTTTAGTGGCG
1 TTGGGGAAAGCACCGCTAAAGGTCATGTTCTATAGCGGCG
*
71874545 TTGGGGAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCG
1 TTGGGGAAAGCACCGCTAAAGGTCATGTTCTATAGCGGCG
71874585 TT
1 TT
71874587 TTTCCACATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (40 bp):
TTGGGGAAAGCACCGCTAAAGGTCATGTTCTATAGCGGCG
Found at i:71876944 original size:29 final size:29
Alignment explanation
Indices: 71876910--71876987 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
71876900 GTGACGAGAT
* *
71876910 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
71876939 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
71876968 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
71876988 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:71884790 original size:29 final size:29
Alignment explanation
Indices: 71884756--71884833 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
71884746 GTGACGAGAT
* *
71884756 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
71884785 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
71884814 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
71884834 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:71891048 original size:29 final size:29
Alignment explanation
Indices: 71891014--71891091 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
71891004 GTGACGAGAT
* *
71891014 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
71891043 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
71891072 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
71891092 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:71898897 original size:29 final size:29
Alignment explanation
Indices: 71898863--71898940 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
71898853 GTGACGAGAT
* *
71898863 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
71898892 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
71898921 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
71898941 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:71901053 original size:30 final size:30
Alignment explanation
Indices: 71901019--71901076 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
71901009 CCCAGCCTAA
71901019 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
* * * *
71901049 GGGCAAAATTGTAATTTTGCCAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
71901077 GAGTTAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAG
Found at i:71901651 original size:68 final size:64
Alignment explanation
Indices: 71901541--71901691 Score: 162
Period size: 68 Copynumber: 2.3 Consensus size: 64
71901531 ATACAGATGG
* * * *
71901541 TATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACGAGACA
1 TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAG-ACAAGAGAGCTACG-G-CA
71901605 TTA
63 -TA
* * *
71901608 TGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCACATGGATGATACTGA-GTGCACACCATGTAGACAAGAGAGCTACGGCAT
71901672 A
64 A
*
71901673 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCACATG
71901692 CGTGGTTCCA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 17 0.23
65 3 0.04
66 1 0.01
67 3 0.04
68 48 0.66
69 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAGACAAGAGAGCTACGGCATA
Found at i:71904456 original size:27 final size:28
Alignment explanation
Indices: 71904399--71904468 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
71904389 AAATTTGTAC
**
71904399 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
71904427 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
71904454 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
71904469 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:71908402 original size:27 final size:26
Alignment explanation
Indices: 71908372--71908465 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 26
71908362 GCTTTGAAGA
71908372 GCCACTATCACTGAA-TTGCACCAAAGT
1 GCCACTATCACT-AAGTTGCACC-AAGT
* *
71908399 GCCACTATCACTAAGTTGTACCGAGAT
1 GCCACTATCACTAAGTTGCACCAAG-T
* *
71908426 GCCACTATCACTAATTTGCACTGAAGT
1 GCCACTATCACTAAGTTGCAC-CAAGT
*
71908453 GCAACTATCACTA
1 GCCACTATCACTA
71908466 TGCACGGTAC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
26 4 0.07
27 51 0.89
28 2 0.04
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (26 bp):
GCCACTATCACTAAGTTGCACCAAGT
Found at i:71914505 original size:68 final size:67
Alignment explanation
Indices: 71914433--71914582 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
71914423 CATCATGTGT
* * * *
71914433 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
71914495 ATGTAG
62 ATGTAG
** * *
71914501 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
71914566 AG
66 AG
71914568 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
71914583 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:71914538 original size:64 final size:64
Alignment explanation
Indices: 71914457--71914640 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
71914447 AGACATTATG
* *
71914457 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
71914521 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
71914586 AA
63 AA
* * * *
71914588 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
71914641 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:71915727 original size:2 final size:2
Alignment explanation
Indices: 71915720--71915746 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
71915710 TCATGACATG
71915720 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
71915747 GACTAGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71916445 original size:18 final size:18
Alignment explanation
Indices: 71916422--71916457 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
71916412 GGTGTTACAC
71916422 TTAGAACACTTAATTAGA
1 TTAGAACACTTAATTAGA
71916440 TTAGAACACTTAATTAGA
1 TTAGAACACTTAATTAGA
71916458 CTATTGGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (18 bp):
TTAGAACACTTAATTAGA
Found at i:71919983 original size:21 final size:21
Alignment explanation
Indices: 71919951--71919990 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
71919941 AGTTTGATGG
71919951 TAGAAAATGAACTCTTGTTGT
1 TAGAAAATGAACTCTTGTTGT
*
71919972 TAGATAAA-GAACTTTTGTT
1 TAGA-AAATGAACTCTTGTT
71919991 AAGTGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.40
Consensus pattern (21 bp):
TAGAAAATGAACTCTTGTTGT
Found at i:71920496 original size:30 final size:30
Alignment explanation
Indices: 71920462--71920561 Score: 146
Period size: 30 Copynumber: 3.3 Consensus size: 30
71920452 ATTGACCAAA
*
71920462 GAAAATGGATAGCTTCGGCTGTCAAATTAT
1 GAAAAGGGATAGCTTCGGCTGTCAAATTAT
*
71920492 GAAAAGGGATAGCTTTGGCTGTCAAATTAT
1 GAAAAGGGATAGCTTCGGCTGTCAAATTAT
* * *
71920522 GAAAAAGGATAGCTTCAGCTCTCAAATTAT
1 GAAAAGGGATAGCTTCGGCTGTCAAATTAT
*
71920552 GGAAAGGGAT
1 GAAAAGGGAT
71920562 GGTGGCGACC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (30 bp):
GAAAAGGGATAGCTTCGGCTGTCAAATTAT
Found at i:71920586 original size:29 final size:30
Alignment explanation
Indices: 71920554--71920622 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
71920544 CAAATTATGG
* *
71920554 AAAGGGATGGTGGCGACCAT-CAACAATGA
1 AAAGGGATGGTGACGACCATAAAACAATGA
* * *
71920583 AAAGGGATAGTGATGACCATAAAACTATGA
1 AAAGGGATGGTGACGACCATAAAACAATGA
*
71920613 AAAGAGATGG
1 AAAGGGATGG
71920623 CTTTGGCTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.43, C:0.12, G:0.29, T:0.16
Consensus pattern (30 bp):
AAAGGGATGGTGACGACCATAAAACAATGA
Found at i:71920695 original size:30 final size:30
Alignment explanation
Indices: 71920543--71920728 Score: 85
Period size: 30 Copynumber: 6.2 Consensus size: 30
71920533 GCTTCAGCTC
* *
71920543 TCAAATTATGGAAAGGGATGGTGGCGACCA
1 TCAAATTATGAAAAGGGATGGTGACGACCA
* *
71920573 TCAACA--ATGAAAAGGGATAGTGATGACCA
1 TCAA-ATTATGAAAAGGGATGGTGACGACCA
* * * ** * **
71920602 TAAAACTATGAAAAGAGATGGCT-TTGGCTG
1 TCAAATTATGAAAAGGGATGG-TGACGACCA
* * * * ***
71920632 TCAAATTAT-AAATAAGGATAGCGTCGGTTA
1 TCAAATTATGAAA-AGGGATGGTGACGACCA
71920662 TCAAATTATGAAAAGGGATGGTGACGACCA
1 TCAAATTATGAAAAGGGATGGTGACGACCA
* * * * *
71920692 TC-AACTATAAAAAAGGATGGTAACAACCA
1 TCAAATTATGAAAAGGGATGGTGACGACCA
71920721 TCATAATT
1 TCA-AATT
71920729 TTACTTCGTG
Statistics
Matches: 114, Mismatches: 33, Indels: 17
0.70 0.20 0.10
Matches are distributed among these distances:
28 1 0.01
29 49 0.43
30 56 0.49
31 8 0.07
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (30 bp):
TCAAATTATGAAAAGGGATGGTGACGACCA
Found at i:71920721 original size:119 final size:119
Alignment explanation
Indices: 71920489--71920721 Score: 315
Period size: 119 Copynumber: 2.0 Consensus size: 119
71920479 GCTGTCAAAT
* * * *
71920489 TATGAAAAGGGATAGCTTTGGCTGTCAAATTATGAAAAAGGATAGCTTCAGCTCTCAAATTATGG
1 TATGAAAAGAGATAGCTTTGGCTGTCAAATTATGAAAAAGGATAGCGTCAGCTATCAAATTATGA
* * * * **
71920554 AAAGGGATGGTGGCGACCATCAACAATGAAAAGGGATAGTGATGACCATAAAAC
66 AAAGGGATGGTGACGACCATCAACAATAAAAAAGGATAGTAACAACCATAAAAC
* * *
71920608 TATGAAAAGAGATGGCTTTGGCTGTCAAATTAT-AAATAAGGATAGCGTCGGTTATCAAATTATG
1 TATGAAAAGAGATAGCTTTGGCTGTCAAATTATGAAA-AAGGATAGCGTCAGCTATCAAATTATG
* *
71920672 AAAAGGGATGGTGACGACCATCAACTATAAAAAAGGATGGTAACAACCAT
65 AAAAGGGATGGTGACGACCATCAACAATAAAAAAGGATAGTAACAACCAT
71920722 CATAATTTTA
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
118 3 0.03
119 95 0.97
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (119 bp):
TATGAAAAGAGATAGCTTTGGCTGTCAAATTATGAAAAAGGATAGCGTCAGCTATCAAATTATGA
AAAGGGATGGTGACGACCATCAACAATAAAAAAGGATAGTAACAACCATAAAAC
Found at i:71924150 original size:29 final size:29
Alignment explanation
Indices: 71924117--71924190 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
71924107 GTGACGAGAT
71924117 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
71924146 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
71924175 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71924191 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:71924206 original size:29 final size:29
Alignment explanation
Indices: 71924174--71924249 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
71924164 CTGGAAATAT
* *
71924174 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
71924203 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
71924232 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
71924250 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:71924217 original size:58 final size:58
Alignment explanation
Indices: 71924117--71924249 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
71924107 GTGACGAGAT
* * * * * *
71924117 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
71924175 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
71924233 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
71924250 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:71932030 original size:29 final size:29
Alignment explanation
Indices: 71931997--71932070 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
71931987 GTGACGAGAT
71931997 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
71932026 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
71932055 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71932071 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:71932086 original size:29 final size:29
Alignment explanation
Indices: 71932054--71932129 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
71932044 CTGGAAATAT
* *
71932054 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
71932083 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
71932112 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
71932130 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:71932097 original size:58 final size:58
Alignment explanation
Indices: 71931997--71932129 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
71931987 GTGACGAGAT
* * * * * *
71931997 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
71932055 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
71932113 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
71932130 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:71941694 original size:21 final size:22
Alignment explanation
Indices: 71941670--71941713 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
71941660 AATTAGGGAT
71941670 TTAAT-TGTAAAATGTGAAATA
1 TTAATGTGTAAAATGTGAAATA
**
71941691 TTAATGGTGTAATTTGTGAAATA
1 TTAAT-GTGTAAAATGTGAAATA
71941714 ATGAAATGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
23 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (22 bp):
TTAATGTGTAAAATGTGAAATA
Found at i:71942035 original size:12 final size:11
Alignment explanation
Indices: 71942018--71942073 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 11
71942008 AGTTCGTACG
71942018 TTTAAATAGTGT
1 TTTAAATA-TGT
71942030 TTTAAATTATACG-
1 TTTAAA-TAT--GT
71942043 TTTAAATAGTGT
1 TTTAAATA-TGT
71942055 TTTAAATTATGT
1 TTTAAA-TATGT
71942067 TTTAAAT
1 TTTAAAT
71942074 GTTATTATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
11 2 0.05
12 24 0.63
13 11 0.29
14 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.52
Consensus pattern (11 bp):
TTTAAATATGT
Found at i:71942042 original size:25 final size:25
Alignment explanation
Indices: 71942014--71942064 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
71942004 GGTAAGTTCG
71942014 TACGTTTAAATAGTGTTTTAAATTA
1 TACGTTTAAATAGTGTTTTAAATTA
71942039 TACGTTTAAATAGTGTTTTAAATTA
1 TACGTTTAAATAGTGTTTTAAATTA
71942064 T
1 T
71942065 GTTTTAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (25 bp):
TACGTTTAAATAGTGTTTTAAATTA
Found at i:71942192 original size:30 final size:30
Alignment explanation
Indices: 71942147--71942211 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
71942137 TCGACTAATG
* *
71942147 GAAAA-GGATATCTTCGGCTGTCAAATTAT
1 GAAAAGGGATAGCTTCGGCTATCAAATTAT
71942176 GAAAAGGGATAGCTTCGGCTATCAAATTAT
1 GAAAAGGGATAGCTTCGGCTATCAAATTAT
*
71942206 GGAAAG
1 GAAAAG
71942212 AGATGGTGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 5 0.16
30 27 0.84
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (30 bp):
GAAAAGGGATAGCTTCGGCTATCAAATTAT
Found at i:71942245 original size:29 final size:30
Alignment explanation
Indices: 71942208--71942274 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 30
71942198 CAAATTATGG
* *
71942208 AAAGAGATGGTGACAATCATC-AACAATGA
1 AAAGGGATGGTGACAACCATCGAACAATGA
* *
71942237 AAAGGGATGGTGACGACCATCGAACTATGA
1 AAAGGGATGGTGACAACCATCGAACAATGA
71942267 AAAGGGAT
1 AAAGGGAT
71942275 AGCTTCAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
29 18 0.55
30 15 0.45
ACGTcount: A:0.43, C:0.13, G:0.27, T:0.16
Consensus pattern (30 bp):
AAAGGGATGGTGACAACCATCGAACAATGA
Found at i:71944696 original size:10 final size:11
Alignment explanation
Indices: 71944681--71944718 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
71944671 TTGCTATAAT
71944681 TATTA-ATTAA
1 TATTATATTAA
71944691 TATTAATATTAA
1 TATT-ATATTAA
71944703 TATTATATT-A
1 TATTATATTAA
71944713 TATTAT
1 TATTAT
71944719 GAAATAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 11 0.42
11 6 0.23
12 9 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTATATTAA
Found at i:71944697 original size:6 final size:6
Alignment explanation
Indices: 71944686--71944717 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
71944676 ATAATTATTA
71944686 ATTAAT ATTAAT ATTAAT ATT-AT ATT-AT ATTA
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTA
71944718 TGAAATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
ATTAAT
Found at i:71944877 original size:31 final size:32
Alignment explanation
Indices: 71944836--71944898 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
71944826 TTATTTATAA
*
71944836 AAGATATTTAT-TAATTAAATAT-TTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
71944867 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
71944899 GACAAGTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Found at i:71946771 original size:47 final size:47
Alignment explanation
Indices: 71946719--71946819 Score: 159
Period size: 47 Copynumber: 2.1 Consensus size: 47
71946709 CCGTTACTGT
* * *
71946719 TACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTATCGTATTG-
1 TACTGTTCCGGATTTGTACCGATGAGGTACTCTGTGTACCGTATTGC
71946765 TCACTGTTCCGGATTTGTACCGATGAGGTACTCTGTGTACCGTATTGC
1 T-ACTGTTCCGGATTTGTACCGATGAGGTACTCTGTGTACCGTATTGC
71946813 TACTGTT
1 TACTGTT
71946820 ACTATTACTG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
46 1 0.02
47 48 0.96
48 1 0.02
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.41
Consensus pattern (47 bp):
TACTGTTCCGGATTTGTACCGATGAGGTACTCTGTGTACCGTATTGC
Found at i:71946995 original size:18 final size:18
Alignment explanation
Indices: 71946964--71947032 Score: 93
Period size: 18 Copynumber: 3.8 Consensus size: 18
71946954 GAATAATTTA
71946964 ATTGTTACTGAATAACTG
1 ATTGTTACTGAATAACTG
* * *
71946982 ATTATTATTGAATAATTG
1 ATTGTTACTGAATAACTG
*
71947000 ATTGTTACCGAATAACTG
1 ATTGTTACTGAATAACTG
*
71947018 ACTGTTACTGAATAA
1 ATTGTTACTGAATAA
71947033 ATAATCGTTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.39
Consensus pattern (18 bp):
ATTGTTACTGAATAACTG
Found at i:71947013 original size:36 final size:37
Alignment explanation
Indices: 71946952--71947032 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 37
71946942 TCGACTGTTT
* *
71946952 CTGAATAATTTAATTGTTACTGAATAACTGATTATTA
1 CTGAATAATTTAATTGTTACCGAATAACTGACTATTA
* * *
71946989 TTGAATAA-TTGATTGTTACCGAATAACTGACTGTTA
1 CTGAATAATTTAATTGTTACCGAATAACTGACTATTA
71947025 CTGAATAA
1 CTGAATAA
71947033 ATAATCGTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
36 31 0.82
37 7 0.18
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.40
Consensus pattern (37 bp):
CTGAATAATTTAATTGTTACCGAATAACTGACTATTA
Found at i:71950073 original size:40 final size:40
Alignment explanation
Indices: 71950003--71950227 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
71949993 GGACATAACC
* * ** * *
71950003 ACTCGCAC-AAGGCCGTCGGGTGTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * *
71950042 ACTAGCACAAATGCCATCAGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
71950082 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
71950122 ACTCGCACAAATGCCTTCGGGACTTA-CCTCGAAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCC-CGGAATTAGTA
* *
71950162 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
71950202 ACTAGCACAATTGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
71950228 ACCCCGTTAG
Statistics
Matches: 162, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 9 0.06
40 149 0.92
41 4 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:71958435 original size:40 final size:40
Alignment explanation
Indices: 71958368--71958592 Score: 267
Period size: 40 Copynumber: 5.7 Consensus size: 40
71958358 GGACATAACC
* * ** * *
71958368 ACTCGCAC-AAGGCCGTCGGGTGTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
71958407 ACTAGCACAATTGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
71958447 ACTCGCACAAATGCCTTCCGGACTTAGCCTGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
71958487 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
71958527 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
71958567 ACTAGCACAATTGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
71958593 ACCCCGTTAG
Statistics
Matches: 163, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 7 0.04
40 154 0.94
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:71969497 original size:40 final size:40
Alignment explanation
Indices: 71969411--71969519 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 40
71969401 TAAGTCAGTA
* * *
71969411 TCGCACACTTACTGCC-TTATATAGCCGAAGCTATGCCAAC
1 TCGCACACTTAGTGCCATT-TATAGTCGAAGCTATGCAAAC
**
71969451 TCGCACACTTAGTGCCATTTATAGTCGAAGCTATATTAAAC
1 TCGCACACTTAGTGCCATTTATAGTCGAAGCTAT-GCAAAC
* *
71969492 T-GCACACTTAGTGCCAATCATAGTCGAA
1 TCGCACACTTAGTGCCATTTATAGTCGAA
71969520 TATCATTATA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
40 54 0.90
41 6 0.10
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (40 bp):
TCGCACACTTAGTGCCATTTATAGTCGAAGCTATGCAAAC
Found at i:71982978 original size:10 final size:10
Alignment explanation
Indices: 71982963--71983021 Score: 91
Period size: 10 Copynumber: 5.9 Consensus size: 10
71982953 AATTTTAGCT
71982963 TTTATCTTTA
1 TTTATCTTTA
*
71982973 TTTATCCTTA
1 TTTATCTTTA
71982983 TTTATCTTTA
1 TTTATCTTTA
*
71982993 ATTATCTTTA
1 TTTATCTTTA
*
71983003 TTTATTTTTA
1 TTTATCTTTA
71983013 TTTATCTTT
1 TTTATCTTT
71983022 TAGAATTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 43 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:71984247 original size:15 final size:17
Alignment explanation
Indices: 71984217--71984249 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
71984207 TTGTTACAAT
71984217 ATTTAGAGAGACATTGA
1 ATTTAGAGAGACATTGA
71984234 ATTT-GAGA-ACATTGA
1 ATTTAGAGAGACATTGA
71984249 A
1 A
71984250 GTGTGTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.30
Consensus pattern (17 bp):
ATTTAGAGAGACATTGA
Found at i:71986681 original size:18 final size:18
Alignment explanation
Indices: 71986642--71986694 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 18
71986632 TGTTAAGATA
*
71986642 ATTATATAAAAAAT-T-T
1 ATTAAATAAAAAATATAT
*
71986658 AATAAATAAAAAATATAT
1 ATTAAATAAAAAATATAT
71986676 ATTAAATTAAAATAATATA
1 ATTAAA-TAAAA-AATATA
71986695 AATATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 12 0.40
17 1 0.03
18 6 0.20
19 5 0.17
20 6 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTAAATAAAAAATATAT
Found at i:71987699 original size:18 final size:18
Alignment explanation
Indices: 71987672--71987706 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71987662 GCATGTTCAA
* *
71987672 TCTTTTCTATTTTTATTT
1 TCTTTACTATGTTTATTT
71987690 TCTTTACTATGTTTATT
1 TCTTTACTATGTTTATT
71987707 GTTTAATCGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.71
Consensus pattern (18 bp):
TCTTTACTATGTTTATTT
Found at i:71989092 original size:24 final size:24
Alignment explanation
Indices: 71989065--71989112 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
71989055 CTCTTTATCA
71989065 ATAATTCTGATTCAACCAAGCTTT
1 ATAATTCTGATTCAACCAAGCTTT
71989089 ATAATTCTGATTCAACCAAGCTTT
1 ATAATTCTGATTCAACCAAGCTTT
71989113 GGCATATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (24 bp):
ATAATTCTGATTCAACCAAGCTTT
Done.