Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 192 of 295
Found at i:65779526 original size:20 final size:20
Alignment explanation
Indices: 65779480--65779526 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
65779470 AGCTTGTTTC
*
65779480 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
65779500 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
65779520 CAGCTCA
1 CAGCTCA
65779527 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:65780925 original size:37 final size:37
Alignment explanation
Indices: 65780875--65781024 Score: 255
Period size: 37 Copynumber: 4.1 Consensus size: 37
65780865 TCAAATATAT
65780875 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
65780912 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
65780949 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
65780986 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
65781023 TC
1 TC
65781025 TGAGCTAAAG
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 108 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:65782733 original size:40 final size:40
Alignment explanation
Indices: 65782301--65782722 Score: 718
Period size: 40 Copynumber: 10.6 Consensus size: 40
65782291 AGTGGTATAC
65782301 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
65782341 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
65782381 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
65782421 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
65782461 CCGGGCTAAGCCTCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
65782501 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
65782541 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
65782581 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
65782621 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
* * * * *
65782661 CCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
65782701 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGCCCCGAAGAGCA
65782723 ATCATGCTGG
Statistics
Matches: 363, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 363 1.00
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:65782939 original size:25 final size:25
Alignment explanation
Indices: 65782898--65782952 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
65782888 TGTGCAAATA
*
65782898 CGAATGAATAAGAGCACTATGTGTT
1 CGAATGAATAAGAGCACTATGTGTG
* *
65782923 CGAATG-ATTAGAGGCACTGTGTGTG
1 CGAATGAATAAGA-GCACTATGTGTG
65782948 CGAAT
1 CGAAT
65782953 TCCTTTAACC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (25 bp):
CGAATGAATAAGAGCACTATGTGTG
Found at i:65786852 original size:22 final size:22
Alignment explanation
Indices: 65786825--65786947 Score: 58
Period size: 22 Copynumber: 5.3 Consensus size: 22
65786815 ATGTGCATAT
65786825 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
65786847 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
*
65786871 TATGTGATAAGGCCAAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* *
65786894 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
65786916 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
65786941 ATGTGAT
1 ATGTGAT
65786948 GAATATGAAC
Statistics
Matches: 73, Mismatches: 12, Indels: 32
0.62 0.10 0.27
Matches are distributed among these distances:
22 24 0.33
23 17 0.23
24 16 0.22
25 16 0.22
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:65786869 original size:47 final size:47
Alignment explanation
Indices: 65786809--65786993 Score: 289
Period size: 47 Copynumber: 3.9 Consensus size: 47
65786799 GATAATTGTG
**
65786809 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
65786856 ATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
65786903 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * *
65786950 ATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
65786994 AATATATGTA
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:65787248 original size:37 final size:37
Alignment explanation
Indices: 65787198--65787297 Score: 182
Period size: 37 Copynumber: 2.7 Consensus size: 37
65787188 GGAAATATAT
*
65787198 TCCGGGTAAGACCCGATGACTACGTGTGGAGATCATG
1 TCCGGGTAAGACCCGATGACTACGTGTGAAGATCATG
*
65787235 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGAAGATCATG
65787272 TCCGGGTAAGACCCGATGACTACGTG
1 TCCGGGTAAGACCCGATGACTACGTG
65787298 ATACGGACGG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGAAGATCATG
Found at i:65789478 original size:27 final size:27
Alignment explanation
Indices: 65789448--65789625 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65789438 ATATTGAGTC
* * * *
65789448 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
65789475 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65789502 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
65789530 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
65789557 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
65789584 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65789611 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65789626 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:65789587 original size:82 final size:81
Alignment explanation
Indices: 65789469--65789624 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65789459 TGCTATATAA
* *
65789469 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
65789534 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65789551 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
65789615 CACTTAGTGC
65 CACTTAGTGC
65789625 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65799704 original size:28 final size:27
Alignment explanation
Indices: 65799659--65799748 Score: 110
Period size: 28 Copynumber: 3.3 Consensus size: 27
65799649 CAGCATGGCT
* * *
65799659 ACCAGAATAGAT-ATTGTGACAGAGTC
1 ACCAGAACAGATAATTGTGGCAGAGCC
*
65799685 ACCAGATACAGATAATTGTGGCAGGGCC
1 ACCAGA-ACAGATAATTGTGGCAGAGCC
*
65799713 ACCAGAAACAGATATTTGTGGCAGAGCC
1 ACCAG-AACAGATAATTGTGGCAGAGCC
65799741 ACCAGAAC
1 ACCAGAAC
65799749 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.11
27 8 0.15
28 40 0.73
29 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (27 bp):
ACCAGAACAGATAATTGTGGCAGAGCC
Found at i:65801031 original size:18 final size:18
Alignment explanation
Indices: 65800975--65801031 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
65800965 GGCTGTAGAG
*
65800975 GAAAAGAAGAAGA-AGAT
1 GAAAAGAAGAAGAGAGAA
* *
65800992 GAAATAGATGAAGAGAGGA
1 GAAA-AGAAGAAGAGAGAA
*
65801011 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGAGAGAA
65801029 GAA
1 GAA
65801032 TTGTCAGAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 4 0.12
18 22 0.69
19 6 0.19
ACGTcount: A:0.63, C:0.00, G:0.32, T:0.05
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGAA
Found at i:65811174 original size:42 final size:43
Alignment explanation
Indices: 65811063--65811224 Score: 150
Period size: 43 Copynumber: 3.8 Consensus size: 43
65811053 TAAGCTCATA
* * *
65811063 CAATGCC-ATCGTCCCAACCGTGGTCTTACATGAAATCAAATAT
1 CAATGCCAAT-GTCCCAAACATGGTCTTACACGAAATCAAATAT
** * * * *
65811106 TGAGGCCACTGTCCCAGACATGGTCTTACACGAAATCATATA-
1 CAATGCCAATGTCCCAAACATGGTCTTACACGAAATCAAATAT
65811148 CAATGCCAATGTCCCAAACATGGTCTTACACGTAAATCACAA-AT
1 CAATGCCAATGTCCCAAACATGGTCTTACACG-AAATCA-AATAT
** * **
65811192 CAATGCCAGCGTCCCAGATGTGGTCTTACACGA
1 CAATGCCAATGTCCCAAACATGGTCTTACACGA
65811225 TAACACATCT
Statistics
Matches: 95, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 27 0.28
43 39 0.41
44 29 0.31
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
CAATGCCAATGTCCCAAACATGGTCTTACACGAAATCAAATAT
Found at i:65811216 original size:44 final size:42
Alignment explanation
Indices: 65811116--65811224 Score: 137
Period size: 44 Copynumber: 2.5 Consensus size: 42
65811106 TGAGGCCACT
* * *
65811116 GTCCCAGACATGGTCTTACACGAAATCATATACAATGCCAAT
1 GTCCCAGACATGGTCTTACACGAAATCACAAACAATGCCAAC
* *
65811158 GTCCCAAACATGGTCTTACACGTAAATCACAAATCAATGCCAGC
1 GTCCCAGACATGGTCTTACACG-AAATCACAAA-CAATGCCAAC
**
65811202 GTCCCAGATGTGGTCTTACACGA
1 GTCCCAGACATGGTCTTACACGA
65811225 TAACACATCT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 21 0.37
43 9 0.16
44 27 0.47
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCACAAACAATGCCAAC
Found at i:65813496 original size:19 final size:19
Alignment explanation
Indices: 65813471--65813516 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
65813461 TAGTTATTCG
*
65813471 AGCTTACTAAGCATGAAAA
1 AGCTTACCAAGCATGAAAA
* *
65813490 TGCTTACCCAGCATGAAAA
1 AGCTTACCAAGCATGAAAA
65813509 AGCTTACC
1 AGCTTACC
65813517 CCTCCCTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (19 bp):
AGCTTACCAAGCATGAAAA
Found at i:65813517 original size:19 final size:19
Alignment explanation
Indices: 65813480--65813517 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
65813470 GAGCTTACTA
*
65813480 AGCATGAAAATGCTTACCC
1 AGCATGAAAAAGCTTACCC
65813499 AGCATGAAAAAGCTTACCC
1 AGCATGAAAAAGCTTACCC
65813518 CTCCCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.18
Consensus pattern (19 bp):
AGCATGAAAAAGCTTACCC
Found at i:65819564 original size:26 final size:26
Alignment explanation
Indices: 65819535--65819587 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
65819525 CATGCAACAT
65819535 ATGAATGGGTAGATCCAACATCTATC
1 ATGAATGGGTAGATCCAACATCTATC
65819561 ATGAATGGGTAGATCCAACATCTATC
1 ATGAATGGGTAGATCCAACATCTATC
65819587 A
1 A
65819588 ACGCAGTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (26 bp):
ATGAATGGGTAGATCCAACATCTATC
Found at i:65822080 original size:27 final size:26
Alignment explanation
Indices: 65822032--65822091 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
65822022 GCGAAGCTGC
*
65822032 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
65822059 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
65822085 CAGATAT
1 CAGATAT
65822092 ATGTATGTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:65822136 original size:71 final size:67
Alignment explanation
Indices: 65822059--65822200 Score: 176
Period size: 71 Copynumber: 2.1 Consensus size: 67
65822049 TCACCAGATA
* * * * *
65822059 CAGATATTGTGGCTAGGCCACCAGAACAGATATATGTATGTTGCGAAGCCACCAGACTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAAAACAGATATATG--TG--GCGAAGCCACCAGACTACAGCGA
65822124 GGCTGC
62 GGCTGC
* * *
65822130 CAGATATTGTGACGAAGTCACCAAAACAGATATATGTGGCGAGGCCACCAGATTACAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACCAGACTACAGCGAGGCT
65822195 GC
66 GC
65822197 CAGA
1 CAGA
65822201 ACACTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 30 0.48
69 2 0.03
71 31 0.49
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACCAGACTACAGCGAGGCT
GC
Found at i:65828770 original size:93 final size:93
Alignment explanation
Indices: 65828660--65828830 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
65828650 GCCCCTAAGT
* *
65828660 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
65828725 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
65828753 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
65828818 CGAGTTCGGATGC
66 CGAGTTCGGATGC
65828831 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65828827 original size:46 final size:46
Alignment explanation
Indices: 65828655--65828827 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
65828645 AACCCGCCCC
* * *
65828655 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
65828701 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* * *
65828749 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
65828794 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65828828 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.55
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:65829285 original size:30 final size:30
Alignment explanation
Indices: 65829251--65829310 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
65829241 ATTTAATACG
65829251 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
65829281 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
65829311 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:65836640 original size:64 final size:64
Alignment explanation
Indices: 65836559--65836742 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
65836549 AGACATTATG
* * *
65836559 ATGTAGCTAGGTCGCATGGGTGATTCTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTTCTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
65836623 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTT-CTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
65836688 AA
63 AA
* * * *
65836690 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTTCTATGTGTACACCATGTAG-ACAAGAGAGC
65836743 CGAACTATAT
Statistics
Matches: 100, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 24 0.24
65 4 0.04
66 19 0.19
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTTCTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:65836676 original size:67 final size:64
Alignment explanation
Indices: 65836535--65836688 Score: 182
Period size: 67 Copynumber: 2.3 Consensus size: 64
65836525 CATCATGTGT
* * * * *
65836535 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATTCTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGCGTGATTCAATGAGGACACCATG
65836600 TAG
62 TAG
* *
65836603 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATT-CAA-TG-AGGACACCATGT
65836668 AG
63 AG
65836670 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
65836689 AACTGGCTAG
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
64 23 0.31
65 5 0.07
66 4 0.05
67 30 0.40
68 13 0.17
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATTCAATGAGGACACCATGTAG
Found at i:65840479 original size:27 final size:26
Alignment explanation
Indices: 65840441--65840683 Score: 245
Period size: 27 Copynumber: 9.0 Consensus size: 26
65840431 GGTCATTATT
**
65840441 TGACCGTAATGCTGCTGTAAGGTAAAA
1 TGACCGTAATGCCCCTGT-AGGTAAAA
*
65840468 TGACCGTAATGCCGCTGTAGTGTAAAA
1 TGACCGTAATGCCCCTGTAG-GTAAAA
*
65840495 TGACCGTAATACCCCTGTAGGGTAAAA
1 TGACCGTAATGCCCCTGTA-GGTAAAA
* * *
65840522 TGACCGTAATACCACAGTAGAGTAAAA
1 TGACCGTAATGCCCCTGTAG-GTAAAA
*
65840549 TAACCGTAATGCCCCTGTAGGGTAAAA
1 TGACCGTAATGCCCCTGTA-GGTAAAA
* *
65840576 TGACCATAATGCCCCTGTTGGGTAAAA
1 TGACCGTAATGCCCCTG-TAGGTAAAA
*
65840603 TCACCGTAATGCCCCTGTAGAGT-AAA
1 TGACCGTAATGCCCCTGTAG-GTAAAA
* * * *
65840629 TGACCGTAATGCCTCTATAGGGTGATA
1 TGACCGTAATGCCCCTGTA-GGTAAAA
* *
65840656 TGACCGTAATACCCTTGTATGGTAAAA
1 TGACCGTAATGCCCCTGTA-GGTAAAA
65840683 T
1 T
65840684 CACGATTATG
Statistics
Matches: 182, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
26 26 0.14
27 153 0.84
28 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (26 bp):
TGACCGTAATGCCCCTGTAGGTAAAA
Found at i:65840523 original size:54 final size:54
Alignment explanation
Indices: 65840441--65840683 Score: 281
Period size: 54 Copynumber: 4.5 Consensus size: 54
65840431 GGTCATTATT
** * * *
65840441 TGACCGTAATGCTGCTGTAAGGTAAAATGACCGTAATGCCGCTGTAGTGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATGCCACTGTAGGGTAAAA
* * * *
65840495 TGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCACAGTAGAGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATGCCACTGTAGGGTAAAA
* * * *
65840549 TAACCGTAATGCCCCTGTAGGGTAAAATGACCATAATGCCCCTGTTGGGTAAAA
1 TGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATGCCACTGTAGGGTAAAA
* * * * * *
65840603 TCACCGTAATGCCCCTGTAGAGT-AAATGACCGTAATGCCTCTATAGGGTGATA
1 TGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATGCCACTGTAGGGTAAAA
* * *
65840656 TGACCGTAATACCCTTGTATGGTAAAAT
1 TGACCGTAATGCCCCTGTAGGGTAAAAT
65840684 CACGATTATG
Statistics
Matches: 159, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
53 42 0.26
54 117 0.74
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (54 bp):
TGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATGCCACTGTAGGGTAAAA
Found at i:65840576 original size:81 final size:81
Alignment explanation
Indices: 65840462--65840686 Score: 299
Period size: 81 Copynumber: 2.8 Consensus size: 81
65840452 CTGCTGTAAG
* * *
65840462 GTAAAATGACCGTAATGCCGCTGTAGTGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACC
1 GTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATCACC
65840527 GTAATACCACAGTAGA
66 GTAATACCACAGTAGA
* * * *
65840543 GTAAAATAACCGTAATGCCCCTGTAGGGTAAAATGACCATAATGCCCCTGTTGGGTAAAATCACC
1 GTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATCACC
* * *
65840608 GTAATGCCCCTGTAGA
66 GTAATACCACAGTAGA
* * * * * *
65840624 GT-AAATGACCGTAATGCCTCTATAGGGTGATATGACCGTAATACCCTTGTATGGTAAAATCAC
1 GTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATCAC
65840687 GATTATGCCT
Statistics
Matches: 124, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
80 51 0.41
81 73 0.59
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (81 bp):
GTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATCACC
GTAATACCACAGTAGA
Found at i:65840912 original size:27 final size:27
Alignment explanation
Indices: 65840826--65840912 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 27
65840816 GAAAGTTTTG
* ** *
65840826 TACTGGTGACTATGTCACATTTATTGT
1 TACTGGTGGCTATACCACATTTACTGT
* * * *
65840853 TACTGGTGGGTATGCCACAATTACTGA
1 TACTGGTGGCTATACCACATTTACTGT
*
65840880 TACTGGTGGCTTTACCACATTTACTGT
1 TACTGGTGGCTATACCACATTTACTGT
*
65840907 TTCTGG
1 TACTGG
65840913 CAGCTATGCT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (27 bp):
TACTGGTGGCTATACCACATTTACTGT
Found at i:65844751 original size:27 final size:26
Alignment explanation
Indices: 65844706--65844922 Score: 213
Period size: 27 Copynumber: 8.2 Consensus size: 26
65844696 GGTTCTTATT
* *
65844706 TGACCATAATGCCACTGTAGGGTAAAA
1 TGACCGTAATACC-CTGTAGGGTAAAA
*
65844733 TAACCGTAATACCCATGTAGGGTAAAA
1 TGACCGTAATACCC-TGTAGGGTAAAA
* *
65844760 TGACCATAATACCACTGTAGAGTAAAA
1 TGACCGTAATACC-CTGTAGGGTAAAA
* * *
65844787 TGACTGTAAT-GCCTTTAGGGT-AAA
1 TGACCGTAATACCCTGTAGGGTAAAA
* *
65844811 TGACCGTAATTTCCCTGTAGGGTAAAG
1 TGACCGTAA-TACCCTGTAGGGTAAAA
* * *
65844838 TGACCATAATGCCCCTGTAGAGTAAAA
1 TGACCGTAAT-ACCCTGTAGGGTAAAA
* *
65844865 TGATCGTAATGCCCCTGTAGGGTAAAA
1 TGACCGTAAT-ACCCTGTAGGGTAAAA
*
65844892 TGACCGTAATACCCTTGTATGGTAAAA
1 TGACCGTAATACCC-TGTAGGGTAAAA
65844919 TGAC
1 TGAC
65844923 GATTATGCCT
Statistics
Matches: 158, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
24 11 0.07
25 8 0.05
26 15 0.09
27 123 0.78
28 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (26 bp):
TGACCGTAATACCCTGTAGGGTAAAA
Found at i:65844856 original size:78 final size:81
Alignment explanation
Indices: 65844712--65844922 Score: 281
Period size: 78 Copynumber: 2.6 Consensus size: 81
65844702 TATTTGACCA
*
65844712 TAATGCCACTGTAGGGTAAAATAACCGTAA-TACCCATGTAGGGTAAAATGACCATAATACCACT
1 TAATGCC-CTGTAGGGTAAAATGACCGTAATTACCCATGTAGGGTAAAATGACCATAATACCACT
65844776 GTAGAGTAAAATGA-CTG
65 GTAGAGTAAAATGATC-G
* * * * *
65844793 TAATG-CCTTTAGGGT-AAATGACCGTAATTTCCC-TGTAGGGTAAAGTGACCATAATGCCCCTG
1 TAATGCCCTGTAGGGTAAAATGACCGTAATTACCCATGTAGGGTAAAATGACCATAATACCACTG
65844855 TAGAGTAAAATGATCG
66 TAGAGTAAAATGATCG
* *
65844871 TAATGCCCCTGTAGGGTAAAATGACCGTAA-TACCCTTGTATGGTAAAATGAC
1 TAATG-CCCTGTAGGGTAAAATGACCGTAATTACCCATGTAGGGTAAAATGAC
65844923 GATTATGCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
78 56 0.49
79 13 0.11
80 14 0.12
81 31 0.27
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (81 bp):
TAATGCCCTGTAGGGTAAAATGACCGTAATTACCCATGTAGGGTAAAATGACCATAATACCACTG
TAGAGTAAAATGATCG
Found at i:65845101 original size:27 final size:26
Alignment explanation
Indices: 65845062--65845143 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 26
65845052 GGAAGTTCTG
* *
65845062 TACTGGTGACTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATT-ACTGT
* *
65845089 TACTAGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCAC-ATTACTGT
*
65845116 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTATGCCACA-TTACTGT
65845143 T
1 T
65845144 TTTGGCAGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.02
27 42 0.91
28 3 0.07
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
TACTGGTGGCTATGCCACATTACTGT
Found at i:65846104 original size:35 final size:36
Alignment explanation
Indices: 65846058--65846132 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
65846048 AGTTTGTTAT
65846058 TGAAGAAGCCATAC-TT-TGTACTTAAAATTTCTTAG
1 TGAAGAAGCCATACTTTGTGTACTT-AAATTTCTTAG
*
65846093 TGAAGAAGCCATACTTTGTGTGCTTAAATTTCTTAG
1 TGAAGAAGCCATACTTTGTGTACTTAAATTTCTTAG
65846129 TGAA
1 TGAA
65846133 CATTCGTCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
35 14 0.38
36 17 0.46
37 6 0.16
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.37
Consensus pattern (36 bp):
TGAAGAAGCCATACTTTGTGTACTTAAATTTCTTAG
Found at i:65846890 original size:39 final size:39
Alignment explanation
Indices: 65846827--65846983 Score: 244
Period size: 39 Copynumber: 4.1 Consensus size: 39
65846817 TGTGAATATA
* * *
65846827 TATACGCGAGAATTATATCTGGACTTCAGGTCCACAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
65846866 TATAAGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
65846905 TATATGCGAGAATTATATCCAGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
65846944 TATATGCGAGAATTA-ATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
65846982 TA
1 TA
65846984 CGTGCTGGAC
Statistics
Matches: 109, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
38 22 0.20
39 87 0.80
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:65855083 original size:39 final size:39
Alignment explanation
Indices: 65854948--65855066 Score: 168
Period size: 39 Copynumber: 3.1 Consensus size: 39
65854938 TGTGAATATA
* *
65854948 TATACGCGAGAATTATATCCGGACTTCAGGTCTGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
65854987 TATATGCGAGAATTATATCTGGACTTCATGT-CGACAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCG-CAGGC
* *
65855026 TATATACGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
65855065 TA
1 TA
65855067 CGTGCTAGAC
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 67 0.96
40 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:65866277 original size:16 final size:16
Alignment explanation
Indices: 65866256--65866298 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
65866246 GTAGACCGGC
65866256 AAAAGTCGAAATACCG
1 AAAAGTCGAAATACCG
* *
65866272 AAAAGTCGAAATGCTG
1 AAAAGTCGAAATACCG
*
65866288 AAAAGCCGAAA
1 AAAAGTCGAAA
65866299 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.51, C:0.16, G:0.21, T:0.12
Consensus pattern (16 bp):
AAAAGTCGAAATACCG
Found at i:65866557 original size:28 final size:28
Alignment explanation
Indices: 65866512--65866613 Score: 116
Period size: 28 Copynumber: 3.6 Consensus size: 28
65866502 AGCATGACGG
**
65866512 TAAATGTGATTGGGCCTAAT-AGCCGTA
1 TAAATGTGATTGGGCCTAATGAGCCACA
*
65866539 TAAATGTGACTTGGGCCTAATGGGCCACA
1 TAAATGTGA-TTGGGCCTAATGAGCCACA
* *
65866568 TAAATGTGATTGGGCCTAATGCGCCATA
1 TAAATGTGATTGGGCCTAATGAGCCACA
* * *
65866596 TGAAGGAGATTGGGCCTA
1 TAAATGTGATTGGGCCTA
65866614 GTGGGCGATA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
27 9 0.14
28 43 0.66
29 13 0.20
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (28 bp):
TAAATGTGATTGGGCCTAATGAGCCACA
Found at i:65866609 original size:56 final size:56
Alignment explanation
Indices: 65866512--65866619 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
65866502 AGCATGACGG
* * *
65866512 TAAATGTGATTGGGCCTAATAGCCGTATAAATGTGACTTGGGCCTAATGGGCCACA
1 TAAATGTGATTGGGCCTAATAGCCATATAAAGGAGACTTGGGCCTAATGGGCCACA
* * *
65866568 TAAATGTGATTGGGCCTAATGCGCCATATGAAGGAGA-TTGGGCCTAGTGGGC
1 TAAATGTGATTGGGCCTAAT-AGCCATATAAAGGAGACTTGGGCCTAATGGGC
65866620 GATATGCAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 34 0.76
57 11 0.24
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (56 bp):
TAAATGTGATTGGGCCTAATAGCCATATAAAGGAGACTTGGGCCTAATGGGCCACA
Found at i:65875244 original size:11 final size:11
Alignment explanation
Indices: 65875228--65875259 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
65875218 AAAAAATTCA
65875228 ATTTTTTTTTG
1 ATTTTTTTTTG
65875239 A-TTTTTTTTG
1 ATTTTTTTTTG
65875249 ATTTTTTTTTG
1 ATTTTTTTTTG
65875260 TATCTACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (11 bp):
ATTTTTTTTTG
Found at i:65878315 original size:18 final size:18
Alignment explanation
Indices: 65878292--65878335 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
65878282 ACCGGCAGTT
65878292 AAACAAGTTAACTATTAA
1 AAACAAGTTAACTATTAA
*
65878310 AAACAAGTTAACTGTTAA
1 AAACAAGTTAACTATTAA
*
65878328 AAATAAGT
1 AAACAAGT
65878336 ATCCCCTGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (18 bp):
AAACAAGTTAACTATTAA
Found at i:65882198 original size:16 final size:16
Alignment explanation
Indices: 65882163--65882205 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
65882153 GTAGATCGGT
**
65882163 AAAAGCCGAAATGCTG
1 AAAAGCCGAAATGCCA
65882179 AAAAGCCGAAATGCCA
1 AAAAGCCGAAATGCCA
*
65882195 AAAAGTCGAAA
1 AAAAGCCGAAA
65882206 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.51, C:0.19, G:0.21, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:65882500 original size:28 final size:28
Alignment explanation
Indices: 65882419--65882520 Score: 98
Period size: 28 Copynumber: 3.6 Consensus size: 28
65882409 AGCATAACGG
* **
65882419 TAAATGTGATTAGGCCTAA-TGGCCGTA
1 TAAATGTGATTGGGCCTAATTGGCCACA
*
65882446 TAAATGTGATTTGGGCCTAATGGGCCACA
1 TAAATGTGA-TTGGGCCTAATTGGCCACA
* * *
65882475 TAATTGTGATTGGGCCTAATTTGCCATA
1 TAAATGTGATTGGGCCTAATTGGCCACA
* * *
65882503 TGAAGGAGATTGGGCCTA
1 TAAATGTGATTGGGCCTA
65882521 GTGGGCCATA
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
27 9 0.15
28 39 0.64
29 13 0.21
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
TAAATGTGATTGGGCCTAATTGGCCACA
Found at i:65882528 original size:28 final size:28
Alignment explanation
Indices: 65882426--65882532 Score: 85
Period size: 28 Copynumber: 3.8 Consensus size: 28
65882416 CGGTAAATGT
* *
65882426 GATTAGGCCTAAT-GGCCGTATAAATGTGA
1 GATTGGGCCTAATGGGCCATAT-AATG-GA
* * * *
65882455 -TTTGGGCCTAATGGGCCACATAATTGT
1 GATTGGGCCTAATGGGCCATATAATGGA
**
65882482 GATTGGGCCTAATTTGCCATATGAA-GGA
1 GATTGGGCCTAATGGGCCATAT-AATGGA
*
65882510 GATTGGGCCTAGTGGGCCATATA
1 GATTGGGCCTAATGGGCCATATA
65882533 CAGGTATGTG
Statistics
Matches: 60, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
27 2 0.03
28 50 0.83
29 8 0.13
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (28 bp):
GATTGGGCCTAATGGGCCATATAATGGA
Found at i:65885475 original size:93 final size:93
Alignment explanation
Indices: 65885363--65885532 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
65885353 CCCATAAGTG
* *
65885363 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
65885428 GAGCTCGGATGCCTAGTTACATCTCACA
66 GAGCTCGGATGCCTAGTTACATCTCACA
* *
65885456 AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
*
65885521 GAGTTCGGATGC
66 GAGCTCGGATGC
65885533 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACA
Found at i:65885548 original size:46 final size:46
Alignment explanation
Indices: 65885354--65885534 Score: 208
Period size: 46 Copynumber: 3.9 Consensus size: 46
65885344 TGTAACCCGC
* *
65885354 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
65885400 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
65885450 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
65885493 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
65885535 AACCATCCTA
Statistics
Matches: 114, Mismatches: 12, Indels: 18
0.79 0.08 0.12
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
46 71 0.62
47 29 0.25
50 5 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:65892114 original size:18 final size:18
Alignment explanation
Indices: 65892091--65892129 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
65892081 ACAGGAAAAG
*
65892091 ACAAAAAAAAAGAGGACA
1 ACAAAAAAAAAGAGCACA
*
65892109 ACAAAAAAAATGAGCACA
1 ACAAAAAAAAAGAGCACA
65892127 ACA
1 ACA
65892130 GCACAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.69, C:0.15, G:0.13, T:0.03
Consensus pattern (18 bp):
ACAAAAAAAAAGAGCACA
Found at i:65895925 original size:68 final size:65
Alignment explanation
Indices: 65895808--65896058 Score: 219
Period size: 68 Copynumber: 3.8 Consensus size: 65
65895798 ATACAGATGG
** * * * *
65895808 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGTGTACAAGAGAGCTACAAGACA
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTGTACAAGAGAGCTAC-AGAGA
65895872 TTA
64 -TA
*
65895875 TGATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCTACAG-GA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGT-GTACAAGAGAGCTACAGAGA
65895938 TA
64 TA
* * * * * *
65895940 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAG-ACAAGAGAGCTAC-GA
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGT-GTACAAGAGAGCTACAGA
65896003 GATA
62 GATA
* * *
65896007 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGA
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTGTACAAGAGA
65896059 TCCGAACTAT
Statistics
Matches: 154, Mismatches: 21, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
62 1 0.01
63 17 0.11
64 26 0.17
65 3 0.02
66 23 0.15
67 34 0.22
68 49 0.32
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (65 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTGTACAAGAGAGCTACAGAGATA
Found at i:65895999 original size:67 final size:68
Alignment explanation
Indices: 65895853--65896000 Score: 187
Period size: 67 Copynumber: 2.2 Consensus size: 68
65895843 CATCATGTGT
* * * *
65895853 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
1 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGCGTGGTACCATGAGGACACCATG
65895918 TAG
66 TAG
* *
65895921 ACAAGAGAGCTAC-AG-GA-TAT-ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACC
1 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGCGTGGTACCA--TG-AGGACACC
65895982 ATGTAG
63 ATGTAG
65895988 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
65896001 GAGATAAACT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
64 25 0.35
65 3 0.04
66 3 0.04
67 27 0.38
68 13 0.18
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGCGTGGTACCATGAGGACACCATG
TAG
Found at i:65901846 original size:14 final size:14
Alignment explanation
Indices: 65901827--65901860 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
65901817 GGGTGAATCA
65901827 ACAATTTAGATCTG
1 ACAATTTAGATCTG
65901841 ACAATTTAGATCTG
1 ACAATTTAGATCTG
65901855 ACAATT
1 ACAATT
65901861 CAAGAAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (14 bp):
ACAATTTAGATCTG
Found at i:65902197 original size:5 final size:5
Alignment explanation
Indices: 65902178--65902211 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
65902168 TTAATTAAGT
65902178 TTTATA TTT-A TTTAA TTTAA TTTAA TTTAA TTTA
1 TTTA-A TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
65902212 GGTCTGTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 20 0.74
6 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TTTAA
Found at i:65907513 original size:33 final size:33
Alignment explanation
Indices: 65907464--65907610 Score: 129
Period size: 33 Copynumber: 4.5 Consensus size: 33
65907454 ATGGACGTAA
* * *
65907464 CCTTTTCCAGTCGTACACTCGAGGTGTACAT-T
1 CCTTTTCAAGTCGTACACTCAAAGTGTACATAT
* *
65907496 CCCTTTTCAAGTGGTACACTCAAAGTGTACGTAT
1 -CCTTTTCAAGTCGTACACTCAAAGTGTACATAT
* * * *
65907530 CCTTTTCAAGTTGTTCACACAAAGTGTACATAG
1 CCTTTTCAAGTCGTACACTCAAAGTGTACATAT
* * * *
65907563 CCTTTTCAATTTGTGCA-TACAAAGTGTACATAA
1 CCTTTTCAAGTCGTACACT-CAAAGTGTACATAT
*
65907596 ACTTTTCAAGT-GTAC
1 CCTTTTCAAGTCGTAC
65907611 CATTTAGGTA
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
32 3 0.03
33 91 0.96
34 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (33 bp):
CCTTTTCAAGTCGTACACTCAAAGTGTACATAT
Found at i:65912222 original size:25 final size:25
Alignment explanation
Indices: 65912193--65912240 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65912183 TTATAATGTG
* *
65912193 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCGTTTTACCCCTAGGTA
*
65912218 AAAATGACCGTTTTACCCTTAGG
1 AAAATGACCGTTTTACCCCTAGG
65912241 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (25 bp):
AAAATGACCGTTTTACCCCTAGGTA
Found at i:65912415 original size:26 final size:25
Alignment explanation
Indices: 65912371--65912438 Score: 100
Period size: 26 Copynumber: 2.7 Consensus size: 25
65912361 GAGGAAGCGC
*
65912371 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
65912396 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGC-TTTGCCCCAGTTTACCA
*
65912422 AAAAAGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
65912439 ATTATTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
25 17 0.44
26 22 0.56
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:65912699 original size:31 final size:31
Alignment explanation
Indices: 65912661--65912744 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
65912651 TTGCTACAGT
*
65912661 AAAGGCTTCAGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
65912692 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
65912723 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
65912745 CTGAGCTTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:65917010 original size:29 final size:29
Alignment explanation
Indices: 65916985--65917060 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
65916975 ACATGGCTCA
65916985 TTAGGCCCAAATCACATTTATATGGCCCT
1 TTAGGCCCAAATCACATTTATATGGCCCT
65917014 TTAGGCCCAAATCACATTTATATGGCCCT
1 TTAGGCCCAAATCACATTTATATGGCCCT
*
65917043 TTAGTCCCAAATCACATT
1 TTAGGCCCAAATCACATT
65917061 AAATTCATGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.32
Consensus pattern (29 bp):
TTAGGCCCAAATCACATTTATATGGCCCT
Found at i:65917023 original size:57 final size:58
Alignment explanation
Indices: 65916946--65917060 Score: 133
Period size: 58 Copynumber: 2.0 Consensus size: 58
65916936 CACATACCTG
* * *
65916946 TATATGGCCCACTAGACCC-AATTATATTCACATGGCTCATTAGGCCCAAATCACATT
1 TATATGGCCCACTAGACCCAAATCACATTCACATGGCCCATTAGGCCCAAATCACATT
** * * * * *
65917003 TATATGGCCCTTTAGGCCCAAATCACATTTATATGGCCCTTTAGTCCCAAATCACATT
1 TATATGGCCCACTAGACCCAAATCACATTCACATGGCCCATTAGGCCCAAATCACATT
65917061 AAATTCATGC
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
57 16 0.34
58 31 0.66
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (58 bp):
TATATGGCCCACTAGACCCAAATCACATTCACATGGCCCATTAGGCCCAAATCACATT
Found at i:65922109 original size:40 final size:40
Alignment explanation
Indices: 65922031--65922254 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
65922021 ACCCAAGTAT
* *
65922031 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
65922070 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
65922110 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
65922150 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
65922193 CTTCGGGACTTAGCCCAGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
65922233 CTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
65922255 CATCCGAATA
Statistics
Matches: 163, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 12 0.07
40 115 0.71
41 1 0.01
43 35 0.21
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:65922227 original size:83 final size:80
Alignment explanation
Indices: 65922031--65922254 Score: 299
Period size: 83 Copynumber: 2.8 Consensus size: 80
65922021 ACCCAAGTAT
* * * *
65922031 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
65922095 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
65922110 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
65922174 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * *
65922193 CTTCGGGACTTAGCCCAGATATAGTAACTTGCACAAATGCCTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
65922255 CATCCGAATA
Statistics
Matches: 127, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.39
83 65 0.51
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:65930319 original size:15 final size:15
Alignment explanation
Indices: 65930301--65930336 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
65930291 TAAAAAACAA
65930301 ATATGTAAATATTTT
1 ATATGTAAATATTTT
65930316 ATATGTAAATATTTT
1 ATATGTAAATATTTT
65930331 ATATGT
1 ATATGT
65930337 GATGAAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (15 bp):
ATATGTAAATATTTT
Found at i:65934952 original size:28 final size:26
Alignment explanation
Indices: 65934897--65935009 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
65934887 AACATGGCTG
* *
65934897 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
65934923 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
65934951 CCAGAACAGATATATGGGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** * *
65934978 CCAGATTAGATAATTTGTGGCATAGTCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
65935006 CCAG
1 CCAG
65935010 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.08
27 37 0.50
28 31 0.42
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:65934982 original size:55 final size:54
Alignment explanation
Indices: 65934897--65935009 Score: 138
Period size: 55 Copynumber: 2.1 Consensus size: 54
65934887 AACATGGCTG
* *
65934897 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGGGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * * * *
65934951 CCAGAACAGATATATGGGGCAGAGCCACCAGATTAGATAATTTGTGGCATAGTCA
1 CCAGAACAGATA-ATGGGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
65935006 CCAG
1 CCAG
65935010 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 18 0.36
55 32 0.64
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGGGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:65935286 original size:16 final size:16
Alignment explanation
Indices: 65935265--65935304 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
65935255 CTTACCAAAT
65935265 TGAGCCCGTTAGCCCA
1 TGAGCCCGTTAGCCCA
*
65935281 TGAGCCCGTTGGCCCA
1 TGAGCCCGTTAGCCCA
*
65935297 TGAACCCG
1 TGAGCCCG
65935305 ATTTTTGGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.17, C:0.38, G:0.28, T:0.17
Consensus pattern (16 bp):
TGAGCCCGTTAGCCCA
Found at i:65936486 original size:24 final size:24
Alignment explanation
Indices: 65936459--65936532 Score: 107
Period size: 24 Copynumber: 3.1 Consensus size: 24
65936449 ACACAGTTCA
65936459 CCCTATTCAGCTCCTAAATCCTCT
1 CCCTATTCAGCTCCTAAATCCTCT
65936483 CCCTGA-TCAGCTCCTAAATCCTCT
1 CCCT-ATTCAGCTCCTAAATCCTCT
*
65936507 CCCTTATT-AGCTCCTAAATCTTCT
1 CCC-TATTCAGCTCCTAAATCCTCT
65936531 CC
1 CC
65936533 AAACAGACTT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
24 43 0.93
25 3 0.07
ACGTcount: A:0.20, C:0.41, G:0.05, T:0.34
Consensus pattern (24 bp):
CCCTATTCAGCTCCTAAATCCTCT
Found at i:65939172 original size:13 final size:13
Alignment explanation
Indices: 65939154--65939212 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
65939144 TTGGAGTAAC
65939154 AAAAAAATCAAAA
1 AAAAAAATCAAAA
*
65939167 AAAAAATTCGAAAA
1 AAAAAAATC-AAAA
* **
65939181 AAAAATTGATTGAAA
1 AAAAA--AATCAAAA
65939196 AAAAAAATCAAAA
1 AAAAAAATCAAAA
65939209 AAAA
1 AAAA
65939213 TTTGAGTTGG
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
13 17 0.49
14 9 0.26
15 8 0.23
16 1 0.03
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (13 bp):
AAAAAAATCAAAA
Found at i:65939336 original size:12 final size:12
Alignment explanation
Indices: 65939300--65939325 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
65939290 AAAAGAGAAG
65939300 AAATTCAAAAAA
1 AAATTCAAAAAA
65939312 AAATTCAAAAAA
1 AAATTCAAAAAA
65939324 AA
1 AA
65939326 TCGAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATTCAAAAAA
Found at i:65939344 original size:34 final size:34
Alignment explanation
Indices: 65939306--65939379 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
65939296 GAAGAAATTC
*
65939306 AAAAAAAAATTCAAAAAAAATCGAAAAAAAAGAA
1 AAAAAAAAAGTCAAAAAAAATCGAAAAAAAAGAA
* * ***
65939340 AAAAAAGAAGTGAAAAAAAATCGAGTTAAAAGAA
1 AAAAAAAAAGTCAAAAAAAATCGAAAAAAAAGAA
65939374 AAAAAA
1 AAAAAA
65939380 GAAAAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.76, C:0.04, G:0.11, T:0.09
Consensus pattern (34 bp):
AAAAAAAAAGTCAAAAAAAATCGAAAAAAAAGAA
Found at i:65939380 original size:34 final size:34
Alignment explanation
Indices: 65939318--65939382 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
65939308 AAAAAAATTC
65939318 AAAAAAAATCGAAAAAAAAGAAAAAAAAGAAGTG
1 AAAAAAAATCGAAAAAAAAGAAAAAAAAGAAGTG
***
65939352 AAAAAAAATCGAGTTAAAAGAAAAAAAAGAA
1 AAAAAAAATCGAAAAAAAAGAAAAAAAAGAA
65939383 AAAAAAAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.75, C:0.03, G:0.14, T:0.08
Consensus pattern (34 bp):
AAAAAAAATCGAAAAAAAAGAAAAAAAAGAAGTG
Found at i:65940289 original size:18 final size:18
Alignment explanation
Indices: 65940268--65940302 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
65940258 AGAAAAGAAA
65940268 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
65940286 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
65940303 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:65944928 original size:26 final size:26
Alignment explanation
Indices: 65944876--65944927 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
65944866 TCACACAAGT
* *
65944876 TAGTCATTTACGCTCGATGGGTAAAA
1 TAGTCATTTACCCTCGAGGGGTAAAA
*
65944902 TAGTCATTTTACCCTCTAGGGGTAAA
1 TAGTCA-TTTACCCTCGAGGGGTAAA
65944928 TCGATAGTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (26 bp):
TAGTCATTTACCCTCGAGGGGTAAAA
Found at i:65948622 original size:17 final size:17
Alignment explanation
Indices: 65948600--65948637 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
65948590 TCCTGTCCTG
65948600 TCCTGTCAACCCCAATA
1 TCCTGTCAACCCCAATA
65948617 TCCTGTCAACCCCAATA
1 TCCTGTCAACCCCAATA
65948634 TCCT
1 TCCT
65948638 AACATTCCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.42, G:0.05, T:0.26
Consensus pattern (17 bp):
TCCTGTCAACCCCAATA
Found at i:65953919 original size:163 final size:162
Alignment explanation
Indices: 65953700--65954024 Score: 568
Period size: 163 Copynumber: 2.0 Consensus size: 162
65953690 TAAATAGCGG
65953700 CCTTATTACAACTTAAAACCCAAAATTAAATTAGAATATAAAAATAATAAAAATAAACTAACTTA
1 CCTTATTACAACTTAAAACCCAAAATT-AATTAGAATATAAAAATAATAAAAATAAACTAACTTA
65953765 GAAAAACCAACTTTGCAGATGA-TGTGGCCACTCCGAATCCCTCACAGCTCCAAGCCCACTATGT
65 G-AAAACCAACTTTGCAGATGATTGTGGCCACTCCGAAT-CCTCACAGCTCCAAGCCCA-TATGT
65953829 TGGGGATTTCCTG-AGAGATG-AAATAAAGGGTGAGTT
127 T-GGGA-TTCCTGCAGAGATGAAAATAAAGGGTGAGTT
65953865 CCTTATTACAACTTAAAACCCAAAATT-ATTAGAATATAAAAATAATAAAAATAAACTAACTTAG
1 CCTTATTACAACTTAAAACCCAAAATTAATTAGAATATAAAAATAATAAAAATAAACTAACTTAG
65953929 AAAACCAACTTTGCAGATGATTGTGGCCACTCCGAATCCTCACAGCTCCAAGCCCATATGTTGGG
66 AAAACCAACTTTGCAGATGATTGTGGCCACTCCGAATCCTCACAGCTCCAAGCCCATATGTTGGG
65953994 ATTCCTGCAGAGATGAAAATAAAGGGTGAGT
131 ATTCCTGCAGAGATGAAAATAAAGGGTGAGT
65954025 CGTAAACTCA
Statistics
Matches: 157, Mismatches: 0, Indels: 10
0.94 0.00 0.06
Matches are distributed among these distances:
159 6 0.04
160 11 0.07
161 21 0.13
162 39 0.25
163 53 0.34
165 27 0.17
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (162 bp):
CCTTATTACAACTTAAAACCCAAAATTAATTAGAATATAAAAATAATAAAAATAAACTAACTTAG
AAAACCAACTTTGCAGATGATTGTGGCCACTCCGAATCCTCACAGCTCCAAGCCCATATGTTGGG
ATTCCTGCAGAGATGAAAATAAAGGGTGAGTT
Found at i:65957535 original size:28 final size:29
Alignment explanation
Indices: 65957423--65957547 Score: 162
Period size: 29 Copynumber: 4.3 Consensus size: 29
65957413 GAAAGCATGA
* * *
65957423 ATATGAAAGTGATTTGGGGCTAATGGGCT
1 ATATGAATGTGATTTGGGCCTAATGGGCC
**
65957452 ATATGAATGTGATTTGGGCCTAATAAGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
65957481 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
65957510 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
65957538 ATATGCATGT
1 ATATGAATGT
65957548 ATGTAGACTT
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 23 0.28
29 60 0.72
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:65959547 original size:53 final size:54
Alignment explanation
Indices: 65959490--65959593 Score: 131
Period size: 53 Copynumber: 1.9 Consensus size: 54
65959480 CTCGACTTGT
* * *
65959490 AAATTACCAAAGTACCCTC-GATTTATAGAATTA-CGTTTTACCCTCGATTTACA
1 AAATTACCAAAGTACCCTCAG-TTTACAAAATTACCATTTTACCCTCGATTTACA
***
65959543 AAATTACCATTTTACCCTCAGTTTACAAAATTACCATTTTACCCTCGATTT
1 AAATTACCAAAGTACCCTCAGTTTACAAAATTACCATTTTACCCTCGATTT
65959594 GAAATTACTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
53 26 0.60
54 17 0.40
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.37
Consensus pattern (54 bp):
AAATTACCAAAGTACCCTCAGTTTACAAAATTACCATTTTACCCTCGATTTACA
Found at i:65959567 original size:27 final size:27
Alignment explanation
Indices: 65959502--65959593 Score: 134
Period size: 27 Copynumber: 3.4 Consensus size: 27
65959492 ATTACCAAAG
* * *
65959502 TACCCTCGATTTATAGAATTA-CGTTT
1 TACCCTCGATTTACAAAATTACCATTT
65959528 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
65959555 TACCCTC-AGTTTACAAAATTACCATTT
1 TACCCTCGA-TTTACAAAATTACCATTT
65959582 TACCCTCGATTT
1 TACCCTCGATTT
65959594 GAAATTACTG
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
26 20 0.33
27 39 0.65
28 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:65959674 original size:27 final size:27
Alignment explanation
Indices: 65959623--65959771 Score: 189
Period size: 27 Copynumber: 5.6 Consensus size: 27
65959613 TGTAGGATAG
65959623 AATTACCAAAATA-CCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
65959649 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
65959676 AATTACCGAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
65959703 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
65959730 AATTACCAAAATACCCCTA-TTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
65959756 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
65959772 TTGACTTTCT
Statistics
Matches: 110, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
25 2 0.02
26 34 0.31
27 70 0.64
28 4 0.04
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:65959717 original size:54 final size:53
Alignment explanation
Indices: 65959595--65959771 Score: 198
Period size: 53 Copynumber: 3.3 Consensus size: 53
65959585 CCTCGATTTG
* ** *
65959595 AAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCTAGTTTGTA
1 AAATTACCGAAATACCCCTAGTTTG-TAAAATTACCAAAATACCCTAGTTTGTA
* * *
65959648 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTAGTTTGTG
1 AAATTACCGAAATACCCCTAGTTTGTAAAATTACCAAAATACC-CTAGTTTGTA
* **
65959702 AAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTA-TTTACA
1 AAATTACCGAAATACCCCT-AGTTTGTAAAATTACCAAAATA-CCCTAGTTTGTA
*
65959755 AAATTACAGAAATACCC
1 AAATTACCGAAATACCC
65959772 TTGACTTTCT
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
53 53 0.50
54 50 0.48
55 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (53 bp):
AAATTACCGAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTAGTTTGTA
Found at i:65959948 original size:27 final size:26
Alignment explanation
Indices: 65959885--65959948 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
65959875 ACCCCTAATA
*
65959885 GGTAAAAAGACCGTAAAGCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCTGTAG
* *
65959911 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCC-TGTAG
65959938 GGTAAAATGAC
1 GGTAAAATGAC
65959949 GAATATGCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 17 0.53
27 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (26 bp):
GGTAAAATGACCGTAAAGCCCTGTAG
Found at i:65960806 original size:25 final size:25
Alignment explanation
Indices: 65960753--65960821 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
65960743 AGGAAGTGCT
* *
65960753 AAAAGGGCTCTG-CCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACAG
65960777 AAAAGGGCTTTGCCCCAGTTTATCAG
1 AAAAGGGCTTTGCCCCAGTTTA-CAG
65960803 -AAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
65960822 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 11 0.27
25 28 0.68
26 2 0.05
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACAG
Found at i:65960834 original size:24 final size:23
Alignment explanation
Indices: 65960753--65960848 Score: 86
Period size: 25 Copynumber: 4.0 Consensus size: 23
65960743 AGGAAGTGCT
* *
65960753 AAAAGGGCTCTG-CCCAGTTTACC
1 AAAAGGGCTTTGCCCCAG-TTATC
65960776 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
65960801 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
65960825 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
65960849 ATGATAAAGT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
23 4 0.06
24 24 0.38
25 35 0.56
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:65961025 original size:42 final size:42
Alignment explanation
Indices: 65960966--65961100 Score: 261
Period size: 42 Copynumber: 3.2 Consensus size: 42
65960956 GTAGTCTCCC
65960966 GAAATGGGCTTGCATACATTCATTGACATTACATGTGATATT
1 GAAATGGGCTTGCATACATTCATTGACATTACATGTGATATT
65961008 GAAATGGGCTTGCATACATTCATTGACATTACATGTGATATT
1 GAAATGGGCTTGCATACATTCATTGACATTACATGTGATATT
*
65961050 GAAATGGGCTTGCATACATCCATTGACATTACATGTGATATT
1 GAAATGGGCTTGCATACATTCATTGACATTACATGTGATATT
65961092 GAAATGGGC
1 GAAATGGGC
65961101 CGAAGGGCCA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 92 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
GAAATGGGCTTGCATACATTCATTGACATTACATGTGATATT
Found at i:65961159 original size:31 final size:31
Alignment explanation
Indices: 65961124--65961207 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
65961114 CGTTTACAAT
65961124 AAAGGCTTCGGCCCAGTGATATGATTTATAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
*
65961155 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
65961186 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
65961208 TCAAGACTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATAA
Found at i:65963506 original size:27 final size:27
Alignment explanation
Indices: 65963476--65963567 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
65963466 ATTACCAAAG
* * * *
65963476 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
65963503 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
65963530 TACCCTC-AGTTTACAAAATTACCATTT
1 TACCCTCGA-TTTACAAAATTACCATTT
65963557 TACCCTCGATT
1 TACCCTCGATT
65963568 ATGAAATTAC
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 57 0.97
28 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:65963629 original size:27 final size:27
Alignment explanation
Indices: 65963599--65963749 Score: 151
Period size: 27 Copynumber: 5.6 Consensus size: 27
65963589 TATAGGATAG
65963599 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
65963626 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
65963653 AATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
** *
65963680 AATTACTGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* * * **
65963707 ATTTAACAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
65963734 AATTACAAAAATACCC
1 AATTACCAAAATACCC
65963750 TTGACTTTTT
Statistics
Matches: 100, Mismatches: 22, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
26 3 0.03
27 93 0.93
28 4 0.04
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:65963657 original size:54 final size:54
Alignment explanation
Indices: 65963599--65963751 Score: 171
Period size: 54 Copynumber: 2.8 Consensus size: 54
65963589 TATAGGATAG
* * *
65963599 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAA
1 AATTAACAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCTTAATTTGTAA
* * * * * ** *
65963653 AATTATCGAAATACCACTGGTTTGTGAAATTACTGAAATACCCTCAATTTGTAA
1 AATTAACAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCTTAATTTGTAA
* * **
65963707 ATTTAACAAAATACCCCTAATTTACAAAATTACAAAAATACCCTT
1 AATTAACAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCTT
65963752 GACTTTTTAA
Statistics
Matches: 78, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTAACAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCTTAATTTGTAA
Found at i:65964774 original size:25 final size:24
Alignment explanation
Indices: 65964736--65964805 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
65964726 AGGAAATACT
*
65964736 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
65964760 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
65964785 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
65964806 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:65964818 original size:24 final size:24
Alignment explanation
Indices: 65964735--65964818 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
65964725 GAGGAAATAC
* *
65964735 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
65964760 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
65964784 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
65964808 TAAAAGAGGCT
1 TAAAAG-GGCT
65964819 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:65965012 original size:42 final size:42
Alignment explanation
Indices: 65964953--65965040 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 42
65964943 TAGTCTCCCC
*
65964953 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
65964995 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
65965037 AAAT
1 AAAT
65965041 AGGCCTAAGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:65966294 original size:16 final size:16
Alignment explanation
Indices: 65966269--65966301 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
65966259 ATCCTAAAAA
*
65966269 TTCTATTTCTATTTTT
1 TTCTAATTCTATTTTT
65966285 TTCTAATTCTATTTTT
1 TTCTAATTCTATTTTT
65966301 T
1 T
65966302 AGGACTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (16 bp):
TTCTAATTCTATTTTT
Found at i:65970052 original size:29 final size:29
Alignment explanation
Indices: 65969950--65970059 Score: 107
Period size: 29 Copynumber: 3.9 Consensus size: 29
65969940 TACCTATATC
* ** * *
65969950 TGGCCCATTAAGCCCA-ATCGTATTCATA
1 TGGCCCATTAGGCCCAGATCACATTTACA
* * * *
65969978 TGGCCCATTAGGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAGATCACATTTACA
65970007 TGGCCCATTAGGCCCAGATCACATTTACA
1 TGGCCCATTAGGCCCAGATCACATTTACA
* *
65970036 TGGCCCGTTCGGCCCAG-TCACATT
1 TGGCCCATTAGGCCCAGATCACATT
65970060 CATAATCATG
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
28 22 0.32
29 47 0.68
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAGATCACATTTACA
Found at i:65973534 original size:28 final size:29
Alignment explanation
Indices: 65973490--65973566 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 29
65973480 AATCGTATTC
*
65973490 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* *
65973519 ATATAGCCCATT-GGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* *
65973547 ATATGGCCCGTTCGGCCCAA
1 ATATGGCCCATTAGGCCCAA
65973567 TGACGTTCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:65973659 original size:17 final size:18
Alignment explanation
Indices: 65973637--65973670 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65973627 TGCTTAATAT
65973637 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
65973654 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
65973671 TTCGGCCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:65973815 original size:16 final size:16
Alignment explanation
Indices: 65973794--65973824 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65973784 CAAACTTTTG
65973794 GCATTTTGACATTTCA
1 GCATTTTGACATTTCA
*
65973810 GCATTTTGGCATTTC
1 GCATTTTGACATTTC
65973825 GGCTTTTACC
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:0.19, C:0.19, G:0.16, T:0.45
Consensus pattern (16 bp):
GCATTTTGACATTTCA
Found at i:65976143 original size:40 final size:40
Alignment explanation
Indices: 65976083--65976304 Score: 261
Period size: 40 Copynumber: 5.6 Consensus size: 40
65976073 TATTCGGATG
* * *
65976083 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
65976123 A-ATTTCGGGCTAAGCCCCGAAGGTATTTGTGCAAGTTACT
1 ATA-ATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
65976163 AT-ATCTGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT
1 ATAATC-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
**
65976203 ATCTTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * **
65976243 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCT
1 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
65976283 AT-ATCCGGCTAAATCCCGAAGG
1 ATAATCGGGCTAAGTCCCGAAGG
65976305 TACTTGGTTT
Statistics
Matches: 156, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 20 0.13
40 134 0.86
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:65976222 original size:80 final size:79
Alignment explanation
Indices: 65976083--65976306 Score: 313
Period size: 80 Copynumber: 2.8 Consensus size: 79
65976073 TATTCGGATG
* *
65976083 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCCGAAGGTA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT-ATTTCGGGCTAAGTCCCGAAGGTA
65976148 TTTGTGCAAGTTACT
65 TTTGTGCAAGTTACT
* * * * *
65976163 ATATCTGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATCTTCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAT-TTCGGGCTAAGTCCCGAAGGTA
*
65976228 TTTGTGCGAGTTACT
65 TTTGTGCAAGTTACT
* * * * *
65976243 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATATCCGGCTAAATCCCGAAGGTA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATTTCGGGCTAAGTCCCGAAGGTA
65976307 CTTGGTTTGG
Statistics
Matches: 125, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
79 20 0.16
80 105 0.84
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATTTCGGGCTAAGTCCCGAAGGTAT
TTGTGCAAGTTACT
Found at i:65983606 original size:40 final size:40
Alignment explanation
Indices: 65983547--65983764 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
65983537 CGGATGATAA
* *
65983547 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
65983587 CCGGGCTAAGCCCCAAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
65983627 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
65983667 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
65983707 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
65983747 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
65983765 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 17 0.10
40 145 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:65993671 original size:27 final size:26
Alignment explanation
Indices: 65993627--65993693 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
65993617 TTAGTTTACC
* *
65993627 AAATTACTAAAATACCCCCAGTTGTA
1 AAATTACCAAAATACCCCCAGTTATA
* *
65993653 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCCC-AGTTATA
*
65993680 AAATTACCCAAATA
1 AAATTACCAAAATA
65993694 TATTCGATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 17 0.50
27 17 0.50
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.25
Consensus pattern (26 bp):
AAATTACCAAAATACCCCCAGTTATA
Found at i:65993731 original size:27 final size:27
Alignment explanation
Indices: 65993627--65993832 Score: 128
Period size: 27 Copynumber: 7.7 Consensus size: 27
65993617 TTAGTTTACC
* * *
65993627 AAATTACTAAAATACCC-CCAGTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * * *
65993653 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCAATTTGTA
** *** *
65993680 AAATTACCCAAATATATTCGATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * *
65993707 AAATTACTGAAATACGCTCAGTTTGCA
1 AAATTACTGAAATACCCTCAATTTGTA
* * * ***
65993734 AAATTACTAAAATACCTTCGATCAATA
1 AAATTACTGAAATACCCTCAATTTGTA
** * *
65993761 AAATTACCAAAATACCCTTAATTTGTG
1 AAATTACTGAAATACCCTCAATTTGTA
* *
65993788 AAATTACTGAAATACCCTTAATTTGTG
1 AAATTACTGAAATACCCTCAATTTGTA
*
65993815 AAATTACAGAAATACCCT
1 AAATTACTGAAATACCCT
65993833 TTAACGGTAG
Statistics
Matches: 140, Mismatches: 37, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
25 3 0.02
26 12 0.09
27 121 0.86
28 4 0.03
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAATTTGTA
Found at i:65993768 original size:81 final size:80
Alignment explanation
Indices: 65993627--65993804 Score: 196
Period size: 81 Copynumber: 2.2 Consensus size: 80
65993617 TTAGTTTACC
* * * ** *
65993627 AAATTACTAAAATACCCCCAGTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAAA
1 AAATTACTGAAATACCCCCAGTTGCAAAATTACCAAAATACCCCCGATCAATAAAATTACCAAAA
* *
65993692 TA-TATTCGATTTGTA
66 TACCATT-AATTTGTA
* * * **
65993707 AAATTACTGAAATACGCTCAGTTTGCAAAATTACTAAAATACCTTCGATCAATAAAATTACCAAA
1 AAATTACTGAAATACCCCCAG-TTGCAAAATTACCAAAATACCCCCGATCAATAAAATTACCAAA
* *
65993772 ATACCCTTAATTTGTG
65 ATACCATTAATTTGTA
65993788 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
65993805 TTAATTTGTG
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
80 18 0.22
81 60 0.75
82 2 0.03
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (80 bp):
AAATTACTGAAATACCCCCAGTTGCAAAATTACCAAAATACCCCCGATCAATAAAATTACCAAAA
TACCATTAATTTGTA
Found at i:65993846 original size:27 final size:26
Alignment explanation
Indices: 65993816--65994145 Score: 363
Period size: 27 Copynumber: 12.3 Consensus size: 26
65993806 TAATTTGTGA
* * *
65993816 AATTACAGAAATACCCTTTAACGGTAG
1 AATTACCGAAATACCCTGT-AGGGTAG
*
65993843 AATTACTGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATAC-CCTGTAGGGTAG
* *
65993870 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
* *
65993897 AATTACCGAAATGCCCCTGTAAGGTAG
1 AATTACCGAAAT-ACCCTGTAGGGTAG
65993924 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
*
65993951 AATTACCGAAATACCTCTGTAGGGTTG
1 AATTACCGAAATACC-CTGTAGGGTAG
** *
65993978 AATTATTGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
65994005 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
*
65994032 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
65994059 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
** *
65994086 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
* * * * * *
65994113 AATTATCGAGATACCTTATGGGGTAA
1 AATTACCGAAATACCCTGTAGGGTAG
65994139 AATTACC
1 AATTACC
65994146 ATTTTGCCCC
Statistics
Matches: 266, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
26 18 0.07
27 241 0.91
28 7 0.03
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (26 bp):
AATTACCGAAATACCCTGTAGGGTAG
Found at i:65993874 original size:54 final size:54
Alignment explanation
Indices: 65993816--65994127 Score: 423
Period size: 54 Copynumber: 5.8 Consensus size: 54
65993806 TAATTTGTGA
* * * *
65993816 AATTACAGAAATA-CCCTTTAACGGTAGAATTACTGAAATACTCCTGTAGGGTAG
1 AATTACAGAAATACCCCTGT-AGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
65993870 AATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATGCCCCTGTAAGGTAG
1 AATTACAGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
65993924 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCTCTGTAGGGTTG
1 AATTACAGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
** *
65993978 AATTATTGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACAGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
65994032 AATTACCA-AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTA-CAGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
65994086 AATTACTA-AAATACCCCTATAGGGTAGAATTATCGAGATACC
1 AATTAC-AGAAATACCCCTGTAGGGTAGAATTACCGAAATACC
65994128 TTATGGGGTA
Statistics
Matches: 231, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.00
54 225 0.97
55 5 0.02
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (54 bp):
AATTACAGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:65994586 original size:31 final size:31
Alignment explanation
Indices: 65994548--65994614 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
65994538 TTGCATTCAC
*
65994548 ATTCTGATTTTGATTTTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
65994579 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
65994610 ATTCT
1 ATTCT
65994615 AATTCTGTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:65994604 original size:25 final size:25
Alignment explanation
Indices: 65994576--65994645 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
65994566 TTACCTGATA
*
65994576 CTGATTCTGATTTTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTTAC
* * *
65994601 CTGATACTGATTCTAATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGTTAC
*
65994626 CTAATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCT
65994646 AGTTCTGATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTTAC
Found at i:65994638 original size:6 final size:6
Alignment explanation
Indices: 65994548--65994654 Score: 51
Period size: 6 Copynumber: 17.3 Consensus size: 6
65994538 TTGCATTCAC
* * * *
65994548 ATTCTG ATTTTG ATTTTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
65994597 -TTACCTG ATACTG ATTCTA ATTCTG -TCACCTA ATTCTG ATTCTG ATTCT-
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
65994646 AGTTCTG AT
1 A-TTCTG AT
65994655 AATGTTTCTT
Statistics
Matches: 76, Mismatches: 14, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
5 6 0.08
6 59 0.78
7 8 0.11
8 3 0.04
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:66001469 original size:29 final size:28
Alignment explanation
Indices: 66001418--66001482 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
66001408 GCTCAATCGT
*
66001418 ATTCATATGGCCCATTAGGCCTAAATCAC
1 ATTCATATGGCCCATTAGACCT-AATCAC
* * * *
66001447 ATTTATATGGCCCGTTCGACCTAGTCAC
1 ATTCATATGGCCCATTAGACCTAATCAC
66001475 ATTCATAT
1 ATTCATAT
66001483 TCATATGATC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGACCTAATCAC
Found at i:66001727 original size:16 final size:16
Alignment explanation
Indices: 66001703--66001737 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
66001693 ACTTTCAACT
* *
66001703 TTTCGGCATTTTGGCA
1 TTTCAGCATTTCGGCA
66001719 TTTCAGCATTTCGGCA
1 TTTCAGCATTTCGGCA
66001735 TTT
1 TTT
66001738 TGGCTTTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (16 bp):
TTTCAGCATTTCGGCA
Found at i:66005436 original size:15 final size:15
Alignment explanation
Indices: 66005412--66005441 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
66005402 ATCTTAAAAA
*
66005412 TTCTATTTCTATTTT
1 TTCTAATTCTATTTT
66005427 TTCTAATTCTATTTT
1 TTCTAATTCTATTTT
66005442 CTTAAGACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (15 bp):
TTCTAATTCTATTTT
Found at i:66005939 original size:15 final size:16
Alignment explanation
Indices: 66005919--66005953 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
66005909 GGGCTATTAG
*
66005919 TTTTTTCTATTAA-TC
1 TTTTTTCTAATAATTC
66005934 TTTTTTCTAATAATTC
1 TTTTTTCTAATAATTC
66005950 TTTT
1 TTTT
66005954 ATTTTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTCTAATAATTC
Found at i:66009569 original size:15 final size:15
Alignment explanation
Indices: 66009549--66009584 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
66009539 GCTTCCACAT
66009549 ATCTTTGCATTTAGC
1 ATCTTTGCATTTAGC
*
66009564 ATCTTTGCATTTATC
1 ATCTTTGCATTTAGC
66009579 ATCTTT
1 ATCTTT
66009585 TTGTTTGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.08, T:0.53
Consensus pattern (15 bp):
ATCTTTGCATTTAGC
Found at i:66012944 original size:27 final size:27
Alignment explanation
Indices: 66012914--66013107 Score: 253
Period size: 27 Copynumber: 7.2 Consensus size: 27
66012904 TACTGAAATG
**
66012914 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * * *
66012941 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
*
66012968 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
66012995 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
66013022 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
66013049 CCCTAGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * ** *
66013076 CCCTCAATTTACAAAATTGTCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
66013103 CCCTC
1 CCCTC
66013108 AATTGTGAAA
Statistics
Matches: 148, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:66013029 original size:81 final size:81
Alignment explanation
Indices: 66012914--66013086 Score: 283
Period size: 81 Copynumber: 2.1 Consensus size: 81
66012904 TACTGAAATG
* * * * *
66012914 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTAGATTTA
66012979 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
*
66012995 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTAGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTAGATTTA
66013060 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
*
66013076 CCCTCAATTTA
1 CCCTCGATTTA
66013087 CAAAATTGTC
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 85 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTAGATTTA
CAAAATTACCATTTTA
Found at i:66013173 original size:27 final size:27
Alignment explanation
Indices: 66013143--66013268 Score: 207
Period size: 27 Copynumber: 4.7 Consensus size: 27
66013133 TGTAGGATAG
66013143 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
66013170 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
66013197 AATTACCGAAATACCACTGGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
66013224 AATTACCAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
66013251 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
66013269 GATTTAAAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:66013182 original size:54 final size:54
Alignment explanation
Indices: 66013110--66013265 Score: 179
Period size: 54 Copynumber: 2.9 Consensus size: 54
66013100 TTACCCTCAA
* ** * *
66013110 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
** * *
66013164 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* * **
66013218 TTGTAAAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACC
1 TTGTAAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACC
66013266 CCTGATTTAA
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 86 0.97
55 3 0.03
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.29
Consensus pattern (54 bp):
TTGTAAAATTACCAAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:66013280 original size:54 final size:54
Alignment explanation
Indices: 66013143--66013295 Score: 202
Period size: 54 Copynumber: 2.8 Consensus size: 54
66013133 TGTAGGATAG
* *
66013143 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCTTAATTTGTAA
* * *
66013197 AATTACCGAAATACCACTGGTTTGTAAAATTACCAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTAATTTGTAA
** *
66013251 AATTACCAAAATACCCCTGATTTAAAAAATTA-TAGAAATACCCTT
1 AATTACCAAAATACCCCTGATTTGTAAAATTACCA-AAATACCCTT
66013296 GACTTTCTAA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 85 0.99
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTAATTTGTAA
Found at i:66013280 original size:81 final size:81
Alignment explanation
Indices: 66013143--66013292 Score: 230
Period size: 81 Copynumber: 1.9 Consensus size: 81
66013133 TGTAGGATAG
* ** *
66013143 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTAAAAAATTACAGAAA
66013208 TACCACTGGTTTGTAA
66 TACCACTGGTTTGTAA
* *
66013224 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCT-GATTTAAAAAATTATAGAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAG-TTTAAAAAATTACAGAA
66013288 ATACC
65 ATACC
66013293 CTTGACTTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 61 0.98
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTAAAAAATTACAGAAA
TACCACTGGTTTGTAA
Found at i:66013289 original size:27 final size:29
Alignment explanation
Indices: 66013259--66013321 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
66013249 AAAATTACCA
66013259 AAATACCCCTGA-TTT-AAAAAATTATAG
1 AAATACCCCTGACTTTCAAAAAATTATAG
* *
66013286 AAATACCCTTGACTTTCTAAAAATTATAG
1 AAATACCCCTGACTTTCAAAAAATTATAG
66013315 AAATACC
1 AAATACC
66013322 ATTAGTTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 11 0.34
28 3 0.09
29 18 0.56
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.30
Consensus pattern (29 bp):
AAATACCCCTGACTTTCAAAAAATTATAG
Found at i:66013356 original size:27 final size:27
Alignment explanation
Indices: 66013143--66013379 Score: 179
Period size: 27 Copynumber: 8.7 Consensus size: 27
66013133 TGTAGGATAG
* * *
66013143 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTGGTTTGTAA
* * *
66013170 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTGGTTTGTAA
66013197 AATTACCGAAATACCAC-TGGTTTGTAA
1 AATTACCGAAATACC-CTTGGTTTGTAA
* **
66013224 AATTACCAAAATACCCTTAATTTGTAA
1 AATTACCGAAATACCCTTGGTTTGTAA
* * * **
66013251 AATTACCAAAATACCCCTGATTTAAAA
1 AATTACCGAAATACCCTTGGTTTGTAA
** * *
66013278 AATTATAGAAATACCCTTGACTTTCTAAA
1 AATTACCGAAATACCCTTG-GTTTGT-AA
** * * **
66013307 AATTATAGAAATACCATTAGTTTACAA
1 AATTACCGAAATACCCTTGGTTTGTAA
* *
66013334 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCGAAATACCCTTGGTTTGTAA
* * *
66013361 ATTTACCAAAACACCCTTG
1 AATTACCGAAATACCCTTG
66013380 TAGGATGAAA
Statistics
Matches: 174, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.01
27 147 0.84
28 7 0.04
29 19 0.11
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGGTTTGTAA
Found at i:66015131 original size:40 final size:40
Alignment explanation
Indices: 66015076--66015210 Score: 182
Period size: 40 Copynumber: 3.4 Consensus size: 40
66015066 GGCATTTATA
66015076 CTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGT
1 CTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGT
* * *
66015116 CTTAGCCCGGATATAG-CAACTCGCACGAATGCCTTCGGAT
1 CTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGT
* * * *
66015156 CTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGGGA
1 CTTAGCCCGGATATAGTCA-CTAGCACAAATGCCTTCGGGT
66015197 CTTAGCCCGGATAT
1 CTTAGCCCGGATAT
66015211 CATTCGAATA
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 50 0.62
41 29 0.36
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGT
Found at i:66016612 original size:20 final size:20
Alignment explanation
Indices: 66016587--66016659 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
66016577 TGTGGTTCAA
66016587 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTTAG
*
66016607 CTCATTCGAGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTTAG
* * *
66016627 CTCATTCAAGCTCAATTTAA
1 CTCATTCGAGCTCAAGTTAG
*
66016647 CTCGTT-GAGCTCA
1 CTCATTCGAGCTCA
66016660 TTATTAGCTC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 6 0.13
20 40 0.87
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.30
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTTAG
Found at i:66019033 original size:25 final size:24
Alignment explanation
Indices: 66018994--66019077 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
66018984 AGGAAGTGCT
*
66018994 AAAAGGGGCTCTGCCCCAGTTTATC
1 AAAA-GGGCTTTGCCCCAGTTTATC
66019019 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
66019044 AGAAAGGGCTTTGCCCCAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATC
66019068 AAAAGAGGCT
1 AAAAG-GGCT
66019078 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
23 4 0.07
24 10 0.19
25 36 0.67
26 4 0.07
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:66019048 original size:26 final size:25
Alignment explanation
Indices: 66018994--66019064 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 25
66018984 AGGAAGTGCT
*
66018994 AAAAGGGGCTCTGCCCCAGTTTATCG
1 AAAA-GGGCTTTGCCCCAGTTTATCG
66019020 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTATCG
66019044 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
66019065 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
24 1 0.02
25 38 0.88
26 4 0.09
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCG
Found at i:66019271 original size:42 final size:42
Alignment explanation
Indices: 66019212--66019303 Score: 184
Period size: 42 Copynumber: 2.2 Consensus size: 42
66019202 TAGTCTCCCC
66019212 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
66019254 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
66019296 AAATGGGC
1 AAATGGGC
66019304 CTAATGGCCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:66019362 original size:31 final size:31
Alignment explanation
Indices: 66019327--66019410 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
66019317 CGTTTACAGT
66019327 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
66019358 AAAGGCTTCGGACTAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
66019389 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
66019411 TCAAGACTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Done.