Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 70 of 425
Found at i:19607178 original size:48 final size:48
Alignment explanation
Indices: 19607107--19607545 Score: 745
Period size: 48 Copynumber: 9.1 Consensus size: 48
19607097 GCTGAAATTG
* *
19607107 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTTAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
19607155 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
19607203 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
19607251 ATCTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
19607299 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
19607347 ATGTACGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
19607395 ATGTATGAGATAGGTATATGTGGTAAAGCCGAATGG-TCAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AT
* * *
19607445 ATATATGAGATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
19607493 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
19607541 ATGTA
1 ATGTA
19607546 GGCGATGTGC
Statistics
Matches: 372, Mismatches: 15, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
47 1 0.00
48 326 0.88
49 4 0.01
50 40 0.11
51 1 0.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:19607742 original size:37 final size:37
Alignment explanation
Indices: 19607692--19607799 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
19607682 GGAAATATAT
*
19607692 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
19607729 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
19607766 TCTGGGTAAGACCCGATAAC-ATCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTA-CGTGTGGAGATT
19607800 TCGTCTGAGC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
36 1 0.02
37 65 0.98
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:19609744 original size:18 final size:19
Alignment explanation
Indices: 19609706--19609746 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
19609696 TGGTTCATGT
19609706 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
19609725 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
19609743 TTTC
1 TTTC
19609747 TTATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:19609936 original size:39 final size:38
Alignment explanation
Indices: 19609869--19610003 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
19609859 ACCAATATGG
* * *
19609869 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
19609908 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
19609946 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
19609987 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
19610004 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:19610268 original size:18 final size:19
Alignment explanation
Indices: 19610242--19610280 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
19610232 TTTCAATTCA
19610242 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
19610261 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
19610279 AT
1 AT
19610281 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:19611593 original size:5 final size:5
Alignment explanation
Indices: 19611585--19611621 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
19611575 TTATGTTTAT
19611585 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
19611622 TAAAACATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:19614562 original size:22 final size:21
Alignment explanation
Indices: 19614537--19614578 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19614527 AAACTGTTTA
19614537 AAATAAAAAAAATTCAAAATTC
1 AAAT-AAAAAAATTCAAAATTC
*
19614559 AAATATAAAAATTCAAAATT
1 AAATAAAAAAATTCAAAATT
19614579 TAATGTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (21 bp):
AAATAAAAAAATTCAAAATTC
Found at i:19614817 original size:20 final size:19
Alignment explanation
Indices: 19614789--19614830 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
19614779 CGATTGATTC
19614789 AAAACAAAA-AAATATATTAA
1 AAAACAAAAGAAAT-TA-TAA
*
19614809 AAAATAAAAGAAATTATAA
1 AAAACAAAAGAAATTATAA
19614828 AAA
1 AAA
19614831 TTGGTTGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 10 0.50
21 4 0.20
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAACAAAAGAAATTATAA
Found at i:19615031 original size:23 final size:24
Alignment explanation
Indices: 19614971--19615031 Score: 61
Period size: 28 Copynumber: 2.4 Consensus size: 24
19614961 TTGAATTTTG
*
19614971 AATTCTTTTTATATTTTTAAATAAA
1 AATTTTTTTTATATTTTTAAAT-AA
*
19614996 ATATTTTTATTTTTTATTTTTAAAT-A
1 A-A-TTTT-TTTTATATTTTTAAATAA
19615022 AATTTTTTTT
1 AATTTTTTTT
19615032 CCATATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
23 4 0.13
24 4 0.13
25 2 0.06
26 3 0.10
27 3 0.10
28 15 0.48
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (24 bp):
AATTTTTTTTATATTTTTAAATAA
Found at i:19615603 original size:18 final size:18
Alignment explanation
Indices: 19615580--19615615 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
19615570 TTTAAAACAA
19615580 ATTTTTTAA-AATTAAAAT
1 ATTTTTTAAGAA-TAAAAT
19615598 ATTTTTTAAGAATAAAAT
1 ATTTTTTAAGAATAAAAT
19615616 TTTAAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTTTTTAAGAATAAAAT
Found at i:19615617 original size:16 final size:17
Alignment explanation
Indices: 19615578--19615618 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
19615568 GTTTTAAAAC
19615578 AAATTTTTTAAAATTAA
1 AAATTTTTTAAAATTAA
19615595 AATATTTTTTAAGAA-T-A
1 AA-ATTTTTTAA-AATTAA
19615612 AAATTTT
1 AAATTTT
19615619 AAGTTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 5 0.23
18 10 0.45
19 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
AAATTTTTTAAAATTAA
Found at i:19620547 original size:23 final size:23
Alignment explanation
Indices: 19620503--19620548 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
19620493 AATGAGCATG
*
19620503 AACTTTGTTCTGTTTATTTTAAT
1 AACTTTGTTCTATTTATTTTAAT
19620526 AACTTTGTTCTATTT-TTCTTAAT
1 AACTTTGTTCTATTTATT-TTAAT
19620549 GAGCATGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.61
Consensus pattern (23 bp):
AACTTTGTTCTATTTATTTTAAT
Found at i:19620914 original size:437 final size:437
Alignment explanation
Indices: 19620088--19620932 Score: 1654
Period size: 437 Copynumber: 1.9 Consensus size: 437
19620078 GTTAAGTGGC
*
19620088 TAACTTTGTTCTGTTTTTCTTAATGAGCATGAACTTTCTATGACATATTAGAACGGTGATGGTTA
1 TAACTTTGTTCTATTTTTCTTAATGAGCATGAACTTTCTATGACATATTAGAACGGTGATGGTTA
19620153 TGTTTATCCTCTTTTTATCTTATATATTGCCAATTTCAGTGTTGAATTTTTATCCAAACTATGGC
66 TGTTTATCCTCTTTTTATCTTATATATTGCCAATTTCAGTGTTGAATTTTTATCCAAACTATGGC
*
19620218 TCTCTCTCTCTCTCTTTTTAATATATTTGATATTTTGATTTTGACATTTTATTTGGTTAAATATA
131 TCTCTCTCTCTCTCTCTTTAATATATTTGATATTTTGATTTTGACATTTTATTTGGTTAAATATA
19620283 TTGGTGTGGTGAAAAATGGACCCATATTAACCGATGTTTGAAAGTTTTCAAGAGAGCATTTAATA
196 TTGGTGTGGTGAAAAATGGACCCATATTAACCGATGTTTGAAAGTTTTCAAGAGAGCATTTAATA
19620348 AAACTGTTCTATATTTAATTAATTAAAGAACTGAATTTAAATAAAGAAAAGAGTCATAACCTAAT
261 AAACTGTTCTATATTTAATTAATTAAAGAACTGAATTTAAATAAAGAAAAGAGTCATAACCTAAT
*
19620413 TGGGAAAATAATTCTCTTATTTTAATAAACTACTAAAAGATAAGGGAAAACAGTTCTCTTATTCT
326 TGGGAAAATAATTCTCTTATTTTAATAAACTACTAAAAGATAAGGGAAAACAATTCTCTTATTCT
19620478 AATAAACTACTAAACAATGAGCATGAACTTTGTTCTGTTTATTTTAA
391 AATAAACTACTAAACAATGAGCATGAACTTTGTTCTGTTTATTTTAA
19620525 TAACTTTGTTCTATTTTTCTTAATGAGCATGAACTTTCTATGACATATTAGAACGGTGATGGTTA
1 TAACTTTGTTCTATTTTTCTTAATGAGCATGAACTTTCTATGACATATTAGAACGGTGATGGTTA
19620590 TGTTTATCCTCTTTTTATCTTATATATTGCCAATTTCAGTGTTGAATTTTTATCCAAACTATGGC
66 TGTTTATCCTCTTTTTATCTTATATATTGCCAATTTCAGTGTTGAATTTTTATCCAAACTATGGC
19620655 TCTCTCTCTCTCTCTCTTTAATATATTTGATATTTTGATTTTGACATTTTATTTGGTTAAATATA
131 TCTCTCTCTCTCTCTCTTTAATATATTTGATATTTTGATTTTGACATTTTATTTGGTTAAATATA
19620720 TTGGTGTGGTGAAAAATGGACCCATATTAACCGATGTTTGAAAGTTTTCAAGAGAGCATTTAATA
196 TTGGTGTGGTGAAAAATGGACCCATATTAACCGATGTTTGAAAGTTTTCAAGAGAGCATTTAATA
19620785 AAACTGTTCTATATTTAATTAATTAAAGAACTGAATTTAAATAAAGAAAAGAGTCATAACCTAAT
261 AAACTGTTCTATATTTAATTAATTAAAGAACTGAATTTAAATAAAGAAAAGAGTCATAACCTAAT
*
19620850 TGGGAAAATAATTCTCTTATTTTAATAAACTACTAAAAGATAAGGGAAAACAATTCTTTTATTCT
326 TGGGAAAATAATTCTCTTATTTTAATAAACTACTAAAAGATAAGGGAAAACAATTCTCTTATTCT
19620915 AATAAACTACTAAACAAT
391 AATAAACTACTAAACAAT
19620933 AAAATAAAAT
Statistics
Matches: 404, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
437 404 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (437 bp):
TAACTTTGTTCTATTTTTCTTAATGAGCATGAACTTTCTATGACATATTAGAACGGTGATGGTTA
TGTTTATCCTCTTTTTATCTTATATATTGCCAATTTCAGTGTTGAATTTTTATCCAAACTATGGC
TCTCTCTCTCTCTCTCTTTAATATATTTGATATTTTGATTTTGACATTTTATTTGGTTAAATATA
TTGGTGTGGTGAAAAATGGACCCATATTAACCGATGTTTGAAAGTTTTCAAGAGAGCATTTAATA
AAACTGTTCTATATTTAATTAATTAAAGAACTGAATTTAAATAAAGAAAAGAGTCATAACCTAAT
TGGGAAAATAATTCTCTTATTTTAATAAACTACTAAAAGATAAGGGAAAACAATTCTCTTATTCT
AATAAACTACTAAACAATGAGCATGAACTTTGTTCTGTTTATTTTAA
Found at i:19628513 original size:168 final size:175
Alignment explanation
Indices: 19628225--19628551 Score: 488
Period size: 168 Copynumber: 1.9 Consensus size: 175
19628215 ATATGGGACT
*
19628225 CAAATGAAGGTGGTGCTAAACACAAATTTATGATGATTAAATTTTGGAAGTTTTGGATGTTTTTG
1 CAAATGAAGGTGGTGCTAAACACAAATTTATGATGATTAAA-TTT-GAAATTTTGGATGTTTTTG
**
19628290 GGATCTTTAATATGAATGAGATTAGTAAAAAGTGAATCTTAATGATTGTGTTTGGGATCTCTTAG
64 GGATCTTTAATATGAATGAGATTAGTAAAAAGTGAATCTTAATGATTAAGTTTGGGATCTCTTAG
*
19628355 GGATTCTTTAATATGGTTGAGTTCTCATGTCACTCTTAAATTTGAGG
129 GGATACTTTAATATGGTTGAGTTCTCATGTCACTCTTAAATTTGAGG
19628402 CAAATGAAGGTGGTGCTAAACACAAA-TT-T-ATGA-T-AA-TT-AAATTTTGGATGTTTTTGGG
1 CAAATGAAGGTGGTGCTAAACACAAATTTATGATGATTAAATTTGAAATTTTGGATGTTTTTGGG
* * * * *
19628460 CTCTTTAATATGAATGAGATTGGTAAGAATTGAATCTTAATGATTAAGTTTGGGATCTCTTGGGG
66 ATCTTTAATATGAATGAGATTAGTAAAAAGTGAATCTTAATGATTAAGTTTGGGATCTCTTAGGG
* *
19628525 ATACTTTAATGTTGTTGAGTTCTCATG
131 ATACTTTAATATGGTTGAGTTCTCATG
19628552 ATTCATTTTG
Statistics
Matches: 139, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
168 101 0.73
170 2 0.01
172 2 0.01
173 1 0.01
174 4 0.03
175 1 0.01
176 2 0.01
177 26 0.19
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (175 bp):
CAAATGAAGGTGGTGCTAAACACAAATTTATGATGATTAAATTTGAAATTTTGGATGTTTTTGGG
ATCTTTAATATGAATGAGATTAGTAAAAAGTGAATCTTAATGATTAAGTTTGGGATCTCTTAGGG
ATACTTTAATATGGTTGAGTTCTCATGTCACTCTTAAATTTGAGG
Found at i:19629145 original size:17 final size:17
Alignment explanation
Indices: 19629120--19629154 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
19629110 TTTAAGTCTT
*
19629120 AAAATACTACATAATTA
1 AAAACACTACATAATTA
19629137 AAAACACTACATAATTA
1 AAAACACTACATAATTA
19629154 A
1 A
19629155 GTTTGGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAACACTACATAATTA
Found at i:19630887 original size:42 final size:42
Alignment explanation
Indices: 19630841--19630929 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
19630831 TCCTAATTGG
*
19630841 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
19630883 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
19630925 TAAAA
1 GAAAA
19630930 ATATTCCTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:19630950 original size:43 final size:42
Alignment explanation
Indices: 19630842--19630951 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
19630832 CCTAATTGGG
* * * * *
19630842 AAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAAG
1 AAAATAGTTCCCTAAATATAATAAACTACTAAAAGATAAAAA
* * *
19630884 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
1 AAAATAGTTCCCTAAATATAATAAACTACTAAAAGATAAAA-A
19630927 AAAATA-TT-CCTAAAATATGAATAAA
1 AAAATAGTTCCCT-AAATAT-AATAAA
19630952 ACTTATCTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 3 0.05
42 45 0.75
43 12 0.20
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.30
Consensus pattern (42 bp):
AAAATAGTTCCCTAAATATAATAAACTACTAAAAGATAAAAA
Found at i:19630976 original size:19 final size:18
Alignment explanation
Indices: 19630954--19630993 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
19630944 TGAATAAAAC
19630954 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
19630973 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
19630991 TTA
1 TTA
19630994 AAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:19634840 original size:42 final size:42
Alignment explanation
Indices: 19634781--19634869 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
19634771 ATCCTAATTG
*
19634781 GAAAATAGTTCTCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCTCTTATTCTAATAAACTACTAAAAGATAAAA
19634823 GAAAATAGTTCTCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCTCTTATTCTAATAAACTACTAAAAGATAAAA
*
19634865 TAAAA
1 GAAAA
19634870 ATATTCCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (42 bp):
GAAAATAGTTCTCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:19634890 original size:43 final size:42
Alignment explanation
Indices: 19634782--19634891 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
19634772 TCCTAATTGG
* * * * *
19634782 AAAATAGTTCTCTTATTCTAATAAACTACTAAAATATAAAAG
1 AAAATAGTTCTCTGAATATAATAAACTACTAAAAGATAAAAA
* * *
19634824 AAAATAGTTCTCTTATTCTAATAAACTACTAAAAGATAAAATA
1 AAAATAGTTCTCTGAATATAATAAACTACTAAAAGATAAAA-A
19634867 AAAATA-TTC-CTAGAATATGAATAAA
1 AAAATAGTTCTCT-GAATAT-AATAAA
19634892 ACTTATCTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 2 0.03
42 46 0.77
43 12 0.20
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (42 bp):
AAAATAGTTCTCTGAATATAATAAACTACTAAAAGATAAAAA
Found at i:19634916 original size:19 final size:18
Alignment explanation
Indices: 19634894--19634933 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
19634884 TGAATAAAAC
19634894 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
19634913 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
19634931 TTA
1 TTA
19634934 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:19640548 original size:19 final size:18
Alignment explanation
Indices: 19640524--19640567 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
19640514 AATATGAATA
*
19640524 AAATTTATTTACCTAAAT
1 AAATTTATCTACCTAAAT
19640542 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
19640561 AAATTTA
1 AAATTTA
19640568 AATTATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:19645162 original size:42 final size:42
Alignment explanation
Indices: 19645103--19645191 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
19645093 TCCTAATTGG
*
19645103 GAAAATAGTTTCCTTATTCTAATAAACTACTAAAACATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
19645145 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
19645187 TAAAA
1 GAAAA
19645192 ATATTCCTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:19645212 original size:43 final size:42
Alignment explanation
Indices: 19645104--19645213 Score: 98
Period size: 42 Copynumber: 2.6 Consensus size: 42
19645094 CCTAATTGGG
* * * * *
19645104 AAAATAGTTTCCTTATTCTAATAAACTACTAAAACATAAAAG
1 AAAATAGTTCCCTAAATATAATAAACTACTAAAACATAAAAA
* * * *
19645146 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
1 AAAATAGTTCCCTAAATATAATAAACTACTAAAACATAAAA-A
19645189 AAAATA-TT-CCTAAAATATGAATAAA
1 AAAATAGTTCCCT-AAATAT-AATAAA
19645214 ACTTATCTAC
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 3 0.05
42 44 0.75
43 12 0.20
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.30
Consensus pattern (42 bp):
AAAATAGTTCCCTAAATATAATAAACTACTAAAACATAAAAA
Found at i:19649710 original size:97 final size:97
Alignment explanation
Indices: 19649552--19649733 Score: 310
Period size: 97 Copynumber: 1.9 Consensus size: 97
19649542 TTTATTTTCC
* * *
19649552 CTATTCTTGTTTTGTTGCTATTGTTTACACCAGCTGTTCTATAATAACACAATAGAAAGATCAAT
1 CTATTCTTGTTTTGTTGCTATTATTTACACCAACTGTTCTATAATAAAACAATAGAAAGATCAAT
19649617 AGAATAACGAAGTAAAACTCCTCCTATTTTTA
66 AGAATAACGAAGTAAAACTCCTCCTATTTTTA
* *
19649649 CTATTCTTGTTTTGTTGTTATTATTTACACCAACTGTTCTATAATAAAACAATAGACAGATCAAT
1 CTATTCTTGTTTTGTTGCTATTATTTACACCAACTGTTCTATAATAAAACAATAGAAAGATCAAT
*
19649714 AGAATAATGAAGTAAAACTC
66 AGAATAACGAAGTAAAACTC
19649734 TTTGTGGTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 79 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (97 bp):
CTATTCTTGTTTTGTTGCTATTATTTACACCAACTGTTCTATAATAAAACAATAGAAAGATCAAT
AGAATAACGAAGTAAAACTCCTCCTATTTTTA
Found at i:19650663 original size:1 final size:1
Alignment explanation
Indices: 19650657--19650685 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
19650647 TGTTTGTTTG
19650657 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
19650686 GGTAGTGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:19653630 original size:140 final size:140
Alignment explanation
Indices: 19653378--19653660 Score: 512
Period size: 140 Copynumber: 2.0 Consensus size: 140
19653368 ATATTTTATT
*
19653378 TATTAGTTGGTTTTGGAATTGATGTTAACAATAAACATGAGAACAATCCTAAATAGATTTCTTTT
1 TATTAGTTGGTTTTGGAATTGATGTTAACAAAAAACATGAGAACAATCCTAAATAGATTTCTTTT
19653443 AGGGTTTGCTTAAATGGATTTTGTGAAGCATCCTACCTAAAAACAATTGGTAATAGGTGGTGAGT
66 AGGGTTTGCTTAAATGGATTTTGTGAAGCATCCTACCTAAAAACAATTGGTAATAGGTGGTGAGT
* *
19653508 CCGACTCTAA
131 CCAACACTAA
*
19653518 TATTAGTTGGTTTTGGAATTGATGTTAACAAAAAACATGAGAACAATCCTAAGTAGATTTCTTTT
1 TATTAGTTGGTTTTGGAATTGATGTTAACAAAAAACATGAGAACAATCCTAAATAGATTTCTTTT
**
19653583 AGGGTTTGCTTAAATGGATTTTGTGAAGCATCCTACCTAAAGCCAATTGGTAATAGGTGGTGAGT
66 AGGGTTTGCTTAAATGGATTTTGTGAAGCATCCTACCTAAAAACAATTGGTAATAGGTGGTGAGT
19653648 CCAACACTAA
131 CCAACACTAA
19653658 TAT
1 TAT
19653661 AAGGCCACAA
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (140 bp):
TATTAGTTGGTTTTGGAATTGATGTTAACAAAAAACATGAGAACAATCCTAAATAGATTTCTTTT
AGGGTTTGCTTAAATGGATTTTGTGAAGCATCCTACCTAAAAACAATTGGTAATAGGTGGTGAGT
CCAACACTAA
Found at i:19656487 original size:34 final size:34
Alignment explanation
Indices: 19656444--19656547 Score: 190
Period size: 34 Copynumber: 3.1 Consensus size: 34
19656434 GTAAAGGCAG
19656444 TCAGTCATAGTGCACCAGGTGCACATTTCTTTTC
1 TCAGTCATAGTGCACCAGGTGCACATTTCTTTTC
19656478 TCAGTCATAGTGCACCAGGTGCACATTTCTTTTC
1 TCAGTCATAGTGCACCAGGTGCACATTTCTTTTC
* *
19656512 TCAGTCATAGTGCACCAGTTGCACATTTCTTGTC
1 TCAGTCATAGTGCACCAGGTGCACATTTCTTTTC
19656546 TC
1 TC
19656548 TTGGCATTCA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 68 1.00
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (34 bp):
TCAGTCATAGTGCACCAGGTGCACATTTCTTTTC
Found at i:19658895 original size:185 final size:186
Alignment explanation
Indices: 19658581--19658943 Score: 485
Period size: 185 Copynumber: 2.0 Consensus size: 186
19658571 AGACTAATAT
* * *
19658581 TTTCTTCTTTAGTAGTGTTGATGATGCTTTAGTAGATTTGATCAATGGTCTTCTCAGATTTTAAA
1 TTTCTTCTTTAGTAGTGTTGATGATGCTTTAGAAGATTTGATCAATGGTCTTCTCAGATCTCAAA
* * ** *
19658646 GGGTGCAAAATCTTAGGACTTACCTAGGAGTGCCTCTTTTTCATGAAAAGGTCACTACCAACACT
66 GAGTGCAAAATCTTAGGACTTACCTAGGAGTGCCTCCTTTTCATGAAAAGACCACTAACAACACT
* * * *
19658711 TTGCAATTTGTAGTGGAAAAGGTTCGCAACAAGCTACAAAGTTGGGATGCCATTGA
131 TTGCAATTTGTAGTGGAAAAAGTCCACAACAAACTACAAAGTTGGGATGCCATTGA
* * **
19658767 TTTCTTCTTTAGTAGTGTTGAT-ATGCTTTAGAATATTTGATTAATGGTCTTCTTGGATCTCAAA
1 TTTCTTCTTTAGTAGTGTTGATGATGCTTTAGAAGATTTGATCAATGGTCTTCTCAGATCTCAAA
* * * ** *
19658831 GAGTGTAGAATCTTGGGACTTGTCTGGGAGTGCCTCCTTTTCATGAAAAGACCACTAACAACACT
66 GAGTGCAAAATCTTAGGACTTACCTAGGAGTGCCTCCTTTTCATGAAAAGACCACTAACAACACT
* * * *
19658896 TTGCAATTTTTGGTGGAAAAAGTCCACAATAAACTGCAAAGTTGGGAT
131 TTGCAATTTGTAGTGGAAAAAGTCCACAACAAACTACAAAGTTGGGAT
19658944 ACCAGGCAAT
Statistics
Matches: 151, Mismatches: 26, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
185 129 0.85
186 22 0.15
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (186 bp):
TTTCTTCTTTAGTAGTGTTGATGATGCTTTAGAAGATTTGATCAATGGTCTTCTCAGATCTCAAA
GAGTGCAAAATCTTAGGACTTACCTAGGAGTGCCTCCTTTTCATGAAAAGACCACTAACAACACT
TTGCAATTTGTAGTGGAAAAAGTCCACAACAAACTACAAAGTTGGGATGCCATTGA
Found at i:19660376 original size:39 final size:40
Alignment explanation
Indices: 19660306--19660421 Score: 112
Period size: 44 Copynumber: 2.8 Consensus size: 40
19660296 GATAGATGAG
* *
19660306 AGCCAGTGTAAGACCTGTCTGG-GATGCGACAT-AT-ATGCA
1 AGCCAGTGTAAGACCTGTCTGGACAT--GACATCATGAGGCA
*
19660345 AGCCAGTGTAAGACCTGTCTAGGACATGACATCGGCTTGAGGCA
1 AGCCAGTGTAAGACCTGTCT-GGACATGACAT---CATGAGGCA
*
19660389 TGCCAGTGTAAGACCTGTCTGAGACATGACATC
1 AGCCAGTGTAAGACCTGTCTG-GACATGACATC
19660422 GACATATATA
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
39 25 0.38
40 2 0.03
41 3 0.05
43 2 0.03
44 33 0.51
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (40 bp):
AGCCAGTGTAAGACCTGTCTGGACATGACATCATGAGGCA
Found at i:19660449 original size:49 final size:47
Alignment explanation
Indices: 19660345--19660499 Score: 165
Period size: 44 Copynumber: 3.3 Consensus size: 47
19660335 CATATATGCA
* **
19660345 AGCCAGTGTAAGACCTGTCT-AGGACATGACATCGGCTT-G-AGGCA-
1 AGCCAGTGTAAGACCTGTCTGA-GACATGACATCGACTTAGAAGTAAG
* *
19660389 TGCCAGTGTAAGACCTGTCTGAGACATGACATCGACATATATAAGTAAG
1 AGCCAGTGTAAGACCTGTCTGAGACATGACATCGAC-T-TAGAAGTAAG
* * * * *
19660438 AGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGATGTGAG
1 AGCCAGTGTAAGACCTGTCTGAGACATGACATCGACTTAGAAGTAAG
19660485 AGCCAGTGTAAGACC
1 AGCCAGTGTAAGACC
19660500 ATATTTGGAA
Statistics
Matches: 92, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
44 32 0.35
45 2 0.02
46 1 0.01
47 21 0.23
48 4 0.04
49 32 0.35
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACCTGTCTGAGACATGACATCGACTTAGAAGTAAG
Found at i:19663391 original size:14 final size:13
Alignment explanation
Indices: 19663371--19663407 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
19663361 AATACTTGAT
19663371 TTGTTCTTAATTA
1 TTGTTCTTAATTA
19663384 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
19663398 TTGTT-TTAAT
1 TTGTTCTTAAT
19663408 ATTCCAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:19669607 original size:19 final size:19
Alignment explanation
Indices: 19669579--19669622 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
19669569 ACAGATTGCA
*
19669579 ACACGACCTAAGCCACAC-C
1 ACACGGCCTAAGCCAC-CTC
19669598 ACACGGCCTAAGCCACCTC
1 ACACGGCCTAAGCCACCTC
19669617 ACACGG
1 ACACGG
19669623 GCGTGTCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.32, C:0.45, G:0.16, T:0.07
Consensus pattern (19 bp):
ACACGGCCTAAGCCACCTC
Found at i:19683344 original size:43 final size:43
Alignment explanation
Indices: 19683011--19683330 Score: 419
Period size: 43 Copynumber: 7.4 Consensus size: 43
19683001 CAATGCTAAC
* *
19683011 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACT
1 GTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAAT
* * * * *
19683054 GTCCCAGATAG-GGTCTTACTCGTAAACACATATCGATGCTAAC
1 GTCCCAGA-CGTGGTCTTACACGTAATCACATATCGATGCCAAT
*
19683097 GTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAAA
1 GTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAAT
** * *
19683140 GTCTTAGATGTGCTCTTACACGTAATCACATATCGATGCCAAT
1 GTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAAT
* * * *
19683183 GACCCAAACATGGTCTTACACGTAATCACATATTGATGCCAAT
1 GTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAAT
* * *
19683226 GTCACAGACGTGGTCTTACATGTAGTCACATATCGATGCC-AT
1 GTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAAT
*
19683268 CATCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAAT
1 -GTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAAT
*
19683312 GTCCTAGACGTGGTCTTAC
1 GTCCCAGACGTGGTCTTAC
19683331 TCACACACAC
Statistics
Matches: 235, Mismatches: 38, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
42 3 0.01
43 229 0.97
44 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
GTCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCAAT
Found at i:19683379 original size:56 final size:56
Alignment explanation
Indices: 19683292--19683423 Score: 183
Period size: 56 Copynumber: 2.4 Consensus size: 56
19683282 TCTTACACGT
* * * ***
19683292 AATCACATATCGATGCCAATGTCCTAGACGTGGTCTTACTCACACACACATATTGG
1 AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCACACACACATATCAA
* * *
19683348 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACGTATCAA
1 AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCACACACACATATCAA
19683404 AATCACATATCGATGCCAAC
1 AATCACATATCGATGCCAAC
19683424 TCAAAAATGT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.25
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCACACACACATATCAA
Found at i:19689815 original size:21 final size:21
Alignment explanation
Indices: 19689789--19689831 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
19689779 AGGACCCACA
19689789 TACTTAGCCTGAAAACTAGTC
1 TACTTAGCCTGAAAACTAGTC
19689810 TACTTAGCCTGAAAACTAGTC
1 TACTTAGCCTGAAAACTAGTC
19689831 T
1 T
19689832 TGAAAAACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (21 bp):
TACTTAGCCTGAAAACTAGTC
Found at i:19693253 original size:13 final size:13
Alignment explanation
Indices: 19693235--19693260 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19693225 CCAACACGCT
19693235 ACATACCACTAGA
1 ACATACCACTAGA
19693248 ACATACCACTAGA
1 ACATACCACTAGA
19693261 CTAGTAGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.31, G:0.08, T:0.15
Consensus pattern (13 bp):
ACATACCACTAGA
Found at i:19698943 original size:23 final size:23
Alignment explanation
Indices: 19698916--19698966 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
19698906 GTATATATAC
*
19698916 TAGCAGCTTTGCTGCGTTACTAT
1 TAGCAGCTTTGCTGCATTACTAT
* *
19698939 TAGCAGCTTTGTTGCATTATTAT
1 TAGCAGCTTTGCTGCATTACTAT
19698962 TAGCA
1 TAGCA
19698967 ACTACGTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (23 bp):
TAGCAGCTTTGCTGCATTACTAT
Found at i:19705762 original size:40 final size:40
Alignment explanation
Indices: 19705717--19705883 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
19705707 CGGAATATAA
19705717 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
19705757 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
19705797 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
19705837 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
19705876 CCGGATAT
1 CCGGATAT
19705884 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:19705867 original size:80 final size:79
Alignment explanation
Indices: 19705717--19705883 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
19705707 CGGAATATAA
* *
19705717 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
19705782 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
19705797 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
19705859 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
19705876 CCGGATAT
1 CCGGATAT
19705884 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:19706731 original size:17 final size:19
Alignment explanation
Indices: 19706708--19706753 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
19706698 AAGAAGCATG
19706708 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
19706726 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
19706744 AATCATGCTC
1 AATCATGCTC
19706754 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:19713768 original size:40 final size:40
Alignment explanation
Indices: 19713723--19713889 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
19713713 CGGAATATAA
19713723 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
19713763 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
19713803 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
19713843 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
19713882 CCGGATAT
1 CCGGATAT
19713890 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:19713873 original size:80 final size:79
Alignment explanation
Indices: 19713723--19713889 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
19713713 CGGAATATAA
* *
19713723 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
19713788 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
19713803 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
19713865 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
19713882 CCGGATAT
1 CCGGATAT
19713890 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:19714737 original size:17 final size:19
Alignment explanation
Indices: 19714714--19714759 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
19714704 AAGAAGCATG
19714714 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
19714732 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
19714750 AATCATGCTC
1 AATCATGCTC
19714760 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:19717843 original size:40 final size:40
Alignment explanation
Indices: 19717798--19717964 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
19717788 CGGAATATAA
19717798 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
19717838 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
19717878 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
19717918 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
19717957 CCGGATAT
1 CCGGATAT
19717965 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:19717948 original size:80 final size:79
Alignment explanation
Indices: 19717798--19717964 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
19717788 CGGAATATAA
* *
19717798 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
19717863 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
19717878 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
19717940 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
19717957 CCGGATAT
1 CCGGATAT
19717965 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:19718813 original size:17 final size:19
Alignment explanation
Indices: 19718790--19718835 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
19718780 AAGAAGCATG
19718790 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
19718808 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
19718826 AATCATGCTC
1 AATCATGCTC
19718836 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:19724040 original size:34 final size:34
Alignment explanation
Indices: 19723997--19724064 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
19723987 GAATGTCGTG
19723997 CATGGGACAACATCAAAGCAAAGATTTATAACGT
1 CATGGGACAACATCAAAGCAAAGATTTATAACGT
*
19724031 CATGGGACAACGTCAAAGCAAAGATTTATAACGT
1 CATGGGACAACATCAAAGCAAAGATTTATAACGT
19724065 TCTCATATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.21
Consensus pattern (34 bp):
CATGGGACAACATCAAAGCAAAGATTTATAACGT
Found at i:19734530 original size:8 final size:8
Alignment explanation
Indices: 19734514--19734547 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
19734504 TAAAAAAGAT
*
19734514 AAAAGTAA
1 AAAAATAA
*
19734522 AAACATAA
1 AAAAATAA
19734530 AAAAATAA
1 AAAAATAA
19734538 AAAAATAA
1 AAAAATAA
19734546 AA
1 AA
19734548 GTTTTTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:19736470 original size:29 final size:29
Alignment explanation
Indices: 19736438--19736498 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
19736428 CTTCGAGCTC
*
19736438 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
19736467 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
19736496 GCA
1 GCA
19736499 AACTTAGTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:19736503 original size:29 final size:29
Alignment explanation
Indices: 19736446--19736509 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
19736436 TCGCACACCC
* *
19736446 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCAAACTT
19736475 AGTGCCATATATTTCCAGCATGCAAACTT
1 AGTGCCATATATTTCCAGCATGCAAACTT
19736504 AGTGCC
1 AGTGCC
19736510 GATCTCGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCAAACTT
Found at i:19747121 original size:43 final size:42
Alignment explanation
Indices: 19746998--19747151 Score: 186
Period size: 42 Copynumber: 3.6 Consensus size: 42
19746988 TAAGTCTATG
**
19746998 TGTAAGACCATATCTGGGATATGGCATC-A-ACATGAGATTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATACA--AGATTTCA
**
19747040 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATACAAGATTTCA
* * * *
19747082 TATAAGACCATAGCTGGGCTATTGGCATCGATACAAGATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATACAAGATTTCA
*
19747125 TGTAAGACCATATCTGGGATACGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
19747152 TGGTATGGTA
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 57 0.60
43 37 0.39
44 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATACAAGATTTCA
Found at i:19748523 original size:13 final size:13
Alignment explanation
Indices: 19748507--19748542 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
19748497 GCATGAGACA
19748507 CGGCCGTGTGTCT
1 CGGCCGTGTGTCT
19748520 CGGCCGTGTGTCT
1 CGGCCGTGTGTCT
*
19748533 CAGCCGTGTG
1 CGGCCGTGTG
19748543 AAGGACATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.03, C:0.31, G:0.39, T:0.28
Consensus pattern (13 bp):
CGGCCGTGTGTCT
Found at i:19756730 original size:29 final size:28
Alignment explanation
Indices: 19756693--19756793 Score: 132
Period size: 29 Copynumber: 3.5 Consensus size: 28
19756683 GTGACGAGAT
*
19756693 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCAAGCTT-AAATATA
19756722 TGGCACTAAGTGTGCAAGCTTAAATTATA
1 TGGCACTAAGTGTGCAAGCTTAAA-TATA
* * *
19756751 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCAAGCTTAAAT-ATA
19756780 TGGCACTAA-TGTGC
1 TGGCACTAAGTGTGC
19756794 GTGATCGATT
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
28 9 0.14
29 56 0.86
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCAAGCTTAAATATA
Found at i:19764715 original size:19 final size:18
Alignment explanation
Indices: 19764677--19764716 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
19764667 CACTAAGTGT
*
19764677 GCAAGCTTGAAATGTATG
1 GCAAGCTTGAAATATATG
19764695 GCAAGCTTGAAATTATATG
1 GCAAGCTTGAAA-TATATG
19764714 GCA
1 GCA
19764717 CTATGTGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (18 bp):
GCAAGCTTGAAATATATG
Found at i:19773988 original size:30 final size:30
Alignment explanation
Indices: 19773952--19774026 Score: 78
Period size: 38 Copynumber: 2.2 Consensus size: 30
19773942 TGAATGTGCG
19773952 AATTGTGATATCCGGGCTAAGCCCGAAGGC
1 AATTGTGATATCCGGGCTAAGCCCGAAGGC
19773982 AATTGTGCGAATTTGATATCCGGGCTAAGCCCGAAGGC
1 AA-T-T--G----TGATATCCGGGCTAAGCCCGAAGGC
19774020 AATTGTG
1 AATTGTG
19774027 CGAGCTATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
30 4 0.11
31 1 0.03
32 1 0.03
34 2 0.05
36 1 0.03
37 1 0.03
38 27 0.73
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (30 bp):
AATTGTGATATCCGGGCTAAGCCCGAAGGC
Found at i:19774004 original size:38 final size:39
Alignment explanation
Indices: 19773946--19774107 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
19773936 TGTGAATGAA
19773946 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
19773985 TGTGCGAATT-TGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
19774023 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
19774062 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
19774102 TGTGCG
1 TGTGCG
19774108 GGTTACCATA
Statistics
Matches: 115, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
38 36 0.31
39 62 0.54
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:19774123 original size:40 final size:39
Alignment explanation
Indices: 19773946--19774137 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
19773936 TGTGAATGAA
* *
19773946 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
19773985 TGTGCGAATT-TGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
19774023 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
19774062 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
19774102 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
19774138 TGTTTGAACG
Statistics
Matches: 138, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 36 0.26
39 62 0.45
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:19780265 original size:39 final size:39
Alignment explanation
Indices: 19780173--19780334 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
19780163 TGTGAATGAA
*
19780173 TGTGCGAATTGTGATATCCGGGCTAAGCCC-AAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
19780211 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
19780250 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
19780289 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
19780329 TGTGCG
1 TGTGCG
19780335 GGTTACCATA
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
38 30 0.26
39 68 0.59
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:19790360 original size:18 final size:18
Alignment explanation
Indices: 19790328--19790370 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
19790318 CATTCCCAAG
*
19790328 CCACAC-GGAGTGTGTGA
1 CCACACGGGAGTGTGTCA
*
19790345 CCACACGGGCGTGTGTCA
1 CCACACGGGAGTGTGTCA
19790363 CCACACGG
1 CCACACGG
19790371 CCTACCTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.21, C:0.33, G:0.33, T:0.14
Consensus pattern (18 bp):
CCACACGGGAGTGTGTCA
Found at i:19794576 original size:23 final size:23
Alignment explanation
Indices: 19794550--19794600 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
19794540 TATCACATAA
19794550 TAAA-CACATAATTCAAACCAACT
1 TAAATCAC-TAATTCAAACCAACT
**
19794573 TAAATGGCTAATTCAAACCAACT
1 TAAATCACTAATTCAAACCAACT
19794596 TAAAT
1 TAAAT
19794601 GGCCAAATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.25
Consensus pattern (23 bp):
TAAATCACTAATTCAAACCAACT
Found at i:19794601 original size:23 final size:23
Alignment explanation
Indices: 19794558--19794603 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
19794548 AATAAACACA
19794558 TAATTCAAACCAACTTAAATGGC
1 TAATTCAAACCAACTTAAATGGC
19794581 TAATTCAAACCAACTTAAATGGC
1 TAATTCAAACCAACTTAAATGGC
19794604 CAAATACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (23 bp):
TAATTCAAACCAACTTAAATGGC
Found at i:19798528 original size:40 final size:40
Alignment explanation
Indices: 19798476--19798660 Score: 255
Period size: 40 Copynumber: 4.7 Consensus size: 40
19798466 GCCACTAGCT
* * ** *
19798476 CAAATGCCTTCGGGACTTAGCCCAGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
19798516 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* *
19798555 TAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* * *
19798595 CGAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* *
19798635 CGAATGCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19798661 ATTAGCCACT
Statistics
Matches: 134, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 35 0.26
40 99 0.74
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
Found at i:19798574 original size:79 final size:80
Alignment explanation
Indices: 19798476--19798657 Score: 249
Period size: 79 Copynumber: 2.3 Consensus size: 80
19798466 GCCACTAGCT
* ** *
19798476 CAAATGCCTTCGGGACTTAGCCCAGTTATGGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
19798541 -TATAATAACTCGCA
66 ATATAATAACTCGCA
* * * *
19798555 TAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACGAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
19798620 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
* *
19798635 CGAATGCCTTCGAGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
19798658 GGAATTAGCC
Statistics
Matches: 89, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 57 0.64
80 32 0.36
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:19798681 original size:40 final size:39
Alignment explanation
Indices: 19798476--19798699 Score: 195
Period size: 40 Copynumber: 5.6 Consensus size: 39
19798466 GCCACTAGCT
* *
19798476 CAAATGCCTTCGGGACTTAGCCC--AGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTA--G-AACTCGCA
* * *
19798516 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGAACTCGCA
* * * *
19798555 TAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGAACTCGCA
* *
19798595 CGAATGCCTTCGGGACTTAGCCCGG-ATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAG-AACTCGCA
* * * * *
19798635 CGAATGCCTTCGAGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAG-AACTCGCA
*
19798675 CAAATG-CTCTCAGGACTTAGCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
19798700 TTATCATCCA
Statistics
Matches: 156, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.01
39 34 0.22
40 116 0.74
41 2 0.01
42 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGAACTCGCA
Found at i:19798681 original size:80 final size:78
Alignment explanation
Indices: 19798476--19798700 Score: 231
Period size: 79 Copynumber: 2.8 Consensus size: 78
19798466 GCCACTAGCT
* * * * * *
19798476 CAAATGCCTTCGGGACTTAGCCCAGTTATGGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGAGACTTAGCCCGGATAT-ATAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
19798541 TATAATAACTCGCA
65 TATAATAACTCGCA
* * * *
19798555 TAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACGAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGAGACTTAGCCCGGATAT-ATAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
* *
19798620 ATATAGTAGCTCGCA
65 -TATAATAACTCGCA
* * *
19798635 CGAATGCCTTCGAGACTTAGCCCGGA-AT-TAGCCACTAGCTCAAATG-CTCTCAGGACTTAGCC
1 CAAATGCCTTCGAGACTTAGCCCGGATATATAG---CTAGCACAAATGCCT-TCGGGACTTAGCC
19798697 CGGT
62 CGGT
19798701 TATCATCCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
77 3 0.02
79 62 0.50
80 59 0.48
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGAGACTTAGCCCGGATATATAGCTAGCACAAATGCCTTCGGGACTTAGCCCGGT
ATAATAACTCGCA
Found at i:19809652 original size:40 final size:40
Alignment explanation
Indices: 19809608--19809818 Score: 314
Period size: 40 Copynumber: 5.2 Consensus size: 40
19809598 ATGCTAGTGA
*
19809608 TTATATCTGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
19809648 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
19809688 TTAATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 TT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
19809729 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * * ** *
19809769 CTATACCCGGGTTAAGACCTGAAGGCAATGGTGCTTGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
19809809 TTATATCCGG
1 TTATATCCGG
19809819 TTAAATTCCG
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 117 0.75
41 39 0.25
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:19809723 original size:81 final size:80
Alignment explanation
Indices: 19809609--19809818 Score: 312
Period size: 81 Copynumber: 2.6 Consensus size: 80
19809599 TGCTAGTGAT
*
19809609 TATATCTGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGC
*
19809674 ATTCGTGCGAGTTGT
66 ATTCGTGCGAGTTGC
*
19809689 TAATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGG
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGG
19809754 CATTCGTGCGAGTTGC
65 CATTCGTGCGAGTTGC
* * * * * ** *
19809770 TATACCCGGGTTAAGACCTGAAGGCAATGGTGCTTGTGGTTATATCCGG
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGG
19809819 TTAAATTCCG
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 41 0.35
81 77 0.65
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (80 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGC
ATTCGTGCGAGTTGC
Found at i:19817791 original size:40 final size:40
Alignment explanation
Indices: 19817747--19817957 Score: 314
Period size: 40 Copynumber: 5.2 Consensus size: 40
19817737 ATGCTAGTGA
19817747 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
19817787 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
**
19817827 TTAATATCCGGGCTAAGACCCGAAGGCATTTTTGCGAGTTG
1 TT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
19817868 TTATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * ** *
19817908 CTATACCCGGGTTAAGACCCGAAGGCAATGGTGCTTGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
19817948 TTATATCCGG
1 TTATATCCGG
19817958 TTAAATTTCG
Statistics
Matches: 155, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 117 0.75
41 38 0.25
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:19817863 original size:81 final size:80
Alignment explanation
Indices: 19817748--19817957 Score: 312
Period size: 81 Copynumber: 2.6 Consensus size: 80
19817738 TGCTAGTGAT
19817748 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGC
* *
19817813 ATTCGTGCGAGTTGT
66 ATTCATGCGAGTTGC
**
19817828 TAATATCCGGGCTAAGACCCGAAGGCATTTTTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGG
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGG
19817893 CATTCATGCGAGTTGC
65 CATTCATGCGAGTTGC
* * * * ** *
19817909 TATACCCGGGTTAAGACCCGAAGGCAATGGTGCTTGTGGTTATATCCGG
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGG
19817958 TTAAATTTCG
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 41 0.35
81 76 0.65
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGC
ATTCATGCGAGTTGC
Found at i:19825915 original size:48 final size:48
Alignment explanation
Indices: 19825863--19826144 Score: 246
Period size: 48 Copynumber: 5.9 Consensus size: 48
19825853 ATGTGAGTAT
* *
19825863 TGAGATCCCGTATAAGACCATACCTGGGATATGGCATTGGCATCGAGA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGAGA
** * * * *
19825911 TGAGATTTCGTGTAAGACCATATCTGGGATATGGTATTGGCAT-TAGTA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGAG-A
** * * * * *
19825959 TGAGATCCTATGTAAGACCATATCTAGGATATAGCATCGACATCGATA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGAGA
* ** * * *
19826007 AGAGATCCCGTATAAGACCACGTTTGGGACATGGAATCGGCATC-AGTA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGAG-A
* * * * * *
19826055 TGATATCCCATATAATACCATATCTGGGATATGGCATTGGCATCAATA
1 TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGAGA
* * *
19826103 TGAGGTCCCGTATAAGACCAT-GCTTGGGACATGGCATCGGCA
1 TGAGATCCCGTATAAGACCATATC-TGGGATATGGCATCGGCA
19826145 CCGTTATGAG
Statistics
Matches: 181, Mismatches: 48, Indels: 10
0.76 0.20 0.04
Matches are distributed among these distances:
47 4 0.02
48 175 0.97
49 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (48 bp):
TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGAGA
Found at i:19826153 original size:96 final size:96
Alignment explanation
Indices: 19825858--19826144 Score: 324
Period size: 96 Copynumber: 3.0 Consensus size: 96
19825848 ATGACATGTG
* * * ** *
19825858 AGTATTGAGATCCCGTATAAGACCATACCTGGGATATGGCATTGGCATCGAGATGAGATTTCGTG
1 AGTA-TGAGATCCCATATAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATCCCGTA
* * * *
19825923 TAAGACCAT-ATCTGGGATATGGTATTGGCATT
65 TAAGACCATGAT-TGGGACATGGAATCGGCATC
* * * * * * *
19825955 AGTATGAGATCCTATGTAAGACCATATCTAGGATATAGCATCGACATCGATAAGAGATCCCGTAT
1 AGTATGAGATCCCATATAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATCCCGTAT
* *
19826020 AAGACCACGTTTGGGACATGGAATCGGCATC
66 AAGACCATGATTGGGACATGGAATCGGCATC
* * * *
19826051 AGTATGATATCCCATATAATACCATATCTGGGATATGGCATTGGCATCAATATGAGGTCCCGTAT
1 AGTATGAGATCCCATATAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATCCCGTAT
* *
19826116 AAGACCATGCTTGGGACATGGCATCGGCA
66 AAGACCATGATTGGGACATGGAATCGGCA
19826145 CCGTTATGAG
Statistics
Matches: 156, Mismatches: 33, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
96 151 0.97
97 5 0.03
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (96 bp):
AGTATGAGATCCCATATAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATCCCGTAT
AAGACCATGATTGGGACATGGAATCGGCATC
Found at i:19827574 original size:29 final size:29
Alignment explanation
Indices: 19827473--19827566 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
19827463 GTGACGAGAT
19827473 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
19827502 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
19827531 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
19827560 CGGCACT
1 TGGCACT
19827567 GGGTGTGCGA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:19827591 original size:58 final size:58
Alignment explanation
Indices: 19827469--19827603 Score: 175
Period size: 58 Copynumber: 2.3 Consensus size: 58
19827459 TACGGTGACG
* *
19827469 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAA
* **
19827526 ATATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
19827584 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
19827604 GGGCTTAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 3 0.04
58 63 0.94
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.26
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAA
Found at i:19827672 original size:2 final size:2
Alignment explanation
Indices: 19827667--19827695 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19827657 GTGCGTACTC
19827667 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19827696 CTCCGATCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19835419 original size:29 final size:29
Alignment explanation
Indices: 19835318--19835411 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
19835308 GTGACGAGAT
19835318 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
19835347 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
19835376 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
19835405 CGGCACT
1 TGGCACT
19835412 GGGTGTGCGA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:19835436 original size:58 final size:58
Alignment explanation
Indices: 19835314--19835448 Score: 175
Period size: 58 Copynumber: 2.3 Consensus size: 58
19835304 TACGGTGACG
* *
19835314 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAA
* **
19835371 ATATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
19835429 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
19835449 GGGCTTAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 3 0.04
58 63 0.94
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.26
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAA
Found at i:19844851 original size:26 final size:27
Alignment explanation
Indices: 19844810--19844867 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
19844800 AACTTAGCCA
* * *
19844810 TTTTTTATTTATATTTTAATATTTTTG
1 TTTTTAATTTATATTTTAACATTTTAG
*
19844837 TTTTTAATTTA-ATTTTTACATTTTAG
1 TTTTTAATTTATATTTTAACATTTTAG
19844863 TTTTT
1 TTTTT
19844868 CTTTTATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (27 bp):
TTTTTAATTTATATTTTAACATTTTAG
Found at i:19847759 original size:27 final size:26
Alignment explanation
Indices: 19847666--19847767 Score: 96
Period size: 26 Copynumber: 3.8 Consensus size: 26
19847656 CAGAAGCAGT
* * * *
19847666 TTGGGCCTGAGTCCATTACAGTAATAG
1 TTGGGCCT-AGCCCATAATAGTAACAG
* * **
19847693 TTGGGCCTAGCCCAAAACAGTGTCAG
1 TTGGGCCTAGCCCATAATAGTAACAG
* *
19847719 ATGGGCCTAGCCCATATTAGTAACAG
1 TTGGGCCTAGCCCATAATAGTAACAG
19847745 TTGGGCCTTAGCCCATAATAGTA
1 TTGGGCC-TAGCCCATAATAGTA
19847768 TCAACATCAG
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 38 0.63
27 22 0.37
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (26 bp):
TTGGGCCTAGCCCATAATAGTAACAG
Found at i:19848014 original size:20 final size:22
Alignment explanation
Indices: 19847989--19848038 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
19847979 TTCCAGAAAT
*
19847989 AGTAAC-GCAA-CAGGGCTGCC
1 AGTAACAGCAAGCAAGGCTGCC
*
19848009 AGTAACAGTAAGCAAGGCTGCC
1 AGTAACAGCAAGCAAGGCTGCC
19848031 AGTAACAG
1 AGTAACAG
19848039 AATGGCTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 6 0.23
21 3 0.12
22 17 0.65
ACGTcount: A:0.36, C:0.24, G:0.28, T:0.12
Consensus pattern (22 bp):
AGTAACAGCAAGCAAGGCTGCC
Found at i:19848647 original size:27 final size:27
Alignment explanation
Indices: 19848614--19848675 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
19848604 CAAAACAGTC
* * *
19848614 ATTTTACCCTATAAGTGTATTTTGGTA
1 ATTTTACACTACAAGAGTATTTTGGTA
19848641 ATTTTACACTACAAGAGTATTTTGGTA
1 ATTTTACACTACAAGAGTATTTTGGTA
19848668 ATTTTACA
1 ATTTTACA
19848676 AACTGAGGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (27 bp):
ATTTTACACTACAAGAGTATTTTGGTA
Found at i:19849819 original size:19 final size:19
Alignment explanation
Indices: 19849782--19849818 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
19849772 AATAGTTGTT
*
19849782 TGACAAAAACCGAAGAAAA
1 TGACAAAAACAGAAGAAAA
19849801 TGACAAAAA-AGAAGAAAA
1 TGACAAAAACAGAAGAAAA
19849819 AAAAGGTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.68, C:0.11, G:0.16, T:0.05
Consensus pattern (19 bp):
TGACAAAAACAGAAGAAAA
Found at i:19851245 original size:9 final size:9
Alignment explanation
Indices: 19851231--19851256 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
19851221 CTTAAAAAAC
19851231 TAATAAATT
1 TAATAAATT
19851240 TAATAAATT
1 TAATAAATT
19851249 TAATAAAT
1 TAATAAAT
19851257 AAAAAAGGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAATAAATT
Found at i:19852184 original size:9 final size:9
Alignment explanation
Indices: 19852151--19852239 Score: 51
Period size: 9 Copynumber: 10.0 Consensus size: 9
19852141 CTCCCTTTCC
*
19852151 TTATTATTA
1 TTATTTTTA
19852160 TTA-TTTT-
1 TTATTTTTA
*
19852167 TTATATTTA
1 TTATTTTTA
19852176 TTATTTTTA
1 TTATTTTTA
*
19852185 GTT-GTTTTA
1 -TTATTTTTA
*
19852194 TTATTATTA
1 TTATTTTTA
**
19852203 TTAGATTTA
1 TTATTTTTA
*
19852212 TGT-TATTATA
1 T-TAT-TTTTA
19852222 TTATTTTTA
1 TTATTTTTA
*
19852231 TTAGTTTTA
1 TTATTTTTA
19852240 GTGATATTAT
Statistics
Matches: 59, Mismatches: 14, Indels: 14
0.68 0.16 0.16
Matches are distributed among these distances:
7 3 0.05
8 8 0.14
9 40 0.68
10 8 0.14
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (9 bp):
TTATTTTTA
Found at i:19852224 original size:28 final size:29
Alignment explanation
Indices: 19852192--19852249 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
19852182 TTAGTTGTTT
*
19852192 TATTATTATTATTAGATTTA-TGTTATTA
1 TATTATTATTATTAGATTTAGTGATATTA
* *
19852220 TATTATTTTTATTAGTTTTAGTGATATTA
1 TATTATTATTATTAGATTTAGTGATATTA
19852249 T
1 T
19852250 TATTCATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (29 bp):
TATTATTATTATTAGATTTAGTGATATTA
Found at i:19854488 original size:16 final size:16
Alignment explanation
Indices: 19854463--19854493 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19854453 ACCCAAGGGT
19854463 GAAGGCAGAAAATCGC
1 GAAGGCAGAAAATCGC
*
19854479 GAAGGTAGAAAATCG
1 GAAGGCAGAAAATCG
19854494 GTTTAGAAGG
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:0.45, C:0.13, G:0.32, T:0.10
Consensus pattern (16 bp):
GAAGGCAGAAAATCGC
Found at i:19859449 original size:18 final size:20
Alignment explanation
Indices: 19859390--19859450 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 20
19859380 AGGCAAAAAT
19859390 AAAT-AAGATAAAAAGATAACA
1 AAATAAAGA-AAAAA-ATAACA
*
19859411 AACTAAAGAAAAACAACTAACA
1 AAATAAAGAAAAA-AA-TAACA
19859433 AAAT-AA-AAAAAAATAACA
1 AAATAAAGAAAAAAATAACA
19859451 GGGCATAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 5 0.14
19 2 0.06
20 5 0.14
21 10 0.29
22 13 0.37
ACGTcount: A:0.74, C:0.10, G:0.05, T:0.11
Consensus pattern (20 bp):
AAATAAAGAAAAAAATAACA
Found at i:19860795 original size:21 final size:21
Alignment explanation
Indices: 19860769--19860810 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19860759 TTAACGGGAC
19860769 AGCTGACGTGGCCAGTTAACT
1 AGCTGACGTGGCCAGTTAACT
* *
19860790 AGCTGATGTGGCTAGTTAACT
1 AGCTGACGTGGCCAGTTAACT
19860811 TGCCATGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (21 bp):
AGCTGACGTGGCCAGTTAACT
Found at i:19863012 original size:2 final size:2
Alignment explanation
Indices: 19863005--19863031 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19862995 TTAAATACTT
19863005 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
19863032 TTAAATATTA
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:19863076 original size:17 final size:17
Alignment explanation
Indices: 19863056--19863089 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
19863046 TACATTACTA
19863056 TTATTATCCAT-TATTTT
1 TTATTAT-CATATATTTT
19863073 TTATTATCATATATTTT
1 TTATTATCATATATTTT
19863090 ATCTACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATCATATATTTT
Found at i:19863123 original size:9 final size:9
Alignment explanation
Indices: 19863099--19863139 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
19863089 TATCTACAAA
*
19863099 TTATATTATA
1 TTATA-TATT
19863109 TTATATATT
1 TTATATATT
19863118 TTATATA-T
1 TTATATATT
19863126 TTATATATT
1 TTATATATT
19863135 TTATA
1 TTATA
19863140 AAATTGTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 8 0.28
9 16 0.55
10 5 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTATATATT
Found at i:19863131 original size:17 final size:19
Alignment explanation
Indices: 19863099--19863139 Score: 68
Period size: 17 Copynumber: 2.3 Consensus size: 19
19863089 TATCTACAAA
19863099 TTATATTATATTATATATT
1 TTATATTATATTATATATT
19863118 TTATA-TAT-TTATATATT
1 TTATATTATATTATATATT
19863135 TTATA
1 TTATA
19863140 AAATTGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 14 0.64
18 3 0.14
19 5 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATATTATATTATATATT
Found at i:19863497 original size:18 final size:18
Alignment explanation
Indices: 19863471--19863511 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
19863461 TACCATATTA
*
19863471 TATTTCATACTATATTTT
1 TATTACATACTATATTTT
19863489 TATTACATACTATATTTT
1 TATTACATACTATATTTT
19863507 TATTA
1 TATTA
19863512 TTCAATATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTACATACTATATTTT
Found at i:19863585 original size:22 final size:21
Alignment explanation
Indices: 19863548--19863596 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
19863538 TTCTCATATA
* *
19863548 TATTTTTTATTATATATTATT
1 TATTTTTTATTATATACTAAT
*
19863569 TATTTTGTTATTTTATACTAAT
1 TATTTT-TTATTATATACTAAT
19863591 TATTTT
1 TATTTT
19863597 ACCATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (21 bp):
TATTTTTTATTATATACTAAT
Found at i:19867459 original size:39 final size:39
Alignment explanation
Indices: 19867326--19867491 Score: 147
Period size: 39 Copynumber: 4.2 Consensus size: 39
19867316 AATATGCATG
19867326 ATAT-CTAGAATTATATCCGGACTTAAGGTCCGCAGGCT
1 ATATGCTAGAATTATATCCGGACTTAAGGTCCGCAGGCT
* * * ** * *
19867364 ATGTGCTGGAATTATAACCGGGTTTAA-ATACCCGCAGGCC
1 ATATGCTAGAATTATATCCGGACTTAAGGT--CCGCAGGCT
* *
19867404 ATATGCTGGAATTATATCCGGACTTAAGGTCCACAGGCT
1 ATATGCTAGAATTATATCCGGACTTAAGGTCCGCAGGCT
* * ** * *
19867443 ATATGCTAGAAATATATTCGGGTTTAAAGTCCCGAAGGCT
1 ATATGCTAGAATTATATCCGGACTTAAGGT-CCGCAGGCT
*
19867483 TTATGCTAG
1 ATATGCTAG
19867492 TGACTGAACT
Statistics
Matches: 100, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
38 4 0.04
39 49 0.49
40 46 0.46
41 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (39 bp):
ATATGCTAGAATTATATCCGGACTTAAGGTCCGCAGGCT
Found at i:19867489 original size:79 final size:79
Alignment explanation
Indices: 19867333--19867481 Score: 219
Period size: 79 Copynumber: 1.9 Consensus size: 79
19867323 ATGATATCTA
* * * *
19867333 GAATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCGGGTTTAAATACCCG
1 GAATTATATCCGGACTTAAGGTCCACAGGCTATATGCTAGAAATATAACCGGGTTTAAATACCCG
*
19867398 CAGGCCATATGCTG
66 AAGGCCATATGCTG
**
19867412 GAATTATATCCGGACTTAAGGTCCACAGGCTATATGCTAGAAATATATTCGGGTTTAAAGT-CCC
1 GAATTATATCCGGACTTAAGGTCCACAGGCTATATGCTAGAAATATAACCGGGTTTAAA-TACCC
19867476 GAAGGC
65 GAAGGC
19867482 TTTATGCTAG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 61 0.98
80 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (79 bp):
GAATTATATCCGGACTTAAGGTCCACAGGCTATATGCTAGAAATATAACCGGGTTTAAATACCCG
AAGGCCATATGCTG
Found at i:19870706 original size:29 final size:28
Alignment explanation
Indices: 19870672--19870774 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
19870662 TAATCGATCA
*
19870672 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
19870701 CGCACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
19870730 CGCACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
19870759 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
19870775 ATCTCGTCCC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 61 0.91
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:19872530 original size:29 final size:29
Alignment explanation
Indices: 19872497--19872570 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
19872487 GTGACGAGAT
19872497 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
19872526 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
19872555 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
19872571 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:19872586 original size:29 final size:29
Alignment explanation
Indices: 19872554--19872629 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
19872544 CTGGAAATAT
* *
19872554 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
19872583 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
19872612 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
19872630 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:19872597 original size:58 final size:58
Alignment explanation
Indices: 19872497--19872629 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
19872487 GTGACGAGAT
* * * * * *
19872497 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
19872555 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
19872613 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
19872630 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:19880402 original size:29 final size:29
Alignment explanation
Indices: 19880369--19880442 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
19880359 GTGACGAGAT
19880369 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
19880398 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
19880427 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
19880443 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:19880458 original size:29 final size:29
Alignment explanation
Indices: 19880426--19880501 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
19880416 CTGGAAATAT
* *
19880426 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
19880455 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
19880484 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
19880502 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:19880469 original size:58 final size:58
Alignment explanation
Indices: 19880369--19880501 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
19880359 GTGACGAGAT
* * * * * *
19880369 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
19880427 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
19880485 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
19880502 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:19885038 original size:15 final size:15
Alignment explanation
Indices: 19885018--19885047 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19885008 AATGAGATTG
19885018 AATCAAGATCGATGC
1 AATCAAGATCGATGC
19885033 AATCAAGATCGATGC
1 AATCAAGATCGATGC
19885048 CTTTTTGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (15 bp):
AATCAAGATCGATGC
Found at i:19893516 original size:206 final size:206
Alignment explanation
Indices: 19893150--19893705 Score: 844
Period size: 206 Copynumber: 2.7 Consensus size: 206
19893140 GCAGATCTGG
* *
19893150 CTGAAGCAAGATCCAAGATGATTTGGCACCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* *
19893215 GATTTGGATTTCACGTGCTTATGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGATTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * * * *
19893280 AGAGCAGATCGAAGTTTGGCGTATCCATATTTGATGGAGGGCAGACACATAGTAGATCTAACCTT
130 AGAACAAATCGAAGTTTGGCGTATCCATATTCGACGGAGGGCAAACACATAGCAGATCTAACCTT
19893345 CAGATAATTAGA
195 CAGATAATTAGA
* * *
19893357 CTGAAGCAGAACCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATTGAA-ATCATAGAT
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGA-CATAGCT
* * * * *
19893421 GATTTAGCTTTCACGTGCTTACGCTGAAGTAAGTCTAAGATGATTTAGCATCTCTGTATTGTCAG
65 GATTTGGATTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
*
19893486 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAAACACATAGCAGATCTAACCTT
130 AGAACAAATCGAAGTTTGGCGTATCCATATTCGACGGAGGGCAAACACATAGCAGATCTAACCTT
*
19893551 CAGATGATTAGA
195 CAGATAATTAGA
* * * * *
19893563 TTGAAGTAGATCCAAGATGGTTTGGTATCCTTGTGTTGACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
* *
19893628 ATTTGGTTTTCACATGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGATTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
19893693 GAACAAATCGAAG
131 GAACAAATCGAAG
19893706 AAGCAGATTT
Statistics
Matches: 313, Mismatches: 34, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
205 1 0.00
206 304 0.97
207 8 0.03
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGATTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCGTATCCATATTCGACGGAGGGCAAACACATAGCAGATCTAACCTTC
AGATAATTAGA
Found at i:19895340 original size:17 final size:17
Alignment explanation
Indices: 19895320--19895353 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
19895310 TATATTACTA
19895320 TTATTATC-TATTATTTT
1 TTATTATCATA-TATTTT
19895337 TTATTATCATATATTTT
1 TTATTATCATATATTTT
19895354 ATCTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTATCATATATTTT
Found at i:19895377 original size:28 final size:30
Alignment explanation
Indices: 19895310--19895378 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 30
19895300 ATATTAGTTA
** *
19895310 TATATTACTATTATTATCTATTATTTTTTAT
1 TATATTA-TATTATTATCTATTAAATTATAT
19895341 TATCA-TATATT-TTATCTA-TAAATTATAT
1 TAT-ATTATATTATTATCTATTAAATTATAT
19895369 TATATTATAT
1 TATATTATAT
19895379 ATTTTATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 1 0.03
28 15 0.45
29 7 0.21
30 4 0.12
31 5 0.15
32 1 0.03
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (30 bp):
TATATTATATTATTATCTATTAAATTATAT
Found at i:19895390 original size:14 final size:14
Alignment explanation
Indices: 19895335--19895409 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 14
19895325 ATCTATTATT
*
19895335 TTTTATTATCATATA
1 TTTTATT-TTATATA
* *
19895350 TTTTATCTATAAATTA
1 TTTTAT-TTTATA-TA
* *
19895366 TATTATATTATATA
1 TTTTATTTTATATA
19895380 TTTTATTTTATATA
1 TTTTATTTTATATA
*
19895394 -TTT-CTTTATATA
1 TTTTATTTTATATA
19895406 TTTT
1 TTTT
19895410 TTATAAAATT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
12 8 0.17
13 6 0.13
14 14 0.30
15 11 0.23
16 8 0.17
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTATTTTATATA
Found at i:19895401 original size:12 final size:11
Alignment explanation
Indices: 19895385--19895414 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
19895375 ATATATTTTA
19895385 TTTTATATATT
1 TTTTATATATT
19895396 TCTTTATATATT
1 T-TTTATATATT
19895408 TTTTATA
1 TTTTATA
19895415 AAATTGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTATATATT
Found at i:19895432 original size:20 final size:21
Alignment explanation
Indices: 19895404--19895443 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19895394 TTTCTTTATA
*
19895404 TATTTTTTA-TAAAATTGTAT
1 TATTATTTACTAAAATTGTAT
*
19895424 TATTATTTACTAAATTTGTA
1 TATTATTTACTAAAATTGTA
19895444 AATGGCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (21 bp):
TATTATTTACTAAAATTGTAT
Found at i:19895835 original size:19 final size:19
Alignment explanation
Indices: 19895813--19895850 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
19895803 TATCTTTCTC
19895813 ATATA-TATTT-TTTTATT
1 ATATATTATTTATTTTATT
19895830 ATATATTATTTATTTTATT
1 ATATATTATTTATTTTATT
19895849 AT
1 AT
19895851 TTTATACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATATATTATTTATTTTATT
Found at i:19895843 original size:22 final size:22
Alignment explanation
Indices: 19895818--19895868 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
19895808 TTCTCATATA
* * *
19895818 TATTTTTTTATTATATATTATT
1 TATTTTATTATTATATACTAAT
*
19895840 TATTTTATTATTTTATACTAAT
1 TATTTTATTATTATATACTAAT
19895862 TATTTTA
1 TATTTTA
19895869 CCATATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTTATTATTATATACTAAT
Found at i:19895919 original size:21 final size:22
Alignment explanation
Indices: 19895893--19895953 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
19895883 GCAAAATACT
19895893 TATTATATTT-TTATTATTTTA
1 TATTATATTTCTTATTATTTTA
19895914 TATTATATTTCCTTA-TATTTTA
1 TATTATATTT-CTTATTATTTTA
* *
19895936 T-TCATATTATATTATTAT
1 TATTATATT-TCTTATTAT
19895954 ACATAACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 19 0.56
22 12 0.35
23 3 0.09
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTATATTTCTTATTATTTTA
Found at i:19898003 original size:14 final size:14
Alignment explanation
Indices: 19897947--19898010 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
19897937 AACCATTTTC
*
19897947 TCTTTTTCTCCTCT
1 TCTTTTTCTCTTCT
19897961 TCTTCTTT-TCTTCT
1 TCTT-TTTCTCTTCT
* *
19897975 TC--TTCCCCGTTCT
1 TCTTTTTCTC-TTCT
19897988 TCTTTTTCTCTTCT
1 TCTTTTTCTCTTCT
19898002 TCTTTTTCT
1 TCTTTTTCT
19898011 ACTGCCCAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.05
12 1 0.03
13 6 0.15
14 24 0.60
15 7 0.17
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.66
Consensus pattern (14 bp):
TCTTTTTCTCTTCT
Found at i:19905913 original size:20 final size:20
Alignment explanation
Indices: 19905888--19905943 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
19905878 AAAAAATTAT
19905888 TTTATTTTAATTAAATAATA
1 TTTATTTTAATTAAATAATA
* *
19905908 TTTATTTCTATTTTAAATATTA
1 TTTATTT-TA-ATTAAATAATA
19905930 TATTATGTTTAATT
1 T-TTAT-TTTAATT
19905944 TTTGAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 12 0.41
23 6 0.21
24 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTATTTTAATTAAATAATA
Found at i:19912183 original size:26 final size:26
Alignment explanation
Indices: 19912160--19912226 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
19912150 CTATTAAAAA
19912160 TTATTAGTTAAATAATTTTATAAAATAT
1 TTATTA-TT-AATAATTTTATAAAATAT
* * *
19912188 TTATTATTACTATTTTTATAAATTAGT
1 TTATTATTAATAATTTTATAAAATA-T
*
19912215 TT-TTATAAATAA
1 TTATTATTAATAA
19912227 AAAATTAAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
26 21 0.66
27 5 0.16
28 6 0.19
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (26 bp):
TTATTATTAATAATTTTATAAAATAT
Found at i:19912889 original size:29 final size:29
Alignment explanation
Indices: 19912856--19912923 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
19912846 CTAATTAATC
* * *
19912856 TAAACCCTAAATCCCTAA-CCCCTTAACCT
1 TAAACCCTAAAACCC-AACCCCCTAAAACT
*
19912885 TAAACCTTAAAACCCAACCCCCTAAAACT
1 TAAACCCTAAAACCCAACCCCCTAAAACT
19912914 TAAACCCTAA
1 TAAACCCTAA
19912924 CCTTTAACCC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 2 0.06
29 31 0.94
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (29 bp):
TAAACCCTAAAACCCAACCCCCTAAAACT
Found at i:19913430 original size:41 final size:40
Alignment explanation
Indices: 19913375--19913470 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 40
19913365 CGTTTTTTAA
* *
19913375 AAAAAAACGCCGCTAAAGAT-CA-AGTATTAGCGGCGTTTTCT
1 AAAAAAGCGCCGCTAAAGATGCACA-TA-TAGCGACGTTTT-T
* *
19913416 AAAAAAGCGCCGCTAAAGGTGTACATATAGCGACGTTTTT
1 AAAAAAGCGCCGCTAAAGATGCACATATAGCGACGTTTTT
19913456 -AAAAAGCGCCGCTAA
1 AAAAAAGCGCCGCTAA
19913471 TACTCTATCT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
39 15 0.31
40 1 0.02
41 29 0.59
42 3 0.06
43 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.22
Consensus pattern (40 bp):
AAAAAAGCGCCGCTAAAGATGCACATATAGCGACGTTTTT
Found at i:19913563 original size:40 final size:38
Alignment explanation
Indices: 19913376--19913578 Score: 114
Period size: 39 Copynumber: 5.2 Consensus size: 38
19913366 GTTTTTTAAA
* * * *
19913376 AAAAAACGCCGCTAAAGATCAAGTAT-TAGCGGCGTTTTCT
1 AAAAAGCGCCGCTAAAG-TCTAGCATATAGCGAC-TTTT-T
*
19913416 AAAAAAGCGCCGCTAAAGGTGTA-CATATAGCGACGTTTTT
1 -AAAAAGCGCCGCTAAA-GTCTAGCATATAGCGAC-TTTTT
* * * * *
19913456 AAAAAGCGCCGCTAATACTCTATC-TTTAACGGC-TTTT
1 AAAAAGCGCCGCTAA-AGTCTAGCATATAGCGACTTTTT
* *
19913493 AAAAAGCGCCGCTTTCAA-TCAAGCAT-TAGCGACATTTTCT
1 AAAAAGCGCCGC--TAAAGTCTAGCATATAGCGAC-TTTT-T
* *
19913533 AAAAAGCGCCGCTAAAGGTGTA-CATATAGCGGAGTTTTT
1 AAAAAGCGCCGCTAAA-GTCTAGCATATAGC-GACTTTTT
19913572 AAAAAGC
1 AAAAAGC
19913579 ATCGCTAATG
Statistics
Matches: 129, Mismatches: 19, Indels: 30
0.72 0.11 0.17
Matches are distributed among these distances:
37 25 0.19
38 5 0.04
39 40 0.31
40 28 0.22
41 30 0.23
42 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (38 bp):
AAAAAGCGCCGCTAAAGTCTAGCATATAGCGACTTTTT
Found at i:19915347 original size:23 final size:23
Alignment explanation
Indices: 19915315--19915388 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
19915305 AACCACATTC
19915315 ATTTCCAAATGATTCCATTTCTCT
1 ATTT-CAAATGATTCCATTTCTCT
* * **
19915339 ATTTCAAATAAATCCATAAC-C-
1 ATTTCAAATGATTCCATTTCTCT
*
19915360 ATTTCTAAATGTTTTCCATTTCTCT
1 ATTTC-AAATG-ATTCCATTTCTCT
19915385 ATTT
1 ATTT
19915389 TTGTTCATTC
Statistics
Matches: 37, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
21 5 0.14
22 5 0.14
23 18 0.49
24 5 0.14
25 4 0.11
ACGTcount: A:0.30, C:0.22, G:0.03, T:0.46
Consensus pattern (23 bp):
ATTTCAAATGATTCCATTTCTCT
Done.