Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 73 of 253
Found at i:21744889 original size:43 final size:43
Alignment explanation
Indices: 21744825--21744911 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
21744815 ATCACATGTA
* * * **
21744825 TCGCATCCATTATGAACTCGGACCATTCATTAAGCTCGGATGC
1 TCGCATACATAATGAACTCGGACCACTCAACAAGCTCGGATGC
*
21744868 TCGCATACATAATGAAGTCGGACCACTCAACAAGCTCGGATGC
1 TCGCATACATAATGAACTCGGACCACTCAACAAGCTCGGATGC
21744911 T
1 T
21744912 ACATATATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (43 bp):
TCGCATACATAATGAACTCGGACCACTCAACAAGCTCGGATGC
Found at i:21747249 original size:339 final size:338
Alignment explanation
Indices: 21746623--21747277 Score: 956
Period size: 339 Copynumber: 1.9 Consensus size: 338
21746613 TGCCCTAATT
* * * * *
21746623 TTTTAGATTATCTATACATTTTTAGGGAATAAAATGAGGTGTTGGTTTGTTGGTTAAGTGTTAGT
1 TTTTAGATTATCTATACATTTTTAGGGAATAAAACGAGGTATTGGTTTATTGGTGAAGTGTTAGG
** * *
21746688 GAAATGTTCCTTAAAACCTAAGTTCAAATTCCTTTTCTCACACCATTTATATTATTTTTCAATTT
66 GAAACATTCCTTAAAACCCAAGTTCAAATTCC-TTTCTCACACCATTTATATTATTTTGCAATTT
*
21746753 TGCATCAAACCTTAGTATGTGACACATATTATTTTAAAAATAAATATTGTAAAATTATTTAAAAA
130 TGCATCAAACCTTAGTATGTGACACATATTATTTTAAAAATAAATATTGCAAAATTATTTAAAAA
* * * * * ** *
21746818 ATAAGGAAATATCCTAGTGGTTAATTGATAAATTGAAAAGCATGGAAAGTAGATTAAGGTCCCAT
195 ATAAGGAAATAGCATAATGGTTAATTGATAAATGGAAAAGAACAGAAAGTAGATTAAGGTCCCAA
*
21746883 GTTTGAATCTTTTCCCTTGCAAAATAATTAAATTTTGCAAAATCCTTTCTTTTTTTTTATGTGTG
260 GTTTGAATCTTTTCCCTTGCAAAATAATTAAATTTTGCAAAATCCATTCTTTTTTTTTATGTGTG
21746948 TCTTGTCCATACCC
325 TCTTGTCCATACCC
* * * *
21746962 TTTTAGATTATTTGTGCATTTTTAGGGAATAATACGAGGTATTGGTTTATTGGTGAAGTGTTAGG
1 TTTTAGATTATCTATACATTTTTAGGGAATAAAACGAGGTATTGGTTTATTGGTGAAGTGTTAGG
*
21747027 GAAACATTCCTTGAAACCCAAGTTCAAATTCC-TTCTCAAGCACCATTTATATTATTTTGCAATT
66 GAAACATTCCTTAAAACCCAAGTTCAAATTCCTTTCTC-A-CACCATTTATATTATTTTGCAATT
** * * * *
21747091 TTGCATCAAA-CTCTAGTATGTGACATGTCTTGTTTTTAAAATAAATATTGCAAAATTATTTCAA
129 TTGCATCAAACCT-TAGTATGTGACACATATTATTTTAAAAATAAATATTGCAAAATTATTTAAA
*
21747155 AAATAAGGAAATAGCATAATGGTTAATTGATAACTGGAAAAGAACAGAAAGTAGATTAAGGTCCC
193 AAATAAGGAAATAGCATAATGGTTAATTGATAAATGGAAAAGAACAGAAAGTAGATTAAGGTCCC
*
21747220 AAGTTTGAATCTTTTCCCTTG-AGAAATAATTAAATTTTGCAAAATTCATTCTTTTTTT
258 AAGTTTGAATCTTTTCCCTTGCA-AAATAATTAAATTTTGCAAAATCCATTCTTTTTTT
21747278 ATGCGTGTCC
Statistics
Matches: 280, Mismatches: 32, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
337 5 0.02
338 4 0.01
339 271 0.97
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.40
Consensus pattern (338 bp):
TTTTAGATTATCTATACATTTTTAGGGAATAAAACGAGGTATTGGTTTATTGGTGAAGTGTTAGG
GAAACATTCCTTAAAACCCAAGTTCAAATTCCTTTCTCACACCATTTATATTATTTTGCAATTTT
GCATCAAACCTTAGTATGTGACACATATTATTTTAAAAATAAATATTGCAAAATTATTTAAAAAA
TAAGGAAATAGCATAATGGTTAATTGATAAATGGAAAAGAACAGAAAGTAGATTAAGGTCCCAAG
TTTGAATCTTTTCCCTTGCAAAATAATTAAATTTTGCAAAATCCATTCTTTTTTTTTATGTGTGT
CTTGTCCATACCC
Found at i:21748824 original size:46 final size:47
Alignment explanation
Indices: 21748694--21749009 Score: 206
Period size: 46 Copynumber: 6.7 Consensus size: 47
21748684 ATGAGATCCG
* * * *
21748694 GTGTAAGACCATGTCTGGGACATGGCATC-GCCATTGAGACG-AGAGCTA
1 GTGTAAGACCATGTCTAGGACATGGCATCAG-C-TCGAGATGTA-AGCCA
* * *
21748742 GTGTAAGA-CATGTCTAGGACAT-GCTTTGACCTCGAGATGTAAGCCA
1 GTGTAAGACCATGTCTAGGACATGGC-ATCAGCTCGAGATGTAAGCCA
*
21748788 GTGTAAGA-CATGTCTAGGACAT-GCATCAGCTACGAGATGT--GTCA
1 GTGTAAGACCATGTCTAGGACATGGCATCAGCT-CGAGATGTAAGCCA
* * * * * *
21748832 GTGTAAGACCATGT-TTGGTACCTGGCATCGGCACGGATATGTGAGAGCTA
1 GTGTAAGACCATGTCTAGG-ACATGGCATCAGCTC-GAGATGT-A-AGCCA
*** ** **
21748882 GTGTAAGACCATGTCTAGGACATGATGTCAGCCTCGATTTCG-ATAGTAA
1 GTGTAAGACCATGTCTAGGACATGGCATCAG-CTCGAGAT-GTA-AGCCA
* *
21748931 GTGTAAGACCATGTCTAGGACATGGCATCAACTTGATGGATG--AGCCA
1 GTGTAAGACCATGTCTAGGACATGGCATCAGCTCGA--GATGTAAGCCA
*
21748978 GTGTAAGACCATGTCTGGGACATGGCATCAGC
1 GTGTAAGACCATGTCTAGGACATGGCATCAGC
21749010 ATTATACCCT
Statistics
Matches: 211, Mismatches: 40, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
44 14 0.07
45 13 0.06
46 57 0.27
47 49 0.23
48 12 0.06
49 32 0.15
50 28 0.13
51 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
GTGTAAGACCATGTCTAGGACATGGCATCAGCTCGAGATGTAAGCCA
Found at i:21749009 original size:96 final size:94
Alignment explanation
Indices: 21748694--21749009 Score: 228
Period size: 96 Copynumber: 3.3 Consensus size: 94
21748684 ATGAGATCCG
* * *
21748694 GTGTAAGACCATGTCTGGGACATGGCATC-GCCATTGAGA-CGAGAGCTAGTGTAAGA-CATGTC
1 GTGTAAGACCATGTCTAGGACATGGCATCAGCC-TCGA-ATCGATAG-TAGTGTAAGACCATGTC
* * *
21748756 TAGGACAT-GCTTTGACCTCGA--GATGTAAGCCA
63 TAGGACATGGC-ATCAACTCGATGGATG--AGCCA
21748788 GTGTAAGA-CATGTCTAGGACAT-GCATCAG-CTACGAGAT-G-T-GTCAGTGTAAGACCATGT-
1 GTGTAAGACCATGTCTAGGACATGGCATCAGCCT-CGA-ATCGATAGT-AGTGTAAGACCATGTC
* * ** * *
21748846 TTGGTACCTGGCATCGGCACGGATATGTGA-GAGCTA
63 TAGG-ACATGGCATCAACTC-G--ATG-GATGAGCCA
*** *
21748882 GTGTAAGACCATGTCTAGGACATGATGTCAGCCTCGATTTCGATAGTAAGTGTAAGACCATGTCT
1 GTGTAAGACCATGTCTAGGACATGGCATCAGCCTCGA-ATCGATAGT-AGTGTAAGACCATGTCT
*
21748947 AGGACATGGCATCAACTTGATGGATGAGCCA
64 AGGACATGGCATCAACTCGATGGATGAGCCA
*
21748978 GTGTAAGACCATGTCTGGGACATGGCATCAGC
1 GTGTAAGACCATGTCTAGGACATGGCATCAGC
21749010 ATTATACCCT
Statistics
Matches: 173, Mismatches: 28, Indels: 40
0.72 0.12 0.17
Matches are distributed among these distances:
89 1 0.01
90 13 0.08
91 12 0.07
92 14 0.08
93 14 0.08
94 21 0.12
95 16 0.09
96 45 0.26
97 5 0.03
98 2 0.01
99 27 0.16
100 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (94 bp):
GTGTAAGACCATGTCTAGGACATGGCATCAGCCTCGAATCGATAGTAGTGTAAGACCATGTCTAG
GACATGGCATCAACTCGATGGATGAGCCA
Found at i:21756379 original size:19 final size:19
Alignment explanation
Indices: 21756355--21756392 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21756345 ATATTGAGAT
21756355 AGCATAACTCCCGTTTGAA
1 AGCATAACTCCCGTTTGAA
21756374 AGCATAACTCCCGTTTGAA
1 AGCATAACTCCCGTTTGAA
21756393 CCTTAGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (19 bp):
AGCATAACTCCCGTTTGAA
Found at i:21756598 original size:46 final size:44
Alignment explanation
Indices: 21756542--21756653 Score: 127
Period size: 46 Copynumber: 2.5 Consensus size: 44
21756532 GACGAGAGCA
21756542 AGTGTAAGACATGTCTGGGACATACATCAGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATACAT-AGCCTACGAGATGT--GCC
* * * * * *
21756588 AGTGTAAGACATATTTGGGACATGCATTGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATACATAGCCTACGAGATGTGCC
21756632 AGTGTAAGACCATGTCTGGGAC
1 AGTGTAAGA-CATGTCTGGGAC
21756654 TTGGCATTGG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
44 11 0.20
45 13 0.23
46 32 0.57
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATACATAGCCTACGAGATGTGCC
Found at i:21756685 original size:48 final size:47
Alignment explanation
Indices: 21756587--21756852 Score: 177
Period size: 49 Copynumber: 5.6 Consensus size: 47
21756577 AGATGTAAGC
* * *
21756587 CAGTGTAAGA-CATATTTGGGACAT-GCATTGGCTACG--AGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGC-ACGATAGAGGTGT
*
21756631 CAGTGTAAGACCATGTCTGGGACTTGGCATTGGCACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACG-ATAGAGGTGT
* * *
21756679 CAGTGTAAGACCATGTCTGGGACATGGCATTGACACGGATATGTGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC-GATA-GAG-GTGT
* * * ** * * *
21756729 -AGTGTAATACCATGTTTGGGACATGGCGTCAGC-CTTGATTGCGATAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC--GATAGAGGT-GT
* * * * * ** * * * *
21756777 CAATGTAAGTCCATGTCTGGGACATGGCGTCGACTTGATGGATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGATAGAGGTGT
21756824 CAGTGTAAGACCATG-CTGGGACATGGCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCAT
21756853 CGGTATTATA
Statistics
Matches: 175, Mismatches: 35, Indels: 22
0.75 0.15 0.09
Matches are distributed among these distances:
44 10 0.06
45 14 0.08
46 21 0.12
47 14 0.08
48 53 0.30
49 60 0.34
50 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGATAGAGGTGT
Found at i:21761481 original size:25 final size:25
Alignment explanation
Indices: 21761453--21761513 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
21761443 TCCTGTACAT
* *
21761453 GTATGCTCAT-ACGAGCTGTGAATTG
1 GTATGCTC-TCACGAGCTGTAAATCG
*
21761478 GTATGCTCTCACGAGTTGTAAATCG
1 GTATGCTCTCACGAGCTGTAAATCG
21761503 GTATGCTCTCA
1 GTATGCTCTCA
21761514 TGAGGTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAAATCG
Found at i:21761524 original size:25 final size:25
Alignment explanation
Indices: 21761477--21761535 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
21761467 GCTGTGAATT
* *
21761477 GGTATGCTCTCACGAGTTGTAAATC
1 GGTATGCTCTCACGAGGTATAAATC
* *
21761502 GGTATGCTCTCATGAGGTATAAATT
1 GGTATGCTCTCACGAGGTATAAATC
*
21761527 GGTAAGCTC
1 GGTATGCTC
21761536 ATATGAGTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (25 bp):
GGTATGCTCTCACGAGGTATAAATC
Found at i:21763674 original size:80 final size:78
Alignment explanation
Indices: 21763590--21763761 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 78
21763580 GGACTAAGAT
*
21763590 CCGAAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATAC
* *
21763653 TAAATCCGGGTTAAGTC
62 TAAAACCGGGCTAAGTC
* * * *
21763670 CCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
21763735 AACCGGGCTATGTC
65 AACCGGGCTAAGTC
21763749 CCGAAGGCATTTG
1 CCGAAGGCATTTG
21763762 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
79 38 0.47
80 37 0.46
82 3 0.04
83 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
ACCGGGCTAAGTC
Found at i:21763752 original size:39 final size:39
Alignment explanation
Indices: 21763537--21763759 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
21763527 TTGAATGCTG
* * * * * *
21763537 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
21763577 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
21763617 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
21763657 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
21763697 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
21763736 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21763760 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
39 37 0.24
40 105 0.69
41 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:21763779 original size:79 final size:80
Alignment explanation
Indices: 21763617--21763794 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
21763607 AGATACAAGT
* * * *
21763617 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** *
21763682 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * * *
21763697 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* *
21763761 GAACGAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
21763776 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21763795 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:21771596 original size:80 final size:78
Alignment explanation
Indices: 21771512--21771683 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 78
21771502 GGACTAAGAT
*
21771512 CCGAAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATAC
* *
21771575 TAAATCCGGGTTAAGTC
62 TAAAACCGGGCTAAGTC
* * * *
21771592 CCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
21771657 AACCGGGCTATGTC
65 AACCGGGCTAAGTC
21771671 CCGAAGGCATTTG
1 CCGAAGGCATTTG
21771684 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
79 38 0.47
80 37 0.46
82 3 0.04
83 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
ACCGGGCTAAGTC
Found at i:21771674 original size:39 final size:39
Alignment explanation
Indices: 21771459--21771681 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
21771449 TTGAATGCTG
* * * * * *
21771459 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
21771499 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
21771539 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
21771579 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
21771619 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
21771658 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21771682 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
39 37 0.24
40 105 0.69
41 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:21771701 original size:79 final size:80
Alignment explanation
Indices: 21771539--21771716 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
21771529 AGATACAAGT
* * * *
21771539 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** *
21771604 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * * *
21771619 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* *
21771683 GAACGAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
21771698 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21771717 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:21774122 original size:24 final size:22
Alignment explanation
Indices: 21774095--21774141 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
21774085 GGTAAGTCCA
21774095 TTTTGCTCTATTTTTGATGATTTT
1 TTTTGCTC-ATTTTTGA-GATTTT
*
21774119 TTTTGCTCGTTTTTGAGATTTT
1 TTTTGCTCATTTTTGAGATTTT
21774141 T
1 T
21774142 ATGTTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.32
23 7 0.32
24 8 0.36
ACGTcount: A:0.11, C:0.09, G:0.15, T:0.66
Consensus pattern (22 bp):
TTTTGCTCATTTTTGAGATTTT
Found at i:21776762 original size:48 final size:49
Alignment explanation
Indices: 21776647--21776925 Score: 282
Period size: 48 Copynumber: 5.8 Consensus size: 49
21776637 TAAGATGCCA
* * *
21776647 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATC-AGTGCCA
1 ATGCCATGTCCCAAACATGGTCTTACACTAG-TCTCACATATCGAG-GCCG
* * **
21776697 ATGCCATGTTCCAAACATGGTCTTACACTAGTC-CACATGTCGAGGTTG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGTCTCACATATCGAGGCCG
* * *
21776745 ATGCCATGTCCCAAACATGGTCTTACACTA-TCTCTCATATAGATGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGTCTCACATATCGAGGCCG
* * * *
21776793 ATGCCATGTTCCAAACATGGTCTTACACT-GGCTCACGTATCGAGGTCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGTCTCACATATCGAGGCCG
* * * ** ** *
21776841 ATGCCATGTCCCAGACATGGTCTTACAGTAGT-TCTCATATAAATACTG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGTCTCACATATCGAGGCCG
* *
21776889 ATGCCATGTTCCAAACATGGTCTTACACT-GGCTCACA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGTCTCACA
21776926 AAACCTTAGT
Statistics
Matches: 186, Mismatches: 38, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
47 3 0.02
48 149 0.80
49 5 0.03
50 29 0.16
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGTCTCACATATCGAGGCCG
Found at i:21776844 original size:96 final size:96
Alignment explanation
Indices: 21776647--21776925 Score: 400
Period size: 96 Copynumber: 2.9 Consensus size: 96
21776637 TAAGATGCCA
* * *
21776647 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTGCCAATGCCATGTTCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATATA--AATGCCGATGCCATGTTCCAAA
* * *
21776712 CATGGTCTTACACTAG-TCCACATGTCGAGGTTG
64 CATGGTCTTACACTGGCT-CACATATCGAGGTCG
* *
21776745 ATGCCATGTCCCAAACATGGTCTTACACTATCTCTCATATAGATGCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATATAAATGCCGATGCCATGTTCCAAACA
*
21776810 TGGTCTTACACTGGCTCACGTATCGAGGTCG
66 TGGTCTTACACTGGCTCACATATCGAGGTCG
* * *
21776841 ATGCCATGTCCCAGACATGGTCTTACAGTAGT-TCTCATATAAATACTGATGCCATGTTCCAAAC
1 ATGCCATGTCCCAGACATGGTCTTACACTA-TCTCTCATATAAATGCCGATGCCATGTTCCAAAC
21776905 ATGGTCTTACACTGGCTCACA
65 ATGGTCTTACACTGGCTCACA
21776926 AAACCTTAGT
Statistics
Matches: 164, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
96 123 0.75
97 2 0.01
98 39 0.24
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATATAAATGCCGATGCCATGTTCCAAACA
TGGTCTTACACTGGCTCACATATCGAGGTCG
Found at i:21776903 original size:144 final size:146
Alignment explanation
Indices: 21776639--21776917 Score: 348
Period size: 144 Copynumber: 1.9 Consensus size: 146
21776629 CAAAAGGGTA
* * *
21776639 AGATGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTGCCAATGCCAT
1 AGATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCGCTCACATATCAGTGCCAATGCCAT
* * ** **
21776704 GTTCCAAACATGGTCTTACACTAGTCCACATGTCGAGGTTGATGCCATGTCCCAAACATGGTCTT
66 GTCCCAAACATGGTCTTACACTAGTCCACATATAAAGACTGATGCCATGTCCCAAACATGGTCTT
21776769 ACACTATCTCTCATAT
131 ACACTATCTCTCATAT
* * * * *
21776785 AGATGCCGATGCCATGTTCCAAACATGGTCTTACACT-G-GCTCACGTATCGAG-GTCGATGCCA
1 AGATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCGCTCACATATC-AGTGCCAATGCCA
* * * * * *
21776847 TGTCCCAGACATGGTCTTACAGTAGTTCTCATATAAATACTGATGCCATGTTCCAAACATGGTCT
65 TGTCCCAAACATGGTCTTACACTAGTCCACATATAAAGACTGATGCCATGTCCCAAACATGGTCT
21776912 TACACT
130 TACACT
21776918 GGCTCACAAA
Statistics
Matches: 112, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
144 75 0.67
145 3 0.03
146 34 0.30
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (146 bp):
AGATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCGCTCACATATCAGTGCCAATGCCAT
GTCCCAAACATGGTCTTACACTAGTCCACATATAAAGACTGATGCCATGTCCCAAACATGGTCTT
ACACTATCTCTCATAT
Found at i:21779052 original size:12 final size:12
Alignment explanation
Indices: 21779035--21779060 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21779025 CATTCCGAAT
21779035 TATATATATACA
1 TATATATATACA
21779047 TATATATATACA
1 TATATATATACA
21779059 TA
1 TA
21779061 AGTATGCCCA
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:21779534 original size:28 final size:28
Alignment explanation
Indices: 21779466--21779563 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
21779456 GTTGATCTCG
* * * *
21779466 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
21779495 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
21779523 GCACTAAGTGTGCAAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
21779550 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
21779564 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:21779574 original size:27 final size:27
Alignment explanation
Indices: 21779494--21779576 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
21779484 TAAATTGTAC
** *
21779494 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
* *
21779522 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCAACTTGAATATAT
* *
21779549 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
21779576 A
1 A
21779577 CTTTTGAATC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.65
28 17 0.35
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCAACTTGAATATAT
Found at i:21784898 original size:16 final size:16
Alignment explanation
Indices: 21784879--21784909 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21784869 CTTCTTCACT
21784879 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
21784895 TACTTACTTACTTAA
1 TACTCACTTACTTAA
21784910 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:21784915 original size:20 final size:20
Alignment explanation
Indices: 21784876--21784915 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21784866 AAACTTCTTC
* *
21784876 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
21784896 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
21784916 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:21785289 original size:55 final size:53
Alignment explanation
Indices: 21785101--21785356 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
21785091 ACACGGGTAC
* * * *
21785101 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* ** *
21785150 CTTACCATTGCCATGTATTGACATGGTCTTACATGGTAGCCTTACCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
21785203 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * * *
21785258 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGAC
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
21785312 CTTACCAACTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
1 CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTG
21785357 AACCCTAATG
Statistics
Matches: 171, Mismatches: 24, Indels: 18
0.80 0.11 0.08
Matches are distributed among these distances:
49 35 0.20
52 2 0.01
53 43 0.25
54 15 0.09
55 74 0.43
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:21785292 original size:108 final size:110
Alignment explanation
Indices: 21785148--21785348 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
21785138 ATCCTTTTGA
* *
21785148 AACTTACCATTGCCATGTATTGACATGGTCTTACATGGTAGCCTTACCTTATGA-A-CTCACCAA
1 AACTTACCAATGCCATGTATTGACATGGTCTTACATGATAGCCTTACCTTA-GAGACCTCACCAA
21785211 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 CTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * ** * *
21785256 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGACCTTACCAAC
1 AACTTACCAATGCCATGTATTGACATGGTCTTACATGATAGCCTTACCTTAGAGACCTCACCAAC
21785321 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
21785349 TATCCTTGAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 2 0.02
108 45 0.55
109 7 0.09
110 28 0.34
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (110 bp):
AACTTACCAATGCCATGTATTGACATGGTCTTACATGATAGCCTTACCTTAGAGACCTCACCAAC
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:21801802 original size:20 final size:20
Alignment explanation
Indices: 21801756--21801793 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21801746 TGTAATATTA
*
21801756 ATATTTAAT-ATTAAATAAG
1 ATATTTATTAATTAAATAAG
21801775 ATATTTATTAATTAAATAA
1 ATATTTATTAATTAAATAA
21801794 TTATATTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
ATATTTATTAATTAAATAAG
Found at i:21801822 original size:31 final size:32
Alignment explanation
Indices: 21801773--21801836 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
21801763 ATATTAAATA
*
21801773 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
21801804 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
21801836 A
1 A
21801837 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:21802785 original size:15 final size:15
Alignment explanation
Indices: 21802762--21802809 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
21802752 TATCAAATTT
21802762 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
21802777 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
21802792 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
21802806 ATAT
1 ATAT
21802810 AATATAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:21803337 original size:18 final size:19
Alignment explanation
Indices: 21803316--21803356 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
21803306 AATGAAATGA
21803316 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
21803334 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
21803353 GAAA
1 GAAA
21803357 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:21814848 original size:13 final size:13
Alignment explanation
Indices: 21814830--21814854 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21814820 TGTGGGTGCA
21814830 CACGGCCGTGTCG
1 CACGGCCGTGTCG
21814843 CACGGCCGTGTC
1 CACGGCCGTGTC
21814855 TGTCTTCGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCG
Found at i:21817374 original size:27 final size:27
Alignment explanation
Indices: 21817344--21817521 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21817334 ATATTGAGTC
* * * *
21817344 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21817371 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21817398 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
21817426 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21817453 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21817480 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21817507 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21817522 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:21817483 original size:82 final size:81
Alignment explanation
Indices: 21817365--21817520 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21817355 TGCTATATAA
* *
21817365 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21817430 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21817447 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21817511 CACTTAGTGC
65 CACTTAGTGC
21817521 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:21823243 original size:27 final size:26
Alignment explanation
Indices: 21823204--21823360 Score: 147
Period size: 27 Copynumber: 5.8 Consensus size: 26
21823194 CAGTTCAATA
*
21823204 ATAATCAACTCGCACACTTAGTGCTAC
1 ATAATCAAATCGCACACTTAGTGC-AC
*
21823231 GTAATCAAATCGCACACTTAGTGCTAC
1 ATAATCAAATCGCACACTTAGTGC-AC
*
21823258 ATAATCAAACTCGCACAC-TAGTGCGC
1 ATAATCAAA-TCGCACACTTAGTGCAC
** * *
21823284 ATGGTCAATTCGCACAATTAGTGCATC
1 ATAATCAAATCGCACACTTAGTGCA-C
* *
21823311 AT-ATTAATTTCGCACAACTTAGTGCAAC
1 ATAATCAA-ATCGCAC-ACTTAGTGC-AC
*
21823339 ATAGTCAAATCGCACACTTAGT
1 ATAATCAAATCGCACACTTAGT
21823361 TCTGTACAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
25 7 0.06
26 16 0.15
27 56 0.52
28 25 0.23
29 4 0.04
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (26 bp):
ATAATCAAATCGCACACTTAGTGCAC
Found at i:21823307 original size:53 final size:54
Alignment explanation
Indices: 21823204--21823360 Score: 151
Period size: 55 Copynumber: 2.9 Consensus size: 54
21823194 CAGTTCAATA
* *
21823204 ATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTAC
1 ATAATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACAATTAGTGCTAC
* ** *
21823258 ATAATCAAACTCGCACAC-TAGTGC-GCATGGTCAATTCGCACAATTAGTGC-ATC
1 ATAATC-AACTCGCACACTTAGTGCTACATAATCAAATCGCACAATTAGTGCTA-C
* * * * *
21823311 AT-ATTAATTTCGCACAACTTAGTGCAACATAGTCAAATCGCACACTTAGT
1 ATAATCAA-CTCGCAC-ACTTAGTGCTACATAATCAAATCGCACAATTAGT
21823361 TCTGTACAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
51 2 0.02
52 9 0.11
53 25 0.29
54 18 0.21
55 31 0.36
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (54 bp):
ATAATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACAATTAGTGCTAC
Found at i:21827243 original size:28 final size:28
Alignment explanation
Indices: 21827180--21827277 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
21827170 ATATTAAGTC
*
21827180 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
21827207 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
21827235 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
21827264 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21827278 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:21835503 original size:28 final size:28
Alignment explanation
Indices: 21835440--21835537 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
21835430 ATATTAAGTC
*
21835440 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
21835467 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
21835495 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
21835524 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21835538 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:21851436 original size:17 final size:16
Alignment explanation
Indices: 21851416--21851457 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
21851406 GTTTCGGCTA
21851416 GAAGAAAAAGCAAAAAG
1 GAAGAAAAAG-AAAAAG
21851433 GAAG--AAAGAAAAAG
1 GAAGAAAAAGAAAAAG
*
21851447 GAGGAAAAAGA
1 GAAGAAAAAGA
21851458 GAGGAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 9 0.41
15 4 0.18
16 5 0.23
17 4 0.18
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (16 bp):
GAAGAAAAAGAAAAAG
Found at i:21851461 original size:11 final size:11
Alignment explanation
Indices: 21851440--21851468 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
21851430 AAGGAAGAAA
21851440 GAAAAAG-GAG
1 GAAAAAGAGAG
21851450 GAAAAAGAGAG
1 GAAAAAGAGAG
21851461 GAAAAAGA
1 GAAAAAGA
21851469 AATCGGCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (11 bp):
GAAAAAGAGAG
Found at i:21859459 original size:53 final size:52
Alignment explanation
Indices: 21859381--21859535 Score: 150
Period size: 53 Copynumber: 2.9 Consensus size: 52
21859371 TCGAAAACCT
* * ** * *
21859381 TTTCCTTTTTGAACTTACCATTGCCATGTCTTGACATGGTCTTAGGTGGTGTCC
1 TTTCC-TTTTGAACTCACCAATGCCATGTCTTGACATGGTCTTACAT-ATGACC
* *
21859435 TTTCCTTATGAACTCACCAATGCCATG-CATTGGCATGGTCTTACATATGACC
1 TTTCCTTTTGAACTCACCAATGCCATGTC-TTGACATGGTCTTACATATGACC
* * *
21859487 TTTGCCTTTTAGTAACTCATCAATACCATGTCTTAACATGGTCTTACAT
1 TTT-CCTTTT-G-AACTCACCAATGCCATGTCTTGACATGGTCTTACAT
21859536 GATTTCCTTG
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
52 8 0.10
53 38 0.46
54 6 0.07
55 30 0.36
56 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (52 bp):
TTTCCTTTTGAACTCACCAATGCCATGTCTTGACATGGTCTTACATATGACC
Found at i:21868694 original size:138 final size:137
Alignment explanation
Indices: 21868456--21868805 Score: 513
Period size: 138 Copynumber: 2.5 Consensus size: 137
21868446 ATGAAATATG
* *
21868456 TAAGACCATGGTTGAAAGATACCATGACAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGACAACATGACA-GAAATGAGTAAGACCATGGTTGAAAGA
* * ** * *
21868521 TATCATGGCAACATGATATGAAATGTGTAAAACCATGGTTTAAAGATACCATGGAAACGTGACAT
65 TACCATGGCAACATGACATGAAATGAATAAAACCATGGTTGAAAGATACCATGGAAACATGACAT
21868586 GAAAAGAA
130 GAAAAGAA
* *
21868594 TAAGACAATGGTTGAAAGATACCATGACAACATGACGAGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGACAACATGAC-AGAAATGAGTAAGACCATGGTTGAAAGA
* *
21868659 TACCATGG-AAGCGTGACATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAACATGACA
65 TACCATGGCAA-CATGACATGAAATGAATAAAACCATGGTTGAAAGATACCATGGAAACATGACA
21868723 TGAAAAGAA
129 TGAAAAGAA
* *
21868732 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGACAACATGACAG-AAATGAGTAAGACCATGGTTGAAAGA
* *
21868797 CACTATGGC
65 TACCATGGC
21868806 TTCATGTCAA
Statistics
Matches: 190, Mismatches: 18, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
137 4 0.02
138 185 0.97
139 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAGATACCATGACAACATGACAGAAATGAGTAAGACCATGGTTGAAAGAT
ACCATGGCAACATGACATGAAATGAATAAAACCATGGTTGAAAGATACCATGGAAACATGACATG
AAAAGAA
Found at i:21868805 original size:46 final size:47
Alignment explanation
Indices: 21868456--21868805 Score: 439
Period size: 46 Copynumber: 7.6 Consensus size: 47
21868446 ATGAAATATG
* * **
21868456 TAAGACCATGGTTGAAAGATACCATGACAACATGATATG-AAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
* * **
21868502 TAAGACCATGGTTGAAAGATATCATGGCAACATGATATG-AAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
* * * *
21868548 TAAAACCATGGTTTAAAGATACCATGGAAACGTGACATGAAAA-GAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
* *
21868594 TAAGACAATGGTTGAAAGATACCATGACAACATGAC--GAGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGA-AAATGAA
*
21868640 TAAGACCATGGTTGAAAGATACCATGG-AAGCGTGACATG-AAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAA-CATGACATGAAAATGAA
*
21868686 TAAAACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-GAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
*
21868732 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
* * *
21868778 TAAGACCATAGTTGAAAGACACTATGGC
1 TAAGACCATGGTTGAAAGATACCATGGC
21868806 TTCATGTCAA
Statistics
Matches: 269, Mismatches: 26, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
44 2 0.01
45 10 0.04
46 248 0.92
47 8 0.03
48 1 0.00
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (47 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
Found at i:21875996 original size:13 final size:13
Alignment explanation
Indices: 21875978--21876002 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21875968 TAAATCTTTA
21875978 AAAAAATAAAAAT
1 AAAAAATAAAAAT
21875991 AAAAAATAAAAA
1 AAAAAATAAAAA
21876003 GTAGTTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:21879766 original size:4 final size:4
Alignment explanation
Indices: 21879750--21879802 Score: 54
Period size: 4 Copynumber: 13.0 Consensus size: 4
21879740 AGAAGGAAAA
* * *
21879750 AAAT AAAT TAAT AAAT AATAA AAAT AAAT AAAT AAAT AAA- AATT AAATT
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAA-T
21879799 AAAT
1 AAAT
21879803 TGCAAGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
3 2 0.05
4 31 0.77
5 7 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:21879774 original size:21 final size:19
Alignment explanation
Indices: 21879747--21879800 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 19
21879737 AAGAGAAGGA
21879747 AAAAAATAAATTAATAAAT
1 AAAAAATAAATTAATAAAT
*
21879766 AATAAAAATAAATAAATAAAT
1 -A-AAAAATAAATTAATAAAT
*
21879787 AAAAATTAAATTAA
1 AAAAAATAAATTAA
21879801 ATTGCAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAAATAAATTAATAAAT
Found at i:21879779 original size:17 final size:18
Alignment explanation
Indices: 21879754--21879802 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
21879744 GGAAAAAAAT
*
21879754 AAATTAATAAAT-AATAA
1 AAATAAATAAATAAATAA
21879771 AAATAAATAAATAAATAA
1 AAATAAATAAATAAATAA
21879789 AAATTAAATTAAAT
1 AAA-TAAA-TAAAT
21879803 TGCAAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 11 0.39
18 8 0.29
19 4 0.14
20 5 0.18
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAATAAATAAATAA
Found at i:21879779 original size:25 final size:24
Alignment explanation
Indices: 21879746--21879802 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
21879736 CAAGAGAAGG
*
21879746 AAAA-AAATAAATTAATAAATAATA
1 AAAATAAATAAATAAATAAA-AATA
*
21879770 AAAATAAATAAATAAATAAAAATT
1 AAAATAAATAAATAAATAAAAATA
*
21879794 AAATTAAAT
1 AAAATAAAT
21879803 TGCAAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAATAAATAAATAAATAAAAATA
Found at i:21881380 original size:47 final size:47
Alignment explanation
Indices: 21881325--21881446 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
21881315 CATGACTTGG
* * *
21881325 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAA
* *
21881372 CATGGTCTTACATGGTATTCTTGTCTGACAAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAA
21881419 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
21881447 GTGCCAATGC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAA
Found at i:21882252 original size:30 final size:31
Alignment explanation
Indices: 21882209--21882266 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
21882199 CTAACTCAAA
21882209 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
1 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
* ** *
21882240 CTTT-GCAGAATTATGATTTTTCCCCTA
1 CTTTGGCAAAATTACAATTTTGCCCCTA
21882267 GGCTCGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (31 bp):
CTTTGGCAAAATTACAATTTTGCCCCTAAAC
Found at i:21885806 original size:21 final size:21
Alignment explanation
Indices: 21885782--21885834 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
21885772 CTGACCATGG
*
21885782 CCTCTCGGTGGCTGCTGAACA
1 CCTCTCGGTGGCTGCTGAAAA
*
21885803 CCTCTCAGTGGCTGCTGAAAA
1 CCTCTCGGTGGCTGCTGAAAA
*
21885824 CCTCTAGGTGG
1 CCTCTCGGTGG
21885835 GTGGACAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.25
Consensus pattern (21 bp):
CCTCTCGGTGGCTGCTGAAAA
Found at i:21887895 original size:34 final size:34
Alignment explanation
Indices: 21887852--21887927 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
21887842 GTTACAGTCT
*
21887852 AGTACCAGTGTAGGCCTTAGCCCATTACAATAAC
1 AGTATCAGTGTAGGCCTTAGCCCATTACAATAAC
* * *
21887886 AGTATCAGTGTGGGCTTTAGCCCATTACAATAAT
1 AGTATCAGTGTAGGCCTTAGCCCATTACAATAAC
21887920 AGTATCAG
1 AGTATCAG
21887928 AAAATGCAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (34 bp):
AGTATCAGTGTAGGCCTTAGCCCATTACAATAAC
Found at i:21894767 original size:43 final size:43
Alignment explanation
Indices: 21894706--21894910 Score: 314
Period size: 43 Copynumber: 4.9 Consensus size: 43
21894696 GAATATTCGG
*
21894706 ATGATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
21894749 ATGATAACCGGGCCAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
21894792 ATGATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
21894835 AT-AT--CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
21894875 AT-AT--CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
21894911 AGCTATATCC
Statistics
Matches: 153, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
40 69 0.45
42 2 0.01
43 82 0.54
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (43 bp):
ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:21894855 original size:40 final size:40
Alignment explanation
Indices: 21894713--21894936 Score: 299
Period size: 40 Copynumber: 5.5 Consensus size: 40
21894703 CGGATGATAA
*
21894713 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATGAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* *
21894754 AACCGGGCCAAGTCCCGAAGGCATTTGTGTGAGTTACTATGAT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
*
21894797 AATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
21894839 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
21894879 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
21894919 CC-GGCTAAATCCCAAAGG
1 CCGGGCTAAGTCCCGAAGG
21894937 TACTTGGTTT
Statistics
Matches: 169, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 16 0.09
40 76 0.45
42 2 0.01
43 75 0.44
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:21894922 original size:80 final size:82
Alignment explanation
Indices: 21894706--21894936 Score: 308
Period size: 86 Copynumber: 2.8 Consensus size: 82
21894696 GAATATTCGG
* *
21894706 ATGATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATGATAACCGGGCCAAGTCCCG
1 ATGAT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT--CCGGGCTAAGTCCCG
*
21894771 AAGGCATTTGTGTGAGTTACT
62 AAGGCATTTGTGCGAGTTACT
*
21894792 ATGATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAG
1 ATGAT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAG
21894857 GCATTTGTGCGAGTTACT
65 GCATTTGTGCGAGTTACT
* * * *
21894875 AT-AT-CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATATCC-GGCTAAATCCCAAAG
1 ATGATACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAG
21894936 G
65 G
21894937 TACTTGGTTT
Statistics
Matches: 135, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
79 16 0.12
80 36 0.27
82 2 0.01
83 36 0.27
85 2 0.01
86 43 0.32
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (82 bp):
ATGATACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
CATTTGTGCGAGTTACT
Found at i:21898121 original size:49 final size:47
Alignment explanation
Indices: 21897946--21898228 Score: 449
Period size: 47 Copynumber: 5.9 Consensus size: 47
21897936 CCCTTCGGGA
* * * * * *
21897946 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21897993 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21898040 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21898087 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21898136 CTTATCACATAAATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
21898185 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
21898229 CGCCATACTA
Statistics
Matches: 220, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
47 127 0.58
49 93 0.42
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21898141 original size:96 final size:94
Alignment explanation
Indices: 21897946--21898228 Score: 449
Period size: 96 Copynumber: 3.0 Consensus size: 94
21897936 CCCTTCGGGA
* * * * * * * *
21897946 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
21898011 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
21898040 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
21898105 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
21898136 CTTATCACATAAATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
21898201 ACTTTCACATTCATCACATCGGCCATTA
64 ACTTTCACATTCATCACATCGGCCATTA
21898229 CGCCATACTA
Statistics
Matches: 175, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
94 46 0.26
96 84 0.48
98 45 0.26
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:21904046 original size:40 final size:40
Alignment explanation
Indices: 21903962--21904145 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
21903952 TTGAATGCTG
* * * *
21903962 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
21904001 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
21904042 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
21904082 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
21904122 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21904146 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:21904099 original size:80 final size:81
Alignment explanation
Indices: 21903962--21904142 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
21903952 TTGAATGCTG
* * *
21903962 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
21904026 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
21904042 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
21904103 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
21904122 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
21904143 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:21904166 original size:39 final size:38
Alignment explanation
Indices: 21904043--21904192 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
21904033 GTTATTAATT
* ** * *
21904043 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
21904083 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
21904122 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
21904162 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
21904193 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:21911880 original size:40 final size:40
Alignment explanation
Indices: 21911796--21911979 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
21911786 TTGAATGCTG
* * * *
21911796 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
21911835 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
21911876 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
21911916 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
21911956 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21911980 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:21911933 original size:80 final size:81
Alignment explanation
Indices: 21911796--21911976 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
21911786 TTGAATGCTG
* * *
21911796 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
21911860 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
21911876 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
21911937 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
21911956 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
21911977 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:21912000 original size:39 final size:38
Alignment explanation
Indices: 21911877--21912026 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
21911867 GTTATTAATT
* ** * *
21911877 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
21911917 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
21911956 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
21911996 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
21912027 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:21919496 original size:27 final size:27
Alignment explanation
Indices: 21919466--21920029 Score: 558
Period size: 27 Copynumber: 21.1 Consensus size: 27
21919456 TATGTTGGTC
*
21919466 ATTTTAC-AATACAAGGGTATTTCGGTA
1 ATTTTACAAAT-CGAGGGTATTTCGGTA
* * *
21919493 ATTTTACACTAT-AAGGGTATTTCGATA
1 ATTTTACA-AATCGAGGGTATTTCGGTA
*
21919520 ATTTTACAAATCGAGGGTGTTTCGGTA
1 ATTTTACAAATCGAGGGTATTTCGGTA
*
21919547 ATTTTACAAATCGAGGGTATTTCAGTA
1 ATTTTACAAATCGAGGGTATTTCGGTA
* **
21919574 ATTTTACAAATCGA-GGTGTTTCAATA
1 ATTTTACAAATCGAGGGTATTTCGGTA
* * *
21919600 ATTTTACAAATCCAGGGTGTTTCGATA
1 ATTTTACAAATCGAGGGTATTTCGGTA
* * *
21919627 ATTTCACAAATCGAGAGTATTTCAGTA
1 ATTTTACAAATCGAGGGTATTTCGGTA
* **
21919654 ATTTTTCAAATCGAGGGTATTTTTGTA
1 ATTTTACAAATCGAGGGTATTTCGGTA
* * *
21919681 ATTTCAC-AATTGAGGGTATTTTGGTA
1 ATTTTACAAATCGAGGGTATTTCGGTA
*
21919707 ATTTTACAAATCG-GGGTATTTCAAG-A
1 ATTTTACAAATCGAGGGTATTTC-GGTA
* *
21919733 ATTTTACAAATCGAGGGTGTTTCGATA
1 ATTTTACAAATCGAGGGTATTTCGGTA
* * * *
21919760 ATTTCACAAATTG-GGAGTATTTTGATA
1 ATTTTACAAATCGAGG-GTATTTCGGTA
* **
21919787 ATTTTACAAATTGAGGGTATTTCAATA
1 ATTTTACAAATCGAGGGTATTTCGGTA
* * *
21919814 ATTTCAC-AATCGAGGTTATTTCAGTA
1 ATTTTACAAATCGAGGGTATTTCGGTA
*
21919840 ATTTTACAAATCGAGGGTATTTCAGTA
1 ATTTTACAAATCGAGGGTATTTCGGTA
*
21919867 ATTTCAC-AATCGAGGGTATTTCGGTA
1 ATTTTACAAATCGAGGGTATTTCGGTA
* *
21919893 ATTTTACAAATCGAGGGTGTTTCGATA
1 ATTTTACAAATCGAGGGTATTTCGGTA
* *
21919920 ATTTCACAAATCGAGGGTATTTCAGTA
1 ATTTTACAAATCGAGGGTATTTCGGTA
* *
21919947 ATTTTACAAATCAAAGGTATTTCAGG-A
1 ATTTTACAAATCGAGGGTATTTC-GGTA
* * * *
21919974 ATTTCAC-AA-CGAGGGTGTTTTGATA
1 ATTTTACAAATCGAGGGTATTTCGGTA
** *
21919999 ATTTTTTAAATCGAGGGTATTTCAGTA
1 ATTTTACAAATCGAGGGTATTTCGGTA
21920026 ATTT
1 ATTT
21920030 CACTTTATTA
Statistics
Matches: 448, Mismatches: 73, Indels: 32
0.81 0.13 0.06
Matches are distributed among these distances:
24 1 0.00
25 13 0.03
26 122 0.27
27 307 0.69
28 3 0.01
29 2 0.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
ATTTTACAAATCGAGGGTATTTCGGTA
Found at i:21919497 original size:54 final size:54
Alignment explanation
Indices: 21919466--21920029 Score: 293
Period size: 53 Copynumber: 10.6 Consensus size: 54
21919456 TATGTTGGTC
*
21919466 ATTTTAC-AATACAAGGGTATTTCGGTAATTTTACACTATAAGGGTATTTCGATA
1 ATTTTACAAAT-CAAGGGTATTTCGGTAATTTTACACTACAAGGGTATTTCGATA
* * * *
21919520 ATTTTACAAATCGAGGGTGTTTCGGTAATTTTACA-AATCGAGGGTATTTC-AGTA
1 ATTTTACAAATCAAGGGTATTTCGGTAATTTTACACTA-CAAGGGTATTTCGA-TA
* * ** * * *
21919574 ATTTTACAAATCGA-GGTGTTTCAATAATTTTACA-AATCCAGGGTGTTTCGATA
1 ATTTTACAAATCAAGGGTATTTCGGTAATTTTACACTA-CAAGGGTATTTCGATA
* * * * * * * *
21919627 ATTTCACAAATCGAGAGTATTTCAGTAATTTTTCA-AATCGAGGGTATTTTTG-TA
1 ATTTTACAAATCAAGGGTATTTCGGTAATTTTACACTA-CAAGGGTA-TTTCGATA
* ** * * * * *
21919681 ATTTCAC-AATTGAGGGTATTTTGGTAATTTTACA-AATC-GGGGTATTTCAAGA
1 ATTTTACAAATCAAGGGTATTTCGGTAATTTTACACTA-CAAGGGTATTTCGATA
* * * * * *** *
21919733 ATTTTACAAATCGAGGGTGTTTCGATAATTTCACA-AATTGGGAGTATTTTGATA
1 ATTTTACAAATCAAGGGTATTTCGGTAATTTTACACTACAAGG-GTATTTCGATA
** ** * * * *
21919787 ATTTTACAAATTGAGGGTATTTCAATAATTTCACAAT-CGAGGTTATTTC-AGTA
1 ATTTTACAAATCAAGGGTATTTCGGTAATTTTACACTACAAGGGTATTTCGA-TA
* * * * * *
21919840 ATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAT-CGAGGGTATTTCGGTA
1 ATTTTACAAATCAAGGGTATTTCGGTAATTTTACACTACAAGGGTATTTCGATA
* * * * * *
21919893 ATTTTACAAATCGAGGGTGTTTCGATAATTTCACA-AATCGAGGGTATTTC-AGTA
1 ATTTTACAAATCAAGGGTATTTCGGTAATTTTACACTA-CAAGGGTATTTCGA-TA
* * * * *
21919947 ATTTTACAAATCAAAGGTATTTCAGG-AA-TTT-CACAACGAGGGTGTTTTGATA
1 ATTTTACAAATCAAGGGTATTTC-GGTAATTTTACACTACAAGGGTATTTCGATA
** * *
21919999 ATTTTTTAAATCGAGGGTATTTCAGTAATTT
1 ATTTTACAAATCAAGGGTATTTCGGTAATTT
21920030 CACTTTATTA
Statistics
Matches: 423, Mismatches: 66, Indels: 43
0.80 0.12 0.08
Matches are distributed among these distances:
51 4 0.01
52 48 0.11
53 195 0.46
54 168 0.40
55 8 0.02
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (54 bp):
ATTTTACAAATCAAGGGTATTTCGGTAATTTTACACTACAAGGGTATTTCGATA
Found at i:21920011 original size:133 final size:134
Alignment explanation
Indices: 21919466--21920032 Score: 607
Period size: 133 Copynumber: 4.3 Consensus size: 134
21919456 TATGTTGGTC
* * * *
21919466 ATTTTAC-AATACAAGGGTATTTCGGTAATTTTACACTAT-AAGGGTATTTCGATAATTTTACAA
1 ATTTTACAAAT-CGAGGGTATTTCGGTAATTTCACA-AATCGAGGGTATTTCGATAATTTTACAA
* * * * *
21919529 ATCGAGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGA-GGTGT
64 ATCGAGGGTATTTCAGTAATTTCAC-AATCGAAGGTATTTCAGGAATTTTACAAATCGAGGGTGT
21919593 TTCAATA
128 TTCAATA
* * * * *
21919600 ATTTTACAAATCCAGGGTGTTTCGATAATTTCACAAATCGAGAGTATTTC-AGTAATTTTTCAAA
1 ATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAATCGAGGGTATTTCGA-TAATTTTACAAA
** * * * *
21919664 TCGAGGGTATTTTTGTAATTTCACAATTGAGGGTATTT-TGGTAATTTTACAAATCG-GGGTATT
65 TCGAGGGTATTTCAGTAATTTCACAATCGAAGGTATTTCAGG-AATTTTACAAATCGAGGGTGTT
*
21919727 TCAAGA
129 TCAATA
* * * *
21919733 ATTTTACAAATCGAGGGTGTTTCGATAATTTCACAAATTG-GGAGTATTTTGATAATTTTACAAA
1 ATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAATCGAGG-GTATTTCGATAATTTTACAAA
* * * *
21919797 TTGAGGGTATTTCAATAATTTCACAATCG-AGGTTATTTCAGTAATTTTACAAATCGAGGGTATT
65 TCGAGGGTATTTCAGTAATTTCACAATCGAAGG-TATTTCAGGAATTTTACAAATCGAGGGTGTT
*
21919861 TCAGTA
129 TCAATA
* * * *
21919867 ATTTCAC-AATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCGATAATTTCACAAAT
1 ATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAATCGAGGGTATTTCGATAATTTTACAAAT
* * *
21919931 CGAGGGTATTTCAGTAATTTTACAAATCAAAGGTATTTCAGGAATTTCAC-AA-CGAGGGTGTTT
66 CGAGGGTATTTCAGTAATTTCAC-AATCGAAGGTATTTCAGGAATTTTACAAATCGAGGGTGTTT
**
21919994 TGATA
130 CAATA
** *
21919999 ATTTTTTAAATCGAGGGTATTTCAGTAATTTCAC
1 ATTTTACAAATCGAGGGTATTTCGGTAATTTCAC
21920033 TTTATTATGG
Statistics
Matches: 364, Mismatches: 55, Indels: 29
0.81 0.12 0.06
Matches are distributed among these distances:
132 20 0.05
133 231 0.63
134 107 0.29
135 6 0.02
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (134 bp):
ATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAATCGAGGGTATTTCGATAATTTTACAAAT
CGAGGGTATTTCAGTAATTTCACAATCGAAGGTATTTCAGGAATTTTACAAATCGAGGGTGTTTC
AATA
Found at i:21926590 original size:39 final size:41
Alignment explanation
Indices: 21926489--21926672 Score: 206
Period size: 39 Copynumber: 4.6 Consensus size: 41
21926479 TTGAATGATG
* *
21926489 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
21926529 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
21926569 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
21926608 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
21926647 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21926673 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
38 1 0.01
39 69 0.55
40 43 0.34
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:21926625 original size:79 final size:80
Alignment explanation
Indices: 21926489--21926672 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
21926479 TTGAATGATG
*
21926489 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA-T
21926553 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
21926568 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
21926630 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
21926647 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21926673 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 49 0.54
80 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GTGCGAGATACTATA
Found at i:21926695 original size:78 final size:79
Alignment explanation
Indices: 21926542--21926705 Score: 201
Period size: 78 Copynumber: 2.1 Consensus size: 79
21926532 GGACTAAGAT
* **
21926542 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
21926607 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
21926621 CCGAAGGCA-TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
21926683 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
21926699 CCGAAGG
1 CCGAAGG
21926706 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
77 2 0.03
78 38 0.51
79 34 0.46
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:21930019 original size:26 final size:26
Alignment explanation
Indices: 21929990--21930071 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
21929980 TGATAAAAAT
*
21929990 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21930016 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21930042 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21930068 TGAT
1 TGAT
21930072 GGGCATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21931703 original size:27 final size:27
Alignment explanation
Indices: 21931663--21931774 Score: 102
Period size: 27 Copynumber: 4.1 Consensus size: 27
21931653 AGGAAGCGTC
*
21931663 CTGGTGGCTATGCCACAAATATCTGA-T
1 CTGGTGGCTCTGCCACAAATATCT-ATT
*
21931690 CTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACAAATATCTATT
* * *
21931717 CTGGTGGTTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCACAAATATCTAT-T
* * * * *
21931745 ATGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTATT
21931771 CTGG
1 CTGG
21931775 CAGCCATGTT
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
26 5 0.07
27 53 0.75
28 13 0.18
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTATT
Found at i:21934633 original size:27 final size:26
Alignment explanation
Indices: 21934569--21934683 Score: 113
Period size: 27 Copynumber: 4.3 Consensus size: 26
21934559 AGCATGGCTG
* *
21934569 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
21934595 CCATATATAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
21934623 CCAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
21934650 CCATATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
21934677 CCAGAAC
1 CCAGAAC
21934684 GCTTCCTCCA
Statistics
Matches: 72, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
26 4 0.06
27 52 0.72
28 16 0.22
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:21934633 original size:54 final size:54
Alignment explanation
Indices: 21934569--21934683 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
21934559 AGCATGGCTG
* *
21934569 CCAGAACAGATA-ATGTGACAGAGTCACCATATATAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCATAT-CAGATAATCGTGGCAGAGCCA
** * * *
21934623 CCAGAACAGATATATGTGGTAGAGCCACCATATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCATATCAGATAATCGTGGCAGAGCCA
21934677 CCAGAAC
1 CCAGAAC
21934684 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCATATCAGATAATCGTGGCAGAGCCA
Found at i:21936316 original size:26 final size:26
Alignment explanation
Indices: 21936280--21936360 Score: 153
Period size: 26 Copynumber: 3.1 Consensus size: 26
21936270 TGAAATGCCC
21936280 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
21936306 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
21936332 TCATGGAATATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
21936358 TCA
1 TCA
21936361 ATTTTTATCA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTA
Found at i:21941846 original size:49 final size:49
Alignment explanation
Indices: 21941791--21942015 Score: 245
Period size: 49 Copynumber: 4.5 Consensus size: 49
21941781 TTGGTATGCA
21941791 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATAC-GGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAT-CGGGTACACG
* * ** * * *
21941840 TAGTAGCCTGCACCTAGTACTACACATGTGACCTAACCATCTGATACACC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCGGGTACACG
* ** * * ** * *
21941890 TAGTAGACTATACTTAGTACTACACACGTGATTGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCGGGTACACG
*
21941941 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACG
*
21941990 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
21942016 CGTGACCTTA
Statistics
Matches: 142, Mismatches: 30, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
49 68 0.48
50 40 0.28
51 34 0.24
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACG
Found at i:21941964 original size:101 final size:100
Alignment explanation
Indices: 21941840--21942020 Score: 272
Period size: 100 Copynumber: 1.8 Consensus size: 100
21941830 ACGGTACACG
* * *
21941840 TAGTAGCCTGCACCTAGTACTACACATGTGACCTAACCATCTGATACACCTAGTAGACTATACTT
1 TAGTAGCCTGCACCTAGTACTACACATGCGACC-AACCATCCGATACACCTAGTAGACTACACTT
21941905 AGTACTACACACGTGATTGAAGTTATCGGGTACGCA
65 AGTACTACACACGTGATTGAAGTTATCGGGTACGCA
* ** * * *
21941941 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACCTAGTACTACACATGCGACCAACCATCCGATACACCTAGTAGACTACACTTA
21942006 GTACTACACACGTGA
66 GTACTACACACGTGA
21942021 CCTTACAATA
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 40 0.56
101 31 0.44
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (100 bp):
TAGTAGCCTGCACCTAGTACTACACATGCGACCAACCATCCGATACACCTAGTAGACTACACTTA
GTACTACACACGTGATTGAAGTTATCGGGTACGCA
Found at i:21948867 original size:42 final size:44
Alignment explanation
Indices: 21948818--21949062 Score: 133
Period size: 48 Copynumber: 5.2 Consensus size: 44
21948808 TAGCCCAACT
** *
21948818 ATGGTCTTACACGATGTCTCATA-AT-GATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATCACATACATCGATGCCATGTCCCAGAC
21948860 ATGGTCTTACACGAAATCACATATCGATGCCGATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATCACATA-C-AT--CGATGCCATGTCCCAGAC
* ** *
21948908 ATGGTCTTATACTG-GCTCACACGT-CGAGGCTGATGCCATGTCCCAGAC
1 ATGGTCTTACAC-GAAATCACA--TAC-A-TC-GATGCCATGTCCCAGAC
* * *
21948956 ATGGTCTTACACTAGCA-CACATATCAATACCGATGCCATGTCCTAGAC
1 ATGGTCTTACACGA-AATCACATA-C-AT--CGATGCCATGTCCCAGAC
* * * * *
21949004 ATGGTCTTATAC-AGGATCTCATCTCGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACACGA-AATCACAT-AC-AT--CGATGCCATGTCCCAGAC
21949052 ATGGTCTTACA
1 ATGGTCTTACA
21949063 TGGGATCTCA
Statistics
Matches: 161, Mismatches: 23, Indels: 32
0.75 0.11 0.15
Matches are distributed among these distances:
42 20 0.12
45 2 0.01
46 1 0.01
47 4 0.02
48 131 0.81
49 2 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (44 bp):
ATGGTCTTACACGAAATCACATACATCGATGCCATGTCCCAGAC
Found at i:21948914 original size:48 final size:49
Alignment explanation
Indices: 21948843--21949062 Score: 259
Period size: 48 Copynumber: 4.6 Consensus size: 49
21948833 GTCTCATAAT
*
21948843 GATGCCATGTCCCAGACATGGTCTTACACGA-AATCACATATCGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACGAGGATCACATATCGATGCC
* * * ** * *
21948891 GATGCCATGTCCCAGACATGGTCTTATAC-TGGCTCACACGTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACGAGGATCACATATCGATGCC
* * * *
21948939 GATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACATATCAATACC
1 GATGCCATGTCCCAGACATGGTCTTACACGAGGATCACATATCGATGCC
* * * *
21948987 GATGCCATGTCCTAGACATGGTCTTATAC-AGGATCTCATCTCGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACGAGGATCACATATCGATGCC
*
21949035 AATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
21949063 TGGGATCTCA
Statistics
Matches: 141, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
47 3 0.02
48 137 0.97
49 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACGAGGATCACATATCGATGCC
Found at i:21949006 original size:96 final size:96
Alignment explanation
Indices: 21948842--21949062 Score: 311
Period size: 96 Copynumber: 2.3 Consensus size: 96
21948832 TGTCTCATAA
* *
21948842 TGATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCGATGCCATGTCCCAGA
1 TGATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCAATACCGATGCCATGTCCCAGA
* *
21948907 CATGGTCTTATACTGGCTCACA-CGTCGAGGC
66 CATGGTCTTATACAGGATCACATC-TCGAGGC
* * *
21948938 TGATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACATATCAATACCGATGCCATGTCCTAG
1 TGATGCCATGTCCCAGACATGGTCTTACACGA-AATCACATATCAATACCGATGCCATGTCCCAG
* *
21949002 ACATGGTCTTATACAGGATCTCATCTCGATGC
65 ACATGGTCTTATACAGGATCACATCTCGAGGC
**
21949034 CAATGCCATGTCCCAGACATGGTCTTACA
1 TGATGCCATGTCCCAGACATGGTCTTACA
21949063 TGGGATCTCA
Statistics
Matches: 112, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
96 110 0.98
97 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (96 bp):
TGATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCAATACCGATGCCATGTCCCAGA
CATGGTCTTATACAGGATCACATCTCGAGGC
Found at i:21956939 original size:39 final size:39
Alignment explanation
Indices: 21956895--21956996 Score: 168
Period size: 39 Copynumber: 2.6 Consensus size: 39
21956885 ATTATATTAT
*
21956895 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAACCCGGATACATTTC
**
21956934 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAACCCGGATACATTTC
*
21956973 CAGCATGAAGCCTGCGGGACTTTA
1 CAGCACGAAGCCTGCGGGACTTTA
21956997 TGTAACACCC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAACCCGGATACATTTC
Found at i:21965074 original size:28 final size:28
Alignment explanation
Indices: 21965017--21965080 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
21965007 TGGGAAGTAG
***
21965017 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAACAAGA
* *
21965045 TTGGGCTTGATGGGCCATGTGAACAAGA
1 TTGGGCCTGATGGGCCATATGAACAAGA
21965073 TTGGGCCT
1 TTGGGCCT
21965081 AAAGGGGCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.20, C:0.16, G:0.36, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACAAGA
Found at i:21965427 original size:27 final size:27
Alignment explanation
Indices: 21965397--21965962 Score: 577
Period size: 27 Copynumber: 21.1 Consensus size: 27
21965387 TAATAAAGTG
**
21965397 AAATTACTGAAATACCCTCGATTTAAA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
21965424 AAATTA-TCAAAACACCCTCG--TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
21965449 AAATTCCTGAAATACCTTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
21965476 AAATTACTGAAATACCCTCGATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
*
21965503 AAATTA-TCGAAACACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
21965530 AAATTACCGAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
21965556 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
21965583 AAATTACTGAAATAACCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
21965609 AAATTATTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
21965636 AAATTA-TCAAAATACTCC-CAATTTGTG
1 AAATTACT-GAAATAC-CCTCGATTTGTA
*
21965663 AAATTA-TCGAAACACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
21965690 AAATT-CTTGAAATACCCCCGATTTGTA
1 AAATTAC-TGAAATACCCTCGATTTGTA
** * *
21965717 AAATTACCAAAATACCCTC-AATTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
** *
21965743 AAATTACAAAAATACCCTCGATTTGAA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
21965770 AAATTACTGAAATACTCTCGATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
21965797 AAATTA-TCGAAACACCCTGGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
21965824 AAATTATTGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
21965851 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
21965878 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
21965905 AAATTA-TCGAAATACCCT-TATAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
* *
21965932 AAATTACCGAAATACCCTTG-TATTGTA
1 AAATTACTGAAATACCCTCGAT-TTGTA
21965959 AAAT
1 AAAT
21965963 GACCAACATA
Statistics
Matches: 452, Mismatches: 66, Indels: 42
0.81 0.12 0.08
Matches are distributed among these distances:
25 15 0.03
26 78 0.17
27 354 0.78
28 5 0.01
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:21965756 original size:134 final size:134
Alignment explanation
Indices: 21965394--21965919 Score: 598
Period size: 134 Copynumber: 3.9 Consensus size: 134
21965384 CCATAATAAA
* ** * ** * * *
21965394 GTGAAATTA-CTGAAATACCCTCGATTTAAAAAATTATCAAAACACCCTCG--TTGTGAAATTCC
1 GTGAAATTATC-GAAACACCCTCGATTTGTAAAATTCTTGAAATACCCTCGATTTGTAAAATTAC
* * * * *
21965456 TGAAATACCTTTGATTTGTAAAATTACTGAAATACCCTCGATTTGTGAAATTATCGAAACAC-CC
65 TGAAATACC-CTCAATTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACTCC
21965520 TCGATTT
129 -CGATTT
* * * *
21965527 GTAAAATTACCGAAATACCCTCGA-TTGTGAAATTAC-TGAAATACCCTCGATTTGTAAAATTAC
1 GTGAAATTATCGAAACACCCTCGATTTGTAAAATT-CTTGAAATACCCTCGATTTGTAAAATTAC
* * * * * *
21965590 TGAAATAACCTCGATTGTGAAATTATTGAAATACCCTCAATTTGTAAAATTATCAAAATACTCCC
65 TGAAATACCCTCAATTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACTCCC
*
21965655 AATTT
130 GATTT
* *
21965660 GTGAAATTATCGAAACACCCTCGATTTGTAAAATTCTTGAAATACCCCCGATTTGTAAAATTACC
1 GTGAAATTATCGAAACACCCTCGATTTGTAAAATTCTTGAAATACCCTCGATTTGTAAAATTACT
* * ** * *
21965725 AAAATACCCTCAATTGTGAAATTACAAAAATACCCTCGATTTGAAAAATTA-CTGAAATACTCTC
66 GAAATACCCTCAATTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATC-GAAATACTCCC
21965789 GATTT
130 GATTT
* * *
21965794 GTGAAATTATCGAAACACCCTGGATTTGTAAAATTATTGAAACACCCTCGATTTGTAAAATTACT
1 GTGAAATTATCGAAACACCCTCGATTTGTAAAATTCTTGAAATACCCTCGATTTGTAAAATTACT
* * *
21965859 GAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATAC
66 GAAATACCCTC-AATTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATAC
21965920 CCTTATAGTG
Statistics
Matches: 332, Mismatches: 51, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
132 17 0.05
133 91 0.27
134 182 0.55
135 41 0.12
136 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.31
Consensus pattern (134 bp):
GTGAAATTATCGAAACACCCTCGATTTGTAAAATTCTTGAAATACCCTCGATTTGTAAAATTACT
GAAATACCCTCAATTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACTCCCG
ATTT
Found at i:21965987 original size:54 final size:54
Alignment explanation
Indices: 21965875--21965989 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 54
21965865 CCCTCGATTT
* * * * *
21965875 GTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTTATAGT
1 GTAAAATTACCGAAACACCCTCGATTTGTAAAATGATCCAAATAACATTATAGG
* * *
21965929 GTAAAATTACCGAAATACCCTTG-TATTGTAAAATGA-CCAACATAACATTGTAGG
1 GTAAAATTACCGAAACACCCTCGAT-TTGTAAAATGATCCAA-ATAACATTATAGG
21965983 GTAAAAT
1 GTAAAAT
21965990 GATTGTTTTG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 4 0.08
54 47 0.92
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (54 bp):
GTAAAATTACCGAAACACCCTCGATTTGTAAAATGATCCAAATAACATTATAGG
Found at i:21972510 original size:16 final size:18
Alignment explanation
Indices: 21972482--21972521 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
21972472 AATTATTGTT
21972482 TTTC-TTTTCTCTCA-A-
1 TTTCTTTTTCTCTCATAC
*
21972497 TTTCTTTTTGTCTCATAC
1 TTTCTTTTTCTCTCATAC
21972515 TTTCTTT
1 TTTCTTT
21972522 ACAAGATGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 9 0.43
17 1 0.05
18 7 0.33
ACGTcount: A:0.10, C:0.23, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTCTTTTTCTCTCATAC
Found at i:21975037 original size:43 final size:43
Alignment explanation
Indices: 21974983--21975105 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
21974973 TCATACAATA
* * * *
21974983 CCAACGTCCCAGACGTGGTCTTACATGTAGTCACATATCGATG
1 CCAATGTCCCAGACGTGGTCTTACACGTAATCACATAACGATG
*
21975026 CCACTGTCCCAG--GTAGGGTCTTACACGTAATCACATAACGATG
1 CCAATGTCCCAGACGT--GGTCTTACACGTAATCACATAACGATG
*
21975069 CCAATGTCCCAGACGTGGTGTTACACG-AATACACATA
1 CCAATGTCCCAGACGTGGTCTTACACGTAAT-CACATA
21975106 TCGGAATCCT
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
41 2 0.03
42 3 0.04
43 61 0.90
45 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (43 bp):
CCAATGTCCCAGACGTGGTCTTACACGTAATCACATAACGATG
Found at i:21977501 original size:16 final size:17
Alignment explanation
Indices: 21977467--21977505 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
21977457 GATATAGGGA
*
21977467 TATTTTATTGAAATATT
1 TATTTTATTAAAATATT
*
21977484 TATTTT-TTAAAATTTT
1 TATTTTATTAAAATATT
21977500 TATTTT
1 TATTTT
21977506 CTTTTCCCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TATTTTATTAAAATATT
Found at i:21978646 original size:8 final size:8
Alignment explanation
Indices: 21978633--21978663 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
21978623 GGGGTAGGAT
21978633 TCTGTATA
1 TCTGTATA
21978641 TCTGTATA
1 TCTGTATA
21978649 TCTGTATA
1 TCTGTATA
21978657 TCTGTAT
1 TCTGTAT
21978664 GTTCTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.52
Consensus pattern (8 bp):
TCTGTATA
Found at i:21979038 original size:16 final size:16
Alignment explanation
Indices: 21979014--21979047 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21979004 CTTTTAACAA
21979014 AATGATTTACAAAAAT
1 AATGATTTACAAAAAT
* *
21979030 AATGGTTTACACAAAT
1 AATGATTTACAAAAAT
21979046 AA
1 AA
21979048 CTATTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (16 bp):
AATGATTTACAAAAAT
Found at i:21980363 original size:50 final size:50
Alignment explanation
Indices: 21980302--21980426 Score: 189
Period size: 50 Copynumber: 2.5 Consensus size: 50
21980292 GTTGCAAACT
21980302 TTAACTAACATGGGAGTTACATAATGCACGACATAATTTATGATGCA-ATC
1 TTAACTAACATGGGAGTTACATAATGCACGACATAATTTATGATGCATA-C
* * * *
21980352 TTAACTAACATGAGAGTTACATAATGCATGTCATTATTTATGATGCATAC
1 TTAACTAACATGGGAGTTACATAATGCACGACATAATTTATGATGCATAC
*
21980402 TTAACTAACATGGAAGTTACATAAT
1 TTAACTAACATGGGAGTTACATAAT
21980427 CCATGACTCT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 67 0.99
51 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (50 bp):
TTAACTAACATGGGAGTTACATAATGCACGACATAATTTATGATGCATAC
Found at i:21986241 original size:31 final size:31
Alignment explanation
Indices: 21986200--21986263 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
21986190 CCTTTTCATA
* *
21986200 TTTCATATTTCATAACACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
21986231 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
21986262 TT
1 TT
21986264 ACTGTAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:21986536 original size:23 final size:24
Alignment explanation
Indices: 21986457--21986717 Score: 388
Period size: 24 Copynumber: 11.0 Consensus size: 24
21986447 GCTTTATCAT
* *
21986457 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
21986482 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
*
21986506 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
21986529 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
21986553 ATTACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
21986577 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
21986601 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
21986625 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
21986649 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
21986673 -TAACTGGGGCATAAGCCC--TTG
1 ATAACTGGGGCATAAGCCCTTTTG
21986694 AATAACTGGGGCATAAGCCCTTTT
1 -ATAACTGGGGCATAAGCCCTTTT
21986718 TCACTTCCTC
Statistics
Matches: 218, Mismatches: 12, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
21 3 0.01
23 58 0.27
24 143 0.66
25 14 0.06
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:21986792 original size:20 final size:20
Alignment explanation
Indices: 21986767--21986833 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
21986757 TTAGGATTAC
21986767 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
21986787 ATCATGTGCGTATCATACAT
1 ATCATGTGCATATCATACAT
*
21986807 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
21986827 ACCATGT
1 ATCATGT
21986834 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:21988138 original size:27 final size:27
Alignment explanation
Indices: 21988077--21988153 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
21988067 GGCATATTCA
21988077 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
* *
21988104 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAGGGG-TATTACGG
* *
21988131 TCTTTTTACC-TGATAGGGGTATT
1 TCATTTTACCAT-ACAGGGGTATT
21988154 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 39 0.93
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGG
Found at i:21988224 original size:27 final size:27
Alignment explanation
Indices: 21988198--21988598 Score: 161
Period size: 27 Copynumber: 14.8 Consensus size: 27
21988188 ATCTACAAAC
*
21988198 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *
21988225 CAATGGTATTTC--TATATTTTTTAGAAAGT
1 CAAGGGTATTTCAGTA-ATTTTGT--AAA-T
* *
21988254 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
21988281 CATGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** * ** *
21988308 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** **
21988335 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *
21988361 CTAGGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTCAGTAATTTTGTAAAT
* *** *
21988389 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** * *
21988416 CAAGGGTAAAAT-AGTAATTCTATAAAT
1 CAAGGGT-ATTTCAGTAATTTTGTAAAT
* ** * *
21988443 CAAAGGTAAAAT-AGTAATTCTATAAAT
1 CAAGGGT-ATTTCAGTAATTTTGTAAAT
* *** * *
21988470 CGAGGGTAAAACTGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* * ** *
21988497 CGAGGGTACTTT-GGTAATTTTACAAGT
1 CAAGGGTA-TTTCAGTAATTTTGTAAAT
**
21988524 CGAA-GGTATTTCAGTAATTTTACAAAT
1 C-AAGGGTATTTCAGTAATTTTGTAAAT
* ** * *
21988551 CGAGGGTATTTGGGTAATTTTATAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
21988578 CAAGGGTTATTT-GGTAATTTT
1 CAAGGG-TATTTCAGTAATTTT
21988599 ACAACTGGGG
Statistics
Matches: 302, Mismatches: 57, Indels: 30
0.78 0.15 0.08
Matches are distributed among these distances:
25 2 0.01
26 14 0.05
27 252 0.83
28 16 0.05
29 11 0.04
30 5 0.02
31 2 0.01
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:21988379 original size:81 final size:80
Alignment explanation
Indices: 21988284--21988745 Score: 282
Period size: 81 Copynumber: 5.7 Consensus size: 80
21988274 TGTAAATCAT
* * *** * *
21988284 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAACCAAGGGTATTTTGG
21988349 TAATTTTACAAACTAG
66 TAATTTTAC-AACTAG
** * * * *** *
21988365 GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAG
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAACCAAGGGTATTTTGG
* * * *
21988430 TAATTCTATAAATCAA
66 TAATTTTACAACT-AG
* *** * * * * * * *
21988446 AGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACTGTAATTCTGTAAATCGAGGGTACTTTGG
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAACCAAGGGTATTTTGG
* *
21988511 TAATTTTACAAGTCG
66 TAATTTTACAACTAG
* * **** *
21988526 AAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTGGGTAATTTTATAAACCAAGGGT-TATTT
1 -GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAACCAAGGGTAT-TTT
*
21988590 GGTAATTTTACAACTGG
64 GGTAATTTTACAACTAG
* * * * ** ***
21988607 GGGTATTTTAGTAA-TTT-CATAATAGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAATG
1 GGGTATTTTAGTAATTTTACA-AATCGAGGGTAAAACGGTAATTCTATAAACCAAGGGTATTTTG
** * *
21988670 GTAATTTTGTAAATCG
65 GTAATTTTACAACTAG
**** * * * * *
21988686 AGGGTAAAACAATAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTA
1 -GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAACCAAGGGTA
21988746 AAATGGTAAT
Statistics
Matches: 290, Mismatches: 83, Indels: 16
0.75 0.21 0.04
Matches are distributed among these distances:
78 2 0.01
79 46 0.16
80 24 0.08
81 217 0.75
82 1 0.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (80 bp):
GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAACCAAGGGTATTTTGG
TAATTTTACAACTAG
Found at i:21988395 original size:54 final size:54
Alignment explanation
Indices: 21988179--21988396 Score: 213
Period size: 54 Copynumber: 4.0 Consensus size: 54
21988169 TACAAAGGTG
* * * *
21988179 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTA
* * * * * * * *
21988233 TTTCT-ATATTTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAATCATGGGTA
1 TTT-TGGTA-ATTTTACAAACT-AAGGGTATTTCAGTAATTTTGTAAACCAAGGGTA
* * * **
21988289 TTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTA
* * * *
21988343 TTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTA
21988397 AAACAGTAAT
Statistics
Matches: 128, Mismatches: 32, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
54 77 0.60
55 17 0.13
56 34 0.27
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTA
Found at i:21988423 original size:54 final size:54
Alignment explanation
Indices: 21988373--21988799 Score: 296
Period size: 54 Copynumber: 7.9 Consensus size: 54
21988363 AGGGGTATTT
* ** *
21988373 TAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAA
* * * * *
21988427 TAGTAATTCTATAAATCAAAGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAA
* * *** * * * **
21988481 CT-GTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAA-GGT-ATT
1 -TAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATC-AAGGGTAAAA
* ** * * * **
21988534 TCAGTAATTTTACAAATCGAGGGT-ATTTGGGTAATTTTATAAACCAAGGGTTATT
1 T-AGTAATTTTATAAATCGAGGGTAAAAT-GGTAATTCTATAAATCAAGGGTAAAA
* * * * *** *
21988589 TGGTAATTTTACAACT-GGGGGTATTTTAGTAATT-TCAT-AAT-AGAGGGTAAAA
1 TAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCT-ATAAATCA-AGGGTAAAA
* * * * *
21988641 TGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTTTATAAATC-GAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAA
* * *
21988695 CAATAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAA
* * * * *
21988749 TGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTGTAAATCAAGGGTA
1 TAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTA
21988800 CTTTGGTAAT
Statistics
Matches: 297, Mismatches: 60, Indels: 32
0.76 0.15 0.08
Matches are distributed among these distances:
51 1 0.00
52 22 0.07
53 33 0.11
54 234 0.79
55 7 0.02
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (54 bp):
TAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAA
Found at i:21988664 original size:27 final size:27
Alignment explanation
Indices: 21988631--21988799 Score: 232
Period size: 27 Copynumber: 6.3 Consensus size: 27
21988621 TTTCATAATA
21988631 GAGGGTAAAATGGTAATTTTGTAAA-C
1 GAGGGTAAAATGGTAATTTTGTAAATC
21988657 TGAGGGTAAAATGGTAATTTTGTAAATC
1 -GAGGGTAAAATGGTAATTTTGTAAATC
*** *
21988685 GAGGGTAAAACAATAATTTTATAAATC
1 GAGGGTAAAATGGTAATTTTGTAAATC
* *
21988712 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTTTGTAAATC
21988739 GAGGGTAAAATGGTAATTTTGTAAATC
1 GAGGGTAAAATGGTAATTTTGTAAATC
* * *
21988766 GAGGGTGAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTTTGTAAATC
*
21988793 AAGGGTA
1 GAGGGTA
21988800 CTTTGGTAAT
Statistics
Matches: 126, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
27 125 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTTTGTAAATC
Found at i:21988746 original size:81 final size:81
Alignment explanation
Indices: 21988374--21988799 Score: 358
Period size: 81 Copynumber: 5.3 Consensus size: 81
21988364 GGGGTATTTT
* ** * * *
21988374 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTAT
1 AGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAT
* * *
21988439 AAATCAAAGGTAAAAT
66 AAATCGAGGGTAAAAC
* ***
21988455 AGTAATTCTATAAATCGAGGGTAAAACT-GTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTA
1 AGTAATTTTATAAATCGAGGGTAAAA-TGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTA
* * * ***
21988519 CAAGTCGAAGGTATTTC
65 TAAATCGAGGGTAAAAC
* ** * * * * * **
21988536 AGTAATTTTACAAATCGAGGGT-ATTTGGGTAATTTTATAAACCAAGGGTTATTTGGTAATTTTA
1 AGTAATTTTATAAATCGAGGGTAAAAT-GGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTA
* * * ****
21988600 CAACT-GGGGGTATTTT
65 TAAATCGAGGGTAAAAC
* * * *
21988616 AGTAATTTCAT-AATAGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTG
1 AGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATC-GAGGGTAAAATGGTAATTTTA
21988679 TAAATCGAGGGTAAAAC
65 TAAATCGAGGGTAAAAC
* * *
21988696 AATAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGT
1 AGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAT
*
21988761 AAATCGAGGGTGAAAC
66 AAATCGAGGGTAAAAC
* * * *
21988777 GGTAATTCTGTAAATCAAGGGTA
1 AGTAATTTTATAAATCGAGGGTA
21988800 CTTTGGTAAT
Statistics
Matches: 278, Mismatches: 59, Indels: 16
0.79 0.17 0.05
Matches are distributed among these distances:
78 1 0.00
79 42 0.15
80 35 0.13
81 199 0.72
82 1 0.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.33
Consensus pattern (81 bp):
AGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAT
AAATCGAGGGTAAAAC
Found at i:21988810 original size:27 final size:26
Alignment explanation
Indices: 21988375--21988799 Score: 193
Period size: 27 Copynumber: 15.8 Consensus size: 26
21988365 GGGTATTTTA
* **
21988375 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGT-AAATG
* *
21988402 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGT-AAATG
* * * *
21988429 GTAATTCTATAAATCAAAGGTAAAATA
1 GTAATTCTGTAAATCGAGGGT-AAATG
*
21988456 GTAATTCTATAAATCGAGGGTAAAACT-
1 GTAATTCTGTAAATCGAGGGT-AAA-TG
**
21988483 GTAATTCTGTAAATCGAGGGTACTTTG
1 GTAATTCTGTAAATCGAGGGTA-AATG
* ** *
21988510 GTAATT-T-TACAAGTCGAAGGTATTTCA
1 GTAATTCTGTA-AA-TCGAGGGTAAAT-G
* ** **
21988537 GTAATTTTACAAATCGAGGGTATTTGG
1 GTAATTCTGTAAATCGAGGGTAAAT-G
* * * * **
21988564 GTAATTTTATAAACCAAGGGTTATTTG
1 GTAATTCTGTAAATCGAGGG-TAAATG
* ** *
21988591 GTAATT-T-TACAA-CTGGGGGTATTTTA
1 GTAATTCTGTA-AATC-GAGGGTA-AATG
* *
21988617 GTAATT-T-CATAATAGAGGGTAAAATG
1 GTAATTCTGTA-AATCGAGGGT-AAATG
*
21988643 GTAATTTTGTAAA-CTGAGGGTAAAATG
1 GTAATTCTGTAAATC-GAGGGT-AAATG
* **
21988670 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGT-AAATG
* * *
21988697 ATAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGT-AAATG
*
21988724 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGT-AAATG
* *
21988751 GTAATTTTGTAAATCGAGGGTGAAACG
1 GTAATTCTGTAAATCGAGGGT-AAATG
*
21988778 GTAATTCTGTAAATCAAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
21988800 CTTTGGTAAT
Statistics
Matches: 335, Mismatches: 45, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
25 7 0.02
26 40 0.12
27 276 0.82
28 11 0.03
29 1 0.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.33
Consensus pattern (26 bp):
GTAATTCTGTAAATCGAGGGTAAATG
Found at i:21988836 original size:81 final size:81
Alignment explanation
Indices: 21988632--21988844 Score: 185
Period size: 81 Copynumber: 2.6 Consensus size: 81
21988622 TTCATAATAG
* ** ** *
21988632 AGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAAC
1 AGGGTAAAATGGTAATTCTACAAATC-GAGGACAAAATAGTAATTTTGTAAATCGAGGGTAAAAC
* *
21988696 AATAATTTTATAAATCG
65 AATAATTCTATAAATCA
* ** * * *
21988713 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTGAAACG
1 AGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAATCGAGGGTAAAACA
* *
21988778 GTAATTCTGTAAATCA
66 ATAATTCTATAAATCA
*** * * *** *
21988794 AGGGTACTTTGGTAATTTTACAAATTGAGGACATTTTAGTAATTTGGTAAA
1 AGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAA
21988845 CAAAAGTATT
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
81 109 0.99
82 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (81 bp):
AGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAATCGAGGGTAAAACA
ATAATTCTATAAATCA
Found at i:21993701 original size:27 final size:27
Alignment explanation
Indices: 21993670--21993722 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
21993660 GTGAAATTAT
*
21993670 CGTAAAACCTCTGTAGGGTAAAATGAC
1 CGTAAAACCCCTGTAGGGTAAAATGAC
*
21993697 CGTAAAACCCCTGTATGGTAAAATGA
1 CGTAAAACCCCTGTAGGGTAAAATGA
21993723 TGATTATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
CGTAAAACCCCTGTAGGGTAAAATGAC
Found at i:21993950 original size:27 final size:27
Alignment explanation
Indices: 21993859--21993959 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 27
21993849 ATGGAGGAAG
* * *
21993859 TACTG-TACTGGTGACTATGTCACATT
1 TACTGTTACTGGTGGCTTTGCCACATT
* * *
21993885 CACTATTACTGGTGG-TTATGCCACAAT
1 TACTGTTACTGGTGGCTT-TGCCACATT
*
21993912 TACTGATACTGGTGGCTTTGCCACATT
1 TACTGTTACTGGTGGCTTTGCCACATT
* **
21993939 TACTGTTTCTGGCAGCTTTGC
1 TACTGTTACTGGTGGCTTTGC
21993960 TGCAATATCG
Statistics
Matches: 58, Mismatches: 14, Indels: 5
0.75 0.18 0.06
Matches are distributed among these distances:
26 4 0.07
27 52 0.90
28 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTTGCCACATT
Found at i:22006318 original size:17 final size:16
Alignment explanation
Indices: 22006291--22006324 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
22006281 TATTTAACCA
*
22006291 AAATTAAATTAGTTAT
1 AAATTAAATTAATTAT
22006307 AAATTAAAATTAATTAT
1 AAATT-AAATTAATTAT
22006324 A
1 A
22006325 TTATGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
AAATTAAATTAATTAT
Found at i:22006328 original size:22 final size:22
Alignment explanation
Indices: 22006290--22006335 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
22006280 TTATTTAACC
*
22006290 AAAATTAAATTAGTTATAAATT
1 AAAATTAAATTAATTATAAATT
*
22006312 AAAATT-AATTATATTATGAATT
1 AAAATTAAATTA-ATTATAAATT
22006334 AA
1 AA
22006336 TATACATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
AAAATTAAATTAATTATAAATT
Found at i:22009295 original size:12 final size:12
Alignment explanation
Indices: 22009273--22009310 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
22009263 GTGTTTTCTT
22009273 TTTCCTT-TTTC
1 TTTCCTTATTTC
*
22009284 TTTCTTTATTTC
1 TTTCCTTATTTC
*
22009296 TTTCCTTCTTTC
1 TTTCCTTATTTC
22009308 TTT
1 TTT
22009311 ATTTTTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTCCTTATTTC
Found at i:22013672 original size:22 final size:22
Alignment explanation
Indices: 22013644--22013690 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
22013634 CCTTTTTGAA
22013644 CCCTTACCATTTCGTACCAAAT
1 CCCTTACCATTTCGTACCAAAT
*
22013666 CCCTTACCATTTCGTACCAATT
1 CCCTTACCATTTCGTACCAAAT
22013688 CCC
1 CCC
22013691 AAATACCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.40, G:0.04, T:0.32
Consensus pattern (22 bp):
CCCTTACCATTTCGTACCAAAT
Found at i:22014009 original size:15 final size:15
Alignment explanation
Indices: 22013989--22014023 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22013979 ATAGGTACGT
*
22013989 AAAAAAAAGAGTTTG
1 AAAAAAAAAAGTTTG
*
22014004 AAAAAAAAAATTTTG
1 AAAAAAAAAAGTTTG
22014019 AAAAA
1 AAAAA
22014024 TTTTTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (15 bp):
AAAAAAAAAAGTTTG
Found at i:22018659 original size:22 final size:22
Alignment explanation
Indices: 22018631--22018677 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
22018621 CCTTTTTGAA
22018631 CCCTTACCATTTCGTACCAAAT
1 CCCTTACCATTTCGTACCAAAT
*
22018653 CCCTTACCATTTCGTACCAATT
1 CCCTTACCATTTCGTACCAAAT
22018675 CCC
1 CCC
22018678 AAATACCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.40, G:0.04, T:0.32
Consensus pattern (22 bp):
CCCTTACCATTTCGTACCAAAT
Found at i:22026438 original size:34 final size:33
Alignment explanation
Indices: 22026394--22026469 Score: 109
Period size: 34 Copynumber: 2.3 Consensus size: 33
22026384 ATATCAATGG
*
22026394 CAATAACAGTGTGGGTCTTAGCCC-ATTACAGTAA
1 CAATATCAGTGTGGGTCTTAGCCCAATT-CAGT-A
22026428 CAATATCAGTGTGGGTCTTAGCCCAATTCAGTA
1 CAATATCAGTGTGGGTCTTAGCCCAATTCAGTA
*
22026461 CAGTATCAG
1 CAATATCAG
22026470 AGAAGCACAC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
33 9 0.23
34 27 0.69
35 3 0.08
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (33 bp):
CAATATCAGTGTGGGTCTTAGCCCAATTCAGTA
Found at i:22029748 original size:23 final size:22
Alignment explanation
Indices: 22029705--22029749 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
22029695 GGGCTTAGAT
**
22029705 ATCTTCACAAAATCCTTAATGA
1 ATCTTCACAAAATCCCGAATGA
*
22029727 ATCTTCTATAAAATCCCGAATGA
1 ATCTTC-ACAAAATCCCGAATGA
22029750 CCTAAAAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (22 bp):
ATCTTCACAAAATCCCGAATGA
Found at i:22034249 original size:47 final size:47
Alignment explanation
Indices: 22034173--22034767 Score: 965
Period size: 47 Copynumber: 12.6 Consensus size: 47
22034163 TATTTGAATA
22034173 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
22034222 AATGTGAAAATGCATATATGTGATAAGGCCTAATAGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
22034269 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
22034316 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
22034363 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGACGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
22034412 AATGTGAAAGTGTATATATTTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
22034459 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
22034506 AATGTGAAAGTGTATATATGTGATAAGGTCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
22034553 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
22034600 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
22034647 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
22034694 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
22034741 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
22034768 TCCCGAAGGG
Statistics
Matches: 512, Mismatches: 32, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
47 454 0.89
49 58 0.11
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:22036487 original size:28 final size:28
Alignment explanation
Indices: 22036424--22036521 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
22036414 ATATTAAGTC
*
22036424 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
22036451 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
22036479 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
22036508 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22036522 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:22038150 original size:37 final size:37
Alignment explanation
Indices: 22038049--22038150 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
22038039 CCGAGCTCTA
*
22038049 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
22038086 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* *
22038123 AAGACCCGATAACTTCGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
22038151 CGTCTGAGCT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:22039689 original size:27 final size:27
Alignment explanation
Indices: 22039658--22039721 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
22039648 CCCCAAGACT
22039658 GGTAAAATGACCAAAATACCCCTAAAG
1 GGTAAAATGACCAAAATACCCCTAAAG
* ** **
22039685 GGTAAAATGACTAATTTACCCCTCGAG
1 GGTAAAATGACCAAAATACCCCTAAAG
22039712 GGT-AAATGAC
1 GGTAAAATGAC
22039722 ATATATGTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 7 0.22
27 25 0.78
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCAAAATACCCCTAAAG
Found at i:22043835 original size:18 final size:18
Alignment explanation
Indices: 22043812--22043870 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
22043802 AAATTTCAAA
22043812 AACTTAAACATTTTTTCT
1 AACTTAAACATTTTTTCT
* * *
22043830 AACTTATACATAATTTTCAAA
1 AACTTAAACAT-TTTTTC--T
*
22043851 AACTGAAACATTTTTTCT
1 AACTTAAACATTTTTTCT
22043869 AA
1 AA
22043871 GTGTTAAAGG
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
18 12 0.39
19 5 0.16
20 5 0.16
21 9 0.29
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.42
Consensus pattern (18 bp):
AACTTAAACATTTTTTCT
Found at i:22043839 original size:39 final size:39
Alignment explanation
Indices: 22043796--22043870 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
22043786 AACCGAGCTC
*
22043796 ATACATAAATTTCAAAAACTTAAACATTTTTTCTAACTT
1 ATACATAAATTTCAAAAACTGAAACATTTTTTCTAACTT
*
22043835 ATACATAATTTTCAAAAACTGAAACATTTTTTCTAA
1 ATACATAAATTTCAAAAACTGAAACATTTTTTCTAA
22043871 GTGTTAAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.01, T:0.40
Consensus pattern (39 bp):
ATACATAAATTTCAAAAACTGAAACATTTTTTCTAACTT
Found at i:22043861 original size:21 final size:21
Alignment explanation
Indices: 22043798--22043861 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
22043788 CCGAGCTCAT
*
22043798 ACATAAATTTCAAAAACTTAA
1 ACATAATTTTCAAAAACTTAA
* * *
22043819 ACAT-TTTTTC--TAACTTAT
1 ACATAATTTTCAAAAACTTAA
*
22043837 ACATAATTTTCAAAAACTGAA
1 ACATAATTTTCAAAAACTTAA
22043858 ACAT
1 ACAT
22043862 TTTTTCTAAG
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 10 0.31
19 5 0.16
20 4 0.12
21 13 0.41
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.36
Consensus pattern (21 bp):
ACATAATTTTCAAAAACTTAA
Found at i:22045530 original size:44 final size:42
Alignment explanation
Indices: 22045403--22045541 Score: 127
Period size: 42 Copynumber: 3.2 Consensus size: 42
22045393 GTCCCGGATG
* * * *
22045403 TGGTCTTACATGAAATTCAATTTCGATGCCTCTTTCCCAGACA
1 TGGTCTTACATGAAATTCAA-ATCGATGCCTATGTCCCAAACA
* * * * *
22045446 GGGTCTTACACGAAATT-AGATACGATGTCTATGTCTCAAACA
1 TGGTCTTACATGAAATTCAAAT-CGATGCCTATGTCCCAAACA
*
22045488 TGGTCTTACATGTAAATCTCAAATCGATGCCTGTGTCCCAAACA
1 TGGTCTTACATG-AAAT-TCAAATCGATGCCTATGTCCCAAACA
* *
22045532 CGATCTTACA
1 TGGTCTTACA
22045542 CGATATCTCA
Statistics
Matches: 75, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
41 1 0.01
42 26 0.35
43 19 0.25
44 26 0.35
45 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
TGGTCTTACATGAAATTCAAATCGATGCCTATGTCCCAAACA
Found at i:22050284 original size:40 final size:38
Alignment explanation
Indices: 22050232--22050414 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 38
22050222 TAACTCATTC
* *
22050232 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTGT--AACTCGCACA
*
22050272 AATGCCTTCGGGACTTAACCCGGAATTGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTGTAACTCGCACA
* *
22050311 AAGGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATT-GTAACTCGCACA
* ** * *
22050351 AAGGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAT-T-GTAAC-TCGCACA
*
22050392 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22050415 CAGCATTCAA
Statistics
Matches: 127, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
39 39 0.31
40 73 0.57
41 15 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAACCCGGATTGTAACTCGCACA
Done.