Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 216 of 322
Found at i:71432455 original size:38 final size:38
Alignment explanation
Indices: 71432394--71432637 Score: 110
Period size: 38 Copynumber: 5.7 Consensus size: 38
71432384 ATTCATTAAC
* *
71432394 GTGGTGCAAAGTGAATATACCACAGTTAAACATGTAAT
1 GTGGTGCTAAGTGGATATACCACAGTTAAACATGTAAT
* * *
71432432 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACAGTTA-A-ACA-TG------TAAT
* * * *
71432479 GTGGTGTTAAGTGGATATACCACGGTTAAATATGTAAC
1 GTGGTGCTAAGTGGATATACCACAGTTAAACATGTAAT
* * * * *
71432517 GTAGTGTTAAGTGGATATGCCACGGTTATACATGTTAAT
1 GTGGTGCTAAGTGGATATACCACAGTTAAACATG-TAAT
*
71432556 TTGAAAAGTGGCGTTAAGTGCGTAAAGTGAATATACCACAGTTAAACATGTAAT
1 GTG----GT-GC--TAA--G--T---G-G-ATATACCACAGTTAAACATGTAAT
*
71432610 GTGGTGCTAAGTGGATATGCCACAGTTA
1 GTGGTGCTAAGTGGATATACCACAGTTA
71432638 CATATATTGA
Statistics
Matches: 159, Mismatches: 21, Indels: 52
0.69 0.09 0.22
Matches are distributed among these distances:
38 72 0.45
39 6 0.04
40 3 0.02
41 2 0.01
43 3 0.02
44 3 0.02
45 4 0.03
46 4 0.03
47 31 0.19
48 1 0.01
49 2 0.01
50 3 0.02
53 1 0.01
54 7 0.04
55 17 0.11
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACAGTTAAACATGTAAT
Found at i:71432481 original size:85 final size:85
Alignment explanation
Indices: 71432338--71432722 Score: 468
Period size: 85 Copynumber: 4.4 Consensus size: 85
71432328 TCATATTGAT
*
71432338 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCAA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGTAA
71432403 AGTGAATATACCACAGTTAA
66 AGTGAATATACCACAGTTAA
* * *
71432423 ACATGTAATGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGTAA
* *
71432488 AGTGGATATACCACGGTTAA
66 AGTGAATATACCACAGTTAA
* * * * * *
71432508 ATATGTAACGTAGTGTTAAGTGGATATGCCACGGTTATACATGTTAATTTGAAAAGTGGCGTTAA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGG-T-TACAT-AT-A-TTG---A-T-TCATTAA
*
71432573 -GT-GCGTAAAGTGAATATACCACAGTTAA
56 CGTGGTGTAAAGTGAATATACCACAGTTAA
* * *
71432601 ACATGTAATGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGTAA
** *
71432666 AGTGGGTATACCACGGTTAA
66 AGTGAATATACCACAGTTAA
* * *
71432686 ATATGTAACGTAGTGTTAAGTGGATATGCCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
71432723 TACATGTTAA
Statistics
Matches: 252, Mismatches: 36, Indels: 24
0.81 0.12 0.08
Matches are distributed among these distances:
83 5 0.02
84 3 0.01
85 162 0.64
86 1 0.00
87 5 0.02
88 4 0.02
89 2 0.01
90 4 0.02
91 5 0.02
92 1 0.00
93 52 0.21
94 3 0.01
95 5 0.02
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGTAA
AGTGAATATACCACAGTTAA
Found at i:71432610 original size:178 final size:178
Alignment explanation
Indices: 71432401--71432757 Score: 705
Period size: 178 Copynumber: 2.0 Consensus size: 178
71432391 AACGTGGTGC
71432401 AAAGTGAATATACCACAGTTAAACATGTAATGTGGTGCTAAGTGGATATGCCACAGTTACATATA
1 AAAGTGAATATACCACAGTTAAACATGTAATGTGGTGCTAAGTGGATATGCCACAGTTACATATA
71432466 TTGATTCATTAACGTGGTGTTAAGTGGATATACCACGGTTAAATATGTAACGTAGTGTTAAGTGG
66 TTGATTCATTAACGTGGTGTTAAGTGGATATACCACGGTTAAATATGTAACGTAGTGTTAAGTGG
71432531 ATATGCCACGGTTATACATGTTAATTTGAAAAGTGGCGTTAAGTGCGT
131 ATATGCCACGGTTATACATGTTAATTTGAAAAGTGGCGTTAAGTGCGT
71432579 AAAGTGAATATACCACAGTTAAACATGTAATGTGGTGCTAAGTGGATATGCCACAGTTACATATA
1 AAAGTGAATATACCACAGTTAAACATGTAATGTGGTGCTAAGTGGATATGCCACAGTTACATATA
*
71432644 TTGATTCATTAACGTGGTGTTAAGTGGGTATACCACGGTTAAATATGTAACGTAGTGTTAAGTGG
66 TTGATTCATTAACGTGGTGTTAAGTGGATATACCACGGTTAAATATGTAACGTAGTGTTAAGTGG
71432709 ATATGCCACGGTTATACATGTTAATTTGAAAAGTGGCGTTAAGTGCGT
131 ATATGCCACGGTTATACATGTTAATTTGAAAAGTGGCGTTAAGTGCGT
71432757 A
1 A
71432758 TGCCATAATT
Statistics
Matches: 178, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
178 178 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (178 bp):
AAAGTGAATATACCACAGTTAAACATGTAATGTGGTGCTAAGTGGATATGCCACAGTTACATATA
TTGATTCATTAACGTGGTGTTAAGTGGATATACCACGGTTAAATATGTAACGTAGTGTTAAGTGG
ATATGCCACGGTTATACATGTTAATTTGAAAAGTGGCGTTAAGTGCGT
Found at i:71435658 original size:3 final size:3
Alignment explanation
Indices: 71435650--71435675 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
71435640 ATTTCAATTT
71435650 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
71435676 GTATCTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:71437263 original size:60 final size:58
Alignment explanation
Indices: 71437188--71437335 Score: 172
Period size: 60 Copynumber: 2.5 Consensus size: 58
71437178 TTCCTATGCT
* * * *
71437188 TTTTTTTGTCCAATTTGGTACCTAAATTTGATAATTT-TTCCTATTTTGGCAGCTAAGC
1 TTTTTTTGTTCAATTTGGTACCTAAATTTGACAATTTCTT-CTAATTTGGCACCTAAGC
* * * * *
71437246 TTTTTTGGTGTTCAATTTGGCACCTGAACTTGACACTTTCTTCTAATTTGGCCCCTAAGC
1 TTTTTT--TGTTCAATTTGGTACCTAAATTTGACAATTTCTTCTAATTTGGCACCTAAGC
*
71437306 TTTTTTTGTTCAATTTGGTAGCTAAATTTG
1 TTTTTTTGTTCAATTTGGTACCTAAATTTG
71437336 TCAAATAGTA
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
58 26 0.35
60 46 0.62
61 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.47
Consensus pattern (58 bp):
TTTTTTTGTTCAATTTGGTACCTAAATTTGACAATTTCTTCTAATTTGGCACCTAAGC
Found at i:71438381 original size:21 final size:22
Alignment explanation
Indices: 71438356--71438408 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
71438346 TTCACTGTTG
*
71438356 TTTTGTTATTG-TTTGTTGCTA
1 TTTTGTTATTGTTTTGTTGCCA
*
71438377 TTTTGATATTGTTTTGTTGCCA
1 TTTTGTTATTGTTTTGTTGCCA
*
71438399 TTTAGTTATT
1 TTTTGTTATT
71438409 ATATTACTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.13, C:0.06, G:0.17, T:0.64
Consensus pattern (22 bp):
TTTTGTTATTGTTTTGTTGCCA
Found at i:71439704 original size:15 final size:15
Alignment explanation
Indices: 71439686--71439723 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
71439676 TAATAATATA
71439686 TAATGTGAAATTGAT
1 TAATGTGAAATTGAT
71439701 TAATGTGAAATTGAT
1 TAATGTGAAATTGAT
71439716 TAATGTGA
1 TAATGTGA
71439724 TCATATCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (15 bp):
TAATGTGAAATTGAT
Found at i:71442002 original size:58 final size:60
Alignment explanation
Indices: 71441890--71442002 Score: 142
Period size: 58 Copynumber: 1.9 Consensus size: 60
71441880 AAATAGTATC
* * * *
71441890 AAGTTTAGGTACCAAGTTGAACTAAAAAAAAAGCTTAATACTAAATTAGGAAAAATTGCT
1 AAGTTTAGGTACCAAATTGAAATAAAAAAAAAGCTTAATACCAAATTAGAAAAAATTGCT
* *
71441950 AAGTTTAGGTATCAAATT-AAAT-AAAAAAAA-CTTAAGTACCAAATTTGAAAAAA
1 AAGTTTAGGTACCAAATTGAAATAAAAAAAAAGCTTAA-TACCAAATTAGAAAAAA
71442003 ATCTGAAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
57 5 0.11
58 22 0.48
59 3 0.07
60 16 0.35
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (60 bp):
AAGTTTAGGTACCAAATTGAAATAAAAAAAAAGCTTAATACCAAATTAGAAAAAATTGCT
Found at i:71443221 original size:38 final size:38
Alignment explanation
Indices: 71443170--71443292 Score: 120
Period size: 38 Copynumber: 3.2 Consensus size: 38
71443160 TGGTTGCATG
* * ** * *
71443170 CCTACCATCATTGTTGAACCAAATACATGTTAAACGTG
1 CCTACTATTATTGTTGAACTGAATACATGTTAAACATA
* * *
71443208 CCTATTGTTATTGTTGAACTGAATACATGATAAACATA
1 CCTACTATTATTGTTGAACTGAATACATGTTAAACATA
* * * *
71443246 TCTACTATTATTGTTAAACTGAATACATGTTAAGCATG
1 CCTACTATTATTGTTGAACTGAATACATGTTAAACATA
*
71443284 TCTACTATT
1 CCTACTATT
71443293 TCTATACTGA
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 69 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (38 bp):
CCTACTATTATTGTTGAACTGAATACATGTTAAACATA
Found at i:71444954 original size:40 final size:40
Alignment explanation
Indices: 71444909--71445060 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
71444899 ATAACCACAA
* * *
71444909 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
71444949 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
71444989 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
71445029 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
71445061 CATTCAAATG
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:71449840 original size:38 final size:38
Alignment explanation
Indices: 71449780--71449898 Score: 123
Period size: 38 Copynumber: 3.1 Consensus size: 38
71449770 GTTATTGGTT
** * *
71449780 GCATGCCTACCATCACTATTGAACCGAATACATATTAA
1 GCATGCCTACTGTTACTGTTGAACCGAATACATATTAA
* * **
71449818 ACATGCCTATTGTTACTGTTGAAATGAATACATGA-TAA
1 GCATGCCTACTGTTACTGTTGAACCGAATACAT-ATTAA
* * *
71449856 GCATGTCTACTGTTACTGTTAAACCGAATACATGTTAA
1 GCATGCCTACTGTTACTGTTGAACCGAATACATATTAA
71449894 GCATG
1 GCATG
71449899 TTTACTATTT
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
38 63 0.98
39 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (38 bp):
GCATGCCTACTGTTACTGTTGAACCGAATACATATTAA
Found at i:71449899 original size:38 final size:39
Alignment explanation
Indices: 71449801--71449904 Score: 131
Period size: 38 Copynumber: 2.7 Consensus size: 39
71449791 ATCACTATTG
* * * *
71449801 AACCGAATACATATTAAACATGCCTATTGTTACTGTTGA
1 AACCGAATACATGTTAAGCATGTCTACTGTTACTGTTGA
* *
71449840 AA-TGAATACATGATAAGCATGTCTACTGTTACTGTT-A
1 AACCGAATACATGTTAAGCATGTCTACTGTTACTGTTGA
*
71449877 AACCGAATACATGTTAAGCATGTTTACT
1 AACCGAATACATGTTAAGCATGTCTACT
71449905 ATTTCTATAC
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
37 3 0.05
38 50 0.91
39 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (39 bp):
AACCGAATACATGTTAAGCATGTCTACTGTTACTGTTGA
Found at i:71450171 original size:91 final size:91
Alignment explanation
Indices: 71450000--71450203 Score: 230
Period size: 91 Copynumber: 2.2 Consensus size: 91
71449990 AACTGTAAAC
* * * * **
71450000 ACTGGTGGTTTATCCACAAATTTAGTGGCAACTTTTATTTTCAAATACGTTGTGTTTTCACAACC
1 ACTGGTGGTTCATCCACAAACTTAGTGGCAACTTTTATATGCAAATACGTTGTGCATTCACAACC
* *
71450065 TACTAGCAATGTATTAACCTACAAAA
66 TACTAGCAATATATTAACCAACAAAA
* * * ** *
71450091 ATTGGTAGTTCATCCACAAACTTA-TAGGCAGCTTTTATATGCAAATGTGTTGTGCATTCACAAG
1 ACTGGTGGTTCATCCACAAACTTAGT-GGCAACTTTTATATGCAAATACGTTGTGCATTCACAAC
* *
71450155 CTACTGGCAATATATTAACCAACAAAC
65 CTACTAGCAATATATTAACCAACAAAA
* *
71450182 ACTAGTGGTTCATCTACAAACT
1 ACTGGTGGTTCATCCACAAACT
71450204 AGAGTGTCCG
Statistics
Matches: 92, Mismatches: 20, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
90 1 0.01
91 91 0.99
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (91 bp):
ACTGGTGGTTCATCCACAAACTTAGTGGCAACTTTTATATGCAAATACGTTGTGCATTCACAACC
TACTAGCAATATATTAACCAACAAAA
Found at i:71460793 original size:14 final size:14
Alignment explanation
Indices: 71460774--71460800 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
71460764 CTACTTCAAG
71460774 CTTACTCCTCAACC
1 CTTACTCCTCAACC
71460788 CTTACTCCTCAAC
1 CTTACTCCTCAAC
71460801 TTGTCAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.48, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTACTCCTCAACC
Found at i:71463000 original size:25 final size:26
Alignment explanation
Indices: 71462957--71463010 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
71462947 TTAAATTTTA
*
71462957 AAATAATATTTATAGTAATATTAAAT
1 AAATAATAATTATAGTAATATTAAAT
* *
71462983 AAAT-ATAATTATATTAATATTACAT
1 AAATAATAATTATAGTAATATTAAAT
71463008 AAA
1 AAA
71463011 AATCCCCCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
AAATAATAATTATAGTAATATTAAAT
Found at i:71468985 original size:39 final size:39
Alignment explanation
Indices: 71468918--71469174 Score: 381
Period size: 39 Copynumber: 6.5 Consensus size: 39
71468908 ACAAAGCATG
* * * *
71468918 CGGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
71468958 CGGGACTTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
71468998 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
71469037 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
71469076 CGGAACTTAGCCCGGATATAACACTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
71469115 CGAGACTTAGCCTGAATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
71469154 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
71469175 TTCTCCATTA
Statistics
Matches: 199, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 179 0.90
40 20 0.10
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:71471857 original size:52 final size:51
Alignment explanation
Indices: 71471743--71471919 Score: 243
Period size: 52 Copynumber: 3.5 Consensus size: 51
71471733 CGGATACCCG
* * * * *
71471743 GTGGCCTGCACATGGTACCACCCTTGT-ATCCAAAGCTACCTTCTTCACCAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAA
*
71471794 GTGGCCTTCACATAGTACCACACTTGTGACCAAAACTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAA
* *
71471846 GTGGCCTTCACATAGTACCACACTTGTGTCC-AAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
71471895 GTGGCCTTCACATAGTACCACACTT
1 GTGGCCTTCACATAGTACCACACTT
71471920 AAGGCACTAG
Statistics
Matches: 115, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
49 34 0.30
51 40 0.35
52 41 0.36
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
Found at i:71471908 original size:49 final size:51
Alignment explanation
Indices: 71471743--71471919 Score: 250
Period size: 51 Copynumber: 3.5 Consensus size: 51
71471733 CGGATACCCG
* * * * * *
71471743 GTGGCCTGCACATGGTACCACCCTTGTATCCAAAGCTACCTTCTTCACCAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATCTTCTTCACAAA
* *
71471794 GTGGCCTTCACATAGTACCACACTTGTGACCAAAACTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATC-TTCTTCACAAA
*
71471846 GTGGCCTTCACATAGTACCACACTTGTGTCC-AAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATCTTCTTCACAAA
71471895 GTGGCCTTCACATAGTACCACACTT
1 GTGGCCTTCACATAGTACCACACTT
71471920 AAGGCACTAG
Statistics
Matches: 114, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
49 34 0.30
51 40 0.35
52 40 0.35
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATCTTCTTCACAAA
Found at i:71477056 original size:26 final size:26
Alignment explanation
Indices: 71477027--71477134 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
71477017 TTATACAAAT
* *
71477027 TGATAATGGGTTAGGCAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
71477053 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
71477079 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
71477105 TGATAAT-GGTCTAGGTAAATGTTCCA
1 TGATAATGGGT-TAGGTAAATATTCCA
71477131 TGAT
1 TGAT
71477135 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:71483306 original size:26 final size:26
Alignment explanation
Indices: 71483277--71483384 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
71483267 TGGTACAAAT
71483277 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
71483303 TGATAATGGATTAGGTAAATATCCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
71483329 TAATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
71483355 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
71483381 TGAT
1 TGAT
71483385 GGGCATTTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:71487053 original size:51 final size:50
Alignment explanation
Indices: 71486976--71487153 Score: 214
Period size: 52 Copynumber: 3.5 Consensus size: 50
71486966 CGAATACCCG
* *
71486976 GTGGCCTGCACATAGTACCACCCTTGTAGTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCAAAGCTACCTTCTTCACAAA
* * * * *
71487027 GTGGCTTTTACGTAGTACCACACTTGTGATCAAAGATATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTG-TCAAAGCTA-CCTTCTTCACAAA
* * * *
71487079 GTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCAAAGCTACCTTCTTCACAAA
*
71487128 ATGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
71487154 AGGCACTAGT
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
49 34 0.31
50 1 0.01
51 36 0.33
52 37 0.34
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (50 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCAAAGCTACCTTCTTCACAAA
Found at i:71487095 original size:52 final size:52
Alignment explanation
Indices: 71486976--71487153 Score: 224
Period size: 51 Copynumber: 3.5 Consensus size: 52
71486966 CGAATACCCG
* * *
71486976 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-TCAAAGCTATCTTTCTTCACAAA
* * * *
71487027 GTGGCTTTTACGTAGTACCACACTTGTGATCAAAGATATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCTTTCTTCACAAA
*
71487079 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAGCTATCTCTTC-TCA-AAA
1 GTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCT-TTCTTCACAAA
71487129 -TGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
71487154 AGGCACTAGT
Statistics
Matches: 112, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
49 25 0.22
50 3 0.03
51 42 0.38
52 42 0.38
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCTTTCTTCACAAA
Found at i:71488410 original size:44 final size:44
Alignment explanation
Indices: 71488348--71488458 Score: 186
Period size: 44 Copynumber: 2.5 Consensus size: 44
71488338 ATATGTACCT
71488348 ATACCATGGCCAGAAGCCAAATCAAGGTAGCTTATCCGAAATCTG
1 ATACCATGGCCA-AAGCCAAATCAAGGTAGCTTATCCGAAATCTG
* *
71488393 ATATCATGGCCAAAGCCAAATCAAGGTAGCTTATTCGAAATCTG
1 ATACCATGGCCAAAGCCAAATCAAGGTAGCTTATCCGAAATCTG
71488437 ATACCATGGCCCAAAGCCAAAT
1 ATACCATGG-CCAAAGCCAAAT
71488459 TAGTTGATAT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
44 39 0.63
45 23 0.37
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (44 bp):
ATACCATGGCCAAAGCCAAATCAAGGTAGCTTATCCGAAATCTG
Found at i:71500200 original size:18 final size:19
Alignment explanation
Indices: 71500174--71500213 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
71500164 ATATTTCTAT
*
71500174 TTATTTTTAATATTAT-AA
1 TTATATTTAATATTATCAA
71500192 TTATATTTAATATTATCAA
1 TTATATTTAATATTATCAA
71500211 TTA
1 TTA
71500214 ATTATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATATTTAATATTATCAA
Found at i:71506050 original size:35 final size:30
Alignment explanation
Indices: 71506006--71506072 Score: 80
Period size: 35 Copynumber: 2.1 Consensus size: 30
71505996 TCACAATTTG
*
71506006 ATTCTCAATTTCTTGTTCTTAATTTTTTATTCTAA
1 ATTCCCAATTT-TT-TT-TTAA-TTTTT-TTCTAA
71506041 ATTCCCAATTTTTTTTTAATTTTTTTCTAA
1 ATTCCCAATTTTTTTTTAATTTTTTTCTAA
71506071 AT
1 AT
71506073 CCTTTGATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 8 0.26
31 5 0.16
32 4 0.13
33 2 0.06
34 2 0.06
35 10 0.32
ACGTcount: A:0.24, C:0.13, G:0.01, T:0.61
Consensus pattern (30 bp):
ATTCCCAATTTTTTTTTAATTTTTTTCTAA
Found at i:71506232 original size:51 final size:52
Alignment explanation
Indices: 71506157--71506259 Score: 156
Period size: 51 Copynumber: 2.0 Consensus size: 52
71506147 TTCAATTACA
* *
71506157 AATGGTAAGAAAATATTATTAAATTATTT-AATTTTAATCTGTTAATTATTAT
1 AATGGTAAGAAAATATTATTAAATTATTTAAATTTAAAT-AGTTAATTATTAT
*
71506209 AATGTTAAGAAAAT-TTATTAAATTATTTAAATTTAAATAGTTAATTATTAT
1 AATGGTAAGAAAATATTATTAAATTATTTAAATTTAAATAGTTAATTATTAT
71506260 GCGGTTTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
51 26 0.55
52 21 0.45
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.48
Consensus pattern (52 bp):
AATGGTAAGAAAATATTATTAAATTATTTAAATTTAAATAGTTAATTATTAT
Found at i:71507956 original size:63 final size:62
Alignment explanation
Indices: 71507889--71508033 Score: 164
Period size: 62 Copynumber: 2.3 Consensus size: 62
71507879 TCAACTCTAG
* * * *
71507889 TTTATTTTTCACAAGCATCACAGCATACGCAACCATTCCTTGCATCAAAACATACAAAACCAA
1 TTTATTTTCCACAAGCACCACAACA-ACGCAACCATTCCTTGCACCAAAACATACAAAACCAA
* * * * * * * *
71507952 TTTATTTTCCAGAAGCACCTCAACAGCGCAATCATTCCTTTCACCAACACATACACAACCAG
1 TTTATTTTCCACAAGCACCACAACAACGCAACCATTCCTTGCACCAAAACATACAAAACCAA
*
71508014 TTTATTTTCCATAAGCACCA
1 TTTATTTTCCACAAGCACCA
71508034 TAGCACGTGC
Statistics
Matches: 68, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
62 48 0.71
63 20 0.29
ACGTcount: A:0.36, C:0.30, G:0.07, T:0.27
Consensus pattern (62 bp):
TTTATTTTCCACAAGCACCACAACAACGCAACCATTCCTTGCACCAAAACATACAAAACCAA
Found at i:71507990 original size:62 final size:62
Alignment explanation
Indices: 71507916--71508032 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 62
71507906 TCACAGCATA
*
71507916 CGCAACCATTCCTTGCATCAAAACATACAAAACCAATTTATTTTCCAGAAGCACCTCAACAG
1 CGCAACCATTCCTTGCACCAAAACATACAAAACCAATTTATTTTCCAGAAGCACCTCAACAG
* * * * * *
71507978 CGCAATCATTCCTTTCACCAACACATACACAACCAGTTTATTTTCCATAAGCACC
1 CGCAACCATTCCTTGCACCAAAACATACAAAACCAATTTATTTTCCAGAAGCACC
71508033 ATAGCACGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 48 1.00
ACGTcount: A:0.36, C:0.32, G:0.07, T:0.25
Consensus pattern (62 bp):
CGCAACCATTCCTTGCACCAAAACATACAAAACCAATTTATTTTCCAGAAGCACCTCAACAG
Found at i:71508805 original size:30 final size:30
Alignment explanation
Indices: 71508769--71508830 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
71508759 CAGGGAGATG
*
71508769 CACTATGGTTGATTACAACACGGTCACAGT
1 CACTATGGTCGATTACAACACGGTCACAGT
*
71508799 CACTATGGTCGATTACGACACGGTCACAGT
1 CACTATGGTCGATTACAACACGGTCACAGT
71508829 CA
1 CA
71508831 TCTACGGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (30 bp):
CACTATGGTCGATTACAACACGGTCACAGT
Found at i:71516138 original size:42 final size:41
Alignment explanation
Indices: 71516090--71516181 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
71516080 GCACGTAGCC
*
71516090 TGCTAGGCTCAAGGCCTGAAACAAATACACTGGCACAAAACT
1 TGCTAGGCTCAAGGCCTGAAAC-AATACACCGGCACAAAACT
* * * * *
71516132 TGCTAGGCTCAAGGCTTGATACAATTCACCGGCACGAAGCT
1 TGCTAGGCTCAAGGCCTGAAACAATACACCGGCACAAAACT
71516173 TGCTAGGCT
1 TGCTAGGCT
71516182 TAAAGCCTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 24 0.55
42 20 0.45
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (41 bp):
TGCTAGGCTCAAGGCCTGAAACAATACACCGGCACAAAACT
Found at i:71516178 original size:41 final size:42
Alignment explanation
Indices: 71516071--71516181 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 42
71516061 TTTACCTTAT
* * *
71516071 AATTCATCGGCACGTAGCCTGCTAGGCTCAAGGCCTGAAACA
1 AATTCACCGGCACGAAGCTTGCTAGGCTCAAGGCCTGAAACA
* * * * * *
71516113 AATACACTGGCACAAAACTTGCTAGGCTCAAGGCTTGATAC-
1 AATTCACCGGCACGAAGCTTGCTAGGCTCAAGGCCTGAAACA
71516154 AATTCACCGGCACGAAGCTTGCTAGGCT
1 AATTCACCGGCACGAAGCTTGCTAGGCT
71516182 TAAAGCCTAA
Statistics
Matches: 56, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
41 24 0.43
42 32 0.57
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.21
Consensus pattern (42 bp):
AATTCACCGGCACGAAGCTTGCTAGGCTCAAGGCCTGAAACA
Found at i:71516199 original size:41 final size:41
Alignment explanation
Indices: 71516068--71516211 Score: 110
Period size: 41 Copynumber: 3.5 Consensus size: 41
71516058 AATTTTACCT
* ** * *
71516068 TATAATTCATCGGCACGTAGCCTGCTAGGCTCAAGGCCTGAA
1 TATAATTCACCGGCACAAAGCTTGCTAGGCTCAAAGCCT-AA
* * * * * * *
71516110 -ACAAATACACTGGCACAAAACTTGCTAGGCTCAAGGCTTGA
1 TA-TAATTCACCGGCACAAAGCTTGCTAGGCTCAAAGCCTAA
* * *
71516151 TACAATTCACCGGCACGAAGCTTGCTAGGCTTAAAGCCTAA
1 TATAATTCACCGGCACAAAGCTTGCTAGGCTCAAAGCCTAA
**
71516192 TATAATTCATTGGCACAAAG
1 TATAATTCACCGGCACAAAG
71516212 TCTGCTGGAC
Statistics
Matches: 77, Mismatches: 23, Indels: 5
0.73 0.22 0.05
Matches are distributed among these distances:
41 48 0.62
42 29 0.38
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (41 bp):
TATAATTCACCGGCACAAAGCTTGCTAGGCTCAAAGCCTAA
Found at i:71521309 original size:15 final size:16
Alignment explanation
Indices: 71521291--71521330 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
71521281 ATACATTTTC
71521291 ATAAACATCATTTAA-
1 ATAAACATCATTTAAG
*
71521306 ATAAATATCATTTAAG
1 ATAAACATCATTTAAG
71521322 ACTAAACAT
1 A-TAAACAT
71521331 ACCTCTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.67
16 1 0.05
17 6 0.29
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.33
Consensus pattern (16 bp):
ATAAACATCATTTAAG
Found at i:71521733 original size:13 final size:13
Alignment explanation
Indices: 71521715--71521741 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
71521705 GAAGTAATCG
71521715 CACACGGGCGTGT
1 CACACGGGCGTGT
71521728 CACACGGGCGTGT
1 CACACGGGCGTGT
71521741 C
1 C
71521742 CCTGCGGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:71528289 original size:23 final size:22
Alignment explanation
Indices: 71528263--71528307 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
71528253 CATTTATCAT
71528263 CTTACCATATTATTGTTATATC
1 CTTACCATATTATTGTTATATC
*
71528285 NCTTACCATATTGTTGTTATATC
1 -CTTACCATATTATTGTTATATC
71528308 GAGTTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.49
Consensus pattern (22 bp):
CTTACCATATTATTGTTATATC
Found at i:71530622 original size:15 final size:14
Alignment explanation
Indices: 71530574--71530656 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
71530564 CAAAGATAAC
*
71530574 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
71530588 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
71530603 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
71530618 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
71530633 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
71530648 AAGAAACCC
1 AAGAAACCC
71530657 AAGAATGATA
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:71530649 original size:30 final size:30
Alignment explanation
Indices: 71530583--71530662 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 30
71530573 CAAGAAAACC
* *
71530583 GAATAAAGAAATCCA-AGATAGAGAAACCCG
1 GAATAAAGAAATCCAGA-ATAAAGAAACCAG
*
71530613 GAATAAAGAAATCCAGAATAAAGAGATCCAG
1 GAATAAAGAAATCCAGAATAAAGA-AACCAG
*
71530644 G-ATAAAGAAACCCAAGAAT
1 GAATAAAGAAATCC-AGAAT
71530663 GATACTAAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 32 0.74
31 11 0.26
ACGTcount: A:0.55, C:0.15, G:0.19, T:0.11
Consensus pattern (30 bp):
GAATAAAGAAATCCAGAATAAAGAAACCAG
Found at i:71539838 original size:43 final size:42
Alignment explanation
Indices: 71539777--71539949 Score: 138
Period size: 43 Copynumber: 4.0 Consensus size: 42
71539767 AAGGCTTGTA
*
71539777 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCC-ATGTCCCAGACGTGGTCTTACATGTAATCACATAT
* *
71539820 CAATGCCACTATCCCAGACAG-GGTCTTACATG-AA-CTCATAT
1 CAATGCCA-TGTCCCAGAC-GTGGTCTTACATGTAATCACATAT
* * * * * *
71539861 ACAATGCCGATGTCTCGGACATGGTCTTACACGTAAATCAAAAAT
1 -CAATGCC-ATGTCCCAGACGTGGTCTTACATGT-AATCACATAT
** *
71539906 TGATGCCAATGTCCCAGACGTGGTCTTAC-TCGAAATCACATAT
1 CAATGCC-ATGTCCCAGACGTGGTCTTACAT-GTAATCACATAT
71539949 C
1 C
71539950 GAAATCCTAT
Statistics
Matches: 99, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
41 6 0.06
42 27 0.27
43 35 0.35
44 27 0.27
45 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
CAATGCCATGTCCCAGACGTGGTCTTACATGTAATCACATAT
Found at i:71544460 original size:48 final size:48
Alignment explanation
Indices: 71544389--71544697 Score: 235
Period size: 48 Copynumber: 6.5 Consensus size: 48
71544379 TGTGTGTGCT
**
71544389 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGGAAGCC
* * * *
71544437 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAG--A-CGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGGA-AGCC
* ** *
71544483 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGGAAGCC
* * * * * * *
71544531 AGTGTAAAACCTGTTTGGGACATGGCATC-ACCT--TG-T-TGTG-TGTC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATG-GAAGCC
* * * *
71544575 AGTGTAAGACCTGTCTGGGACATGGCATCGACACT-GATAGAT-GAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGC-CTCGAGATATGGA-AGCC
* * * **
71544624 AGTGTAAGACCTATCTGGGACATGGCATTGGCCTCGCTATATGGAAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGGAAGCC
71544673 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
71544698 GCATTGGCAT
Statistics
Matches: 211, Mismatches: 34, Indels: 31
0.76 0.12 0.11
Matches are distributed among these distances:
44 29 0.14
45 4 0.02
46 41 0.19
47 1 0.00
48 65 0.31
49 57 0.27
50 14 0.07
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGGAAGCC
Found at i:71544550 original size:94 final size:95
Alignment explanation
Indices: 71544386--71544559 Score: 278
Period size: 94 Copynumber: 1.8 Consensus size: 95
71544376 TGATGTGTGT
** *
71544386 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTTAAGCCAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGTGTAAAACATGT
71544451 CTGGGACAT-GCATCGGCATTGAGACGAGA
66 CTGGGACATGGCATCGGCATTGAGACGAGA
* * *
71544480 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGCGATATACAAGCTAGTGTAAAACCTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGTGTAAAACATGT
*
71544545 TTGGGACATGGCATC
66 CTGGGACATGGCATC
71544560 ACCTTGTTGT
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
94 67 0.93
95 5 0.07
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (95 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGTGTAAAACATGT
CTGGGACATGGCATCGGCATTGAGACGAGA
Found at i:71549032 original size:27 final size:27
Alignment explanation
Indices: 71548993--71549103 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
71548983 GGAAGCGTCT
* *
71548993 TGGTGGCTATGCCACAATTATTTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
71549020 TGGTGGCTCTGCCACATATT-TCTG-TCC
1 TGGTGGCTCTGCCACA-ATTATCTGAT-C
*
71549047 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCACAATTATCTG-ATC
* * *
71549075 TGGTGACTCTGTCAC-ATTATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGATC
71549101 TGG
1 TGG
71549104 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
26 9 0.12
27 46 0.63
28 17 0.23
29 1 0.01
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:71549098 original size:54 final size:54
Alignment explanation
Indices: 71548993--71549103 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 54
71548983 GGAAGCGTCT
* * *
71548993 TGGTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATTTCTGTCC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTCC
* * * *
71549047 TGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTC
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTCC
71549101 TGG
1 TGG
71549104 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTCC
Found at i:71550931 original size:46 final size:46
Alignment explanation
Indices: 71550880--71551007 Score: 159
Period size: 46 Copynumber: 2.7 Consensus size: 46
71550870 ACATCTTGTA
* * *
71550880 GCCGATGCATGTCCTAGACATGTCTTACACTGGC-TTACATTTCAAG
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACT-CATCTCAAG
* * *
71550926 GCCGATACATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACTCATCTCAAG
*
71550972 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTAGC
71551008 TCACAGTAAC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
46 44 0.62
47 14 0.20
48 13 0.18
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCACTCATCTCAAG
Found at i:71561206 original size:47 final size:47
Alignment explanation
Indices: 71561137--71561840 Score: 953
Period size: 47 Copynumber: 14.7 Consensus size: 47
71561127 NNNNNNNNNN
*
71561137 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCACATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
* *
71561184 TGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCACATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
*
71561231 TGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
* * *
71561278 TGTGATAAGGCCGATTGGCCAATGTGACGAATGTGAACATGCACATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
*
71561325 TGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCACATATGCACATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG--C--AT----ATA
* * *
71561380 TGTGATAAGGTCGAATGGCCAATGTGATAAATGTGGACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
* * * * * *
71561427 TATGATAAGGCAGAATGGCCAATGTGATGAACGTGGAA-GTGTATATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGCATATA
*
71561474 TGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
*
71561521 TGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
**
71561568 TGTGATAAGGCCGAATGGCCTCTGTGATGAATGTGAACATGCATATAACACATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC--AT-----ATA
* *
71561622 TGTGATAAGGTCGAATGGCCAATGTGATAAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
* ** * * *
71561669 TGTGATATGGTAGAATGGCCAATGTGATGAATGTGGAA-GTGTATATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGCATATA
*
71561716 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCACATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
*
71561763 TGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
*
71561810 TGTGATAAGGCAGAATGGCCAATGTGATGAA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAA
71561841 CGTGGAAGTG
Statistics
Matches: 586, Mismatches: 52, Indels: 38
0.87 0.08 0.06
Matches are distributed among these distances:
46 6 0.01
47 485 0.83
48 5 0.01
49 3 0.01
51 3 0.01
52 2 0.00
53 1 0.00
54 41 0.07
55 40 0.07
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
Found at i:71561257 original size:22 final size:22
Alignment explanation
Indices: 71561137--71561257 Score: 79
Period size: 22 Copynumber: 5.2 Consensus size: 22
71561127 NNNNNNNNNN
71561137 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
71561159 TGTGATGAATG-TGAACAT-GCACATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
71561184 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
71561206 TGTGACGAATG-TGAACAT-GCACATA
1 TGTGA-TAAGGCCG-A-ATGGC-CA-A
71561231 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
71561253 TGTGA
1 TGTGA
71561258 CGAATGTGAA
Statistics
Matches: 75, Mismatches: 10, Indels: 28
0.66 0.09 0.25
Matches are distributed among these distances:
22 20 0.27
23 20 0.27
24 20 0.27
25 15 0.20
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:71561837 original size:22 final size:22
Alignment explanation
Indices: 71561716--71561837 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
71561706 AGTGTATATG
*
71561716 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
71561738 TGTGATGAATGTG-A-ACAT-GCACATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
*
71561763 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
*
71561785 TGTGATAAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
71561810 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
71561832 TGTGAT
1 TGTGAT
71561838 GAACGTGGAA
Statistics
Matches: 77, Mismatches: 5, Indels: 36
0.65 0.04 0.31
Matches are distributed among these distances:
22 22 0.29
23 20 0.26
24 19 0.25
25 16 0.21
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:71561907 original size:46 final size:46
Alignment explanation
Indices: 71561854--71561944 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
71561844 GGAAGTGTAT
* * *
71561854 ATATGTGGGAAAGCCGAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
71561900 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
71561945 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:71561951 original size:141 final size:139
Alignment explanation
Indices: 71561137--71561936 Score: 639
Period size: 141 Copynumber: 5.6 Consensus size: 139
71561127 NNNNNNNNNN
* * * * *
71561137 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGG
1 TGTGAGAAAGCCGAATGGCCAATGCGA-GAATGTGAACATG-ACATATGTGATAAAGCCAAATGG
* * * *
71561202 CCAATGTGACG-AATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGACGAATGT-
64 CCAATGTGA-GAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTG
* *
71561265 GAACATGCATATA
128 GAA-GTGTATATA
* * * * * *
71561278 TGTGATAAGGCCGATTGGCCAATGTGACGAATGTGAACATGCACATATGTGATAAGGCCGAATGG
1 TGTGAGAAAGCCGAATGGCCAATGCGA-GAATGTGAACATG-ACATATGTGATAAAGCCAAATGG
71561343 CCAATGTGACG-AATGTGAACATGCACATATGCACATATGTGATAAGGTC-GAATGGCCAATGTG
64 CCAATGTGA-GAAATGTGAACATG--C--AT----ATATGTGATAAGG-CAGAATGGCCAATGTG
* * *
71561406 ATAAATGTGGACA-TGCATATA
119 ATGAACGTGGA-AGTGTATATA
* * * * * * * * * * *
71561427 TATGATAAGGCAGAATGGCCAATGTGATGAACGTGGAA-GTGTATATGTGTGATAAGGCCGAATG
1 TGTGAGAAAGCCGAATGGCCAATGCGA-GAATGT-GAACATG-ACATATGTGATAAAGCCAAATG
* * *
71561491 GCCAATGTGACG-AATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGT
63 GCCAATGTGA-GAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGT
* *
71561555 -GAACATGCATATA
127 GGAA-GTGTATATA
* * ** * * *
71561568 TGTGATAAGGCCGAATGGCCTCTGTGATGAATGTGAACATGCATATAACACATATGTGATAAGGT
1 TGTGAGAAAGCCGAATGGCCAATGCGA-GAATGTGAACATG--------ACATATGTGATAAAGC
* * * *
71561633 CGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATATGGTAGAATGGCCAATGTGATG
57 CAAATGGCCAATGTGAGAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATG
* *
71561698 AATGTGGAAGTGTATATG
122 AACGTGGAAGTGTATATA
* * * * *
71561716 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGG
1 TGTGAGAAAGCCGAATGGCCAATGCGA-GAATGTGAACATG-ACATATGTGATAAAGCCAAATGG
*
71561781 CCAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGG
64 CCAATGTGAGAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGG
71561846 AAGTGTATATA
129 AAGTGTATATA
* ** * * *
71561857 TGTGGGAAAGCCGAATGGTTAATGCGA-AATGTGTATGAGATG-GATATGTGGTAAAGCCAAATG
1 TGTGAGAAAGCCGAATGGCCAATGCGAGAATGTG-A--ACATGACATATGTGATAAAGCCAAATG
* *
71561920 GCTAATGTGAGATATGT
63 GCCAATGTGAGAAATGT
71561937 ATGAGATGTG
Statistics
Matches: 578, Mismatches: 53, Indels: 57
0.84 0.08 0.08
Matches are distributed among these distances:
139 7 0.01
140 38 0.07
141 276 0.48
142 4 0.01
143 1 0.00
145 3 0.01
147 1 0.00
148 122 0.21
149 119 0.21
150 6 0.01
151 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (139 bp):
TGTGAGAAAGCCGAATGGCCAATGCGAGAATGTGAACATGACATATGTGATAAAGCCAAATGGCC
AATGTGAGAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAA
GTGTATATA
Found at i:71564515 original size:37 final size:38
Alignment explanation
Indices: 71564453--71564556 Score: 167
Period size: 37 Copynumber: 2.8 Consensus size: 38
71564443 TAGCTCGAAT
* * *
71564453 AGTCCCCACACGTAGTTATCAGGTCTTACCCGGACA-A
1 AGTCTCCACACGTAGTCATCGGGTCTTACCCGGACATA
71564490 AGTCTCCACACGTAGTCATCGGGTCTTACCCGGACATA
1 AGTCTCCACACGTAGTCATCGGGTCTTACCCGGACATA
71564528 A-TCTCCACACGTAGTCATCGGGTCTTACC
1 AGTCTCCACACGTAGTCATCGGGTCTTACC
71564557 TTGAATATAT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
37 61 0.97
38 2 0.03
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (38 bp):
AGTCTCCACACGTAGTCATCGGGTCTTACCCGGACATA
Found at i:71564764 original size:48 final size:48
Alignment explanation
Indices: 71564701--71565019 Score: 530
Period size: 48 Copynumber: 6.6 Consensus size: 48
71564691 ATATACACAC
* *
71564701 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * * *
71564749 ATCTCACACAAATTTCACACTAGCCATTTGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
71564797 ATCTCATATATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
71564845 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
71564893 ATCTCATACATATTTCGCATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
71564941 ATCTCATACATATTTCACATTAGCCATTCGGTTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
71564989 ATCTCATACATATTTCACATTAGCCATTCGG
1 ATCTCATACATATTTCACATTAGCCATTCGG
71565020 NNNNNNNNNN
Statistics
Matches: 252, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 252 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:71571150 original size:49 final size:47
Alignment explanation
Indices: 71571031--71571347 Score: 199
Period size: 46 Copynumber: 6.7 Consensus size: 47
71571021 TAAAATGCCA
* * *
71571031 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT-ATCAAATCAAGCCG
* * * * *
71571078 ATGCCATGTCCAAGAAATAGTCTTACACTAACTATCAAAATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATC-AAATC-AAGCCG
* * *
71571127 ACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCAAATCTATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTAT--CAAATC-AAGCCG
* * **
71571177 ATGCCATGTCCCAGACATTGTCTTACA-TTGAC-A-CATCTCATAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTATCAAATCA-AGCCG
* * * * **
71571223 ATGCC-TATCCCAGACAT-GTCTTACACT-GGT-TTACATCTAGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAAATC-A-A-GCCG
* **
71571269 ATG-CAT-ACCCGAGACAT-GTCTTACACTAGC-ACTCATCTCAATGCCG
1 ATGCCATGTCCC-AGACATGGTCTTACACTAGCTA-TCAAATCAA-GCCG
*
71571315 ATGCCATGTCCCAGACATCGTCTTACACTAGCT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT
71571348 CACAATAACC
Statistics
Matches: 209, Mismatches: 40, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
44 12 0.06
45 19 0.09
46 44 0.21
47 39 0.19
48 23 0.11
49 35 0.17
50 36 0.17
51 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAAATCAAGCCG
Found at i:71572896 original size:21 final size:20
Alignment explanation
Indices: 71572872--71572910 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
71572862 GTCGTAATGA
*
71572872 CCACACGGGCGTGTTGCCCAT
1 CCACACGGACGTG-TGCCCAT
71572893 CCACACGGACGTGTGCCC
1 CCACACGGACGTGTGCCC
71572911 TATTACAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.15, C:0.41, G:0.28, T:0.15
Consensus pattern (20 bp):
CCACACGGACGTGTGCCCAT
Found at i:71579091 original size:46 final size:45
Alignment explanation
Indices: 71579024--71579144 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 45
71579014 TGTGTGTGCT
* * *
71579024 AGTGTAAAACATGTTTGGGACATGCATCAGCCA-CAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCATCAG-ACGAGAGCC
* * * * **
71579070 AGTGTAAGACATGTCTGGGACATACGTCGGCATTGAGACGAGAGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGCCA-TCAGACGAGAGCC
71579116 AGTGTAAGACATGTCTGGGACATGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
71579145 GCCTTGTGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
45 3 0.05
46 57 0.92
47 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCATCAGACGAGAGCC
Found at i:71579266 original size:49 final size:48
Alignment explanation
Indices: 71579116--71579289 Score: 187
Period size: 44 Copynumber: 3.7 Consensus size: 48
71579106 GACGAGAGTT
* ** *
71579116 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGTGATATACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGT-ATATGTAAGCC
* * * *
71579164 AGTGTAAGACCTATCTGGGACATGGCATCAG-CTTGT-TGTGT--GTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGTATATGTAAGCC
* *
71579208 AGTGTAAGACCTGTCTGAGACATGGCATCGGCCTCGCTATATGTAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTG-TATATGTAAGCC
*
71579257 AGTGTAAGACCATGTCTGGGACATGGCGTCGGC
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGGC
71579290 ATCTTAACCC
Statistics
Matches: 103, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
44 29 0.28
45 3 0.03
46 3 0.03
47 4 0.04
48 26 0.25
49 19 0.18
50 19 0.18
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGTATATGTAAGCC
Found at i:71581456 original size:13 final size:13
Alignment explanation
Indices: 71581438--71581464 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
71581428 CACAAACGAT
71581438 AAAATTTTCACAC
1 AAAATTTTCACAC
71581451 AAAATTTTCACAC
1 AAAATTTTCACAC
71581464 A
1 A
71581465 TATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:71586295 original size:27 final size:27
Alignment explanation
Indices: 71586254--71586558 Score: 481
Period size: 27 Copynumber: 11.3 Consensus size: 27
71586244 ACCTCATATC
71586254 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
71586281 TCAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
71586308 TCGGTAATTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
71586335 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
71586362 TCAGTAATTCTACCCTACAGGGGTA-T
1 TCGGTAATTCTACCCTACAGGGGTATT
71586388 TCTGGTAATTCTACCCTACAGGGGTATT
1 TC-GGTAATTCTACCCTACAGGGGTATT
* *
71586416 GCGATAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
71586443 CCGGTAATTCTACCCAACAGGGGTA-T
1 TCGGTAATTCTACCCTACAGGGGTATT
71586469 TCTGGTAATTCTACCCTACAGGGGTATT
1 TC-GGTAATTCTACCCTACAGGGGTATT
71586497 TCGGTAATTCTACCCTACA-GGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
71586523 GCGATAATTCTACCCTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
71586550 TCGGTAATT
1 TCGGTAATT
71586559 TTACAAGTTA
Statistics
Matches: 255, Mismatches: 18, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
26 28 0.11
27 222 0.87
28 5 0.02
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:71586653 original size:27 final size:27
Alignment explanation
Indices: 71586541--71586684 Score: 139
Period size: 27 Copynumber: 5.4 Consensus size: 27
71586531 TCTACCCTAT
* * ***
71586541 AGGGGTATTTCGGTAATTTTACAAGTT
1 AGGGGTATTTTGGTAATTTTATAAACC
* *
71586568 AGGGGTATTTTAGTAA-TTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
*
71586594 AGGGGTATTTTAGTAATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
* * *
71586621 AGGGGTATTTTGGTAATTTTACTGATCG
1 AGGGGTATTTTGGTAATTTTA-TAAACC
* *
71586649 A-GGGTATTTTGGTAATTTTGTAAACT
1 AGGGGTATTTTGGTAATTTTATAAACC
*
71586675 AAGGGTATTT
1 AGGGGTATTT
71586685 CAATAATTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 27 0.27
27 69 0.69
28 4 0.04
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTATAAACC
Found at i:71586666 original size:54 final size:53
Alignment explanation
Indices: 71586541--71586693 Score: 155
Period size: 54 Copynumber: 2.9 Consensus size: 53
71586531 TCTACCCTAT
* * **
71586541 AGGGGTATTTCGGTAATTTTACAAGTTAGGGGTATTTTAGTAATTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGTAATTTACAAACC
* * * ** *
71586594 AGGGGTATTTTAGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACTGATC
1 AGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGTAA-TTTACAAACC
* * * *
71586648 -GAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAATAATTT
1 AG-GGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGTAATTT
71586694 TGTAAATCGA
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
53 40 0.49
54 41 0.51
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (53 bp):
AGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGTAATTTACAAACC
Found at i:71586718 original size:27 final size:27
Alignment explanation
Indices: 71586696--71587041 Score: 311
Period size: 27 Copynumber: 12.4 Consensus size: 27
71586686 AATAATTTTG
* ** *
71586696 TAAATCGAGGATAAAATAGTAATTCTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
71586723 TAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
71586750 TAAATCGAGGGTAAAANCAGGGGTATTTC-A
1 TAAATCGAGGGTAAAA-C---GGTAATTCTA
* *** * *
71586780 GTAATTTC-ACAATCAAGGGTAAAACGGTAATTTTT
1 -TAA-ATCGAGGGT-AA----AA--CGGTAATTCTA
* * *
71586815 TAAA-CTGAGGGTAAAATGGTAATTTTG
1 TAAATC-GAGGGTAAAACGGTAATTCTA
* *
71586842 TAAATCGAGGGTAAAATGGTAATTCTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
71586869 TAAATCGAGGGTAAAACAGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
* *
71586896 TAAATTGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
* *
71586923 TAAACCGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
** *
71586950 TAAATCGAGGGTAAAATAGTAATTTTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
71586977 TAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
71587004 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
71587031 CAAATCGAGGG
1 TAAATCGAGGG
71587042 CATTTCAGTA
Statistics
Matches: 263, Mismatches: 40, Indels: 32
0.79 0.12 0.10
Matches are distributed among these distances:
27 225 0.86
28 2 0.01
29 2 0.01
30 1 0.00
31 12 0.05
32 5 0.02
33 2 0.01
34 11 0.04
36 2 0.01
37 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACGGTAATTCTA
Found at i:71586746 original size:54 final size:54
Alignment explanation
Indices: 71586696--71587041 Score: 379
Period size: 54 Copynumber: 6.2 Consensus size: 54
71586686 AATAATTTTG
* * *
71586696 TAAATCGAGGATAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTA
* * * * * *
71586750 TAAATCGAGGGTAAAANCAGGGGTATTTCAGTAATTTCACAATCAAGGGTAAAACGGTAATTTTT
1 TAAATCGAGGGTAAAA-CA---GTAATTC-----TGT-A-AATCGAGGGTAAAATGGTAATTCTA
** * *
71586815 TAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTG
1 TAAATC-GAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTA
* *
71586869 TAAATCGAGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTA
* * * *
71586923 TAAACCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTA
1 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTA
* *
71586977 TAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTA
*
71587031 CAAATCGAGGG
1 TAAATCGAGGG
71587042 CATTTCAGTA
Statistics
Matches: 246, Mismatches: 33, Indels: 26
0.81 0.11 0.09
Matches are distributed among these distances:
54 190 0.77
55 3 0.01
56 2 0.01
58 6 0.02
61 5 0.02
63 2 0.01
64 2 0.01
65 36 0.15
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (54 bp):
TAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTA
Found at i:71589358 original size:31 final size:31
Alignment explanation
Indices: 71589320--71589460 Score: 282
Period size: 31 Copynumber: 4.5 Consensus size: 31
71589310 TTTAACGGTT
71589320 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
71589351 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
71589382 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
71589413 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
71589444 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
71589461 ACTGTAAACG
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:71589531 original size:42 final size:42
Alignment explanation
Indices: 71589484--71589575 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
71589474 TGGCCCTTAG
* ** *
71589484 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
71589526 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
71589568 GCCCATTT
1 GCCCATTT
71589576 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:71589750 original size:25 final size:25
Alignment explanation
Indices: 71589722--71589791 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
71589712 CTCTTTTAAT
*
71589722 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
71589747 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
71589772 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
71589792 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:71590662 original size:27 final size:27
Alignment explanation
Indices: 71590600--71590677 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
71590590 GGGCATATTC
71590600 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
71590627 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
71590654 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
71590678 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:71590748 original size:27 final size:27
Alignment explanation
Indices: 71590718--71590974 Score: 140
Period size: 27 Copynumber: 9.4 Consensus size: 27
71590708 GTAAATCTAC
*
71590718 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
71590745 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * *
71590773 AAAGTCAAGGGTATTTCTGTAATTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
71590801 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
71590828 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** *
71590855 AAACC-AGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTAT
* * ** *
71590882 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *
71590909 AAACTAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *** * *
71590936 AAATCGAGGGTAAAACAGTAATTCTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
*
71590963 AAATCAAGGGTA
1 AAACCAAGGGTA
71590975 AAATAGTAAT
Statistics
Matches: 187, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.01
27 155 0.83
28 16 0.09
29 14 0.07
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:71590823 original size:56 final size:55
Alignment explanation
Indices: 71590715--71590933 Score: 187
Period size: 54 Copynumber: 4.0 Consensus size: 55
71590705 TTGGTAAATC
* * *
71590715 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTT-TGGTAATTTT
* * * *
71590770 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
** * ***
71590825 TACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAA-TTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
* ** ** * *
71590879 TACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAAG-GGTATTTTAGTAATTTT
1 TACAAATC-AAGGGTATTTCAGTAATTTTGTAAAC-CAGTGGTATTTTGGTAATTTT
71590934 GTAAATCGAG
Statistics
Matches: 136, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
54 80 0.59
55 19 0.14
56 37 0.27
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (55 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
Found at i:71590975 original size:27 final size:27
Alignment explanation
Indices: 71590926--71591161 Score: 382
Period size: 27 Copynumber: 8.7 Consensus size: 27
71590916 GGGTATTTTA
* * *
71590926 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * **
71590953 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
71590980 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
71591007 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
71591034 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
71591061 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
71591088 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
71591115 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
71591142 GTAATTCTACAAATCGAGGG
1 GTAATTCTATAAATCGAGGG
71591162 CATTTCAGTA
Statistics
Matches: 198, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 198 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:71593159 original size:6 final size:6
Alignment explanation
Indices: 71593148--71593419 Score: 258
Period size: 6 Copynumber: 44.8 Consensus size: 6
71593138 AACCAAAATG
*
71593148 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
71593196 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
71593245 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
71593293 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC
* *
71593342 AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* *
71593390 AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
71593420 GTGAATGCAA
Statistics
Matches: 221, Mismatches: 22, Indels: 46
0.76 0.08 0.16
Matches are distributed among these distances:
5 16 0.07
6 186 0.84
7 15 0.07
8 4 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:71593163 original size:30 final size:30
Alignment explanation
Indices: 71593148--71593419 Score: 363
Period size: 30 Copynumber: 9.4 Consensus size: 30
71593138 AACCAAAATG
*
71593148 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
71593178 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
71593208 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
71593233 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
71593263 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
71593293 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
71593318 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
71593348 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
71593378 AGAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
71593409 AGAATCAGAAT
1 AGAATCAGAAT
71593420 GTGAATGCAA
Statistics
Matches: 215, Mismatches: 10, Indels: 33
0.83 0.04 0.13
Matches are distributed among these distances:
24 4 0.02
25 38 0.18
26 2 0.01
27 2 0.01
28 2 0.01
29 3 0.01
30 138 0.64
31 26 0.12
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:71593248 original size:85 final size:85
Alignment explanation
Indices: 71593148--71593419 Score: 526
Period size: 85 Copynumber: 3.2 Consensus size: 85
71593138 AACCAAAATG
*
71593148 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
71593213 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
71593233 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
71593298 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
71593318 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
*
71593383 CAGAATCAGAATTACGTGAC
66 CAGAATCAGAATTAGGTGAC
71593403 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
71593420 GTGAATGCAA
Statistics
Matches: 185, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 185 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:71593574 original size:27 final size:26
Alignment explanation
Indices: 71593537--71593602 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
71593527 AGCATGGCTG
*
71593537 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
71593563 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
71593590 CCAGAATCAGATA
1 CCAGAA-CAGATA
71593603 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:71593607 original size:27 final size:27
Alignment explanation
Indices: 71593537--71593610 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
71593527 AGCATGGCTG
* *
71593537 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
71593563 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
71593590 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
71593611 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:71593617 original size:27 final size:27
Alignment explanation
Indices: 71593561--71593618 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
71593551 GTGACAGAGT
* * *
71593561 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
71593588 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
71593615 CACC
1 CACC
71593619 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:71593823 original size:22 final size:22
Alignment explanation
Indices: 71593775--71593833 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
71593765 GTAAATACGT
*
71593775 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
71593797 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
71593819 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
71593834 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:71594000 original size:27 final size:26
Alignment explanation
Indices: 71593921--71594003 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
71593911 TCGATCGGTC
* * *
71593921 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
71593947 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
71593974 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
71594001 AAC
1 AAC
71594004 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:71594232 original size:27 final size:27
Alignment explanation
Indices: 71594202--71594397 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
71594192 GGGGCAAAAT
* * * *
71594202 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
71594229 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71594256 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71594283 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
71594310 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71594337 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71594364 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71594391 AGTAATT
1 GGTAATT
71594398 TCACAATCAA
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:71594747 original size:27 final size:27
Alignment explanation
Indices: 71594402--71594730 Score: 511
Period size: 27 Copynumber: 12.2 Consensus size: 27
71594392 GTAATTTCAC
*
71594402 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
71594429 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
71594456 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
71594483 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
71594510 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
71594537 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
71594564 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
71594591 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
71594618 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
71594645 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
71594672 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
71594699 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
71594726 AATCG
1 AATCG
71594731 GGAGTACTTT
Statistics
Matches: 275, Mismatches: 21, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
26 3 0.01
27 269 0.98
28 3 0.01
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:71602841 original size:42 final size:43
Alignment explanation
Indices: 71602722--71602843 Score: 122
Period size: 44 Copynumber: 2.8 Consensus size: 43
71602712 CCTAGGATTC
* ** * *
71602722 CGATGTGTGATTTCGTGTAAGACCATGTCTGGGATGTTGGCAT
1 CGATTTGTGATTTCGTGTAAGACCATGTCTGGGACATCGACAT
* * * *
71602765 CGGTTTGAGATTTACGTGTAAGACCATCTTTGGGACATCGACAT
1 CGATTTGTGATTT-CGTGTAAGACCATGTCTGGGACATCGACAT
*
71602809 C-ATATT-TGATTTCGTGTAAGACCCTGTCTGGGACA
1 CGAT-TTGTGATTTCGTGTAAGACCATGTCTGGGACA
71602844 GTGGCATTGA
Statistics
Matches: 63, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
42 20 0.32
43 16 0.25
44 27 0.43
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (43 bp):
CGATTTGTGATTTCGTGTAAGACCATGTCTGGGACATCGACAT
Found at i:71602895 original size:43 final size:43
Alignment explanation
Indices: 71602782--71602895 Score: 101
Period size: 43 Copynumber: 2.7 Consensus size: 43
71602772 AGATTTACGT
* * * * **
71602782 GTAAGACCATC-TTTGGGACATCGACA-TCATATTTGATTTCGT
1 GTAAGACCA-CGTTTGGGACGTTGACATTGATATTTGATTACAA
* *
71602824 GTAAGACC-CTGTCTGGGACAG-TGGCATTGATATTTGATTACAA
1 GTAAGACCAC-GTTTGGGAC-GTTGACATTGATATTTGATTACAA
71602867 GTAAGACCACGTTTGGGACGTTGACATTG
1 GTAAGACCACGTTTGGGACGTTGACATTG
71602896 TATGAGCTTC
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
40 1 0.02
42 19 0.34
43 35 0.62
44 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GTAAGACCACGTTTGGGACGTTGACATTGATATTTGATTACAA
Found at i:71608871 original size:50 final size:49
Alignment explanation
Indices: 71608796--71609232 Score: 510
Period size: 50 Copynumber: 8.9 Consensus size: 49
71608786 CATGATGCTG
*
71608796 GAGATATGAGAGCTAGTGTAAGACCATATCTGGGACATGGCATCGACCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-ACCTC
*
71608846 GAGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCA-CCTC
* ** *
71608896 GAGATATGAGAACTAGTGTAAGACCATGTCTATGACATGGCATCAGGCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCA-CCTC
*
71608946 GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCA-CCTC
* *
71608996 GAGATATGAGAGCTAGAGTAAGACCATGTCTAGGACATGGCATCAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCA-CCTC
* * **
71609046 GAGATATGAGAGCTAGTGTAAGACCTTGTCTGGGACATGACATCGGCT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCACCTC
* * * * *
71609094 -TGATATGTG-TC-AGTGTAAGACCATGTTTGGGACATGACATCAACCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-ACCTC
* *
71609141 GATATACGAGAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CT-
1 GAGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATC-ACCTC
** * * * * *
71609189 TTGATGTGTGAGCCAGTGTAAGACCATGTCTGAGACATGCCATC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
71609233 GACACCTTAC
Statistics
Matches: 338, Mismatches: 41, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
45 28 0.08
46 3 0.01
47 7 0.02
48 39 0.12
49 5 0.01
50 256 0.76
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (49 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCACCTC
Found at i:71610254 original size:27 final size:26
Alignment explanation
Indices: 71610219--71610330 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
71610209 AGCATGGCTG
* *
71610219 CCAGAACAGATGATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
71610245 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
*
71610273 CCAGAACAGATATATGTGCCAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * * *
71610300 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGACAGAGCCA
71610327 CCAG
1 CCAG
71610331 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.68
28 17 0.23
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:71610283 original size:54 final size:54
Alignment explanation
Indices: 71610219--71610330 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
71610209 AGCATGGCTG
*
71610219 CCAGAACAGAT-GATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAGATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
71610273 CCAGAACAGATATATGTGCCAGAGCCACTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAGATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
71610327 CCAG
1 CCAG
71610331 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAGATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:71616585 original size:42 final size:43
Alignment explanation
Indices: 71616531--71616640 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 43
71616521 GATTTGAGAT
71616531 TTACATGTAAGACCATGTCTGGGACA-TCAGCATCG-TATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGT-AGCATCGATATTTGA
* * * * * *
71616573 TTTCGTGTAAGACCCTGTCTAGGATAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTAGCATCGATATTTGA
*
71616616 TTACATGTAAGACCACGTCTGGGAC
1 TTACATGTAAGACCATGTCTGGGAC
71616641 GTTGGCATTG
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
42 27 0.50
43 27 0.50
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGTAGCATCGATATTTGA
Found at i:71616614 original size:43 final size:42
Alignment explanation
Indices: 71616476--71616629 Score: 125
Period size: 43 Copynumber: 3.6 Consensus size: 42
71616466 CATAGGATTT
* ** * *
71616476 TCGATATGTGATTTTGTGTAAG-CCCACGTCTAGGACATTGGAA
1 TCGATATTTGATTTCATGTAAGACCC-TGTCTAGGACA-TGGCA
* * * *
71616519 TCGAT-TTGAGATTTACATGTAAGACCATGTCTGGGACATCAGCA
1 TCGATATT-TGATTT-CATGTAAGACCCTGTCTAGGACAT-GGCA
* *
71616563 TCG-TATTTGATTTCGTGTAAGACCCTGTCTAGGATAGTGGCA
1 TCGATATTTGATTTCATGTAAGACCCTGTCTAGGACA-TGGCA
*
71616605 TCGATATTTGATTACATGTAAGACC
1 TCGATATTTGATTTCATGTAAGACC
71616630 ACGTCTGGGA
Statistics
Matches: 87, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
42 26 0.30
43 37 0.43
44 22 0.25
45 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (42 bp):
TCGATATTTGATTTCATGTAAGACCCTGTCTAGGACATGGCA
Found at i:71616647 original size:43 final size:43
Alignment explanation
Indices: 71616492--71616648 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
71616482 TGTGATTTTG
* * *
71616492 TGTAAGCCCACGTCTAGGACATTGGAATCGAT-TTGAGATTTACA
1 TGTAAGACCACGTCTAGGACATTGGCATCGATATT-TGA-TTACA
* * ** * *
71616536 TGTAAGACCATGTCTGGGACATCAGCATCG-TATTTGATTTCG
1 TGTAAGACCACGTCTAGGACATTGGCATCGATATTTGATTACA
* *
71616578 TGTAAGACC-CTGTCTAGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTAGGACATTGGCATCGATATTTGATTACA
* *
71616621 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTAGGACATTGGCAT
71616649 TGTATGAGAT
Statistics
Matches: 88, Mismatches: 21, Indels: 9
0.75 0.18 0.08
Matches are distributed among these distances:
42 26 0.30
43 35 0.40
44 27 0.31
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTAGGACATTGGCATCGATATTTGATTACA
Found at i:71620976 original size:87 final size:87
Alignment explanation
Indices: 71620828--71621003 Score: 307
Period size: 87 Copynumber: 2.0 Consensus size: 87
71620818 ATGGATGTTA
*
71620828 GAGGGTGACCAAAGGCTTGGAAAATAGCCTAACACGGTCCACATGGGTAGACACACAGGCTTGTG
1 GAGGGTGACCAAAAGCTTGGAAAATAGCCTAACACGGTCCACATGGGTAGACACACAGGCTTGTG
*
71620893 TTTAGGCCGTGTGTGACACACG
66 TCTAGGCCGTGTGTGACACACG
* *
71620915 GAGGGTGACCAAAAGCTTGGAAAATAGCCTAACATGGTCCACATGGGTAGACACACGGGCTTGTG
1 GAGGGTGACCAAAAGCTTGGAAAATAGCCTAACACGGTCCACATGGGTAGACACACAGGCTTGTG
*
71620980 TCTAGGCTGTGTGTGACACACG
66 TCTAGGCCGTGTGTGACACACG
71621002 GA
1 GA
71621004 TCACGCCATG
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (87 bp):
GAGGGTGACCAAAAGCTTGGAAAATAGCCTAACACGGTCCACATGGGTAGACACACAGGCTTGTG
TCTAGGCCGTGTGTGACACACG
Found at i:71627636 original size:13 final size:13
Alignment explanation
Indices: 71627618--71627644 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
71627608 GAAGCAATTG
71627618 CACACGGGCGTGT
1 CACACGGGCGTGT
71627631 CACACGGGCGTGT
1 CACACGGGCGTGT
71627644 C
1 C
71627645 CCTGTCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:71628018 original size:12 final size:13
Alignment explanation
Indices: 71628002--71628039 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
71627992 AAATATTAAA
71628002 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
71628015 TTGTGTTCTTAATT
1 CT-TGTTCTTAATT
71628029 CTTGTT-TTAAT
1 CTTGTTCTTAAT
71628040 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 5 0.23
13 5 0.23
14 12 0.55
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.63
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:71628023 original size:14 final size:15
Alignment explanation
Indices: 71628004--71628033 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
71627994 ATATTAAACT
71628004 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
71628018 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
71628033 T
1 T
71628034 TTTAATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:71641780 original size:42 final size:42
Alignment explanation
Indices: 71641676--71641780 Score: 158
Period size: 42 Copynumber: 2.5 Consensus size: 42
71641666 AGACACACGT
*
71641676 GCGTGTGTCTAGCCCTTGTGTGACACACAGTCTACCCCATGG
1 GCGTGTGTCTAGGCCTTGTGTGACACACAGTCTACCCCATGG
* *
71641718 GCGTGTGTCTAGGCCGTGTGTGACACACGGTCTACCCCATGG
1 GCGTGTGTCTAGGCCTTGTGTGACACACAGTCTACCCCATGG
*
71641760 GCGTGTAGT-TCGGCCTTGTGT
1 GCGTGT-GTCTAGGCCTTGTGT
71641781 CCCTTGCATG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 55 0.96
43 2 0.04
ACGTcount: A:0.13, C:0.28, G:0.31, T:0.28
Consensus pattern (42 bp):
GCGTGTGTCTAGGCCTTGTGTGACACACAGTCTACCCCATGG
Found at i:71648623 original size:46 final size:48
Alignment explanation
Indices: 71648408--71648676 Score: 183
Period size: 46 Copynumber: 5.7 Consensus size: 48
71648398 TTATTATATG
* * *
71648408 CTAGTGTAAGA-CATGTCTGGGACAT-ACATCGACCACATTATGA-G-AG-
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCG-GCAC-TGA-GATGTAGT
* ** * *
71648454 CTAGTGTAAGACCATGTCTGGGACATGGCAACAACATTGAGGTG-AGT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGATGTAGT
** * *
71648501 GCTAGTGTAAGA-TGTGTCTGGGACAT-GCATC-G-ATTTGGTGATGATAG-
1 -CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CT-GAGATG-TAGT
* **
71648548 CCAGTGTAAGA-TGTGTCTGGGACAT-GCATCGGCTA-TGAGATGT-GT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACTGAGATGTAGT
* *
71648593 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGATGT-AG-T
71648642 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
71648677 CTCGGTGATG
Statistics
Matches: 184, Mismatches: 19, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
44 11 0.06
45 18 0.10
46 72 0.39
47 30 0.16
48 17 0.09
49 3 0.02
50 33 0.18
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGAGATGTAGT
Found at i:71651717 original size:24 final size:23
Alignment explanation
Indices: 71651645--71651718 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 23
71651635 AAGCTCTATT
* * *
71651645 GAGCTGAA-CGGTAAACTCTGAC
1 GAGCTGAATCAGTAAGCTCTTAC
* * *
71651667 GAGCTGAATCAGTAAGTTCATAT
1 GAGCTGAATCAGTAAGCTCTTAC
71651690 GAGCTGAGAAT-AGTAAGCTCTTAC
1 GAGCT--GAATCAGTAAGCTCTTAC
71651714 GAGCT
1 GAGCT
71651719 AATATATCAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 8 0.20
23 13 0.32
24 15 0.38
25 4 0.10
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (23 bp):
GAGCTGAATCAGTAAGCTCTTAC
Found at i:71657027 original size:56 final size:56
Alignment explanation
Indices: 71656960--71657121 Score: 252
Period size: 56 Copynumber: 2.9 Consensus size: 56
71656950 TACATGTAAC
* * * *
71656960 CACATATCGATGCCAACGTACTAGACGTGGTCTTACTTGCACACATTTATCGGAAT
1 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTTGCACACATATATCGGAAT
* **
71657016 CACATATCGATGCCAACGTATTAAATTTGGTCTTACTCCCACACATATATCGGAAT
1 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTTGCACACATATATCGGAAT
*
71657072 CACATATCGATGCCAATGTATTAAATGTGGTCTTACTTGCACACATATAT
1 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTTGCACACATATAT
71657122 GGATGCCATG
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 95 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (56 bp):
CACATATCGATGCCAACGTATTAAATGTGGTCTTACTTGCACACATATATCGGAAT
Found at i:71662030 original size:26 final size:27
Alignment explanation
Indices: 71661980--71662030 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
71661970 AACCACATTA
* **
71661980 AAAACATTTAATTCAATTTGTAATTTC
1 AAAACATTTAATACAATTTCAAATTTC
71662007 AAAAC-TTTAATACAATTTCAAATT
1 AAAACATTTAATACAATTTCAAATT
71662031 CTACCATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (27 bp):
AAAACATTTAATACAATTTCAAATTTC
Found at i:71664874 original size:27 final size:22
Alignment explanation
Indices: 71664824--71664868 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
71664814 ATTCAATGAC
71664824 ATAATCAACTCAATTTAAAATA
1 ATAATCAACTCAATTTAAAATA
71664846 ATAATCAACTCAATTTAAAATA
1 ATAATCAACTCAATTTAAAATA
71664868 A
1 A
71664869 CATAATCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (22 bp):
ATAATCAACTCAATTTAAAATA
Found at i:71670351 original size:16 final size:16
Alignment explanation
Indices: 71670325--71670358 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
71670315 GATTGAAGGC
71670325 TTTAAGTTT-AATTAA
1 TTTAAGTTTAAATTAA
71670340 TTTAATGTTTAAATTAA
1 TTTAA-GTTTAAATTAA
71670357 TT
1 TT
71670359 AAACTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 4 0.24
17 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAGTTTAAATTAA
Found at i:71689497 original size:27 final size:27
Alignment explanation
Indices: 71689467--71689519 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
71689457 CCCAAAATAC
*
71689467 GTAAAATGACCATAATACCCTTATATG
1 GTAAAATAACCATAATACCCTTATATG
* * *
71689494 GTAAAATAACGATTATGCCCTTATAT
1 GTAAAATAACCATAATACCCTTATAT
71689520 TTCATATAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (27 bp):
GTAAAATAACCATAATACCCTTATATG
Found at i:71689703 original size:27 final size:27
Alignment explanation
Indices: 71689644--71689703 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
71689634 GGAAGCATTG
* *
71689644 TACTGGTGGCTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATTCACTAT
* *
71689671 TACTGGTGGCTTTGCCACATTTACTAT
1 TACTGGTGGCTATGCCACATTCACTAT
*
71689698 TTCTGG
1 TACTGG
71689704 CAACTATGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.40
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACATTCACTAT
Found at i:71694677 original size:18 final size:18
Alignment explanation
Indices: 71694654--71694716 Score: 54
Period size: 23 Copynumber: 3.2 Consensus size: 18
71694644 ATTCTTTTTC
71694654 TTTATTTTTCTTTATTTA
1 TTTATTTTTCTTTATTTA
*
71694672 TTTATTTTACTTTTATTCTTA
1 TTTATTTTTC-TTTA-T-TTA
*
71694693 CTTTTATTTTTATTTTATTTA
1 --TTTATTTTT-CTTTATTTA
71694714 TTT
1 TTT
71694717 GAGTATTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
18 9 0.25
19 7 0.19
20 1 0.03
21 6 0.17
22 1 0.03
23 12 0.33
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTTCTTTATTTA
Found at i:71694695 original size:12 final size:11
Alignment explanation
Indices: 71694672--71694712 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
71694662 TCTTTATTTA
71694672 TTTATTTTACT
1 TTTATTTTACT
71694683 TTTATTCTTACT
1 TTTATT-TTACT
71694695 TTTATTTTTA-T
1 TTTA-TTTTACT
71694706 TTTATTT
1 TTTATTT
71694713 ATTTGAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.11
11 11 0.39
12 12 0.43
13 2 0.07
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTTTACT
Found at i:71694882 original size:3 final size:3
Alignment explanation
Indices: 71694818--71694863 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
71694808 TTTTTTATGT
* *
71694818 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTG TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
71694864 CCTTCTTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:71694953 original size:27 final size:28
Alignment explanation
Indices: 71694819--71694953 Score: 78
Period size: 27 Copynumber: 4.8 Consensus size: 28
71694809 TTTTTATGTT
* **
71694819 TATTATTATTATTATTATTATTATTAT-
1 TATTATTATTTTTATTATTATTCCTATA
* * ** * *
71694846 TATTGTTATTGTTATTATCCTTCTTTGTA
1 TATTATTATTTTTATTATTATTC-CTATA
* *
71694875 CTATTATTACTGTTATTGATTATTCCTATA
1 -TATTATTATTTTTATT-ATTATTCCTATA
* *
71694905 TATTATTATTTTTAGTACTATTCCT-TA
1 TATTATTATTTTTATTATTATTCCTATA
* *
71694932 T-TTCGTTCTTTTTATTATTATT
1 TATT-ATTATTTTTATTATTATT
71694954 TAGTTTTGTT
Statistics
Matches: 83, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
26 2 0.02
27 35 0.42
28 11 0.13
29 13 0.16
30 17 0.20
31 5 0.06
ACGTcount: A:0.24, C:0.09, G:0.05, T:0.62
Consensus pattern (28 bp):
TATTATTATTTTTATTATTATTCCTATA
Found at i:71696482 original size:42 final size:43
Alignment explanation
Indices: 71696420--71696502 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 43
71696410 TATGATTTAC
*
71696420 GTGTAACACCATGTCCGGGACACCGGCATC-GTATTTGATTTT
1 GTGTAACACCATGTCCGGGACACCGGCATCAATATTTGATTTT
* * * **
71696462 GTGTAAGACCCTGTCTGGGACAGTGGCATCAATATTTGATT
1 GTGTAACACCATGTCCGGGACACCGGCATCAATATTTGATT
71696503 ACATGTAAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 25 0.74
43 9 0.26
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.31
Consensus pattern (43 bp):
GTGTAACACCATGTCCGGGACACCGGCATCAATATTTGATTTT
Found at i:71705059 original size:45 final size:46
Alignment explanation
Indices: 71705005--71705113 Score: 141
Period size: 47 Copynumber: 2.3 Consensus size: 46
71704995 TGCACACTTT
* * *
71705005 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCGTATCACATATAACACTTACACAT-TCA
*
71705051 TCACATTGGCCATTCGGCCGTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCGTATCACATATA-ACACTTACACATTCA
71705098 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
71705114 ATCTTAAGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 24 0.43
46 5 0.09
47 27 0.48
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCGTATCACATATAACACTTACACATTCA
Found at i:71708895 original size:40 final size:40
Alignment explanation
Indices: 71708851--71709007 Score: 215
Period size: 40 Copynumber: 3.9 Consensus size: 40
71708841 GAATACACGT
* * * *
71708851 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
* * *
71708891 CACCAGCACGAATGCTCTTCGGGAATTAGCCTGGATATAA
1 CACCAGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
* *
71708931 CACCGGCACGAATGCCCTTCGGGATTTAGCCCGGATATAA
1 CACCAGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
* *
71708971 CACCGGCACGAATACCCTTCGGGACTTAGCCCGGATA
1 CACCAGCACGAATGCCCTTCGGGACTTAGCCCGGATA
71709008 AATATCATTC
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
Found at i:71710649 original size:47 final size:48
Alignment explanation
Indices: 71710578--71710681 Score: 133
Period size: 47 Copynumber: 2.2 Consensus size: 48
71710568 GGCTCTTTGT
* * *
71710578 GAGCTTCCCGATAGTGCTCGCTTGAACAT-CTTA-ATATCGGCTATCCG
1 GAGCTTCCCGATAGTGCTCACTTGAACATCCTGATATAT-GACTATCCG
*
71710625 GAGCTTCCCGATA-TGGCTCACTTGAACTTCCTGATATATGACTATCCG
1 GAGCTTCCCGATAGT-GCTCACTTGAACATCCTGATATATGACTATCCG
71710673 GAGCTTCCC
1 GAGCTTCCC
71710682 AATTAATAGC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
46 1 0.02
47 25 0.50
48 20 0.40
49 4 0.08
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (48 bp):
GAGCTTCCCGATAGTGCTCACTTGAACATCCTGATATATGACTATCCG
Found at i:71717399 original size:3 final size:3
Alignment explanation
Indices: 71717391--71717420 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
71717381 TTGATAAAAT
71717391 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
71717421 CTAAGTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:71717985 original size:30 final size:30
Alignment explanation
Indices: 71717945--71718004 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
71717935 TTCCCGAGCC
* *
71717945 TAGGGACAAAAGTGTAATTATGCAAAAGTT
1 TAGGGACAAAAATGGAATTATGCAAAAGTT
* * *
71717975 TAGGGGCAAAAATGGAATTTTGCCAAAGTT
1 TAGGGACAAAAATGGAATTATGCAAAAGTT
71718005 GGTATTAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (30 bp):
TAGGGACAAAAATGGAATTATGCAAAAGTT
Found at i:71724633 original size:433 final size:433
Alignment explanation
Indices: 71723827--71724692 Score: 1732
Period size: 433 Copynumber: 2.0 Consensus size: 433
71723817 GATTAAGGCA
71723827 TTTAGGATTAACCCACTCATGCCATGAAAAGCCTAACTTAACGATTAACCCCTAGTAAACCCCCT
1 TTTAGGATTAACCCACTCATGCCATGAAAAGCCTAACTTAACGATTAACCCCTAGTAAACCCCCT
71723892 TGAGCCTAACAAGCCATTTCTTGTATTACCCTCAATATTAACCTTTAACCCATTATTGTTGAAAT
66 TGAGCCTAACAAGCCATTTCTTGTATTACCCTCAATATTAACCTTTAACCCATTATTGTTGAAAT
71723957 CCCCTAAATTAATCCCTATTTTTGTCGAGATTTGAGTTGGACGGATTGCTTAGCTATGTTTTGTT
131 CCCCTAAATTAATCCCTATTTTTGTCGAGATTTGAGTTGGACGGATTGCTTAGCTATGTTTTGTT
71724022 CTTAATAGTTGGTCTATATTATTTAACTTGTTCTTAAAAAAAACTATGTATACATATCTATAATT
196 CTTAATAGTTGGTCTATATTATTTAACTTGTTCTTAAAAAAAACTATGTATACATATCTATAATT
71724087 TCATAGTCTGAGAAGAAGCTCTGTTGTACGCAAGTAATGATTAACTCTTTTTCTAGTTAGGTAAT
261 TCATAGTCTGAGAAGAAGCTCTGTTGTACGCAAGTAATGATTAACTCTTTTTCTAGTTAGGTAAT
71724152 TTTTCAATTCAATCTCAATTCTAACCTTTTCTTTCAAGCTTGTGACCACACCCCCTAACCAAGCC
326 TTTTCAATTCAATCTCAATTCTAACCTTTTCTTTCAAGCTTGTGACCACACCCCCTAACCAAGCC
71724217 TCATTACAACCCTTTAAAGACCTTTTCATTGATGTATCATCTT
391 TCATTACAACCCTTTAAAGACCTTTTCATTGATGTATCATCTT
71724260 TTTAGGATTAACCCACTCATGCCATGAAAAGCCTAACTTAACGATTAACCCCTAGTAAACCCCCT
1 TTTAGGATTAACCCACTCATGCCATGAAAAGCCTAACTTAACGATTAACCCCTAGTAAACCCCCT
71724325 TGAGCCTAACAAGCCATTTCTTGTATTACCCTCAATATTAACCTTTAACCCATTATTGTTGAAAT
66 TGAGCCTAACAAGCCATTTCTTGTATTACCCTCAATATTAACCTTTAACCCATTATTGTTGAAAT
71724390 CCCCTAAATTAATCCCTATTTTTGTCGAGATTTGAGTTGGACGGATTGCTTAGCTATGTTTTGTT
131 CCCCTAAATTAATCCCTATTTTTGTCGAGATTTGAGTTGGACGGATTGCTTAGCTATGTTTTGTT
71724455 CTTAATAGTTGGTCTATATTATTTAACTTGTTCTTAAAAAAAACTATGTATACATATCTATAATT
196 CTTAATAGTTGGTCTATATTATTTAACTTGTTCTTAAAAAAAACTATGTATACATATCTATAATT
71724520 TCATAGTCTGAGAAGAAGCTCTGTTGTACGCAAGTAATGATTAACTCTTTTTCTAGTTAGGTAAT
261 TCATAGTCTGAGAAGAAGCTCTGTTGTACGCAAGTAATGATTAACTCTTTTTCTAGTTAGGTAAT
71724585 TTTTCAATTCAATCTCAATTCTAACCTTTTCTTTCAAGCTTGTGACCACACCCCCTAACCAAGCC
326 TTTTCAATTCAATCTCAATTCTAACCTTTTCTTTCAAGCTTGTGACCACACCCCCTAACCAAGCC
71724650 TCATTACAACCCTTTAAAGACCTTTTCATTGATGTATCATCTT
391 TCATTACAACCCTTTAAAGACCTTTTCATTGATGTATCATCTT
71724693 AAATTATAGT
Statistics
Matches: 433, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
433 433 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (433 bp):
TTTAGGATTAACCCACTCATGCCATGAAAAGCCTAACTTAACGATTAACCCCTAGTAAACCCCCT
TGAGCCTAACAAGCCATTTCTTGTATTACCCTCAATATTAACCTTTAACCCATTATTGTTGAAAT
CCCCTAAATTAATCCCTATTTTTGTCGAGATTTGAGTTGGACGGATTGCTTAGCTATGTTTTGTT
CTTAATAGTTGGTCTATATTATTTAACTTGTTCTTAAAAAAAACTATGTATACATATCTATAATT
TCATAGTCTGAGAAGAAGCTCTGTTGTACGCAAGTAATGATTAACTCTTTTTCTAGTTAGGTAAT
TTTTCAATTCAATCTCAATTCTAACCTTTTCTTTCAAGCTTGTGACCACACCCCCTAACCAAGCC
TCATTACAACCCTTTAAAGACCTTTTCATTGATGTATCATCTT
Found at i:71726567 original size:49 final size:49
Alignment explanation
Indices: 71726498--71726735 Score: 228
Period size: 49 Copynumber: 4.8 Consensus size: 49
71726488 GTAGTCGGAG
* *
71726498 CTATCTGG-ACTCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * * * *
71726546 CAATCTGGTACACGTAGTAGCCTGTACTTA-TACTACAAATGTGACGAAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGAC-CAA
* * * * *
71726595 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA
* * * * * * * *
71726645 GTTGTCGGGTACGCATAGTAGCCTACACTTAGTACTACTCATACGACCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
* *
71726696 CTATCTGGTACACGTAGTAGCCCGCACTTAGTACAACACA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
71726736 CGTGACCTAA
Statistics
Matches: 149, Mismatches: 35, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
48 20 0.13
49 47 0.32
50 46 0.31
51 36 0.24
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:71743142 original size:27 final size:27
Alignment explanation
Indices: 71743112--71743289 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
71743102 ATATTGAGTC
* * * *
71743112 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
71743139 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
71743166 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
71743194 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
71743221 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
71743248 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
71743275 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71743290 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:71743251 original size:82 final size:81
Alignment explanation
Indices: 71743133--71743288 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
71743123 TGCTATATAA
* *
71743133 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
71743198 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
71743215 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
71743279 CACTTAGTGC
65 CACTTAGTGC
71743289 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:71751111 original size:22 final size:22
Alignment explanation
Indices: 71751081--71751125 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
71751071 ATTGTATGAT
71751081 TTATGAAT-GCATGATAATTGCA
1 TTATGAATGGCATGATAA-TGCA
*
71751103 TTATTAATGGCATGATAATGCA
1 TTATGAATGGCATGATAATGCA
71751125 T
1 T
71751126 GAAATGCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (22 bp):
TTATGAATGGCATGATAATGCA
Found at i:71751133 original size:9 final size:10
Alignment explanation
Indices: 71751086--71751134 Score: 55
Period size: 11 Copynumber: 4.7 Consensus size: 10
71751076 ATGATTTATG
71751086 AATGCATGAT
1 AATGCATGAT
*
71751096 AATTGCATTATT
1 AA-TGCATGA-T
71751108 AATGGCATGAT
1 AAT-GCATGAT
71751119 AATGCATGA-
1 AATGCATGAT
71751128 AATGCAT
1 AATGCAT
71751135 CTTTGATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 7 0.21
10 8 0.24
11 11 0.32
12 8 0.24
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (10 bp):
AATGCATGAT
Found at i:71752378 original size:31 final size:31
Alignment explanation
Indices: 71752337--71752400 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
71752327 CCTTTTCATA
*
71752337 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
71752368 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
71752399 TT
1 TT
71752401 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:71752666 original size:23 final size:23
Alignment explanation
Indices: 71752613--71752734 Score: 172
Period size: 23 Copynumber: 5.2 Consensus size: 23
71752603 GGCCTAGCCT
*
71752613 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAG-C
71752637 CTTTTAATAACTGGGGCATAAGC
1 CTTTTAATAACTGGGGCATAAGC
71752660 CTTTTAATAACTGGGGCATAAGC
1 CTTTTAATAACTGGGGCATAAGC
* * * *
71752683 CCTTTAATAACTGAGGTACAAGC
1 CTTTTAATAACTGGGGCATAAGC
*
71752706 CCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAG-C
71752730 CTTTT
1 CTTTT
71752735 CCACTTCCTC
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
23 62 0.70
24 26 0.30
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (23 bp):
CTTTTAATAACTGGGGCATAAGC
Found at i:71752683 original size:47 final size:47
Alignment explanation
Indices: 71752613--71752734 Score: 192
Period size: 46 Copynumber: 2.6 Consensus size: 47
71752603 GGCCTAGCCT
* * *
71752613 CTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGAGGCACAAGC
*
71752660 CTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGAGGTACAAGC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGAGGCACAAGC
*
71752706 CCTTTAATAACTGGGGCATAAGCCCTTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTTT
71752735 CCACTTCCTC
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
46 42 0.61
47 27 0.39
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (47 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGAGGCACAAGC
Found at i:71752812 original size:20 final size:20
Alignment explanation
Indices: 71752784--71752850 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
71752774 TTATGATTAC
*
71752784 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
71752804 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
71752824 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
71752844 ACCATGT
1 ATCATGT
71752851 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:71760420 original size:31 final size:31
Alignment explanation
Indices: 71760379--71760442 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
71760369 CCTTTTCATA
*
71760379 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
** *
71760410 TTTCAAATTTCATATTACTGGGCCGAAGGCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
71760441 TT
1 TT
71760443 ACTATAAACT
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:0.17, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:71760720 original size:22 final size:23
Alignment explanation
Indices: 71760657--71760774 Score: 211
Period size: 23 Copynumber: 5.1 Consensus size: 23
71760647 CCTAGCCTCT
*
71760657 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
71760680 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
71760704 TTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
71760726 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
71760749 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
71760772 TTT
1 TTT
71760775 TTCACTTCCT
Statistics
Matches: 92, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
22 22 0.24
23 48 0.52
24 22 0.24
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Done.