Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 68 of 185
Found at i:20180733 original size:12 final size:12
Alignment explanation
Indices: 20180679--20180737 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
20180669 AATTGAAAAA
20180679 GAAAAAGAAGTT
1 GAAAAAGAAGTT
* *
20180691 AAAAAAGAAATT
1 GAAAAAGAAGTT
**
20180703 GAAAAAGAAGAAAAA
1 GAAAAAGAAG---TT
20180718 GAAAAAGAAGTT
1 GAAAAAGAAGTT
20180730 GAAAAAGA
1 GAAAAAGA
20180738 GACAAAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
12 26 0.72
15 10 0.28
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.10
Consensus pattern (12 bp):
GAAAAAGAAGTT
Found at i:20184176 original size:41 final size:41
Alignment explanation
Indices: 20184116--20184224 Score: 182
Period size: 41 Copynumber: 2.7 Consensus size: 41
20184106 ATTCACCCGT
* * *
20184116 ACTTAGCCTACTAGACGTAAAGTCTGATTCAGTACACCAGC
1 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
*
20184157 ACTTAGCCTGCTAGGCGTAAAGCCTGATTTAGTACACCAGC
1 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
20184198 ACTTAGCCTGCTAGGCGTAAAGCCTGA
1 ACTTAGCCTGCTAGGCGTAAAGCCTGA
20184225 AAATCTCAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (41 bp):
ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
Found at i:20185962 original size:4 final size:4
Alignment explanation
Indices: 20185953--20185978 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
20185943 AAATTTTATG
20185953 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
20185979 ATAAGTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:20190856 original size:41 final size:41
Alignment explanation
Indices: 20190796--20190904 Score: 191
Period size: 41 Copynumber: 2.7 Consensus size: 41
20190786 ATTCACCCGT
* * *
20190796 ACTTAGCCTACTAGCCGTAAAGCCTGATTCAGTACACCGGC
1 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
20190837 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
1 ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
20190878 ACTTAGCCTGCTAGGCGTAAAGCCTGA
1 ACTTAGCCTGCTAGGCGTAAAGCCTGA
20190905 AAATCTCAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (41 bp):
ACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTACACCAGC
Found at i:20195563 original size:20 final size:20
Alignment explanation
Indices: 20195540--20195579 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20195530 ATTTTATTCG
*
20195540 ATTTCAATCAATTTGATTTA
1 ATTTCAATCAAATTGATTTA
*
20195560 ATTTTAATCAAATTGATTTA
1 ATTTCAATCAAATTGATTTA
20195580 TTGGCTCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTTCAATCAAATTGATTTA
Found at i:20205412 original size:50 final size:50
Alignment explanation
Indices: 20205305--20205595 Score: 348
Period size: 50 Copynumber: 5.7 Consensus size: 50
20205295 GATAATAACA
* * **
20205305 TGCCAAAGCCATGTCCCAGACATGGTATTACATGGGATGTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * ** *
20205356 TGCCAACTCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
20205406 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
20205456 TGCCAACGCCATGTCCCAAACATGGTCTTACATGAGACCACTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
20205506 TGCCAACGCGATATCTCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
* * *
20205562 TGCCAATGTCATGTCCCAGACATGTTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
20205596 AGGTCTCTTT
Statistics
Matches: 204, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
50 139 0.68
51 31 0.15
53 5 0.02
56 29 0.14
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:20211895 original size:32 final size:32
Alignment explanation
Indices: 20211854--20211914 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
20211844 ACTATAAAGA
20211854 ACAAATATCCACTGCCTAGAATTGATGATCTG
1 ACAAATATCCACTGCCTAGAATTGATGATCTG
20211886 ACAAATATCCACTGCCTAGAATTGATGAT
1 ACAAATATCCACTGCCTAGAATTGATGAT
20211915 TTGTTTGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (32 bp):
ACAAATATCCACTGCCTAGAATTGATGATCTG
Found at i:20219525 original size:39 final size:39
Alignment explanation
Indices: 20219430--20219691 Score: 320
Period size: 39 Copynumber: 6.6 Consensus size: 39
20219420 TTGAATGATG
*
20219430 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
20219468 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
20219509 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20219548 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
20219587 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
20219626 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
20219665 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
20219692 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
39 131 0.65
40 57 0.28
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:20239654 original size:39 final size:39
Alignment explanation
Indices: 20239559--20239820 Score: 320
Period size: 39 Copynumber: 6.6 Consensus size: 39
20239549 TTGAATGATG
*
20239559 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
20239597 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
20239638 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20239677 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
20239716 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
20239755 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
20239794 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
20239821 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
39 131 0.65
40 57 0.28
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:20247990 original size:32 final size:32
Alignment explanation
Indices: 20247952--20248015 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
20247942 AAAACATTAA
*
20247952 TATAAACATAACATAATCAATTCCTATACATG
1 TATAAACATAACATAATCAATTCATATACATG
*
20247984 TATAAACATAGCATAATCAATTCATATACATG
1 TATAAACATAACATAATCAATTCATATACATG
20248016 CATATTGTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.31
Consensus pattern (32 bp):
TATAAACATAACATAATCAATTCATATACATG
Found at i:20250124 original size:41 final size:41
Alignment explanation
Indices: 20250052--20250147 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
20250042 GGCTCTGTGC
**
20250052 CTAGCAGGCTTAATGCCAGTGATGTAATTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGT
** * *
20250093 CTAGCAGGCTTAATGCTGGTGAAATATTTCAGACTTTAGGT
1 CTAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGT
*
20250134 CTAGTAGGCTTAAT
1 CTAGCAGGCTTAAT
20250148 ACCGGTGTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACGT
Found at i:20259773 original size:41 final size:41
Alignment explanation
Indices: 20259709--20259819 Score: 125
Period size: 41 Copynumber: 2.7 Consensus size: 41
20259699 TCCAAAGTGT
* * * * *
20259709 AAACAGGGGCACTTATGTGCAATTCAGGTGTATCGAAGTAC
1 AAACAGAGGCACATACGTACAATTCAGGGGTATCGAAGTAC
*
20259750 AAACA-AGGTCACATACGTACAATTCAGGGGTATGGAAGTAC
1 AAACAGAGG-CACATACGTACAATTCAGGGGTATCGAAGTAC
* * *
20259791 AAACAGAGGCACGTATGTGCAATTCAGGG
1 AAACAGAGGCACATACGTACAATTCAGGG
20259820 AATAATTAAC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 2 0.03
41 54 0.92
42 3 0.05
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (41 bp):
AAACAGAGGCACATACGTACAATTCAGGGGTATCGAAGTAC
Found at i:20262987 original size:18 final size:18
Alignment explanation
Indices: 20262964--20262998 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20262954 ACGATGTGCC
20262964 AAACTATTTTCATGCTTG
1 AAACTATTTTCATGCTTG
*
20262982 AAACTATTTTGATGCTT
1 AAACTATTTTCATGCTT
20262999 ATTGTTCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (18 bp):
AAACTATTTTCATGCTTG
Found at i:20265921 original size:13 final size:13
Alignment explanation
Indices: 20265903--20265928 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20265893 ATAGTTACTG
20265903 AAATTATTATAAT
1 AAATTATTATAAT
20265916 AAATTATTATAAT
1 AAATTATTATAAT
20265929 TAAGATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:20275500 original size:48 final size:48
Alignment explanation
Indices: 20275408--20275533 Score: 144
Period size: 48 Copynumber: 2.6 Consensus size: 48
20275398 AAAACAGATT
* * * ** *
20275408 TCTCGGTGGCCTACACATAGTCCGTACCACCTTTGTGTAATAACAGAC
1 TCTCGGTGGCCTACACATAGTCCGTGCCACCCTTCTACAATAACAGAA
* **
20275456 TCTCGGTGGCCTGCACATAGTCCGTGCCACCCTTCTACCTTAACAGAA
1 TCTCGGTGGCCTACACATAGTCCGTGCCACCCTTCTACAATAACAGAA
* * *
20275504 TATTGGTGGCCTACACACAGTCCGTGCCAC
1 TCTCGGTGGCCTACACATAGTCCGTGCCAC
20275534 ATATGCGACC
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (48 bp):
TCTCGGTGGCCTACACATAGTCCGTGCCACCCTTCTACAATAACAGAA
Found at i:20278820 original size:22 final size:22
Alignment explanation
Indices: 20278795--20278886 Score: 112
Period size: 22 Copynumber: 4.2 Consensus size: 22
20278785 AAATTCAATA
* *
20278795 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
20278817 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
20278839 TCAATTCCCTTCAAAATTTCTA
1 TCAATTCCCTTCAAAAATTCTC
* *
20278861 TCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
20278883 TCAA
1 TCAA
20278887 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:20278902 original size:52 final size:51
Alignment explanation
Indices: 20278836--20278938 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
20278826 TTCAAAATTT
* * *
20278836 CTCTCAATTCCCTT-CAAAATTTCTATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA-TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
20278888 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
20278939 TCCATATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:20278927 original size:21 final size:22
Alignment explanation
Indices: 20278888--20278929 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20278878 TTCTCTCAAA
20278888 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
20278910 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
20278930 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:20279035 original size:29 final size:30
Alignment explanation
Indices: 20278973--20279035 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
20278963 TAAATTTCAT
* *
20278973 TTTTTTAAGAAAATTTTAAAATTTTTTATT
1 TTTTTTAAGAAAATTTTAAAATTTTTAATA
*
20279003 TTTTTTAA-ATAATTTTAAAATTTTTAATA
1 TTTTTTAAGAAAATTTTAAAATTTTTAATA
20279032 TTTT
1 TTTT
20279036 CAACAATGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTTTTAAGAAAATTTTAAAATTTTTAATA
Found at i:20279825 original size:124 final size:125
Alignment explanation
Indices: 20279605--20279884 Score: 372
Period size: 124 Copynumber: 2.3 Consensus size: 125
20279595 CCACGAGGGC
* *
20279605 GCGATTTGACACTATTTGCTCAG-AAACGTCAAAAAAAATTACTTCCTACATGACCAACTGTAGC
1 GCGATTTCACACTATTTCCTCAGAAAACGTCAAAAAAAATTACTTCCTACATGACCAACTGTAGC
* * * * **
20279669 AAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* * *
20279729 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAATTA-TTTCTCACATGACC-ACTGTAG
1 GCGATTTCACACTATTTCCTCAGAAAACGTCAAAAAAAATTACTTCCT-ACATGACCAACTGTAG
* * *
20279792 CGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
65 CAAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
*
20279853 GCGATTTCCCACTATTTCAC-CA-AAAACGTCAA
1 GCGATTTCACACTATTTC-CTCAGAAAACGTCAA
20279885 CTCGAAAAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
123 10 0.07
124 100 0.73
125 27 0.20
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (125 bp):
GCGATTTCACACTATTTCCTCAGAAAACGTCAAAAAAAATTACTTCCTACATGACCAACTGTAGC
AAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:20281199 original size:30 final size:29
Alignment explanation
Indices: 20281148--20281293 Score: 93
Period size: 30 Copynumber: 4.9 Consensus size: 29
20281138 ACAAAAATAC
*
20281148 AAATTATATTTT-AGCCTCTAAACTTTTCAA
1 AAATTATATTTTGA-CCCCTAAA-TTTTCAA
*
20281178 AAATTATATTTTGACCCCTAAATTTTTCTA
1 AAATTATATTTTGACCCCTAAA-TTTTCAA
* **
20281208 AATTTGCAT-TTTTGACCCCTAATATTTT-GT
1 AAATT--ATATTTTGACCCCTAA-ATTTTCAA
** * *
20281238 AAATTATATTCAGGCCCCTAAAATTTTTAA
1 AAATTATATTTTGACCCCT-AAATTTTCAA
* * *
20281268 AAATTACATTTTG-GCCCTATATTTTC
1 AAATTATATTTTGACCCCTAAATTTTC
20281294 CTAAAATTGC
Statistics
Matches: 91, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
28 8 0.09
29 17 0.19
30 45 0.49
31 18 0.20
32 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (29 bp):
AAATTATATTTTGACCCCTAAATTTTCAA
Found at i:20281259 original size:90 final size:88
Alignment explanation
Indices: 20281148--20281324 Score: 230
Period size: 90 Copynumber: 2.0 Consensus size: 88
20281138 ACAAAAATAC
* * * * * *
20281148 AAATTATATTTTAGCCTCTAAACTTTTCAAAAATTATATTTTGACCCCTAAATTTTTCTAAATTT
1 AAATTATATTTCAGCCCCTAAAATTTTCAAAAATTACATTTTG-CCCCTAAATTTTCCTAAAATT
*
20281213 GCATTTTTGACCCCTAATATTTTGT
65 GCATTTTT-ACCCCAAATATTTTGT
* * *
20281238 AAATTATA-TTCAGGCCCCTAAAATTTTTAAAAATTACATTTTGGCCCTATATTTTCCTAAAATT
1 AAATTATATTTCA-GCCCCTAAAATTTTCAAAAATTACATTTTGCCCCTAAATTTTCCTAAAATT
20281302 GCATTTTTACCCCAAATATTTTG
65 GCATTTTTACCCCAAATATTTTG
20281325 CGTCTTCTAC
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
88 14 0.18
89 28 0.37
90 34 0.45
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (88 bp):
AAATTATATTTCAGCCCCTAAAATTTTCAAAAATTACATTTTGCCCCTAAATTTTCCTAAAATTG
CATTTTTACCCCAAATATTTTGT
Found at i:20281910 original size:19 final size:19
Alignment explanation
Indices: 20281880--20281953 Score: 78
Period size: 23 Copynumber: 3.7 Consensus size: 19
20281870 AAGAAGTGAA
20281880 AAAAGAAAAAAAATAGCAAG
1 AAAAGAAAAAAAA-AGCAAG
*
20281900 AAAAGAAAAAAACAGCAAGG
1 AAAAGAAAAAAAAAGCAA-G
*
20281920 AAAAAAAGAAAAAAAAAGGAA-
1 ---AAAAGAAAAAAAAAGCAAG
20281941 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
20281954 TGGGAGAATG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 13 0.28
19 5 0.11
20 13 0.28
23 16 0.34
ACGTcount: A:0.80, C:0.04, G:0.15, T:0.01
Consensus pattern (19 bp):
AAAAGAAAAAAAAAGCAAG
Found at i:20282063 original size:5 final size:4
Alignment explanation
Indices: 20282042--20282129 Score: 51
Period size: 4 Copynumber: 21.5 Consensus size: 4
20282032 CTGAACGGGG
*
20282042 AAGA AAGA AAGAA AAGA GAAGA AACA AAGA AGGAGA AA-A AAGA AAG-
1 AAGA AAGA AAG-A AAGA -AAGA AAGA AAGA A--AGA AAGA AAGA AAGA
* *
20282088 AAG- AAGG AAG- AAGA AAGGGA AAGA AA-A AAGGA AAAA AAGA AA
1 AAGA AAGA AAGA AAGA AA--GA AAGA AAGA AA-GA AAGA AAGA AA
20282130 AAAATTAGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
3 15 0.22
4 35 0.51
5 11 0.16
6 8 0.12
ACGTcount: A:0.72, C:0.01, G:0.27, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:20282087 original size:17 final size:17
Alignment explanation
Indices: 20282045--20282104 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
20282035 AACGGGGAAG
* *
20282045 AAAGAAAGAAAAGAGAAG
1 AAAGAAAG-AAGGAGAAA
*
20282063 AAACAAAGAAGGAGAAA
1 AAAGAAAGAAGGAGAAA
* *
20282080 AAAGAAAGAAGAAGGAA
1 AAAGAAAGAAGGAGAAA
*
20282097 GAAGAAAG
1 AAAGAAAG
20282105 GGAAAGAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
17 28 0.80
18 7 0.20
ACGTcount: A:0.70, C:0.02, G:0.28, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAGGAGAAA
Found at i:20282950 original size:18 final size:19
Alignment explanation
Indices: 20282917--20282973 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
20282907 GAAAAAATCG
*
20282917 AAAAATTAGTGTTTTCAAA
1 AAAAATTCGTGTTTTCAAA
20282936 AAAAATTCGTG-TTTC-AA
1 AAAAATTCGTGTTTTCAAA
*
20282953 AAATATTCGTGTTTTCAAA
1 AAAAATTCGTGTTTTCAAA
20282972 AA
1 AA
20282974 TTTCGGTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 12 0.35
18 8 0.24
19 14 0.41
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.37
Consensus pattern (19 bp):
AAAAATTCGTGTTTTCAAA
Found at i:20282954 original size:17 final size:17
Alignment explanation
Indices: 20282917--20283001 Score: 73
Period size: 17 Copynumber: 4.8 Consensus size: 17
20282907 GAAAAAATCG
*
20282917 AAAAATTAGTGTTTTCAAA
1 AAAAATTCGTG-TTTC-AA
20282936 AAAAATTCGTGTTTCAA
1 AAAAATTCGTGTTTCAA
*
20282953 AAATATTCGTGTTTTC-A
1 AAAAATTCGTG-TTTCAA
* *
20282970 AAAATTTCGGTGTTTCTA
1 AAAAATTC-GTGTTTCAA
**
20282988 AAATTTTCGTGTTT
1 AAAAATTCGTGTTT
20283002 TCAACAATTC
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
17 29 0.50
18 19 0.33
19 10 0.17
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.44
Consensus pattern (17 bp):
AAAAATTCGTGTTTCAA
Found at i:20282974 original size:18 final size:18
Alignment explanation
Indices: 20282925--20283062 Score: 108
Period size: 18 Copynumber: 7.7 Consensus size: 18
20282915 CGAAAAATTA
*
20282925 GTGTTTTCAAAAAAAATTC
1 GTGTTTTC-AAAAATATTC
20282944 GTG-TTTCAAAAATATTC
1 GTGTTTTCAAAAATATTC
20282961 GTGTTTTCAAAAAT-TTC
1 GTGTTTTCAAAAATATTC
* *
20282978 G-GTGTTTCTAAAATTTTC
1 GTGT-TTTCAAAAATATTC
* *
20282996 GTGTTTTCAACAAT-TCCC
1 GTGTTTTCAAAAATAT-TC
* * *
20283014 GTG-TTTCACAAATTTTT
1 GTGTTTTCAAAAATATTC
20283031 GTGTTTTCAAAAATTATTATC
1 GTGTTTTCAAAAA-TA-T-TC
20283052 GTG-TTTCAAAA
1 GTGTTTTCAAAA
20283063 TTCTCATGGT
Statistics
Matches: 97, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
16 2 0.02
17 37 0.38
18 39 0.40
19 6 0.06
20 9 0.09
21 4 0.04
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.44
Consensus pattern (18 bp):
GTGTTTTCAAAAATATTC
Found at i:20282983 original size:35 final size:34
Alignment explanation
Indices: 20282917--20283045 Score: 134
Period size: 35 Copynumber: 3.7 Consensus size: 34
20282907 GAAAAAATCG
* *
20282917 AAAA-ATTAGTGTTTTCAAAAAAAATTCGTGTTTCA
1 AAAATATTCGTGTTTTC--AAAAATTTCGTGTTTCA
*
20282952 AAAATATTCGTGTTTTCAAAAATTTCGGTGTTTCT
1 AAAATATTCGTGTTTTCAAAAATTTC-GTGTTTCA
* * *
20282987 AAAATTTTCGTGTTTTCAACAATTCCCGTGTTTCA
1 AAAATATTCGTGTTTTCAAAAATT-TCGTGTTTCA
* * *
20283022 CAAATTTTTGTGTTTTCAAAAATT
1 AAAATATTCGTGTTTTCAAAAATT
20283046 ATTATCGTGT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
34 8 0.10
35 61 0.75
36 12 0.15
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (34 bp):
AAAATATTCGTGTTTTCAAAAATTTCGTGTTTCA
Found at i:20293749 original size:7 final size:8
Alignment explanation
Indices: 20293720--20293759 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
20293710 TTATGCCTAA
20293720 AAAAACAAC
1 AAAAA-AAC
*
20293729 AAAAAAAT
1 AAAAAAAC
*
20293737 AGAAAAAC
1 AAAAAAAC
20293745 AAAAAAAC
1 AAAAAAAC
20293753 AAAAAAA
1 AAAAAAA
20293760 AGAAAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
8 22 0.81
9 5 0.19
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:20293767 original size:24 final size:25
Alignment explanation
Indices: 20293720--20293766 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
20293710 TTATGCCTAA
20293720 AAAAACAACAAAAAAATAGAAAAAC
1 AAAAACAACAAAAAAATAGAAAAAC
20293745 AAAAA-AACAAAAAAA-AGAAAAA
1 AAAAACAACAAAAAAATAGAAAAA
20293767 AATCAAGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 7 0.32
24 10 0.45
25 5 0.23
ACGTcount: A:0.85, C:0.09, G:0.04, T:0.02
Consensus pattern (25 bp):
AAAAACAACAAAAAAATAGAAAAAC
Found at i:20294835 original size:77 final size:77
Alignment explanation
Indices: 20294636--20294913 Score: 443
Period size: 77 Copynumber: 3.6 Consensus size: 77
20294626 TATATTTTTC
* *
20294636 AATTTCTGTTTTTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACATGT
1 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGC
20294699 CGAGGTATTTCTTTT
66 CGAGGTA--TC-TTT
* *
20294714 AAATTTCTATTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG
1 -AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG
20294779 CCGAGGTATCTTT
65 CCGAGGTATCTTT
* *
20294792 AATTTTTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGC
1 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGC
20294857 CGAGGTATCTTT
66 CGAGGTATCTTT
*
20294869 AATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAG
1 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
20294914 AGGCTCAACT
Statistics
Matches: 186, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
77 115 0.62
78 3 0.02
79 15 0.08
81 53 0.28
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (77 bp):
AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGC
CGAGGTATCTTT
Found at i:20295053 original size:81 final size:81
Alignment explanation
Indices: 20294918--20295309 Score: 586
Period size: 81 Copynumber: 5.0 Consensus size: 81
20294908 GGTGAGAGGC
* *
20294918 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTCAATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTT
20294983 CTATTTTTCAAAAAAA
66 CTATTTTTCAAAAAAA
* * *
20294999 TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACATGTCAAGGTATTTCTTTTAAATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTT
20295064 CTATTTTTCAAAAAAA
66 CTATTTTTCAAAAAAA
*
20295080 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA--TC-TTT-AATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTT
*
20295141 CTGTTTTTCAAAAAAA
66 CTATTTTTCAAAAAAA
* *
20295157 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTCTTAAATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTT
20295222 CTATTTTTC--AAAAA
66 CTATTTTTCAAAAAAA
* * * * * *
20295236 TGAACTCATATTACGAGAGGTGAGTTGAGCCTTGGGTCGCATGCCGA-G-ATAT-TTTTCAATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTT
20295298 CTATTTTTCAAA
66 CTATTTTTCAAA
20295310 GGTCAACTCA
Statistics
Matches: 283, Mismatches: 22, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
76 17 0.06
77 72 0.25
78 5 0.02
79 51 0.18
80 2 0.01
81 136 0.48
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (81 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTAAATTT
CTATTTTTCAAAAAAA
Found at i:20295221 original size:158 final size:157
Alignment explanation
Indices: 20294918--20295309 Score: 606
Period size: 158 Copynumber: 2.5 Consensus size: 157
20294908 GGTGAGAGGC
*
20294918 TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTCTTTTCAATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA--TC-TTTCAATTT
* *
20294983 CTATTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACATGTCAAGG
63 CTATTTTTCAAAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCACATGCCAAGG
*
20295048 TATTTCTTTTAAATTTCTATTTTTCAAAAAAA
128 TATTTCTCTTAAATTTCTATTTTTC--AAAAA
* *
20295080 TCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATCTTT-AATTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATCTTTCAATTTCTA
* *
20295144 TTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTAT
66 TTTTTCAAAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCACATGCCAAGGTAT
20295209 TTCTCTTAAATTTCTATTTTTCAAAAA
131 TTCTCTTAAATTTCTATTTTTCAAAAA
* * * * * *
20295236 TGAACTCATATTACGAGAGGTGAGTTGAGCCTTGGGTCGCATGCCGAGATATTTTTCAATTTCTA
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATCTTTCAATTTCTA
20295301 TTTTTCAAA
66 TTTTTCAAA
20295310 GGTCAACTCA
Statistics
Matches: 213, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
156 54 0.25
157 16 0.08
158 89 0.42
159 3 0.01
160 2 0.01
162 49 0.23
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (157 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATCTTTCAATTTCTA
TTTTTCAAAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCACATGCCAAGGTAT
TTCTCTTAAATTTCTATTTTTCAAAAA
Found at i:20296452 original size:15 final size:14
Alignment explanation
Indices: 20296429--20296467 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
20296419 GAAGTGATAA
20296429 AAGAAAAAAACAGC
1 AAGAAAAAAACAGC
*
20296443 AAGAAAAAAATAGC
1 AAGAAAAAAACAGC
20296457 AAGGAAAAAAA
1 AA-GAAAAAAA
20296468 GAAAAAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.74, C:0.08, G:0.15, T:0.03
Consensus pattern (14 bp):
AAGAAAAAAACAGC
Found at i:20296485 original size:20 final size:22
Alignment explanation
Indices: 20296443--20296492 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 22
20296433 AAAAAACAGC
*
20296443 AAGAAAAAAATAGCAAGGAAAAA
1 AAGAAAAAAACA-CAAGGAAAAA
20296466 AAGAAAAAAACA-AAGG-AAAA
1 AAGAAAAAAACACAAGGAAAAA
20296486 AAGAAAA
1 AAGAAAA
20296493 GAAATGGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.42
21 4 0.15
23 11 0.42
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.02
Consensus pattern (22 bp):
AAGAAAAAAACACAAGGAAAAA
Found at i:20296593 original size:4 final size:4
Alignment explanation
Indices: 20296584--20296636 Score: 61
Period size: 4 Copynumber: 12.2 Consensus size: 4
20296574 CTGAACAGGG
*
20296584 AAGA AAGA AAGA AAGAA AAGA GAAGA AAGA AAGA AGGAGA AAAA AAGA
1 AAGA AAGA AAGA AAG-A AAGA -AAGA AAGA AAGA A--AGA AAGA AAGA
20296632 AAGA A
1 AAGA A
20296637 GAAGGAAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 31 0.72
5 8 0.19
6 4 0.09
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:20296611 original size:18 final size:18
Alignment explanation
Indices: 20296584--20296651 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
20296574 CTGAACAGGG
20296584 AAGA-AAGAAAGAAAGAA
1 AAGAGAAGAAAGAAAGAA
20296601 AAGAGAAGAAAGAAAG-A
1 AAGAGAAGAAAGAAAGAA
* *
20296618 AGGAGAAAAAAAGAAAGAA
1 AAGAG-AAGAAAGAAAGAA
20296637 GAAG-GAAGAAA-AAAG
1 -AAGAGAAGAAAGAAAG
20296652 GGAAAAAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 13 0.30
18 26 0.60
19 2 0.05
20 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AAGAGAAGAAAGAAAGAA
Found at i:20296625 original size:32 final size:32
Alignment explanation
Indices: 20296589--20296681 Score: 104
Period size: 32 Copynumber: 2.9 Consensus size: 32
20296579 CAGGGAAGAA
* *
20296589 AGAAAGAAAGAAAAGAGAAGAAAGAAAGAAGG
1 AGAAAAAAAGAAAAGAGAAGAAAGAAAAAAGG
*
20296621 AGAAAAAAAG-AAAGAAGAAGGAAGAAAAAAGG
1 AGAAAAAAAGAAAAG-AGAAGAAAGAAAAAAGG
20296653 -GAAAAAAAGGAAAA-AGGAA-AAAGAAAAAA
1 AGAAAAAAA-GAAAAGA-GAAGAAAGAAAAAA
20296682 TTAATTAACA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
31 22 0.42
32 28 0.53
33 3 0.06
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (32 bp):
AGAAAAAAAGAAAAGAGAAGAAAGAAAAAAGG
Found at i:20296664 original size:21 final size:22
Alignment explanation
Indices: 20296584--20296650 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
20296574 CTGAACAGGG
*
20296584 AAGAAAG-A-AAGAAAGAAAAGA
1 AAGAAAGAAGAAGGAAGAAAA-A
20296605 GAAGAAAGAAAGAAGG-AGAAAAA
1 -AAGAAAG-AAGAAGGAAGAAAAA
20296628 AAGAAAGAAGAAGGAAGAAAAA
1 AAGAAAGAAGAAGGAAGAAAAA
20296650 A
1 A
20296651 GGGAAAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
21 7 0.17
22 22 0.55
23 1 0.03
24 7 0.17
25 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (22 bp):
AAGAAAGAAGAAGGAAGAAAAA
Found at i:20296681 original size:7 final size:7
Alignment explanation
Indices: 20296587--20296681 Score: 55
Period size: 7 Copynumber: 12.4 Consensus size: 7
20296577 AACAGGGAAG
20296587 AAAGAAA
1 AAAGAAA
20296594 GAAAGAAA
1 -AAAGAAA
* *
20296602 AGAGAAG
1 AAAGAAA
20296609 AAAGAAA
1 AAAGAAA
20296616 GAAGGAGAAAA
1 -AA--AG-AAA
20296627 AAAGAAA
1 AAAGAAA
* *
20296634 GAAGAAG
1 AAAGAAA
*
20296641 GAAGAAA
1 AAAGAAA
20296648 AAAGGGAAAA
1 AAA--G-AAA
*
20296658 AAAGGAA
1 AAAGAAA
*
20296665 AAAGGAA
1 AAAGAAA
20296672 AAAGAAA
1 AAAGAAA
20296679 AAA
1 AAA
20296682 TTAATTAACA
Statistics
Matches: 70, Mismatches: 10, Indels: 15
0.74 0.11 0.16
Matches are distributed among these distances:
7 44 0.63
8 12 0.17
9 1 0.01
10 10 0.14
11 3 0.04
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:20304449 original size:23 final size:23
Alignment explanation
Indices: 20304407--20304450 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
20304397 GTAAAATCGA
*
20304407 ATAATTGTCACATGTTTATTACC
1 ATAATTGTCACATGTATATTACC
20304430 ATAATTG-CACATGTAATATTA
1 ATAATTGTCACATGT-ATATTA
20304451 TTAACCTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (23 bp):
ATAATTGTCACATGTATATTACC
Found at i:20305207 original size:3 final size:3
Alignment explanation
Indices: 20305199--20305230 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
20305189 AACCATAGCA
*
20305199 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
20305231 CTTTAACTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:20307523 original size:44 final size:44
Alignment explanation
Indices: 20307460--20307547 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
20307450 AGACCTGGTC
20307460 AACTTTGAGCAAACCCTCAAAGTTCTCCAAATACCAAAGGCTTA
1 AACTTTGAGCAAACCCTCAAAGTTCTCCAAATACCAAAGGCTTA
20307504 AACTTTGAGCAAACCCTCAAAGTTCTCCAAATACCAAAGGCTTA
1 AACTTTGAGCAAACCCTCAAAGTTCTCCAAATACCAAAGGCTTA
20307548 GGTATTGACC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23
Consensus pattern (44 bp):
AACTTTGAGCAAACCCTCAAAGTTCTCCAAATACCAAAGGCTTA
Found at i:20308362 original size:98 final size:98
Alignment explanation
Indices: 20308190--20308384 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
20308180 ACAATAAAAT
*
20308190 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACAATTCC
*
20308255 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
*
20308288 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACAATTCC
*
20308353 TTTAAAATCCCAAACTCGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTA
20308385 TTGTTTTTAG
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:20309857 original size:19 final size:19
Alignment explanation
Indices: 20309833--20309964 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
20309823 AATCATATAT
*
20309833 TCTAAGGTTGCATATCATA
1 TCTAAGATTGCATATCATA
**
20309852 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
20309871 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
20309890 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
20309911 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
20309930 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
20309949 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
20309965 CTCAAAAATT
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
19 85 0.82
21 19 0.18
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:20309916 original size:59 final size:59
Alignment explanation
Indices: 20309844--20309963 Score: 213
Period size: 59 Copynumber: 2.0 Consensus size: 59
20309834 CTAAGGTTGC
*
20309844 ATATCATATCTAAGATTATATATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
* *
20309903 ATATCATATCTAAGATTGCATATCATATCTAGGATTGCATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
20309962 AT
1 AT
20309964 CCTCAAAAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (59 bp):
ATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATATCTAAGATTGCAT
Found at i:20310287 original size:44 final size:44
Alignment explanation
Indices: 20310188--20310743 Score: 319
Period size: 44 Copynumber: 12.8 Consensus size: 44
20310178 TTATTTAGTT
* * * *
20310188 TGCTTCACTGCAACTTCAGGGAGATAAGA-CT-A-GATGTGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAATC
* *
20310229 TGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAATC
* * * *
20310272 CGCTCCACTGCAACTTCAGGGAGATAGGAT-TATCGGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTA-AGGTTTTAATC
* * * * *
20310316 TGCTCCATTGCAACTTTAGGGAGATAAGA-CT-TGCCATCTTGAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAG--GT-TTTAATC
* * * * *
20310361 TGCCCCATTGCAACTTCA-GGAGGATAAGA-CT-TGCTTACTTAGTC
1 TGCTCCACTGCAACTTCAGGGA-GATAAGATCTAAGGTT--TTAATC
* * * * ***
20310405 TGCTCCACTACAACTTCAGAGAGATAAGAT-T--TGATGCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAATC
* * *
20310446 TACT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAATC
* * * *
20310489 CGCTCCACTGCAACTTCAGGGAGATAGGAT-TATCGGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTA-AGGTTTTAATC
* * * * * *
20310533 TGCTCCACTACAATTTCAGGGAGATAAGA-CT-TGCCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAG--GT-TTTAATC
* * * *
20310578 TGCCCCACTGCAACTTCA-GGAGGATAAGA-CT-TGCTTACTTAGTC
1 TGCTCCACTGCAACTTCAGGGA-GATAAGATCTAAGGTT--TTAATC
* *** *
20310622 TGCTCCACTGCAACTTCAGGGAGATAAGA-CTAGATGCGATGCGATT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTA-A-G-GTTTTAATC
* *
20310668 TGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAATC
** *
20310711 CACTCCACTGCAACTTCAGGGAGATAGGATCTA
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTA
20310744 CAATCTTCAA
Statistics
Matches: 397, Mismatches: 85, Indels: 63
0.73 0.16 0.12
Matches are distributed among these distances:
40 45 0.11
41 12 0.03
42 5 0.01
43 29 0.07
44 204 0.51
45 92 0.23
46 8 0.02
47 1 0.00
48 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATCTAAGGTTTTAATC
Found at i:20310458 original size:173 final size:173
Alignment explanation
Indices: 20310279--20310606 Score: 396
Period size: 173 Copynumber: 1.9 Consensus size: 173
20310269 ATCCGCTCCA
* * * * * *
20310279 CTGCAACTTCAGGGAGATAGGAT-TATCGGCTTTAATCTGCTCCATTGCAACTTTAGGGAGATAA
1 CTGCAACTTCAGAGAGATAAGATCTA-AGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAA
* * * * *
20310343 GACTTGCCATCTTGAATCTGCCCCATTGCAACTTCA-GGAGGATAAGACTTG-CTTACTT-AGTC
65 GA-TTACCAGCTTGAATCTGCCCCACTACAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAGTC
*
20310405 TGCTCCACTACAACTTCA-GAGAGATAAGATTTGATGCGATCTACTCT
127 TGCCCCACTACAACTTCAGGAG-GATAAGATTTGATGCGATCTACTCT
* *
20310452 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGG
1 CTGCAACTTCAGAGAGATAAGATCTAAGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
20310517 ATTATCGGCTTTAATCTGCTCCACTACAATTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCC
66 ATTACCAGCTTGAATCTGCCCCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCC
*
20310582 CCACTGCAACTTCAGGAGGATAAGA
131 CCACTACAACTTCAGGAGGATAAGA
20310607 CTTGCTTACT
Statistics
Matches: 130, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
172 38 0.29
173 87 0.67
174 5 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (173 bp):
CTGCAACTTCAGAGAGATAAGATCTAAGGCTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAG
ATTACCAGCTTGAATCTGCCCCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCC
CCACTACAACTTCAGGAGGATAAGATTTGATGCGATCTACTCT
Found at i:20310505 original size:217 final size:217
Alignment explanation
Indices: 20310130--20310740 Score: 1008
Period size: 217 Copynumber: 2.8 Consensus size: 217
20310120 TAGGAATTAA
* * * *
20310130 TGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTATTTAGTTTGCTTCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
* *
20310195 CTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
66 CTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
*
20310260 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCATT
131 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
*
20310325 GCAACTTT-AGGGAGATAAGACT
196 ACAA-TTTCAGGGAGATAAGACT
* * *
20310347 TGCCATCTTGAATCTGCCCCATTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
* * * *
20310412 CTACAACTTCAGAGAGATAAGATTTGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCT
66 CTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
20310477 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
131 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
20310542 ACAATTTCAGGGAGATAAGACT
196 ACAATTTCAGGGAGATAAGACT
20310564 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
*
20310629 CTGCAACTTCAGGGAGATAAGACTAGATGCGATGCGATTTGCTCTCTGCAACTTCAGAGAGATAA
66 CTGCAACTTCAGGGAGATAAGATTAGATGCGAT-C----TGCTCTCTGCAACTTCAGAGAGATAA
*
20310694 GATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGAT
126 GATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
20310741 CTACAATCTT
Statistics
Matches: 364, Mismatches: 24, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
216 3 0.01
217 289 0.79
218 1 0.00
222 71 0.20
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (217 bp):
TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
CTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
ACAATTTCAGGGAGATAAGACT
Found at i:20310868 original size:44 final size:44
Alignment explanation
Indices: 20310820--20311005 Score: 119
Period size: 44 Copynumber: 4.2 Consensus size: 44
20310810 TATCTTGGAA
*
20310820 AGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATCCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
*** ** * * * * *
20310864 AGATAAGATTTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGG
1 AGATAAGATCCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * ** * * *
20310908 AGACAAG-GCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATC-CGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
20310952 AGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGCTTAAGG
1 AGATAAGATCCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
20310996 AGATAAGATC
1 AGATAAGATC
20311006 TACAATCTTC
Statistics
Matches: 98, Mismatches: 36, Indels: 16
0.65 0.24 0.11
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
44 80 0.82
45 4 0.04
46 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (44 bp):
AGATAAGATCCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:20310884 original size:132 final size:132
Alignment explanation
Indices: 20310728--20311116 Score: 688
Period size: 132 Copynumber: 2.9 Consensus size: 132
20310718 CTGCAACTTC
* *
20310728 AGGGAGATAGGATCTACAATCTTCAACCTTCTCCGCTGCTGTTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
20310793 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
20310858 TT
131 TT
*
20310860 AGGGAGATAAGATTTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
20310925 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
20310990 TT
131 TT
* * *
20310992 AAGGAGATAAGATCTACAATCTTCAACCTTCTTCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
* ** *
20311057 TTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCGTCTTCAATCTGCTCCACT
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACT
20311117 GTCAATGCAG
Statistics
Matches: 246, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 246 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
TT
Found at i:20312394 original size:12 final size:12
Alignment explanation
Indices: 20312379--20312427 Score: 71
Period size: 12 Copynumber: 4.0 Consensus size: 12
20312369 TTTCTTTCAC
*
20312379 TTTTATTTTTTG
1 TTTTTTTTTTTG
*
20312391 TTTTGTTTTTTG
1 TTTTTTTTTTTG
20312403 TTTTTTGTTTTTG
1 TTTTTT-TTTTTG
20312416 TTTTTTTTTTTG
1 TTTTTTTTTTTG
20312428 AATCTGAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
12 22 0.65
13 12 0.35
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:20312401 original size:7 final size:7
Alignment explanation
Indices: 20312379--20312426 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
20312369 TTTCTTTCAC
*
20312379 TTTTATT
1 TTTTGTT
20312386 TTTTG--
1 TTTTGTT
20312391 TTTTGTT
1 TTTTGTT
20312398 TTTTGTT
1 TTTTGTT
20312405 TTTTG-T
1 TTTTGTT
20312411 TTTTGTT
1 TTTTGTT
20312418 TTTT-TT
1 TTTTGTT
20312424 TTT
1 TTT
20312427 GAATCTGAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
5 5 0.14
6 11 0.30
7 21 0.57
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (7 bp):
TTTTGTT
Found at i:20312401 original size:19 final size:19
Alignment explanation
Indices: 20312379--20312426 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
20312369 TTTCTTTCAC
*
20312379 TTTTATTTTTTG-TTTTGT
1 TTTTTTTTTTTGTTTTTGT
20312397 TTTTTGTTTTTTGTTTTTGT
1 TTTTT-TTTTTTGTTTTTGT
20312417 TTTTTTTTTT
1 TTTTTTTTTT
20312427 GAATCTGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 12 0.44
20 11 0.41
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTTTGTTTTTGT
Found at i:20324025 original size:40 final size:40
Alignment explanation
Indices: 20323980--20324420 Score: 715
Period size: 40 Copynumber: 11.1 Consensus size: 40
20323970 CAAGCTCAAT
* *
20323980 TGCCTTCGGGTCTTAACCCGGGTATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
20324020 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
20324060 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * * *
20324100 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
20324140 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCAC-AA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
20324179 TGCCTTTGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
20324219 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
20324259 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
20324299 TGCCTTTGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
20324339 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCTCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
20324379 TGCCTTCGGGTCTTATCCCGGATATATCAATTCTCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
20324419 TG
1 TG
20324421 GGATATATCA
Statistics
Matches: 376, Mismatches: 22, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
39 40 0.11
40 334 0.89
41 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:20324177 original size:120 final size:120
Alignment explanation
Indices: 20323980--20324860 Score: 1251
Period size: 120 Copynumber: 7.5 Consensus size: 120
20323970 CAAGCTCAAT
* * *
20323980 TGCCTTCGGGTCTTAACCCGGGTATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATAT
* *
20324045 ATCAACTT-GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
66 ATCAA-TTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
* * * *
20324100 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCATAAATGCCTTCGGGTCTTATCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATAT
*
20324165 ATCAATTCGCAC-AATGCCTTTGGGTCTTATCCCGGATATATCAATTCGCACAAA
66 ATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
20324219 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATAT
*
20324284 ATCAATTCGCACAAATGCCTTTGGGTCTTATCCCGGATATATCAATTCGCACAAA
66 ATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
20324339 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCTCACAAATGCCTTCGGGTCTTATCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATAT
* * * * *
20324404 ATCAATTCTCACAAATG-----GGAT-ATAT--C-AAT-TCGCA-CAAAT-GC-C---
66 ATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATAT---ATCAATTCGCACAAA
* ** *
20324446 T-TCGG---GTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATAT
* *
20324507 ATCAATTCGCACAAATGCCTTCGGGTCTTAACCC-GATATATCAGTTCGCACAAA
66 ATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
* *
20324561 TGCCTTC-GGTCTTATCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATTCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATAT
20324625 ATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
66 ATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
20324680 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATAT
*
20324745 ATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCAC-AA
66 ATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
* * * *
20324799 TGCCTTC-GGTCCTA-ACCGGATATATCAATTCGTACAAATGCCTTCGGGTCTTA-GCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATAT
20324861 CATTCAAATG
Statistics
Matches: 688, Mismatches: 48, Indels: 54
0.87 0.06 0.07
Matches are distributed among these distances:
103 70 0.10
106 1 0.00
107 1 0.00
108 3 0.00
109 3 0.00
110 5 0.01
111 9 0.01
112 7 0.01
113 1 0.00
114 3 0.00
115 4 0.01
116 9 0.01
117 37 0.05
118 92 0.13
119 149 0.22
120 294 0.43
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (120 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATAT
ATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
Found at i:20324428 original size:23 final size:23
Alignment explanation
Indices: 20324398--20324443 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
20324388 GTCTTATCCC
*
20324398 GGATATATCAATTCTCACAAATG
1 GGATATATCAATTCGCACAAATG
20324421 GGATATATCAATTCGCACAAATG
1 GGATATATCAATTCGCACAAATG
20324444 CCTTCGGGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.28
Consensus pattern (23 bp):
GGATATATCAATTCGCACAAATG
Found at i:20324462 original size:63 final size:63
Alignment explanation
Indices: 20324358--20324483 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
20324348 GTCTTAGCCC
* * *
20324358 GGATATATCAATTCTCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCTCACAAATG
1 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATG
20324421 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATG
1 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATG
20324484 CCTTCGGGTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (63 bp):
GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATG
Found at i:20324476 original size:40 final size:40
Alignment explanation
Indices: 20324421--20324860 Score: 757
Period size: 40 Copynumber: 11.2 Consensus size: 40
20324411 CTCACAAATG
20324421 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
20324461 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
*
20324501 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAACCC
1 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
* *
20324541 -GATATATCAGTTCGCACAAATGCCTTC-GGTCTTATCCC
1 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
**
20324579 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTATTCC
1 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
*
20324619 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCC
1 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
20324659 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
20324699 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
20324739 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
* *
20324779 GGATATATCAATTCGCAC-AATGCCTTC-GGTCCTA-ACC
1 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
*
20324816 GGATATATCAATTCGTACAAATGCCTTCGGGTCTTAG-CC
1 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
20324855 GGATAT
1 GGATAT
20324861 CATTCAAATG
Statistics
Matches: 384, Mismatches: 11, Indels: 11
0.95 0.03 0.03
Matches are distributed among these distances:
37 19 0.05
38 25 0.07
39 75 0.20
40 265 0.69
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (40 bp):
GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
Found at i:20324502 original size:103 final size:103
Alignment explanation
Indices: 20324318--20324523 Score: 385
Period size: 103 Copynumber: 2.0 Consensus size: 103
20324308 GTCTTATCCC
*
20324318 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCTCACAAATGCC
1 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCC
* *
20324383 TTCGGGTCTTATCCCGGATATATCAATTCTCACAAATG
66 TTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATG
20324421 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCC
1 GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCC
20324486 TTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATG
66 TTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATG
20324524 CCTTCGGGTC
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (103 bp):
GGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCC
TTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATG
Found at i:20324743 original size:381 final size:382
Alignment explanation
Indices: 20324039--20324798 Score: 1346
Period size: 381 Copynumber: 2.0 Consensus size: 382
20324029 GTCTTAGCCC
*
20324039 GGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAACGCC
1 GGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAACGCC
* * *
20324104 GTCGGGTCTTAGCCCGGATATATCAGTTCGCATAAATGCCTTCGGGTCTTATCCCGGATATATCA
66 GTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAACCCGGATATATCA
*
20324169 ATTCGCACAATGCCTTTGGGTCTTATCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
131 ATTCGCACAATGCCTTTCGGTCTTATCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
20324234 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
196 GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
* *
20324299 TGCCTTTGGGTCTTATCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
261 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
* * *
20324364 ATCAATTCTCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCTCACAAATG
326 ATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATG
*
20324421 GGATATATCAA-TTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGC
1 GGATATATCAACTT-GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAACGC
*
20324485 CTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAACCC-GATATATC
65 CGTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAACCCGGATATATC
*
20324549 AGTTCGCACAAATGCC-TTCGGTCTTATCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCT
130 AATTCGCAC-AATGCCTTTCGGTCTTATCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCT
**
20324613 TATTCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACA
194 TAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACA
20324678 AATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGAT
259 AATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGAT
20324743 ATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAA
324 ATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAA
20324799 TGCCTTCGGT
Statistics
Matches: 361, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
381 244 0.68
382 117 0.32
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (382 bp):
GGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAACGCC
GTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAACCCGGATATATCA
ATTCGCACAATGCCTTTCGGTCTTATCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTA
GCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
ATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATG
Found at i:20329894 original size:40 final size:40
Alignment explanation
Indices: 20329794--20330018 Score: 197
Period size: 40 Copynumber: 5.7 Consensus size: 40
20329784 GCTCCTCGTT
* * * *
20329794 CAAATGCCTTC-GAGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGA-ACTTAACCCGGATTTAGTAACTCGCA
* * *
20329834 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGAACTTAACCCGGATTTAGTAACTCGCA
* *
20329873 CGAATGCCTTCGGAACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGAACTTAACCCGGATTTAGTAACTCGCA
* ** *
20329913 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGAACTTAACCCGG-ATTTAGTAACTCGCA
* ** * * * *
20329953 CAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGAACTTAACCCGGATTTAGTAAC-TCGCA
* *
20329994 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGAACTTAACCCGGA
20330019 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
39 35 0.23
40 107 0.69
41 12 0.08
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGAACTTAACCCGGATTTAGTAACTCGCA
Found at i:20330027 original size:41 final size:41
Alignment explanation
Indices: 20329950--20330027 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
20329940 TTTGTATCTC
* * *
20329950 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
20329991 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
20330028 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:20337841 original size:40 final size:39
Alignment explanation
Indices: 20337743--20337872 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
20337733 TCCTCGTTCA
* *
20337743 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC
*
20337782 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACAC
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC
* * * *
20337821 GAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCACAC
20337861 AAATGCCTTCGG
1 -AATGCCTTCGG
20337873 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 36 0.45
40 40 0.50
41 4 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC
Found at i:20337934 original size:41 final size:41
Alignment explanation
Indices: 20337857--20337934 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
20337847 TTTGTATCTC
* * *
20337857 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
20337898 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
20337935 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:20340073 original size:23 final size:25
Alignment explanation
Indices: 20340010--20340080 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
20340000 GCACTCTCTC
*
20340010 GAGCCATATAACAGGAAGCTCATTT
1 GAGCCATATAACAGGAAGCTCATCT
* *
20340035 GAGCCATGTAACAGGAAGCTTATCT
1 GAGCCATATAACAGGAAGCTCATCT
* *
20340060 G-GGC-TATAACAGGAAACTCAT
1 GAGCCATATAACAGGAAGCTCAT
20340081 AAGTTTTGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
23 14 0.36
24 2 0.05
25 23 0.59
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATCT
Found at i:20349184 original size:27 final size:27
Alignment explanation
Indices: 20349150--20349272 Score: 113
Period size: 27 Copynumber: 4.6 Consensus size: 27
20349140 TAAATTGTAC
** *
20349150 AGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGAATTGAATATGA
* *
20349177 GGCACTAAGTGTGCGAAATGAATATGA
1 AGCACTAAGTGTGCGAATTGAATATGA
* * * * *
20349204 TGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGAATATGA
* *
20349231 AGCACTAAGTGTGCGAGTTGATTAT-A
1 AGCACTAAGTGTGCGAATTGAATATGA
*
20349257 TAGCACTGAGTGTGCG
1 -AGCACTAAGTGTGCG
20349273 GACTCAATAT
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGAATATGA
Found at i:20349236 original size:54 final size:54
Alignment explanation
Indices: 20349150--20349272 Score: 140
Period size: 54 Copynumber: 2.3 Consensus size: 54
20349140 TAAATTGTAC
* *
20349150 AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGAATTGACCACGCAGCACTAAGTGTGCGAAATGAATAT-AT
* ** * ** *
20349205 -GCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACCACGCAGCACTAAGTGTGCGAAATGAATATAT
*
20349258 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20349273 GACTCAATAT
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
53 2 0.04
54 55 0.96
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACCACGCAGCACTAAGTGTGCGAAATGAATATAT
Found at i:20365105 original size:28 final size:26
Alignment explanation
Indices: 20365074--20365125 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
20365064 TTTTTAATGT
20365074 TTATTATAACATAATAATATATTATACA
1 TTATTATAACAT--TAATATATTATACA
*
20365102 TTATTATAACATTTATATATTATA
1 TTATTATAACATTAATATATTATA
20365126 TTAATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.48
28 12 0.52
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATTATAACATTAATATATTATACA
Found at i:20383823 original size:26 final size:26
Alignment explanation
Indices: 20383775--20383824 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
20383765 TGAATAATCA
*
20383775 CTCTCATTATTGCCATTACATTTCTG
1 CTCTCATTATTGCCATAACATTTCTG
*
20383801 CTCTCACTT-TTGCCATAATATTTC
1 CTCTCA-TTATTGCCATAACATTTC
20383825 CAATTATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.20, C:0.28, G:0.06, T:0.46
Consensus pattern (26 bp):
CTCTCATTATTGCCATAACATTTCTG
Found at i:20385754 original size:79 final size:81
Alignment explanation
Indices: 20385643--20385827 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
20385633 GCTACTCGTT
* * * *
20385643 CAAATGCCTTCGAGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCG-GGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
20385706 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
20385723 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
20385787 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
20385803 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
20385828 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.61
80 32 0.36
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:20385827 original size:40 final size:40
Alignment explanation
Indices: 20385624--20385827 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
20385614 CGGAATTTAA
** * *
20385624 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGAGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
20385664 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20385704 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20385743 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
20385783 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
20385823 CCGGA
1 CCGGA
20385828 CATCATTCAA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 91 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20399322 original size:17 final size:17
Alignment explanation
Indices: 20399300--20399334 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20399290 TGCTTCTTTA
20399300 ACTCTTCAAAAGCTTCC
1 ACTCTTCAAAAGCTTCC
20399317 ACTCTTCAAAAGCTTCC
1 ACTCTTCAAAAGCTTCC
20399334 A
1 A
20399335 AAATGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.34, G:0.06, T:0.29
Consensus pattern (17 bp):
ACTCTTCAAAAGCTTCC
Found at i:20399480 original size:17 final size:17
Alignment explanation
Indices: 20399458--20399492 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20399448 TGCTTCTTTA
20399458 ACTCTTCAAAAGCTTCC
1 ACTCTTCAAAAGCTTCC
20399475 ACTCTTCAAAAGCTTCC
1 ACTCTTCAAAAGCTTCC
20399492 A
1 A
20399493 AAATGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.34, G:0.06, T:0.29
Consensus pattern (17 bp):
ACTCTTCAAAAGCTTCC
Found at i:20399524 original size:158 final size:158
Alignment explanation
Indices: 20399236--20399553 Score: 636
Period size: 158 Copynumber: 2.0 Consensus size: 158
20399226 ATCGCACATC
20399236 AACTTAAAATGTGAGTTCCAATCAAGTGTAATGATTATTGGGGCTGAGTTTTACTGCTTCTTTAA
1 AACTTAAAATGTGAGTTCCAATCAAGTGTAATGATTATTGGGGCTGAGTTTTACTGCTTCTTTAA
20399301 CTCTTCAAAAGCTTCCACTCTTCAAAAGCTTCCAAAATGCTTTTTTGAAATCAAACACTGTATCT
66 CTCTTCAAAAGCTTCCACTCTTCAAAAGCTTCCAAAATGCTTTTTTGAAATCAAACACTGTATCT
20399366 TTCTCTATCAACAAACACAACAGTTTAG
131 TTCTCTATCAACAAACACAACAGTTTAG
20399394 AACTTAAAATGTGAGTTCCAATCAAGTGTAATGATTATTGGGGCTGAGTTTTACTGCTTCTTTAA
1 AACTTAAAATGTGAGTTCCAATCAAGTGTAATGATTATTGGGGCTGAGTTTTACTGCTTCTTTAA
20399459 CTCTTCAAAAGCTTCCACTCTTCAAAAGCTTCCAAAATGCTTTTTTGAAATCAAACACTGTATCT
66 CTCTTCAAAAGCTTCCACTCTTCAAAAGCTTCCAAAATGCTTTTTTGAAATCAAACACTGTATCT
20399524 TTCTCTATCAACAAACACAACAGTTTAG
131 TTCTCTATCAACAAACACAACAGTTTAG
20399552 AA
1 AA
20399554 ATTTTCGAGA
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 160 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (158 bp):
AACTTAAAATGTGAGTTCCAATCAAGTGTAATGATTATTGGGGCTGAGTTTTACTGCTTCTTTAA
CTCTTCAAAAGCTTCCACTCTTCAAAAGCTTCCAAAATGCTTTTTTGAAATCAAACACTGTATCT
TTCTCTATCAACAAACACAACAGTTTAG
Found at i:20404098 original size:40 final size:40
Alignment explanation
Indices: 20404068--20404277 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
20404058 GGACTAAGAT
* * * **
20404068 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
20404108 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
20404148 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
20404188 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
20404228 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
20404267 CCGAAGGCATT
1 CCGAAGGCATT
20404278 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:20411363 original size:40 final size:40
Alignment explanation
Indices: 20411333--20411542 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
20411323 GGACTAAGAT
* * * **
20411333 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
20411373 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
20411413 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
20411453 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
20411493 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
20411532 CCGAAGGCATT
1 CCGAAGGCATT
20411543 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:20415732 original size:27 final size:27
Alignment explanation
Indices: 20415702--20415878 Score: 185
Period size: 27 Copynumber: 6.5 Consensus size: 27
20415692 ATATTGAGTC
* * * *
20415702 CGCACACTCAGTGCCATATAATCAACT
1 CGCACACTTAGTGCCACATAGTCAAAT
* * *
20415729 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCCACATAGTCAAAT
*
20415756 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCCACATAGTCAAA-T
* * *
20415784 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAGTCAAAT
* * **
20415811 CACACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAGTCAAAT
*
20415838 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCCACATAGTCAAAT
20415865 CGCACACTTAGTGC
1 CGCACACTTAGTGC
20415879 TGTACAATTT
Statistics
Matches: 126, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 101 0.80
28 24 0.19
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAGTCAAAT
Found at i:20417880 original size:11 final size:11
Alignment explanation
Indices: 20417849--20417917 Score: 52
Period size: 11 Copynumber: 6.1 Consensus size: 11
20417839 AAAAAAAGAA
*
20417849 AATGATGAATG
1 AATGAGGAATG
20417860 -ATGA-GAATG
1 AATGAGGAATG
20417869 AATGAGGAATG
1 AATGAGGAATG
* *
20417880 ATTGAGGGATG
1 AATGAGGAATG
*
20417891 ATTGAGGGATGATG
1 AATGA-GGA--ATG
20417905 AATGAAGGAATG
1 AATG-AGGAATG
20417917 A
1 A
20417918 GAGGGTCTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
9 5 0.10
10 8 0.17
11 19 0.40
12 6 0.12
14 9 0.19
15 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.36, T:0.23
Consensus pattern (11 bp):
AATGAGGAATG
Found at i:20433081 original size:28 final size:28
Alignment explanation
Indices: 20433049--20433103 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
20433039 CAACTGCAGT
20433049 TGTGGGCCTTAGCCCAATACAATAACAA
1 TGTGGGCCTTAGCCCAATACAATAACAA
* *
20433077 TGTGGGCCTTAGCCTAATACAGTAACA
1 TGTGGGCCTTAGCCCAATACAATAACA
20433104 GTACAGTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAATAACAA
Found at i:20433237 original size:26 final size:26
Alignment explanation
Indices: 20433208--20433262 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
20433198 AACATACCAA
* *
20433208 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGACAGTAACAG
* **
20433234 TATCGTAGTGAAGCTGACAGTAACAG
1 TATCGCAGCAAAGCTGACAGTAACAG
20433260 TAT
1 TAT
20433263 ATGTCGCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGACAGTAACAG
Found at i:20433486 original size:27 final size:26
Alignment explanation
Indices: 20433456--20433791 Score: 269
Period size: 27 Copynumber: 12.3 Consensus size: 26
20433446 TATAATAGTT
*
20433456 ATTTTACCCTAGGAGGGTATTTTGGTC
1 ATTTTACCCTA-GAGGGTATTTCGGTC
*
20433483 ATTTTACCTTACG-GTGGTATTTCGGTC
1 ATTTTACCCTA-GAG-GGTATTTCGGTC
*
20433510 ATTTTATCCTACGGGGAGGGGGTATTTCGGTC
1 ATTTTACCCTA----GA--GGGTATTTCGGTC
* *
20433542 ATTTTACCCTACAGTGGTATTTCAGTC
1 ATTTTACCCTAGAG-GGTATTTCGGTC
* *
20433569 ATTTTACACTACGGGGGTATTTCGGTC
1 ATTTTACCCTA-GAGGGTATTTCGGTC
*
20433596 ATTTTACCCTACGAGGGTATTTCAGTC
1 ATTTTACCCTA-GAGGGTATTTCGGTC
* *
20433623 ATTTTACCCTACAAGGGTATTTTGGTC
1 ATTTTACCCTA-GAGGGTATTTCGGTC
* **
20433650 ATTTTACCCTATAGGGGTATTTTAGTC
1 ATTTTACCCTAGA-GGGTATTTCGGTC
* * *
20433677 ATTTTACCTTATAGGGGTATTTCAGTC
1 ATTTTACCCTAGA-GGGTATTTCGGTC
* * **
20433704 ATTTTACCTTATAGAGGTATTTTAGTC
1 ATTTTACCCTAGAG-GGTATTTCGGTC
* * * *
20433731 ATTTAACCCTATAAGGTATTTCGGTT
1 ATTTTACCCTAGAGGGTATTTCGGTC
* *
20433757 ATTTTACCTTATAGGGGTATTTCGGTC
1 ATTTTACCCTAGA-GGGTATTTCGGTC
*
20433784 ATTCTACC
1 ATTTTACC
20433792 TATTTTGGGG
Statistics
Matches: 262, Mismatches: 35, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
26 24 0.09
27 212 0.81
28 2 0.01
30 1 0.00
32 22 0.08
33 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (26 bp):
ATTTTACCCTAGAGGGTATTTCGGTC
Found at i:20433514 original size:54 final size:53
Alignment explanation
Indices: 20433456--20433791 Score: 302
Period size: 54 Copynumber: 6.2 Consensus size: 53
20433446 TATAATAGTT
* *
20433456 ATTTTACCCTAGGAGGGTATTTTGGTCATTTTACCTTACGGTGGTATTTCGGTC
1 ATTTTACCCTAGGAGGGTATTTCGGTCATTTTACCTTACGG-GGTATTTCAGTC
* * *
20433510 ATTTTATCCTACGGGGAGGGGGTATTTCGGTCATTTTACCCTACAGTGGTATTTCAGTC
1 ATTTTACCCTA---GGA--GGGTATTTCGGTCATTTTACCTTAC-GGGGTATTTCAGTC
* *
20433569 ATTTTACACTACGG-GGGTATTTCGGTCATTTTACCCTACGAGGGTATTTCAGTC
1 ATTTTACCCTA-GGAGGGTATTTCGGTCATTTTACCTTACG-GGGTATTTCAGTC
** * *
20433623 ATTTTACCCTACAAGGGTATTTTGGTCATTTTACCCTATA-GGGGTATTTTAGTC
1 ATTTTACCCTAGGAGGGTATTTCGGTCATTTTA-CCT-TACGGGGTATTTCAGTC
* * * * * *
20433677 ATTTTACCTTA-TAGGGGTATTTCAGTCATTTTACCTTATAGAGGTATTTTAGTC
1 ATTTTACCCTAGGA-GGGTATTTCGGTCATTTTACCTTA-CGGGGTATTTCAGTC
* * * * * *
20433731 ATTTAACCCTA-TAAGGTATTTCGGTTATTTTACCTTATAGGGGTATTTCGGTC
1 ATTTTACCCTAGGAGGGTATTTCGGTCATTTTACCTTA-CGGGGTATTTCAGTC
*
20433784 ATTCTACC
1 ATTTTACC
20433792 TATTTTGGGG
Statistics
Matches: 239, Mismatches: 30, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
52 2 0.01
53 45 0.19
54 138 0.58
55 3 0.01
56 2 0.01
57 5 0.02
59 43 0.18
60 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (53 bp):
ATTTTACCCTAGGAGGGTATTTCGGTCATTTTACCTTACGGGGTATTTCAGTC
Found at i:20433653 original size:81 final size:81
Alignment explanation
Indices: 20433456--20433791 Score: 329
Period size: 81 Copynumber: 4.1 Consensus size: 81
20433446 TATAATAGTT
* * * * *
20433456 ATTTTACCCTA-GGAGGGTATTTTGGTCATTTTACCTTACGGTGGTATTTCGGTCATTTTATCCT
1 ATTTTACCCTACAGA-GGTATTTTAGTCATTTTACCCTACGGGGGTATTTCGGTCATTTTACCCT
*
20433520 ACGGGGAGGGGGTATTTCGGTC
65 A----GA-GGGGTATTTCAGTC
* * *
20433542 ATTTTACCCTACAGTGGTATTTCAGTCATTTTACACTACGGGGGTATTTCGGTCATTTTACCCTA
1 ATTTTACCCTACAGAGGTATTTTAGTCATTTTACCCTACGGGGGTATTTCGGTCATTTTACCCTA
20433607 CGA-GGGTATTTCAGTC
66 -GAGGGGTATTTCAGTC
* ** ** *
20433623 ATTTTACCCTACA-AGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTTAGTCATTTTACCTT
1 ATTTTACCCTACAGA-GGTATTTTAGTCATTTTACCCTACGGGGGTATTTCGGTCATTTTACCCT
*
20433687 ATAGGGGTATTTCAGTC
65 AGAGGGGTATTTCAGTC
* * * *** * *
20433704 ATTTTACCTTATAGAGGTATTTTAGTCATTTAACCCTA-TAAGGTATTTCGGTTATTTTACCTTA
1 ATTTTACCCTACAGAGGTATTTTAGTCATTTTACCCTACGGGGGTATTTCGGTCATTTTACCCTA
* *
20433768 TAGGGGTATTTCGGTC
66 GAGGGGTATTTCAGTC
*
20433784 ATTCTACC
1 ATTTTACC
20433792 TATTTTGGGG
Statistics
Matches: 214, Mismatches: 32, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
80 43 0.20
81 112 0.52
82 1 0.00
83 2 0.01
86 55 0.26
87 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (81 bp):
ATTTTACCCTACAGAGGTATTTTAGTCATTTTACCCTACGGGGGTATTTCGGTCATTTTACCCTA
GAGGGGTATTTCAGTC
Found at i:20433792 original size:27 final size:27
Alignment explanation
Indices: 20433528--20433791 Score: 289
Period size: 27 Copynumber: 9.8 Consensus size: 27
20433518 CTACGGGGAG
* *
20433528 GGGGTATTTCGGTCATTTTACCCTACA
1 GGGGTATTTCAGTCATTTTACCCTATA
* * **
20433555 GTGGTATTTCAGTCATTTTACACTACG
1 GGGGTATTTCAGTCATTTTACCCTATA
* *
20433582 GGGGTATTTCGGTCATTTTACCCTA-C
1 GGGGTATTTCAGTCATTTTACCCTATA
*
20433608 GAGGGTATTTCAGTCATTTTACCCTACA
1 G-GGGTATTTCAGTCATTTTACCCTATA
* **
20433636 AGGGTATTTTGGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATA
* *
20433663 GGGGTATTTTAGTCATTTTACCTTATA
1 GGGGTATTTCAGTCATTTTACCCTATA
*
20433690 GGGGTATTTCAGTCATTTTACCTTATA
1 GGGGTATTTCAGTCATTTTACCCTATA
* * *
20433717 GAGGTATTTTAGTCATTTAACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATA
* * * *
20433744 -AGGTATTTCGGTTATTTTACCTTATA
1 GGGGTATTTCAGTCATTTTACCCTATA
* *
20433770 GGGGTATTTCGGTCATTCTACC
1 GGGGTATTTCAGTCATTTTACC
20433792 TATTTTGGGG
Statistics
Matches: 204, Mismatches: 30, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
26 22 0.11
27 182 0.89
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATA
Found at i:20436942 original size:27 final size:27
Alignment explanation
Indices: 20436913--20437699 Score: 765
Period size: 27 Copynumber: 28.9 Consensus size: 27
20436903 TAAAATGACT
* *
20436913 GAAATACCCTCGATGGGTAAAATGATT
1 GAAATACCCTCGATGGGTAAAATTATC
* * *
20436940 GAAATACCTTCGATGGCTAAAAATA-C
1 GAAATACCCTCGATGGGTAAAATTATC
*
20436966 TGAAATACCCTCGATGGGTAAAATGA-C
1 -GAAATACCCTCGATGGGTAAAATTATC
20436993 TGAAATACCCTCGATGGGTAAAATTATC
1 -GAAATACCCTCGATGGGTAAAATTATC
*
20437021 GAAATACCCCCGATGGGTAAAATTATC
1 GAAATACCCTCGATGGGTAAAATTATC
*
20437048 GAAATACCATCGATGGGTAAAATTA-C
1 GAAATACCCTCGATGGGTAAAATTATC
*
20437074 GAAAATACCCTTGATGGGTAAAATTATC
1 G-AAATACCCTCGATGGGTAAAATTATC
20437102 GAAATACCCTCGATGGGT-AAATTGATC
1 GAAATACCCTCGATGGGTAAAATT-ATC
*
20437129 GAAATACCCTCGATGGGTAAAATGA-C
1 GAAATACCCTCGATGGGTAAAATTATC
* *
20437155 TAAAATACCCCCGATGGGTAAAATTATC
1 -GAAATACCCTCGATGGGTAAAATTATC
*
20437183 GAAATACCCTCGATGGGTTAAATTA-C
1 GAAATACCCTCGATGGGTAAAATTATC
*
20437209 TGAAATACCCTCGATGGGTAAAATTACC
1 -GAAATACCCTCGATGGGTAAAATTATC
* * * *
20437237 AAAATACCC-CTAATGGTTAAAA-TAAC
1 GAAATACCCTC-GATGGGTAAAATTATC
* * * * * *
20437263 TAAAATACCCTCAACGGGTGAAATGACC
1 -GAAATACCCTCGATGGGTAAAATTATC
* *
20437291 AAAATACCCTCGATGGGTAAAA-TAAC
1 GAAATACCCTCGATGGGTAAAATTATC
* *
20437317 TGAAATAGCCTCGTTGGGTAAAGTAACTAAAATTATC
1 -GAAATACCCTCGAT-GG----G----TAAAATTATC
** *
20437354 GAAATACCCTCGATGTTTAAAATGATC
1 GAAATACCCTCGATGGGTAAAATTATC
* *
20437381 GAAATACCCTCGATGGGTAAAATGATT
1 GAAATACCCTCGATGGGTAAAATTATC
*
20437408 GAAATACCCTTGATGGGTAAAATTATC
1 GAAATACCCTCGATGGGTAAAATTATC
20437435 GAAATACCCTCGATGGGTAAAATTATC
1 GAAATACCCTCGATGGGTAAAATTATC
* * * *
20437462 AAAATATCGTCGAAGGGTAAAATTATC
1 GAAATACCCTCGATGGGTAAAATTATC
*
20437489 AAAATACCCTCGATGGGTAAAATTA-C
1 GAAATACCCTCGATGGGTAAAATTATC
* * *
20437515 TAAAATACCCTTGATGGGTAAAATTATT
1 -GAAATACCCTCGATGGGTAAAATTATC
* * *
20437543 GAAAT-CCCCCGAAGGGTAAAATTAAC
1 GAAATACCCTCGATGGGTAAAATTATC
* * *
20437569 GAAATACCCTCAATGTGTAAAATTATA
1 GAAATACCCTCGATGGGTAAAATTATC
* *
20437596 GAAATACCCTTGATGGGTAAAATGA-C
1 GAAATACCCTCGATGGGTAAAATTATC
* * ***
20437622 TGAAATACCCCCGAAGGGTAAAATGGCC
1 -GAAATACCCTCGATGGGTAAAATTATC
*
20437650 GAAATACCCTCGATAGGTAAAATTA-C
1 GAAATACCCTCGATGGGTAAAATTATC
*
20437676 TGAAATACCC-CTATAGGGTAAAAT
1 -GAAATACCCTCGAT-GGGTAAAAT
20437700 GACCGTTATA
Statistics
Matches: 637, Mismatches: 91, Indels: 64
0.80 0.11 0.08
Matches are distributed among these distances:
26 41 0.06
27 559 0.88
28 15 0.02
32 1 0.00
35 1 0.00
36 17 0.03
37 3 0.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (27 bp):
GAAATACCCTCGATGGGTAAAATTATC
Found at i:20437933 original size:26 final size:26
Alignment explanation
Indices: 20437895--20437997 Score: 91
Period size: 26 Copynumber: 4.0 Consensus size: 26
20437885 TTGCTACAAA
* * *
20437895 TACTGTTACTGACAGCTTTGTTGCGT
1 TACTATTAATGACAGCTTTGCTGCGT
* *
20437921 TACTGA-TAATGACAGCTCTGCTGCCT
1 TACT-ATTAATGACAGCTTTGCTGCGT
* * *
20437947 TACTATTAGTGGCAACTTTGCTGCGT
1 TACTATTAATGACAGCTTTGCTGCGT
* * *
20437973 TACTATTATTGCCAGCTTTGTTGCG
1 TACTATTAATGACAGCTTTGCTGCG
20437998 ATATTGGTGT
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
25 1 0.02
26 60 0.98
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (26 bp):
TACTATTAATGACAGCTTTGCTGCGT
Found at i:20438138 original size:30 final size:30
Alignment explanation
Indices: 20438102--20438180 Score: 131
Period size: 30 Copynumber: 2.6 Consensus size: 30
20438092 ACTGCATTTG
20438102 CACTGTTACTGTATTGGGCTAAGGCCCACA
1 CACTGTTACTGTATTGGGCTAAGGCCCACA
* *
20438132 CTCTGTTACTGTATTGGGCTATGGCCCACA
1 CACTGTTACTGTATTGGGCTAAGGCCCACA
*
20438162 CACTGTTACTGTATAGGGC
1 CACTGTTACTGTATTGGGC
20438181 CCAGGCCTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.30
Consensus pattern (30 bp):
CACTGTTACTGTATTGGGCTAAGGCCCACA
Found at i:20454308 original size:27 final size:27
Alignment explanation
Indices: 20454267--20454786 Score: 487
Period size: 27 Copynumber: 19.3 Consensus size: 27
20454257 GTGAGGTCAA
20454267 TAAAATGACCGAAATACCCCTGTAGGG
1 TAAAATGACCGAAATACCCCTGTAGGG
**
20454294 TAAAATGACAAAAATATCCCC-GTAGGG
1 TAAAATGACCGAAATA-CCCCTGTAGGG
* * **
20454321 TAAAGTGACCGAAGTACCCCCATAGGG
1 TAAAATGACCGAAATACCCCTGTAGGG
* *
20454348 TAAAATGA-CGAAAATACCCCCGTAGCG
1 TAAAATGACCG-AAATACCCCTGTAGGG
** *
20454375 TAAAATGATTGAAATACCCCCGTAGGG
1 TAAAATGACCGAAATACCCCTGTAGGG
* * * *
20454402 TAAAATTAACAAAATAGCCCTGTAGGG
1 TAAAATGACCGAAATACCCCTGTAGGG
** * * *
20454429 TAAAATGACAAAAATACCCTTATAAGG
1 TAAAATGACCGAAATACCCCTGTAGGG
* ** *
20454456 TAAAATGATCGAAATACCCCCATAGAG
1 TAAAATGACCGAAATACCCCTGTAGGG
** **
20454483 TAAAATGATTGAAATACCCCTAAAGGG
1 TAAAATGACCGAAATACCCCTGTAGGG
* * *
20454510 TAAAATGACCAAAATACCCCTATAAGG
1 TAAAATGACCGAAATACCCCTGTAGGG
* *
20454537 TAAAATGATCGAAATA-ACCTCGTAGGG
1 TAAAATGACCGAAATACCCCT-GTAGGG
*
20454564 TAAAATGACCGAAATA-CCCTCATAGGG
1 TAAAATGACCGAAATACCCCT-GTAGGG
*
20454591 TAAAATGACCGAAATACCCCTGTAAGG
1 TAAAATGACCGAAATACCCCTGTAGGG
* **
20454618 TAAAATGACCAAAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCCTGTAGGG
* * * *
20454645 TAAAATGATCGAAATAACCCAGTAAGG
1 TAAAATGACCGAAATACCCCTGTAGGG
* * *
20454672 TAAAATGATCGAAATACCCC-ATAAGG
1 TAAAATGACCGAAATACCCCTGTAGGG
* * *
20454698 TAAAATGACTGAAATACCCCCGTAAGG
1 TAAAATGACCGAAATACCCCTGTAGGG
*
20454725 TAAAATGACTGAAATA-CCCTCGTAGGG
1 TAAAATGACCGAAATACCCCT-GTAGGG
* *
20454752 TAAAAGGACCGAAATA-CCCTATAGGG
1 TAAAATGACCGAAATACCCCTGTAGGG
20454778 TAAAATGAC
1 TAAAATGAC
20454787 TGTTATACCC
Statistics
Matches: 412, Mismatches: 73, Indels: 17
0.82 0.15 0.03
Matches are distributed among these distances:
26 48 0.12
27 355 0.86
28 9 0.02
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCTGTAGGG
Found at i:20454402 original size:81 final size:81
Alignment explanation
Indices: 20454267--20454786 Score: 564
Period size: 81 Copynumber: 6.4 Consensus size: 81
20454257 GTGAGGTCAA
* * ** * *
20454267 TAAAATGACCGAAATACCCCTGTAGGGTAAAATGACAAAAATATCCCCGTAGGGTAAAGTGACCG
1 TAAAATGACCGAAATACCCCTATAAGGTAAAATGACCGAAATACCCCCGTAGGGTAAAATGACCG
*
20454332 AAGTACCCCCATAGGG
66 AAATACCCCCATAGGG
** ** * *
20454348 TAAAATGA-CGAAAATACCCCCGT-AGCGTAAAATGATTGAAATACCCCCGTAGGGTAAAATTAA
1 TAAAATGACCG-AAATACCCCTATAAG-GTAAAATGACCGAAATACCCCCGTAGGGTAAAATGAC
* * **
20454411 CAAAATAGCCCTGTAGGG
64 CGAAATACCCCCATAGGG
** * * * * **
20454429 TAAAATGACAAAAATACCCTTATAAGGTAAAATGATCGAAATACCCCCATAGAGTAAAATGATTG
1 TAAAATGACCGAAATACCCCTATAAGGTAAAATGACCGAAATACCCCCGTAGGGTAAAATGACCG
* *
20454494 AAATACCCCTAAAGGG
66 AAATACCCCCATAGGG
* * * *
20454510 TAAAATGACCAAAATACCCCTATAAGGTAAAATGATCGAAATAACCTCGTAGGGTAAAATGACCG
1 TAAAATGACCGAAATACCCCTATAAGGTAAAATGACCGAAATACCCCCGTAGGGTAAAATGACCG
*
20454575 AAATACCCTCATAGGG
66 AAATACCCCCATAGGG
* * * *
20454591 TAAAATGACCGAAATACCCCTGTAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCG
1 TAAAATGACCGAAATACCCCTATAAGGTAAAATGACCGAAATACCCCCGTAGGGTAAAATGACCG
* *
20454656 AAATA-ACCCAGTAAGG
66 AAATACCCCCA-TAGGG
* * * *
20454672 TAAAATGATCGAAATACCCC-ATAAGGTAAAATGACTGAAATACCCCCGTAAGGTAAAATGACTG
1 TAAAATGACCGAAATACCCCTATAAGGTAAAATGACCGAAATACCCCCGTAGGGTAAAATGACCG
* *
20454736 AAATACCCTCGTAGGG
66 AAATACCCCCATAGGG
* *
20454752 TAAAAGGACCGAAATA-CCCTATAGGGTAAAATGAC
1 TAAAATGACCGAAATACCCCTATAAGGTAAAATGAC
20454787 TGTTATACCC
Statistics
Matches: 366, Mismatches: 66, Indels: 15
0.82 0.15 0.03
Matches are distributed among these distances:
79 3 0.01
80 80 0.22
81 281 0.77
82 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (81 bp):
TAAAATGACCGAAATACCCCTATAAGGTAAAATGACCGAAATACCCCCGTAGGGTAAAATGACCG
AAATACCCCCATAGGG
Found at i:20456341 original size:13 final size:13
Alignment explanation
Indices: 20456323--20456352 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
20456313 TTGACCCGAT
20456323 TTGTGTGATTAAA
1 TTGTGTGATTAAA
20456336 TTGTGTGATTAAA
1 TTGTGTGATTAAA
20456349 TTGT
1 TTGT
20456353 TTCAAACCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (13 bp):
TTGTGTGATTAAA
Found at i:20459542 original size:27 final size:27
Alignment explanation
Indices: 20459504--20459557 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
20459494 GAAGAAAGAT
20459504 TAAAGTTCCCAATTTGTTTTCTTGTAG
1 TAAAGTTCCCAATTTGTTTTCTTGTAG
20459531 TAAAGTTCCCAATTTGTTTTCTTGTAG
1 TAAAGTTCCCAATTTGTTTTCTTGTAG
20459558 CATGAGGACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (27 bp):
TAAAGTTCCCAATTTGTTTTCTTGTAG
Found at i:20461130 original size:50 final size:50
Alignment explanation
Indices: 20461055--20461244 Score: 166
Period size: 50 Copynumber: 3.7 Consensus size: 50
20461045 TTTCTTGTAC
* * * **
20461055 TGCCAATGCCATATCCAAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGG
* * * * *
20461105 TGCCCATGCCATGTCCCAGACATGGTGTTACGA-GGGACCTCTCATTTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGAGACCTCTCATATAGG
* * * * *
20461155 TGCCAACGCCATGTCCTAAACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCAT-A--T--A-GG
*
20461211 TGCCAATGCCATGTCCCAGACATGGTCCTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
20461245 GGATCTCTTT
Statistics
Matches: 110, Mismatches: 22, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
49 1 0.01
50 76 0.69
51 1 0.01
53 1 0.01
56 31 0.28
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGG
Found at i:20461592 original size:17 final size:17
Alignment explanation
Indices: 20461570--20461604 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20461560 TCACATTCAT
20461570 CAAAATTACAATTTTGA
1 CAAAATTACAATTTTGA
20461587 CAAAATTACAATTTTGA
1 CAAAATTACAATTTTGA
20461604 C
1 C
20461605 CTTAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (17 bp):
CAAAATTACAATTTTGA
Found at i:20467852 original size:50 final size:50
Alignment explanation
Indices: 20467795--20467928 Score: 151
Period size: 50 Copynumber: 2.7 Consensus size: 50
20467785 ACCAATGCCA
**
20467795 TGTCCCAGACACGATCTTATGGGGGACCTCTCATCTCGGTGCCAACGTCG
1 TGTCCCAGACACGATCTTACAGGGGACCTCTCATCTCGGTGCCAACGTCG
* * * * *
20467845 TGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCA
1 TGTCCCAGACACGATCTTACAGGGGACCTCTCATCTCGGTGCCAACGTCG
* * * * * *
20467895 TGTCACAAACATGGTCTTACACGAGACCTCTCAT
1 TGTCCCAGACACGATCTTACAGGGGACCTCTCAT
20467929 AATCTCAATG
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (50 bp):
TGTCCCAGACACGATCTTACAGGGGACCTCTCATCTCGGTGCCAACGTCG
Found at i:20479190 original size:27 final size:27
Alignment explanation
Indices: 20479160--20479337 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20479150 ATATTGAGTC
* * * *
20479160 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
20479187 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
20479214 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
20479242 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
20479269 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
20479296 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
20479323 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20479338 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:20479299 original size:82 final size:81
Alignment explanation
Indices: 20479181--20479336 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20479171 TGCTATATAA
* *
20479181 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
20479246 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
20479263 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
20479327 CACTTAGTGC
65 CACTTAGTGC
20479337 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:20495006 original size:22 final size:22
Alignment explanation
Indices: 20494978--20495021 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
20494968 TTTTGAACCA
20494978 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
20495000 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
20495022 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:20497474 original size:79 final size:78
Alignment explanation
Indices: 20497374--20497598 Score: 258
Period size: 79 Copynumber: 2.8 Consensus size: 78
20497364 GCTCCTCGTT
* * *
20497374 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATACCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
20497439 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* *
20497454 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAGCCCG
*
20497517 GATTTAGTATCTCGCA
63 GATTTAGTAACTCGCA
* * * * *
20497533 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
20497597 GA
63 GA
20497599 CATCATTCAA
Statistics
Matches: 124, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
78 6 0.05
79 63 0.51
80 42 0.34
81 12 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:20497558 original size:119 final size:120
Alignment explanation
Indices: 20497374--20497598 Score: 282
Period size: 119 Copynumber: 1.9 Consensus size: 120
20497364 GCTCCTCGTT
20497374 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATACCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATACCTTCGGGACTTAACCCGG
* *
20497439 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * **
20497493 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAAT-TCGCACAAATACCTTCGGGA-CTTAAC
* *
20497554 CCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
62 CCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
20497599 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
118 8 0.09
119 62 0.68
120 21 0.23
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATACCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:20497598 original size:40 final size:39
Alignment explanation
Indices: 20497374--20497598 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 39
20497364 GCTCCTCGTT
* *
20497374 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
* * * *
20497414 CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
20497454 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAT-TCGCA
* *
20497493 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAT-TCGCA
* * *
20497533 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-A-TTCGCA
20497574 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20497599 CATCATTCAA
Statistics
Matches: 161, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
38 3 0.02
39 30 0.19
40 115 0.71
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTATTCGCA
Found at i:20505378 original size:39 final size:39
Alignment explanation
Indices: 20505300--20505523 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 39
20505290 GCTCCTCGTT
* *
20505300 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
*
20505340 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
20505379 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* *
20505418 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
20505458 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
20505499 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
20505524 CATCATTCAA
Statistics
Matches: 164, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 70 0.43
40 83 0.51
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:20505456 original size:79 final size:79
Alignment explanation
Indices: 20505300--20505523 Score: 260
Period size: 79 Copynumber: 2.8 Consensus size: 79
20505290 GCTCCTCGTT
*
20505300 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGACTTAACCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGACTTAACCCGGA
20505365 TTTAGTAACTCGCA
66 TTTAGTAACTCGCA
* **
20505379 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTCGGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGA-CTTAACCC
*
20505441 GGATTTAGTATCTCGCA
63 GGATTTAGTAACTCGCA
* * * * * *
20505458 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGT-AATTCGCACAAATGCCTTC-GGACTTAACCC
20505521 GGA
63 GGA
20505524 CATCATTCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
77 3 0.02
78 34 0.27
79 47 0.37
80 29 0.23
81 12 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGACTTAACCCGGA
TTTAGTAACTCGCA
Found at i:20511398 original size:50 final size:50
Alignment explanation
Indices: 20511300--20511399 Score: 112
Period size: 50 Copynumber: 2.0 Consensus size: 50
20511290 TATGAAGGAA
* * * *
20511300 GTATCTAGTAGTAAATCTACAAATTTCTAGTGGCATGTCCACATTATTCT
1 GTATCTAGTAGTAAATCTACAAATATCTAGTGGCATGACCAAACTATTCT
* * **
20511350 GTATCTAGTAGTAAATCTCCAAATATCTGGT-GTTTCGACCAAACTATTCT
1 GTATCTAGTAGTAAATCTACAAATATCTAGTGGCAT-GACCAAACTATTCT
20511400 ATTTTTGGCA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
49 2 0.05
50 39 0.95
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (50 bp):
GTATCTAGTAGTAAATCTACAAATATCTAGTGGCATGACCAAACTATTCT
Found at i:20522493 original size:11 final size:11
Alignment explanation
Indices: 20522477--20522509 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
20522467 TAGAGAAAAA
20522477 AATTGTTCTCT
1 AATTGTTCTCT
20522488 AATTGTTCTCT
1 AATTGTTCTCT
20522499 AATTGTTCTCT
1 AATTGTTCTCT
20522510 CTCTCCAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.55
Consensus pattern (11 bp):
AATTGTTCTCT
Found at i:20529995 original size:40 final size:40
Alignment explanation
Indices: 20529940--20530045 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
20529930 TTGTTGAATA
* * *
20529940 TTTGCACATACGTGCCCCTAATTGTACTTCGGTACCCCTG
1 TTTGCACATACGTGCCCCTGATTGTACTTCGATACCCCTC
* * * *
20529980 TTTGCTCATATGTGCCCGTGTTTGTACTTCGATACCCCTC
1 TTTGCACATACGTGCCCCTGATTGTACTTCGATACCCCTC
*
20530020 TTTGCACATACATGCCCCTGATTGTA
1 TTTGCACATACGTGCCCCTGATTGTA
20530046 TTTCAATATC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.17, C:0.30, G:0.17, T:0.36
Consensus pattern (40 bp):
TTTGCACATACGTGCCCCTGATTGTACTTCGATACCCCTC
Found at i:20540328 original size:41 final size:41
Alignment explanation
Indices: 20540277--20540477 Score: 186
Period size: 41 Copynumber: 4.9 Consensus size: 41
20540267 TATAGTGCTG
*
20540277 AATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
1 AATTGCACATACATGCCCCTATTTGTACTTCGGTACCCCTA
* * * *** * * *
20540318 AATTGAACATACGTGCTCCTATTTACGCATCAGTACACCTA
1 AATTGCACATACATGCCCCTATTTGTACTTCGGTACCCCTA
* ** * * *
20540359 AATTGTACATACATAACCCTATTTGTACTACGGTGCCCCTG
1 AATTGCACATACATGCCCCTATTTGTACTTCGGTACCCCTA
* * ** * * *
20540400 AATTGCACATATATGCCCTTGCTTGTACTACGATACCCCTG
1 AATTGCACATACATGCCCCTATTTGTACTTCGGTACCCCTA
*
20540441 AATTGCACATACATGCCCCTATTTGTACTTCAGTACC
1 AATTGCACATACATGCCCCTATTTGTACTTCGGTACC
20540478 TCTGGATGTA
Statistics
Matches: 122, Mismatches: 38, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
41 122 1.00
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.31
Consensus pattern (41 bp):
AATTGCACATACATGCCCCTATTTGTACTTCGGTACCCCTA
Found at i:20540416 original size:21 final size:21
Alignment explanation
Indices: 20540392--20540460 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
20540382 TGTACTACGG
*
20540392 TGCCCCTGAATTGCACATATA
1 TGCCCCTGAATTGCACATACA
* * *
20540413 TGCCCTTG-CTTGTAC-TACGA
1 TGCCCCTGAATTGCACATAC-A
*
20540433 TACCCCTGAATTGCACATACA
1 TGCCCCTGAATTGCACATACA
20540454 TGCCCCT
1 TGCCCCT
20540461 ATTTGTACTT
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
19 2 0.06
20 12 0.33
21 19 0.53
22 3 0.08
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (21 bp):
TGCCCCTGAATTGCACATACA
Found at i:20546446 original size:5 final size:5
Alignment explanation
Indices: 20546408--20546445 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
20546398 TCTTCTCTTT
*
20546408 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTC TTTT- TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
20546446 TCACAAGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (5 bp):
TTTTG
Found at i:20549290 original size:16 final size:15
Alignment explanation
Indices: 20549269--20549302 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
20549259 CAAATTGATA
*
20549269 ATAATTCATATATATT
1 ATAATTAATATA-ATT
20549285 ATAATTAATATAATT
1 ATAATTAATATAATT
20549300 ATA
1 ATA
20549303 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATTAATATAATT
Found at i:20564379 original size:79 final size:82
Alignment explanation
Indices: 20564262--20564446 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
20564252 GGTACTCGTT
* *
20564262 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
20564325 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
20564342 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
20564405 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
20564422 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20564447 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:20564446 original size:40 final size:40
Alignment explanation
Indices: 20564243--20564446 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
20564233 CAGAATTTAA
** *
20564243 CCGGATATAGGT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATA-GTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20564283 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20564323 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20564362 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
20564402 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
20564442 CCGGA
1 CCGGA
20564447 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 34 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20572463 original size:79 final size:82
Alignment explanation
Indices: 20572352--20572536 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
20572342 GGTACTCGTT
* *
20572352 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
20572415 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
20572432 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
20572495 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
20572512 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20572537 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:20572536 original size:40 final size:40
Alignment explanation
Indices: 20572333--20572536 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
20572323 CGGAATTTAA
** *
20572333 CCGGATATAGGT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATA-GTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20572373 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20572413 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20572452 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
20572492 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
20572532 CCGGA
1 CCGGA
20572537 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 34 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20587305 original size:43 final size:43
Alignment explanation
Indices: 20587240--20587432 Score: 289
Period size: 43 Copynumber: 4.5 Consensus size: 43
20587230 GATTTGCGAT
* *
20587240 GCTTTTCCCACAAACGCTGCTATAGACCATGACCTTTAGTGGC
1 GCTTTTCCCACAAACGCCGCTATAGACCATGACCTTTAGCGGC
* * *
20587283 GCTTTTCCCACAAACACCGCTATACACCATGACCTTTAGCAGC
1 GCTTTTCCCACAAACGCCGCTATAGACCATGACCTTTAGCGGC
*
20587326 GCTTTTCCCACAAACG-CACTATAGACCATGACCTTTAGCGGC
1 GCTTTTCCCACAAACGCCGCTATAGACCATGACCTTTAGCGGC
* *
20587368 GCTTTTGCCACAAACGCCGCTATAGACCATGACCTTTAGCTGC
1 GCTTTTCCCACAAACGCCGCTATAGACCATGACCTTTAGCGGC
**
20587411 GCTTTTATCACAAACGCCGCTA
1 GCTTTTCCCACAAACGCCGCTA
20587433 AAAGTACGTT
Statistics
Matches: 135, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
42 38 0.28
43 97 0.72
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.25
Consensus pattern (43 bp):
GCTTTTCCCACAAACGCCGCTATAGACCATGACCTTTAGCGGC
Found at i:20587360 original size:85 final size:86
Alignment explanation
Indices: 20587240--20587427 Score: 297
Period size: 85 Copynumber: 2.2 Consensus size: 86
20587230 GATTTGCGAT
* *
20587240 GCTTTTCCCACAAACGCTGCTATAGACCATGACCTTTAGTGGCGCTTTTCCCACAAACACCGCTA
1 GCTTTTCCCACAAACGCTACTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTA
20587305 TACACCATGACCTTTAGCAGC
66 TACACCATGACCTTTAGCAGC
* *
20587326 GCTTTTCCCACAAACGC-ACTATAGACCATGACCTTTAGCGGCGCTTTTGCCACAAACGCCGCTA
1 GCTTTTCCCACAAACGCTACTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTA
* *
20587390 TAGACCATGACCTTTAGCTGC
66 TACACCATGACCTTTAGCAGC
**
20587411 GCTTTTATCACAAACGC
1 GCTTTTCCCACAAACGC
20587428 CGCTAAAAGT
Statistics
Matches: 94, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
85 77 0.82
86 17 0.18
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (86 bp):
GCTTTTCCCACAAACGCTACTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTA
TACACCATGACCTTTAGCAGC
Found at i:20592356 original size:21 final size:21
Alignment explanation
Indices: 20592332--20592373 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20592322 AACCTTAAAT
*
20592332 CCCTAACTCTTAA-CCTCTAAC
1 CCCTAACCCTTAATCC-CTAAC
20592353 CCCTAACCCTTAATCCCTAAC
1 CCCTAACCCTTAATCCCTAAC
20592374 TCATAAACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.29, C:0.45, G:0.00, T:0.26
Consensus pattern (21 bp):
CCCTAACCCTTAATCCCTAAC
Found at i:20592425 original size:14 final size:15
Alignment explanation
Indices: 20592406--20592438 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
20592396 CTTAAATTAG
20592406 AATCCCTAA-TCCAT
1 AATCCCTAACTCCAT
20592420 AATCCCTAACTCCAT
1 AATCCCTAACTCCAT
20592435 AATC
1 AATC
20592439 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.27
Consensus pattern (15 bp):
AATCCCTAACTCCAT
Found at i:20592909 original size:41 final size:41
Alignment explanation
Indices: 20592862--20593091 Score: 219
Period size: 41 Copynumber: 5.6 Consensus size: 41
20592852 TTTTCAAAAA
* * * * *
20592862 CGCTTTTTGGAAAATGTCGGTAAAGCCCCGATCATTAGCGG
1 CGCTTCTTGGAAAACGCCGCTAAAGCCCCGAGCATTAGCGG
* * * *
20592903 CGCTTTTTGGAAAACGCCGGTAAAGCCCCGAGCATTAGTGT
1 CGCTTCTTGGAAAACGCCGCTAAAGCCCCGAGCATTAGCGG
* * * * *
20592944 CGCATCTT-GAAATACACCGTTAAAGGCACGAGCATTAGCGG
1 CGCTTCTTGGAAA-ACGCCGCTAAAGCCCCGAGCATTAGCGG
* * * *
20592985 CGCTTCTTGAAAAACGCCACTAAAGCCCCGACCATTAGCGA
1 CGCTTCTTGGAAAACGCCGCTAAAGCCCCGAGCATTAGCGG
* *
20593026 CGCTTCTTGAAAAACGTCGCTAAAGCCCCGAGCATTAGCGG
1 CGCTTCTTGGAAAACGCCGCTAAAGCCCCGAGCATTAGCGG
* * ** *
20593067 CGATTTTTCAAAAATGCCGCTAAAG
1 CGCTTCTTGGAAAACGCCGCTAAAG
20593092 ATCTAAGCAT
Statistics
Matches: 156, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
40 4 0.03
41 149 0.96
42 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (41 bp):
CGCTTCTTGGAAAACGCCGCTAAAGCCCCGAGCATTAGCGG
Done.