Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 48 of 167
Found at i:14911485 original size:6 final size:7
Alignment explanation
Indices: 14911468--14911508 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
14911458 AATATTTAAG
14911468 TTTTTTA
1 TTTTTTA
14911475 TTTTTTA
1 TTTTTTA
14911482 TTTTTTA
1 TTTTTTA
*
14911489 TTTTTAA
1 TTTTTTA
* *
14911496 ATTTTAA
1 TTTTTTA
14911503 TTTTTT
1 TTTTTT
14911509 TGAAGATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:14912004 original size:24 final size:24
Alignment explanation
Indices: 14911976--14912024 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
14911966 CCAAAATAAC
14911976 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
14912000 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
14912024 A
1 A
14912025 TAAATATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:14912027 original size:11 final size:12
Alignment explanation
Indices: 14911983--14912028 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
14911973 AACAATTAAT
14911983 TTTTATATAAAC
1 TTTTATATAAAC
* * *
14911995 TTTTAAATTAAT
1 TTTTATATAAAC
14912007 TTTTATATAAAC
1 TTTTATATAAAC
14912019 TTTTA-ATAAA
1 TTTTATATAAA
14912029 TATATGAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
11 5 0.18
12 23 0.82
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTATATAAAC
Found at i:14912676 original size:41 final size:41
Alignment explanation
Indices: 14912630--14912766 Score: 170
Period size: 41 Copynumber: 3.4 Consensus size: 41
14912620 GTTATATAAC
* *
14912630 TTTTAGTGGCGTTTTACTAAAAGCGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTAGT
* *
14912671 CTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTAGT
** * * *
14912711 TTTTAGTAGTGTTTTAACAAAAAACGCCGCTATTGCTC-AGT
1 TTTTAGCGGCGTTTT-ACAAAAAGCGCCGCTAATGCTCTAGT
14912752 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
14912767 TGTTAAAACG
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 13 0.16
41 68 0.84
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTAGT
Found at i:14912788 original size:81 final size:82
Alignment explanation
Indices: 14912630--14912797 Score: 198
Period size: 81 Copynumber: 2.1 Consensus size: 82
14912620 GTTATATAAC
* * *
14912630 TTTTAGTGGCGTTTTACTAAAAGCGCCGCTAATGCTCTAGTCTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGTAGCGTTTTACAAAAAACGCCGCTAATGCTCTAGTCTTTAGCGGCGTTTTACCAAAAGC
*
14912695 GCCGCTAATGCTCTGT-
66 GCCACTAATGCTCTGTG
* * * ***
14912711 TTTTAGTAGTGTTTTAACAAAAAACGCCGCTATTGCTC-AGTTTTTAGCGGCGTTTTTGTTAAAA
1 TTTTAGTAGCGTTTT-ACAAAAAACGCCGCTAATGCTCTAGTCTTTAGCGGCG-TTTTACCAAAA
*
14912775 -CGCCACTATTGCTCTGTG
64 GCGCCACTAATGCTCTGTG
14912793 TTTTA
1 TTTTA
14912798 CAATTTTTAA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 41 0.56
82 32 0.44
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (82 bp):
TTTTAGTAGCGTTTTACAAAAAACGCCGCTAATGCTCTAGTCTTTAGCGGCGTTTTACCAAAAGC
GCCACTAATGCTCTGTG
Found at i:14915467 original size:16 final size:16
Alignment explanation
Indices: 14915446--14915476 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14915436 GTCTACTGGG
*
14915446 TTTAATTAATATTTTA
1 TTTAATTAAAATTTTA
14915462 TTTAATTAAAATTTT
1 TTTAATTAAAATTTT
14915477 GTTTTTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAATTAAAATTTTA
Found at i:14916879 original size:5 final size:5
Alignment explanation
Indices: 14916860--14916894 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
14916850 CTGTGTGTTC
14916860 TTTATT TTTATT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT TTT
14916895 CATAAATTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 19 0.66
6 10 0.34
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:14921312 original size:18 final size:18
Alignment explanation
Indices: 14921285--14921321 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
14921275 AGAGTGAAAG
14921285 AAACGAG-AAATGGGCCA
1 AAACGAGAAAATGGGCCA
14921302 AAACGGAGAAAATGGGCCA
1 AAAC-GAGAAAATGGGCCA
14921321 A
1 A
14921322 CGTACGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 3 0.17
19 11 0.61
ACGTcount: A:0.49, C:0.16, G:0.30, T:0.05
Consensus pattern (18 bp):
AAACGAGAAAATGGGCCA
Found at i:14923762 original size:46 final size:46
Alignment explanation
Indices: 14923669--14923787 Score: 148
Period size: 46 Copynumber: 2.6 Consensus size: 46
14923659 TTTATGCCTA
*
14923669 AAAATGAGTAAGACCATAGCTGAAAGATGTTATAGCATCATAATAG
1 AAAATGAGTAAGACCATAGCTGAAAGATGCTATAGCATCATAATAG
* * ** **
14923715 AAAATGAGTGAGACCATAGCTGAAAGATGCTATGGCATTTTGGTAG
1 AAAATGAGTAAGACCATAGCTGAAAGATGCTATAGCATCATAATAG
* * *
14923761 AAGATGAATAAGACCATAGTTGAAAGA
1 AAAATGAGTAAGACCATAGCTGAAAGA
14923788 CGTCATGGTA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.43, C:0.10, G:0.24, T:0.24
Consensus pattern (46 bp):
AAAATGAGTAAGACCATAGCTGAAAGATGCTATAGCATCATAATAG
Found at i:14925701 original size:35 final size:35
Alignment explanation
Indices: 14925662--14925757 Score: 140
Period size: 35 Copynumber: 2.7 Consensus size: 35
14925652 AAAAGTTATA
* *
14925662 ACACGTAGGTATGGTATTATCCATACTGAGCTATG
1 ACACGTAGGTATGGTATTATCCATACTAACCTATG
*
14925697 ACACGTAAGTATGGTATTATCCATACTAACCTATG
1 ACACGTAGGTATGGTATTATCCATACTAACCTATG
*
14925732 ATACGTAGGTATGGTATT-TCCCATAC
1 ACACGTAGGTATGGTATTAT-CCATAC
14925758 CGAGTTGTGA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
34 1 0.02
35 54 0.98
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (35 bp):
ACACGTAGGTATGGTATTATCCATACTAACCTATG
Found at i:14925773 original size:35 final size:35
Alignment explanation
Indices: 14925664--14925774 Score: 134
Period size: 35 Copynumber: 3.2 Consensus size: 35
14925654 AAGTTATAAC
*
14925664 ACGTAGGTATGGTATTATCCATACTGAGCTATGAC
1 ACGTAGGTATGGTATTATCCATACTGAGCTATGAA
* * * *
14925699 ACGTAAGTATGGTATTATCCATACTAACCTATGAT
1 ACGTAGGTATGGTATTATCCATACTGAGCTATGAA
* * *
14925734 ACGTAGGTATGGTATT-TCCCATACCGAGTTGTGAA
1 ACGTAGGTATGGTATTAT-CCATACTGAGCTATGAA
14925769 ACGTAG
1 ACGTAG
14925775 CCATATTGAG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 1 0.02
35 63 0.98
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (35 bp):
ACGTAGGTATGGTATTATCCATACTGAGCTATGAA
Found at i:14932572 original size:35 final size:35
Alignment explanation
Indices: 14932533--14932694 Score: 211
Period size: 35 Copynumber: 4.7 Consensus size: 35
14932523 GTTATGACAT
*
14932533 GTAGGTATGGTATTATCCATACTGAGCCATGATAC
1 GTAGGTATGGTATTATCCATACTGAGCTATGATAC
* * *
14932568 GTAGGTATGGTATTATCTATACTAATCTATGATAC
1 GTAGGTATGGTATTATCCATACTGAGCTATGATAC
*
14932603 GTAGGTATGGTATT-TCCATACTGAGCTATAATAC
1 GTAGGTATGGTATTATCCATACTGAGCTATGATAC
* * * *
14932637 GTAGGTATGATATT-TCCCATACTGAGTTGTGAAAC
1 GTAGGTATGGTATTAT-CCATACTGAGCTATGATAC
*
14932672 GTAGGTATGGTATTAACCATACT
1 GTAGGTATGGTATTATCCATACT
14932695 TATAGTGTTG
Statistics
Matches: 110, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
34 30 0.27
35 80 0.73
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (35 bp):
GTAGGTATGGTATTATCCATACTGAGCTATGATAC
Found at i:14932644 original size:69 final size:70
Alignment explanation
Indices: 14932524--14932694 Score: 213
Period size: 69 Copynumber: 2.5 Consensus size: 70
14932514 CATGGCAAAG
* * * * *
14932524 TTATGACATGTAGGTATGGTATTATCCATACTGAGCCATGATACGTAGGTATGGTATTAT-CTAT
1 TTATGAAACGTAGGTATGGTATTATCCATACTGAGCCATAATACGTAGGTATGATATT-TCCCAT
14932588 ACT-AA
65 ACTGAA
* *
14932593 TCTATGATACGTAGGTATGGTATT-TCCATACTGAGCTATAATACGTAGGTATGATATTTCCCAT
1 T-TATGAAACGTAGGTATGGTATTATCCATACTGAGCCATAATACGTAGGTATGATATTTCCCAT
*
14932657 ACTGAG
65 ACTGAA
* *
14932663 TTGTGAAACGTAGGTATGGTATTAACCATACT
1 TTATGAAACGTAGGTATGGTATTATCCATACT
14932695 TATAGTGTTG
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
68 1 0.01
69 58 0.66
70 29 0.33
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (70 bp):
TTATGAAACGTAGGTATGGTATTATCCATACTGAGCCATAATACGTAGGTATGATATTTCCCATA
CTGAA
Found at i:14943719 original size:22 final size:22
Alignment explanation
Indices: 14943694--14943765 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
14943684 CATAATAATA
14943694 GAAAATGAGTAAAACCATAGTT
1 GAAAATGAGTAAAACCATAGTT
*** * *
14943716 GAAAGATGCTA-TGGCATCATAGTA
1 GAAA-ATG--AGTAAAACCATAGTT
*
14943740 GAAAATGAGTAAGACCATAGTT
1 GAAAATGAGTAAAACCATAGTT
14943762 GAAA
1 GAAA
14943766 TGTGCTATGG
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
21 1 0.03
22 16 0.44
23 6 0.17
24 12 0.33
25 1 0.03
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (22 bp):
GAAAATGAGTAAAACCATAGTT
Found at i:14943736 original size:24 final size:24
Alignment explanation
Indices: 14943709--14943781 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
14943699 TGAGTAAAAC
14943709 CATAGTTGAAAGATGCTATGGCAT
1 CATAGTTGAAAGATGCTATGGCAT
* * * *
14943733 CATAGTAGAAA-ATGAGTA-AG-AC
1 CATAGTTGAAAGATG-CTATGGCAT
14943755 CATAGTTGAAATG-TGCTATGGCAT
1 CATAGTTGAAA-GATGCTATGGCAT
14943779 CAT
1 CAT
14943782 GTGAAATCAC
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
22 13 0.36
23 7 0.19
24 16 0.44
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.27
Consensus pattern (24 bp):
CATAGTTGAAAGATGCTATGGCAT
Found at i:14943779 original size:46 final size:46
Alignment explanation
Indices: 14943647--14943781 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
14943637 GCTATACACC
* * *
14943647 TAGAAAA-GAGTAAGACCATAGCTGAAAGATTCTATGGCATAATAA
1 TAGAAAATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAA
* *
14943692 TAGAAAATGAGTAAAACCATAGTTGAAAGATGCTATGGCATCATAG
1 TAGAAAATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAA
14943738 TAGAAAATGAGTAAGACCATAGTTGAAATG-TGCTATGGCATCAT
1 TAGAAAATGAGTAAGACCATAGTTGAAA-GATGCTATGGCATCAT
14943782 GTGAAATCAC
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
45 7 0.09
46 74 0.90
47 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.24
Consensus pattern (46 bp):
TAGAAAATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAA
Found at i:14954716 original size:45 final size:46
Alignment explanation
Indices: 14954464--14954778 Score: 177
Period size: 49 Copynumber: 6.7 Consensus size: 46
14954454 AGGGTATAAT
* *
14954464 GCCGATGCCATGTCCCAGACATGGTTTTACACTGGC-T-CATCCATCAA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTTACAT-C-TCAA
* * * * * *
14954511 GTCGATGCCATGTCCCAAACATGGTTTTACACT-GACTATCGAAATC-GAG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAG-CT-T--ACATCTCAA
* * * * **
14954560 GCCGATGTCATGTCCCAAACATAGTCTTACACTAGATCT-CAATATCTGT
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCT-TAC-ATCTC-AA
* *
14954609 GCCGATACCATGTCCTAGACATGGTCTTACACT-GAC--ACATCTCATA
1 GCCGAT-GCATGTCCCAGACATGGTCTTACACTAG-CTTACATCTCA-A
* *
14954655 GCCAATGCATGGCCCAGACAT-GTCTTACACTAGCTTACATCTCAA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCAA
* * *
14954700 GGCCGATGCA-GTCCCAGACAT-GTCTTATACTAGCTCT-CATTTCTAT
1 -GCCGATGCATGTCCCAGACATGGTCTTACACTAGCT-TACATCTC-AA
*
14954746 GCCGATGCCATATCCCAGACATGGTCTTACACT
1 GCCGATG-CATGTCCCAGACATGGTCTTACACT
14954779 GGCTCTCATA
Statistics
Matches: 210, Mismatches: 35, Indels: 45
0.72 0.12 0.16
Matches are distributed among these distances:
44 11 0.05
45 49 0.23
46 30 0.14
47 45 0.21
48 10 0.05
49 61 0.29
50 1 0.00
51 1 0.00
52 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCAA
Found at i:14957190 original size:29 final size:27
Alignment explanation
Indices: 14957121--14957190 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
14957111 ACACGCCAAA
* *
14957121 AAAAGAAAGCCTTTGTAGCGGTCTATG
1 AAAAGGAAGCCTTTGTAGCGATCTATG
* *
14957148 AAAAGGAAGCCTTTGTGGTGATCTATG
1 AAAAGGAAGCCTTTGTAGCGATCTATG
14957175 AAAGAGGGAAGCCTTT
1 AAA-A-GGAAGCCTTT
14957191 TTGGCATACC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 26 0.70
28 1 0.03
29 10 0.27
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.26
Consensus pattern (27 bp):
AAAAGGAAGCCTTTGTAGCGATCTATG
Found at i:14960537 original size:74 final size:73
Alignment explanation
Indices: 14960409--14960549 Score: 169
Period size: 74 Copynumber: 1.9 Consensus size: 73
14960399 AATTAACTTA
* * *
14960409 ATTATTTAATTTTGTCACAATTGATTATGATTTTAATATCGAAAATTTAGTCATAAACAAATTGA
1 ATTATTTAATTTTGTCACAATTGATTATGAATTTAATATAGAAAATTTAGTCATAAA-AAATTAA
14960474 ATAATTACC
65 ATAATTACC
* * * * *
14960483 ATTATTTGATTTTGTCACAATT-ACTTAT-AATTTAGTGTTAGAAATTTTATTCATAAAAAATTA
1 ATTATTTAATTTTGTCACAATTGA-TTATGAATTTAAT-ATAGAAAATTTAGTCATAAAAAATTA
14960546 AATA
64 AATA
14960550 CTTTTACCCA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
73 16 0.28
74 41 0.72
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (73 bp):
ATTATTTAATTTTGTCACAATTGATTATGAATTTAATATAGAAAATTTAGTCATAAAAAATTAAA
TAATTACC
Found at i:14960726 original size:71 final size:73
Alignment explanation
Indices: 14960640--14960781 Score: 180
Period size: 73 Copynumber: 2.0 Consensus size: 73
14960630 TTTTTTTCCT
* ** * *
14960640 CAATTTCTTACAATTTCAGTGTTTAAAATTTGG-C-TAAAAAATTGAATACTTATGATCATTTAT
1 CAATTGCTTACAATTTCAGTGTCGAAAATTTGGTCACAAAAAATTAAATACTTATGATCATTTAT
14960703 TTTTGTTG
66 TTTTGTTG
* * * * *
14960711 CAATTGCTTATAATTTTAGTGTCGATAATTTGGTCACAAAAAATTAAATATTTGTGATCATTTAT
1 CAATTGCTTACAATTTCAGTGTCGAAAATTTGGTCACAAAAAATTAAATACTTATGATCATTTAT
14960776 TTTTGT
66 TTTTGT
14960782 CACAAATGTT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
71 27 0.46
72 1 0.02
73 31 0.53
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (73 bp):
CAATTGCTTACAATTTCAGTGTCGAAAATTTGGTCACAAAAAATTAAATACTTATGATCATTTAT
TTTTGTTG
Found at i:14967298 original size:18 final size:16
Alignment explanation
Indices: 14967275--14967309 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
14967265 AATTTAACTT
14967275 TAATTAAATTATTTAAAA
1 TAATT-AATT-TTTAAAA
14967293 TAATTAATTTTTAAAA
1 TAATTAATTTTTAAAA
14967309 T
1 T
14967310 TGTAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATTAATTTTTAAAA
Found at i:14969865 original size:3 final size:3
Alignment explanation
Indices: 14969851--14970679 Score: 1649
Period size: 3 Copynumber: 276.3 Consensus size: 3
14969841 GAAGAAAGCC
*
14969851 AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14969899 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14969947 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14969995 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14970043 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14970091 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14970139 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14970187 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14970235 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14970283 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14970331 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14970379 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14970427 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14970475 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14970523 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14970571 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14970619 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
14970667 AAG AAG AAG AAG A
1 AAG AAG AAG AAG A
14970680 GAAAAGACAT
Statistics
Matches: 824, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 824 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14970762 original size:3 final size:3
Alignment explanation
Indices: 14970756--14970782 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14970746 TTTTACAATC
14970756 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
14970783 CTGTTAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:14972749 original size:25 final size:24
Alignment explanation
Indices: 14972714--14972854 Score: 97
Period size: 25 Copynumber: 5.7 Consensus size: 24
14972704 ACACACCACA
* *
14972714 GCTCTCTTGAGCTTCCTGATACTTG
1 GCTCTCATGAGCTTCCCGATA-TTG
*
14972739 GCTCTCATGAGCTTCCCGATATTT
1 GCTCTCATGAGCTTCCCGATATTG
14972763 G-TCTCATAAGAGCTTCCCGATATTTG
1 GCTCTCAT--GAGCTTCCCGATA-TTG
* * * **
14972789 GCTCACAAGAGCTTCTCGATATACA
1 GCTCTCATGAGCTTCCCGATAT-TG
* * *
14972814 GCTCGT-ATGAGCTTTCCGTTACTTA
1 GCTC-TCATGAGCTTCCCGATA-TTG
*
14972839 GCTCACATGAGCTTCC
1 GCTCTCATGAGCTTCC
14972855 AGTTATATGG
Statistics
Matches: 91, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
23 6 0.07
24 4 0.04
25 73 0.80
26 4 0.04
27 4 0.04
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (24 bp):
GCTCTCATGAGCTTCCCGATATTG
Found at i:14972868 original size:50 final size:49
Alignment explanation
Indices: 14972722--14972879 Score: 145
Period size: 50 Copynumber: 3.2 Consensus size: 49
14972712 CAGCTCTCTT
* * * * *
14972722 GAGCTTCCTGATACTTGGCTCTCATGAGCTTCCCGATATTTGTCTCATAA
1 GAGCTTCCCGATACTTGGCTCACATGAGCTT-CCGATATATGGCTCGTAA
* * ** *
14972772 GAGCTTCCCGATATTTGGCTCACAAGAGCTTCTCGATATACAGCTCGTAT
1 GAGCTTCCCGATACTTGGCTCACATGAGCTTC-CGATATATGGCTCGTAA
* * * * *
14972822 GAGCTTTCCGTTACTTAGCTCACATGAGCTTCCAGTTATATGGCTCGGAA
1 GAGCTTCCCGATACTTGGCTCACATGAGCTTCC-GATATATGGCTCGTAA
*
14972872 GATCTTCC
1 GAGCTTCC
14972880 TGTTTACATG
Statistics
Matches: 84, Mismatches: 22, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
49 2 0.02
50 82 0.98
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (49 bp):
GAGCTTCCCGATACTTGGCTCACATGAGCTTCCGATATATGGCTCGTAA
Found at i:14979905 original size:27 final size:27
Alignment explanation
Indices: 14979875--14980012 Score: 167
Period size: 27 Copynumber: 5.1 Consensus size: 27
14979865 GTGATGAAGT
14979875 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
14979902 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* * *
14979929 CACTAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
14979956 CACCAGA-ACATATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
14979983 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
14980010 CAC
1 CAC
14980013 TAGGACGTTT
Statistics
Matches: 95, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
26 10 0.11
27 81 0.85
28 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:14979959 original size:54 final size:54
Alignment explanation
Indices: 14979875--14980012 Score: 224
Period size: 54 Copynumber: 2.6 Consensus size: 54
14979865 GTGATGAAGT
*
14979875 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
14979929 CACTAGATCAGATAATCGTGGCATAGCCACCAGAACATATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
14979983 CACCAGATCAGATAATTGTGGCATAGCCAC
1 CACCAGATCAGATAATTGTGGCATAGCCAC
14980013 TAGGACGTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 72 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:14980966 original size:55 final size:55
Alignment explanation
Indices: 14980882--14980995 Score: 228
Period size: 55 Copynumber: 2.1 Consensus size: 55
14980872 GACCACTCTT
14980882 CATTACGAATCAAATTTATCATTGTACAGAATTCAAAATATGTTCTCGTTTATTC
1 CATTACGAATCAAATTTATCATTGTACAGAATTCAAAATATGTTCTCGTTTATTC
14980937 CATTACGAATCAAATTTATCATTGTACAGAATTCAAAATATGTTCTCGTTTATTC
1 CATTACGAATCAAATTTATCATTGTACAGAATTCAAAATATGTTCTCGTTTATTC
14980992 CATT
1 CATT
14980996 TGAAACTAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (55 bp):
CATTACGAATCAAATTTATCATTGTACAGAATTCAAAATATGTTCTCGTTTATTC
Found at i:14981689 original size:26 final size:26
Alignment explanation
Indices: 14981658--14981765 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
14981648 TGAAATGCCC
*
14981658 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
14981684 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
14981710 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
14981736 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
14981762 ATCA
1 ATCA
14981766 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:14981884 original size:30 final size:30
Alignment explanation
Indices: 14981848--14981907 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
14981838 AAAATGGGAG
14981848 GTTTGTCATGCAAATCCTCCTATTTTGCAC
1 GTTTGTCATGCAAATCCTCCTATTTTGCAC
14981878 GTTTGTCATGCAAATCCTCCTATTTTGCAC
1 GTTTGTCATGCAAATCCTCCTATTTTGCAC
14981908 TCCTATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (30 bp):
GTTTGTCATGCAAATCCTCCTATTTTGCAC
Found at i:14986017 original size:25 final size:25
Alignment explanation
Indices: 14985980--14986043 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
14985970 ACAGCTCTCT
* *
14985980 TGAGCTTCACGATACTTGGCTTTA-A
1 TGAGCTTCCCGATACTTGGC-TCACA
*
14986005 TGAGCTTCCCGATATTTGGCTCACA
1 TGAGCTTCCCGATACTTGGCTCACA
*
14986030 AGAGCTTCCCGATA
1 TGAGCTTCCCGATA
14986044 TATAGCTCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 2 0.06
25 32 0.94
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.31
Consensus pattern (25 bp):
TGAGCTTCCCGATACTTGGCTCACA
Found at i:14986044 original size:25 final size:25
Alignment explanation
Indices: 14986006--14986087 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
14985996 TGGCTTTAAT
*
14986006 GAGCTTCCCGATATTTGGCTCACAA
1 GAGCTTCCCGATATATGGCTCACAA
* ** *
14986031 GAGCTTCCCGATATATAGCTCGTAT
1 GAGCTTCCCGATATATGGCTCACAA
*
14986056 GAGCTTCCC-ATTATATGGCTCAGAA
1 GAGCTTCCCGA-TATATGGCTCACAA
14986081 GAGCTTC
1 GAGCTTC
14986088 TTGTTTACAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
24 1 0.02
25 46 0.98
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (25 bp):
GAGCTTCCCGATATATGGCTCACAA
Found at i:14990521 original size:28 final size:28
Alignment explanation
Indices: 14990489--14990560 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
14990479 ATATTCAATA
14990489 CATGTTATTTTAATTGTGTTACTACCTC
1 CATGTTATTTTAATTGTGTTACTACCTC
**
14990517 CATGTTATTTTAATCATGTTACTACCTC
1 CATGTTATTTTAATTGTGTTACTACCTC
14990545 CATGTTA--TTAATTGTG
1 CATGTTATTTTAATTGTG
14990561 CATTTCATCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 7 0.17
28 33 0.82
ACGTcount: A:0.24, C:0.17, G:0.11, T:0.49
Consensus pattern (28 bp):
CATGTTATTTTAATTGTGTTACTACCTC
Found at i:14992149 original size:17 final size:17
Alignment explanation
Indices: 14992127--14992161 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14992117 CCAACAATCA
14992127 AAGAAAAATG-AAAAGAG
1 AAGAAAAA-GAAAAAGAG
14992144 AAGAAAAAGAAAAAGAG
1 AAGAAAAAGAAAAAGAG
14992161 A
1 A
14992162 TGATCAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 16 0.94
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (17 bp):
AAGAAAAAGAAAAAGAG
Found at i:14993209 original size:20 final size:20
Alignment explanation
Indices: 14993186--14993224 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14993176 TATCGATACT
*
14993186 TTTCTTAAAGTATCAATATA
1 TTTCCTAAAGTATCAATATA
*
14993206 TTTCCTAAGGTATCAATAT
1 TTTCCTAAAGTATCAATAT
14993225 TTCTACTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (20 bp):
TTTCCTAAAGTATCAATATA
Found at i:14995413 original size:10 final size:11
Alignment explanation
Indices: 14995374--14995415 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
14995364 TATTTACGAA
*
14995374 GTTAATTGAGTG
1 GTTAATT-AGAG
14995386 GTTAATTAGAG
1 GTTAATTAGAG
*
14995397 TTTAATTA-AG
1 GTTAATTAGAG
14995407 GTTAATTAG
1 GTTAATTAG
14995416 GTATAAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (11 bp):
GTTAATTAGAG
Found at i:14995885 original size:24 final size:23
Alignment explanation
Indices: 14995858--14995910 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
14995848 TATCTTTTTG
14995858 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
*
14995882 TTATT--ATAGTTTTATATTAAA
1 TTATTAAATAGTATTATATTAAA
14995903 TTATTAAA
1 TTATTAAA
14995911 ATGAAGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
23 1 0.04
24 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:14998686 original size:76 final size:76
Alignment explanation
Indices: 14998560--14998708 Score: 271
Period size: 76 Copynumber: 2.0 Consensus size: 76
14998550 AACTCATAAG
* *
14998560 GTGATGTTGGGATTACCAGTCCAGGCTAAATCCCTTATAGCAACAAACACCCTTAATGAGATCGG
1 GTGATGTCGAGATTACCAGTCCAGGCTAAATCCCTTATAGCAACAAACACCCTTAATGAGATCGG
14998625 ATCTGAATGAC
66 ATCTGAATGAC
*
14998636 GTGATGTCGAGATTACCAGTCCAGGCTAAATCCCTTATAGCAACAAACACCCTTAATGAGCTCGG
1 GTGATGTCGAGATTACCAGTCCAGGCTAAATCCCTTATAGCAACAAACACCCTTAATGAGATCGG
14998701 ATCTGAAT
66 ATCTGAAT
14998709 TACCAATCCA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (76 bp):
GTGATGTCGAGATTACCAGTCCAGGCTAAATCCCTTATAGCAACAAACACCCTTAATGAGATCGG
ATCTGAATGAC
Found at i:15010834 original size:25 final size:25
Alignment explanation
Indices: 15010806--15010854 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
15010796 AATGAGTTTG
* *
15010806 CCACAAGGGTTTTCTAGAGAATTCA
1 CCACAAAGGCTTTCTAGAGAATTCA
*
15010831 CCACAAAGGCTTTCTAGATAATTC
1 CCACAAAGGCTTTCTAGAGAATTC
15010855 GTGTTTACTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (25 bp):
CCACAAAGGCTTTCTAGAGAATTCA
Found at i:15011620 original size:21 final size:20
Alignment explanation
Indices: 15011578--15011621 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
15011568 GAAGAAGAAG
* * *
15011578 AAAAAGAGAACGTTGACGTT
1 AAAAAGAGAACCTGGACATT
15011598 AAAAAGAAGAACCTGGACATT
1 AAAAAG-AGAACCTGGACATT
15011619 AAA
1 AAA
15011622 TAGATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.52, C:0.11, G:0.20, T:0.16
Consensus pattern (20 bp):
AAAAAGAGAACCTGGACATT
Found at i:15017047 original size:12 final size:12
Alignment explanation
Indices: 15017025--15017124 Score: 50
Period size: 12 Copynumber: 8.4 Consensus size: 12
15017015 ATTAATTATT
15017025 AACATTGTTCATG
1 AACA-TGTTCATG
15017038 AACATGTTCAAT-
1 AACATGTTC-ATG
* *
15017050 TATATGTTCATG
1 AACATGTTCATG
*
15017062 AACATGTT-AGTT
1 AACATGTTCA-TG
* *
15017074 TA-ATGTTCGTG
1 AACATGTTCATG
15017085 AACATGTTCGAT-
1 AACATGTTC-ATG
* *
15017097 TA-A-GTTAAATG
1 AACATGTT-CATG
15017108 AACATGTTCATG
1 AACATGTTCATG
15017120 AACAT
1 AACAT
15017125 TAAACAAACG
Statistics
Matches: 63, Mismatches: 14, Indels: 21
0.64 0.14 0.21
Matches are distributed among these distances:
10 5 0.08
11 12 0.19
12 36 0.57
13 10 0.16
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (12 bp):
AACATGTTCATG
Found at i:15017086 original size:23 final size:24
Alignment explanation
Indices: 15017030--15017117 Score: 94
Period size: 23 Copynumber: 3.8 Consensus size: 24
15017020 TTATTAACAT
15017030 TGTTCATGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCAATTATA
*
15017054 TGTTCATGAACATGTT-AGTT-TAA
1 TGTTCATGAACATGTTCAATTAT-A
* *
15017077 TGTTCGTGAACATGTTCGATTA-A
1 TGTTCATGAACATGTTCAATTATA
*
15017100 -GTTAAATGAACATGTTCA
1 TGTT-CATGAACATGTTCA
15017118 TGAACATTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
22 4 0.08
23 31 0.58
24 18 0.34
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (24 bp):
TGTTCATGAACATGTTCAATTATA
Found at i:15017127 original size:23 final size:23
Alignment explanation
Indices: 15017083--15017128 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
15017073 TTAATGTTCG
* *
15017083 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
15017106 TGAACATGTTC-ATGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
15017129 CAAACGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:15018937 original size:13 final size:13
Alignment explanation
Indices: 15018919--15018943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15018909 TTTTAAAAAG
15018919 CAACATGTAAATA
1 CAACATGTAAATA
15018932 CAACATGTAAAT
1 CAACATGTAAAT
15018944 GCAATTTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (13 bp):
CAACATGTAAATA
Found at i:15020932 original size:22 final size:22
Alignment explanation
Indices: 15020890--15020932 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
15020880 TTTATGTTCC
*
15020890 TTTATTTATCTTTGATTTTGTG
1 TTTATTTATCTTTGATATTGTG
*
15020912 TTTATCTTATTTTTG-TATTGT
1 TTTAT-TTATCTTTGATATTGT
15020933 ACTAAACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.14, C:0.05, G:0.12, T:0.70
Consensus pattern (22 bp):
TTTATTTATCTTTGATATTGTG
Found at i:15022002 original size:26 final size:26
Alignment explanation
Indices: 15021966--15022019 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
15021956 TTCTATATGT
15021966 AATTGCAGGATGATATAATGACATGG
1 AATTGCAGGATGATATAATGACATGG
15021992 AATTGCAGGATGATATAATGACATGG
1 AATTGCAGGATGATATAATGACATGG
15022018 AA
1 AA
15022020 GTATGTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.26, T:0.26
Consensus pattern (26 bp):
AATTGCAGGATGATATAATGACATGG
Found at i:15022523 original size:10 final size:10
Alignment explanation
Indices: 15022501--15022532 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
15022491 TAAAAATAAA
15022501 ATATTTTAA-
1 ATATTTTAAT
15022510 ATATTTTAAT
1 ATATTTTAAT
15022520 ATATTTTAAT
1 ATATTTTAAT
15022530 ATA
1 ATA
15022533 AAATATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATATTTTAAT
Found at i:15022531 original size:8 final size:9
Alignment explanation
Indices: 15022499--15022553 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
15022489 TATAAAAATA
15022499 AAATATTTT
1 AAATATTTT
15022508 AAATATTTT
1 AAATATTTT
15022517 AATATATTTT
1 AA-ATATTTT
*
15022527 -AATA--TA
1 AAATATTTT
15022533 AAATATTATTT
1 AAATA-T-TTT
15022544 AAATATTTT
1 AAATATTTT
15022553 A
1 A
15022554 TATTAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
6 1 0.03
7 4 0.11
8 3 0.08
9 16 0.42
10 8 0.21
11 6 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
AAATATTTT
Found at i:15022551 original size:36 final size:36
Alignment explanation
Indices: 15022453--15022553 Score: 109
Period size: 36 Copynumber: 2.9 Consensus size: 36
15022443 AAAAAAATTC
** *
15022453 TTTTAATATAAAATATTATTTCCACATTTTAGAAAA
1 TTTTAATATAAAATATTATTTAAATATTTTAGAAAA
* * * *
15022489 TATAAAAATAAAATA-T-TTTAAATATTTTA-ATATA
1 TTTTAATATAAAATATTATTTAAATATTTTAGA-AAA
15022523 TTTTAATATAAAATATTATTTAAATATTTTA
1 TTTTAATATAAAATATTATTTAAATATTTTA
15022554 TATTAAATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
33 1 0.02
34 24 0.46
35 2 0.04
36 25 0.48
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.48
Consensus pattern (36 bp):
TTTTAATATAAAATATTATTTAAATATTTTAGAAAA
Found at i:15022560 original size:26 final size:27
Alignment explanation
Indices: 15022514--15022568 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
15022504 TTTTAAATAT
15022514 TTTAATATATTTTAATATAAAATATTA
1 TTTAATATATTTTAATATAAAATATTA
*
15022541 TTTAA-ATATTTT-ATATTAAATTATTA
1 TTTAATATATTTTAATA-TAAAATATTA
15022567 TT
1 TT
15022569 CTTTTGATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 3 0.12
26 18 0.69
27 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTAATATATTTTAATATAAAATATTA
Found at i:15023096 original size:18 final size:18
Alignment explanation
Indices: 15023073--15023114 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
15023063 TAAATTCTAT
15023073 TGAGTGATTTGTGAGATA
1 TGAGTGATTTGTGAGATA
15023091 TGAGTGATTTGTGAGATA
1 TGAGTGATTTGTGAGATA
15023109 TGAGTG
1 TGAGTG
15023115 TTTCGAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (18 bp):
TGAGTGATTTGTGAGATA
Found at i:15024369 original size:11 final size:12
Alignment explanation
Indices: 15024342--15024382 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
15024332 GATTAAAATT
* *
15024342 GAAATTAAAGAA
1 GAAATTGAATAA
15024354 GAAATTGAAT-A
1 GAAATTGAATAA
15024365 GAAATTGAATAA
1 GAAATTGAATAA
15024377 GAAATT
1 GAAATT
15024383 TAAATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 11 0.42
12 15 0.58
ACGTcount: A:0.59, C:0.00, G:0.17, T:0.24
Consensus pattern (12 bp):
GAAATTGAATAA
Found at i:15031028 original size:19 final size:21
Alignment explanation
Indices: 15031004--15031048 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
15030994 CGTGACAGTA
15031004 CATGT-CCT-GACCACACGGG
1 CATGTCCCTAGACCACACGGG
15031023 CATGTCCCTAGACCACACGGG
1 CATGTCCCTAGACCACACGGG
15031044 CATGT
1 CATGT
15031049 GAGCCCTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.21
20 3 0.12
21 16 0.67
ACGTcount: A:0.22, C:0.36, G:0.24, T:0.18
Consensus pattern (21 bp):
CATGTCCCTAGACCACACGGG
Found at i:15037322 original size:35 final size:35
Alignment explanation
Indices: 15037276--15037343 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
15037266 GGAATCGGAG
*
15037276 GAGGTGGGGGAGGTGGAGTGTTCAGATTCGCACGA
1 GAGGTAGGGGAGGTGGAGTGTTCAGATTCGCACGA
*
15037311 GAGGTAGGGGAGGTGGAGTGTTCGGATTCGCAC
1 GAGGTAGGGGAGGTGGAGTGTTCAGATTCGCAC
15037344 TAACGAACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.19, C:0.12, G:0.49, T:0.21
Consensus pattern (35 bp):
GAGGTAGGGGAGGTGGAGTGTTCAGATTCGCACGA
Found at i:15039251 original size:50 final size:50
Alignment explanation
Indices: 15039197--15039383 Score: 179
Period size: 50 Copynumber: 3.8 Consensus size: 50
15039187 GTATGTGGAG
*
15039197 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTCCATCTGT
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCGTCCATCTGT
* * * *
15039247 GCTGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-T-CA--T-A
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCGTCCATCTGT
* * * * *
15039293 GCCGATGCCATGTCCCAAACATTGTCTTACATTGGCTCTCATCTATCTGT
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCGTCCATCTGT
* * * * *
15039343 -ATCGATGTCATATCTCAAACATGGTCTTACACTAGCTCTCG
1 GCT-GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCG
15039384 AATAACTCCA
Statistics
Matches: 110, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
45 2 0.02
46 33 0.30
47 2 0.02
49 3 0.03
50 68 0.62
51 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (50 bp):
GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCGTCCATCTGT
Found at i:15039341 original size:96 final size:96
Alignment explanation
Indices: 15039200--15039375 Score: 246
Period size: 96 Copynumber: 1.8 Consensus size: 96
15039190 TGTGGAGGCT
* * * *
15039200 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTCCATCTGT-GCTGATGCCATGTCCCA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCCATCTGTATC-GATGCCATATCCCA
*
15039264 GACATGGTCTTACACTGACACATCTCATAGCC
65 AACATGGTCTTACACTGACACATCTCATAGCC
* * * * *
15039296 GATGCCATGTCCCAAACATTGTCTTACATTGGCTCTCATCTATCTGTATCGATGTCATATCTCAA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCCATCTGTATCGATGCCATATCCCAA
15039361 ACATGGTCTTACACT
66 ACATGGTCTTACACT
15039376 AGCTCTCGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 68 0.99
97 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.31
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCCATCTGTATCGATGCCATATCCCAA
ACATGGTCTTACACTGACACATCTCATAGCC
Found at i:15039771 original size:29 final size:29
Alignment explanation
Indices: 15039709--15039771 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
15039699 TCACATTTTT
**
15039709 GACAAAATGACCATTTTTCCCTAGACTTTC
1 GACAAAATGACCATTTACCCCTAGAC-TTC
*
15039739 -ACAAAATGACCATTTCACCCCTAGGC-TC
1 GACAAAATGACCATTT-ACCCCTAGACTTC
15039767 GACAA
1 GACAA
15039772 TCGATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 2 0.07
29 19 0.68
30 7 0.25
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.25
Consensus pattern (29 bp):
GACAAAATGACCATTTACCCCTAGACTTC
Found at i:15044892 original size:40 final size:39
Alignment explanation
Indices: 15044855--15045115 Score: 292
Period size: 40 Copynumber: 6.5 Consensus size: 39
15044845 GCTACTCGTT
*
15044855 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
15044895 CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
*
15044935 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* **
15044975 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCATA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
15045015 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
15045054 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
15045095 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTC-GGACTTAGCC
15045116 TGGACATCAT
Statistics
Matches: 190, Mismatches: 26, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
39 36 0.19
40 141 0.74
41 13 0.07
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:15045067 original size:79 final size:80
Alignment explanation
Indices: 15044855--15045115 Score: 341
Period size: 80 Copynumber: 3.3 Consensus size: 80
15044845 GCTACTCGTT
* * * **
15044855 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCACAAATACCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
*
15044918 GGATTTAGTAACTTGCA
64 GGATTTAGTAACTTACA
*
15044935 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
* *
15045000 ATTTAGTAACTCATA
66 ATTTAGTAACTTACA
* *
15045015 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
* * *
15045079 ATATGGTCACTTAGCA
66 ATTTAGTAACTTA-CA
15045095 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
15045116 TGGACATCAT
Statistics
Matches: 160, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
79 68 0.43
80 90 0.56
81 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
ATTTAGTAACTTACA
Found at i:15052946 original size:40 final size:40
Alignment explanation
Indices: 15052902--15053131 Score: 417
Period size: 40 Copynumber: 5.8 Consensus size: 40
15052892 GCTACTTGTT
* *
15052902 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
15052942 CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
15052982 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
15053022 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
15053062 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
15053102 CAAATGCCTTCGGGACTTAACCCGGATTTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTA
15053132 TGCCTTCGGA
Statistics
Matches: 185, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
40 183 0.99
41 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:15057275 original size:50 final size:50
Alignment explanation
Indices: 15057160--15057400 Score: 286
Period size: 50 Copynumber: 4.7 Consensus size: 50
15057150 GATCATAACA
* * ** *
15057160 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATATTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* *
15057211 TGCCCATGCCATGTCCCAGACATGGTCTTACA-GTGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATCTCGG
* * *
15057261 TGCCAACGCCATGTCCCAAACATGGTTTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
15057311 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTTAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-CGG
* *
15057366 ATGCCAATGCCATGTCCCAGACATGGTATTACATG
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATG
15057401 AGATCTTTTT
Statistics
Matches: 165, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
50 95 0.58
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 32 0.19
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:15057780 original size:30 final size:30
Alignment explanation
Indices: 15057745--15057802 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15057735 CCTCGACTCT
15057745 AACTTTGT-CAAAATTACAATTTTACCCCTA
1 AACTTT-TACAAAATTACAATTTTACCCCTA
* * *
15057775 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTACCCC
15057803 AAGGCTTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTACCCCTA
Found at i:15065002 original size:40 final size:39
Alignment explanation
Indices: 15064904--15065126 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
15064894 TCCTCGTTCA
* * *
15064904 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACT-AGCAC
* *
15064943 AATGCCTTCGGGACATAACCCGGATTTAATAACTAGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCAC
* *
15064982 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCAC
* * * *
15065022 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTAGCAC
** * * *
15065062 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TAGCAC
* *
15065103 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
15065127 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 39 0.25
40 104 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCAC
Found at i:15065086 original size:80 final size:79
Alignment explanation
Indices: 15064902--15065126 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
15064892 GCTCCTCGTT
* * * * *
15064902 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
15064966 ATTTAATAACTAGCA
65 ATTTAATAACTAGCA
* * *
15064981 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* * *
15065046 AATTT-GTATCTCGCA
64 AATTTAATAACTAGCA
* * * * *
15065061 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
15065125 GA
63 GA
15065127 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 68 0.56
81 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTAGCA
Found at i:15065135 original size:41 final size:41
Alignment explanation
Indices: 15065058--15065135 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
15065048 TTTGTATCTC
* * *
15065058 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
15065099 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
15065136 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:15066501 original size:30 final size:30
Alignment explanation
Indices: 15066465--15066524 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
15066455 ATAGAATACT
*
15066465 TTTGCATTGCATCGCATGACCGTTGTGGTC
1 TTTGCATTGCATCGCATGACCATTGTGGTC
*
15066495 TTTGCATTGCATCGCATGACTATTGTGGTC
1 TTTGCATTGCATCGCATGACCATTGTGGTC
15066525 ACACCTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (30 bp):
TTTGCATTGCATCGCATGACCATTGTGGTC
Found at i:15069216 original size:23 final size:23
Alignment explanation
Indices: 15069185--15069236 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
15069175 AAAAACCAAA
15069185 AAAAC-ACAAAAAAGAAGAAGAAAAC
1 AAAACAAC-AAAAA-AAGAA-AAAAC
*
15069210 AAAACAACAAAAAAATAAAAAAC
1 AAAACAACAAAAAAAGAAAAAAC
15069233 AAAA
1 AAAA
15069237 AAATGCCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 9 0.36
24 4 0.16
25 10 0.40
26 2 0.08
ACGTcount: A:0.81, C:0.12, G:0.06, T:0.02
Consensus pattern (23 bp):
AAAACAACAAAAAAAGAAAAAAC
Found at i:15069233 original size:15 final size:16
Alignment explanation
Indices: 15069205--15069240 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
15069195 AAAGAAGAAG
*
15069205 AAAACAAAACAACAAA
1 AAAATAAAACAACAAA
15069221 AAAATAAAA-AACAAA
1 AAAATAAAACAACAAA
15069236 AAAAT
1 AAAAT
15069241 GCCAAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.83, C:0.11, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAATAAAACAACAAA
Found at i:15069236 original size:28 final size:28
Alignment explanation
Indices: 15069166--15069236 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
15069156 TATCAAATTC
* *
15069166 AAAATTAAAAAAAACCAAAAAAACACAA
1 AAAATAAAAAAAAAACAAAAAAACACAA
* * * *
15069194 AAAAGAAGAAGAAAACAAAACAACA-AA
1 AAAATAAAAAAAAAACAAAAAAACACAA
15069221 AAAATAAAAAACAAAA
1 AAAATAAAAAA-AAAA
15069237 AAATGCCAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
27 10 0.30
28 23 0.70
ACGTcount: A:0.80, C:0.11, G:0.04, T:0.04
Consensus pattern (28 bp):
AAAATAAAAAAAAAACAAAAAAACACAA
Found at i:15069239 original size:8 final size:8
Alignment explanation
Indices: 15069173--15069239 Score: 55
Period size: 8 Copynumber: 7.9 Consensus size: 8
15069163 TTCAAAATTA
15069173 AAAAAAACC
1 AAAAAAA-C
15069182 AAAAAAAC
1 AAAAAAAC
*
15069190 ACAAAAAAGA
1 A-AAAAAA-C
15069200 AGAAGAAAAC
1 A-AA-AAAAC
*
15069210 AAAACAAC
1 AAAAAAAC
15069218 AAAAAAA-
1 AAAAAAAC
*
15069225 TAAAAAAC
1 AAAAAAAC
15069233 AAAAAAA
1 AAAAAAA
15069240 TGCCAAAAAG
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
7 6 0.13
8 18 0.38
9 15 0.32
10 4 0.09
11 4 0.09
ACGTcount: A:0.82, C:0.12, G:0.04, T:0.01
Consensus pattern (8 bp):
AAAAAAAC
Found at i:15069248 original size:18 final size:16
Alignment explanation
Indices: 15069174--15069240 Score: 55
Period size: 18 Copynumber: 3.9 Consensus size: 16
15069164 TCAAAATTAA
*
15069174 AAAAAACCAAAAAAACAC
1 AAAAAA-CAAAAAAA-TC
* *
15069192 AAAAAAGAAGAAGAAAAC
1 AAAAAACAA-AA-AAATC
15069210 AAAACAACAAAAAAAT-
1 AAAA-AACAAAAAAATC
15069226 AAAAAACAAAAAAAT
1 AAAAAACAAAAAAAT
15069241 GCCAAAAAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
15 11 0.26
16 4 0.09
17 5 0.12
18 16 0.37
19 7 0.16
ACGTcount: A:0.81, C:0.12, G:0.04, T:0.03
Consensus pattern (16 bp):
AAAAAACAAAAAAATC
Found at i:15071031 original size:65 final size:65
Alignment explanation
Indices: 15070923--15071048 Score: 216
Period size: 65 Copynumber: 1.9 Consensus size: 65
15070913 CATATAATAA
*
15070923 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAACATCCTAATTATTTGACATAAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAAGCAT
* * *
15070988 CACATTTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAA
15071049 CATAGATACA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (65 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAAGCAT
Found at i:15071336 original size:68 final size:68
Alignment explanation
Indices: 15071251--15071948 Score: 1116
Period size: 68 Copynumber: 10.4 Consensus size: 68
15071241 CTGAATTACA
* * * * *
15071251 AATCTCTTCTTCCTGAAATGGCGTTGGAGCGACTAAAAGCCACAGTAGATC-TCATTGAAGTTTC
1 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTC-TTGAAGTTTC
15071315 AGTG
65 AGTG
15071319 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
1 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
15071384 GTG
66 GTG
15071387 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
1 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
15071452 GTG
66 GTG
*
15071455 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
1 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
15071520 GTG
66 GTG
15071523 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
1 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
15071588 GTG
66 GTG
* *
15071591 AATCTCTTCTTCTTGAAATGGCGTT-----GG-----AG--ACAGCAGATCTTCTTGAAGTTTCA
1 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
15071644 GTG
66 GTG
15071647 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
1 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
15071712 GTG
66 GTG
15071715 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
1 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
15071780 GTG
66 GTG
*
15071783 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
1 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
15071848 GTG
66 GTG
*** * ** * *
15071851 AATCTCTTCTTCTTGAAATGGGGTTAGAGTAGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTTA
1 AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
15071916 GTG
66 GTG
* * *
15071919 AATCTCTTCTTCATGAAATGGCGTTGGAGC
1 AATCTCTTCTTCTTGAAATGTCATTGGAGC
15071949 TCAGTTTCAG
Statistics
Matches: 594, Mismatches: 23, Indels: 26
0.92 0.04 0.04
Matches are distributed among these distances:
56 50 0.08
58 2 0.00
61 2 0.00
63 2 0.00
66 2 0.00
68 534 0.90
69 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (68 bp):
AATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCA
GTG
Found at i:15071821 original size:260 final size:260
Alignment explanation
Indices: 15071360--15071871 Score: 1006
Period size: 260 Copynumber: 2.0 Consensus size: 260
15071350 GCTAAAAGCC
15071360 ACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAA
1 ACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAA
15071425 GCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTA
66 GCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTA
15071490 AAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGG
131 AAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGG
*
15071555 CTAAAAGCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGGCGTTGGAG
196 CTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGGCGTTGGAG
15071620 ACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAA
1 ACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAA
15071685 GCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTA
66 GCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTA
*
15071750 AAAGCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGG
131 AAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGG
15071815 CTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGG
196 CTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGG
15071872 GGTTAGAGTA
Statistics
Matches: 250, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
260 250 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (260 bp):
ACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAA
GCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTA
AAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGG
CTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGGCGTTGGAG
Found at i:15071902 original size:328 final size:323
Alignment explanation
Indices: 15071292--15072231 Score: 1466
Period size: 328 Copynumber: 2.9 Consensus size: 323
15071282 ACTAAAAGCC
15071292 ACAGTAGATCTCATTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAA
1 ACAG-AGATCTC-TTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAA
15071357 GCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTA
64 GCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTA
15071422 AAAGCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGG
129 AAAGCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGG
*
15071487 CTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAG
194 CTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGGCATTGGAG
* *
15071552 CGGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGGCGTTG
259 CGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTT-
15071617 GAG
323 --G
15071620 ACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAA
1 ACAG-AGATC-TCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAA
15071685 GCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTA
64 GCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTA
15071750 AAAGCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGG
129 AAAGCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGG
** *
15071815 CTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGGGGTTAGAG
194 CTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGGCATTGGAG
** *
15071880 TAGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTTAGTGAATCTCTTCTTCATGAAATGGCGTTG
259 CGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTG
* * * *
15071945 ---GAG--CTC----AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGTGGCTAAAAGC
1 ACAGAGATCTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGC
* * * * * * *
15072001 CACAGTACATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGTGGCTAAA
66 CACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAA
* * * * * * *
15072066 AGCCACAGTACATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGCAGCT
131 AGCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCT
*
15072131 AAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTCTTCTTCCTTGAAATGGCATTGGAGC
196 AAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTT-CTTGAAATGGCATTGGAGC
* * *
15072196 GGCTAAAAGCCATAGTAGATCTCCTTAAAGTTTCAG
260 GGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
15072232 CGGAGTAGAT
Statistics
Matches: 572, Mismatches: 38, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
314 206 0.36
315 46 0.08
318 2 0.00
319 1 0.00
321 2 0.00
322 1 0.00
325 1 0.00
328 311 0.54
329 2 0.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (323 bp):
ACAGAGATCTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGC
CACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAA
AGCCACAGCAGATCTTCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCT
AAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGGCATTGGAGCG
GCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTG
Found at i:15071968 original size:42 final size:42
Alignment explanation
Indices: 15071909--15071989 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
15071899 ATCTCCTTGA
*
15071909 AGTTTTAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGCTC
1 AGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGCTC
*
15071951 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAG
1 AGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTGGAG
15071990 TGGCTAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (42 bp):
AGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGCTC
Found at i:15071996 original size:110 final size:110
Alignment explanation
Indices: 15071841--15072057 Score: 362
Period size: 110 Copynumber: 2.0 Consensus size: 110
15071831 ATCTCCTTGA
* * *
15071841 AGTTTCAGTGAATCTCTTCTTCTTGAAATGGGGTTAGAGTAGCTAAAAGCCACAGCAGATCTCCT
1 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTAGAGTAGCTAAAAGCCACAGCACATCTCCT
*
15071906 TGAAGTTTTAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGCTC
66 TGAAGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGCTC
* * *
15071951 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGTGGCTAAAAGCCACAGTACATCTCCT
1 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTAGAGTAGCTAAAAGCCACAGCACATCTCCT
*
15072016 TGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAG
66 TGAAGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTGGAG
15072058 TGGCTAAAAG
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 99 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (110 bp):
AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTAGAGTAGCTAAAAGCCACAGCACATCTCCT
TGAAGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGCTC
Found at i:15072060 original size:68 final size:68
Alignment explanation
Indices: 15071951--15072231 Score: 463
Period size: 68 Copynumber: 4.1 Consensus size: 68
15071941 GTTGGAGCTC
*
15071951 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGTGGCTAAAAGCCACAGTACATCTCCT
1 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTACATCTCCT
15072016 TGA
66 TGA
*
15072019 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGTGGCTAAAAGCCACAGTACATCTCCT
1 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTACATCTCCT
15072084 TGA
66 TGA
* * *
15072087 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGCAGCTAAAAGCCACAGCAGATCTCCT
1 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTACATCTCCT
15072152 TGA
66 TGA
* * * *
15072155 AGTTTCAGTGGATCTCTTCTTCCTTGAAATGGCATTGGAGCGGCTAAAAGCCATAGTAGATCTCC
1 AGTTTCAGTGAATCTCTTCTTCC-TGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTACATCTCC
*
15072220 TTAA
65 TTGA
15072224 AGTTTCAG
1 AGTTTCAG
15072232 CGGAGTAGAT
Statistics
Matches: 202, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
68 154 0.76
69 48 0.24
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (68 bp):
AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTACATCTCCT
TGA
Found at i:15072072 original size:178 final size:178
Alignment explanation
Indices: 15071773--15072126 Score: 582
Period size: 178 Copynumber: 2.0 Consensus size: 178
15071763 ATCTTCTTGA
* * *
15071773 AGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCT
1 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCACATCTCCT
* * *
15071838 TGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGGGGTTAGAGTAGCTAAAAGCCACAGCAGATCT
66 TGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTAGAGTAGCTAAAAGCCACAGCACATCT
*
15071903 CCTTGAAGTTTTAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGCTC
131 CCTTGAAGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGCTC
* * *
15071951 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGTGGCTAAAAGCCACAGTACATCTCCT
1 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCACATCTCCT
* * *
15072016 TGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGTGGCTAAAAGCCACAGTACATCT
66 TGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTAGAGTAGCTAAAAGCCACAGCACATCT
*
15072081 CCTTGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGC
131 CCTTGAAGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGC
15072127 AGCTAAAAGC
Statistics
Matches: 162, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
178 162 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (178 bp):
AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCACATCTCCT
TGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTAGAGTAGCTAAAAGCCACAGCACATCT
CCTTGAAGTTTCAGTGAATCTCTTCTTCATGAAATGGCGTTGGAGCTC
Found at i:15072139 original size:246 final size:247
Alignment explanation
Indices: 15071705--15072195 Score: 786
Period size: 246 Copynumber: 2.0 Consensus size: 247
15071695 ATCTTCTTGA
* * * *
15071705 AGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCTTCT
1 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCACATCTCCT
* * *
15071770 TGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGTCATTGGAGCGGCTAAAAGCCACAGCAGATCT
66 TGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCACATCT
* * *
15071835 CCTTGAAGTTTCAGTGAATCTCTTCTTCTTGAAATGGGGTTAGAGTAGCTAAAAGCCACAGCAGA
131 CCTTGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTAGAGCAGCTAAAAGCCACAGCAGA
* *
15071900 TCTCCTTGAAGTTTTAGTGAATCTCTTCTT-CATGAAATGGCGTTGGAGCTC
196 TCTCCTTGAAGTTTCAGTGAATCTCTTCTTCCATGAAATGGCATTGGAGCTC
* * *
15071951 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGTGGCTAAAAGCCACAGTACATCTCCT
1 AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCACATCTCCT
* * *
15072016 TGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGTGGCTAAAAGCCACAGTACATCT
66 TGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCACATCT
*
15072081 CCTTGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTGGAGCAGCTAAAAGCCACAGCAGA
131 CCTTGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTAGAGCAGCTAAAAGCCACAGCAGA
* *
15072146 TCTCCTTGAAGTTTCAGTGGATCTCTTCTTCCTTGAAATGGCATTGGAGC
196 TCTCCTTGAAGTTTCAGTGAATCTCTTCTTCCATGAAATGGCATTGGAGC
15072196 GGCTAAAAGC
Statistics
Matches: 223, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
246 206 0.92
247 17 0.08
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (247 bp):
AGTTTCAGTGAATCTCTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCACATCTCCT
TGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCACATCT
CCTTGAAGTTTCAGTGAATCTCTTCTTCCTGAAATGGCGTTAGAGCAGCTAAAAGCCACAGCAGA
TCTCCTTGAAGTTTCAGTGAATCTCTTCTTCCATGAAATGGCATTGGAGCTC
Found at i:15079836 original size:22 final size:22
Alignment explanation
Indices: 15079806--15079848 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
15079796 TAATTTTAAG
*
15079806 GAATGGAAAAGGCACTTACTTA
1 GAATAGAAAAGGCACTTACTTA
15079828 GAATAGAAAAGGCACTTACTT
1 GAATAGAAAAGGCACTTACTT
15079849 TTAGTGCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (22 bp):
GAATAGAAAAGGCACTTACTTA
Found at i:15082176 original size:18 final size:18
Alignment explanation
Indices: 15082118--15082232 Score: 115
Period size: 18 Copynumber: 6.3 Consensus size: 18
15082108 AGCAATTAAT
*
15082118 CAATCAGTAATATTCATTAA
1 CAATCAGT--TATTCAGTAA
* *
15082138 CAATCAGTCAATCAG-AA
1 CAATCAGTTATTCAGTAA
* *
15082155 CAATTATTTATTCAGTAA
1 CAATCAGTTATTCAGTAA
*
15082173 CAATCAGTTATTCAGTAT
1 CAATCAGTTATTCAGTAA
* *
15082191 CAATCAATTATTCAATAA
1 CAATCAGTTATTCAGTAA
* *
15082209 TAATCAGTTATTCAGTAT
1 CAATCAGTTATTCAGTAA
15082227 CAATCA
1 CAATCA
15082233 ACTGATCGGT
Statistics
Matches: 76, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
17 13 0.17
18 55 0.72
20 8 0.11
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (18 bp):
CAATCAGTTATTCAGTAA
Found at i:15082214 original size:36 final size:36
Alignment explanation
Indices: 15082128--15082233 Score: 133
Period size: 36 Copynumber: 3.0 Consensus size: 36
15082118 CAATCAGTAA
* * * * * *
15082128 TATTCATTAACAATCAGTCAATCAG-AACAATTATT
1 TATTCAATAACAATCAGTTATTCAGTATCAATCAAT
*
15082163 TATTCAGTAACAATCAGTTATTCAGTATCAATCAAT
1 TATTCAATAACAATCAGTTATTCAGTATCAATCAAT
*
15082199 TATTCAATAATAATCAGTTATTCAGTATCAATCAA
1 TATTCAATAACAATCAGTTATTCAGTATCAATCAA
15082234 CTGATCGGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
35 22 0.35
36 40 0.65
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.36
Consensus pattern (36 bp):
TATTCAATAACAATCAGTTATTCAGTATCAATCAAT
Found at i:15082307 original size:19 final size:19
Alignment explanation
Indices: 15082258--15082307 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
15082248 AATAACAGTC
15082258 AATTATTCAGTAAAAATCA
1 AATTATTCAGTAAAAATCA
* * * *
15082277 GA-TATACAGTAACAATTA
1 AATTATTCAGTAAAAATCA
15082295 AATTATTCAGTAA
1 AATTATTCAGTAA
15082308 TAGTCGATCT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (19 bp):
AATTATTCAGTAAAAATCA
Found at i:15082545 original size:53 final size:53
Alignment explanation
Indices: 15082431--15082546 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 53
15082421 CCGGAACAGT
* **
15082431 AACAGTAACAGTAGCAGTACAGTACACAGAGTACCTCATCAGAACAAATCCGA
1 AACAGTAACATTAATAGTACAGTACACAGAGTACCTCATCAGAACAAATCCGA
* * * *
15082484 AACGGTAACATTAATAGTACGGTACACAGAGTACCTCATCGGAACAAATCTGA
1 AACAGTAACATTAATAGTACAGTACACAGAGTACCTCATCAGAACAAATCCGA
*
15082537 AATAGTAACA
1 AACAGTAACA
15082547 GTAACAATAT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (53 bp):
AACAGTAACATTAATAGTACAGTACACAGAGTACCTCATCAGAACAAATCCGA
Found at i:15084320 original size:12 final size:12
Alignment explanation
Indices: 15084303--15084327 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15084293 GCCGACTACT
15084303 GTTACTGTTACC
1 GTTACTGTTACC
15084315 GTTACTGTTACC
1 GTTACTGTTACC
15084327 G
1 G
15084328 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:15084434 original size:53 final size:53
Alignment explanation
Indices: 15084362--15084489 Score: 186
Period size: 53 Copynumber: 2.4 Consensus size: 53
15084352 TTATTATCAT
*
15084362 TACCGTTACTGTTACTGTTACTATT-TCGGGTTTGTTCTGATGAGGTACTCTATG
1 TACCG-TACTGTTACTGTTACTATTCT-GGATTTGTTCTGATGAGGTACTCTATG
* * *
15084416 TACCGTATTGTTACTGTTACCATTCTGGATTTGTTCTGATGAGGTACTCTGTG
1 TACCGTACTGTTACTGTTACTATTCTGGATTTGTTCTGATGAGGTACTCTATG
*
15084469 TACCGTACTGCTACTGTTACT
1 TACCGTACTGTTACTGTTACT
15084490 GTTATTGTTC
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
53 60 0.91
54 6 0.09
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (53 bp):
TACCGTACTGTTACTGTTACTATTCTGGATTTGTTCTGATGAGGTACTCTATG
Found at i:15084667 original size:18 final size:18
Alignment explanation
Indices: 15084616--15084795 Score: 83
Period size: 18 Copynumber: 9.6 Consensus size: 18
15084606 AGATCGACTA
*
15084616 TTACTGAATAATTTAATTG
1 TTACTGAATAA-TTGATTG
* * *
15084635 TTACTGTATATTTGATTT
1 TTACTGAATAATTGATTG
*
15084653 TTACTGAATAATTGACTG
1 TTACTGAATAATTGATTG
*
15084671 TTATTGGATAACCAATCAATTGATTG
1 TTACT-G------AAT-AATTGATTG
* * **
15084697 ATACTGAATAACTGATCA
1 TTACTGAATAATTGATTG
*
15084715 TTATTGAATAATTGATTG
1 TTACTGAATAATTGATTG
* * * *
15084733 TTACCGAGTAACTGACTG
1 TTACTGAATAATTGATTG
* *
15084751 TTACTGAATAAATAATTG
1 TTACTGAATAATTGATTG
* * *
15084769 TT-CTGATTGACTGATTG
1 TTACTGAATAATTGATTG
*
15084786 TTAATGAATA
1 TTACTGAATA
15084796 TTACTGATTG
Statistics
Matches: 115, Mismatches: 37, Indels: 19
0.67 0.22 0.11
Matches are distributed among these distances:
17 13 0.11
18 74 0.64
19 13 0.11
25 4 0.03
26 11 0.10
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (18 bp):
TTACTGAATAATTGATTG
Found at i:15095928 original size:31 final size:31
Alignment explanation
Indices: 15095893--15095975 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
15095883 CTTCCTGCAT
*
15095893 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGTA
* * * * *
15095924 TAAAATGCAGCTAAAAACAGCAAATTTAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGTA
*
15095955 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
15095976 TTAATTCTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 26 0.63
33 15 0.37
ACGTcount: A:0.59, C:0.17, G:0.06, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGTA
Found at i:15096271 original size:21 final size:21
Alignment explanation
Indices: 15096213--15096280 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
15096203 GCCACAGCTA
*
15096213 CTGCCTCTGCCTCCCTCGCTG
1 CTGCCGCTGCCTCCCTCGCTG
* *
15096234 CTACCGCTGCCTTCCTCGCTG
1 CTGCCGCTGCCTCCCTCGCTG
* * * *
15096255 CTGCTGTTTCCTCCCTCTCTG
1 CTGCCGCTGCCTCCCTCGCTG
15096276 CTGCC
1 CTGCC
15096281 TCCTCTCTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.01, C:0.49, G:0.18, T:0.32
Consensus pattern (21 bp):
CTGCCGCTGCCTCCCTCGCTG
Found at i:15096722 original size:13 final size:14
Alignment explanation
Indices: 15096697--15096725 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15096687 TGATGAATTG
15096697 AATTAAACAATTAT
1 AATTAAACAATTAT
15096711 AATTAAAC-ATTAT
1 AATTAAACAATTAT
15096724 AA
1 AA
15096726 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:15098023 original size:29 final size:29
Alignment explanation
Indices: 15097991--15098058 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
15097981 CGTAAAATCT
15097991 TACTACATCATTATTCGTAAATATCTTCA
1 TACTACATCATTATTCGTAAATATCTTCA
15098020 TACTACATCATTATTCGTAAATATCTTCA
1 TACTACATCATTATTCGTAAATATCTTCA
*
15098049 T-CCACATCAT
1 TACTACATCAT
15098059 GTCGAACCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 8 0.21
29 30 0.79
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.40
Consensus pattern (29 bp):
TACTACATCATTATTCGTAAATATCTTCA
Found at i:15101904 original size:74 final size:74
Alignment explanation
Indices: 15101783--15102004 Score: 365
Period size: 74 Copynumber: 3.0 Consensus size: 74
15101773 ATAAAAGGGA
** *
15101783 TTATCTTATGTAAATTATGTAAGATATGATATAT-ATTTATGTATTATGTAGGTTATGTAAATTA
1 TTATCTTATGTAAATTATGTAAGATATGATACGTCA-TTATGTATTATGTAAGTTATGTAAATTA
15101847 TGTAAGTTAT
65 TGTAAGTTAT
15101857 TTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGTATTATGTAAGTTATGTAAATTAT
1 TTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGTATTATGTAAGTTATGTAAATTAT
15101922 GTAAGTTAT
66 GTAAGTTAT
* **
15101931 TTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGTATTATGTAAGTTATTTATCTTAT
1 TTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGTATTATGTAAGTTATGTAAATTAT
*
15101996 GTAAATTAT
66 GTAAGTTAT
15102005 GTAAGATATG
Statistics
Matches: 140, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
74 139 0.99
75 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.48
Consensus pattern (74 bp):
TTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGTATTATGTAAGTTATGTAAATTAT
GTAAGTTAT
Found at i:15101977 original size:56 final size:56
Alignment explanation
Indices: 15101917--15102190 Score: 250
Period size: 56 Copynumber: 5.2 Consensus size: 56
15101907 AGTTATGTAA
*
15101917 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGT
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGT
15101973 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGT
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGT
* ** * * ***
15102029 ATTATGTAAGTTATGTAAATTATGTAAGTTATTTATCTTATG-TA-A--ATTATGT
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGT
* * *
15102081 A--A-GATATGTTATATAT-TTATGT--ATTATGTAAG-T-T-AT--GT-A--A---
1 ATTATG-TAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGT
* *
15102121 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGTTATAT-ATTTATGT
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCA-TTATGT
15102177 ATTATGTAAGTTAT
1 ATTATGTAAGTTAT
15102191 GTAAATCATG
Statistics
Matches: 177, Mismatches: 21, Indels: 40
0.74 0.09 0.17
Matches are distributed among these distances:
40 1 0.01
42 11 0.06
43 8 0.05
45 13 0.07
46 2 0.01
47 7 0.04
48 1 0.01
49 7 0.04
50 12 0.07
52 8 0.05
53 1 0.01
54 1 0.01
55 2 0.01
56 103 0.58
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.49
Consensus pattern (56 bp):
ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGT
Found at i:15101980 original size:29 final size:28
Alignment explanation
Indices: 15101944--15102043 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 28
15101934 TCTTATGTAA
15101944 ATTATGTAAGATATGATACGTCATTATGT
1 ATTATGTAAGATATGATAC-TCATTATGT
* *
15101973 ATTATGTAAGTTAT-TTA-TC-TTATGT
1 ATTATGTAAGATATGATACTCATTATGT
15101998 AAATTATGTAAGATATGATACATCATTATGT
1 --ATTATGTAAGATATGATAC-TCATTATGT
*
15102029 ATTATGTAAGTTATG
1 ATTATGTAAGATATG
15102044 TAAATTATGT
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
25 6 0.10
26 2 0.03
27 13 0.22
28 4 0.07
29 27 0.45
30 2 0.03
31 6 0.10
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (28 bp):
ATTATGTAAGATATGATACTCATTATGT
Found at i:15102024 original size:130 final size:130
Alignment explanation
Indices: 15101843--15102134 Score: 496
Period size: 130 Copynumber: 2.2 Consensus size: 130
15101833 GGTTATGTAA
*
15101843 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGTATTATGTAA
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGTATTATGTAA
*
15101908 GTTATGTAAATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACGTCA-TTATG
66 GTTATGTAAATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACAT-ATTTATG
15101972 T
130 T
15101973 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGTATTATGTAA
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGTATTATGTAA
* *
15102038 GTTATGTAAATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGTTATATATTTATGT
66 GTTATGTAAATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATATTTATGT
* ** *
15102103 ATTATGTAAGTTATGTAAATTATGTAAGTTAT
1 ATTATGTAAGTTATTTATCTTATGTAAATTAT
15102135 TTATCTTATG
Statistics
Matches: 153, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
129 1 0.01
130 152 0.99
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.47
Consensus pattern (130 bp):
ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGTATTATGTAA
GTTATGTAAATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATATTTATGT
Found at i:15102051 original size:74 final size:74
Alignment explanation
Indices: 15101973--15102253 Score: 510
Period size: 74 Copynumber: 3.8 Consensus size: 74
15101963 GTCATTATGT
*
15101973 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCA-TTATGTATTATGTA
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATATAT-ATTTATGTATTATGTA
15102037 AGTTATGTAA
65 AGTTATGTAA
*
15102047 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGTTATATATTTATGTATTATGTAA
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAA
15102112 GTTATGTAA
66 GTTATGTAA
*
15102121 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGTTATATATTTATGTATTATGTAA
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAA
15102186 GTTATGTAA
66 GTTATGTAA
*
15102195 ATCATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATT
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATT
15102254 GTGATTGTGT
Statistics
Matches: 202, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
73 1 0.00
74 201 1.00
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (74 bp):
ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAA
GTTATGTAA
Found at i:15102051 original size:148 final size:147
Alignment explanation
Indices: 15101899--15102253 Score: 441
Period size: 148 Copynumber: 2.4 Consensus size: 147
15101889 GTCATTATGT
* ** * * * *
15101899 ATTATGTAAGTTATGTAAATTATGTAAGTTATTTATCTTATGTAA-ATTATGTAAGATATGATAC
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAACATATGTAATA-TATGTAAG-TAT--TAC
*
15101963 GTCA-TTATGT-ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCA-TT
62 GTAAGTTATGTAATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACAT-ATTT
15102025 ATGTATTATGTAAGTTATGTAA
126 ATGTATTATGTAAGTTATGTAA
* * * * *
15102047 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGTTATATATTTATGTATTATGTAA
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAACATATGTAATATATGTAAGTATTACGTAA
* *
15102112 GTTATGTAAATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGTTATATATTTATGT
66 GTTATGT-AATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATATTTATGT
15102177 ATTATGTAAGTTATGTAA
130 ATTATGTAAGTTATGTAA
* * * *
15102195 ATCATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATG-ATATATATTTATGTATT
1 ATTATGTAAGTTATTTATCTTATGTAAATTATGTAACATATGTA-ATATATGTAAGTATT
15102254 GTGATTGTGT
Statistics
Matches: 184, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
145 5 0.03
146 6 0.03
147 4 0.02
148 168 0.91
149 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.48
Consensus pattern (147 bp):
ATTATGTAAGTTATTTATCTTATGTAAATTATGTAACATATGTAATATATGTAAGTATTACGTAA
GTTATGTAATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATATTTATGTA
TTATGTAAGTTATGTAA
Found at i:15102109 original size:29 final size:31
Alignment explanation
Indices: 15102056--15102118 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
15102046 AATTATGTAA
*
15102056 GTTATTTATCTTATGTAAATTATGTAAGATAT
1 GTTATATATCTTATGT-AATTATGTAAGATAT
*
15102088 GTTATATAT-TTATGT-ATTATGTAAGTTAT
1 GTTATATATCTTATGTAATTATGTAAGATAT
15102117 GT
1 GT
15102119 AAATTATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 15 0.52
31 6 0.21
32 8 0.28
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.52
Consensus pattern (31 bp):
GTTATATATCTTATGTAATTATGTAAGATAT
Found at i:15102133 original size:204 final size:204
Alignment explanation
Indices: 15101783--15102190 Score: 696
Period size: 204 Copynumber: 2.0 Consensus size: 204
15101773 ATAAAAGGGA
* *
15101783 TTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAGGTTATGTAAATTAT
1 TTATCTTATGTAAATTATGTAAGATATGATACATATTTATGTATTATGTAAGTTATGTAAATTAT
*
15101848 GTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGTATTATGTAAGTTAT
66 GTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGTATTATGTAAGTTAT
*
15101913 GTAAATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACGTCA-TTATGTATTA
131 GTAAATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACAT-ATTTATGTATTA
15101977 TGTAAGTTAT
195 TGTAAGTTAT
15101987 TTATCTTATGTAAATTATGTAAGATATGATACATCA-TTATGTATTATGTAAGTTATGTAAATTA
1 TTATCTTATGTAAATTATGTAAGATATGATACAT-ATTTATGTATTATGTAAGTTATGTAAATTA
* *
15102051 TGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGTTATAT-ATTTATGTATTATGTAAGTT
65 TGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCA-TTATGTATTATGTAAGTT
* *
15102115 ATGTAAATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGTTATATATTTATGTATT
129 ATGTAAATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATATTTATGTATT
15102180 ATGTAAGTTAT
194 ATGTAAGTTAT
15102191 GTAAATCATG
Statistics
Matches: 193, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
203 2 0.01
204 190 0.98
205 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.48
Consensus pattern (204 bp):
TTATCTTATGTAAATTATGTAAGATATGATACATATTTATGTATTATGTAAGTTATGTAAATTAT
GTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATCATTATGTATTATGTAAGTTAT
GTAAATTATGTAAGTTATTTATCTTATGTAAATTATGTAAGATATGATACATATTTATGTATTAT
GTAAGTTAT
Found at i:15102181 original size:29 final size:31
Alignment explanation
Indices: 15102130--15102192 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
15102120 AATTATGTAA
*
15102130 GTTATTTATCTTATGTAAATTATGTAAGATAT
1 GTTATATATCTTATGT-AATTATGTAAGATAT
*
15102162 GTTATATAT-TTATGT-ATTATGTAAGTTAT
1 GTTATATATCTTATGTAATTATGTAAGATAT
15102191 GT
1 GT
15102193 AAATCATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 15 0.52
31 6 0.21
32 8 0.28
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.52
Consensus pattern (31 bp):
GTTATATATCTTATGTAATTATGTAAGATAT
Found at i:15102471 original size:12 final size:13
Alignment explanation
Indices: 15102428--15102469 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
15102418 ATTTTCCTGA
15102428 TTAAAATAAAA--
1 TTAAAATAAAATT
15102439 -TAAAATAAAATAT
1 TTAAAATAAAAT-T
15102452 TTAAAATAAAATT
1 TTAAAATAAAATT
15102465 TTAAA
1 TTAAA
15102470 TACAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.37
13 6 0.22
14 11 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TTAAAATAAAATT
Found at i:15102476 original size:12 final size:12
Alignment explanation
Indices: 15102428--15102479 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
15102418 ATTTTCCTGA
15102428 TTAAAATAAAA-
1 TTAAAATAAAAT
15102439 -TAAAATAAAATAT
1 TTAAAAT-AAA-AT
15102452 TTAAAATAAAAT
1 TTAAAATAAAAT
* *
15102464 TTTAAATACAAT
1 TTAAAATAAAAT
15102476 TTAA
1 TTAA
15102480 TTTAATTAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 6 0.18
11 3 0.09
12 16 0.47
13 3 0.09
14 6 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (12 bp):
TTAAAATAAAAT
Found at i:15102551 original size:105 final size:105
Alignment explanation
Indices: 15102374--15102592 Score: 341
Period size: 105 Copynumber: 2.1 Consensus size: 105
15102364 AATAATGATT
15102374 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAAAATTTTCCTGATTAAAATAAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAAAATTTTCCTGATTAAAATAAAA
* *
15102439 TAAAATAAAATATTTAAAATAAAATTTTAAATACAATTTA
66 TAAAATAAAATATTCAAAATAAAACTTTAAATACAATTTA
* * * *
15102479 ATTTAATTAGGTAATTTAAAATTAAAATAAAAGTAGAC-AAAATATTTATCGTGATTAAATTAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAAAATTT-TCCTGATTAAAATAAA
* * *
15102543 ATAAAATAATATCTTCAAAATAAAACTTTAATTACAATTTA
65 ATAAAATAAAATATTCAAAATAAAACTTTAAATACAATTTA
15102584 ATTTAATTA
1 ATTTAATTA
15102593 ATAAGGTTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
104 8 0.08
105 96 0.92
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (105 bp):
ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAAAATTTTCCTGATTAAAATAAAA
TAAAATAAAATATTCAAAATAAAACTTTAAATACAATTTA
Found at i:15107230 original size:267 final size:267
Alignment explanation
Indices: 15106755--15107287 Score: 1057
Period size: 267 Copynumber: 2.0 Consensus size: 267
15106745 ACGAGTCTAT
15106755 ATTCAGGAAAAATTAACGGAAAGTGATTTGGAGTTTTGTAGCTCCAGTTATAAATGATTTAGTGA
1 ATTCAGGAAAAATTAACGGAAAGTGATTTGGAGTTTTGTAGCTCCAGTTATAAATGATTTAGTGA
15106820 CTATTGCTCAGGAAAAACAGCTTGTGCTGAATTTGAGATTGTGTTGTAAACCTTGATAAACTTGT
66 CTATTGCTCAGGAAAAACAGCTTGTGCTGAATTTGAGATTGTGTTGTAAACCTTGATAAACTTGT
15106885 TCTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTCTAAATTGTGATATTGGAAAATG
131 TCTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTCTAAATTGTGATATTGGAAAATG
15106950 ATAGATGTAGATTCAGCCAAGACAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAAT
196 ATAGATGTAGATTCAGCCAAGACAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAAT
15107015 GTGAAAA
261 GTGAAAA
15107022 ATTCAGGAAAAATTAACGGAAAGTGATTTGGAGTTTTGTAGCTCCAGTTATAAATGATTTAGTGA
1 ATTCAGGAAAAATTAACGGAAAGTGATTTGGAGTTTTGTAGCTCCAGTTATAAATGATTTAGTGA
15107087 CTATTGCTCAGGAAAAACAGCTTGTGCTGAATTTGAGATTGTGTTGTAAACCTTGATAAACTTGT
66 CTATTGCTCAGGAAAAACAGCTTGTGCTGAATTTGAGATTGTGTTGTAAACCTTGATAAACTTGT
15107152 TCTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTCTAAATTGTGATATTGGAAAATG
131 TCTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTCTAAATTGTGATATTGGAAAATG
*
15107217 ATAGATGTAGATTCAGCCAAGACAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
196 ATAGATGTAGATTCAGCCAAGACAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAAT
15107282 GTGAAA
261 GTGAAA
15107288 GTGTATATAT
Statistics
Matches: 265, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
267 265 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.33
Consensus pattern (267 bp):
ATTCAGGAAAAATTAACGGAAAGTGATTTGGAGTTTTGTAGCTCCAGTTATAAATGATTTAGTGA
CTATTGCTCAGGAAAAACAGCTTGTGCTGAATTTGAGATTGTGTTGTAAACCTTGATAAACTTGT
TCTAGTTGCTCATAAGCTATTGATTAAACCCATACGTGAATTCTAAATTGTGATATTGGAAAATG
ATAGATGTAGATTCAGCCAAGACAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAAT
GTGAAAA
Found at i:15107298 original size:47 final size:47
Alignment explanation
Indices: 15107240--15107352 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
15107230 CAGCCAAGAC
* * *
15107240 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAA
* * * *
15107287 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAA
* *
15107334 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
15107353 TCCCGAAGGG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.27
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAA
Found at i:15107527 original size:37 final size:37
Alignment explanation
Indices: 15107471--15107549 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
15107461 CCGAGCTCTA
* * *
15107471 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGCCCGGGT
*
15107508 AAGACCCGATAACTTCGTGTGGAGATTATGCCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGCCCGGGT
15107545 AAGAC
1 AAGAC
15107550 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGCCCGGGT
Found at i:15111816 original size:22 final size:23
Alignment explanation
Indices: 15111791--15111840 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
15111781 AAACTTTAAA
*
15111791 CCTTAAACCCTAAAC-CATATAC
1 CCTTAAACCCTAAACTCATAGAC
* *
15111813 CCTT-AACCCTTAACTCCTAGAC
1 CCTTAAACCCTAAACTCATAGAC
15111835 CCTTAA
1 CCTTAA
15111841 CCTTTAAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 9 0.39
22 13 0.57
23 1 0.04
ACGTcount: A:0.34, C:0.38, G:0.02, T:0.26
Consensus pattern (23 bp):
CCTTAAACCCTAAACTCATAGAC
Found at i:15111853 original size:22 final size:22
Alignment explanation
Indices: 15111801--15111853 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
15111791 CCTTAAACCC
* *
15111801 TAAACCATATACCCTTAACCCT
1 TAAACCCTAGACCCTTAACCCT
*
15111823 T-AACTCCTAGACCCTTAACCTT
1 TAAAC-CCTAGACCCTTAACCCT
15111845 TAAACCCTA
1 TAAACCCTA
15111854 AATAATAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.12
22 20 0.77
23 3 0.12
ACGTcount: A:0.34, C:0.36, G:0.02, T:0.28
Consensus pattern (22 bp):
TAAACCCTAGACCCTTAACCCT
Found at i:15111855 original size:7 final size:7
Alignment explanation
Indices: 15111787--15111879 Score: 51
Period size: 7 Copynumber: 12.9 Consensus size: 7
15111777 CCATAAACTT
*
15111787 TAAACCT
1 TAAACCC
15111794 TAAACCC
1 TAAACCC
*
15111801 TAAACCA
1 TAAACCC
*
15111808 TATACCC
1 TAAACCC
*
15111815 TTAACCC
1 TAAACCC
*
15111822 TTAACTCC
1 TAAAC-CC
*
15111830 TAGACCC
1 TAAACCC
* *
15111837 TTAACCTT
1 TAAACC-C
15111845 TAAACCC
1 TAAACCC
***
15111852 TAAATAA
1 TAAACCC
15111859 TAAACCC
1 TAAACCC
*
15111866 TAAATCTC
1 TAAA-CCC
15111874 TAAACC
1 TAAACC
15111880 TCAACCCTTG
Statistics
Matches: 62, Mismatches: 21, Indels: 6
0.70 0.24 0.07
Matches are distributed among these distances:
7 46 0.74
8 16 0.26
ACGTcount: A:0.40, C:0.33, G:0.01, T:0.26
Consensus pattern (7 bp):
TAAACCC
Found at i:15111920 original size:15 final size:14
Alignment explanation
Indices: 15111900--15111933 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
15111890 AACCATAAAT
*
15111900 CATAATCCCTAAGTC
1 CATAATCCATAA-TC
15111915 CATAATCCATAATC
1 CATAATCCATAATC
15111929 CATAA
1 CATAA
15111934 ACCTTGAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.26
Consensus pattern (14 bp):
CATAATCCATAATC
Found at i:15111923 original size:7 final size:7
Alignment explanation
Indices: 15111900--15111933 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
15111890 AACCATAAAT
15111900 CATAATC
1 CATAATC
*
15111907 CCTAAGTC
1 CATAA-TC
15111915 CATAATC
1 CATAATC
15111922 CATAATC
1 CATAATC
15111929 CATAA
1 CATAA
15111934 ACCTTGAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.26
Consensus pattern (7 bp):
CATAATC
Found at i:15111973 original size:15 final size:14
Alignment explanation
Indices: 15111953--15111992 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
15111943 TATTAACTCA
15111953 TAAACCATAAACCCC
1 TAAACCATAAA-CCC
*
15111968 TAAACCTTAAACCC
1 TAAACCATAAACCC
15111982 TAAACCCATAA
1 TAAA-CCATAA
15111993 TTCATAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:15112000 original size:22 final size:22
Alignment explanation
Indices: 15111950--15112007 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
15111940 AGATATTAAC
*
15111950 TCATAAACCATAAACCCCTAAA
1 TCATAAACCATAAACCCATAAA
* * * *
15111972 CCTTAAACCCTAAACCCATAAT
1 TCATAAACCATAAACCCATAAA
*
15111994 TCATAAACCTTAAA
1 TCATAAACCATAAA
15112008 ATATTAACTC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (22 bp):
TCATAAACCATAAACCCATAAA
Found at i:15112049 original size:14 final size:14
Alignment explanation
Indices: 15112028--15112073 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
15112018 ATCATAAATC
15112028 ATAAACCCTAAACT
1 ATAAACCCTAAACT
* *
15112042 ATATACCCTAAACC
1 ATAAACCCTAAACT
*
15112056 ATAAACCTTAAACT
1 ATAAACCCTAAACT
15112070 ATAA
1 ATAA
15112074 TGATAAGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (14 bp):
ATAAACCCTAAACT
Found at i:15112437 original size:41 final size:41
Alignment explanation
Indices: 15112348--15112683 Score: 397
Period size: 41 Copynumber: 8.2 Consensus size: 41
15112338 ATGTTTTTGT
* * * * *
15112348 GGCGCTTTTTGAAAAAACGCCGCTATAAAT-AGAGCAATAGC
1 GGCG-TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
*
15112389 GGTGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* * *
15112430 GGCGTTTTTCAAAAAACACCGATATAGATCTGAGCATTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* *
15112471 GGCGTTTTTCAATAAGCGCCGCTATATATCTGAGCATTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* *
15112512 GGCGTTTTTCAAAAAGCGCC-CTATAGATTTGAGCATTAAC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* * ** * *
15112552 GGTGTTTTGCTTAAAGAGCCGCTATATATCTGAGCATTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* ** * *
15112593 GGTGTTTTTCGTAAAGCGCCGCTATAGATGTGAGCACTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* * *
15112634 GGCATTTTTCATAAAGCGCCGCTATAGATTTGAGCATTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
*
15112675 GGCGCTTTT
1 GGCGTTTTT
15112684 GGCAAAACGT
Statistics
Matches: 253, Mismatches: 40, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
40 54 0.21
41 199 0.79
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (41 bp):
GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
Found at i:15112583 original size:122 final size:122
Alignment explanation
Indices: 15112365--15112690 Score: 397
Period size: 122 Copynumber: 2.6 Consensus size: 122
15112355 TTTGAAAAAA
* * * *
15112365 CGCCGCTATAAATAGAGCAATAGCGGTGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
1 CGCCGCTATAAATTGAGCAATAGCGGCGTTTTTCAAAAAGCGCCGCTATAGATTTGAGCATTAAC
*
15112430 GGCGTTTTTCAAAAAACACCGATATAGATCTGAGCATTAGCGGCGTTTTTCA-ATAAG
66 GGCGTTTTGCAAAAAACACCGATATAGATCTGAGCATTAGCGGCGTTTTTCATA-AAG
* *
15112487 CGCCGCTATATATCTGAGCATTAGCGGCGTTTTTCAAAAAGCGCC-CTATAGATTTGAGCATTAA
1 CGCCGCTATAAAT-TGAGCAATAGCGGCGTTTTTCAAAAAGCGCCGCTATAGATTTGAGCATTAA
* * * * * * * *
15112551 CGGTGTTTTGCTTAAAGA-GCCGCTATATATCTGAGCATTAGCGGTGTTTTTCGTAAAG
65 CGGCGTTTTGC-AAAAAACACCGATATAGATCTGAGCATTAGCGGCGTTTTTCATAAAG
* * * * *
15112609 CGCCGCTATAGATGTGAGCACTAGCGGCATTTTTCATAAAGCGCCGCTATAGATTTGAGCATTAG
1 CGCCGCTATAAAT-TGAGCAATAGCGGCGTTTTTCAAAAAGCGCCGCTATAGATTTGAGCATTAA
15112674 CGGCGCTTTTGGCAAAA
65 CGGCG-TTTT-GCAAAA
15112691 CGTTGCTAAT
Statistics
Matches: 175, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
122 111 0.63
123 55 0.31
124 7 0.04
125 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (122 bp):
CGCCGCTATAAATTGAGCAATAGCGGCGTTTTTCAAAAAGCGCCGCTATAGATTTGAGCATTAAC
GGCGTTTTGCAAAAAACACCGATATAGATCTGAGCATTAGCGGCGTTTTTCATAAAG
Found at i:15112658 original size:163 final size:163
Alignment explanation
Indices: 15112348--15112683 Score: 424
Period size: 163 Copynumber: 2.1 Consensus size: 163
15112338 ATGTTTTTGT
* * * *
15112348 GGCGCTTTTTGAAAAAACGCCGCTATAAATAGAGCAATAGCGGTGTTTTTCAAAAAGCGCCGCTA
1 GGCG-TTTTTCAAAAAACGCCGCTATAAATAGAGCAATAACGGTGTTTTGCAAAAAGAGCCGCTA
* *
15112413 TAGATCTGAGCATTAGCGGCGTTTTTCAAAAAACACCGATATAGATCTGAGCATTAGCGGCGTTT
65 TAGATCTGAGCATTAGCGGCGTTTTTCAAAAAACACCGATATAGATCTGAGCACTAGCGGCATTT
*
15112478 TTCAATAAGCGCCGCTATATATCTGAGCATTAGC
130 TTCAATAAGCGCCGCTATAGATCTGAGCATTAGC
* * * * **
15112512 GGCGTTTTTCAAAAAGCGCC-CTATAGATTTGAGCATTAACGGTGTTTTGCTTAAAGAGCCGCTA
1 GGCGTTTTTCAAAAAACGCCGCTATA-AATAGAGCAATAACGGTGTTTTGCAAAAAGAGCCGCTA
* * ** * * * *
15112576 TATATCTGAGCATTAGCGGTGTTTTTCGTAAAGCGCCGCTATAGATGTGAGCACTAGCGGCATTT
65 TAGATCTGAGCATTAGCGGCGTTTTTCAAAAAACACCGATATAGATCTGAGCACTAGCGGCATTT
*
15112641 TTC-ATAAAGCGCCGCTATAGATTTGAGCATTAGC
130 TTCAAT-AAGCGCCGCTATAGATCTGAGCATTAGC
*
15112675 GGCGCTTTT
1 GGCGTTTTT
15112684 GGCAAAACGT
Statistics
Matches: 147, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
162 7 0.05
163 136 0.93
164 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (163 bp):
GGCGTTTTTCAAAAAACGCCGCTATAAATAGAGCAATAACGGTGTTTTGCAAAAAGAGCCGCTAT
AGATCTGAGCATTAGCGGCGTTTTTCAAAAAACACCGATATAGATCTGAGCACTAGCGGCATTTT
TCAATAAGCGCCGCTATAGATCTGAGCATTAGC
Found at i:15114474 original size:23 final size:21
Alignment explanation
Indices: 15114435--15114476 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
15114425 GTACTTAAGT
15114435 ACATTTTGTTGCATTTTTAGG
1 ACATTTTGTTGCATTTTTAGG
15114456 ACATTTTAGTTAGCATTTTTA
1 ACATTTT-GTT-GCATTTTTA
15114477 AAATTGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (21 bp):
ACATTTTGTTGCATTTTTAGG
Found at i:15122060 original size:22 final size:22
Alignment explanation
Indices: 15122034--15122078 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
15122024 TATAAAAGTG
15122034 TAAATTTAGAGTAAGTTAATGA
1 TAAATTTAGAGTAAGTTAATGA
15122056 TAAATTTAGAGTAAGTTAATGA
1 TAAATTTAGAGTAAGTTAATGA
15122078 T
1 T
15122079 GTTAATGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (22 bp):
TAAATTTAGAGTAAGTTAATGA
Done.