Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 80 of 318
Found at i:23552786 original size:42 final size:42
Alignment explanation
Indices: 23552738--23552822 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
23552728 TTTATATTTA
23552738 TTGTATTAATTTTAAAATTGAGTTATTACTTAAATAAAACTC
1 TTGTATTAATTTTAAAATTGAGTTATTACTTAAATAAAACTC
23552780 TTGTATTAATTTTAAAATTGAGTTATTACTTAAATAAAACTC
1 TTGTATTAATTTTAAAATTGAGTTATTACTTAAATAAAACTC
23552822 T
1 T
23552823 AAGTATAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (42 bp):
TTGTATTAATTTTAAAATTGAGTTATTACTTAAATAAAACTC
Found at i:23553574 original size:24 final size:26
Alignment explanation
Indices: 23553524--23553574 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
23553514 ATGTATTATT
23553524 TGGTACTTGTACTTTCATAAAATGTC
1 TGGTACTTGTACTTTCATAAAATGTC
23553550 TGGTACTTGTACTTT-A-AAAATGTC
1 TGGTACTTGTACTTTCATAAAATGTC
23553574 T
1 T
23553575 AATGTGATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 9 0.36
25 1 0.04
26 15 0.60
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (26 bp):
TGGTACTTGTACTTTCATAAAATGTC
Found at i:23553673 original size:178 final size:178
Alignment explanation
Indices: 23553374--23553710 Score: 498
Period size: 178 Copynumber: 1.9 Consensus size: 178
23553364 TTCGAATAAT
* * * * * *
23553374 GTACTTGTACTTTAAAAATGTCTAATGTGATACTTGAACTGTTAATTTTTATATTATTTGGGACT
1 GTACTTGTACTTTAAAAATGTCTAATGTGATACCTAAACTATCAATTTTGATATTATTTGGGACC
* * * * *
23553439 TGTACTTTCATAAAATGTCTGATGTGGTACTTGTACTTTAAAAATGTCCAATGTGGTACCTGAAC
66 TGTACTTTCATAAAATGTCTAATGTGATACTTATAATTTAAAAATGTCCAATGTGGTACCTAAAC
* *
23553504 TAATCAATTTATGTATTATT-TGGTACTTGTACTTTCATAAAATGTCTG
131 T-ATCAATCTATGTATTATTATAGTACTTGTACTTTCATAAAATGTCTG
*
23553552 GTACTTGTACTTTAAAAATGTCTAATGTGATACCTAAACTATCAA-TTTGAGTATTATTTGGTAC
1 GTACTTGTACTTTAAAAATGTCTAATGTGATACCTAAACTATCAATTTTGA-TATTATTTGGGAC
*
23553616 CTGTACTTTCATAAAATGTCTAATGTGATACTTATAATTTAAAAATGTTCAATGTGGTACCTAAA
65 CTGTACTTTCATAAAATGTCTAATGTGATACTTATAATTTAAAAATGTCCAATGTGGTACCTAAA
*
23553681 CTATCAATCTGTGTATTATTATAGTACTTG
130 CTATCAATCTATGTATTATTATAGTACTTG
23553711 AAGTTAAGAC
Statistics
Matches: 141, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
177 20 0.14
178 121 0.86
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (178 bp):
GTACTTGTACTTTAAAAATGTCTAATGTGATACCTAAACTATCAATTTTGATATTATTTGGGACC
TGTACTTTCATAAAATGTCTAATGTGATACTTATAATTTAAAAATGTCCAATGTGGTACCTAAAC
TATCAATCTATGTATTATTATAGTACTTGTACTTTCATAAAATGTCTG
Found at i:23553685 original size:91 final size:89
Alignment explanation
Indices: 23553373--23553710 Score: 393
Period size: 91 Copynumber: 3.8 Consensus size: 89
23553363 ATTCGAATAA
* * * * * * *
23553373 TGTACTTGTACTTTAAAAATG-TCTAATGTGATACTTGAACTGTTAATTTTTA-TATTATTTGGG
1 TGTACTTGTACTTTAAAAATGTTC-AATGTGGTACCTAAACTATCAA-TTTGAGTATTATTTGGT
23553436 ACTTGTACTTTCATAAAATGTCTGATG
64 ACTTGTACTTTCATAAAATGTCT-ATG
* *
23553463 TGGTACTTGTACTTTAAAAATGTCCAATGTGGTACCTGAACTAATCAATTT-ATGTATTATTTGG
1 T-GTACTTGTACTTTAAAAATGTTCAATGTGGTACCTAAACT-ATCAATTTGA-GTATTATTTGG
23553527 TACTTGTACTTTCATAAAATGTC--TG
63 TACTTGTACTTTCATAAAATGTCTATG
*
23553552 -GTACTTGTACTTTAAAAATG-TCTAATGTGATACCTAAACTATCAATTTGAGTATTATTTGGTA
1 TGTACTTGTACTTTAAAAATGTTC-AATGTGGTACCTAAACTATCAATTTGAGTATTATTTGGTA
*
23553615 CCTGTACTTTCATAAAATGTCTAATG
65 CTTGTACTTTCATAAAATGTCT-ATG
* * * * *
23553641 TGATACTTATAATTTAAAAATGTTCAATGTGGTACCTAAACTATCAATCTGTGTATTATTATAGT
1 TG-TACTTGTACTTTAAAAATGTTCAATGTGGTACCTAAACTATCAATTTGAGTATTATT-TGGT
23553706 ACTTG
64 ACTTG
23553711 AAGTTAAGAC
Statistics
Matches: 217, Mismatches: 17, Indels: 26
0.83 0.07 0.10
Matches are distributed among these distances:
86 42 0.19
87 36 0.17
89 4 0.02
90 3 0.01
91 87 0.40
92 45 0.21
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.42
Consensus pattern (89 bp):
TGTACTTGTACTTTAAAAATGTTCAATGTGGTACCTAAACTATCAATTTGAGTATTATTTGGTAC
TTGTACTTTCATAAAATGTCTATG
Found at i:23553841 original size:13 final size:12
Alignment explanation
Indices: 23553818--23553854 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
23553808 GCATTATTTG
23553818 AAAAAGATAAATT
1 AAAAA-ATAAATT
23553831 AAAAAATTAAATT
1 AAAAAA-TAAATT
23553844 AAAAAATAAAT
1 AAAAAATAAAT
23553855 AGCTTGTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (12 bp):
AAAAAATAAATT
Found at i:23556954 original size:37 final size:37
Alignment explanation
Indices: 23556912--23556988 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
23556902 AATAGGGTAA
23556912 AAATTTAATTATAAAATATGATATATTTGGTAAATCT
1 AAATTTAATTATAAAATATGATATATTTGGTAAATCT
23556949 AAATTTAATTATAAAATATGATATATTTGGTAAATCT
1 AAATTTAATTATAAAATATGATATATTTGGTAAATCT
23556986 AAA
1 AAA
23556989 GTTTTCTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.42
Consensus pattern (37 bp):
AAATTTAATTATAAAATATGATATATTTGGTAAATCT
Found at i:23556982 original size:19 final size:19
Alignment explanation
Indices: 23556923--23556982 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
23556913 AATTTAATTA
23556923 TAAAATATGATATATTTGG
1 TAAAATATGATATATTTGG
* * * * *
23556942 T-AAATCTAAATTTAATT-A
1 TAAAATAT-GATATATTTGG
23556960 TAAAATATGATATATTTGG
1 TAAAATATGATATATTTGG
23556979 TAAA
1 TAAA
23556983 TCTAAAGTTT
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.42
Consensus pattern (19 bp):
TAAAATATGATATATTTGG
Found at i:23557904 original size:52 final size:53
Alignment explanation
Indices: 23557835--23558022 Score: 203
Period size: 52 Copynumber: 3.7 Consensus size: 53
23557825 TGAAATATGC
* *
23557835 TTCCGTATAAGATCATAGCTGGGCTATGGCATCGGTGCAATGTGAT-ACGTGT
1 TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAACGTGA
* ** *
23557887 TTCCGTATAAGACCATAGCTGGGCTATGGCATCGATGTGATGTGATAATGTGA
1 TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAACGTGA
* * * *
23557940 TTCCGTATAAGACCATACCTGGGATATGGCATCGGT---A--TGAT-ATGAGA
1 TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAACGTGA
* * *
23557987 -TCCGTATAAGACCATGGCGGGGCTATGGCTTCGGTG
1 TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTG
23558023 TGTGATATGT
Statistics
Matches: 119, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
46 30 0.25
47 5 0.04
48 4 0.03
50 1 0.01
52 42 0.35
53 37 0.31
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (53 bp):
TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAACGTGA
Found at i:23565517 original size:53 final size:52
Alignment explanation
Indices: 23565370--23565529 Score: 176
Period size: 52 Copynumber: 3.1 Consensus size: 52
23565360 TGATGGAAAA
* * * * * *
23565370 GATGTGATATGTGCTTCCGTATAAGACCATAGCTAGGTTATGACATTGGTGC
1 GATGTGATATGTGATTCCGTATAAAACCATAGCTAGGATATGGCATCGGTGT
* * * * * *
23565422 AATGTGATACGTGTTTCCGTATAAAACCATAGCTGGGCTATGGTATCGGTGT
1 GATGTGATATGTGATTCCGTATAAAACCATAGCTAGGATATGGCATCGGTGT
* * *
23565474 GATGTGATAATGTGATTCCATATAAAACCATATCTAGGATATGGCATCGGTAT
1 GATGTGAT-ATGTGATTCCGTATAAAACCATAGCTAGGATATGGCATCGGTGT
23565527 GAT
1 GAT
23565530 ATGTGATCCG
Statistics
Matches: 88, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
52 49 0.56
53 39 0.44
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAAACCATAGCTAGGATATGGCATCGGTGT
Found at i:23569894 original size:47 final size:50
Alignment explanation
Indices: 23569770--23569896 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 50
23569760 TGGGACTCGA
* *
23569770 TGTAAGACCATGTCGGGGACATGGCATCAGTACGGATACGTGAAAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGTACGGATACGTGAAAGCCAG
* * * ** *
23569820 TGTAAGACTATGTTTGGGTCATGGCATC-G-ACTTA-ACGTGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGTACGGATACGTGAAAGCCAG
* *
23569867 TGTAAGACCATGTCTAGGACATAGCATCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAG
23569897 CATTATACCC
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
47 34 0.54
48 4 0.06
49 1 0.02
50 24 0.38
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGTACGGATACGTGAAAGCCAG
Found at i:23571633 original size:14 final size:14
Alignment explanation
Indices: 23571614--23571643 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
23571604 ATGTTAAAAT
23571614 AATAAATAAAATTA
1 AATAAATAAAATTA
23571628 AATAAATAAAATTA
1 AATAAATAAAATTA
23571642 AA
1 AA
23571644 AGAAAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAAATAAAATTA
Found at i:23574581 original size:18 final size:18
Alignment explanation
Indices: 23574555--23574590 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23574545 GTTTGGTATG
*
23574555 TTAATAGGTGAAAACCAA
1 TTAACAGGTGAAAACCAA
23574573 TTAACAGGTGAAAACCAA
1 TTAACAGGTGAAAACCAA
23574591 GCATCAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (18 bp):
TTAACAGGTGAAAACCAA
Found at i:23574598 original size:18 final size:18
Alignment explanation
Indices: 23574560--23574599 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
23574550 GTATGTTAAT
**
23574560 AGGTGAAAACCAATTAAC
1 AGGTGAAAACCAAGCAAC
*
23574578 AGGTGAAAACCAAGCATC
1 AGGTGAAAACCAAGCAAC
23574596 AGGT
1 AGGT
23574600 TCCATCAGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (18 bp):
AGGTGAAAACCAAGCAAC
Found at i:23577748 original size:20 final size:20
Alignment explanation
Indices: 23577691--23577740 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
23577681 TTAGAGTCTC
* *
23577691 AAATTTATGATGTTGAGTTT
1 AAATTTAAGATATTGAGTTT
* *
23577711 AAGTTTAAGATATCGAGTTT
1 AAATTTAAGATATTGAGTTT
23577731 AGAATTTAAG
1 A-AATTTAAG
23577741 GTTTGAGTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (20 bp):
AAATTTAAGATATTGAGTTT
Found at i:23578715 original size:1 final size:1
Alignment explanation
Indices: 23578709--23578733 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
23578699 TTTTGAATTC
23578709 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
23578734 CGTTGTGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:23580051 original size:2 final size:2
Alignment explanation
Indices: 23580044--23580071 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23580034 AGTAGCATTC
23580044 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23580072 TTACTGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23583341 original size:25 final size:25
Alignment explanation
Indices: 23583295--23583342 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23583285 GCGTTATGGA
* *
23583295 AAACAAGAAAGTCCGCCTAGACAAT
1 AAACAAGAAAGTCCACCAAGACAAT
*
23583320 AAACAAGAAAGTTCACCAAGACA
1 AAACAAGAAAGTCCACCAAGACA
23583343 TTTAGGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.52, C:0.23, G:0.15, T:0.10
Consensus pattern (25 bp):
AAACAAGAAAGTCCACCAAGACAAT
Found at i:23598818 original size:32 final size:32
Alignment explanation
Indices: 23598782--23598848 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
23598772 TCTTTGCTTC
* *
23598782 ACTGAGTCTCTACTCTCATAATATTTTGGCAT
1 ACTGAATCTCTACTCTCATAATAGTTTGGCAT
23598814 ACTGAATCTCTACTCTCATAATAGTTTGGCAT
1 ACTGAATCTCTACTCTCATAATAGTTTGGCAT
23598846 ACT
1 ACT
23598849 TATAGCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (32 bp):
ACTGAATCTCTACTCTCATAATAGTTTGGCAT
Found at i:23599732 original size:54 final size:54
Alignment explanation
Indices: 23599669--23599771 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 54
23599659 GTCCCTACGA
* * *** * *
23599669 ACTACCCCGTGTTTATTGTCCCGGTAAACTACCCTGTGTTTACTCTTTTTGTGG
1 ACTAACCCGTGTTTACTGTCCCAACAAACTACCCTATGTTTACTATTTTTGTGG
*
23599723 ACTAACCCGTGTTTACTGTCCCAACAGACTACCCTATGTTTACTATTTT
1 ACTAACCCGTGTTTACTGTCCCAACAAACTACCCTATGTTTACTATTTT
23599772 GGCAGACTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.39
Consensus pattern (54 bp):
ACTAACCCGTGTTTACTGTCCCAACAAACTACCCTATGTTTACTATTTTTGTGG
Found at i:23604445 original size:99 final size:99
Alignment explanation
Indices: 23604210--23604391 Score: 255
Period size: 96 Copynumber: 1.9 Consensus size: 99
23604200 AGGATATAAT
* * * ** *
23604210 GCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTCATC-C--AT-CAAGTCGATGCTATATC
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATCCGTGTCGATGCCATATC
23604271 CCAAACATGGTCTTACACTGACTATCGAAATCGAG
65 CCAAACATGGTCTTACACTGACTATCGAAATCGAG
* *
23604306 GCCGACGCCATGTCTCAGACATGGTCTTACACTAGCTCTCACATATCCGTGTCGATGCCATGTCC
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGTCGATGCCATATCC
23604371 CAAACATGGTCTTACACTGAC
66 CAAACATGGTCTTACACTGAC
23604392 ACATCTCGTA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
95 2 0.03
96 35 0.47
98 2 0.03
99 35 0.47
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (99 bp):
GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGTCGATGCCATATCC
CAAACATGGTCTTACACTGACTATCGAAATCGAG
Found at i:23606952 original size:51 final size:49
Alignment explanation
Indices: 23606828--23607021 Score: 239
Period size: 49 Copynumber: 3.9 Consensus size: 49
23606818 TAGCCAAAGC
* * *
23606828 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
23606877 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * *
23606928 TATCAGGTACGCATAGTAGCCTGCACTTAGTA-TACACATGCGACCAAT
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
23606976 TATTCA-ATACACGTAGTAGCTTGCACTTAGTACTACACACGTGACC
1 TA-TCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
23607022 TCACAATAGA
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
48 25 0.20
49 57 0.46
50 12 0.10
51 30 0.24
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:23607001 original size:99 final size:100
Alignment explanation
Indices: 23606828--23607019 Score: 323
Period size: 99 Copynumber: 1.9 Consensus size: 100
23606818 TAGCCAAAGC
* * **
23606828 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAATACACGTAG
23606893 TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
*
23606928 TATCAGGTACGCATAGTAGCCTGCACTTAGTA-TACACATGCGACCAATTATTCAATACACGTAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAATACACGTAG
*
23606992 TAGCTTGCACTTAGTACTACACACGTGA
66 TAGCCTGCACTTAGTACTACACACGTGA
23607020 CCTCACAATA
Statistics
Matches: 86, Mismatches: 6, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
99 55 0.64
100 31 0.36
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (100 bp):
TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAATACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:23612044 original size:20 final size:18
Alignment explanation
Indices: 23612007--23612045 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
23611997 ATTAATAAAA
*
23612007 TTAATAAAATTTATTATT
1 TTAATAAAATTTAATATT
23612025 TTAATAAATTATTTAATATT
1 TTAATAAA--ATTTAATATT
23612045 T
1 T
23612046 CAATTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATAAAATTTAATATT
Found at i:23612742 original size:16 final size:16
Alignment explanation
Indices: 23612721--23612756 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
23612711 TAGTATGTAT
23612721 AATTTTTGGATGATTA
1 AATTTTTGGATGATTA
**
23612737 AATTTTTTTATGATTA
1 AATTTTTGGATGATTA
23612753 AATT
1 AATT
23612757 ATTGTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (16 bp):
AATTTTTGGATGATTA
Found at i:23612802 original size:22 final size:24
Alignment explanation
Indices: 23612750--23612803 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
23612740 TTTTTTATGA
* *
23612750 TTAAATTATTGTTATTAAATATGTT
1 TTAAATTATAGTTATT-AATATCTT
*
23612775 TGAAATTATAG-TATT-ATATCTT
1 TTAAATTATAGTTATTAATATCTT
23612797 TTAAATT
1 TTAAATT
23612804 GAATTTATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 12 0.48
24 4 0.16
25 9 0.36
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (24 bp):
TTAAATTATAGTTATTAATATCTT
Found at i:23614370 original size:47 final size:46
Alignment explanation
Indices: 23614302--23614563 Score: 198
Period size: 47 Copynumber: 5.6 Consensus size: 46
23614292 TGTGAGAGCC
* * *
23614302 AGTGTAAGACCATGTCTGGGACATGGCATCTGCATTGAGATGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATTAAGATGAGTGCT
* * *
23614350 AGTGTAAGACGTGTCTGGGACATGCATCAGCCACATTATGAT-A--GCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG---CATTAAGATGAGTGCT
* * *
23614396 AGTGTAAGACCATATCTGAGACATGGCATC-GACA-TAGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CATTA-AGATGAGTGCT
* * * *
23614444 ATTGTAAGACATGTCTGGGACATGCATCAGCCTCAATGATG-CTAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATTAA-GATGAGT-GCT
* * * * **
23614491 AGTGTAAGACGTGTCTGAGACATGCATCGGC--TAAGCTTCGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGATGAGTGCT
23614535 AGTGTAAGACATGTCTGGGACATGCATCA
1 AGTGTAAGACATGTCTGGGACATGCATCA
23614564 ACACGTATAC
Statistics
Matches: 171, Mismatches: 29, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
44 33 0.19
45 8 0.05
46 26 0.15
47 72 0.42
48 25 0.15
49 7 0.04
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGATGAGTGCT
Found at i:23614419 original size:94 final size:94
Alignment explanation
Indices: 23614298--23614563 Score: 326
Period size: 94 Copynumber: 2.9 Consensus size: 94
23614288 GTTATGTGAG
* * *
23614298 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCTGCATTGAGATGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGAGACATGGCATC-GCATTGAGATGAGTGCTAGTGTAAGACATG
*
23614363 TCTGGGACATGCATCAGCCAC-ATTATGAT
65 TCTGGGACATGCATCAGCCACAATGATGAT
* * * *
23614392 AGCCAGTGTAAGACCATATCTGAGACATGGCATCGACATAGAGACGAGTGCTATTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGAGACATGGCATCG-CATTGAGATGAGTGCTAGTGTAAGACATG
* *
23614457 TCTGGGACATGCATCAGCCTCAATGATGCT
65 TCTGGGACATGCATCAGCCACAATGATGAT
* * * * **
23614487 AGCTAGTGTAAGA-CGTGTCTGAGACAT-GCATCGGC--TAAGCTTCGTGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGAGACATGGCATC-GCATTGAGATGAGTGCTAGTGTAAGACATG
23614548 TCTGGGACATGCATCA
65 TCTGGGACATGCATCA
23614564 ACACGTATAC
Statistics
Matches: 149, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
91 35 0.23
93 7 0.05
94 89 0.60
95 18 0.12
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGAGACATGGCATCGCATTGAGATGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCAGCCACAATGATGAT
Found at i:23618682 original size:2 final size:2
Alignment explanation
Indices: 23618675--23618699 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23618665 TTAACTCAAT
23618675 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23618700 CACTTATACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23619273 original size:21 final size:21
Alignment explanation
Indices: 23619249--23619373 Score: 137
Period size: 21 Copynumber: 6.0 Consensus size: 21
23619239 CTGAATACAT
** *
23619249 AGAAGCTTGTAAGAGCTGAAC
1 AGAAGCTCATAAGAGTTGAAC
*
23619270 AGAAGCTCATAAGAGTTGAAT
1 AGAAGCTCATAAGAGTTGAAC
*
23619291 AGAAGCTC-GAA-AGTTGAAC
1 AGAAGCTCATAAGAGTTGAAC
* * * *
23619310 AGAAGCTCGTAAGAGCTAAAT
1 AGAAGCTCATAAGAGTTGAAC
*
23619331 AGAAACTCATAAGAGTTGAAC
1 AGAAGCTCATAAGAGTTGAAC
*
23619352 AGAAGCTCATAAGAGATGAAC
1 AGAAGCTCATAAGAGTTGAAC
23619373 A
1 A
23619374 TAAAGTAAAA
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
19 15 0.18
20 4 0.05
21 66 0.78
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (21 bp):
AGAAGCTCATAAGAGTTGAAC
Found at i:23620557 original size:13 final size:13
Alignment explanation
Indices: 23620539--23620563 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23620529 ATAATACTCC
23620539 AAAAATATTTATA
1 AAAAATATTTATA
23620552 AAAAATATTTAT
1 AAAAATATTTAT
23620564 GACTCGGTTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAATATTTATA
Found at i:23632396 original size:15 final size:15
Alignment explanation
Indices: 23632376--23632429 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
23632366 TATCGTATCT
23632376 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
23632391 TGGGTTT-TTCTA-TC
1 TGGGTTTCTT-TATTC
*
23632405 TTGGATTTCTTTATTC
1 -TGGGTTTCTTTATTC
*
23632421 -GGTTTTCTT
1 TGGGTTTCTT
23632430 GTTATCTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 12 0.36
15 17 0.52
16 4 0.12
ACGTcount: A:0.07, C:0.13, G:0.19, T:0.61
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:23634265 original size:49 final size:49
Alignment explanation
Indices: 23634099--23634323 Score: 297
Period size: 49 Copynumber: 4.5 Consensus size: 49
23634089 TGAGGTCGCA
* * * * * *
23634099 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
23634150 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
23634200 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * *
23634249 TGTGTAGTACTAAGTGCAGGCTACTACGTGCACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
23634298 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
23634324 TGCGTACCAG
Statistics
Matches: 156, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 79 0.51
50 45 0.29
51 32 0.21
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:23634278 original size:99 final size:100
Alignment explanation
Indices: 23634092--23634331 Score: 313
Period size: 99 Copynumber: 2.4 Consensus size: 100
23634082 TCTATTGTGA
* * *
23634092 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTATGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTATGATCACGTGTGTAG
* * **
23634157 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGCACCAGATAATT
* * * * *
23634192 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTATGATCACGTGTGTA
*
23634255 GTACTAAGTGCAGGCTACTACGTGCACCGGATAATT
65 GTACTAAGTGCAGGCTACTACGTGCACCAGATAATT
* * *
23634291 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
23634332 AGATAGCTTT
Statistics
Matches: 121, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 36 0.30
99 44 0.36
100 1 0.01
101 40 0.33
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTATGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGCACCAGATAATT
Found at i:23635306 original size:25 final size:25
Alignment explanation
Indices: 23635272--23635321 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
23635262 GTTGGAGATC
23635272 GTCGGAGGCAAAATCACACTATCAA
1 GTCGGAGGCAAAATCACACTATCAA
23635297 GTCGGAGGCAAAATCACACTATCAA
1 GTCGGAGGCAAAATCACACTATCAA
23635322 ACAATCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (25 bp):
GTCGGAGGCAAAATCACACTATCAA
Found at i:23636610 original size:19 final size:18
Alignment explanation
Indices: 23636586--23636627 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
23636576 TGACCACATG
23636586 TTCATTGAACGGTTTTAAT
1 TTCATT-AACGGTTTTAAT
* *
23636605 TTCATTTACGGTTTTTAT
1 TTCATTAACGGTTTTAAT
23636623 TTCAT
1 TTCAT
23636628 ATTCTTTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.55
Consensus pattern (18 bp):
TTCATTAACGGTTTTAAT
Found at i:23637353 original size:31 final size:31
Alignment explanation
Indices: 23637315--23637375 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
23637305 AAAAAGAAAA
23637315 GAAAACTATTTCTAGGTTTTGTGTTTGATTC
1 GAAAACTATTTCTAGGTTTTGTGTTTGATTC
23637346 GAAAACTATTTCTAGGTTTTGTGTTTGATT
1 GAAAACTATTTCTAGGTTTTGTGTTTGATT
23637376 TGATTTGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.08, G:0.20, T:0.49
Consensus pattern (31 bp):
GAAAACTATTTCTAGGTTTTGTGTTTGATTC
Found at i:23638106 original size:27 final size:27
Alignment explanation
Indices: 23638068--23638130 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
23638058 TATCGAAAAA
23638068 TATAA-TATAATTA-TAAAATAATTAAAT
1 TATAATTA-AATTATTAAAAT-ATTAAAT
* *
23638095 TATACTTAAATTATTAACATATTAAAT
1 TATAATTAAATTATTAAAATATTAAAT
23638122 TATAATTAA
1 TATAATTAA
23638131 TTTTATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (27 bp):
TATAATTAAATTATTAAAATATTAAAT
Found at i:23640766 original size:29 final size:29
Alignment explanation
Indices: 23640724--23640787 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
23640714 TGGCTAGCAT
23640724 GTGTGCCCTAAAAAAGGCCACTCACGCTC
1 GTGTGCCCTAAAAAAGGCCACTCACGCTC
*
23640753 GTGTGCCCTAAAAAAGGCCACTCACGTTC
1 GTGTGCCCTAAAAAAGGCCACTCACGCTC
23640782 GTGTGC
1 GTGTGC
23640788 TAGGCCGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.20
Consensus pattern (29 bp):
GTGTGCCCTAAAAAAGGCCACTCACGCTC
Found at i:23647300 original size:56 final size:56
Alignment explanation
Indices: 23647235--23647349 Score: 221
Period size: 56 Copynumber: 2.1 Consensus size: 56
23647225 TATTCTCGAG
*
23647235 TATATTTACTCAACCGTACAAATTCTCTCTTGTACTTGGTTACAGTCATATGGCCT
1 TATATTTACTCAACCGTACAAATTCTCTCTCGTACTTGGTTACAGTCATATGGCCT
23647291 TATATTTACTCAACCGTACAAATTCTCTCTCGTACTTGGTTACAGTCATATGGCCT
1 TATATTTACTCAACCGTACAAATTCTCTCTCGTACTTGGTTACAGTCATATGGCCT
23647347 TAT
1 TAT
23647350 TTCAATTCTA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.39
Consensus pattern (56 bp):
TATATTTACTCAACCGTACAAATTCTCTCTCGTACTTGGTTACAGTCATATGGCCT
Found at i:23652696 original size:48 final size:48
Alignment explanation
Indices: 23652625--23652718 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
23652615 CAATGTTGAC
*
23652625 GAAGTTTTATGAAGCACTTCACCATAAAGTTACCATCTTCAACCAGAT
1 GAAGTTCTATGAAGCACTTCACCATAAAGTTACCATCTTCAACCAGAT
23652673 GAAGTTCTATGAAGCACTTCACCATAAAGTTACCATCTTCAACCAG
1 GAAGTTCTATGAAGCACTTCACCATAAAGTTACCATCTTCAACCAG
23652719 TCTAATTCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (48 bp):
GAAGTTCTATGAAGCACTTCACCATAAAGTTACCATCTTCAACCAGAT
Found at i:23652833 original size:14 final size:16
Alignment explanation
Indices: 23652814--23652846 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
23652804 ACCCTTAAAA
23652814 AAATTTTGT-CCT-CG
1 AAATTTTGTACCTACG
23652828 AAATTTTGTACCTACG
1 AAATTTTGTACCTACG
23652844 AAA
1 AAA
23652847 AGATGCATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 3 0.18
16 5 0.29
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (16 bp):
AAATTTTGTACCTACG
Found at i:23656672 original size:30 final size:29
Alignment explanation
Indices: 23656578--23656679 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
23656568 TATAGTGAAT
* * *
23656578 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
23656607 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
23656635 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
23656665 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
23656680 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:23664136 original size:40 final size:39
Alignment explanation
Indices: 23664045--23664195 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
23664035 ATCACGATTT
* *
23664045 GCACAAATGCCTTTGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
23664085 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * * ** *
23664125 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
23664165 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
23664196 TCATTCAATT
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 84 0.93
41 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:23667863 original size:30 final size:29
Alignment explanation
Indices: 23667769--23667870 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
23667759 TATAGTGAAT
* * *
23667769 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
23667798 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
23667826 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
23667856 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
23667871 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:23669649 original size:69 final size:68
Alignment explanation
Indices: 23669572--23669782 Score: 204
Period size: 69 Copynumber: 3.2 Consensus size: 68
23669562 CGAGTATAAG
*
23669572 AACCAATAGAGTCTGCCGGGATAGTAAACATGGGGATTATAAGGTGTAAGAACATAGCTCGGCTA
1 AACCAATAGAGTCTGCAGGGATAGTAAACATGGGGATTATAAGGTGTAAGAACATAGCTC-GCTA
23669637 TGAC
65 TGAC
*** * * ** *
23669641 AACCAATAGAGTCCATAGAGACAGTAAACACAGGGATTATAAGGTGTAAG-----A-CTCACTAT
1 AACCAATAGAGTCTGCAGGGATAGTAAACATGGGGATTATAAGGTGTAAGAACATAGCTCGCTAT
*
23669700 GAA
66 GAC
* * *
23669703 AACTAATAGAGTCTGCTGGGACT-GTAAATATGGGGATTATAAGGTGTAA-AACCATAGCTCAGC
1 AACCAATAGAGTCTGCAGGGA-TAGTAAACATGGGGATTATAAGGTGTAAGAA-CATAGCTC-GC
*
23669766 TATGGC
63 TATGAC
23669772 AACCAATAGAG
1 AACCAATAGAG
23669783 ACCACCAGGA
Statistics
Matches: 109, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
62 44 0.40
63 3 0.03
64 1 0.01
67 1 0.01
68 3 0.03
69 57 0.52
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (68 bp):
AACCAATAGAGTCTGCAGGGATAGTAAACATGGGGATTATAAGGTGTAAGAACATAGCTCGCTAT
GAC
Found at i:23669888 original size:95 final size:96
Alignment explanation
Indices: 23669727--23669903 Score: 232
Period size: 95 Copynumber: 1.9 Consensus size: 96
23669717 GCTGGGACTG
* * *
23669727 TAAATATGGGGATTATAAGGTGTAAAACCATAGCTCAGCTATGGCAACCAATAGAGACCACCAGG
1 TAAATATGGGGATAAAAAGGTGTAAAACCATAGCTCAGCTATGGCAACCAAGAGAGACCACCAGG
*
23669792 ACATTAAACATGAGGTAGTCTAACAGGATGT
66 ACATAAAACATGAGGTAGTCTAACAGGATGT
* * * * * * *
23669823 TAAATATGGGG-TAAAAATGTGTAAGACTATGGCTTAGCTATGGCAA-CAAGGAGAGTCCACGAG
1 TAAATATGGGGATAAAAAGGTGTAAAACCATAGCTCAGCTATGGCAACCAA-GAGAGACCACCAG
23669886 GACATAAAACATGAGGTA
65 GACATAAAACATGAGGTA
23669904 TTATACATAA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
94 3 0.04
95 55 0.80
96 11 0.16
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (96 bp):
TAAATATGGGGATAAAAAGGTGTAAAACCATAGCTCAGCTATGGCAACCAAGAGAGACCACCAGG
ACATAAAACATGAGGTAGTCTAACAGGATGT
Found at i:23670380 original size:34 final size:34
Alignment explanation
Indices: 23670341--23670405 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
23670331 AGTTAGAACC
* *
23670341 CATTGACAAGAAGAGGTACTAAGAAGGATAAACT
1 CATTGACAAGAAAAGGTACTAAGAAGCATAAACT
* * *
23670375 CATTGATAGGAAAAGGTGCTAAGAAGCATAA
1 CATTGACAAGAAAAGGTACTAAGAAGCATAA
23670406 TCTAGGTGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.46, C:0.11, G:0.25, T:0.18
Consensus pattern (34 bp):
CATTGACAAGAAAAGGTACTAAGAAGCATAAACT
Found at i:23671746 original size:17 final size:17
Alignment explanation
Indices: 23671724--23671757 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23671714 GATGAGTGAA
23671724 TATTTATGTCACTTCAT
1 TATTTATGTCACTTCAT
*
23671741 TATTTATGTTACTTCAT
1 TATTTATGTCACTTCAT
23671758 CCCTTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (17 bp):
TATTTATGTCACTTCAT
Found at i:23682401 original size:33 final size:34
Alignment explanation
Indices: 23682339--23682405 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 34
23682329 TATGTGTCAA
*
23682339 AATTTTGTGAGTTAATTTTATCGATTGGTTGGTT
1 AATTTTGTGAGTTAATTTTATCGACTGGTTGGTT
23682373 AATTTTGTGAGTTAA-TTTATCGACTGGTTGGTT
1 AATTTTGTGAGTTAATTTTATCGACTGGTTGGTT
23682406 TATTAAATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 17 0.53
34 15 0.47
ACGTcount: A:0.21, C:0.04, G:0.24, T:0.51
Consensus pattern (34 bp):
AATTTTGTGAGTTAATTTTATCGACTGGTTGGTT
Found at i:23683413 original size:40 final size:40
Alignment explanation
Indices: 23683308--23683421 Score: 174
Period size: 40 Copynumber: 2.9 Consensus size: 40
23683298 GTTATTTGTA
* *
23683308 GCACTTAGTGTGCGATACGACATAGCTTCAGCTATATATG
1 GCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATG
23683348 GCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATG
* * * *
23683388 GTACTTAGTGTGCCATTTGAGATAGCTTCGGCTA
1 GCACTTAGTGTGCGATTCGACATAGCTTCGGCTA
23683422 CGTACGGTAC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATATG
Found at i:23683459 original size:28 final size:28
Alignment explanation
Indices: 23683427--23683482 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
23683417 GGCTACGTAC
* * *
23683427 GGTACTTTGCGTGTGAGATATTGAGTAT
1 GGTACTTAGCGTGCGAGACATTGAGTAT
*
23683455 GGTACTTAGTGTGCGAGACATTGAGTAT
1 GGTACTTAGCGTGCGAGACATTGAGTAT
23683483 TCGACAGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.23, C:0.09, G:0.32, T:0.36
Consensus pattern (28 bp):
GGTACTTAGCGTGCGAGACATTGAGTAT
Found at i:23693530 original size:14 final size:14
Alignment explanation
Indices: 23693511--23693544 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23693501 TTGTTTCACT
23693511 GAAAATGACTTCCG
1 GAAAATGACTTCCG
* *
23693525 GAAAATGATTTCTG
1 GAAAATGACTTCCG
23693539 GAAAAT
1 GAAAAT
23693545 AATTTATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (14 bp):
GAAAATGACTTCCG
Found at i:23694016 original size:15 final size:15
Alignment explanation
Indices: 23693996--23694047 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
23693986 ACTATAAAAC
23693996 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
23694011 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
23694030 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
23694045 ATT
1 ATT
23694048 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:23694105 original size:15 final size:16
Alignment explanation
Indices: 23694085--23694115 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23694075 AACAATATCA
23694085 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
23694100 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
23694116 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:23694140 original size:18 final size:18
Alignment explanation
Indices: 23694102--23694137 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23694092 TTATTATTTT
*
23694102 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
23694120 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
23694138 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:23694176 original size:22 final size:22
Alignment explanation
Indices: 23694142--23694183 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23694132 ATTAAATAAT
23694142 TTATTAAAATAATAAATTATAC
1 TTATTAAAATAATAAATTATAC
* * *
23694164 TTATTATATTAATAATTTAT
1 TTATTAAAATAATAAATTAT
23694184 TATATGACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TTATTAAAATAATAAATTATAC
Found at i:23694680 original size:29 final size:29
Alignment explanation
Indices: 23694638--23694697 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
23694628 TCTCTAGCTA
*
23694638 GTAGAGTCTTGGCAAAACAAATCCCCAGG
1 GTAGAGTCTCGGCAAAACAAATCCCCAGG
* * *
23694667 GTAGAGTCTCGGCATAACACATCCCTAGG
1 GTAGAGTCTCGGCAAAACAAATCCCCAGG
23694696 GT
1 GT
23694698 TTGTCCTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (29 bp):
GTAGAGTCTCGGCAAAACAAATCCCCAGG
Found at i:23698244 original size:67 final size:65
Alignment explanation
Indices: 23698074--23698220 Score: 174
Period size: 67 Copynumber: 2.3 Consensus size: 65
23698064 CAGTACTACC
* * * * * * *
23698074 CATGTGACCTAGCCA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCA
1 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTG--CTACACATAGAACCA
23698138 CG
64 CG
* *
23698140 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTG-TACACATAGTATCAC-
1 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACG
23698203 CATGCGACCTAGCTACAT
1 CATGCGACCTAGCTACAT
23698221 CATAATGTCT
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
63 18 0.25
64 10 0.14
66 13 0.18
67 30 0.42
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (65 bp):
CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGCTACACATAGAACCACG
Found at i:23710763 original size:18 final size:18
Alignment explanation
Indices: 23710726--23710763 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
23710716 TAAATGATGA
23710726 ATTTAAAATATTAGTTGTT
1 ATTTAAAATATTA-TTGTT
23710745 ATTTAAAAATATT-TTGTT
1 ATTT-AAAATATTATTGTT
23710763 A
1 A
23710764 AGTAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (18 bp):
ATTTAAAATATTATTGTT
Found at i:23711456 original size:20 final size:20
Alignment explanation
Indices: 23711396--23711533 Score: 98
Period size: 20 Copynumber: 7.0 Consensus size: 20
23711386 TCGATACCCT
*
23711396 TGTTTGCACATCAATGCCCC
1 TGTTTGCACATCAGTGCCCC
* * * * **
23711416 TATTTGTACTTCGGTAACCC
1 TGTTTGCACATCAGTGCCCC
23711436 TGTTTGCACATCAGTGCCCC
1 TGTTTGCACATCAGTGCCCC
* * * *
23711456 TGATTGTACATCGGTACCCC
1 TGTTTGCACATCAGTGCCCC
* * *
23711476 TGTTTGCACCTCGGTG-CCT
1 TGTTTGCACATCAGTGCCCC
* * * * *
23711495 TGATTGTACTTCAATACCCC
1 TGTTTGCACATCAGTGCCCC
23711515 TGTTTGCACATCAGTGCCC
1 TGTTTGCACATCAGTGCCC
23711534 TGATTGTACC
Statistics
Matches: 83, Mismatches: 34, Indels: 2
0.70 0.29 0.02
Matches are distributed among these distances:
19 12 0.14
20 71 0.86
ACGTcount: A:0.17, C:0.31, G:0.18, T:0.33
Consensus pattern (20 bp):
TGTTTGCACATCAGTGCCCC
Found at i:23711513 original size:39 final size:40
Alignment explanation
Indices: 23711368--23711554 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
23711358 GAAATGAAGA
* *
23711368 AGTGCCCCTAATTGTACTTCGATACCCTTGTTTGCACATC
1 AGTGCCCCTGATTGTACTTCGATACCCCTGTTTGCACATC
* * *
23711408 AATGCCCCT-ATTTGTACTTCGGTAACCCTGTTTGCACATC
1 AGTGCCCCTGA-TTGTACTTCGATACCCCTGTTTGCACATC
* * *
23711448 AGTGCCCCTGATTGTACATCGGTACCCCTGTTTGCACCTC
1 AGTGCCCCTGATTGTACTTCGATACCCCTGTTTGCACATC
* * *
23711488 GGTG-CCTTGATTGTACTTCAATACCCCTGTTTGCACATC
1 AGTGCCCCTGATTGTACTTCGATACCCCTGTTTGCACATC
* *
23711527 AGTG-CCCTGATTGTACCTCAATACCCCT
1 AGTGCCCCTGATTGTACTTCGATACCCCT
23711555 AAATGCACAT
Statistics
Matches: 128, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
39 56 0.44
40 71 0.55
41 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.33
Consensus pattern (40 bp):
AGTGCCCCTGATTGTACTTCGATACCCCTGTTTGCACATC
Found at i:23711572 original size:39 final size:39
Alignment explanation
Indices: 23711440--23711572 Score: 97
Period size: 39 Copynumber: 3.4 Consensus size: 39
23711430 TAACCCTGTT
* * ** ***
23711440 TGCACATCAGTGCCCCTGATTGTACATCGGTACCCCTGTT
1 TGCACATCAATG-CCCTGATTGTACCTCAATACCCCTAAA
* ** * * ***
23711480 TGCACCTCGGTGCCTTGATTGTACTTCAATACCCCTGTT
1 TGCACATCAATGCCCTGATTGTACCTCAATACCCCTAAA
*
23711519 TGCACATCAGTGCCCTGATTGTACCTCAATACCCCTAAA
1 TGCACATCAATGCCCTGATTGTACCTCAATACCCCTAAA
23711558 TGCACAT-ATATGCCC
1 TGCACATCA-ATGCCC
23711573 CTGTTTGCAC
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
38 1 0.01
39 67 0.86
40 10 0.13
ACGTcount: A:0.21, C:0.32, G:0.17, T:0.30
Consensus pattern (39 bp):
TGCACATCAATGCCCTGATTGTACCTCAATACCCCTAAA
Found at i:23711594 original size:20 final size:19
Alignment explanation
Indices: 23711571--23711632 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
23711561 ACATATATGC
*
23711571 CCCTGTTTGCACTTTGATG
1 CCCTGATTGCACTTTGATG
* *
23711590 TCCCTGATCGCACATTCG-TG
1 -CCCTGATTGCAC-TTTGATG
23711610 CTCCTGATTGCACTTTGATG
1 C-CCTGATTGCACTTTGATG
23711630 CCC
1 CCC
23711633 CTTTTATGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
19 6 0.18
20 25 0.74
21 3 0.09
ACGTcount: A:0.13, C:0.32, G:0.19, T:0.35
Consensus pattern (19 bp):
CCCTGATTGCACTTTGATG
Found at i:23711603 original size:40 final size:40
Alignment explanation
Indices: 23711559--23711634 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
23711549 ACCCCTAAAT
* *
23711559 GCACATAT-ATGCCCCTGTTTGCACTTTGATGTCCCTGATC
1 GCACAT-TCATGCCCCTGATTGCACTTTGATGCCCCTGATC
* *
23711599 GCACATTCGTGCTCCTGATTGCACTTTGATGCCCCT
1 GCACATTCATGCCCCTGATTGCACTTTGATGCCCCT
23711635 TTTATGCATC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.03
40 30 0.97
ACGTcount: A:0.16, C:0.32, G:0.18, T:0.34
Consensus pattern (40 bp):
GCACATTCATGCCCCTGATTGCACTTTGATGCCCCTGATC
Found at i:23714126 original size:20 final size:21
Alignment explanation
Indices: 23714078--23714127 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
23714068 AATAATTCAT
23714078 GCAAATTTTGAGTATTTTAATA
1 GCAAATTTTGAG-ATTTTAATA
*
23714100 GCAAATTTTGTAG-TTTTATTA
1 GCAAATTTTG-AGATTTTAATA
23714121 -CAAATTT
1 GCAAATTT
23714128 GTACAATAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 7 0.27
21 7 0.27
22 10 0.38
23 2 0.08
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (21 bp):
GCAAATTTTGAGATTTTAATA
Found at i:23716904 original size:15 final size:15
Alignment explanation
Indices: 23716884--23716952 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
23716874 GTATCTTGGG
23716884 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
23716899 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
23716914 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
23716929 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
23716944 TTTCTTTAT
1 TTTCTTTAT
23716953 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:23716953 original size:30 final size:30
Alignment explanation
Indices: 23716875--23716971 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
23716865 CATAGTATCG
* * * *
23716875 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
23716905 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
23716935 TATCTTGGATTTCTTTATTC-GGTTTTCTTC
1 TATCTTGGATTTCTTTATTCTGGATTTC-TC
23716965 TTATCTT
1 -TATCTT
23716972 TGTTCCATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
29 7 0.12
30 43 0.75
31 7 0.12
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:23723285 original size:5 final size:5
Alignment explanation
Indices: 23723258--23723297 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
23723248 CTAATTTAAC
* *
23723258 ATAAA ATTAA ATAAA AAATAA ATAAA ATAAA ATAAA ATAA
1 ATAAA ATAAA ATAAA ATA-AA ATAAA ATAAA ATAAA ATAA
23723298 GATTTATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:23735209 original size:19 final size:19
Alignment explanation
Indices: 23735185--23735224 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
23735175 ATTTTTTTTT
* *
23735185 ATTAGAATCGAAAAGTTTA
1 ATTAGAATAGAAAAGTATA
23735204 ATTAGAATAGAAAAGTATA
1 ATTAGAATAGAAAAGTATA
23735223 AT
1 AT
23735225 AAAAGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.30
Consensus pattern (19 bp):
ATTAGAATAGAAAAGTATA
Found at i:23736034 original size:52 final size:52
Alignment explanation
Indices: 23735972--23736075 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
23735962 ATTTATAGCA
23735972 ATAAACTTTAACCAAATTCATACCTATGTTTTTAGCTTAGCGGACGTTCTTT
1 ATAAACTTTAACCAAATTCATACCTATGTTTTTAGCTTAGCGGACGTTCTTT
*
23736024 ATAAACTTTAACCAAATTCATACCTATGTTTTTAGCTTAGCGGATGTTCTTT
1 ATAAACTTTAACCAAATTCATACCTATGTTTTTAGCTTAGCGGACGTTCTTT
23736076 GTTCCTAACT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (52 bp):
ATAAACTTTAACCAAATTCATACCTATGTTTTTAGCTTAGCGGACGTTCTTT
Found at i:23736690 original size:26 final size:26
Alignment explanation
Indices: 23736659--23736747 Score: 99
Period size: 26 Copynumber: 3.4 Consensus size: 26
23736649 ATTTTACTCC
*
23736659 GGTAAAATTTTGACGATTTTATCGCT
1 GGTAAAATTTTGACGATTTTATCCCT
* * * *
23736685 GGTAAAATTTTGACAATTGTACCCCC
1 GGTAAAATTTTGACGATTTTATCCCT
**
23736711 GGTAAAATTTCAACGATTTTATCCCCT
1 GGTAAAATTTTGACGATTTTAT-CCCT
23736738 -GTAAAATTTT
1 GGTAAAATTTT
23736748 CAGAAAATTA
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 47 0.94
27 3 0.06
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (26 bp):
GGTAAAATTTTGACGATTTTATCCCT
Found at i:23754826 original size:20 final size:20
Alignment explanation
Indices: 23754803--23754857 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
23754793 ACATGGTTGA
23754803 TATGATATGCACATGACATG
1 TATGATATGCACATGACATG
* *
23754823 TATGATATACACATGATATG
1 TATGATATGCACATGACATG
*
23754843 TATGAAATGCACATG
1 TATGATATGCACATG
23754858 GTGTATTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (20 bp):
TATGATATGCACATGACATG
Found at i:23754945 original size:26 final size:26
Alignment explanation
Indices: 23754909--23755043 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
23754899 GAGGAAGTGC
*
23754909 AAAAGGGCTTACGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
23754935 AAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
23754961 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
23754987 AAAAGGGCTT-TGCCCCAATTTA-TC
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
23755011 AAGAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
23755034 AAAAGAGGCT
1 AAAAG-GGCT
23755044 AGGCCTCCAG
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
23 7 0.07
24 22 0.22
25 11 0.11
26 59 0.60
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:23759837 original size:14 final size:14
Alignment explanation
Indices: 23759818--23759849 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
23759808 ACACTCGGAA
23759818 GTTTTCGTAGAAAG
1 GTTTTCGTAGAAAG
23759832 GTTTTCGTAGAAAG
1 GTTTTCGTAGAAAG
23759846 GTTT
1 GTTT
23759850 CAACCTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.06, G:0.28, T:0.41
Consensus pattern (14 bp):
GTTTTCGTAGAAAG
Found at i:23761945 original size:19 final size:19
Alignment explanation
Indices: 23761923--23761960 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
23761913 ATGCTTGGAG
23761923 TTTAATTTGATCCTTGATT
1 TTTAATTTGATCCTTGATT
23761942 TTTAATTTGATCCTTGATT
1 TTTAATTTGATCCTTGATT
23761961 ACTCCTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (19 bp):
TTTAATTTGATCCTTGATT
Found at i:23765415 original size:30 final size:31
Alignment explanation
Indices: 23765340--23765415 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
23765330 AATATAACAT
* *
23765340 TTGGTACCTGAACTTGACACTTTTTCCTAAT
1 TTGGTACCTAAACTTGACACTTTTTCCTAAG
* * *
23765371 TTGGCACCTAAACTTGAGACTTTTT-TTAAG
1 TTGGTACCTAAACTTGACACTTTTTCCTAAG
*
23765401 TTGGTACTTAAACTT
1 TTGGTACCTAAACTT
23765416 TTTGGGGTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 16 0.42
31 22 0.58
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.42
Consensus pattern (31 bp):
TTGGTACCTAAACTTGACACTTTTTCCTAAG
Found at i:23765712 original size:31 final size:32
Alignment explanation
Indices: 23765653--23765725 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 32
23765643 AAAAGCTTAA
*
23765653 GTACCAAATTAGGAAAAAAAATGCCAAGTTTAG
1 GTACCAAATTAGG-AAAAAAATGCCAAGTTCAG
* *
23765686 GTACCAAATTAGG-AAAAAGTGTCAAGTTCAG
1 GTACCAAATTAGGAAAAAAATGCCAAGTTCAG
23765717 GTACCAAAT
1 GTACCAAAT
23765726 ATTATATTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 24 0.65
33 13 0.35
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (32 bp):
GTACCAAATTAGGAAAAAAATGCCAAGTTCAG
Found at i:23767731 original size:30 final size:28
Alignment explanation
Indices: 23767653--23767732 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 28
23767643 AACTTTGATT
* *
23767653 AAAATAACAATACAGACACTAAATTTAGA
1 AAAATAACAA-CCAGTCACTAAATTTAGA
* * *
23767682 AAAGTGACAACTCAATCACTAAAGTTTAGA
1 AAAATAACAAC-CAGTCACTAAA-TTTAGA
23767712 AAAATAACAAGCCAGTCACTA
1 AAAATAACAA-CCAGTCACTA
23767733 GTAATCATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
29 17 0.43
30 22 0.55
31 1 0.03
ACGTcount: A:0.53, C:0.17, G:0.10, T:0.20
Consensus pattern (28 bp):
AAAATAACAACCAGTCACTAAATTTAGA
Found at i:23768519 original size:3 final size:3
Alignment explanation
Indices: 23768511--23768557 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
23768501 TTCATGGAAT
23768511 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
23768558 TTGGGTCATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:23769911 original size:20 final size:21
Alignment explanation
Indices: 23769889--23769943 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
23769879 CCTATTCAAT
23769889 TATTAAAATAATAATTTAATTA
1 TATTAAAATAATAATTTAA-TA
*
23769911 TATTATAAAT--TAATTTAATG
1 TATTA-AAATAATAATTTAATA
23769931 TATTTAAAATAAT
1 TA-TTAAAATAAT
23769944 TGCAAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
20 7 0.25
21 11 0.39
22 6 0.21
23 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TATTAAAATAATAATTTAATA
Found at i:23772495 original size:17 final size:17
Alignment explanation
Indices: 23772455--23772496 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
23772445 AAATTATTTT
23772455 TTAAAAGAATATAATAAA
1 TTAAAA-AATATAATAAA
*
23772473 TTAAAATATATAAT--A
1 TTAAAAAATATAATAAA
23772488 TTAAAAAAT
1 TTAAAAAAT
23772497 TTACTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 9 0.41
17 7 0.32
18 6 0.27
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
TTAAAAAATATAATAAA
Found at i:23773001 original size:41 final size:41
Alignment explanation
Indices: 23772944--23773027 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
23772934 GTAAACACTC
23772944 AATTTTGCTTACAACCTTAAGTTGTGTCCTAGACTTATTAA
1 AATTTTGCTTACAACCTTAAGTTGTGTCCTAGACTTATTAA
23772985 AATTTTGCTTACAACCTTAAGTTGTGTCCTAGACTTATTAA
1 AATTTTGCTTACAACCTTAAGTTGTGTCCTAGACTTATTAA
23773026 AA
1 AA
23773028 CACCTGGCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (41 bp):
AATTTTGCTTACAACCTTAAGTTGTGTCCTAGACTTATTAA
Found at i:23776295 original size:10 final size:10
Alignment explanation
Indices: 23776277--23776324 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
23776267 ATTTTAGGAT
23776277 TTTAT-TTTA
1 TTTATCTTTA
23776286 TTTATCTTTA
1 TTTATCTTTA
23776296 TTTATCTTTA
1 TTTATCTTTA
* ** *
23776306 ATTAAATGTA
1 TTTATCTTTA
23776316 TTTATCTTT
1 TTTATCTTT
23776325 TTAGAATTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:23776335 original size:15 final size:15
Alignment explanation
Indices: 23776315--23776349 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
23776305 AATTAAATGT
23776315 ATTTATCTTTTTAGA
1 ATTTATCTTTTTAGA
23776330 ATTTATCTTTTTAGA
1 ATTTATCTTTTTAGA
23776345 ATTTA
1 ATTTA
23776350 AGTTAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (15 bp):
ATTTATCTTTTTAGA
Found at i:23783243 original size:2 final size:2
Alignment explanation
Indices: 23783236--23783272 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
23783226 GATTATTATG
23783236 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23783273 CACATGTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23786121 original size:16 final size:16
Alignment explanation
Indices: 23786100--23786131 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23786090 CTTGTAACGC
*
23786100 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
23786116 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
23786132 TCCCGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:23787661 original size:29 final size:29
Alignment explanation
Indices: 23787628--23787729 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 29
23787618 TGAATATGAC
*
23787628 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
23787657 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
23787686 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
23787714 TGGG-CTCAATGGGCCA
1 TGGGCCT-AATGGGCCA
23787730 GATACAGGTA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
27 2 0.03
28 14 0.22
29 49 0.75
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:23787700 original size:58 final size:57
Alignment explanation
Indices: 23787628--23787738 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 57
23787618 TGAATATGAC
* *
23787628 TGGGCCTAACGGGCCATATAAATGTGATTTGGGC-CTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCTC-AATGGGCCAGATACAGGTGATT
* *
23787686 TGGGCCTAATGGGCCATATGAATATGATTGGGCTCAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCTCAATGGGCCAGATACAGGT
23787739 ATATGAGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
57 23 0.48
58 25 0.52
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCTCAATGGGCCAGATACAGGTGATT
Found at i:23787756 original size:57 final size:58
Alignment explanation
Indices: 23787631--23787745 Score: 146
Period size: 57 Copynumber: 2.0 Consensus size: 58
23787621 ATATGACTGG
* * * * *
23787631 GCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATTTGG
1 GCCTAATGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATATGA
*
23787689 GCCTAATGGGCCATATGAATATGA-TTGGG-CTCAATGGGCCAGATACAGGT-ATATGA
1 GCCTAATGGGCCATATAAATATGATTTGGGCCT-AATGGGCCAGATACAGGTGATATGA
23787745 G
1 G
23787746 TTTATTTGGG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
56 7 0.14
57 22 0.44
58 21 0.42
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (58 bp):
GCCTAATGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATATGA
Found at i:23792973 original size:58 final size:57
Alignment explanation
Indices: 23792868--23793016 Score: 131
Period size: 58 Copynumber: 2.6 Consensus size: 57
23792858 ATTGACCTTG
* *** * * *
23792868 TTATAGAAAGGATTTAGCCCGGACGGGTAATCCTGATATAACACCTCTCGAGCATACG
1 TTATATAAAGGATTTAGCCTAAACTGGTAATCCTAATATAACACCTCT-GAGCATACA
* * * * * * *
23792926 TTATGATTATGG-TTTAGCCTGGAA-TGGTAATCCTAATCTAGCTCCTCTGAGTATACA
1 TTAT-ATAAAGGATTTAGCCT-AAACTGGTAATCCTAATATAACACCTCTGAGCATACA
23792983 TTATATAAAGGATTTAGCCTAAACTGGTAATCCT
1 TTATATAAAGGATTTAGCCTAAACTGGTAATCCT
23793017 GTTATACGAT
Statistics
Matches: 72, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
56 7 0.10
57 29 0.40
58 30 0.42
59 6 0.08
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (57 bp):
TTATATAAAGGATTTAGCCTAAACTGGTAATCCTAATATAACACCTCTGAGCATACA
Found at i:23797455 original size:21 final size:21
Alignment explanation
Indices: 23797426--23797501 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
23797416 CTAGGAACTA
23797426 TGTGATCTGAACTCATTGAGT
1 TGTGATCTGAACTCATTGAGT
* ** *
23797447 TGTGGTCTGAGTTCA-TGATAT
1 TGTGATCTGAACTCATTGA-GT
*
23797468 ATGTGACATCTAAACTCATTGAGT
1 -TGTG--ATCTGAACTCATTGAGT
*
23797492 TGTGGTCTGA
1 TGTGATCTGA
23797502 GTTCATGATG
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
20 3 0.08
21 17 0.44
22 4 0.10
23 4 0.10
24 8 0.21
25 3 0.08
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (21 bp):
TGTGATCTGAACTCATTGAGT
Found at i:23797486 original size:45 final size:45
Alignment explanation
Indices: 23797430--23797520 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
23797420 GAACTATGTG
*
23797430 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
* *
23797475 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATTTGAC
1 ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
23797520 A
1 A
23797521 CATGTTTTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (45 bp):
ATCTAAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
Found at i:23799922 original size:11 final size:11
Alignment explanation
Indices: 23799906--23799933 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
23799896 TGTCAAAGTA
23799906 AATTTTTTAAT
1 AATTTTTTAAT
23799917 AATTTTTTAAT
1 AATTTTTTAAT
23799928 AATTTT
1 AATTTT
23799934 AAATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
AATTTTTTAAT
Found at i:23808477 original size:12 final size:12
Alignment explanation
Indices: 23808444--23808478 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
23808434 TGAGACAAGA
23808444 TATTCTTTAAAT
1 TATTCTTTAAAT
*
23808456 TACTCTTTTAAAT
1 TATTC-TTTAAAT
23808469 TATTCTTTAA
1 TATTCTTTAA
23808479 GTAACCTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:23808694 original size:58 final size:61
Alignment explanation
Indices: 23808619--23808735 Score: 168
Period size: 61 Copynumber: 2.0 Consensus size: 61
23808609 GTTATTGTTA
* *
23808619 TATTAAGAATATTATTAAATTA-TA-TATTATTATTGTTAAATTATATTTAATAATAAATT
1 TATTAAGAATATGATTAAATTAGTATTATTATTATTATTAAATTATATTTAATAATAAATT
* *
23808678 TATTAA-AATATGATTAAATTATGTATTATTGTTTTTATTAAATTATATTTAATAATAA
1 TATTAAGAATATGATTAAATTA-GTATTATTATTATTATTAAATTATATTTAATAATAA
23808736 TCTCATCTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
58 14 0.27
59 6 0.12
60 2 0.04
61 29 0.57
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (61 bp):
TATTAAGAATATGATTAAATTAGTATTATTATTATTATTAAATTATATTTAATAATAAATT
Found at i:23808909 original size:16 final size:16
Alignment explanation
Indices: 23808883--23808945 Score: 65
Period size: 16 Copynumber: 4.0 Consensus size: 16
23808873 AATTAAATTA
*
23808883 CTATTATAATTTTATT
1 CTATTACAATTTTATT
* *
23808899 TTATTACAA-TTTACT
1 CTATTACAATTTTATT
* *
23808914 CCATTATAATTTTATT
1 CTATTACAATTTTATT
*
23808930 CTATTACAATTCTATT
1 CTATTACAATTTTATT
23808946 ATATATTTTT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
15 11 0.31
16 25 0.69
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.56
Consensus pattern (16 bp):
CTATTACAATTTTATT
Found at i:23813377 original size:43 final size:43
Alignment explanation
Indices: 23813316--23813403 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
23813306 AAGTTCATTG
23813316 TAGCCCTGATATTCTGACACTTGCTTGCTTAATATGTGATTTT
1 TAGCCCTGATATTCTGACACTTGCTTGCTTAATATGTGATTTT
23813359 TAGCCCTGATATTCTGACACTTGCTTGCTTAATATGTGATTTT
1 TAGCCCTGATATTCTGACACTTGCTTGCTTAATATGTGATTTT
23813402 TA
1 TA
23813404 CTTGTGAATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (43 bp):
TAGCCCTGATATTCTGACACTTGCTTGCTTAATATGTGATTTT
Found at i:23830772 original size:30 final size:28
Alignment explanation
Indices: 23830697--23830782 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 28
23830687 TTTATATTCA
23830697 TTAAAAATTTAAAA-ATATATATAAATTTT
1 TTAAAAA-TTAAAATATATATATAAA-TTT
23830726 TTATAAAATTCCAAAATATATTATTATAAA-TT
1 TTA-AAAATT--AAAATATA-TA-TATAAATTT
23830758 TTAAAAAGTTAAAATA-ATATATAAA
1 TTAAAAA-TTAAAATATATATATAAA
23830783 AGTTAAAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
27 6 0.12
28 2 0.04
29 6 0.12
30 10 0.20
31 8 0.16
32 10 0.20
33 2 0.04
34 6 0.12
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (28 bp):
TTAAAAATTAAAATATATATATAAATTT
Found at i:23830799 original size:19 final size:19
Alignment explanation
Indices: 23830755--23830802 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
23830745 ATTATTATAA
23830755 ATTTTA-AAAAGTTAAAAT
1 ATTTTATAAAAGTTAAAAT
* *
23830773 AATATATAAAAGTTAAAAT
1 ATTTTATAAAAGTTAAAAT
*
23830792 TTTTTATAAAA
1 ATTTTATAAAA
23830803 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
ATTTTATAAAAGTTAAAAT
Found at i:23835738 original size:13 final size:13
Alignment explanation
Indices: 23835720--23835754 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
23835710 GACTTAAGCC
*
23835720 CACGGCTATATGA
1 CACGGCCATATGA
23835733 CACGGCCATATGA
1 CACGGCCATATGA
*
23835746 CACGCCCAT
1 CACGGCCAT
23835755 GTGTCTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (13 bp):
CACGGCCATATGA
Found at i:23837582 original size:68 final size:70
Alignment explanation
Indices: 23837510--23837707 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
23837500 ACACCCTGTA
* * * *
23837510 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
23837572 ATAAAT
65 ATAAAT
*
23837578 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
23837643 ATAAAT
65 ATAAAT
*
23837649 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
23837708 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:23837621 original size:41 final size:41
Alignment explanation
Indices: 23837576--23837693 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
23837566 TGAAAGATAA
23837576 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
23837617 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23837647 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23837688 ATGTAG
1 ATGTAG
23837694 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:23837633 original size:71 final size:71
Alignment explanation
Indices: 23837544--23837707 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
23837534 GAGATGTATC
23837544 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23837609 AGGACA
66 AGGACA
23837615 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23837680 AGGACA
66 AGGACA
23837686 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
23837708 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:23845176 original size:41 final size:41
Alignment explanation
Indices: 23845131--23845247 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
23845121 TGAAAGATAA
23845131 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * *
23845172 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAA-GATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23845201 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23845242 ATGTAG
1 ATGTAG
23845248 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 8, Indels: 28
0.60 0.09 0.31
Matches are distributed among these distances:
28 1 0.02
29 8 0.15
30 4 0.07
31 6 0.11
32 2 0.04
33 2 0.04
34 1 0.02
36 1 0.02
37 2 0.04
38 2 0.04
39 6 0.11
40 4 0.07
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:23845219 original size:70 final size:71
Alignment explanation
Indices: 23845099--23845261 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
23845089 GAGATGTATC
23845099 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23845164 AGGACA
66 AGGACA
23845170 CCATGTAGACAAGAGAGCTACGTG-AAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23845234 AGGACA
66 AGGACA
23845240 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
23845262 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 68 0.74
71 24 0.26
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:23849008 original size:39 final size:39
Alignment explanation
Indices: 23848964--23849239 Score: 489
Period size: 39 Copynumber: 7.1 Consensus size: 39
23848954 ATTATATTAT
* *
23848964 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
23849003 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
23849042 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
23849081 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
23849120 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
23849159 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
23849198 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
23849237 CAG
1 CAG
23849240 TGTCTTGCAT
Statistics
Matches: 227, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 227 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:23852378 original size:34 final size:34
Alignment explanation
Indices: 23852340--23852414 Score: 150
Period size: 34 Copynumber: 2.2 Consensus size: 34
23852330 ATAACGAATG
23852340 GTCTTCAACATGATCCAATATCTTTTCTGTTACT
1 GTCTTCAACATGATCCAATATCTTTTCTGTTACT
23852374 GTCTTCAACATGATCCAATATCTTTTCTGTTACT
1 GTCTTCAACATGATCCAATATCTTTTCTGTTACT
23852408 GTCTTCA
1 GTCTTCA
23852415 CTTGCGGACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (34 bp):
GTCTTCAACATGATCCAATATCTTTTCTGTTACT
Found at i:23854920 original size:39 final size:39
Alignment explanation
Indices: 23854877--23855035 Score: 264
Period size: 39 Copynumber: 4.1 Consensus size: 39
23854867 ATTATATTAT
* *
23854877 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
23854916 CAGCACGAAGCCTGTGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
23854955 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
23854994 CAGCACGAAGCTTGCGGGACTTTTGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
23855033 CAG
1 CAG
23855036 TGTCTTGCAT
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:23861198 original size:50 final size:50
Alignment explanation
Indices: 23861073--23861269 Score: 243
Period size: 50 Copynumber: 3.9 Consensus size: 50
23861063 TAGCCAAAGC
* * *
23861073 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAAT
* *
23861122 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAAT
* * * * * * *
23861172 CATCTGATACACGTAGTAGCCAGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-T
* * *
23861223 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCT
23861270 CACAATAGAT
Statistics
Matches: 124, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
49 42 0.34
50 45 0.36
51 37 0.30
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAAT
Found at i:23861250 original size:101 final size:99
Alignment explanation
Indices: 23861086--23861269 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 99
23861076 CTGGTACGCA
* * * *
23861086 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCAGCACATAGTACTACACACGCGACCAATTATCGGGTACACATAGTAGCCTGCACTTA
*
23861151 GTACTACACATGTGACCTAACCATCTGATACACG
66 GTACTACACATGCGACCTAACCATCTGATACACG
* * * *
23861185 TAGTAGCCAGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCAGCACATAGTACTACACACGCGA-CCAA-TTATCGGGTACACATAGTAGCCTGCACT
23861250 TAGTACTACACATGCGACCT
64 TAGTACTACACATGCGACCT
23861270 CACAATAGAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 27 0.36
100 3 0.04
101 44 0.59
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCAGCACATAGTACTACACACGCGACCAATTATCGGGTACACATAGTAGCCTGCACTTA
GTACTACACATGCGACCTAACCATCTGATACACG
Found at i:23879151 original size:26 final size:26
Alignment explanation
Indices: 23879122--23879172 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
23879112 CACTTACTGC
*
23879122 TACTGGCAGCTATGCTGCGTTATTGT
1 TACTGGCAGCTATGCTGCGATATTGT
*
23879148 TACTGGCAGCTTTGCTGCGATATTG
1 TACTGGCAGCTATGCTGCGATATTG
23879173 GTGTGCTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (26 bp):
TACTGGCAGCTATGCTGCGATATTGT
Found at i:23880064 original size:6 final size:6
Alignment explanation
Indices: 23880055--23880090 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
23880045 GGAAAACTTA
23880055 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
23880091 GTGCTTGTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
AAACAT
Found at i:23882347 original size:46 final size:46
Alignment explanation
Indices: 23882279--23882415 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
23882269 TATAAATACA
* * * *
23882279 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
*
23882325 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
23882371 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
23882416 ATACATGTTC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:23882450 original size:47 final size:47
Alignment explanation
Indices: 23882389--23882723 Score: 447
Period size: 47 Copynumber: 7.1 Consensus size: 47
23882379 ACACATTTCG
* * *
23882389 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
23882436 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
** * *
23882483 TGTTGGCCATTCGG-CTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
23882529 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
23882576 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
23882623 CATTGGCTATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATGCATGTTCACATTCATCA
* * * **
23882674 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
23882721 CAT
1 CAT
23882724 AAAATCCTAA
Statistics
Matches: 262, Mismatches: 21, Indels: 10
0.89 0.07 0.03
Matches are distributed among these distances:
46 41 0.16
47 180 0.69
49 2 0.01
51 39 0.15
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:23882516 original size:93 final size:94
Alignment explanation
Indices: 23882389--23882723 Score: 447
Period size: 93 Copynumber: 3.5 Consensus size: 94
23882379 ACACATTTCG
* * * *
23882389 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
23882454 ATCTCATATATGCATGTTCACATTCATCA
66 ATCACATATATGCATGTTCACATTCATCA
** *
23882483 TGTTGGCCATTCGG-CTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
23882547 ATCACACATACGCATGTTCACATTCATCA
66 ATCACATATATGCATGTTCACATTCATCA
* *
23882576 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCTATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
23882641 ATCACGCATATATATACAGGTTCACATTCATCA
66 ATCA--C--ATATATGCATGTTCACATTCATCA
* * * * **
23882674 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACAT
23882724 AAAATCCTAA
Statistics
Matches: 212, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
93 84 0.40
94 64 0.30
96 1 0.00
98 63 0.30
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (94 bp):
CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACATATATGCATGTTCACATTCATCA
Found at i:23882539 original size:140 final size:143
Alignment explanation
Indices: 23882389--23882723 Score: 460
Period size: 140 Copynumber: 2.3 Consensus size: 143
23882379 ACACATTTCG
*
23882389 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * ** * *
23882454 ATCTCATATATGCATGTTCACATTCATCATGTTGGCCATTCGG-CTTATCA-C-ACATACGCATG
66 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACCAACATACACAGG
23882516 TTCACATTCATCA
131 TTCACATTCATCA
* * **
23882529 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
23882594 ATCACACATACGCATGTTCACATTCATCACATTGGCTATTCGGCCTTATCACGCATATATATACA
66 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-CA-ACATACACA
23882659 GGTTCACATTCATCA
129 GGTTCACATTCATCA
* * **
23882674 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CATTAGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACAT
23882724 AAAATCCTAA
Statistics
Matches: 168, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
140 97 0.58
141 7 0.04
143 1 0.01
145 63 0.38
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (143 bp):
CATTAGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACCAACATACACAGG
TTCACATTCATCA
Found at i:23884273 original size:2 final size:2
Alignment explanation
Indices: 23884266--23884293 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23884256 TACATTCAGC
23884266 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23884294 TCACATAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23898536 original size:78 final size:80
Alignment explanation
Indices: 23898398--23898579 Score: 237
Period size: 78 Copynumber: 2.3 Consensus size: 80
23898388 TCGAATGATG
*
23898398 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATTT
23898463 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * ** *
23898477 TTCCGGGCTAAG-CCTGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCAAAGGCAT
23898539 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
23898556 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
23898580 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 51 0.57
79 26 0.29
80 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATTT
GTGCGAGTTACTATA
Found at i:23898552 original size:40 final size:40
Alignment explanation
Indices: 23898398--23898581 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
23898388 TCGAATGATG
* *
23898398 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
23898438 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23898478 TCCGGGCTAAG-CCTGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23898516 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
23898557 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23898582 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 26 0.21
39 16 0.13
40 73 0.58
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23901745 original size:42 final size:42
Alignment explanation
Indices: 23901698--23901861 Score: 181
Period size: 42 Copynumber: 3.9 Consensus size: 42
23901688 TTAGGGTTAT
*
23901698 TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCTATA
1 TGAGATTACATGTAAGACCATATCTAGGATATGGCATCTATA
* * *
23901740 TGAGATTTCATGTAAGACCATATCTGGGATATAGCAT-TGATA
1 TGAGATTACATGTAAGACCATATCTAGGATATGGCATCT-ATA
** * * *
23901782 TGAGACTT-TGTGTAAGACCATAGT-TGGGCTAGTGGCATCGATA
1 TGAGA-TTACATGTAAGACCATA-TCTAGGATA-TGGCATCTATA
*
23901825 TGAAATTACATGTAAGACCATATCTAGGATATGGCAT
1 TGAGATTACATGTAAGACCATATCTAGGATATGGCAT
23901862 TGGTACGGTA
Statistics
Matches: 101, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 68 0.67
43 32 0.32
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.31
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATCTAGGATATGGCATCTATA
Done.