Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 51 of 297
Found at i:18184093 original size:112 final size:110
Alignment explanation
Indices: 18183951--18184169 Score: 402
Period size: 112 Copynumber: 2.0 Consensus size: 110
18183941 AACTTGGACC
*
18183951 TTGAGATGAAACACAATTTGACTTCCCAGTAGATGACTCTATACTCACATGGTAGATGAAATTTG
1 TTGAGATGAAACACAATTCGACTTCCCAGTAGATGACTCTATACTCACATGGTAGATGAAATTTG
18184016 TAGGTTACCCAGGTCCATGGCACTATCATAAATTCAAACATTCCAAG
66 TAGGTTACCCAGGTCCATGGCACTA--ATAAATTCAAACATTCCAAG
18184063 TTGAGATGAAACACAATTCGACTTCCCAGTAGATGACTCTATACTCACATGGTAGATGAAATTTG
1 TTGAGATGAAACACAATTCGACTTCCCAGTAGATGACTCTATACTCACATGGTAGATGAAATTTG
*
18184128 TAGGTTACCCAGGTCCATGGCACTAGTAAATTCAAACATTCC
66 TAGGTTACCCAGGTCCATGGCACTAATAAATTCAAACATTCC
18184170 TTAAAACTAT
Statistics
Matches: 105, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
110 16 0.15
112 89 0.85
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (110 bp):
TTGAGATGAAACACAATTCGACTTCCCAGTAGATGACTCTATACTCACATGGTAGATGAAATTTG
TAGGTTACCCAGGTCCATGGCACTAATAAATTCAAACATTCCAAG
Found at i:18186118 original size:24 final size:25
Alignment explanation
Indices: 18186070--18186119 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
18186060 GCACAAATGC
18186070 CTTCGGGACTTAGCCCGGAACTAGT
1 CTTCGGGACTTAGCCCGGAACTAGT
*
18186095 CTTCGGGACTTAG-CCGGAATTAGT
1 CTTCGGGACTTAGCCCGGAACTAGT
18186119 C
1 C
18186120 ACTAGCACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (25 bp):
CTTCGGGACTTAGCCCGGAACTAGT
Found at i:18186132 original size:64 final size:64
Alignment explanation
Indices: 18186030--18186158 Score: 190
Period size: 64 Copynumber: 2.0 Consensus size: 64
18186020 GCTCGAATAC
*
18186030 CTTCGGGACATAGCCCGGATATTGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGT
1 CTTCGGGACATAGCCCGGATATTGTAACTAGCACAAATGCCTTCGGGACTTAG-CCGGAACTAGT
* * *
18186095 CTTCGGGACTTAG-CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCGGAATTAGT
1 CTTCGGGACATAGCCCGGATATT-GTAACTAGCACAAATGCCTTCGGGACTTAGCCGGAACTAGT
18186158 C
1 C
18186159 ACTAGCACAA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
63 14 0.24
64 33 0.56
65 12 0.20
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (64 bp):
CTTCGGGACATAGCCCGGATATTGTAACTAGCACAAATGCCTTCGGGACTTAGCCGGAACTAGT
Found at i:18186149 original size:39 final size:39
Alignment explanation
Indices: 18186095--18186187 Score: 186
Period size: 39 Copynumber: 2.4 Consensus size: 39
18186085 CGGAACTAGT
18186095 CTTCGGGACTTAGCCGGAATTAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCGGAATTAGTCACTAGCACAAATGC
18186134 CTTCGGGACTTAGCCGGAATTAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCGGAATTAGTCACTAGCACAAATGC
18186173 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
18186188 CGGTTATCAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
CTTCGGGACTTAGCCGGAATTAGTCACTAGCACAAATGC
Found at i:18187400 original size:53 final size:52
Alignment explanation
Indices: 18187325--18187449 Score: 187
Period size: 53 Copynumber: 2.4 Consensus size: 52
18187315 CTCAAAGCTC
* * * *
18187325 TTTTTCCTTCCTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
1 TTTTTTCTTCTTTTTCTTTCTTCTATTCAGCCAAGAAAAACATGAGAGC-TTT
18187378 TTTTTTCTTCTTTTTCTTTCTTCTATTCAGCCAAGAAAAACATGAGAGCTTT
1 TTTTTTCTTCTTTTTCTTTCTTCTATTCAGCCAAGAAAAACATGAGAGCTTT
*
18187430 TTTTTTCTTTCTTTTCCTTT
1 TTTTTTC-TTCTTTTTCTTT
18187450 TTTCATCATC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
52 10 0.15
53 56 0.85
ACGTcount: A:0.18, C:0.22, G:0.09, T:0.52
Consensus pattern (52 bp):
TTTTTTCTTCTTTTTCTTTCTTCTATTCAGCCAAGAAAAACATGAGAGCTTT
Found at i:18188843 original size:25 final size:24
Alignment explanation
Indices: 18188815--18188861 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
18188805 ATGGAAAATA
18188815 AAGA-AAAACAAAAGAAAGTTAAAAG
1 AAGATAAAACAAAA-AAA-TTAAAAG
*
18188840 AAGATAAAAGAAAAAAATTAAA
1 AAGATAAAACAAAAAAATTAAA
18188862 TTACTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 7 0.35
26 8 0.40
ACGTcount: A:0.74, C:0.02, G:0.13, T:0.11
Consensus pattern (24 bp):
AAGATAAAACAAAAAAATTAAAAG
Found at i:18189021 original size:31 final size:28
Alignment explanation
Indices: 18188986--18189059 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 28
18188976 AACGGCTCAA
*
18188986 TGACTAGAATGTTACAATACGATAACATAAG
1 TGACTA-AATGTAACAATAC-A-AACATAAG
* * *
18189017 TGACTAAAACGTAACATTTCAAACATAAG
1 TGACT-AAATGTAACAATACAAACATAAG
18189046 TGACTAAATGTAAC
1 TGACTAAATGTAAC
18189060 CTGAGGCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
28 8 0.22
29 13 0.35
30 1 0.03
31 14 0.38
32 1 0.03
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.26
Consensus pattern (28 bp):
TGACTAAATGTAACAATACAAACATAAG
Found at i:18192877 original size:30 final size:30
Alignment explanation
Indices: 18192843--18192903 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
18192833 TTCCCGAGTC
18192843 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
18192873 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
18192903 T
1 T
18192904 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:18198402 original size:68 final size:64
Alignment explanation
Indices: 18198337--18198544 Score: 213
Period size: 67 Copynumber: 3.2 Consensus size: 64
18198327 CATCATGTGT
* *
18198337 ACAAGAAAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACGAG--A-TAT-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
18198402 TAG
62 TAG
* * * * * *
18198405 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
18198470 AG
63 AG
* * * * *
18198472 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
18198534 TACAAGAGAGC
1 -ACAAGAGAGC
18198545 CAAAATTATG
Statistics
Matches: 117, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 25 0.21
65 3 0.03
66 23 0.20
67 32 0.27
68 14 0.12
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:18202624 original size:40 final size:39
Alignment explanation
Indices: 18202574--18202734 Score: 138
Period size: 39 Copynumber: 4.1 Consensus size: 39
18202564 CAAATCCAAT
*
18202574 CACCACCACAAGCCCTGTGGGACTTTAAGCCCGGATATAA
1 CACCAGCACAAGCCCTGTGGGACTTT-AGCCCGGATATAA
* * * *
18202614 TACCAGCACAAACCCTGCGGGACTTTAG-CCAGATATAA
1 CACCAGCACAAGCCCTGTGGGACTTTAGCCCGGATATAA
* *
18202652 CACCAACACGAATG-CCT-TCGGGGC-TTAGCCCGGATATAA
1 CACCAGCAC-AA-GCCCTGT-GGGACTTTAGCCCGGATATAA
*
18202691 CACCAGCACGAATG-CCT-TCAGGAC-TTAGCCCGGATATAA
1 CACCAGCAC-AA-GCCCTGT-GGGACTTTAGCCCGGATATAA
18202730 CACCA
1 CACCA
18202735 NNNNNNNNNN
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
38 20 0.19
39 61 0.59
40 22 0.21
ACGTcount: A:0.31, C:0.32, G:0.20, T:0.17
Consensus pattern (39 bp):
CACCAGCACAAGCCCTGTGGGACTTTAGCCCGGATATAA
Found at i:18202691 original size:39 final size:39
Alignment explanation
Indices: 18202592--18202734 Score: 173
Period size: 39 Copynumber: 3.6 Consensus size: 39
18202582 CAAGCCCTGT
* ** *
18202592 GGGACTTTAAGCCCGGATATAATACCAGCAC-AAACCCTGC
1 GGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTTC
* *
18202632 GGGACTTTAG-CCAGATATAACACCAACACGAATGCCTTC
1 GGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTTC
*
18202671 GGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTTC
1 GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
*
18202710 AGGACTTAGCCCGGATATAACACCA
1 GGGACTTAGCCCGGATATAACACCA
18202735 NNNNNNNNNN
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
38 20 0.22
39 62 0.69
40 8 0.09
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.18
Consensus pattern (39 bp):
GGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTC
Found at i:18207451 original size:30 final size:30
Alignment explanation
Indices: 18207408--18207465 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
18207398 CATGAGCTGC
*
18207408 CACATGGGAGTGTGGCT-AGCCCATGTGGCT
1 CACACGGGAGTGT-GCTCAGCCCATGTGGCT
* *
18207438 CACACGGGTGTGTGCTCAGCCCGTGTGG
1 CACACGGGAGTGTGCTCAGCCCATGTGG
18207466 AAATGGTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.14, C:0.26, G:0.38, T:0.22
Consensus pattern (30 bp):
CACACGGGAGTGTGCTCAGCCCATGTGGCT
Found at i:18210895 original size:32 final size:32
Alignment explanation
Indices: 18210820--18210907 Score: 87
Period size: 32 Copynumber: 2.8 Consensus size: 32
18210810 GAAATAGTGA
*
18210820 AATAAT-AATAATAAT-AATAAT-AAAATAAT
1 AATAATGAATAATAATGAATAATAAAAATAAG
** *
18210849 AATAATGACCAATAATGAATAATAAAAATACG
1 AATAATGAATAATAATGAATAATAAAAATAAG
18210881 AATAA-GAAATAATAATGAAATAA-AAAA
1 AATAATG-AATAATAATG-AATAATAAAA
18210908 CTGAAAATGG
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 6 0.12
30 7 0.15
31 7 0.15
32 23 0.48
33 5 0.10
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (32 bp):
AATAATGAATAATAATGAATAATAAAAATAAG
Found at i:18210896 original size:3 final size:3
Alignment explanation
Indices: 18210820--18210878 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
18210810 GAAATAGTGA
**
18210820 AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT AAT AAT GACC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
*
18210865 GAAT AAT AAA AAT A
1 -AAT AAT AAT AAT A
18210879 CGAATAAGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 41 0.87
4 4 0.09
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:18211926 original size:18 final size:18
Alignment explanation
Indices: 18211903--18211941 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18211893 AATTTAAAAG
*
18211903 AAATAATATGAAAT-AAAT
1 AAATAA-ATAAAATCAAAT
18211921 AAATAAATAAAATCAAAT
1 AAATAAATAAAATCAAAT
18211939 AAA
1 AAA
18211942 AATGAGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (18 bp):
AAATAAATAAAATCAAAT
Found at i:18220141 original size:30 final size:30
Alignment explanation
Indices: 18220107--18220174 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
18220097 TTTCAGAGTC
18220107 ACAAAATCTTAAACATATCTAAAACCTATA
1 ACAAAATCTTAAACATATCTAAAACCTATA
18220137 ACAAAATCTTAAACATATCTAAAACCTATA
1 ACAAAATCTTAAACATATCTAAAACCTATA
18220167 ACAAAATC
1 ACAAAATC
18220175 CAATCTTCGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (30 bp):
ACAAAATCTTAAACATATCTAAAACCTATA
Found at i:18220828 original size:43 final size:43
Alignment explanation
Indices: 18220760--18220845 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
18220750 TAACGAGCAC
** *
18220760 CATCACTTAAGCTCGTATGGAGAGCTTTGCTAATACACAGCTT
1 CATCACTTAAGCTCACATGGAGAGCTTCGCTAATACACAGCTT
* * * *
18220803 CATCACTTAAGCTCACGTGGGGAGCTTCGCTGATACATAGCTT
1 CATCACTTAAGCTCACATGGAGAGCTTCGCTAATACACAGCTT
18220846 GTCCTTAACT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (43 bp):
CATCACTTAAGCTCACATGGAGAGCTTCGCTAATACACAGCTT
Found at i:18220938 original size:40 final size:40
Alignment explanation
Indices: 18220875--18220997 Score: 158
Period size: 40 Copynumber: 3.1 Consensus size: 40
18220865 GATTTGCTGG
*
18220875 TACACAACTTATCCATAAGCTCACAGAGGAACTTTGTTGA
1 TACAAAACTTATCCATAAGCTCACAGAGGAACTTTGTTGA
*
18220915 TACAAAAGTTATCCATAAGCTCACA-AGGGAACTTTGTTGA
1 TACAAAACTTATCCATAAGCTCACAGA-GGAACTTTGTTGA
* * * * * *
18220955 TACACAACTTATCCATAAACTCATAGGGGAGCTTTGCTGA
1 TACAAAACTTATCCATAAGCTCACAGAGGAACTTTGTTGA
18220995 TAC
1 TAC
18220998 GCAGCTTGAA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (40 bp):
TACAAAACTTATCCATAAGCTCACAGAGGAACTTTGTTGA
Found at i:18223653 original size:20 final size:20
Alignment explanation
Indices: 18223628--18223677 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
18223618 TTCCCAAGGG
18223628 AAAGAAAGGAAA-ATATAAAA
1 AAAGAAAGGAAAGATA-AAAA
*
18223648 AAAGAAAGCAAAGATAAAAA
1 AAAGAAAGGAAAGATAAAAA
*
18223668 ATA-AAAGGAA
1 AAAGAAAGGAA
18223678 GAAGAAAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 6 0.23
20 17 0.65
21 3 0.12
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.08
Consensus pattern (20 bp):
AAAGAAAGGAAAGATAAAAA
Found at i:18223666 original size:19 final size:20
Alignment explanation
Indices: 18223628--18223682 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
18223618 TTCCCAAGGG
*
18223628 AAAGAAAGGAAAATATAAAA
1 AAAGAAAGGAAAAGATAAAA
*
18223648 AAAGAAA-GCAAAGATAAAA
1 AAAGAAAGGAAAAGATAAAA
18223667 AATA-AAAGGAAGAAGA
1 AA-AGAAAGGAA-AAGA
18223683 AAAGTGCGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 15 0.52
20 10 0.34
21 4 0.14
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (20 bp):
AAAGAAAGGAAAAGATAAAA
Found at i:18229882 original size:303 final size:303
Alignment explanation
Indices: 18229335--18229940 Score: 1212
Period size: 303 Copynumber: 2.0 Consensus size: 303
18229325 ATGAGTAGTT
18229335 CATGTTACCGGGACTTTAAAAATGTAAAGAACATTAAAAAGGGGCTCGGGATCATTAAAAATGAG
1 CATGTTACCGGGACTTTAAAAATGTAAAGAACATTAAAAAGGGGCTCGGGATCATTAAAAATGAG
18229400 TTTGGAAGCTTGAAACAAACCCTAGCAATGGTGTCCATGCTATTTTCGGCTGGATGGAGAAGATG
66 TTTGGAAGCTTGAAACAAACCCTAGCAATGGTGTCCATGCTATTTTCGGCTGGATGGAGAAGATG
18229465 ATAGCCAATTTTGGCTTATTTTCCCTTTTTAATTCTTTTAATTATTAGATTACAAAATGCCCCTG
131 ATAGCCAATTTTGGCTTATTTTCCCTTTTTAATTCTTTTAATTATTAGATTACAAAATGCCCCTG
18229530 ACTTAAACATATTTTATTACACCCATTTCATGTCTATTTTTGTCCAAAATTAACCAATGGTCTAA
196 ACTTAAACATATTTTATTACACCCATTTCATGTCTATTTTTGTCCAAAATTAACCAATGGTCTAA
18229595 TTACCATTTAAGGACCTCCAATTTAAAAACTTATAACAATTGG
261 TTACCATTTAAGGACCTCCAATTTAAAAACTTATAACAATTGG
18229638 CATGTTACCGGGACTTTAAAAATGTAAAGAACATTAAAAAGGGGCTCGGGATCATTAAAAATGAG
1 CATGTTACCGGGACTTTAAAAATGTAAAGAACATTAAAAAGGGGCTCGGGATCATTAAAAATGAG
18229703 TTTGGAAGCTTGAAACAAACCCTAGCAATGGTGTCCATGCTATTTTCGGCTGGATGGAGAAGATG
66 TTTGGAAGCTTGAAACAAACCCTAGCAATGGTGTCCATGCTATTTTCGGCTGGATGGAGAAGATG
18229768 ATAGCCAATTTTGGCTTATTTTCCCTTTTTAATTCTTTTAATTATTAGATTACAAAATGCCCCTG
131 ATAGCCAATTTTGGCTTATTTTCCCTTTTTAATTCTTTTAATTATTAGATTACAAAATGCCCCTG
18229833 ACTTAAACATATTTTATTACACCCATTTCATGTCTATTTTTGTCCAAAATTAACCAATGGTCTAA
196 ACTTAAACATATTTTATTACACCCATTTCATGTCTATTTTTGTCCAAAATTAACCAATGGTCTAA
18229898 TTACCATTTAAGGACCTCCAATTTAAAAACTTATAACAATTGG
261 TTACCATTTAAGGACCTCCAATTTAAAAACTTATAACAATTGG
18229941 ACACTTCTAA
Statistics
Matches: 303, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
303 303 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (303 bp):
CATGTTACCGGGACTTTAAAAATGTAAAGAACATTAAAAAGGGGCTCGGGATCATTAAAAATGAG
TTTGGAAGCTTGAAACAAACCCTAGCAATGGTGTCCATGCTATTTTCGGCTGGATGGAGAAGATG
ATAGCCAATTTTGGCTTATTTTCCCTTTTTAATTCTTTTAATTATTAGATTACAAAATGCCCCTG
ACTTAAACATATTTTATTACACCCATTTCATGTCTATTTTTGTCCAAAATTAACCAATGGTCTAA
TTACCATTTAAGGACCTCCAATTTAAAAACTTATAACAATTGG
Found at i:18235740 original size:31 final size:30
Alignment explanation
Indices: 18235699--18235758 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
18235689 AAATGTACCA
*
18235699 AAATTATTATAGTTTATTGTCTTTTCAAAAG
1 AAATTATTATAGTTTATTGTATTTT-AAAAG
*
18235730 AAATTGTTATAGTTTATTGTATTTTAAAA
1 AAATTATTATAGTTTATTGTATTTTAAAA
18235759 TTTTATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (30 bp):
AAATTATTATAGTTTATTGTATTTTAAAAG
Found at i:18237628 original size:22 final size:22
Alignment explanation
Indices: 18237600--18237642 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
18237590 CCTGCACATC
18237600 ACAATTGGGTTATAATAGGCCT
1 ACAATTGGGTTATAATAGGCCT
18237622 ACAATTGGGTTATAATAGGCC
1 ACAATTGGGTTATAATAGGCC
18237643 CATCACCCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (22 bp):
ACAATTGGGTTATAATAGGCCT
Found at i:18240854 original size:20 final size:22
Alignment explanation
Indices: 18240829--18240881 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
18240819 AAGTTACGTA
18240829 GGTATCGATACTACCTTT-A-T
1 GGTATCGATACTACCTTTAAGT
* *
18240849 GGTATCGATATTTCCTTTAAGT
1 GGTATCGATACTACCTTTAAGT
18240871 GGTATCGATAC
1 GGTATCGATAC
18240882 CATTTGGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 16 0.57
21 1 0.04
22 11 0.39
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (22 bp):
GGTATCGATACTACCTTTAAGT
Found at i:18241648 original size:10 final size:10
Alignment explanation
Indices: 18241630--18241661 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
18241620 ATGTATTAAC
18241630 CACATATAAT
1 CACATATAAT
*
18241640 CACAAATAAT
1 CACATATAAT
18241650 CACATATAAT
1 CACATATAAT
18241660 CA
1 CA
18241662 TATTTAGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (10 bp):
CACATATAAT
Found at i:18246134 original size:26 final size:27
Alignment explanation
Indices: 18246085--18246135 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
18246075 GATTTTTTTA
* * *
18246085 AAATTTTTATAATTTTTTTGAAAATAT
1 AAATTTTGATAATTTTTATAAAAATAT
18246112 AAATTTTGA-AATTTTTATAAAAAT
1 AAATTTTGATAATTTTTATAAAAAT
18246136 TTTGAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
AAATTTTGATAATTTTTATAAAAATAT
Found at i:18246341 original size:17 final size:17
Alignment explanation
Indices: 18246319--18246353 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18246309 TTATTCAAGT
18246319 TAACTCAAAAAATTGAA
1 TAACTCAAAAAATTGAA
* *
18246336 TAACTCGAATAATTGAA
1 TAACTCAAAAAATTGAA
18246353 T
1 T
18246354 TCGATTAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (17 bp):
TAACTCAAAAAATTGAA
Found at i:18248543 original size:31 final size:31
Alignment explanation
Indices: 18248499--18248561 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 31
18248489 AGTTACAAGA
18248499 TGGTCACCTAACTATT-AATAATTT-TCTTTTT
1 TGGTCACCTAACTATTCAAT--TTTGTCTTTTT
18248530 TGGTCATCC-AACTATTCAATTTTGTCTTTTT
1 TGGTCA-CCTAACTATTCAATTTTGTCTTTTT
18248561 T
1 T
18248562 TTCAACAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
30 3 0.10
31 21 0.72
32 5 0.17
ACGTcount: A:0.22, C:0.17, G:0.08, T:0.52
Consensus pattern (31 bp):
TGGTCACCTAACTATTCAATTTTGTCTTTTT
Found at i:18252069 original size:76 final size:76
Alignment explanation
Indices: 18251943--18252098 Score: 312
Period size: 76 Copynumber: 2.1 Consensus size: 76
18251933 AGAATTTTGT
18251943 TTTTACGTTTTGAGGGTTCCTTGTTTTCGGGTTTTTGGGATTTAGTTTTCATCTCCATCTTTTGT
1 TTTTACGTTTTGAGGGTTCCTTGTTTTCGGGTTTTTGGGATTTAGTTTTCATCTCCATCTTTTGT
18252008 ACTCTTTGTTC
66 ACTCTTTGTTC
18252019 TTTTACGTTTTGAGGGTTCCTTGTTTTCGGGTTTTTGGGATTTAGTTTTCATCTCCATCTTTTGT
1 TTTTACGTTTTGAGGGTTCCTTGTTTTCGGGTTTTTGGGATTTAGTTTTCATCTCCATCTTTTGT
18252084 ACTCTTTGTTC
66 ACTCTTTGTTC
18252095 TTTT
1 TTTT
18252099 GCCATTATAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 80 1.00
ACGTcount: A:0.09, C:0.15, G:0.19, T:0.56
Consensus pattern (76 bp):
TTTTACGTTTTGAGGGTTCCTTGTTTTCGGGTTTTTGGGATTTAGTTTTCATCTCCATCTTTTGT
ACTCTTTGTTC
Found at i:18254202 original size:144 final size:143
Alignment explanation
Indices: 18253942--18254225 Score: 559
Period size: 144 Copynumber: 2.0 Consensus size: 143
18253932 GGTGTAGGTT
18253942 CAGTTTCAATGCTTCTAGCCTTCTTCCTTCTTCAATGAAATCCATCTCTATTAAAAAGTTAAAAA
1 CAGTTTCAATGCTTCTAGCCTTCTTCCTTCTTCAATGAAATCCATCTCTATTAAAAAGTTAAAAA
18254007 CACTTTTTCATATCTCTTTGCACCAACTCAGCTGATGATAATATATAGGTAGCTAGGCCTGGCCT
66 CACTTTTTCATATCTCTTTGCACCAACTCAGCTGATGATAATATATAGGTAGCTAGGCCTGGCCT
18254072 CCCCCCCCCCCCC
131 CCCCCCCCCCCCC
18254085 NCAGTTTCAATGCTTCTAGCCTTCTTCCTTCTTCAATGAAATCCATCTCTATTAAAAAGTTAAAA
1 -CAGTTTCAATGCTTCTAGCCTTCTTCCTTCTTCAATGAAATCCATCTCTATTAAAAAGTTAAAA
18254150 ACACTTTTTCATATCTCTTTGCACCAACTCAGCTGATGATAATATATAGGTAGCTAGGCCTGGCC
65 ACACTTTTTCATATCTCTTTGCACCAACTCAGCTGATGATAATATATAGGTAGCTAGGCCTGGCC
18254215 TCCCCCCCCCC
130 TCCCCCCCCCC
18254226 GGGTCACCAG
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
144 140 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.32
Consensus pattern (143 bp):
CAGTTTCAATGCTTCTAGCCTTCTTCCTTCTTCAATGAAATCCATCTCTATTAAAAAGTTAAAAA
CACTTTTTCATATCTCTTTGCACCAACTCAGCTGATGATAATATATAGGTAGCTAGGCCTGGCCT
CCCCCCCCCCCCC
Found at i:18254617 original size:23 final size:23
Alignment explanation
Indices: 18254573--18254617 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
18254563 ACCGACAACA
**
18254573 CTCTCTCTCACCTTTAGTTTCAT
1 CTCTCTCTCACCTTTAAATTCAT
18254596 CTCTCCTCTC-CCTTTAAATTCA
1 CTCT-CTCTCACCTTTAAATTCA
18254618 GACATCAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.16, C:0.38, G:0.02, T:0.44
Consensus pattern (23 bp):
CTCTCTCTCACCTTTAAATTCAT
Found at i:18262920 original size:25 final size:25
Alignment explanation
Indices: 18262892--18262950 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
18262882 GGATGTTACA
18262892 TTCTCAGCTCG-TCAAAGCTTACTGT
1 TTCTCAGCTCGAT-AAAGCTTACTGT
* *
18262917 TTCT-AGTTCGATAGAGCTTACTGT
1 TTCTCAGCTCGATAAAGCTTACTGT
*
18262941 TTATCAGCTC
1 TTCTCAGCTC
18262951 AGGAGGAGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 19 0.68
25 9 0.32
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (25 bp):
TTCTCAGCTCGATAAAGCTTACTGT
Found at i:18264021 original size:12 final size:12
Alignment explanation
Indices: 18264004--18264033 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18263994 TCAGAAAGTT
18264004 ACATGGGGTAGG
1 ACATGGGGTAGG
*
18264016 ACATGGGTTAGG
1 ACATGGGGTAGG
18264028 ACATGG
1 ACATGG
18264034 CCATGTGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.10, G:0.43, T:0.20
Consensus pattern (12 bp):
ACATGGGGTAGG
Found at i:18272429 original size:189 final size:188
Alignment explanation
Indices: 18272109--18272487 Score: 722
Period size: 189 Copynumber: 2.0 Consensus size: 188
18272099 GCCCTGCTTC
18272109 TGTTTAAGGAACTCCTTCCATTTTTTATCAATAAATCGTTGACTTATGTATTTCTTTCTGAATTC
1 TGTTTAAGGAACTCCTTCCATTTTTTATCAATAAATCGTTGACTTATGTATTTCTTTCTGAATTC
*
18272174 TTCCTGGAAGAAATCCAAAGTAACCTTTTCTTTTGGCACAACTGCTACCAAAGTCTTCCACCAAT
66 TTCCTGGAAGAAATCCAAAGTAACCTTTGCTTTTGGCACAACTGCTACCAAAGTCTTCCACCAAT
18272239 GGTAGGCCGAATCTCTCAAAAGTGATACAGCACACTTTAAGCACTCATCGGGTGTACA
131 GGTAGGCCGAATCTCTCAAAAGTGATACAGCACACTTTAAGCACTCATCGGGTGTACA
18272297 NTGTTTAAGGAACTCCTTCCATTTTTTATCAATAAATCGTTGACTTATGTATTTCTTTCTGAATT
1 -TGTTTAAGGAACTCCTTCCATTTTTTATCAATAAATCGTTGACTTATGTATTTCTTTCTGAATT
* *
18272362 CTTCCTGGAAGAAATCCAAAGTGACCTTTGCTTTTGGCGCAACTGCTACCAAAGTCTTCCACCAA
65 CTTCCTGGAAGAAATCCAAAGTAACCTTTGCTTTTGGCACAACTGCTACCAAAGTCTTCCACCAA
18272427 TGGTAGGCCGAATCTCTCAAAAGTGATACAGCACACTTTAAGCACTCATCGGGTGTACA
130 TGGTAGGCCGAATCTCTCAAAAGTGATACAGCACACTTTAAGCACTCATCGGGTGTACA
18272486 TG
1 TG
18272488 AAAGCTGATC
Statistics
Matches: 187, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
188 2 0.01
189 185 0.99
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (188 bp):
TGTTTAAGGAACTCCTTCCATTTTTTATCAATAAATCGTTGACTTATGTATTTCTTTCTGAATTC
TTCCTGGAAGAAATCCAAAGTAACCTTTGCTTTTGGCACAACTGCTACCAAAGTCTTCCACCAAT
GGTAGGCCGAATCTCTCAAAAGTGATACAGCACACTTTAAGCACTCATCGGGTGTACA
Found at i:18281307 original size:12 final size:12
Alignment explanation
Indices: 18281290--18281319 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18281280 TACAAGATTG
18281290 ACACGGCCTAGT
1 ACACGGCCTAGT
*
18281302 ACACGGCCTGGT
1 ACACGGCCTAGT
18281314 ACACGG
1 ACACGG
18281320 GTGTGTATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.33, G:0.30, T:0.13
Consensus pattern (12 bp):
ACACGGCCTAGT
Found at i:18288897 original size:27 final size:27
Alignment explanation
Indices: 18288867--18289044 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18288857 ATATTGAGTC
* * * *
18288867 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
18288894 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18288921 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
18288949 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
18288976 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
18289003 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18289030 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18289045 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:18289006 original size:82 final size:81
Alignment explanation
Indices: 18288888--18289043 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18288878 TGCTATATAA
* *
18288888 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
18288953 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18288970 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
18289034 CACTTAGTGC
65 CACTTAGTGC
18289044 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:18296962 original size:27 final size:27
Alignment explanation
Indices: 18296932--18297109 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18296922 ATATTGAGTC
* * * *
18296932 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
18296959 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18296986 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
18297014 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
18297041 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
18297068 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18297095 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18297110 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:18297071 original size:82 final size:81
Alignment explanation
Indices: 18296953--18297108 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18296943 TGCTATATAA
* *
18296953 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
18297018 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18297035 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
18297099 CACTTAGTGC
65 CACTTAGTGC
18297109 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:18299712 original size:35 final size:36
Alignment explanation
Indices: 18299646--18299715 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 36
18299636 CTTAGATGCA
* * * * *
18299646 TGGCCGAATATACAAAGTTCACTATATCATCACATG
1 TGGCCAAATATACAAAGTTAAATAAAACATCACATG
18299682 TGGCCAAATATA-AAAGTTAAATAAAACATCACAT
1 TGGCCAAATATACAAAGTTAAATAAAACATCACAT
18299716 ATGACCTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 18 0.62
36 11 0.38
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (36 bp):
TGGCCAAATATACAAAGTTAAATAAAACATCACATG
Found at i:18299819 original size:35 final size:35
Alignment explanation
Indices: 18299774--18299881 Score: 139
Period size: 35 Copynumber: 3.1 Consensus size: 35
18299764 TACATGCAAG
* *
18299774 ATAACTTCACATATAATCGAATATACAAGTTCAAT
1 ATAACCTCACATGTAATCGAATATACAAGTTCAAT
*
18299809 ATAAGCTCACATGTAATC-AA-ATACTTAAGTTCAAT
1 ATAACCTCACATGTAATCGAATATAC--AAGTTCAAT
**
18299844 ATAACCTCACATGTAGCCGAATATACAAGTTCAAT
1 ATAACCTCACATGTAATCGAATATACAAGTTCAAT
18299879 ATA
1 ATA
18299882 TCACATGTAC
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
33 4 0.06
34 2 0.03
35 51 0.81
36 2 0.03
37 4 0.06
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.30
Consensus pattern (35 bp):
ATAACCTCACATGTAATCGAATATACAAGTTCAAT
Found at i:18308840 original size:39 final size:39
Alignment explanation
Indices: 18308785--18308915 Score: 163
Period size: 39 Copynumber: 3.3 Consensus size: 39
18308775 GTATGAGATT
*
18308785 GAAAATATATCCGGACATGAGGTCCGCAGACTATATGCTG
1 GAAAA-ATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* *
18308825 GAAAAATATCCGGACATGAGATCCGCAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTG
* ** * **
18308864 GAAATATATCTAGACTTGAGGTCCGCAGGCTACGTGCTG
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTG
*
18308903 GAAAAGTATCCGG
1 GAAAAATATCCGG
18308916 GTTAAAGACC
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 71 0.93
40 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (39 bp):
GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTG
Found at i:18308932 original size:78 final size:77
Alignment explanation
Indices: 18308787--18308941 Score: 177
Period size: 78 Copynumber: 2.0 Consensus size: 77
18308777 ATGAGATTGA
* * * * *
18308787 AAATATATCCGGACATGAGGTCCGCAGACTATATGCTGGAAAAATATCCGGACATGAGATCCGCA
1 AAATATATCCAGACATGAGGTCCGCAGACTACATGCTGGAAAAATATCCGGACATAAGACCCACA
18308852 GGCTATATGCTAG
66 GGCT-TATGCTAG
* * * * * **
18308865 AAATATATCTAGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAGTATCCGG-GTTAAAGACCCAC
1 AAATATATCCAGACATGAGGTCCGCAGACTACATGCTGGAAAAATATCCGGACAT-AAGACCCAC
18308929 AGGCTTATGCTAG
65 AGGCTTATGCTAG
18308942 TAATGTATTC
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
77 9 0.14
78 55 0.86
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (77 bp):
AAATATATCCAGACATGAGGTCCGCAGACTACATGCTGGAAAAATATCCGGACATAAGACCCACA
GGCTTATGCTAG
Found at i:18315933 original size:39 final size:39
Alignment explanation
Indices: 18315889--18315990 Score: 123
Period size: 39 Copynumber: 2.6 Consensus size: 39
18315879 CATGATAAGN
18315889 GCTATATGCTGGAAAAATATCCGGACATGAGGTAAGCAG
1 GCTATATGCTGGAAAAATATCCGGACATGAGGTAAGCAG
* * ** * **
18315928 GCTATATGCTAGAAATATATCTAGACTTGAGGTCCGCAG
1 GCTATATGCTGGAAAAATATCCGGACATGAGGTAAGCAG
**
18315967 GCTACGTGCTGGAAAAATATCCGG
1 GCTATATGCTGGAAAAATATCCGG
18315991 GTTAAAGACC
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (39 bp):
GCTATATGCTGGAAAAATATCCGGACATGAGGTAAGCAG
Found at i:18320094 original size:42 final size:43
Alignment explanation
Indices: 18320015--18320106 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 43
18320005 TCCCGGATGT
* * *
18320015 GGTCTTACATGTAATTCAGTATCGATGCCTTTGTCCCAGACAG
1 GGTCTTACATGAAATTCAGTATCGATGCCTATGTCCCAAACAG
*
18320058 GGTCTTACATGAAATT-AG-ATACGATGCCTATGTCCCAAACAT
1 GGTCTTACATGAAATTCAGTAT-CGATGCCTATGTCCCAAACAG
18320100 GGTCTTA
1 GGTCTTA
18320107 TACGTAAATC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.05
42 27 0.61
43 15 0.34
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (43 bp):
GGTCTTACATGAAATTCAGTATCGATGCCTATGTCCCAAACAG
Found at i:18326270 original size:23 final size:23
Alignment explanation
Indices: 18326240--18326287 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
18326230 TTCACCGCGG
18326240 ACAAAATTATCGTTTTACCACTA
1 ACAAAATTATCGTTTTACCACTA
*
18326263 ACAAAATTATCGTTTTACCCCTA
1 ACAAAATTATCGTTTTACCACTA
18326286 AC
1 AC
18326288 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (23 bp):
ACAAAATTATCGTTTTACCACTA
Found at i:18341077 original size:134 final size:134
Alignment explanation
Indices: 18340837--18341106 Score: 540
Period size: 134 Copynumber: 2.0 Consensus size: 134
18340827 TGAAATGTAT
18340837 TATAAATAATTGAAAAGTGCAAATTACATGAGAGACATTGGCATGAAAATGTCATGAGGATGGGC
1 TATAAATAATTGAAAAGTGCAAATTACATGAGAGACATTGGCATGAAAATGTCATGAGGATGGGC
18340902 ATGGTAAAGTCATGGGTATGAAGTTTCCCTAATCACTTGATTTTAACATGCATTGTATAATAACT
66 ATGGTAAAGTCATGGGTATGAAGTTTCCCTAATCACTTGATTTTAACATGCATTGTATAATAACT
18340967 AACC
131 AACC
18340971 TATAAATAATTGAAAAGTGCAAATTACATGAGAGACATTGGCATGAAAATGTCATGAGGATGGGC
1 TATAAATAATTGAAAAGTGCAAATTACATGAGAGACATTGGCATGAAAATGTCATGAGGATGGGC
18341036 ATGGTAAAGTCATGGGTATGAAGTTTCCCTAATCACTTGATTTTAACATGCATTGTATAATAACT
66 ATGGTAAAGTCATGGGTATGAAGTTTCCCTAATCACTTGATTTTAACATGCATTGTATAATAACT
18341101 AACC
131 AACC
18341105 TA
1 TA
18341107 AGAATGCAAA
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 136 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (134 bp):
TATAAATAATTGAAAAGTGCAAATTACATGAGAGACATTGGCATGAAAATGTCATGAGGATGGGC
ATGGTAAAGTCATGGGTATGAAGTTTCCCTAATCACTTGATTTTAACATGCATTGTATAATAACT
AACC
Found at i:18375120 original size:19 final size:19
Alignment explanation
Indices: 18375085--18375122 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18375075 GTTAAGTTCA
*
18375085 TATTTTGGCCCATTTTCTC
1 TATTTTGGCCCAGTTTCTC
18375104 TATTTTCGGCCC-GTTTCTC
1 TATTTT-GGCCCAGTTTCTC
18375123 GTTCCTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.08, C:0.29, G:0.13, T:0.50
Consensus pattern (19 bp):
TATTTTGGCCCAGTTTCTC
Found at i:18386265 original size:27 final size:27
Alignment explanation
Indices: 18386239--18386369 Score: 95
Period size: 27 Copynumber: 4.7 Consensus size: 27
18386229 ATCTACAAAC
*
18386239 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *
18386266 CAATGGTATTCCTA-TAATTTT-TAAAAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT---AAA-T
*
18386296 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* * ** **
18386323 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *
18386350 TAAGGGTATTTCGGTAATTT
1 CAAGGGTATTTCAGTAATTT
18386370 CTCAAACCAG
Statistics
Matches: 83, Mismatches: 14, Indels: 14
0.75 0.13 0.13
Matches are distributed among these distances:
26 1 0.01
27 57 0.69
28 4 0.05
29 3 0.04
30 17 0.20
31 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:18386341 original size:57 final size:55
Alignment explanation
Indices: 18386239--18386395 Score: 158
Period size: 54 Copynumber: 2.8 Consensus size: 55
18386229 ATCTACAAAC
* * *
18386239 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTCCT-ATAATTTTTAAAAAAGT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATT-TTGGTAATTTTT-AAAAA-T
* ** * *
18386296 CAAGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAA-TTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTTTAAAAAT
* * *
18386350 TAAGGGTATTTCGGTAATTTCT-CAAACCAGTGGTATTTTGGTAATT
1 CAAGGGTATTTCAGTAATTT-TGTAAACCAGTGGTATTTTGGTAATT
18386396 CTATCCTACA
Statistics
Matches: 83, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
54 37 0.45
55 6 0.07
56 5 0.06
57 35 0.42
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (55 bp):
CAAGGGTATTTCAGTAATTTTGTAAACCAGTGGTATTTTGGTAATTTTTAAAAAT
Found at i:18386375 original size:27 final size:27
Alignment explanation
Indices: 18386297--18386369 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
18386287 TAAAAAAGTC
* **
18386297 AAGGGTATTTCTGTAATTTTGTAAATT
1 AAGGGTATTTCGGTAATTTTACAAATT
* *
18386324 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTCGGTAATTTTACAAATT
18386351 AAGGGTATTTCGGTAATTT
1 AAGGGTATTTCGGTAATTT
18386370 CTCAAACCAG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTACAAATT
Found at i:18386510 original size:27 final size:27
Alignment explanation
Indices: 18386427--18386518 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
18386417 GTAATTTCAC
18386427 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
18386454 AA-CTAAGGGTAAAATGGTAATTTTGCA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * *
18386481 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
18386508 AATCGAGGGTA
1 AATCGAGGGTA
18386519 TTTCAATAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 52 0.96
28 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:18388299 original size:94 final size:92
Alignment explanation
Indices: 18388130--18388352 Score: 265
Period size: 94 Copynumber: 2.4 Consensus size: 92
18388120 ATATTTGTGT
* * *
18388130 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCCCGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTTTGGGACATGCATTGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
18388195 TGAGAAATGGCATCAGTA-TTGAGAC-GAGA
66 TGAGAAATGGCATC-G-ACTT-A-ACGGAGA
* *
18388224 GCTAGTGTAAGACATGTTTGGGACATGCATTGGCCTC-TTGATGTA-AGTCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTTTGGGACATGCATTGGCCACATT-ATG-AGAGCCAGTGTAAGACCATG
* *
18388287 TCTGGGACATGGCATCGACTTAACGTGAGA
64 TCTGAGAAATGGCATCGACTTAACG-GAGA
*
18388317 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGC
1 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATTGGC
18388353 ATTATACCCT
Statistics
Matches: 114, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
91 2 0.02
92 2 0.02
93 21 0.18
94 80 0.70
95 9 0.08
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATTGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
TGAGAAATGGCATCGACTTAACGGAGA
Found at i:18409999 original size:93 final size:93
Alignment explanation
Indices: 18409886--18410056 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
18409876 CCCATAAGCA
* * *
18409886 AACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
18409951 GAGCTCGGATGCCTAGTTACATCTCACG
66 GAGCTCGGATGCCTAGTTACATCTCACG
* *
18409979 AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
*
18410044 GAGTTCGGATGCC
66 GAGCTCGGATGCC
18410057 CAAATATCCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACG
Found at i:18410052 original size:46 final size:46
Alignment explanation
Indices: 18409877--18410052 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
18409867 TGTAACCCGC
* * *
18409877 CCATAAGCAAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
18409923 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
18409973 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
18410016 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA
18410053 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 65 0.60
47 31 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:18412530 original size:15 final size:15
Alignment explanation
Indices: 18412453--18412530 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 15
18412443 AGAAAACCGA
*
18412453 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
* *
18412468 ATAGAGAAACCC-GG
1 ATAAAGAAACCCAAG
* *
18412482 AATAAAGAAA-TCTAG
1 -ATAAAGAAACCCAAG
* * *
18412497 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
18412513 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
18412528 ATA
1 ATA
18412531 CGATACTATG
Statistics
Matches: 47, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
14 2 0.04
15 43 0.91
16 2 0.04
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:18414659 original size:40 final size:40
Alignment explanation
Indices: 18414600--18414991 Score: 529
Period size: 40 Copynumber: 9.8 Consensus size: 40
18414590 CATTTGAATG
* * *
18414600 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
18414640 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* *
18414680 ATATCCGGGCTAAGACCCGAAGGCATTTGGGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * * *
18414720 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGAAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-AT
* *
18414760 TTATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
18414800 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * * *
18414840 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGAAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-AT
* *
18414880 TTATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
18414920 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
18414960 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
18414992 TTGTGGTTAT
Statistics
Matches: 308, Mismatches: 39, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
39 4 0.01
40 297 0.96
41 7 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:18414817 original size:120 final size:120
Alignment explanation
Indices: 18414604--18414992 Score: 715
Period size: 120 Copynumber: 3.2 Consensus size: 120
18414594 TGAATGATAT
* * * * * *
18414604 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGAATTTATTCGGGCTAAGACCCGAAGGCATTTG
*
18414669 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGGGCGAGTTGCTATAC
66 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
18414724 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGAATTTATTCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGAATTTATTCGGGCTAAGACCCGAAGGCATTTG
18414789 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
66 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
18414844 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGAATTTATTCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGAATTTATTCGGGCTAAGACCCGAAGGCATTTG
18414909 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
66 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
18414964 CCGGGTTAAGACCCGAAGGCAATTGTGCT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCT
18414993 TGTGGTTATA
Statistics
Matches: 262, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 262 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (120 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGAATTTATTCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
Found at i:18421687 original size:13 final size:13
Alignment explanation
Indices: 18421669--18421696 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18421659 GCTCGGTAGG
18421669 GACATGCCCGTGT
1 GACATGCCCGTGT
18421682 GACATGCCCGTGT
1 GACATGCCCGTGT
18421695 GA
1 GA
18421697 ATCGTGCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.29, G:0.32, T:0.21
Consensus pattern (13 bp):
GACATGCCCGTGT
Found at i:18432120 original size:100 final size:100
Alignment explanation
Indices: 18430841--18432125 Score: 2176
Period size: 100 Copynumber: 12.9 Consensus size: 100
18430831 TTGATGCATA
*
18430841 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
*
18430906 AAAGCCGAATGG-CTAATGCG-AA-ATATATATATG
66 AAAGCCGAATGGTC-AATGTGAAATATATATATATG
* * * *
18430939 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATATATGAGATATGTATA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG----A-A-ATATGTATGAGATATGCATA
*
18431004 TGTGGTAAAGCCGAATGG-CTAATGTG--A-A-ATATGTATG
60 TGTGGTAAAGCCGAATGGTC-AATGTGAAATATATATATATG
*
18431041 AGATATG--CATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
* *
18431104 AAAGCCGAATGG-CTAATATG--A-A-ATATGTATG
66 AAAGCCGAATGGTC-AATGTGAAATATATATATATG
* * *
18431135 AGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGCATATGTG
18431200 GTAAAGCCGAATGG-CTAATGTG-AA-ATATATATATG
64 GTAAAGCCGAATGGTC-AATGTGAAATATATATATATG
18431235 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
18431300 AAAGCCGAATGGTCAATGTGAAATATATATATATG
66 AAAGCCGAATGGTCAATGTGAAATATATATATATG
18431335 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
18431400 AAAGCCGAATGGTCAATGTGAAATATATATATATG
66 AAAGCCGAATGGTCAATGTGAAATATATATATATG
18431435 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
18431500 AAAGCCGAATGGTCAATGTGAAATATATATATATG
66 AAAGCCGAATGGTCAATGTGAAATATATATATATG
18431535 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
18431600 AAAGCCGAATGGTCAATGTGAAATATATATATATG
66 AAAGCCGAATGGTCAATGTGAAATATATATATATG
18431635 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
18431700 AAAGCCGAATGGTCAATGTGAAATATATATATATG
66 AAAGCCGAATGGTCAATGTGAAATATATATATATG
18431735 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
18431800 AAAGCCGAATGGTCAATGTGAAATATATATATATG
66 AAAGCCGAATGGTCAATGTGAAATATATATATATG
18431835 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
18431900 AAAGCCGAATGGTCAATGTGAAATATATATATATG
66 AAAGCCGAATGGTCAATGTGAAATATATATATATG
18431935 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
18432000 AAAGCCGAATGGTCAATGTGAAATATATATATATG
66 AAAGCCGAATGGTCAATGTGAAATATATATATATG
* *
18432035 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
*
18432100 AAAGCCGAATGG-CTAGTGTGAAATAT
66 AAAGCCGAATGGTC-AATGTGAAATAT
18432126 GTAGGCGATG
Statistics
Matches: 1149, Mismatches: 22, Indels: 30
0.96 0.02 0.02
Matches are distributed among these distances:
94 61 0.05
95 1 0.00
96 28 0.02
97 2 0.00
98 120 0.10
99 8 0.01
100 866 0.75
102 16 0.01
103 3 0.00
104 44 0.04
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (100 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGT
AAAGCCGAATGGTCAATGTGAAATATATATATATG
Found at i:18457692 original size:29 final size:29
Alignment explanation
Indices: 18457646--18457723 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 29
18457636 ACACTTACTG
**
18457646 TTACTGGCAGCTACGCTGCGTTATCATTA
1 TTACTGGCAGCTTTGCTGCGTTATCATTA
18457675 TTACTGGCAGCTTTGCTGCGTTATCATTA
1 TTACTGGCAGCTTTGCTGCGTTATCATTA
* *
18457704 TTACTGGTAGCTTTGTTGCG
1 TTACTGGCAGCTTTGCTGCG
18457724 ATATTTGTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.40
Consensus pattern (29 bp):
TTACTGGCAGCTTTGCTGCGTTATCATTA
Found at i:18458906 original size:68 final size:68
Alignment explanation
Indices: 18458796--18458931 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
18458786 AAGTCATGCT
18458796 CTCTCTACAAAGCTATCAAGACTCGCAAACTATCCCTAAGACCATCCTCAAATTGAACACAGCGC
1 CTCTCTACAAAGCTATCAAGACTCGCAAACTATCCCTAAGACCATCCTCAAATTGAACACAGCGC
18458861 TCA
66 TCA
*
18458864 CTCTCTACAAAGCTATCAAGACTCGCAAACTATCCCTGAGACCATCCTCAAATTGAACACAGCGC
1 CTCTCTACAAAGCTATCAAGACTCGCAAACTATCCCTAAGACCATCCTCAAATTGAACACAGCGC
18458929 TCA
66 TCA
18458932 TACTCGGTCA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.35, C:0.34, G:0.11, T:0.21
Consensus pattern (68 bp):
CTCTCTACAAAGCTATCAAGACTCGCAAACTATCCCTAAGACCATCCTCAAATTGAACACAGCGC
TCA
Found at i:18463770 original size:64 final size:64
Alignment explanation
Indices: 18463669--18463797 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
18463659 ATCCACAAAC
*
18463669 ATATTTCCAATATTATTATAAAATATCATAATACAAGTAATATTGATGTATTACTTACATATAA
1 ATATTTCCAATATTATTATAAAATATCATAATACAAGTAAAATTGATGTATTACTTACATATAA
18463733 ATATTTCCAATATTATTATAAAATATCATAATACAAGTAAAATTGATGTATTACTTACATATAA
1 ATATTTCCAATATTATTATAAAATATCATAATACAAGTAAAATTGATGTATTACTTACATATAA
18463797 A
1 A
18463798 CTTACATCTC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (64 bp):
ATATTTCCAATATTATTATAAAATATCATAATACAAGTAAAATTGATGTATTACTTACATATAA
Found at i:18467708 original size:22 final size:23
Alignment explanation
Indices: 18467655--18467708 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
18467645 ATGATTTTCC
* *
18467655 TTATTCGGTGGTTTAACCACATA
1 TTATTTGGTGGATTAACCACATA
*
18467678 TCTATTTTGGTGGATTGACCACAT-
1 T-TA-TTTGGTGGATTAACCACATA
18467702 TTATTTG
1 TTATTTG
18467709 ATTTTGGCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 4 0.15
23 3 0.12
24 3 0.12
25 16 0.62
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (23 bp):
TTATTTGGTGGATTAACCACATA
Found at i:18467721 original size:28 final size:26
Alignment explanation
Indices: 18467681--18467733 Score: 61
Period size: 28 Copynumber: 2.0 Consensus size: 26
18467671 CCACATATCT
**
18467681 ATTTTGGTGGATTGACCACATTTATTTG
1 ATTTTGGCAGATT-ACCACA-TTATTTG
*
18467709 ATTTTGGCAGATTACCGCATTATTT
1 ATTTTGGCAGATTACCACATTATTT
18467734 CTAGCAACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 6 0.27
27 5 0.23
28 11 0.50
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (26 bp):
ATTTTGGCAGATTACCACATTATTTG
Found at i:18471806 original size:40 final size:41
Alignment explanation
Indices: 18471716--18471812 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
18471706 TAAGCCAGTA
*
18471716 TCGCACACTTAGTGCC-TTATATAGCCGAAGCTATGCCAAC
1 TCGCACACTTAGTGCCATTATATAGCCGAAGCTATGCAAAC
* *
18471756 TCGCATACTTAGTGCCATT-TATAGCCGAAGCTATGTTAAAC
1 TCGCACACTTAGTGCCATTATATAGCCGAAGCTATG-CAAAC
*
18471797 -CGGACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
18471813 ATCGTAGTCG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 45 0.90
41 5 0.10
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTATATAGCCGAAGCTATGCAAAC
Found at i:18475515 original size:32 final size:32
Alignment explanation
Indices: 18475464--18475529 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
18475454 TGGGTTTTCT
* * *
18475464 TTATGTTTTATTATTTTTATTTTTTTGAGATG
1 TTATATTTTATTATCTTTATTCTTTTGAGATG
*
18475496 TTATATTTTGTTATCTTTATTCTTTTGAGATG
1 TTATATTTTATTATCTTTATTCTTTTGAGATG
18475528 TT
1 TT
18475530 TTCTTTCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.18, C:0.03, G:0.12, T:0.67
Consensus pattern (32 bp):
TTATATTTTATTATCTTTATTCTTTTGAGATG
Found at i:18477107 original size:19 final size:19
Alignment explanation
Indices: 18477080--18477122 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
18477070 CCTCACCATG
*
18477080 GGTTACCACTCTGGCTACA
1 GGTTCCCACTCTGGCTACA
18477099 GGTTCCCACTCTGGCTACA
1 GGTTCCCACTCTGGCTACA
*
18477118 AGTTC
1 GGTTC
18477123 AAACGTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.19, C:0.33, G:0.21, T:0.28
Consensus pattern (19 bp):
GGTTCCCACTCTGGCTACA
Found at i:18505157 original size:47 final size:47
Alignment explanation
Indices: 18505088--18505214 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 47
18505078 AAGGTATAAT
* * *
18505088 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTATC-TATCAA
1 GTCGACGCCATGTCCCAGACATGGTCTTACACTGAC-TATCAAATCAA
*
18505135 GTCGACGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGA
1 GTCGACGCCATGTCCCAGACATGGTCTTACACTGACTATC-AAATCAA
* *
18505183 GACTGACGCCATGTCCCAGACATAGTCTTACA
1 GTC-GACGCCATGTCCCAGACATGGTCTTACA
18505215 TTGATACATC
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 4 0.06
47 34 0.48
48 6 0.08
49 27 0.38
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (47 bp):
GTCGACGCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCAA
Found at i:18509612 original size:22 final size:22
Alignment explanation
Indices: 18509587--18509630 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18509577 AATTATTTAC
18509587 ATAATGAA-CTTTAATTAATTTT
1 ATAAT-AATCTTTAATTAATTTT
* *
18509609 ATAATAATTTTTTATTAATTTT
1 ATAATAATCTTTAATTAATTTT
18509631 GGTCATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
ATAATAATCTTTAATTAATTTT
Found at i:18512632 original size:16 final size:16
Alignment explanation
Indices: 18512611--18512641 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18512601 AATTCAACCA
*
18512611 AAAAATTATATTTTTC
1 AAAAATTAAATTTTTC
18512627 AAAAATTAAATTTTT
1 AAAAATTAAATTTTT
18512642 GCCCCTAAAC
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:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
AAAAATTAAATTTTTC
Found at i:18514743 original size:195 final size:195
Alignment explanation
Indices: 18514481--18514893 Score: 727
Period size: 195 Copynumber: 2.1 Consensus size: 195
18514471 ACATGGAATT
* * * * * *
18514481 AGACACACCCATGTATCTAGGCTGTGGCAAAATAGGGCATACATACTGACTTCACCACATAGCCA
1 AGACACGCCCGTGTATCTAGGCTGTGGCAAAACAGGACATACATACTAACTTCACCACACAGCCA
18514546 CAAGACATGCCCGTGTGTCTTGGCCATGGTCAAAACTGACTTGGGTCACACGGTCGACCACACGC
66 CAAGACATGCCCGTGTGTCTTGGCCATGGTCAAAACTGACTTGGGTCACACGGTCGACCACACGC
18514611 CCGTGTACCCTTAGAAATGGCCACACACACCCATGTACCAAGGCTGTGTGCCTCACACAGCCACC
131 CCGTGTACCCTTAGAAATGGCCACACACACCCATGTACCAAGGCTGTGTGCCTCACACAGCCACC
* * *
18514676 AGACACGCCTGTGTATCTAGGCTGTGGCAAAACAGGACATACATACTAACTTCCCCACACGGCCA
1 AGACACGCCCGTGTATCTAGGCTGTGGCAAAACAGGACATACATACTAACTTCACCACACAGCCA
*
18514741 CAAGACATGCCCGTGTGTCTTGGCCATGGTCAAAACTGACTTGGGTCCCACGGTCGACCACACGC
66 CAAGACATGCCCGTGTGTCTTGGCCATGGTCAAAACTGACTTGGGTCACACGGTCGACCACACGC
18514806 CCGTGTACCCTTAGAAATGGCCACACACACCCATGTACCAAGGCTGTGTGCCTCACACAGCCACC
131 CCGTGTACCCTTAGAAATGGCCACACACACCCATGTACCAAGGCTGTGTGCCTCACACAGCCACC
*
18514871 AGACACGCCCGTGTGTCTAGGCT
1 AGACACGCCCGTGTATCTAGGCT
18514894 ATGCTCGGGA
Statistics
Matches: 206, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
195 206 1.00
ACGTcount: A:0.26, C:0.33, G:0.22, T:0.19
Consensus pattern (195 bp):
AGACACGCCCGTGTATCTAGGCTGTGGCAAAACAGGACATACATACTAACTTCACCACACAGCCA
CAAGACATGCCCGTGTGTCTTGGCCATGGTCAAAACTGACTTGGGTCACACGGTCGACCACACGC
CCGTGTACCCTTAGAAATGGCCACACACACCCATGTACCAAGGCTGTGTGCCTCACACAGCCACC
Found at i:18518301 original size:46 final size:45
Alignment explanation
Indices: 18518208--18518425 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 45
18518198 TGCAGGTGCT
* * *
18518208 GATGCCATGTCCCAGACATGGTCTTACACTAAC-ACCTCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTTCATCTCG-AGGCC
*
18518254 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTT-CATCTCGAGGCC
* * *
18518300 GATGCATATCCCAGACATGTCTTACACTAGCACTCGTCTC-AGTGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-TTCATCTCGAG-GCC
* * * * *
18518346 GATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TCAT-CTCGAGGCC
*
18518394 GATGCATGT-CTAGGACATGTCTTACACTAGCT
1 GATGCATGTCCCA-GACATGTCTTACACTAGCT
18518426 CACAATAGCC
Statistics
Matches: 144, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
44 11 0.08
45 17 0.12
46 69 0.48
47 24 0.17
48 21 0.15
49 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTCATCTCGAGGCC
Found at i:18518398 original size:94 final size:90
Alignment explanation
Indices: 18518205--18518424 Score: 259
Period size: 94 Copynumber: 2.4 Consensus size: 90
18518195 GGGTGCAGGT
* *
18518205 GCTGATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTCGTAGCCGATGCATGTCCCAGAC
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCACCTCTCGTAGCCGATGCATATCCCAGAC
*
18518270 ATGTCTTACACTGGCTTACATCTCGAG
64 ATGTCTTACACTGGCTTACATATCGAG
* *
18518297 GCCGATGCATATCCCAGACATGTCTTACACTAGCACTCGTCTCAGT-GCCGATGCCATATCCCAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCAC-C-TCTC-GTAGCCGATG-CATATCCCAG
*
18518361 ACATGGTCTTACACTGGCTCT-CATAAT-GTG
62 ACAT-GTCTTACACTGGCT-TACAT-ATCGAG
*
18518391 GCTGATGCATGT-CTAGGACATGTCTTACACTAGC
1 GCTGATGCATGTCCCA-GACATGTCTTACACTAGC
18518425 TCACAATAGC
Statistics
Matches: 111, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
90 14 0.13
91 14 0.13
92 17 0.15
93 17 0.15
94 47 0.42
95 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (90 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCACCTCTCGTAGCCGATGCATATCCCAGACAT
GTCTTACACTGGCTTACATATCGAG
Found at i:18522237 original size:20 final size:20
Alignment explanation
Indices: 18522214--18522256 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
18522204 CATAATCAAG
18522214 CAAGTTCTAGAATAACAAAT
1 CAAGTTCTAGAATAACAAAT
18522234 CAAGTTCTAGAATAACAAAT
1 CAAGTTCTAGAATAACAAAT
18522254 CAA
1 CAA
18522257 TACTGACGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.16, G:0.09, T:0.23
Consensus pattern (20 bp):
CAAGTTCTAGAATAACAAAT
Found at i:18533736 original size:46 final size:44
Alignment explanation
Indices: 18533640--18533858 Score: 190
Period size: 46 Copynumber: 4.8 Consensus size: 44
18533630 ATATCTATGT
* * * *
18533640 CGATGCATTGTCCCAGACATGGTCTTACACTGACACCTC-TCGTA-GT
1 CGATGCA-TGTCCCAGACAT-GTCTTACACT-A-GCTTCGTCTTAGGC
*
18533686 CGATGCATGTTCCAGACATGTCTTACACTAGCTTACGTCTTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTT-CGTCTT-AGGC
* * *
18533732 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-TTCGTCT-TAGGC
* * * * **
18533778 CGATGCCATATCCAAGACATGGTCTTACACTGGCTCTCATAATATGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TCGTCTTA-GGC
18533826 CGATGCATGTCCCAGACATGTCTTACACTAGCT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT
18533859 CACAATAACC
Statistics
Matches: 142, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 13 0.09
45 12 0.08
46 65 0.46
47 26 0.18
48 22 0.15
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTCGTCTTAGGC
Found at i:18537080 original size:13 final size:14
Alignment explanation
Indices: 18537022--18537082 Score: 56
Period size: 13 Copynumber: 4.4 Consensus size: 14
18537012 GGACTAATAC
18537022 CATATAG-CAATTT
1 CATATAGTCAATTT
* *
18537035 CATAAATGTCCATTT
1 CATATA-GTCAATTT
18537050 CATA-AGTCAATTT
1 CATATAGTCAATTT
*
18537063 ACATATAG-CCATTT
1 -CATATAGTCAATTT
18537077 CATATA
1 CATATA
18537083 ACTCATTCGT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 18 0.45
14 11 0.28
15 11 0.28
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (14 bp):
CATATAGTCAATTT
Found at i:18537179 original size:25 final size:25
Alignment explanation
Indices: 18537145--18537219 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
18537135 ATACGCGAGA
**
18537145 AAATGCTCACACGAGTTGTATCTGT
1 AAATGCTCACACGAGTTGTAAATGT
* *
18537170 AAATGTTCACACGAGCTGTAAATGT
1 AAATGCTCACACGAGTTGTAAATGT
*
18537195 AAATGCTCACATGAGTTGTGAAATG
1 AAATGCTCACACGAGTTGT-AAATG
18537220 GTCCTCCTGA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 37 0.88
26 5 0.12
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (25 bp):
AAATGCTCACACGAGTTGTAAATGT
Found at i:18541774 original size:27 final size:27
Alignment explanation
Indices: 18541744--18541883 Score: 199
Period size: 27 Copynumber: 5.2 Consensus size: 27
18541734 CGATTTACAA
**
18541744 AATTATTGAAATACCTGTGTAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
**
18541771 AATTACAGAAATACCCCTGTAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
*
18541798 AATTATTGAAATACCCCTGTAGGGTAA
1 AATTATTGAAATACCCCTGTAGGGTAG
* *
18541825 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
* *
18541852 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTAG
18541879 AATTA
1 AATTA
18541884 CCCCTGTAGG
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (27 bp):
AATTATTGAAATACCCCTGTAGGGTAG
Found at i:18541887 original size:19 final size:19
Alignment explanation
Indices: 18541863--18541904 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
18541853 AATACTGAAA
18541863 TACCCCTGTAGGGTAGAAT
1 TACCCCTGTAGGGTAGAAT
18541882 TACCCCTGTAGGGTAGAAT
1 TACCCCTGTAGGGTAGAAT
18541901 TACC
1 TACC
18541905 GAGATACCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (19 bp):
TACCCCTGTAGGGTAGAAT
Found at i:18541892 original size:46 final size:46
Alignment explanation
Indices: 18541836--18541931 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 46
18541826 ATTATCGAAA
* * *
18541836 TACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAAT
1 TACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAAAAT
* * * *
18541882 TACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAAT
1 TACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAAAAT
18541928 TACC
1 TACC
18541932 ATTTTGCCCC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (46 bp):
TACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAAAAT
Found at i:18543693 original size:40 final size:40
Alignment explanation
Indices: 18543648--18543879 Score: 331
Period size: 40 Copynumber: 5.8 Consensus size: 40
18543638 ATAACCACAA
* * * *
18543648 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
18543688 GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
18543728 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
18543768 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
18543808 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
18543848 GCACAAATTCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
18543880 CATTCAAATG
Statistics
Matches: 170, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 3 0.02
40 163 0.96
41 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:18543845 original size:120 final size:120
Alignment explanation
Indices: 18543619--18543878 Score: 441
Period size: 120 Copynumber: 2.2 Consensus size: 120
18543609 ACCCAAGTTT
* * *
18543619 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
18543683 AACTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
66 AACTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
* * *
18543738 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
* *
18543803 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATTC
66 AACTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
18543858 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATA
18543879 TCATTCAAAT
Statistics
Matches: 131, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
119 10 0.08
120 121 0.92
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
AACTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
Found at i:18551637 original size:22 final size:22
Alignment explanation
Indices: 18551585--18551638 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
18551575 GCCAATTATT
*
18551585 CTGATTTTGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGCGCCAAC
* *
18551607 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGCGCCAAC
18551629 CTGATTATGG
1 CTGATTATGG
18551639 TTGTGTACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTTTGCGCCAAC
Found at i:18551914 original size:6 final size:6
Alignment explanation
Indices: 18551905--18552004 Score: 71
Period size: 6 Copynumber: 16.3 Consensus size: 6
18551895 TTGCATTCAC
* *
18551905 ATTCTG ATTCTG ATTCTG -TTACCTA ATTCTG ATTCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
18551954 ATTCTG -TCACCTG ATTTTG ATTTTG ATTCTC ATTTTG ATTCT- AGTTCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
18552003 AT
1 AT
18552005 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
5 4 0.05
6 61 0.82
7 6 0.08
8 3 0.04
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:18551956 original size:37 final size:37
Alignment explanation
Indices: 18551905--18551995 Score: 128
Period size: 37 Copynumber: 2.5 Consensus size: 37
18551895 TTGCATTCAC
* *
18551905 ATTCTGATTCTGATTCTGTTACCTAATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTAATTCTGATTCTG
* * *
18551942 ATTCTGATTTTGATTCTGTCACCTGATTTTGATTTTG
1 ATTCTGATTTTGATTCTGTCACCTAATTCTGATTCTG
*
18551979 ATTCTCATTTTGATTCT
1 ATTCTGATTTTGATTCT
18551996 AGTTCTGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.18, C:0.16, G:0.13, T:0.53
Consensus pattern (37 bp):
ATTCTGATTTTGATTCTGTCACCTAATTCTGATTCTG
Found at i:18551969 original size:19 final size:18
Alignment explanation
Indices: 18551908--18551975 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 18
18551898 CATTCACATT
18551908 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTG-TAC
* *
18551927 CTAATTCTGATTCTG-ATT
1 CTGATTCTGATTCTGTA-C
*
18551945 CTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGT-AC
*
18551964 CTGATTTTGATT
1 CTGATTCTGATT
18551976 TTGATTCTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
17 1 0.02
18 13 0.32
19 26 0.63
20 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.50
Consensus pattern (18 bp):
CTGATTCTGATTCTGTAC
Found at i:18554072 original size:27 final size:27
Alignment explanation
Indices: 18553988--18554104 Score: 119
Period size: 27 Copynumber: 4.3 Consensus size: 27
18553978 AAAATTTGTT
* **
18553988 GAAATACTCCTGTAATGTAGAATTAAT-
1 GAAATACCCCTGTAGGGTAGAATT-ATC
* * *
18554015 AAAATACCCTTGTAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTATC
*
18554042 GAAATACCCCTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTATC
** *
18554069 GAAATGTCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTATC
*
18554096 GAGATACCC
1 GAAATACCC
18554105 TTGTGAGGTA
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
26 2 0.03
27 71 0.97
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTATC
Found at i:18554688 original size:22 final size:22
Alignment explanation
Indices: 18554636--18554691 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
18554626 GCCAATTATT
*
18554636 CTGATTTTGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGCGCCAAC
* * *
18554658 CT-ACATATGGCTTTGTGGCAAC
1 CTGA-TTATGGCTTTGCGCCAAC
18554680 CTGATTATGGCT
1 CTGATTATGGCT
18554692 GTGTACCGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (22 bp):
CTGATTATGGCTTTGCGCCAAC
Found at i:18554927 original size:6 final size:6
Alignment explanation
Indices: 18554918--18555056 Score: 65
Period size: 6 Copynumber: 23.0 Consensus size: 6
18554908 TTGCATTCAC
* * *
18554918 ATTCTG ATTCTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * * *
18554968 ATTATG ATTCTG ATTCTG -TCACTTG ATTCTG ATTTTG ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
** * *
18555017 ATTCT- AGTTCTG ATAATG -TT-TT ATTCCG ATTCTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
18555057 TCACCTGATT
Statistics
Matches: 97, Mismatches: 23, Indels: 26
0.66 0.16 0.18
Matches are distributed among these distances:
4 1 0.01
5 9 0.09
6 75 0.77
7 8 0.08
8 4 0.04
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:18554949 original size:25 final size:25
Alignment explanation
Indices: 18554921--18555009 Score: 108
Period size: 25 Copynumber: 3.6 Consensus size: 25
18554911 CATTCACATT
* *
18554921 CTGATTCTGATTCTATTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
*
18554946 CTGATTCTGATTCTGTCACCTAATTA
1 CTGATTCTGATTCTGTCACCTGA-TA
* *
18554972 -TGATTCTGATTCTGTCACTTGATT
1 CTGATTCTGATTCTGTCACCTGATA
*
18554996 CTGATTTTGATTCT
1 CTGATTCTGATTCT
18555010 CATTTTGATT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
24 1 0.02
25 52 0.95
26 2 0.04
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:18557164 original size:27 final size:27
Alignment explanation
Indices: 18557058--18557164 Score: 63
Period size: 27 Copynumber: 4.0 Consensus size: 27
18557048 AATACTTTAG
* **
18557058 TTTACCAAATTACTGAAATACCCTCAA
1 TTTACAAAATTACTGAAATACCCTTGA
* ** * ***
18557085 CTTGTAAAATTAC-CAAAGTACCCCCAA
1 TTTACAAAATTACTGAAA-TACCCTTGA
* ***
18557112 TTTACAGAATTACTGTTTTACCCTTGA
1 TTTACAAAATTACTGAAATACCCTTGA
*
18557139 TTTACAAAATTACTGAAATACTCTTG
1 TTTACAAAATTACTGAAATACCCTTG
18557165 TGGGGTAGAA
Statistics
Matches: 56, Mismatches: 22, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
26 3 0.05
27 53 0.95
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGA
Found at i:18557176 original size:27 final size:27
Alignment explanation
Indices: 18557146--18557287 Score: 135
Period size: 27 Copynumber: 5.3 Consensus size: 27
18557136 TGATTTACAA
* *
18557146 AATTACTGAAATACTCTTGTGGGGTAG
1 AATTACCGAAATACTCTTGTAGGGTAG
** *
18557173 AATTATTGAAATACT-TCTGTAGGCTAG
1 AATTACCGAAATACTCT-TGTAGGGTAG
* *
18557200 AATTACCGAAATACCCTTGCAGGGTAG
1 AATTACCGAAATACTCTTGTAGGGTAG
* * *
18557227 AAATACC-AAAGTACCCCTGTAGGGTAG
1 AATTACCGAAA-TACTCTTGTAGGGTAG
* * *
18557254 AATTACCGAGATACTCTTGTGGGGTAA
1 AATTACCGAAATACTCTTGTAGGGTAG
18557281 AATTACC
1 AATTACC
18557288 ATTTTGCCCC
Statistics
Matches: 94, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
26 4 0.04
27 87 0.93
28 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (27 bp):
AATTACCGAAATACTCTTGTAGGGTAG
Found at i:18557204 original size:54 final size:54
Alignment explanation
Indices: 18557146--18557288 Score: 162
Period size: 54 Copynumber: 2.6 Consensus size: 54
18557136 TGATTTACAA
* ** **
18557146 AATTACTGAAATACTCTTGTGGGGTAGAATTATTGAAA-TACTTCTGTAGGCTAG
1 AATTACCGAAATACTCTTGTGGGGTAGAATTA-CCAAAGTACCCCTGTAGGCTAG
* ** * *
18557200 AATTACCGAAATACCCTTGCAGGGTAGAAATACCAAAGTACCCCTGTAGGGTAG
1 AATTACCGAAATACTCTTGTGGGGTAGAATTACCAAAGTACCCCTGTAGGCTAG
* *
18557254 AATTACCGAGATACTCTTGTGGGGTAAAATTACCA
1 AATTACCGAAATACTCTTGTGGGGTAGAATTACCA
18557289 TTTTGCCCCA
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
53 3 0.04
54 69 0.96
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (54 bp):
AATTACCGAAATACTCTTGTGGGGTAGAATTACCAAAGTACCCCTGTAGGCTAG
Found at i:18557450 original size:16 final size:16
Alignment explanation
Indices: 18557429--18557459 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18557419 CAACTATGGG
18557429 CATGACATTCTGCATA
1 CATGACATTCTGCATA
*
18557445 CATGACATTTTGCAT
1 CATGACATTCTGCAT
18557460 GGGTTGAGAT
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:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (16 bp):
CATGACATTCTGCATA
Found at i:18557821 original size:6 final size:6
Alignment explanation
Indices: 18557812--18557915 Score: 70
Period size: 6 Copynumber: 16.8 Consensus size: 6
18557802 TTGCATTCAC
* * * *
18557812 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTTTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
18557862 ATTCTA ATTCTG ATTCTG ATTCCG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
18557911 ATTCT
1 ATTCT
18557916 CATTTTAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
5 4 0.05
6 62 0.81
7 8 0.10
8 3 0.04
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:18557843 original size:25 final size:25
Alignment explanation
Indices: 18557815--18557879 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
18557805 CATTCACATT
* *
18557815 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
* *
18557840 CTGATTTTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
*
18557865 CTAATTCTGATTCTG
1 CTGATTCTGATTCTG
18557880 ATTCCGATTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:18557875 original size:37 final size:37
Alignment explanation
Indices: 18557834--18557927 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
18557824 ATTCTGTTAC
*
18557834 CTGATACTGATTTTGATTCTGTCACCTAATTCTAATT
1 CTGATTCTGATTTTGATTCTGTCACCTAATTCTAATT
** * *
18557871 CTGATTCTGATTCCGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTTTGATTCTGTCACCTAATTCTAATT
* *
18557908 CTGATTCTCATTTTAATTCT
1 CTGATTCTGATTTTGATTCT
18557928 AGTTCTGATA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTTTGATTCTGTCACCTAATTCTAATT
Found at i:18559946 original size:27 final size:27
Alignment explanation
Indices: 18559916--18560081 Score: 197
Period size: 27 Copynumber: 6.1 Consensus size: 27
18559906 TAGTTTACAA
* *
18559916 AATTATTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
18559943 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
18559970 AATAATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
18559997 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
18560024 AAATACCGAAATGCCACTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
18560051 AATTACCGAGATACCCTTGCAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
18560078 AATT
1 AATT
18560082 TCCATTTTGT
Statistics
Matches: 120, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 120 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:18559984 original size:54 final size:54
Alignment explanation
Indices: 18559919--18560080 Score: 220
Period size: 54 Copynumber: 3.0 Consensus size: 54
18559909 TTTACAAAAT
* * *
18559919 TATTGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG-AA
1 TATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
18559972 TAATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
1 T-ATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
** * * * *
18560027 TACCGAAATGCCACTGTAGGGTAGAATTACCGAGATACCCTTGCAGGGTA-AAA
1 TATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
18560080 T
1 T
18560081 TTCCATTTTG
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 5 0.05
54 90 0.92
55 3 0.03
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (54 bp):
TATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
Found at i:18560650 original size:22 final size:22
Alignment explanation
Indices: 18560598--18560661 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
18560588 GCCAATTATT
* *
18560598 CTGATTTTGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
* *
18560620 CT-ACGTATGGCTTTGTGGCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
18560642 CTGATTATGGCTCTGTGCCA
1 CTGATTATGGCTTTGTGCCA
18560662 TTATTGTAGG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:18560890 original size:6 final size:6
Alignment explanation
Indices: 18560881--18560993 Score: 63
Period size: 6 Copynumber: 18.3 Consensus size: 6
18560871 TTGCATTCAC
* * *
18560881 ATTCTG ATTCTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * * *
18560931 ATTATG ATTCTG ATTCTG -TCACTTG ATTCTG ATTTTG ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
18560980 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
18560994 AATGTTTCTT
Statistics
Matches: 80, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
5 6 0.08
6 62 0.77
7 8 0.10
8 4 0.05
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:18560912 original size:25 final size:25
Alignment explanation
Indices: 18560884--18560972 Score: 108
Period size: 25 Copynumber: 3.6 Consensus size: 25
18560874 CATTCACATT
* *
18560884 CTGATTCTGATTCTATTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
*
18560909 CTGATTCTGATTCTGTCACCTAATTA
1 CTGATTCTGATTCTGTCACCTGA-TA
* *
18560935 -TGATTCTGATTCTGTCACTTGATT
1 CTGATTCTGATTCTGTCACCTGATA
*
18560959 CTGATTTTGATTCT
1 CTGATTCTGATTCT
18560973 CATTTTGATT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
24 1 0.02
25 52 0.95
26 2 0.04
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:18562126 original size:38 final size:38
Alignment explanation
Indices: 18562075--18562150 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
18562065 ATTTCAGGGA
18562075 TGAAATTTCTTTAAGGGAGGGAGAGTTGTAACACCCTG
1 TGAAATTTCTTTAAGGGAGGGAGAGTTGTAACACCCTG
*
18562113 TGAAATTTCTTTAAGGGAGGTAGAGTTGTAACACCCTG
1 TGAAATTTCTTTAAGGGAGGGAGAGTTGTAACACCCTG
18562151 AATTTGGGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (38 bp):
TGAAATTTCTTTAAGGGAGGGAGAGTTGTAACACCCTG
Found at i:18563038 original size:27 final size:27
Alignment explanation
Indices: 18563006--18563066 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
18562996 CTCAACTTGT
18563006 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACCAAAGTACCCCCGATTTAC
* *** *
18563033 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCCCGATTTAC
18563060 AAAATTA
1 AAAATTA
18563067 TTAAAATACC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCCCGATTTAC
Found at i:18563092 original size:27 final size:27
Alignment explanation
Indices: 18563070--18563256 Score: 180
Period size: 27 Copynumber: 6.9 Consensus size: 27
18563060 AAAATTATTA
* *
18563070 AAATACCCCTGTAGAGTAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACTG
* * *
18563097 AAATACACTTGTGGGGTAGAATTATTG
1 AAATACCCTTGTAGGGTAGAATTACTG
* * * *
18563124 AAATACCCCTATAGGGTAGGATTACCG
1 AAATACCCTTGTAGGGTAGAATTACTG
* *
18563151 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCTTGTAGGGTAGAATTACTG
*
18563178 AAATACCCTTGTAGGGTAGAAATT-CCG
1 AAATACCCTTGTAGGGTAG-AATTACTG
* * *
18563205 AAATACCCTTTTATGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACTG
* * *
18563232 AGATCCCCTTGT-GGGATAAAATTAC
1 AAATACCCTTGTAGGG-TAGAATTAC
18563257 CATTTTGCCC
Statistics
Matches: 133, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
26 6 0.05
27 124 0.93
28 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACTG
Found at i:18563155 original size:81 final size:80
Alignment explanation
Indices: 18563070--18563240 Score: 202
Period size: 81 Copynumber: 2.1 Consensus size: 80
18563060 AAAATTATTA
* * *
18563070 AAATACCCCTGTAGAGTAGAATTACTGAAATACACTTGTGGGGTAGAATTATT-GAAATACCCCT
1 AAATACCCCTGTAGAGTAGAAATACCGAAATACACTTGTAGGGTAGAA--ATTCGAAATACCCCT
*
18563134 ATAGGGTAGGATTACCG
64 ATAGGGTAGAATTACCG
* * * * *
18563151 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATTCCGAAATACCCTTT
1 AAATACCCCTGTAGAGTAGAAATACCGAAATACACTTGTAGGGTAGAAATT-CGAAATACCCCTA
*
18563216 TATGGTAGAATTACCG
65 TAGGGTAGAATTACCG
*
18563232 AGAT-CCCCT
1 AAATACCCCT
18563241 TGTGGGATAA
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 3 0.04
80 4 0.05
81 69 0.91
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (80 bp):
AAATACCCCTGTAGAGTAGAAATACCGAAATACACTTGTAGGGTAGAAATTCGAAATACCCCTAT
AGGGTAGAATTACCG
Found at i:18563231 original size:54 final size:54
Alignment explanation
Indices: 18563070--18563257 Score: 202
Period size: 54 Copynumber: 3.5 Consensus size: 54
18563060 AAAATTATTA
* * * * **
18563070 AAATACCCCTGTAGAGTAGAATTACTGAAATACACTTGTGGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCG
* * *
18563124 AAATACCCCTATAGGGTAGGATTACCGAAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCG
* * *
18563178 AAATACCCTTGTAGGGTAGAAATT-CCGAAATACCCTTTTATGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAG-AATTACCGAAATACCCTTGTAGGGTAGAATTACCG
* *
18563232 AGAT-CCCCTTGT-GGGATAAAATTACC
1 AAATACCCC-TGTAGGG-TAGAATTACC
18563258 ATTTTGCCCC
Statistics
Matches: 112, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
53 10 0.09
54 99 0.88
55 3 0.03
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCG
Found at i:18563823 original size:22 final size:22
Alignment explanation
Indices: 18563771--18563826 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
18563761 GCCAATTATT
* *
18563771 CTGATTTTGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGCACCAAC
* *
18563793 CT-ACATATGGCTTTGTACCAAC
1 CTGA-TTATGGCTTTGCACCAAC
18563815 CTGATTATGGCT
1 CTGATTATGGCT
18563827 GCGTGCCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (22 bp):
CTGATTATGGCTTTGCACCAAC
Found at i:18564145 original size:13 final size:13
Alignment explanation
Indices: 18564125--18564169 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
18564115 ATACTGATTT
18564125 TGATTCTGTCACC
1 TGATTCTGTCACC
*
18564138 TAATTCTGAT-A-C
1 TGATTCTG-TCACC
18564150 TGATTCTGTCACC
1 TGATTCTGTCACC
18564163 TGATTCT
1 TGATTCT
18564170 AATTCTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 1 0.04
12 9 0.33
13 16 0.59
14 1 0.04
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.42
Consensus pattern (13 bp):
TGATTCTGTCACC
Found at i:18564146 original size:25 final size:25
Alignment explanation
Indices: 18564091--18564181 Score: 103
Period size: 25 Copynumber: 3.7 Consensus size: 25
18564081 TTGCATTCAC
* *
18564091 ATTCTGATTCTGATT-TTTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
* * *
18564115 ATACTGATTTTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTG
*
18564140 ATTCTGATACTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
* *
18564165 ATTCTAATTCTAATTCT
1 ATTCTGATTCTGATTCT
18564182 CATTTTGATT
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
24 13 0.24
25 41 0.76
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTG
Found at i:18567813 original size:5 final size:5
Alignment explanation
Indices: 18567803--18567859 Score: 114
Period size: 5 Copynumber: 11.4 Consensus size: 5
18567793 CCATTGCCTT
18567803 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
18567853 ATATC AT
1 ATATC AT
18567860 CCATATCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATC
Found at i:18572221 original size:27 final size:26
Alignment explanation
Indices: 18572183--18572284 Score: 96
Period size: 27 Copynumber: 3.8 Consensus size: 26
18572173 AAGCGTCCTA
*
18572183 GTGGCTATGCCACAATTATCTAATCTG
1 GTGGCTCTGCCAC-ATTATCTAATCTG
**
18572210 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTAATCTG
* *
18572237 GTGGCTCTGCCACGATTATTTGTATCTG
1 GTGGCTCTGCCAC-ATTATCT-AATCTG
* **
18572265 GTGACTCTATCACATTATCT
1 GTGGCTCTGCCACATTATCT
18572285 GTTCTGGCAA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.03
27 44 0.71
28 16 0.26
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTAATCTG
Found at i:18572284 original size:54 final size:54
Alignment explanation
Indices: 18572183--18572291 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
18572173 AAGCGTCCTA
* *
18572183 GTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTAATCTGGTGACTCTACCACATATATCTGTTCTG
* * * * *
18572237 GTGGCTCTGCCACGATTATTTGTATCTGGTGACTCTATCACAT-TATCTGTTCTG
1 GTGGCTATGCCACAATTATCT-AATCTGGTGACTCTACCACATATATCTGTTCTG
18572291 G
1 G
18572292 CAACCATGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 30 0.64
55 17 0.36
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTAATCTGGTGACTCTACCACATATATCTGTTCTG
Found at i:18576994 original size:27 final size:27
Alignment explanation
Indices: 18576954--18577009 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
18576944 AACGGAGTTT
*
18576954 GTAGGGAAAGGTCTGACATGCCAGCAA
1 GTAGGGAAAGGTCTAACATGCCAGCAA
* *
18576981 GTAGGGAAATGTCTAACATGTCAGCAA
1 GTAGGGAAAGGTCTAACATGCCAGCAA
18577008 GT
1 GT
18577010 GAAAGCTGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (27 bp):
GTAGGGAAAGGTCTAACATGCCAGCAA
Found at i:18580088 original size:27 final size:26
Alignment explanation
Indices: 18580049--18580159 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 26
18580039 GGAAGCGTCT
*
18580049 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGATC
*
18580076 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGATC
18580103 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCAC-ATTATCTG-ATC
* * * *
18580131 TGGTGACTCGGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGATC
18580157 TGG
1 TGG
18580160 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.36
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATC
Found at i:18580152 original size:54 final size:54
Alignment explanation
Indices: 18580049--18580159 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
18580039 GGAAGCGTCT
* *
18580049 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCGGCCACATATATCTGTTC
* * *
18580103 TGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCGGTCACAT-TATCTGTTC
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCGGCCACATATATCTGTTC
18580157 TGG
1 TGG
18580160 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.36
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCGGCCACATATATCTGTTC
Found at i:18581966 original size:66 final size:66
Alignment explanation
Indices: 18581838--18581966 Score: 179
Period size: 67 Copynumber: 1.9 Consensus size: 66
18581828 TACTATGTGT
* * *
18581838 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGAGATAAATG-AGCTAGGTCACATGCGTGGTACCAAGTGAA
18581903 GG
65 GG
* * *
18581905 ACACCATGTAGACAAGAGAGCTATGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAAGAGAGCTACGAGATAAA-TGAGCTAGGTCACATGCGTGGTACCAAGTG
18581967 TTCACCATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
66 24 0.44
67 29 0.53
68 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACACCATGTAGACAAGAGAGCTACGAGATAAATGAGCTAGGTCACATGCGTGGTACCAAGTGAAG
G
Found at i:18586115 original size:28 final size:28
Alignment explanation
Indices: 18586081--18586145 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
18586071 TCAGTGTACG
* *
18586081 AAATATTGAGAATGGCACTTAATGTGCC
1 AAATATTGAGAATGACACTTAATGTGCA
* *
18586109 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
18586137 AAATATTGA
1 AAATATTGA
18586146 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:18586412 original size:40 final size:39
Alignment explanation
Indices: 18586218--18586401 Score: 262
Period size: 39 Copynumber: 4.7 Consensus size: 39
18586208 GACTTTATAA
* * *
18586218 TGGTGTTATATCCGGGCTAAGTCCTGAAGGTATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
18586257 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
18586296 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
18586335 TGGTGTTATATCTGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
18586374 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
18586402 CATGCTTTGT
Statistics
Matches: 133, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 112 0.84
40 21 0.16
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Done.