Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 126 of 295
Found at i:38296156 original size:45 final size:44
Alignment explanation
Indices: 38296039--38296177 Score: 156
Period size: 45 Copynumber: 3.1 Consensus size: 44
38296029 TACCGATATA
* * * * *
38296039 TCAGCTCGTAAGATCTTACTATTTTCAACTCATTGGAGCTTACCGTT
1 TCAGCTCGT-AGAGCTTACCATTTT-AGCTCATTAGAGCTTACTG-T
*
38296086 TCAGCTCGTATGAGCTTA-C-TGTTTAGCTCAATAGAGCTTACTGT
1 TCAGCTCGTA-GAGCTTACCAT-TTTAGCTCATTAGAGCTTACTGT
38296130 TCAGCTCGATAGAGCTTACCATTTTAGCTCATTAGAGCTTACTGT
1 TCAGCTCG-TAGAGCTTACCATTTTAGCTCATTAGAGCTTACTGT
38296175 TCA
1 TCA
38296178 TCAGCTCAAG
Statistics
Matches: 80, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
44 16 0.20
45 44 0.55
46 5 0.06
47 15 0.19
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (44 bp):
TCAGCTCGTAGAGCTTACCATTTTAGCTCATTAGAGCTTACTGT
Found at i:38299715 original size:14 final size:15
Alignment explanation
Indices: 38299685--38299716 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
38299675 CACTGATATC
38299685 AATAGCTCCATACAG
1 AATAGCTCCATACAG
38299700 AATAGCTCCA-ACAG
1 AATAGCTCCATACAG
38299714 AAT
1 AAT
38299717 TAAAAGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (15 bp):
AATAGCTCCATACAG
Found at i:38303825 original size:45 final size:46
Alignment explanation
Indices: 38303719--38303843 Score: 119
Period size: 45 Copynumber: 2.7 Consensus size: 46
38303709 AGCTCGTAAG
**
38303719 AGCTTACCGATATATCAGCTCGTAAGAGCTTACTATTTTCAGCTCATTGG
1 AGCTTACCG-T-T-TCAGCTCGTAAGAGCTTACTA-TTTCAGCTCATTAA
* *
38303769 AGCTTACCGTTTCAGCTTGTACGAGCTTACTA-TTCAGCTCGA-TAA
1 AGCTTACCGTTTCAGCTCGTAAGAGCTTACTATTTCAGCTC-ATTAA
* * * *
38303814 AGCTTATCGTTTTAGCTCATCAGAGCTTAC
1 AGCTTACCGTTTCAGCTCGTAAGAGCTTAC
38303844 CGTTCATCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
45 33 0.52
46 1 0.02
47 19 0.30
48 1 0.02
49 1 0.02
50 9 0.14
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (46 bp):
AGCTTACCGTTTCAGCTCGTAAGAGCTTACTATTTCAGCTCATTAA
Found at i:38305373 original size:27 final size:27
Alignment explanation
Indices: 38305311--38305362 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
38305301 TACAGTCTCG
*
38305311 TCAAACTATCCCATGTTTAATGTCCCA
1 TCAAACTATCCCATATTTAATGTCCCA
38305338 TCAAACTATCCCATATTTAATGTCC
1 TCAAACTATCCCATATTTAATGTCC
38305363 TGTCGGACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.35
Consensus pattern (27 bp):
TCAAACTATCCCATATTTAATGTCCCA
Found at i:38305572 original size:45 final size:45
Alignment explanation
Indices: 38305455--38305576 Score: 138
Period size: 45 Copynumber: 2.7 Consensus size: 45
38305445 TTAAAGGATG
* * *
38305455 TCATAGCATCTTTTAGCTATGATCTTACTCATTTCTATCATGATG
1 TCATAGCATCTTTTAGCTATGGTCTTACTCATTTCTACCATGATA
* * * * * * *
38305500 TTATAGCATCTTTCAGTTTTGGCCTTACTTATATT-TCCCATGATA
1 TCATAGCATCTTTTAGCTATGGTCTTACTCAT-TTCTACCATGATA
38305545 TCATAGCATCTTTTAGCTATGGTCTTACTCAT
1 TCATAGCATCTTTTAGCTATGGTCTTACTCAT
38305577 CTTGGCATAT
Statistics
Matches: 60, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
45 58 0.97
46 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.45
Consensus pattern (45 bp):
TCATAGCATCTTTTAGCTATGGTCTTACTCATTTCTACCATGATA
Found at i:38309213 original size:50 final size:50
Alignment explanation
Indices: 38309132--38309238 Score: 151
Period size: 50 Copynumber: 2.1 Consensus size: 50
38309122 GAGAATTCTT
* * *
38309132 TAGAAAGCCTTTGTGGCTAATCTTGTAAAAAGCCTTTGTGGCGTATTATC
1 TAGAAAGCCTTTGTGGCTAATATTGTAAAAAGCCTTTGTAGAGTATTATC
* * *
38309182 TAGAAAGCCTTTGTGGCTAATATTGTGAAAAGCTTTTTTAGAGTATTATC
1 TAGAAAGCCTTTGTGGCTAATATTGTAAAAAGCCTTTGTAGAGTATTATC
*
38309232 TGGAAAG
1 TAGAAAG
38309239 ACCGTGTGAC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.36
Consensus pattern (50 bp):
TAGAAAGCCTTTGTGGCTAATATTGTAAAAAGCCTTTGTAGAGTATTATC
Found at i:38309217 original size:24 final size:24
Alignment explanation
Indices: 38309135--38309214 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 24
38309125 AATTCTTTAG
*
38309135 AAAGCCTTTGTGGCTAATCTTGTAA
1 AAAGCCTTTGTGGCTAATATTGT-A
* *
38309160 AAAGCCTTTGTGGCGTATTA-TCTA
1 AAAGCCTTTGTGGC-TAATATTGTA
38309184 GAAAGCCTTTGTGGCTAATATTGTGA
1 -AAAGCCTTTGTGGCTAATATTGT-A
38309210 AAAGC
1 AAAGC
38309215 TTTTTTAGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
24 5 0.11
25 37 0.80
26 4 0.09
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (24 bp):
AAAGCCTTTGTGGCTAATATTGTA
Found at i:38311067 original size:33 final size:34
Alignment explanation
Indices: 38311020--38311085 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 34
38311010 AAAGTATAAC
* * *
38311020 TAATTTTTGTATTTTTATATTTTA-TAT-TATTTA
1 TAATTTATGCATTTTT-TAATTTATTATCTATTTA
38311053 TAATTTATGCATTTTTTAATTTATTATCTATTT
1 TAATTTATGCATTTTTTAATTTATTATCTATTT
38311086 TAAATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 6 0.21
33 17 0.61
34 5 0.18
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (34 bp):
TAATTTATGCATTTTTTAATTTATTATCTATTTA
Found at i:38312405 original size:54 final size:54
Alignment explanation
Indices: 38312347--38312464 Score: 193
Period size: 54 Copynumber: 2.2 Consensus size: 54
38312337 TTTACACCAC
38312347 AAATCACT-TACTAATATATTTCAGCAACTCAATCTGAGAAAAGACGACCCTCAA
1 AAATC-CTCTACTAATATATTTCAGCAACTCAATCTGAGAAAAGACGACCCTCAA
* *
38312401 AAATCTTCTACTCATATATTTCAGCAACTCAATCTGAGAAAAGACGACCCTCAA
1 AAATCCTCTACTAATATATTTCAGCAACTCAATCTGAGAAAAGACGACCCTCAA
*
38312455 AAATCTTCTA
1 AAATCCTCTA
38312465 GTATTGCTCC
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
53 1 0.02
54 60 0.98
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (54 bp):
AAATCCTCTACTAATATATTTCAGCAACTCAATCTGAGAAAAGACGACCCTCAA
Found at i:38313708 original size:86 final size:86
Alignment explanation
Indices: 38313563--38313732 Score: 313
Period size: 86 Copynumber: 2.0 Consensus size: 86
38313553 TTATGAGAAG
*
38313563 AAGAAGCGTAAGCGACCACCAACTCAACAGATCCCGACTCTACCAATGCCGCCGCCACCACCACC
1 AAGAAGCGTAAGCGACCACCAACTCAACAGATCCCGACTCTACCAATGCCGCCACCACCACCACC
38313628 AGGTGCAAGTTAAACTATAAA
66 AGGTGCAAGTTAAACTATAAA
* *
38313649 AAGAAGCGTAAGCGACCACCAGCTCAACAGATCCCGACTCTACCATTGCCGCCACCACCACCACC
1 AAGAAGCGTAAGCGACCACCAACTCAACAGATCCCGACTCTACCAATGCCGCCACCACCACCACC
38313714 AGGTGCAAGTTAAACTATA
66 AGGTGCAAGTTAAACTATA
38313733 TATATGCATC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.35, C:0.35, G:0.16, T:0.14
Consensus pattern (86 bp):
AAGAAGCGTAAGCGACCACCAACTCAACAGATCCCGACTCTACCAATGCCGCCACCACCACCACC
AGGTGCAAGTTAAACTATAAA
Found at i:38317182 original size:104 final size:104
Alignment explanation
Indices: 38317002--38317206 Score: 365
Period size: 104 Copynumber: 2.0 Consensus size: 104
38316992 AAACATAATT
*
38317002 GAACATCCTCATCAAGCTATTGAGAGAAGCTAAATGAGATCTCCATTGGGCAACACCTAGACGTT
1 GAACATCCTCATCAAGCTATTGAGAGAAGCTAAATGAGATCTCCATTGAGCAACACCTAGACGTT
*
38317067 GGAGAGTACCAACTTGATTTTTCCCTTTGCCAGTTTTAA
66 GGAGAGTACCAACTTAATTTTTCCCTTTGCCAGTTTTAA
* * *
38317106 GAACATCCTCATCAAGCTATTGAGAGAAGCTAAATGAGATCTCCATTGAGTATCGCCTAGACGTT
1 GAACATCCTCATCAAGCTATTGAGAGAAGCTAAATGAGATCTCCATTGAGCAACACCTAGACGTT
38317171 GGAGAGTACCAACTTAATTTTTCCCTTTGCCAGTTT
66 GGAGAGTACCAACTTAATTTTTCCCTTTGCCAGTTT
38317207 CAAGCTCAAC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 96 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (104 bp):
GAACATCCTCATCAAGCTATTGAGAGAAGCTAAATGAGATCTCCATTGAGCAACACCTAGACGTT
GGAGAGTACCAACTTAATTTTTCCCTTTGCCAGTTTTAA
Found at i:38318538 original size:30 final size:30
Alignment explanation
Indices: 38318511--38318602 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 30
38318501 TGGTATCTTG
38318511 TTCAGGAGCTTGGAAAGACTTGATATCTCA
1 TTCAGGAGCTTGGAAAGACTTGATATCTCA
* * *
38318541 TTCAAGATCTTGGGTTTGAGAAGATTTGATATCTCA
1 TTCAGGAGCTT--G---GA-AAGACTTGATATCTCA
38318577 TTCAGGAGCTTGGAAAGACTTGATAT
1 TTCAGGAGCTTGGAAAGACTTGATAT
38318603 TTGATTTTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
30 20 0.40
31 2 0.04
32 1 0.02
34 1 0.02
35 2 0.04
36 24 0.48
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (30 bp):
TTCAGGAGCTTGGAAAGACTTGATATCTCA
Found at i:38320060 original size:50 final size:50
Alignment explanation
Indices: 38319992--38320091 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
38319982 CATTGAAAAC
*
38319992 TTTATATTTCAATAATTTGGGTTTTGCTATAAGGATCGATCGCAACATGG
1 TTTATACTTCAATAATTTGGGTTTTGCTATAAGGATCGATCGCAACATGG
*
38320042 TTTATACTTCAATAATTTGGGTTTTGCTATGAGGATCGATCGCAACATGG
1 TTTATACTTCAATAATTTGGGTTTTGCTATAAGGATCGATCGCAACATGG
38320092 ACTCCATTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (50 bp):
TTTATACTTCAATAATTTGGGTTTTGCTATAAGGATCGATCGCAACATGG
Found at i:38323017 original size:71 final size:73
Alignment explanation
Indices: 38322933--38323112 Score: 197
Period size: 71 Copynumber: 2.5 Consensus size: 73
38322923 TTCGGACCTA
* * *** * * *
38322933 AAGGGAGAACATTCAGCCATCGATGTCGCGATAACAACCACTCAATGTCGGGACAACAAATTTTG
1 AAGGG-GAGCATTCAACCATCGATGTCGCGATAACAACCACTCAATGTCACAACAAAAAACTTCG
38322998 AA-CT-TAG
65 AACCTATAG
* * * *
38323005 AAGGGGAGCATTCAACCTTCAATGTCGCAACAACAACCACTCAATGTCACAACAAAAAACTTCGA
1 AAGGGGAGCATTCAACCATCGATGTCGCGATAACAACCACTCAATGTCACAACAAAAAACTTCGA
38323070 ACCTATAG
66 ACCTATAG
* *
38323078 -A-GGGAGCATTCAATCATCGATGTTGCGATAACAAC
1 AAGGGGAGCATTCAACCATCGATGTCGCGATAACAAC
38323113 TATTCCATGT
Statistics
Matches: 88, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
71 77 0.88
72 8 0.09
73 3 0.03
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (73 bp):
AAGGGGAGCATTCAACCATCGATGTCGCGATAACAACCACTCAATGTCACAACAAAAAACTTCGA
ACCTATAG
Found at i:38326697 original size:40 final size:40
Alignment explanation
Indices: 38326458--38326683 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
38326448 TTGAATGATG
* * * * *
38326458 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
** * *
38326498 TCCGGACTAAGAT-CCAAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** **
38326538 TCTAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
38326578 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
38326618 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
38326659 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
38326684 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.01
40 154 0.93
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38328542 original size:44 final size:44
Alignment explanation
Indices: 38328482--38328599 Score: 159
Period size: 44 Copynumber: 2.7 Consensus size: 44
38328472 AGGATTCTAG
* * *
38328482 TATGTGATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGA
1 TATGTGATTTACGTGTAAGACCATGTCTGGGAAAATGACATCGA
* *
38328525 TTTGTGATTTACGTGTAAGACCCTGTCTGGGAAAATGACATCGA
1 TATGTGATTTACGTGTAAGACCATGTCTGGGAAAATGACATCGA
* *
38328569 TATGTGA-TTACATGTAAGACCACGTCTGGGA
1 TATGTGATTTACGTGTAAGACCATGTCTGGGA
38328600 TGTGGATGTT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
43 30 0.46
44 35 0.54
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (44 bp):
TATGTGATTTACGTGTAAGACCATGTCTGGGAAAATGACATCGA
Found at i:38333167 original size:39 final size:38
Alignment explanation
Indices: 38333124--38333375 Score: 175
Period size: 39 Copynumber: 6.5 Consensus size: 38
38333114 CTTATATCCC
* *
38333124 TGATCGCACTTATGTGCCACTATCGTACTTCGATACCCT
1 TGATCGCACTTATGTGCC-CTATCATACTTCGGTACCCT
* *
38333163 TGATCACACTTATGTGCCCTTATCATACTTCGGTACACT
1 TGATCGCACTTATGTGCCC-TATCATACTTCGGTACCCT
* * *
38333202 TGATCGCATTTACGTGCCCTTGTCATACTTCGGTACCCT
1 TGATCGCACTTATGTGCCC-TATCATACTTCGGTACCCT
* * * * *
38333241 TTATTGCACTTACAT-TTCCCTGTCATACTTCGGTAGCCT
1 TGATCGCACTT--ATGTGCCCTATCATACTTCGGTACCCT
* * * * *
38333280 TGGTTGCACCTACGTGCCCCTATCATACTTTGGTAGCCC-
1 TGATCGCACTTATGTG-CCCTATCATACTTCGGTA-CCCT
* * * * ** * *
38333319 TGGTTGCACCTACGTGCCCCTATTGTACTTCGATACTCT
1 TGATCGCACTTATGTG-CCCTATCATACTTCGGTACCCT
* *
38333358 TGATAGCACTTTTGTGCC
1 TGATCGCACTTATGTGCC
38333376 GTGGTTACGT
Statistics
Matches: 173, Mismatches: 33, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
37 1 0.01
38 6 0.03
39 159 0.92
40 6 0.03
41 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.36
Consensus pattern (38 bp):
TGATCGCACTTATGTGCCCTATCATACTTCGGTACCCT
Found at i:38341927 original size:21 final size:21
Alignment explanation
Indices: 38341901--38341955 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
38341891 TGTCAAATGA
38341901 ACACGGGCGTGGGGCTTTCAT
1 ACACGGGCGTGGGGCTTTCAT
38341922 ACACGGGCGTGGGGCTTTCAT
1 ACACGGGCGTGGGGCTTTCAT
38341943 ACACGGGCGTGGG
1 ACACGGGCGTGGG
38341956 AGAAGTGGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.15, C:0.24, G:0.42, T:0.20
Consensus pattern (21 bp):
ACACGGGCGTGGGGCTTTCAT
Found at i:38342621 original size:21 final size:20
Alignment explanation
Indices: 38342589--38342637 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
38342579 TTTTTCGAAT
* * *
38342589 TTGTTTACCTATTGTTATTA
1 TTGTTTATCTATTATTACTA
38342609 TTCGTTTATCTATTATTACTA
1 TT-GTTTATCTATTATTACTA
38342630 TTGTTTAT
1 TTGTTTAT
38342638 ATTATAGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.61
Consensus pattern (20 bp):
TTGTTTATCTATTATTACTA
Found at i:38358501 original size:41 final size:42
Alignment explanation
Indices: 38358442--38358549 Score: 121
Period size: 41 Copynumber: 2.6 Consensus size: 42
38358432 AATATCAACA
* * *
38358442 GTATATGGCACTTGGTGTGCGAGATCACGATAGCTTCGGCTAT
1 GTATA-GGCACTTAGTGTGCGAGATCAAGATAACTTCGGCTAT
* * *
38358485 GTA-AGGCACTTAGTGTGCGAAATTAATATAACTTCGGCTAT
1 GTATAGGCACTTAGTGTGCGAGATCAAGATAACTTCGGCTAT
*
38358526 GTATTA-GTACTTAGTGTGCGAGAT
1 GTA-TAGGCACTTAGTGTGCGAGAT
38358550 ATCGAGTATT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 34 0.62
42 17 0.31
43 4 0.07
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (42 bp):
GTATAGGCACTTAGTGTGCGAGATCAAGATAACTTCGGCTAT
Found at i:38360868 original size:30 final size:30
Alignment explanation
Indices: 38360834--38360913 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 30
38360824 TTTTTGAGCA
* *
38360834 TAGGGGTAAAATGGTCATTTCGCCAAAGTC
1 TAGGGGCAAAATGGTTATTTCGCCAAAGTC
*
38360864 TAGGGGCAAAATGGTTATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTTATTTCGCCAAAGTC
*
38360894 TAGAGGCAAAATGGTTATTT
1 TAGGGGCAAAATGGTTATTT
38360914 TACTGAAGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAATGGTTATTTCGCCAAAGTC
Found at i:38361379 original size:46 final size:46
Alignment explanation
Indices: 38361246--38361464 Score: 149
Period size: 46 Copynumber: 4.7 Consensus size: 46
38361236 TGCGTGAGCT
* * ** *
38361246 AGTGTAAGATATGTCTGGGACATCCATCGGCCAT-ATTA-TTAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CATCAAGACGTA-AGCC
* * * * *
38361292 AGTGTGAGACCATGTCCGGGACATGGCATCGGCATTAAGACG-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCAAGACGTA-AGCC
* * *
38361340 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACGTAAGCC
* * * *** * *
38361386 AGTGTAAGACATGTCTGGGATATGGATCGAC-TTGGGATGTGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACGTAAGCC
*
38361431 AGTGTAAGATCGTGTCTGGGACATGGCATCGGCA
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
38361465 CCTTACCCAT
Statistics
Matches: 136, Mismatches: 29, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
45 19 0.14
46 63 0.46
47 34 0.25
48 20 0.15
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACGTAAGCC
Found at i:38369150 original size:46 final size:46
Alignment explanation
Indices: 38369092--38369215 Score: 157
Period size: 46 Copynumber: 2.7 Consensus size: 46
38369082 ATTGGTATTA
38369092 AGACGAGT-GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCT-CG
1 AGACGA-TAGCTAGTGTAAGACATGTTTGGGACATGCATCGG-CTACG
*
38369138 AGACG-TAAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACG
1 AGACGAT-AGCTAGTGTAAGACATGTTTGGGACATGCATCGGCTACG
*
38369184 AGATGATAG-TCAGTGTAAGACCATGTTTGGGA
1 AGACGATAGCT-AGTGTAAGA-CATGTTTGGGA
38369216 TATGGCTGTA
Statistics
Matches: 69, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
44 1 0.01
45 3 0.04
46 54 0.78
47 11 0.16
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.24
Consensus pattern (46 bp):
AGACGATAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCTACG
Found at i:38370843 original size:38 final size:38
Alignment explanation
Indices: 38370798--38370871 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
38370788 TTAAAATTGT
*
38370798 GAAAATCACTTGAAGTAATTAAAACCTTATCTTTAAAG
1 GAAAATCACTTGAAGTAACTAAAACCTTATCTTTAAAG
* * *
38370836 GAAAATCACTTGAAGTGACTAGAGCCTTATCTTTAA
1 GAAAATCACTTGAAGTAACTAAAACCTTATCTTTAA
38370872 GCCTTATCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (38 bp):
GAAAATCACTTGAAGTAACTAAAACCTTATCTTTAAAG
Found at i:38379092 original size:13 final size:13
Alignment explanation
Indices: 38379069--38379105 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
38379059 AGACAGGGAT
*
38379069 ACGCTCGTGTGAC
1 ACGCCCGTGTGAC
*
38379082 ATGCCCGTGTGAC
1 ACGCCCGTGTGAC
38379095 ACGCCCGTGTG
1 ACGCCCGTGTG
38379106 CGATTGCTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.32, G:0.32, T:0.22
Consensus pattern (13 bp):
ACGCCCGTGTGAC
Found at i:38379547 original size:39 final size:39
Alignment explanation
Indices: 38379504--38379583 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
38379494 CTTCTCAATT
*
38379504 TATAATCCCTATAAATAATATCTAAAAATAATCCATAAG
1 TATAATCCCTATAAATAATATCTAAAAACAATCCATAAG
* *
38379543 TATAATCCCTATCAATAATATCTCAAAACAATCCATAAG
1 TATAATCCCTATAAATAATATCTAAAAACAATCCATAAG
38379582 TA
1 TA
38379584 ATCATCCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.30
Consensus pattern (39 bp):
TATAATCCCTATAAATAATATCTAAAAACAATCCATAAG
Found at i:38392896 original size:50 final size:49
Alignment explanation
Indices: 38392781--38392955 Score: 183
Period size: 50 Copynumber: 3.5 Consensus size: 49
38392771 TGAGGTCGCA
* * * * *
38392781 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTAT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
* **
38392832 TGTGTAGTATTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * * *
38392882 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
38392931 TGTGTAGTACTAAGTGCAGGCTACT
1 TGTGTAGTACTAAGTGCAGGCTACT
38392956 GTACGTACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 30 0.29
50 41 0.39
51 30 0.29
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:38392961 original size:101 final size:100
Alignment explanation
Indices: 38392770--38392955 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 100
38392760 ATGATCTATT
* *
38392770 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCACGTGT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCC-AAAACTATGATCACATGT
*
38392835 GTAGTATTAAGTGCAGGCTACTACGTGTATTAGATG
65 GTAGTACTAAGTGCAGGCTACTACGTGTATTAGATG
* * * * * *
38392871 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CC-AGACTGTTGGTCGCATGT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAACT-ATGATCACATGT
38392934 GTAGTACTAAGTGCAGGCTACT
65 GTAGTACTAAGTGCAGGCTACT
38392956 GTACGTACCA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
98 4 0.05
99 29 0.39
100 2 0.03
101 40 0.53
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (100 bp):
GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAACTATGATCACATGTG
TAGTACTAAGTGCAGGCTACTACGTGTATTAGATG
Found at i:38395407 original size:31 final size:31
Alignment explanation
Indices: 38395369--38395443 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
38395359 ACGGTTACTG
38395369 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* *
38395400 GGCCGAAGCCTTTTCATAAATCATATCATTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
*
38395431 GGCCTAAGCCTTT
1 GGCCGAAGCCTTT
38395444 ACTGTAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:38395514 original size:42 final size:42
Alignment explanation
Indices: 38395467--38395558 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
38395457 TGGCCCTTAG
* * ** *
38395467 GCCCATTTCAATCTCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
38395509 GCCCATTTCAGTATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
38395551 GCCCATTT
1 GCCCATTT
38395559 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:38395903 original size:26 final size:26
Alignment explanation
Indices: 38395703--38395896 Score: 270
Period size: 26 Copynumber: 7.5 Consensus size: 26
38395693 CCTCTTTAAT
**
38395703 AACTGGGGCA-AAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
38395728 AACTGAGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
38395753 AACT-GGGCATAAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
38395778 AACTAGGGCATAAGCCCTTTTTCCA-TA
1 AACTGGGGCATAAGCCC-TTTT-CAGTA
38395805 AACTGGGGCATAAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
38395831 AACTGGGGTATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
38395857 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
38395883 AACTGGGGCATAAG
1 AACTGGGGCATAAG
38395897 TCATTTTGCA
Statistics
Matches: 152, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
24 4 0.03
25 45 0.30
26 79 0.52
27 22 0.14
28 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAGTA
Found at i:38396730 original size:27 final size:26
Alignment explanation
Indices: 38396700--38396771 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
38396690 CATTTTAACA
38396700 TACAGGGGTATTACGGTCACTTTACCC
1 TACAGGGGT-TTACGGTCACTTTACCC
* *
38396727 TACAGGGGCTTTACAGTCACTTTACGC
1 TACAGGGG-TTTACGGTCACTTTACCC
*
38396754 TACAAGGGCTTTACGGTC
1 TAC-AGGGGTTTACGGTC
38396772 TTTTTACCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 34 0.87
28 5 0.13
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (26 bp):
TACAGGGGTTTACGGTCACTTTACCC
Found at i:38396778 original size:27 final size:27
Alignment explanation
Indices: 38396710--38396771 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
38396700 TACAGGGGTA
*
38396710 TTACGGTCACTTTACCCTACAGGGGCT
1 TTACGGTCACTTTACCCTACAAGGGCT
* *
38396737 TTACAGTCACTTTACGCTACAAGGGCT
1 TTACGGTCACTTTACCCTACAAGGGCT
38396764 TTACGGTC
1 TTACGGTC
38396772 TTTTTACCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (27 bp):
TTACGGTCACTTTACCCTACAAGGGCT
Found at i:38396936 original size:27 final size:27
Alignment explanation
Indices: 38396882--38397019 Score: 136
Period size: 27 Copynumber: 5.1 Consensus size: 27
38396872 TTTCCATAAT
* * *
38396882 TTTTAGAAAGTCAAGGGTATTTTTGTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
**
38396910 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
38396937 TTTTACAAAGTGA-GGGTATTTCGGTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
* * *
38396964 TTTCACAAACCAGTGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
*
38396991 TTTTACAAA-CTAAGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
38397018 TT
1 TT
38397020 CTACCCTATA
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.02
27 80 0.88
28 9 0.10
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:38397070 original size:26 final size:26
Alignment explanation
Indices: 38397041--38397125 Score: 91
Period size: 26 Copynumber: 3.2 Consensus size: 26
38397031 AGGTATTTCA
*
38397041 GTAATTTCACAATTGAGGGTAAAACG
1 GTAATTTCACAATCGAGGGTAAAACG
**
38397067 GTAATTTCACAATCGAGGGTAAAATA
1 GTAATTTCACAATCGAGGGTAAAACG
* * *
38397093 GTAATTCTGTA-AATCAAGGGTAAAACA
1 GTAATT-T-CACAATCGAGGGTAAAACG
38397120 GTAATT
1 GTAATT
38397126 CTATAAATCG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 29 0.57
27 21 0.41
28 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (26 bp):
GTAATTTCACAATCGAGGGTAAAACG
Found at i:38397115 original size:27 final size:27
Alignment explanation
Indices: 38397055--38397141 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
38397045 TTTCACAATT
* *
38397055 GAGGGTAAAACGGTAATT-TCA-CAATC
1 GAGGGTAAAACAGTAATTCT-ATAAATC
* *
38397081 GAGGGTAAAATAGTAATTCTGTAAATC
1 GAGGGTAAAACAGTAATTCTATAAATC
*
38397108 AAGGGTAAAACAGTAATTCTATAAATC
1 GAGGGTAAAACAGTAATTCTATAAATC
38397135 GAGGGTA
1 GAGGGTA
38397142 CTTTGGTAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 16 0.31
27 35 0.69
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.25
Consensus pattern (27 bp):
GAGGGTAAAACAGTAATTCTATAAATC
Found at i:38398326 original size:46 final size:46
Alignment explanation
Indices: 38398229--38398339 Score: 132
Period size: 46 Copynumber: 2.4 Consensus size: 46
38398219 CCAGGGCTTA
* *
38398229 TATTCTCGAGTATGCAACATATGCAGGAGCTTGGAACCTAAACATG
1 TATTCTCGAGTATGCAACACATGCAGGAGCTTAGAACCTAAACATG
* * * * ** *
38398275 GATTCTCAAGTTTGCAACACATGTAGGAGCTTAGAACCTATTCCTG
1 TATTCTCGAGTATGCAACACATGCAGGAGCTTAGAACCTAAACATG
*
38398321 TATTCTCGAGTCTGCAACA
1 TATTCTCGAGTATGCAACA
38398340 TATACAAGAC
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (46 bp):
TATTCTCGAGTATGCAACACATGCAGGAGCTTAGAACCTAAACATG
Found at i:38406351 original size:39 final size:39
Alignment explanation
Indices: 38406258--38406453 Score: 216
Period size: 39 Copynumber: 4.9 Consensus size: 39
38406248 AGCCAGGTTA
* * *
38406258 TAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT
*
38406298 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGAAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
* *
38406337 TAGTATCTCGCACAAATGCCTTCGGGCTTAGCCTGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
* * *
38406376 TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG-AT
1 TAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGAAT
* * * *
38406415 ATGGTCACTTAGCACAAA-GCCTTCGAGACTTAGCCCGGA
1 -TAGTAAC-TCGCACAAATGCCTTCG-GGCTTAGCCCGGA
38406454 CATCATTCAA
Statistics
Matches: 135, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 73 0.54
40 53 0.39
41 9 0.07
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
Found at i:38414403 original size:38 final size:40
Alignment explanation
Indices: 38414275--38414443 Score: 229
Period size: 40 Copynumber: 4.3 Consensus size: 40
38414265 GCTCCTCGTT
* * *
38414275 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
38414315 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
38414355 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
38414393 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
38414432 CAAATGCCTTCG
1 CAAATGCCTTCG
38414444 ATCTTAGTTC
Statistics
Matches: 120, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
38 37 0.31
39 33 0.28
40 48 0.40
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:38418367 original size:40 final size:40
Alignment explanation
Indices: 38418283--38418466 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
38418273 TTGAATGCTG
* * * *
38418283 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
38418322 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
38418363 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
38418403 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
38418443 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38418467 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:38418420 original size:80 final size:81
Alignment explanation
Indices: 38418283--38418463 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
38418273 TTGAATGCTG
* *
38418283 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
38418347 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
38418363 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
38418424 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
38418443 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
38418464 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:38418487 original size:39 final size:39
Alignment explanation
Indices: 38418283--38418503 Score: 182
Period size: 40 Copynumber: 5.6 Consensus size: 39
38418273 TTGAATGCTG
* * * *
38418283 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAC-TATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACATA-A
** *
38418323 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTA-TTAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACATAA
* *
38418362 TTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATAC-TAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACATAA
** *
38418402 TTCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 -TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACATAA
**
38418443 TCCGGGTTAAGTCCCGAAGGCATTGTATGAGTTACCATAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTA-CATAA
* *
38418483 -CCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
38418504 CTTGAACGAG
Statistics
Matches: 151, Mismatches: 20, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
39 31 0.21
40 110 0.73
41 10 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACATAA
Found at i:38426308 original size:40 final size:40
Alignment explanation
Indices: 38426231--38426407 Score: 191
Period size: 40 Copynumber: 4.4 Consensus size: 40
38426221 CTGTCCGGGC
* * * *
38426231 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT-TCCGGAT
*
38426271 TAAGAT-CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGT
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTATTAATTCCGGAT
* * * *
38426311 TAAGTCCCGAAGGCCTTTGTGCGAGATACTAATTCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTATTAATTCCGGAT
* *
38426351 TAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGAT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTATT-AATTCCGGAT
38426391 TAAGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
38426408 GTATGAGTTA
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 106 0.90
41 10 0.08
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTATTAATTCCGGAT
Found at i:38426361 original size:80 final size:81
Alignment explanation
Indices: 38426224--38426404 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
38426214 TTGAATGCTG
* *
38426224 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
38426288 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
38426304 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
38426365 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
*
38426384 TCCGGATTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
38426405 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:38428310 original size:24 final size:24
Alignment explanation
Indices: 38428277--38428326 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
38428267 ACGTAGCTCC
*
38428277 TCTTCATGAGCGTCCTGATATAGGA
1 TCTTCATGAGCGTCCTGACAT-GGA
*
38428302 TCTT-ATGAGCTTCCTGACATGGA
1 TCTTCATGAGCGTCCTGACATGGA
38428325 TC
1 TC
38428327 GCTTGAACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 14 0.61
25 4 0.17
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (24 bp):
TCTTCATGAGCGTCCTGACATGGA
Found at i:38454829 original size:18 final size:18
Alignment explanation
Indices: 38454806--38454843 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
38454796 TTGGTTTATC
*
38454806 TACATACATACATTTGCA
1 TACATACATACATATGCA
38454824 TACATACATACATATGCA
1 TACATACATACATATGCA
38454842 TA
1 TA
38454844 AACTATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (18 bp):
TACATACATACATATGCA
Found at i:38455163 original size:91 final size:92
Alignment explanation
Indices: 38454999--38455220 Score: 299
Period size: 91 Copynumber: 2.5 Consensus size: 92
38454989 TGGATTACCA
* * ***
38454999 CATTGCACTATACTGCATGTACGTTAG---CGCTACGTACCATTGACTGAATTGGCAGTTTTACT
1 CATTGCACTGTACCGCATGTACGTTAGCTACGCTACGTACCATTGACTGAATCAACAGTTTTACT
*
38455061 GCAACATATTGGTATAGCGGACTACTG
66 GCAACATATTGGTATAGCGGACTACAG
* *
38455088 CATTGCACTGTACCGCATGTACATTAGCTACGCTATGTACCATTGACTGAA-CAACAGTTTTACT
1 CATTGCACTGTACCGCATGTACGTTAGCTACGCTACGTACCATTGACTGAATCAACAGTTTTACT
*
38455152 GCAACATATTGGTATAGTGGACTACAG
66 GCAACATATTGGTATAGCGGACTACAG
* * * *
38455179 CATTGAAGTGTACCACAAGTACGTTAGCTACGCTACGTACCA
1 CATTGCACTGTACCGCATGTACGTTAGCTACGCTACGTACCA
38455221 CCATCTGATC
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
89 24 0.21
91 71 0.62
92 20 0.17
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (92 bp):
CATTGCACTGTACCGCATGTACGTTAGCTACGCTACGTACCATTGACTGAATCAACAGTTTTACT
GCAACATATTGGTATAGCGGACTACAG
Found at i:38466475 original size:33 final size:33
Alignment explanation
Indices: 38466432--38466494 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
38466422 CACTTAGTCT
* *
38466432 TTTTTGTTTTTAAAGAAGCATTTATTCATGGTC
1 TTTTTCTTTTTAAACAAGCATTTATTCATGGTC
38466465 TTTTTCTTTTTAAACAAGCATTTATTCATG
1 TTTTTCTTTTTAAACAAGCATTTATTCATG
38466495 CTTACTATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.52
Consensus pattern (33 bp):
TTTTTCTTTTTAAACAAGCATTTATTCATGGTC
Found at i:38468465 original size:16 final size:19
Alignment explanation
Indices: 38468438--38468485 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 19
38468428 CCCCCTTTAT
38468438 AAACATTTTAAATTA-AAA
1 AAACATTTTAAATTAGAAA
*
38468456 AAA-A-TTTAAACTAGAAA
1 AAACATTTTAAATTAGAAA
38468473 AAACATTTTAAAT
1 AAACATTTTAAAT
38468486 CTTAATTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 8 0.32
17 7 0.28
18 4 0.16
19 6 0.24
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.31
Consensus pattern (19 bp):
AAACATTTTAAATTAGAAA
Found at i:38474560 original size:40 final size:40
Alignment explanation
Indices: 38474462--38474631 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
38474452 TCCTCGTTCA
* * * *
38474462 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* *
38474501 AATGCCTTCGGGACATAACCCGGATTTAACAACTTGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
38474541 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * *
38474581 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
38474621 AAGGCCTTCGG
1 AATGCCTTCGG
38474632 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.28
40 84 0.72
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:38474563 original size:79 final size:80
Alignment explanation
Indices: 38474462--38474608 Score: 233
Period size: 79 Copynumber: 1.9 Consensus size: 80
38474452 TCCTCGTTCA
* * *
38474462 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
38474526 TTAACAACTTGCACG
66 TTAACAACTTGCACG
* * *
38474541 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
38474606 TTA
66 TTA
38474609 GTATCTCGCA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 34 0.56
80 27 0.44
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
TTAACAACTTGCACG
Found at i:38474628 original size:80 final size:79
Alignment explanation
Indices: 38474460--38474684 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 79
38474450 GCTCCTCGTT
* * * * *
38474460 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
*
38474525 TTTAACAACTTGCA
66 TTTAACAACTCGCA
* *
38474539 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
** *
38474604 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
* * * * * * * *
38474619 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCG
38474683 GA
64 GA
38474685 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 38 0.31
80 79 0.65
81 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCA
Found at i:38474644 original size:40 final size:40
Alignment explanation
Indices: 38474460--38474684 Score: 204
Period size: 40 Copynumber: 5.7 Consensus size: 40
38474450 GCTCCTCGTT
* * * * * *
38474460 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * *
38474500 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTTGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
38474539 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * *
38474579 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
** * * * *
38474619 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
38474660 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGA
38474685 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.22
40 113 0.71
41 11 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:38474684 original size:120 final size:119
Alignment explanation
Indices: 38474462--38474684 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
38474452 TCCTCGTTCA
* * * *
38474462 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
*
38474527 TAACAACTTGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTTGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * **
38474581 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
38474645 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAACTT-GCACGAAAGCCTTCGGGACTTAACCCGGA
38474685 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 45 0.52
121 5 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTTGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38474693 original size:41 final size:41
Alignment explanation
Indices: 38474616--38474693 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38474606 TTAGTATCTC
* * *
38474616 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38474657 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38474694 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38477352 original size:16 final size:19
Alignment explanation
Indices: 38477325--38477372 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 19
38477315 CCCCCTTTAT
38477325 AAACATTTTAAATTA-AAA
1 AAACATTTTAAATTAGAAA
*
38477343 AAA-A-TTTAAACTAGAAA
1 AAACATTTTAAATTAGAAA
38477360 AAACATTTTAAAT
1 AAACATTTTAAAT
38477373 CTTAATTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 8 0.32
17 7 0.28
18 4 0.16
19 6 0.24
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.31
Consensus pattern (19 bp):
AAACATTTTAAATTAGAAA
Found at i:38483531 original size:40 final size:40
Alignment explanation
Indices: 38483349--38483571 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
38483339 TCCTCGTTCA
* * * * *
38483349 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
38483388 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38483428 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
38483468 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
38483508 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
38483548 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38483572 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38483580 original size:41 final size:41
Alignment explanation
Indices: 38483503--38483580 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38483493 TTAGTATCTC
* * *
38483503 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38483544 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38483581 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38491401 original size:40 final size:40
Alignment explanation
Indices: 38491303--38491472 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
38491293 TCCTCGTTCA
* * * *
38491303 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* *
38491342 AATGCCTTCGGGACATAACCCGGATTTAACAACTTGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
38491382 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * *
38491422 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
38491462 AAGGCCTTCGG
1 AATGCCTTCGG
38491473 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.28
40 84 0.72
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:38491404 original size:79 final size:80
Alignment explanation
Indices: 38491303--38491449 Score: 233
Period size: 79 Copynumber: 1.9 Consensus size: 80
38491293 TCCTCGTTCA
* * *
38491303 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
38491367 TTAACAACTTGCACG
66 TTAACAACTTGCACG
* * *
38491382 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
38491447 TTA
66 TTA
38491450 GTATCTCGCA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 34 0.56
80 27 0.44
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
TTAACAACTTGCACG
Found at i:38491469 original size:80 final size:79
Alignment explanation
Indices: 38491301--38491525 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 79
38491291 GCTCCTCGTT
* * * * *
38491301 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
*
38491366 TTTAACAACTTGCA
66 TTTAACAACTCGCA
* *
38491380 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
** *
38491445 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
* * * * * * * *
38491460 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCG
38491524 GA
64 GA
38491526 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 38 0.31
80 79 0.65
81 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCA
Found at i:38491485 original size:40 final size:40
Alignment explanation
Indices: 38491301--38491525 Score: 204
Period size: 40 Copynumber: 5.7 Consensus size: 40
38491291 GCTCCTCGTT
* * * * * *
38491301 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * *
38491341 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTTGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
38491380 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * *
38491420 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
** * * * *
38491460 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
38491501 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGA
38491526 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.22
40 113 0.71
41 11 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:38491525 original size:120 final size:119
Alignment explanation
Indices: 38491303--38491525 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
38491293 TCCTCGTTCA
* * * *
38491303 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
*
38491368 TAACAACTTGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTTGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * **
38491422 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
38491486 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAACTT-GCACGAAAGCCTTCGGGACTTAACCCGGA
38491526 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 45 0.52
121 5 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTTGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38491534 original size:41 final size:41
Alignment explanation
Indices: 38491457--38491534 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38491447 TTAGTATCTC
* * *
38491457 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38491498 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38491535 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38495479 original size:13 final size:14
Alignment explanation
Indices: 38495458--38495490 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
38495448 TTTATTAATG
38495458 AAATATATTAAA-AT
1 AAAT-TATTAAATAT
38495472 AAATTATTAAATAT
1 AAATTATTAAATAT
38495486 AAATT
1 AAATT
38495491 TATATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTATTAAATAT
Found at i:38512117 original size:27 final size:27
Alignment explanation
Indices: 38512069--38512284 Score: 202
Period size: 27 Copynumber: 8.0 Consensus size: 27
38512059 AAACATACAT
* * **
38512069 CACATAGGGGCAAAACATTCATCCTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
38512096 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
** **
38512123 CTTATAAGGGCAAAATTGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
38512150 CACATAAGGACAAAACCGTCATTTTAA
1 CACATAAGGGCAAAACAGTCATTTTAC
*
38512177 CACATAAGGGCAAAACAGTCATTTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
38512204 CACATAAGGACAAAA-TGTCATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
** ** * *
38512230 TGCATAAGGAAAAAATC-TTCATTTTAA
1 CACATAAGGGCAAAA-CAGTCATTTTAC
*
38512257 CACTTAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
38512284 C
1 C
38512285 TTATAGGGGT
Statistics
Matches: 152, Mismatches: 34, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
26 21 0.14
27 131 0.86
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:38512266 original size:80 final size:81
Alignment explanation
Indices: 38512096--38512284 Score: 263
Period size: 80 Copynumber: 2.3 Consensus size: 81
38512086 TTCATCCTAC
* ** * *
38512096 CACATAAGGGCAAAATAGTCATTTTACCTTATAAGGGCAAAATTGTCATTTTACCACATAAGGAC
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGACAAAATTGTCATTTTACCACATAAGGAA
38512161 AAAACCGTCATTTTAA
66 AAAACCGTCATTTTAA
* ***
38512177 CACATAAGGGCAAAACAGTCATTTTGCCACATAAGGACAAAA-TGTCATTTTATTGCATAAGGAA
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGACAAAATTGTCATTTTACCACATAAGGAA
* *
38512241 AAAATCTTCATTTTAA
66 AAAACCGTCATTTTAA
*
38512257 CACTTAAGGGCAAAACAGTCATTTTACC
1 CACATAAGGGCAAAACAGTCATTTTACC
38512285 TTATAGGGGT
Statistics
Matches: 95, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 58 0.61
81 37 0.39
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (81 bp):
CACATAAGGGCAAAACAGTCATTTTACCACATAAGGACAAAATTGTCATTTTACCACATAAGGAA
AAAACCGTCATTTTAA
Found at i:38512303 original size:27 final size:26
Alignment explanation
Indices: 38512272--38512579 Score: 334
Period size: 27 Copynumber: 11.5 Consensus size: 26
38512262 AAGGGCAAAA
*
38512272 CAGTCATTTTACCTTATAGGGGTATTAT
1 CAGTCATTTTACCCTAT-GGGGTATT-T
38512300 -AGTCATTTTACCCTATGGAGGTATTT
1 CAGTCATTTTACCCTATGG-GGTATTT
*
38512326 -TGATCATTTTACCCTATGCGGGTATTT
1 CAG-TCATTTTACCCTATG-GGGTATTT
** *
38512353 TGGTCATTTTACCCTATCGGGTATTT
1 CAGTCATTTTACCCTATGGGGTATTT
* *
38512379 CGGTCATTTTACCCTACGAGGGTATTT
1 CAGTCATTTTACCCTATG-GGGTATTT
*
38512406 CAGTCATTTTACCCTACGGGGGTATTT
1 CAGTCATTTTACCCTA-TGGGGTATTT
** *
38512433 TGGTAATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATTT
*
38512460 CAATCATTTTA-CCTATGGGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATTT
38512486 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATG-GGGTATTT
* *
38512513 TAGTTATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATTT
*
38512540 CGGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATG-GGGTATTT
* *
38512567 CGGTCACTTTACC
1 CAGTCATTTTACC
38512580 TTCCGGCCCA
Statistics
Matches: 245, Mismatches: 24, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
26 54 0.22
27 187 0.76
28 4 0.02
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (26 bp):
CAGTCATTTTACCCTATGGGGTATTT
Found at i:38512392 original size:80 final size:82
Alignment explanation
Indices: 38512274--38512579 Score: 394
Period size: 80 Copynumber: 3.8 Consensus size: 82
38512264 GGGCAAAACA
* * *
38512274 GTCATTTTACCTTATAGGGGTATTAT-AGTCATTTTACCCTATGGA-GGTATTT-TGATCATTTT
1 GTCATTTTACCCTATGGGGGTATT-TCAGTCATTTTACCCTATGGAGGGTATTTCAG-TCATTTT
*
38512336 ACCCTATGCGGGTATTTTG
64 ACCCTATGAGGGTATTTTG
* * *
38512355 GTCATTTTACCCTAT-CGGGTATTTCGGTCATTTTACCCTA-CGAGGGTATTTCAGTCATTTTAC
1 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGAGGGTATTTCAGTCATTTTAC
* *
38512418 CCTACGGGGGTATTTTG
66 CCTATGAGGGTATTTTG
* *
38512435 GTAATTTTACCCTATGGGGGTATTTCAATCATTTTA-CCTATGG-GGGTATTTCAGTCATTTTAC
1 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGAGGGTATTTCAGTCATTTTAC
*
38512498 CCTATGAGGGTATTTTA
66 CCTATGAGGGTATTTTG
* * * *
38512515 GTTATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTAT-GAGGGTATTTCGGTCACTTTAC
1 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGAGGGTATTTCAGTCATTTTAC
38512579 C
66 C
38512580 TTCCGGCCCA
Statistics
Matches: 198, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
79 3 0.02
80 138 0.70
81 57 0.29
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.42
Consensus pattern (82 bp):
GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGAGGGTATTTCAGTCATTTTAC
CCTATGAGGGTATTTTG
Found at i:38512580 original size:107 final size:106
Alignment explanation
Indices: 38512272--38512580 Score: 422
Period size: 107 Copynumber: 2.9 Consensus size: 106
38512262 AAGGGCAAAA
* * * *
38512272 CAGTCATTTTACCTTAT-AGGGGTATTATAGTCATTTTACCCTATGGAGGTATTTTGATCATTTT
1 CAGTCATTTTACCCTATGA-GGGTATTTTAGTCATTTTACCCTATGGGGGTATTTTGGTCATTTT
* *
38512336 ACCCTATGCGGGTATTTTGGTCATTTTACCCTATCGGGTATTT
65 ACCCTATGAGGGTATTTCGGTCATTTTA-CCTATCGGGTATTT
* * * * *
38512379 CGGTCATTTTACCCTACGAGGGTATTTCAGTCATTTTACCCTACGGGGGTATTTTGGTAATTTTA
1 CAGTCATTTTACCCTATGAGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTTGGTCATTTTA
* ** *
38512444 CCCTATGGGGGTATTTCAATCATTTTACCTATGGGGGTATTT
66 CCCTATGAGGGTATTTCGGTCATTTTACCTAT-CGGGTATTT
* *
38512486 CAGTCATTTTACCCTATGAGGGTATTTTAGTTATTTTACCCTATGGGGGTATTTCGGTCATTTTA
1 CAGTCATTTTACCCTATGAGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTTGGTCATTTTA
*
38512551 CCCTATGAGGGTATTTCGGTCACTTTACCT
66 CCCTATGAGGGTATTTCGGTCATTTTACCT
38512581 TCCGGCCCAA
Statistics
Matches: 175, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
106 5 0.03
107 169 0.97
108 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (106 bp):
CAGTCATTTTACCCTATGAGGGTATTTTAGTCATTTTACCCTATGGGGGTATTTTGGTCATTTTA
CCCTATGAGGGTATTTCGGTCATTTTACCTATCGGGTATTT
Found at i:38520157 original size:12 final size:12
Alignment explanation
Indices: 38520140--38520167 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38520130 CTTACGATAT
38520140 CCATAATACCAA
1 CCATAATACCAA
38520152 CCATAATACCAA
1 CCATAATACCAA
38520164 CCAT
1 CCAT
38520168 GTACTCATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (12 bp):
CCATAATACCAA
Found at i:38524548 original size:40 final size:40
Alignment explanation
Indices: 38524488--38524715 Score: 402
Period size: 40 Copynumber: 5.7 Consensus size: 40
38524478 GAGCATTGGA
*
38524488 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
38524528 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTCG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
38524568 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
38524608 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
38524648 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
38524688 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
38524716 CTGTGTTTGC
Statistics
Matches: 180, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:38542746 original size:24 final size:25
Alignment explanation
Indices: 38542714--38542800 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 25
38542704 ATGCTAATCC
38542714 AAGCCTTTGTGGC-AAGTTATCTAT
1 AAGCCTTTGTGGCTAAGTTATCTAT
* * *
38542738 AAGCTTTTGTGGCTAGGTTATCTAGG
1 AAGCCTTTGTGGCTAAGTTATCTA-T
* * *
38542764 AAGCCTTTATGGCGAA-TTATCTTAA
1 AAGCCTTTGTGGCTAAGTTATC-TAT
*
38542789 AAGCCTATGTGG
1 AAGCCTTTGTGG
38542801 TGTATTGTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 12 0.24
25 24 0.48
26 14 0.28
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (25 bp):
AAGCCTTTGTGGCTAAGTTATCTAT
Found at i:38545607 original size:30 final size:29
Alignment explanation
Indices: 38545562--38545620 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
38545552 ATTTAATACG
*
38545562 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTT-CCCCTA
* *
38545592 AACTTTTGCATAATTACACTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTCCCCTA
38545621 GGCCCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (29 bp):
AACTTTGGCAAAATTACACTTTTCCCCTA
Found at i:38553150 original size:30 final size:30
Alignment explanation
Indices: 38553114--38553174 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
38553104 CATTTAATAC
* *
38553114 AAACTTTAGCAAAATTACATTTTTGCCCCT
1 AAACTTTAGCAAAATTACACTTTTACCCCT
* *
38553144 AAACTTTTGCATAATTACACTTTTACCCCT
1 AAACTTTAGCAAAATTACACTTTTACCCCT
38553174 A
1 A
38553175 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AAACTTTAGCAAAATTACACTTTTACCCCT
Found at i:38565977 original size:40 final size:40
Alignment explanation
Indices: 38565917--38566143 Score: 393
Period size: 40 Copynumber: 5.7 Consensus size: 40
38565907 TGACATTGGA
*
38565917 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
38565957 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTCG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
38565997 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
38566037 ATATATCCGGGCTAAGA-CCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
38566076 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
38566116 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
38566144 CTGTGTTTGC
Statistics
Matches: 178, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 38 0.21
40 140 0.79
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:38566098 original size:79 final size:80
Alignment explanation
Indices: 38565917--38566143 Score: 395
Period size: 79 Copynumber: 2.9 Consensus size: 80
38565907 TGACATTGGA
*
38565917 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
38565982 CAATTATGCGAGTCG
66 CAATTATGCGAGTCG
38565997 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA-CCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
38566061 CAATTATGCGAGAT-G
66 CAATTATGCGAG-TCG
* * *
38566076 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGATATGTCCGGGTTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
38566141 CAA
66 CAA
38566144 CTGTGTTTGC
Statistics
Matches: 141, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
79 74 0.52
80 67 0.48
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (80 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
CAATTATGCGAGTCG
Found at i:38566178 original size:119 final size:119
Alignment explanation
Indices: 38565917--38566143 Score: 382
Period size: 119 Copynumber: 1.9 Consensus size: 119
38565907 TGACATTGGA
* *
38565917 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGA-CCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGG
* *
38565982 CAATTATGCGAGTCGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
65 CAATTATGCAAGTCGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGCTG
38566037 ATATATCCGGGCTAAGACCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGC
1 ATATATCCGGGCTAAGACCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGC
* * *
38566102 AATTATGCAAGTTGATATGTCCGGGTTAAGACCCGAAGGCAA
66 AATTATGCAAGTCGATATATCCGGGCTAAGACCCGAAGGCAA
38566144 CTGTGTTTGC
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
119 85 0.84
120 16 0.16
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (119 bp):
ATATATCCGGGCTAAGACCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGC
AATTATGCAAGTCGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGCTG
Found at i:38572221 original size:40 final size:40
Alignment explanation
Indices: 38572161--38572428 Score: 482
Period size: 40 Copynumber: 6.7 Consensus size: 40
38572151 GAGCATTGGA
*
38572161 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
38572201 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
38572241 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTCG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
38572281 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
38572321 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
38572361 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
38572401 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
38572429 CTGTGTTTGC
Statistics
Matches: 220, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 220 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:38581771 original size:46 final size:45
Alignment explanation
Indices: 38581721--38581896 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
38581711 TGTTTGGGCA
38581721 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
38581767 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
38581814 TCCGAGCTAGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
38581860 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38581897 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.63
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:38581876 original size:93 final size:93
Alignment explanation
Indices: 38581717--38581888 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
38581707 AGGATGTTTG
* * *
38581717 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
38581782 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
38581810 GGCATCCGAGCTAGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
38581875 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
38581889 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTAGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:38584944 original size:40 final size:40
Alignment explanation
Indices: 38584889--38584970 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
38584879 TCTTTGAAGT
38584889 AAGTCAAATTCATGAAATACCTTGGTTTGCTGATTATGCA
1 AAGTCAAATTCATGAAATACCTTGGTTTGCTGATTATGCA
38584929 AAGTCAAATTCATGAAATACCTTGGTTTGCTGATTATGCA
1 AAGTCAAATTCATGAAATACCTTGGTTTGCTGATTATGCA
38584969 AA
1 AA
38584971 TTATTTAGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (40 bp):
AAGTCAAATTCATGAAATACCTTGGTTTGCTGATTATGCA
Found at i:38585749 original size:87 final size:87
Alignment explanation
Indices: 38585603--38585773 Score: 315
Period size: 87 Copynumber: 2.0 Consensus size: 87
38585593 AAACCCAAGA
*
38585603 TTGCCACTGTTTATCATCCACAGCCAAATGGGCAAGTTGAACGGGTAAATCATGAGATCAAAAGT
1 TTGCCACTGTTTATCATCCACAGCCAAATGGGCAAGTTGAACGGGTAAATCATAAGATCAAAAGT
38585668 ATCCTTGAGAAAGTAGTGCAAC
66 ATCCTTGAGAAAGTAGTGCAAC
* *
38585690 TTGCCACTGTTTATCATCCACAGTCAAATGGGCAAGTTGAACGGGTAAATCGTAAGATCAAAAGT
1 TTGCCACTGTTTATCATCCACAGCCAAATGGGCAAGTTGAACGGGTAAATCATAAGATCAAAAGT
38585755 ATCCTTGAGAAAGTAGTGC
66 ATCCTTGAGAAAGTAGTGC
38585774 TACCTAATAG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (87 bp):
TTGCCACTGTTTATCATCCACAGCCAAATGGGCAAGTTGAACGGGTAAATCATAAGATCAAAAGT
ATCCTTGAGAAAGTAGTGCAAC
Found at i:38588916 original size:32 final size:32
Alignment explanation
Indices: 38588872--38588948 Score: 127
Period size: 32 Copynumber: 2.4 Consensus size: 32
38588862 ATACCTTGAG
*
38588872 ATAATATATATATCATACCAACACATCATGTGT
1 ATAA-ATATATATCATACCAACACATCATGTGC
*
38588905 ATAAATATATATTATACCAACACATCATGTGC
1 ATAAATATATATCATACCAACACATCATGTGC
38588937 ATAAATATATAT
1 ATAAATATATAT
38588949 ATGTGCAAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
32 38 0.90
33 4 0.10
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (32 bp):
ATAAATATATATCATACCAACACATCATGTGC
Found at i:38589946 original size:43 final size:43
Alignment explanation
Indices: 38589880--38590053 Score: 226
Period size: 43 Copynumber: 4.0 Consensus size: 43
38589870 ATATCATACA
* * * * * *
38589880 ATGCCAACGTCCTAGATGTGGTCTTACATGTAACCTCCTATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
* *
38589923 ATGCC-ACTGTCCCAGATAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGTAAACACATATCG
*
38589966 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
*
38590009 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
38590052 AT
1 AT
38590054 ATCACATATA
Statistics
Matches: 117, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
42 3 0.03
43 111 0.95
44 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
Found at i:38591370 original size:14 final size:15
Alignment explanation
Indices: 38591353--38591381 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38591343 ACACAAAAAT
38591353 TTCACACA-TATAAA
1 TTCACACATTATAAA
38591367 TTCACACATTATAAA
1 TTCACACATTATAAA
38591382 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:38592049 original size:19 final size:19
Alignment explanation
Indices: 38592022--38592061 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
38592012 ATAGGGGGAA
*
38592022 ATTTTTTTTCTTAG-CATTT
1 ATTTATTTT-TTAGCCATTT
38592041 ATTTATTTTTTAGCCATTT
1 ATTTATTTTTTAGCCATTT
38592060 AT
1 AT
38592062 ATTTCTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.20, C:0.10, G:0.05, T:0.65
Consensus pattern (19 bp):
ATTTATTTTTTAGCCATTT
Found at i:38593525 original size:46 final size:44
Alignment explanation
Indices: 38593475--38593644 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 44
38593465 TTGAGCATCT
38593475 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAAT-TCC
* * * *
38593521 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAGGCATT-C
1 GAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GGAATTCC
*
38593568 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATTCC
* *
38593613 CAAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 GAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
38593645 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 5 0.05
46 56 0.54
47 30 0.29
48 3 0.03
49 4 0.04
50 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (44 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATTCC
Found at i:38602497 original size:54 final size:54
Alignment explanation
Indices: 38602415--38602525 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
38602405 CAGTCTGACC
38602415 CTAAGCTAGCTAGCTCAGTATTTACTTACCCCAAGCTTTAAATCAAAGACAGCT
1 CTAAGCTAGCTAGCTCAGTATTTACTTACCCCAAGCTTTAAATCAAAGACAGCT
38602469 CTAAGCTAGCTAGCTCAGTATTTACTTACCCCAAGCTTTAAATCAAAGACAGCT
1 CTAAGCTAGCTAGCTCAGTATTTACTTACCCCAAGCTTTAAATCAAAGACAGCT
38602523 CTA
1 CTA
38602526 GTTCTATCTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (54 bp):
CTAAGCTAGCTAGCTCAGTATTTACTTACCCCAAGCTTTAAATCAAAGACAGCT
Found at i:38621663 original size:45 final size:45
Alignment explanation
Indices: 38621597--38621816 Score: 295
Period size: 45 Copynumber: 5.0 Consensus size: 45
38621587 TATCGTACAG
** *
38621597 TACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
38621642 TACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
38621687 TACTATTTGGGCCTTCGAGCCTAGCAGGCTACAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
38621732 TACTATTTGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTAAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
38621777 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGCGA-AATGCTGGTGA
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
38621817 ATGAATTCGG
Statistics
Matches: 160, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
42 9 0.06
43 18 0.11
44 4 0.03
45 128 0.80
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:38626928 original size:37 final size:37
Alignment explanation
Indices: 38626821--38626935 Score: 178
Period size: 37 Copynumber: 3.1 Consensus size: 37
38626811 AGACGAAATC
* * * *
38626821 TCCACACGAAGTTATCGGGTCTTACCCGGACA-AAATC
1 TCCACACGTAGTCATCGGGTCTTACCCGGA-ATATATT
38626858 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
1 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
38626895 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
1 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
38626932 TCCA
1 TCCA
38626936 AGTTTCATGT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 1 0.01
37 72 0.99
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
Found at i:38627196 original size:48 final size:48
Alignment explanation
Indices: 38627070--38627254 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
38627060 GCACATCGCC
*
38627070 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
38627120 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
38627168 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
38627216 TACATTTTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
38627255 TGCATGTTCA
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
48 81 0.65
49 2 0.02
50 41 0.33
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:38627259 original size:98 final size:98
Alignment explanation
Indices: 38627070--38627253 Score: 302
Period size: 98 Copynumber: 1.9 Consensus size: 98
38627060 GCACATCGCC
*
38627070 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATT
38627135 GACCATTCAGCTTTACCACATATGCATATCTCA
66 GACCATTCAGCTTTACCACATATGCATATCTCA
* *
38627168 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACAT-T-TTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATT
*
38627231 -AGCCATTCGGCTTTACCACATAT
66 GA-CCATTCAGCTTTACCACATAT
38627254 ATGCATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 29 0.36
97 1 0.01
98 50 0.62
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (98 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTCACATT
GACCATTCAGCTTTACCACATATGCATATCTCA
Found at i:38627303 original size:47 final size:47
Alignment explanation
Indices: 38627176--38627417 Score: 272
Period size: 47 Copynumber: 5.1 Consensus size: 47
38627166 CATACATATT
* * * * **
38627176 TCACATTAGCCATTCGGCTTTACCACATATA--CATTTCTCATACATTTT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATAT-TC--ACATTCA
* * * * *
38627224 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCA
* * * **
38627271 CCACATTGGCCATTCGGCCTTATCACACATATGCGTGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCA
*
38627318 TCACATTGGCCATTCAGCCTTATCACATATATGCATATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCA
* *
38627365 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCA
38627412 TCACAT
1 TCACAT
38627418 AAAATCCTAA
Statistics
Matches: 171, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
47 134 0.78
48 31 0.18
49 2 0.01
50 4 0.02
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCA
Found at i:38627344 original size:22 final size:22
Alignment explanation
Indices: 38627317--38627388 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 22
38627307 GCTCACATTC
38627317 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
* * *
38627339 ATCACATATATGCATATTCA-CATT
1 ATCACAT-T-GGC-CATTCAGCCTT
*
38627363 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
38627386 ATC
1 ATC
38627389 TCATATATGC
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
22 14 0.37
23 6 0.16
24 6 0.16
25 12 0.32
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:38627367 original size:25 final size:25
Alignment explanation
Indices: 38627309--38627418 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 25
38627299 ATATGCGTGC
*
38627309 TCACATTCATCACAT-T-GGC-CAT
1 TCACATTCATCACATATATGCACAT
* *
38627331 TCAGCCTT-ATCACATATATGCATAT
1 TCA-CATTCATCACATATATGCACAT
*
38627356 TCACATTCATCACAT-T-GGC-CAT
1 TCACATTCATCACATATATGCACAT
* * *
38627378 TCGGCCTT-ATCTCATATATGCACAT
1 TC-ACATTCATCACATATATGCACAT
38627403 TCACATTCATCACATA
1 TCACATTCATCACATA
38627419 AAATCCTAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 17
0.68 0.14 0.18
Matches are distributed among these distances:
22 20 0.31
23 10 0.15
24 11 0.17
25 24 0.37
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (25 bp):
TCACATTCATCACATATATGCACAT
Found at i:38639015 original size:6 final size:6
Alignment explanation
Indices: 38639004--38639039 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
38638994 ATTTATTTTA
*
38639004 TTTATT TTTATT TTTATT TTTATT TTT-CT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT T
38639040 AATTTCTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:38645775 original size:23 final size:22
Alignment explanation
Indices: 38645731--38645777 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
38645721 TGGTGATTTA
*
38645731 TTGGATGTGATTTAAGTATGAT
1 TTGGATGTGATTTAACTATGAT
38645753 TTGGATGTTGATTT-ACTAGTGAT
1 TTGGATG-TGATTTAACTA-TGAT
38645776 TT
1 TT
38645778 TTATTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (22 bp):
TTGGATGTGATTTAACTATGAT
Found at i:38652382 original size:43 final size:43
Alignment explanation
Indices: 38652294--38652391 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
38652284 CGAGATGAGG
* * *
38652294 TTATATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGA
1 TTATGTGTAAGACCATGTCTGGGACATTGGCATTGTAATGCGA
*
38652337 TTATGTGTAGGACCATGTCTGGGACATTGGCATCAT-TAAT-CGA
1 TTATGTGTAAGACCATGTCTGGGACATTGGCAT--TGTAATGCGA
*
38652380 TTACGTGTAAGA
1 TTATGTGTAAGA
38652392 TTCTGTCTAG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 43 0.91
44 3 0.06
45 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.35
Consensus pattern (43 bp):
TTATGTGTAAGACCATGTCTGGGACATTGGCATTGTAATGCGA
Found at i:38660193 original size:43 final size:43
Alignment explanation
Indices: 38660057--38660213 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
38660047 ATGAGGTTAT
* * *
38660057 ATGTAAAACCATGTCTGGGACATTGGCATTG-TATTGTGATTAT
1 ATGTAAGACCATGTCTGGGACATTGGCATCGATA-TGTGATTAC
* * *
38660100 GTGTAGGACCATGTCTGGGACATTGGCATC-ATTAAT-CGATTAC
1 ATGTAAGACCATGTCTGGGACATTGGCATCGA-T-ATGTGATTAC
* * * * *
38660143 GTCTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATAAC
1 ATGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAC
* *
38660186 ATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTAAGACCATGTCTGGGACATTGGCAT
38660214 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
42 8 0.09
43 80 0.87
44 3 0.03
45 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
ATGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAC
Found at i:38665566 original size:22 final size:20
Alignment explanation
Indices: 38665536--38665576 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
38665526 CACATTTTTC
38665536 ATTTAATCACACTTTTACACAT
1 ATTTAATCAC-CTTTT-CACAT
*
38665558 ATTTTATCACCTTTTCACA
1 ATTTAATCACCTTTTCACA
38665577 AATTGGTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 9 0.50
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTAATCACCTTTTCACAT
Found at i:38667221 original size:71 final size:67
Alignment explanation
Indices: 38667142--38667282 Score: 194
Period size: 67 Copynumber: 2.0 Consensus size: 67
38667132 TCACCAGAAT
* * *
38667142 AGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAA-GCCACCAGATTGCAGCGA
1 AGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGC-AAGGCCACCAGATTGCAGCGA
38667206 GGCTGCC
61 GGCTGCC
*
38667213 AGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCTG
1 AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCTG
38667278 CC
66 CC
38667280 AGA
1 AGA
38667283 ACGCTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
66 2 0.03
67 39 0.60
71 24 0.37
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.18
Consensus pattern (67 bp):
AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCTG
CC
Found at i:38668109 original size:27 final size:27
Alignment explanation
Indices: 38667904--38668102 Score: 256
Period size: 27 Copynumber: 7.4 Consensus size: 27
38667894 TTTACCCTTT
** *
38667904 AGGGGTAAATCGGTAATTCTACCTTAC
1 AGGGGTATTTCGGTAATTCTACCCTAC
*
38667931 AGGAGTATTTCGGTAATTCTACCCTAC
1 AGGGGTATTTCGGTAATTCTACCCTAC
* *
38667958 AGGGGTATTTCGATAATTCTACCTTAC
1 AGGGGTATTTCGGTAATTCTACCCTAC
* ** *
38667985 AGGAGTATTTTAGTAATTCCACCCTAC
1 AGGGGTATTTCGGTAATTCTACCCTAC
* *
38668012 AGGGGTATTTCGGAAATTCTACCTTAC
1 AGGGGTATTTCGGTAATTCTACCCTAC
* *
38668039 A-GGGTATTTTGGTATTTCTACCCTAC
1 AGGGGTATTTCGGTAATTCTACCCTAC
*
38668065 AAGGGTATTTCGGTAATTCTACCCTAC
1 AGGGGTATTTCGGTAATTCTACCCTAC
38668092 AGGGGTATTTC
1 AGGGGTATTTC
38668103 AATAATTTTG
Statistics
Matches: 145, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 22 0.15
27 123 0.85
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTCTACCCTAC
Found at i:38668139 original size:107 final size:108
Alignment explanation
Indices: 38667904--38668109 Score: 288
Period size: 107 Copynumber: 1.9 Consensus size: 108
38667894 TTTACCCTTT
*
38667904 AGGGGTAAATCGGTAATTCTACCTTACAGGAGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 AGGGGTAAATCGGTAATTCTACCTTACAGGAGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * * **
38667969 GATAATTCTACCTTACAGGAGTATTTTAGTAATTCCACCCTAC
66 GATAATTCTACCCTACAGGAGTATTTCAATAATTCCACAATAC
** * * *
38668012 AGGGGTATTTCGGAAATTCTACCTTACAGG-GTATTTTGGTATTTCTACCCTACAAGGGTATTTC
1 AGGGGTAAATCGGTAATTCTACCTTACAGGAGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* *
38668076 GGTAATTCTACCCTACAGGGGTATTTCAATAATT
66 GATAATTCTACCCTACAGGAGTATTTCAATAATT
38668110 TTGTAAATCG
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
107 60 0.69
108 27 0.31
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (108 bp):
AGGGGTAAATCGGTAATTCTACCTTACAGGAGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
GATAATTCTACCCTACAGGAGTATTTCAATAATTCCACAATAC
Found at i:38668178 original size:27 final size:27
Alignment explanation
Indices: 38668129--38668289 Score: 96
Period size: 27 Copynumber: 6.0 Consensus size: 27
38668119 GAGGGTAAAA
* * * *
38668129 CGGTAATTCTATAAATCGGGGGTACTTT
1 CGGTAATTTTACAAACCGAGGGTA-TTT
***
38668157 -GGTAATTTTACAAGTTGAGGGTATTT
1 CGGTAATTTTACAAACCGAGGGTATTT
* * * *
38668183 CAGTAATCTTACAAATCGATGGTATTT
1 CGGTAATTTTACAAACCGAGGGTATTT
* * * *
38668210 CAGTAATTTTGCGAACTGAGGGTATTT
1 CGGTAATTTTACAAACCGAGGGTATTT
* * *
38668237 GGGTAATTTTATAAACCGGGGGTACTTT
1 CGGTAATTTTACAAACCGAGGGTA-TTT
* *
38668265 -GG-AATTTTAC-AACTGGGGGTATTT
1 CGGTAATTTTACAAACCGAGGGTATTT
38668289 C
1 C
38668290 ATTAATTTGG
Statistics
Matches: 105, Mismatches: 25, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
24 3 0.03
25 10 0.10
26 10 0.10
27 79 0.75
28 3 0.03
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (27 bp):
CGGTAATTTTACAAACCGAGGGTATTT
Found at i:38668189 original size:54 final size:53
Alignment explanation
Indices: 38668131--38668296 Score: 167
Period size: 54 Copynumber: 3.1 Consensus size: 53
38668121 GGGTAAAACG
*
38668131 GTAATTCTATAAATCGGGGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTCA
1 GTAATTCTATAAATCGGGGGTACTTTGGTAATTTTACAA-CTGAGGGTATTTCA
* ** * * **
38668185 GTAA-TCTTACAAATCGATGGTA-TTTCAGTAATTTTGCGAACTGAGGGTATTTGG
1 GTAATTC-TATAAATCGGGGGTACTTT-GGTAATTTTAC-AACTGAGGGTATTTCA
* * *
38668239 GTAATTTTATAAACCGGGGGTACTTTGG-AATTTTACAACTGGGGGTATTTCA
1 GTAATTCTATAAATCGGGGGTACTTTGGTAATTTTACAACTGAGGGTATTTCA
*
38668291 TTAATT
1 GTAATT
38668297 TGGTAAACTA
Statistics
Matches: 88, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
52 18 0.20
53 12 0.14
54 52 0.59
55 6 0.07
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (53 bp):
GTAATTCTATAAATCGGGGGTACTTTGGTAATTTTACAACTGAGGGTATTTCA
Found at i:38668207 original size:108 final size:106
Alignment explanation
Indices: 38668095--38668295 Score: 260
Period size: 108 Copynumber: 1.9 Consensus size: 106
38668085 ACCCTACAGG
* *
38668095 GGTATTTCAATAATTTTGTAAA-TCGAGGGTAAAACGGTAATTCTATAAATCGGGGGTACTTTGG
1 GGTATTTCAATAATTTTGCAAACT-GAGGGTAAAACGGTAATTCTATAAACCGGGGGTACTTTGG
*
38668159 TAATTTTACAAGTTGAGGGTATTTCAGTAATCTTACAAATCGAT
65 -AATTTTACAA-CTGAGGGTATTTCAGTAATCTTACAAATCGAT
* * **** *
38668203 GGTATTTCAGTAATTTTGCGAACTGAGGGTATTTGGGTAATTTTATAAACCGGGGGTACTTTGGA
1 GGTATTTCAATAATTTTGCAAACTGAGGGTAAAACGGTAATTCTATAAACCGGGGGTACTTTGGA
* *
38668268 ATTTTACAACTGGGGGTATTTCATTAAT
66 ATTTTACAACTGAGGGTATTTCAGTAAT
38668296 TTGGTAAACT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
106 16 0.20
107 10 0.12
108 53 0.66
109 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.37
Consensus pattern (106 bp):
GGTATTTCAATAATTTTGCAAACTGAGGGTAAAACGGTAATTCTATAAACCGGGGGTACTTTGGA
ATTTTACAACTGAGGGTATTTCAGTAATCTTACAAATCGAT
Found at i:38672980 original size:29 final size:29
Alignment explanation
Indices: 38672938--38672994 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
38672928 TTCAACAAGT
38672938 AAGGCCGTGTAACTCGAATGTATACTTTA
1 AAGGCCGTGTAACTCGAATGTATACTTTA
*
38672967 AAGGTCGTGTAACTCGAATGTATACTTT
1 AAGGCCGTGTAACTCGAATGTATACTTT
38672995 TTAATACTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (29 bp):
AAGGCCGTGTAACTCGAATGTATACTTTA
Found at i:38675180 original size:27 final size:26
Alignment explanation
Indices: 38675131--38675238 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 26
38675121 AGGAAGCGTC
* *
38675131 CTGGTGGCTATGCACAAATTATCTGTT
1 CTGGTGGCTCTGC-CACATTATCTGTT
38675158 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
38675185 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
38675213 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
38675239 TTGCCAGCCA
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.07
27 52 0.70
28 17 0.23
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:38680032 original size:22 final size:22
Alignment explanation
Indices: 38680001--38680044 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
38679991 AATACAGGTA
*
38680001 TGTACAAAAATTGAGTATGCAT
1 TGTACAAAAACTGAGTATGCAT
*
38680023 TGTACGAAAACTGAGTATGCAT
1 TGTACAAAAACTGAGTATGCAT
38680045 CGAATATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (22 bp):
TGTACAAAAACTGAGTATGCAT
Found at i:38683234 original size:12 final size:13
Alignment explanation
Indices: 38683217--38683245 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
38683207 AAGAACTTGT
38683217 TTTATATAA-TTA
1 TTTATATAATTTA
38683229 TTTATATAATTTA
1 TTTATATAATTTA
38683242 TTTA
1 TTTA
38683246 AGTTATACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATATAATTTA
Found at i:38690810 original size:20 final size:19
Alignment explanation
Indices: 38690764--38690820 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
38690754 AAATTATAAA
38690764 TAAT-AAATTTTATAAAAT
1 TAATAAAATTTTATAAAAT
*
38690782 TAATTAAATTTTAATAAAATT
1 TAATAAAATTTT-ATAAAA-T
38690803 TAA-AAAA-TTTA-AAAAT
1 TAATAAAATTTTATAAAAT
38690819 TA
1 TA
38690821 TTATAAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 3 0.09
17 4 0.11
18 5 0.14
19 10 0.29
20 9 0.26
21 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAATAAAATTTTATAAAAT
Found at i:38690860 original size:15 final size:15
Alignment explanation
Indices: 38690840--38690869 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38690830 AGAATTTTTT
38690840 ATAAAAATAGTAAAA
1 ATAAAAATAGTAAAA
*
38690855 ATAAAAATTGTAAAA
1 ATAAAAATAGTAAAA
38690870 TTTTATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
ATAAAAATAGTAAAA
Found at i:38692426 original size:20 final size:20
Alignment explanation
Indices: 38692401--38692438 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38692391 TGATAAATGA
* *
38692401 ATACATGTGTATTAATAAAT
1 ATACATATGTATAAATAAAT
38692421 ATACATATGTATAAATAA
1 ATACATATGTATAAATAA
38692439 TAAATATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (20 bp):
ATACATATGTATAAATAAAT
Found at i:38692519 original size:22 final size:21
Alignment explanation
Indices: 38692486--38692526 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
38692476 AAATGAAATA
*
38692486 AAAGAAATGAAAAAGAGAAAC
1 AAAGAAACGAAAAAGAGAAAC
*
38692507 AAAGCAAACGAAACAGAGAA
1 AAAG-AAACGAAAAAGAGAA
38692527 GAACAGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.68, C:0.10, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAGAAACGAAAAAGAGAAAC
Found at i:38693200 original size:3 final size:3
Alignment explanation
Indices: 38693192--38693218 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
38693182 AAATGGTAAG
38693192 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
38693219 GGTATTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:38698119 original size:101 final size:97
Alignment explanation
Indices: 38697883--38698163 Score: 289
Period size: 101 Copynumber: 2.8 Consensus size: 97
38697873 GTTGTGAGAA
* * * * *
38697883 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACA
1 CACATGTGTAGTACTAAGTGCAGGCTACTGC-TGTATCAGATTGATAGATCGCATGTGTAGTACA
* * ** *
38697948 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
65 AGTGCAGGCTACTAC-TGCATCACATACTTAGAT
*
38697982 CACATGTGTAGTACTAAGTGCAGGCTACAATG-TGTATCGGATTGATAGATCGCATGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTAC--TGCTGTATCAGATTGATAGATCGCATGTGTAGTAC
* *
38698046 TAAGTGCAGGCTACTA-TGCATACCCATTAACTTCGAT
64 -AAGTGCAGGCTACTACTGCAT-CACA-T-ACTTAGAT
* * *
38698083 CACGTGTGTAGTACTAAGTGCAGGCTACTGCATGTATCAGATGGATA-AGTCACATGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTGC-TGTATCAGATTGATAGA-TCGCATGTGTAGTAC
*
38698147 GAAGTACAGGCTACTAC
64 -AAGTGCAGGCTACTAC
38698164 GTGTACCGAA
Statistics
Matches: 153, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
98 4 0.03
99 59 0.39
100 17 0.11
101 73 0.48
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (97 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTGCTGTATCAGATTGATAGATCGCATGTGTAGTACAA
GTGCAGGCTACTACTGCATCACATACTTAGAT
Found at i:38698157 original size:151 final size:150
Alignment explanation
Indices: 38697937--38698220 Score: 433
Period size: 151 Copynumber: 1.9 Consensus size: 150
38697927 TTAGGTCGCA
* * * * *
38697937 TGTGTAGTACAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGTG
1 TGTGTAGTACAAGTGCAGGCTACTACATGTATCAGATGGATAAGTCACATGTGTAGTACGAAGTA
* * *
38698002 CAGGCTACAATGTGTATCGGATTGATAGATCGCATGTGTAGTACTAAGTGCAGGCTACTATGCAT
66 CAGGCTACAACGTGTACCGAATTGATAGATCGCATGTGTAGTACTAAGTGCAGGCTACTATGCAT
38698067 ACCCATTAACTTCGATCACG
131 ACCCATTAACTTCGATCACG
*
38698087 TGTGTAGTACTAAGTGCAGGCTACTGCATGTATCAGATGGATAAGTCACATGTGTAGTACGAAGT
1 TGTGTAGTAC-AAGTGCAGGCTACTACATGTATCAGATGGATAAGTCACATGTGTAGTACGAAGT
* * * * *
38698152 ACAGGCTACTACGTGTACCGAATTGATAGGTCGTATGTGTAGTACTAAGTGTAGGCTACTATGCG
65 ACAGGCTACAACGTGTACCGAATTGATAGATCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
38698217 TACC
130 TACC
38698221 AGAGAGCTTA
Statistics
Matches: 119, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
150 10 0.08
151 109 0.92
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (150 bp):
TGTGTAGTACAAGTGCAGGCTACTACATGTATCAGATGGATAAGTCACATGTGTAGTACGAAGTA
CAGGCTACAACGTGTACCGAATTGATAGATCGCATGTGTAGTACTAAGTGCAGGCTACTATGCAT
ACCCATTAACTTCGATCACG
Found at i:38698220 original size:50 final size:50
Alignment explanation
Indices: 38697885--38698223 Score: 333
Period size: 50 Copynumber: 6.8 Consensus size: 50
38697875 TGTGAGAACA
* * *
38697885 CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCG
* * * * *
38697935 CATGTGTAGTAC-AAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCG
* * * *
38697984 CATGTGTAGTACTAAGTGCAGGCTACAATGTGTATCGGATTGATAGATCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCG
** * * * * *
38698034 CATGTGTAGTACTAAGTGCAGGCTACTATGCATACC-CATTAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAGGTCG
* *** * * * *
38698085 CGTGTGTAGTACTAAGTGCAGGCTACTGCATGTATCAGATGGATAAGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCG
* * *
38698135 CATGTGTAGTACGAAGTACAGGCTACTACGTGTACC-GAATTGATAGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG-ATTGATAGGTCG
* * *
38698185 TATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
38698224 GAGCTTAGGT
Statistics
Matches: 236, Mismatches: 47, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
49 50 0.21
50 148 0.63
51 35 0.15
52 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCG
Found at i:38699095 original size:180 final size:180
Alignment explanation
Indices: 38698784--38699107 Score: 495
Period size: 180 Copynumber: 1.8 Consensus size: 180
38698774 AGAGCTGTAC
* **
38698784 CATGAGATAAATAATTTTAAGTGAAGAGAGGTCAGAACTGTCGGACAGTGAAACAAGAGTATATT
1 CATGAAATAAATAATTTTAAGTGAAGAGAGGTCAGAACTGTCAAACAGTGAAACAAGAGTATATT
* * *
38698849 TAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTAAAAATTGTATGGTAAGAATATATA
66 TAATGAATAAAATGTACTAATTGGCTAAACCAAAAATTCTAAAAATTGTATGGTAAGAAGATATA
38698914 TGAGTCTAGTTTCAGGTAAAATTAGTGGTTCTTAATTTGGAGTCCCATAA
131 TGAGTCTAGTTTCAGGTAAAATTAGTGGTTCTTAATTTGGAGTCCCATAA
* * * * * * *
38698964 CATGAAATAAATATTTTTTAGTGAAGAGAGGTCGGAATTGTCAAACAGTGAAATAAGGGTATCTT
1 CATGAAATAAATAATTTTAAGTGAAGAGAGGTCAGAACTGTCAAACAGTGAAACAAGAGTATATT
* * *
38699029 TAATGAATAAAATGTACTAATTGGCTAAACCAAAAATTTTGAAAATTTTATGGTAAGAAGATATA
66 TAATGAATAAAATGTACTAATTGGCTAAACCAAAAATTCTAAAAATTGTATGGTAAGAAGATATA
*
38699094 TGAGTCTATTTTCA
131 TGAGTCTAGTTTCA
38699108 AAGAAAATTA
Statistics
Matches: 127, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
180 127 1.00
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (180 bp):
CATGAAATAAATAATTTTAAGTGAAGAGAGGTCAGAACTGTCAAACAGTGAAACAAGAGTATATT
TAATGAATAAAATGTACTAATTGGCTAAACCAAAAATTCTAAAAATTGTATGGTAAGAAGATATA
TGAGTCTAGTTTCAGGTAAAATTAGTGGTTCTTAATTTGGAGTCCCATAA
Done.