Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 49 of 202
Found at i:14613014 original size:114 final size:113
Alignment explanation
Indices: 14612846--14613058 Score: 311
Period size: 114 Copynumber: 1.9 Consensus size: 113
14612836 AAAATAAGAA
* * *
14612846 TTAGCGGCGTTTTCCAGAAAGCGTCGTAAAAAACCTAAGCCCAACGATGCCGTTTACCGAGCTTT
1 TTAGCGGCGTTTTCCAGAAAGCGCCGAAAAAAACCTAAGCCCAACGACGCCGTTTACCGAGCTTT
14612911 CCA-AGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCAGGGAT
66 -CAGAGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCAGGGAT
** * *
14612959 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTCCAGAAAGCGCCG-AAAAAAACCTAAGCCCAACGACGCCGTTTACCGAGCTT
* * *
14613024 TCAGGGATTTAGTGGCGTTTTTGAGAAAGCGCCGC
65 TCAGAGATTTAGCGGCGTTTTTAAGAAAGCGCCGC
14613059 AAAAAACCTA
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
113 25 0.28
114 63 0.72
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (113 bp):
TTAGCGGCGTTTTCCAGAAAGCGCCGAAAAAAACCTAAGCCCAACGACGCCGTTTACCGAGCTTT
CAGAGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCAGGGAT
Found at i:14613118 original size:73 final size:73
Alignment explanation
Indices: 14612950--14613117 Score: 295
Period size: 72 Copynumber: 2.3 Consensus size: 73
14612940 GCCGCTAATG
14612950 TTCAGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTT
1 TTCAGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTT
14613015 TCTGAGCT
66 TCTGAGCT
* *
14613023 TTCAGGGATTTAGTGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCGAACGACGCCGTTT
1 TTCAGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTT
14613087 TCTGAGCT
66 TCTGAGCT
14613095 TTC-GGGAATTTAGCGGCGTTTTT
1 TTCAGGG-ATTTAGCGGCGTTTTT
14613118 TAAAATGCGG
Statistics
Matches: 91, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
71 3 0.03
72 53 0.58
73 35 0.38
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (73 bp):
TTCAGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTT
TCTGAGCT
Found at i:14613962 original size:192 final size:190
Alignment explanation
Indices: 14613704--14614076 Score: 466
Period size: 192 Copynumber: 2.0 Consensus size: 190
14613694 GTAATCTATA
* * * **
14613704 ATGGGTTTAAGTCATGGTTTTCATTTGGAGCTTTGTGATTAAAACACTATTATTACTTGAATGGA
1 ATGGGTTCAAGTCATGGTTTTCATTTGGAACTTTGTGATTAAAACACAACAATTACTTGAATGGA
* * * * * * * *
14613769 AATGTATTTGCATTTGT-GTATCCTGCAATGCTT-TTTAATTGAACTTTGGGGTTGGAATTGTTA
66 AATGCACTTGCATTT-TCATATCCTGCAAAGCTTCTTT-AGTCAACTTTGGAGTTGAAATTGTTA
* * *
14613832 TTAGGAAGTAATTGATG-TTTTTATGTTGATGTTAATGAATACAATAGACTAAGTTGAAATTTTT
129 TTAGGAAGTAATTGATGATTTTT-T-ATGATGTTAAT-AACACAATAGACCAAGTTGAAATTTTT
*
14613896 ATGGGTTCAAGTCATGGTTTTCATTT-GAACTTTGTGATTACAACACAACAATTTACTTGAATGG
1 ATGGGTTCAAGTCATGGTTTTCATTTGGAACTTTGTGATTAAAACACAACAA-TTACTTGAATGG
** *
14613960 AAATGCACTTGTGTTTTCATATCCTGCAAAGCTTCTTTAGTCAATTTTGGAGTTGAAATTGTTAT
65 AAATGCACTTGCATTTTCATATCCTGCAAAGCTTCTTTAGTCAACTTTGGAGTTGAAATTGTTAT
* *
14614025 TAGGATGTAATTGATGATTTTTTATGATGTTAATAACATAATAGACCAAGTT
130 TAGGAAGTAATTGATGATTTTTTATGATGTTAATAACACAATAGACCAAGTT
14614077 TGGGACCTTT
Statistics
Matches: 155, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
190 15 0.10
191 31 0.20
192 101 0.65
193 8 0.05
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.42
Consensus pattern (190 bp):
ATGGGTTCAAGTCATGGTTTTCATTTGGAACTTTGTGATTAAAACACAACAATTACTTGAATGGA
AATGCACTTGCATTTTCATATCCTGCAAAGCTTCTTTAGTCAACTTTGGAGTTGAAATTGTTATT
AGGAAGTAATTGATGATTTTTTATGATGTTAATAACACAATAGACCAAGTTGAAATTTTT
Found at i:14615110 original size:43 final size:43
Alignment explanation
Indices: 14615048--14615351 Score: 389
Period size: 43 Copynumber: 7.1 Consensus size: 43
14615038 GCTAGTGGCA
* *
14615048 TTTGTGATAAAAGCGCCGCTAAAGGTAATGGTTTTTAGCGGCG
1 TTTGTGATAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCG
* *
14615091 TTTGTGATAAAAGCACCGCTAAAGGTAATGGTCTTTAGCGGCG
1 TTTGTGATAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCG
* *
14615134 TTTGTGAGTAAAAGCGCCGCTAAAGGTCATGTTCTTTCGCGGCG
1 TTTGTGA-TAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCG
* *
14615178 TTTGTGATAAAAGCGCCGCTAAAAGTCATGATCTTTAGCGGCG
1 TTTGTGATAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCG
* * * * *
14615221 TTTATGGGT-AAAGCGTCGCTAAAGGTCATGATCTATAGCGGCG
1 TTTGT-GATAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCG
*
14615264 TTTGTGAT-AAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCG
1 TTTGTGATAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCG
* * * * *
14615306 TTTGTGGGT-GAAGCGCCGCTAAAGGTTATGTTCTATAGCGGCG
1 TTTGT-GATAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCG
14615349 TTT
1 TTT
14615352 TTTCTCATAA
Statistics
Matches: 235, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
42 39 0.17
43 155 0.66
44 41 0.17
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
TTTGTGATAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCG
Found at i:14615213 original size:87 final size:86
Alignment explanation
Indices: 14615048--14615351 Score: 425
Period size: 87 Copynumber: 3.5 Consensus size: 86
14615038 GCTAGTGGCA
* * *
14615048 TTTGTGA-TAAAAGCGCCGCTAAAGGTAATGGTT-TTTAGCGGCGTTTGTGATAAAAGCACCGCT
1 TTTGTGAGT-AAAGCGCCGCTAAAGGTCAT-GTTCTATAGCGGCGTTTGTGATAAAAGCGCCGCT
* *
14615111 AAAGGTAATGGTCTTTAGCGGCG
64 AAAGGTCATGATCTTTAGCGGCG
* *
14615134 TTTGTGAGTAAAAGCGCCGCTAAAGGTCATGTTCTTTCGCGGCGTTTGTGATAAAAGCGCCGCTA
1 TTTGTGAGT-AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGATAAAAGCGCCGCTA
*
14615199 AAAGTCATGATCTTTAGCGGCG
65 AAGGTCATGATCTTTAGCGGCG
* * * *
14615221 TTTATGGGTAAAGCGTCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGAT-AAAGCGCCGCTAA
1 TTTGTGAGTAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGATAAAAGCGCCGCTAA
14615285 AGGTCATGATCTTTAGCGGCG
66 AGGTCATGATCTTTAGCGGCG
* * *
14615306 TTTGTGGGTGAAGCGCCGCTAAAGGTTATGTTCTATAGCGGCGTTT
1 TTTGTGAGTAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTT
14615352 TTTCTCATAA
Statistics
Matches: 198, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
85 74 0.37
86 48 0.24
87 76 0.38
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (86 bp):
TTTGTGAGTAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGATAAAAGCGCCGCTAA
AGGTCATGATCTTTAGCGGCG
Found at i:14615314 original size:85 final size:86
Alignment explanation
Indices: 14615057--14615351 Score: 432
Period size: 85 Copynumber: 3.4 Consensus size: 86
14615047 ATTTGTGATA
* * * *
14615057 AAAGCGCCGCTAAAGGTAATGGTT-TTTAGCGGCGTTTGTGATAAAAGCACCGCTAAAGGTAATG
1 AAAGCGCCGCTAAAGGTCAT-GTTCTATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATG
* *
14615121 GTCTTTAGCGGCGTTTGTGAGT
65 ATCTTTAGCGGCGTTTGTGGGT
* * *
14615143 AAAAGCGCCGCTAAAGGTCATGTTCTTTCGCGGCGTTTGTGATAAAAGCGCCGCTAAAAGTCATG
1 -AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATG
*
14615208 ATCTTTAGCGGCGTTTATGGGT
65 ATCTTTAGCGGCGTTTGTGGGT
* *
14615230 AAAGCGTCGCTAAAGGTCATGATCTATAGCGGCGTTTGTGAT-AAAGCGCCGCTAAAGGTCATGA
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGA
14615294 TCTTTAGCGGCGTTTGTGGGT
66 TCTTTAGCGGCGTTTGTGGGT
* *
14615315 GAAGCGCCGCTAAAGGTTATGTTCTATAGCGGCGTTT
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTT
14615352 TTTCTCATAA
Statistics
Matches: 189, Mismatches: 18, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
85 74 0.39
86 41 0.22
87 74 0.39
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGA
TCTTTAGCGGCGTTTGTGGGT
Found at i:14615452 original size:22 final size:22
Alignment explanation
Indices: 14615424--14615466 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
14615414 TAGCGGCGCT
*
14615424 AAAAAACGCCGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAAGCCTA
14615446 AAAAAACGCCGCTAAAAGCCT
1 AAAAAACGCCGCTAAAAGCCT
14615467 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.28, G:0.16, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAGCCTA
Found at i:14616780 original size:14 final size:15
Alignment explanation
Indices: 14616746--14616784 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
14616736 ATAATTATTA
*
14616746 ATTTAATATTATAACT
1 ATTTAA-ATAATAACT
14616762 ATTTAAATAATAA-T
1 ATTTAAATAATAACT
14616776 ATTTAAATA
1 ATTTAAATA
14616785 GTTATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 6 0.27
16 6 0.27
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTAAATAATAACT
Found at i:14629632 original size:15 final size:15
Alignment explanation
Indices: 14629612--14629645 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
14629602 TCATATAAAC
14629612 TTTACTATATAGTGA
1 TTTACTATATAGTGA
14629627 TTTACTATATAGTGA
1 TTTACTATATAGTGA
14629642 TTTA
1 TTTA
14629646 TAAAGGTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (15 bp):
TTTACTATATAGTGA
Found at i:14634096 original size:9 final size:9
Alignment explanation
Indices: 14634082--14634106 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14634072 TTCGCATCAT
14634082 TTTCTCTTA
1 TTTCTCTTA
14634091 TTTCTCTTA
1 TTTCTCTTA
14634100 TTTCTCT
1 TTTCTCT
14634107 ACAGTAAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTCTCTTA
Found at i:14638278 original size:153 final size:153
Alignment explanation
Indices: 14637873--14638278 Score: 551
Period size: 153 Copynumber: 2.7 Consensus size: 153
14637863 TAGTTCGCAT
* * * *
14637873 ATAGTACTTTACATAATCAGTACGTATATACTTTGCATAGACATTTCACACATATAACTTTACGT
1 ATAGAACTTTACATAATCAGTACGTATATACTTTGCATAGACAGTTCACACATAAAACTTTACAT
* * * * * *
14637938 GATTAGTACGCACACACTTTGTATAGACAGTTCACATATAGAACTTTACATAATCAGTATGCACA
66 AATCAGTACGCACATACTTTGAATAGACAGTTCATACATAGAACTTTACATAATCAGTATGCACA
*
14638003 TACTTTGCATAGACAATTCATAC
131 TACTTTGCATACACAATTCATAC
* * * * *
14638026 ATAAAACTTTACATAATCAGTACGCATACACTTTCCACAGACAGTTCACACATAAAACTTTACAT
1 ATAGAACTTTACATAATCAGTACGTATATACTTTGCATAGACAGTTCACACATAAAACTTTACAT
* * *
14638091 AATCAATACGCATATACTTTGAATAGATAGTTCATACATAGAACTTTACATAATCAGTATGCACA
66 AATCAGTACGCACATACTTTGAATAGACAGTTCATACATAGAACTTTACATAATCAGTATGCACA
*
14638156 TACTTTGCATACACACTTCATAC
131 TACTTTGCATACACAATTCATAC
* * * * ** *
14638179 ATAGAACTTTACATAATTAGTACGTATATACTTTGTATAAATAGTTCATGCATAGAACTTTACAT
1 ATAGAACTTTACATAATCAGTACGTATATACTTTGCATAGACAGTTCACACATAAAACTTTACAT
* *
14638244 AATCAGTACGCACATACTTTGCATAGCCAGTTCAT
66 AATCAGTACGCACATACTTTGAATAGACAGTTCAT
14638279 GGACCCTTCC
Statistics
Matches: 216, Mismatches: 37, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
153 216 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (153 bp):
ATAGAACTTTACATAATCAGTACGTATATACTTTGCATAGACAGTTCACACATAAAACTTTACAT
AATCAGTACGCACATACTTTGAATAGACAGTTCATACATAGAACTTTACATAATCAGTATGCACA
TACTTTGCATACACAATTCATAC
Found at i:14638279 original size:51 final size:51
Alignment explanation
Indices: 14637873--14638278 Score: 479
Period size: 51 Copynumber: 8.0 Consensus size: 51
14637863 TAGTTCGCAT
* * * * *
14637873 ATAGTACTTTACATAATCAGTACGTATATACTTTGCATAGACATTTCACAC
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
* * * * * * * *
14637924 ATATAACTTTACGTGATTAGTACGCACACACTTTGTATAGACAGTTCACAT
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
* *
14637975 ATAGAACTTTACATAATCAGTATGCACATACTTTGCATAGACAATTCATAC
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
* * * * * *
14638026 ATAAAACTTTACATAATCAGTACGCATACACTTTCCACAGACAGTTCACAC
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
* * * * *
14638077 ATAAAACTTTACATAATCAATACGCATATACTTTGAATAGATAGTTCATAC
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
* * *
14638128 ATAGAACTTTACATAATCAGTATGCACATACTTTGCATACACACTTCATAC
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
* * * * * * *
14638179 ATAGAACTTTACATAATTAGTACGTATATACTTTGTATAAATAGTTCATGC
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
*
14638230 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGCCAGTTCAT
1 ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCAT
14638279 GGACCCTTCC
Statistics
Matches: 295, Mismatches: 60, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 295 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (51 bp):
ATAGAACTTTACATAATCAGTACGCACATACTTTGCATAGACAGTTCATAC
Found at i:14644497 original size:40 final size:39
Alignment explanation
Indices: 14644453--14644587 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 39
14644443 ACCAGTTTGG
*
14644453 CACCCAGTGCCTCATCGGATAATTCGAAGTAATAACTTGA
1 CACCCAGTGCCTCATCGGATAATCCGAAGTAATAA-TTGA
* * * * *
14644493 CACCCAGTGTCTCATCAGTTAAACCGAAGT-A-AATTGG
1 CACCCAGTGCCTCATCGGATAATCCGAAGTAATAATTGA
* *
14644530 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGGA-TAATCCGAAGTAAT-AATTGA
*
14644571 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
14644588 ACTCGAAGTA
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
37 18 0.23
38 12 0.16
39 1 0.01
40 25 0.32
41 21 0.27
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAATCCGAAGTAATAATTGA
Found at i:14644575 original size:41 final size:41
Alignment explanation
Indices: 14644453--14644588 Score: 156
Period size: 41 Copynumber: 3.4 Consensus size: 41
14644443 ACCAGTTTGG
* * * *
14644453 CACCCAGTGCCTCATCGGA-TAATTCGAAGTAATAACTTGA
1 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
* * * *
14644493 CACCCAGTGTCTCATC-AGTTAAACCG-A--AGTAAATTGG
1 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
14644530 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
*
14644571 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
14644589 CTCGAAGTAG
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
37 22 0.28
38 8 0.10
39 2 0.03
40 20 0.26
41 26 0.33
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (41 bp):
CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
Found at i:14644751 original size:39 final size:40
Alignment explanation
Indices: 14644708--14644794 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 40
14644698 CAATATTCAT
*
14644708 TTCAATTCAA-AT-AA-TCAATATATTCAATATATATACCAA
1 TTCAATTCAATATAAATTCAATAAATTC-AT-TATATACCAA
*
14644747 TTCAA-TCAATATAAATTCAATAAATTCATTATATACTAA
1 TTCAATTCAATATAAATTCAATAAATTCATTATATACCAA
*
14644786 ATCAATTCA
1 TTCAATTCA
14644795 TTTCAATTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
38 4 0.10
39 20 0.49
40 7 0.17
41 10 0.24
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (40 bp):
TTCAATTCAATATAAATTCAATAAATTCATTATATACCAA
Found at i:14646337 original size:141 final size:141
Alignment explanation
Indices: 14646083--14646361 Score: 558
Period size: 141 Copynumber: 2.0 Consensus size: 141
14646073 ATTTGACTCG
14646083 TAAATATTTAATAAAAATATTTACGAACTTACTCGTTGGATTTGGTGGCCCCAAAACCACTATTT
1 TAAATATTTAATAAAAATATTTACGAACTTACTCGTTGGATTTGGTGGCCCCAAAACCACTATTT
14646148 CCTACACCATTAAAAAATGGGCTGTTACAATTCAAGCTAACAAGCATGACAATGGAAGTTGCTTA
66 CCTACACCATTAAAAAATGGGCTGTTACAATTCAAGCTAACAAGCATGACAATGGAAGTTGCTTA
14646213 AGGATTAATCA
131 AGGATTAATCA
14646224 TAAATATTTAATAAAAATATTTACGAACTTACTCGTTGGATTTGGTGGCCCCAAAACCACTATTT
1 TAAATATTTAATAAAAATATTTACGAACTTACTCGTTGGATTTGGTGGCCCCAAAACCACTATTT
14646289 CCTACACCATTAAAAAATGGGCTGTTACAATTCAAGCTAACAAGCATGACAATGGAAGTTGCTTA
66 CCTACACCATTAAAAAATGGGCTGTTACAATTCAAGCTAACAAGCATGACAATGGAAGTTGCTTA
14646354 AGGATTAA
131 AGGATTAA
14646362 AGGAATTTAA
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 138 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (141 bp):
TAAATATTTAATAAAAATATTTACGAACTTACTCGTTGGATTTGGTGGCCCCAAAACCACTATTT
CCTACACCATTAAAAAATGGGCTGTTACAATTCAAGCTAACAAGCATGACAATGGAAGTTGCTTA
AGGATTAATCA
Found at i:14649495 original size:9 final size:9
Alignment explanation
Indices: 14649481--14649507 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
14649471 ATTTAATTTT
14649481 AATCCAACC
1 AATCCAACC
14649490 AATCCAACC
1 AATCCAACC
14649499 AATCCAACC
1 AATCCAACC
14649508 CTTTTGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.11
Consensus pattern (9 bp):
AATCCAACC
Found at i:14650124 original size:44 final size:43
Alignment explanation
Indices: 14649994--14650116 Score: 194
Period size: 44 Copynumber: 2.8 Consensus size: 43
14649984 AGGGTAAATC
* *
14649994 CAACAACCCAAGATTATCATCTCCTCTTTTTAAATTCTTTTTT
1 CAACAACTCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
14650037 CAACAA-TCTAAGATTATCTTCTCCTCTTTTTTAAATTCTTTTTT
1 CAACAACTC-AAGATTATCTTCTCCTC-TTTTTAAATTCTTTTTT
*
14650081 CAACAACTCAAGATTATCTTCTCCTCTTTTCAAATT
1 CAACAACTCAAGATTATCTTCTCCTCTTTTTAAATT
14650117 TATTTTTTTA
Statistics
Matches: 74, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
42 1 0.01
43 31 0.42
44 40 0.54
45 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.02, T:0.46
Consensus pattern (43 bp):
CAACAACTCAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
Found at i:14650588 original size:5 final size:5
Alignment explanation
Indices: 14650580--14650639 Score: 52
Period size: 5 Copynumber: 11.8 Consensus size: 5
14650570 ATAAATAAAT
* * *
14650580 AAAAG AAAAA AAAAG -AAAG ACAAG CAAAACG AAACAG AAAGG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG -AAAA-G AAA-AG AAAAG AAAAG
14650627 -AAAG AAAAG AAAA
1 AAAAG AAAAG AAAA
14650640 AGGGAAAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
4 8 0.18
5 24 0.55
6 10 0.23
7 2 0.05
ACGTcount: A:0.75, C:0.07, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:14654081 original size:3 final size:3
Alignment explanation
Indices: 14654073--14654167 Score: 154
Period size: 3 Copynumber: 31.7 Consensus size: 3
14654063 AAAGTGTGAA
*
14654073 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG GAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * *
14654121 GAG AAG AAG AAG AAG GAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
14654168 ATAGTAAATC
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14656948 original size:5 final size:5
Alignment explanation
Indices: 14656915--14656978 Score: 62
Period size: 5 Copynumber: 12.8 Consensus size: 5
14656905 ACAAATAAAT
* *
14656915 AAAAG AAAA- AAAAG -AAAG ACAAAC AAAACG AAACAG AAAGG AAAAG
1 AAAAG AAAAG AAAAG AAAAG A-AAAG AAAA-G AAA-AG AAAAG AAAAG
14656961 -AAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAA
14656979 AGGGAAAGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
4 12 0.24
5 25 0.51
6 11 0.22
7 1 0.02
ACGTcount: A:0.77, C:0.06, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:14656962 original size:10 final size:9
Alignment explanation
Indices: 14656915--14657002 Score: 63
Period size: 9 Copynumber: 9.2 Consensus size: 9
14656905 ACAAATAAAT
*
14656915 AAAAGAAAA
1 AAAAGAAAG
14656924 AAAAGAAAG
1 AAAAGAAAG
*
14656933 ACAAACAAAACG
1 A-AAA-GAAA-G
14656945 AAACAGAAAGG
1 AAA-AGAAA-G
14656956 AAAAGAAAG
1 AAAAGAAAG
14656965 AAAAGAAA-
1 AAAAGAAAG
*
14656973 AGAAA-AAGG
1 A-AAAGAAAG
*
14656982 GAAAGAAAG
1 AAAAGAAAG
14656991 AAAGAGAAAG
1 AAA-AGAAAG
14657001 AA
1 AA
14657003 GGAGACGAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
8 6 0.10
9 26 0.41
10 16 0.25
11 12 0.19
12 3 0.05
ACGTcount: A:0.74, C:0.05, G:0.22, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:14656968 original size:26 final size:25
Alignment explanation
Indices: 14656915--14656999 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 25
14656905 ACAAATAAAT
* *
14656915 AAAAGAAAA-AAAA-GAAAGACAAAC
1 AAAAGAAAAGAAAAGGAAA-AGAAAG
14656939 AAAACGAAACAG-AAAGGAAAAGAAAG
1 AAAA-GAAA-AGAAAAGGAAAAGAAAG
*
14656965 AAAAGAAAAGAAAAAGGGAAAGAAAG
1 AAAAGAAAAG-AAAAGGAAAAGAAAG
14656991 AAAGAGAAA
1 AAA-AGAAA
14657000 GAAGGAGACG
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
24 6 0.12
25 8 0.16
26 28 0.55
27 9 0.18
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (25 bp):
AAAAGAAAAGAAAAGGAAAAGAAAG
Found at i:14657744 original size:2 final size:2
Alignment explanation
Indices: 14657707--14657735 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14657697 ATTGAATTAG
14657707 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14657736 TGAATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14658004 original size:40 final size:40
Alignment explanation
Indices: 14657882--14658059 Score: 184
Period size: 40 Copynumber: 4.5 Consensus size: 40
14657872 ACTTCGAGTC
* * * * *
14657882 GATGAGACATTGGGTGTTAATTTACTACTTCGGATTAGT-T
1 GATGAGGCACTGGGTGTCAATTTATTACTTCGAATTA-TCT
* * ** * *
14657922 CGATGAGGCACTGGGTGCCAA--T-TTACTTTGGTTTAGCC
1 -GATGAGGCACTGGGTGTCAATTTATTACTTCGAATTATCT
* *
14657960 GATGAGACACTGGGTGTCAATCTATTACTTCGAATTATCT
1 GATGAGGCACTGGGTGTCAATTTATTACTTCGAATTATCT
14658000 GATGAGGCACTGGGTGTCAATTTATTACTTCGAATTATCT
1 GATGAGGCACTGGGTGTCAATTTATTACTTCGAATTATCT
*
14658040 GATGAGGCATTGGGTGTCAA
1 GATGAGGCACTGGGTGTCAA
14658060 ATTGGTGTAT
Statistics
Matches: 114, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
37 18 0.16
38 10 0.09
39 2 0.02
40 68 0.60
41 16 0.14
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (40 bp):
GATGAGGCACTGGGTGTCAATTTATTACTTCGAATTATCT
Found at i:14663568 original size:227 final size:226
Alignment explanation
Indices: 14663123--14663925 Score: 748
Period size: 231 Copynumber: 3.5 Consensus size: 226
14663113 ATATCACATA
* * * *
14663123 CTATAATAGT-ATAGTAATACATAATATATTAATTATTATCATATATTATTGTTTATTA-TAT--
1 CTATAATA-TAATAGTAGTACATTATATATTAATTATAAACATATATTATTGTTTATTATTATAC
* * * * *
14663184 TGGTTGAAATATTTTCTAAGCCCCTATACTTTTCCTACATTTAAAAGTTAGCCCTCCTAATATAT
65 TGGTTGAAATATCTT-TAAGTCCCTATACTTTTCGTACATTTGAAAGTTAGCCCTCCTACTATAT
* *
14663249 TATATAATGTTATATCATATCATAT-AT-TAATAGCT-TATGTATATGCATCATTGATTAAACAC
129 TATATAATGTTATATCATATCATATCATATAATA--TATA-ATATATGAATCATTGATTAAACAC
* *
14663311 TATAATATCATATAATACTATATCTTTTATTATATT
191 TATAATATCATATAACACTATATCTTTTATTATAAT
* *
14663347 TTATAATATAATAGTAGTACATTATTTATTAATTATAAACATATATTATTGTTTATTATTATACT
1 CTATAATATAATAGTAGTACATTATATATTAATTATAAACATATATTATTGTTTATTATTATACT
* * * * * *
14663412 GGTTGAAATATACTTTAAGTGCCTATACTTTTTGTACACTTGAAAGTTAACCCTCATACTATACT
66 GGTTGAAATAT-CTTTAAGTCCCTATACTTTTCGTACATTTGAAAGTTAGCCCTCCTACTATATT
* * * **
14663477 ATATAATGTTATATCATATCATATCATATAATATATAATATATTAAT-AGTTTATATATATGC-A
130 ATATAATGTTATATCATATCATATCATATAATATATAATATATGAATCA-TTGAT-TAAACACTA
* * *
14663540 TCA-ATGAT-TGAACATTATATCTTTTTATTATAAT
193 TAATATCATAT-AACACTATATC-TTTTATTATAAT
* *
14663574 CTATAATATAATAATAGTAGTACA-TATATATATATATATATATTAC--ATATTATTGTTTATTG
1 CTAT-A-AT-ATAATAGTAGTACATTATATAT-TA-AT-TATA-AACATATATTATTGTTTATTA
* * * *
14663636 TTATACTAGTTGAAATATGCTCTAAGTCCCTATACTTTTCGTACATTTGAAAGTTAGCTCACCTA
59 TTATACTGGTTGAAATAT-CTTTAAGTCCCTATACTTTTCGTACATTTGAAAGTTAGCCCTCCTA
* * * * * * *
14663701 CTATATTATATGATGCTATATCATATTATATCATATCATA-AT-ATATATGCATAAATGATTAAA
123 CTATATTATATAATGTTATATCATATCATATCATATAATATATAATATATGAATCATTGATTAAA
* * *
14663764 CATTATAATATCATGTAATACTATATCTTTTATTATAAT
188 CACTATAATATCATATAACACTATATCTTTTATTATAAT
* * * * *
14663803 CTATATTATAATAATAGT-TA-TATATAATAA-TAGTACATTATATATATTATTGTTTATTATTA
1 CTATAATATAATAGTAGTACATTATATATTAATTA-TA-A--ACATATATTATTGTTTATTATTA
* * * * *
14663865 TATTAGTTGAAATATGCTCTAAAT-CCTCATACTTTTCGTGCATTTGAAAGTTAG-CCTCCTA
62 TACTGGTTGAAATAT-CTTTAAGTCCCT-ATACTTTTCGTACATTTGAAAGTTAGCCCTCCTA
14663926 TATCATATAT
Statistics
Matches: 477, Mismatches: 73, Indels: 57
0.79 0.12 0.09
Matches are distributed among these distances:
221 2 0.00
222 2 0.00
223 2 0.00
224 53 0.11
225 19 0.04
226 89 0.19
227 106 0.22
228 15 0.03
229 43 0.09
230 32 0.07
231 108 0.23
232 4 0.01
233 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (226 bp):
CTATAATATAATAGTAGTACATTATATATTAATTATAAACATATATTATTGTTTATTATTATACT
GGTTGAAATATCTTTAAGTCCCTATACTTTTCGTACATTTGAAAGTTAGCCCTCCTACTATATTA
TATAATGTTATATCATATCATATCATATAATATATAATATATGAATCATTGATTAAACACTATAA
TATCATATAACACTATATCTTTTATTATAAT
Found at i:14663830 original size:16 final size:17
Alignment explanation
Indices: 14663804--14663836 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
14663794 TATTATAATC
14663804 TATATTATAATAATAGT
1 TATATTATAATAATAGT
14663821 TATA-TATAATAATAGT
1 TATATTATAATAATAGT
14663837 ACATTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TATATTATAATAATAGT
Found at i:14665218 original size:14 final size:11
Alignment explanation
Indices: 14665189--14665223 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
14665179 AGAAAAAAAA
14665189 TTGTTGTTTTC
1 TTGTTGTTTTC
14665200 TTGTTGTTTTC
1 TTGTTGTTTTC
* *
14665211 CTGCTGTTTTC
1 TTGTTGTTTTC
14665222 TT
1 TT
14665224 ACTGTCTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.17, T:0.69
Consensus pattern (11 bp):
TTGTTGTTTTC
Found at i:14665433 original size:25 final size:24
Alignment explanation
Indices: 14665378--14665433 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
14665368 AGTATAAAGA
*
14665378 TTTTTAAAAAAAATTATTTTCAAT
1 TTTTTAAAAAAAATTATTGTCAAT
* *
14665402 TTGTTAAAAAATATTTATTGT-AAT
1 TTTTTAAAAAA-AATTATTGTCAAT
14665426 GTTTTTAA
1 -TTTTTAA
14665434 TATTTTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (24 bp):
TTTTTAAAAAAAATTATTGTCAAT
Found at i:14673518 original size:22 final size:22
Alignment explanation
Indices: 14673493--14673555 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
14673483 TGGTCATAAT
14673493 TAATTAAATAGTTAGTGAATTC
1 TAATTAAATAGTTAGTGAATTC
14673515 TAATCT-AAT-G---GTG-A-T-
1 TAAT-TAAATAGTTAGTGAATTC
*
14673530 TAATTAAATAGTTATTGAATTC
1 TAATTAAATAGTTAGTGAATTC
14673552 TAAT
1 TAAT
14673556 CTAATGGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 18
0.62 0.02 0.36
Matches are distributed among these distances:
14 1 0.03
15 7 0.23
16 2 0.06
17 1 0.03
18 3 0.10
19 2 0.06
20 1 0.03
21 2 0.06
22 11 0.35
23 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.43
Consensus pattern (22 bp):
TAATTAAATAGTTAGTGAATTC
Found at i:14673532 original size:37 final size:37
Alignment explanation
Indices: 14673491--14673562 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
14673481 GCTGGTCATA
14673491 ATTAATTAAATAGTTAGTGAATTCTAATCTAATGGTG
1 ATTAATTAAATAGTTAGTGAATTCTAATCTAATGGTG
*
14673528 ATTAATTAAATAGTTATTGAATTCTAATCTAATGG
1 ATTAATTAAATAGTTAGTGAATTCTAATCTAATGG
14673563 AAAAAATAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.42
Consensus pattern (37 bp):
ATTAATTAAATAGTTAGTGAATTCTAATCTAATGGTG
Found at i:14675173 original size:28 final size:27
Alignment explanation
Indices: 14675132--14675184 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
14675122 AAATTTTAGA
* *
14675132 TTGTTGGATTTTGATATATGTCTTAAAT
1 TTGTTAGATATTGAT-TATGTCTTAAAT
*
14675160 TTGTTAGATATTGATTATGTTTTAA
1 TTGTTAGATATTGATTATGTCTTAA
14675185 CCTTATTGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.26, C:0.02, G:0.17, T:0.55
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTCTTAAAT
Found at i:14675219 original size:35 final size:36
Alignment explanation
Indices: 14675168--14675244 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 36
14675158 ATTTGTTAGA
* *
14675168 TATTGATTATGTTTTAACCTTATTGGATATTGAATT
1 TATTGATTATGATTTAACCTTATTGGATATTGAAAT
* *
14675204 TATT-ATTATGATTTAAGCTTGTTGGATATTGAAAT
1 TATTGATTATGATTTAACCTTATTGGATATTGAAAT
14675239 TATTGA
1 TATTGA
14675245 CAATGACAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 31 0.86
36 5 0.14
ACGTcount: A:0.30, C:0.04, G:0.16, T:0.51
Consensus pattern (36 bp):
TATTGATTATGATTTAACCTTATTGGATATTGAAAT
Found at i:14680368 original size:24 final size:25
Alignment explanation
Indices: 14680322--14680369 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
14680312 ATATCGTCAT
14680322 ATTATTAAATTTATATTTAAAATTA
1 ATTATTAAATTTATATTTAAAATTA
14680347 ATTA-TAATATTTA-ATTTAAAATT
1 ATTATTAA-ATTTATATTTAAAATT
14680370 TTAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTATTAAATTTATATTTAAAATTA
Found at i:14681241 original size:24 final size:25
Alignment explanation
Indices: 14681214--14681261 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
14681204 AGAGGAAAGT
14681214 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
14681238 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
14681262 TATGGGAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:14689549 original size:21 final size:22
Alignment explanation
Indices: 14689525--14689571 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
14689515 TAACAGGAAT
*
14689525 ACATGA-TTGTGTGACTGAGGC
1 ACATGACTCGTGTGACTGAGGC
*
14689546 ACAT-ACTCGTGTGACTGAGGG
1 ACATGACTCGTGTGACTGAGGC
14689567 ACATG
1 ACATG
14689572 GCCGTGCAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (22 bp):
ACATGACTCGTGTGACTGAGGC
Found at i:14689612 original size:19 final size:20
Alignment explanation
Indices: 14689582--14689632 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
14689572 GCCGTGCAGT
* *
14689582 TGAGAGACACACCCGTGTGAC
1 TGAGATACACA-CCATGTGAC
14689603 TGAGATACACGACCATGTGAC
1 TGAGATACAC-ACCATGTGAC
14689624 TGAGATACA
1 TGAGATACA
14689633 TGGCTGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (20 bp):
TGAGATACACACCATGTGAC
Found at i:14692804 original size:13 final size:13
Alignment explanation
Indices: 14692786--14692826 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
14692776 ATGGCACAAA
14692786 ATATAACCATTTC
1 ATATAACCATTTC
*
14692799 ATATAATCATTTC
1 ATATAACCATTTC
14692812 ATATAACCATTTC
1 ATATAACCATTTC
14692825 AT
1 AT
14692827 CTGATCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATAACCATTTC
Found at i:14692816 original size:26 final size:26
Alignment explanation
Indices: 14692786--14692898 Score: 97
Period size: 26 Copynumber: 4.2 Consensus size: 26
14692776 ATGGCACAAA
14692786 ATATAACCATTTCATATAATCATTTC
1 ATATAACCATTTCATATAATCATTTC
* *
14692812 ATATAACCATTTCATCTGATCATTTC
1 ATATAACCATTTCATATAATCATTTC
*
14692838 AT-TCACACATTTAACATATAATCATTCTGC
1 ATATAAC-CATTT--CATATAATCATT-T-C
* * *
14692868 ATATTA-CATTTCATTTCAAT-AATTC
1 ATATAACCATTTCATAT-AATCATTTC
14692893 ATATAA
1 ATATAA
14692899 ATTTCTCCAT
Statistics
Matches: 71, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
25 9 0.13
26 32 0.45
27 6 0.08
28 13 0.18
29 6 0.08
30 3 0.04
31 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.42
Consensus pattern (26 bp):
ATATAACCATTTCATATAATCATTTC
Found at i:14692835 original size:13 final size:13
Alignment explanation
Indices: 14692786--14692839 Score: 72
Period size: 13 Copynumber: 4.2 Consensus size: 13
14692776 ATGGCACAAA
*
14692786 ATATAACCATTTC
1 ATATAATCATTTC
14692799 ATATAATCATTTC
1 ATATAATCATTTC
*
14692812 ATATAACCATTTC
1 ATATAATCATTTC
* *
14692825 ATCTGATCATTTC
1 ATATAATCATTTC
14692838 AT
1 AT
14692840 TCACACATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (13 bp):
ATATAATCATTTC
Found at i:14696213 original size:21 final size:21
Alignment explanation
Indices: 14696189--14696234 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
14696179 ATAATTAGGT
14696189 TCAAGTGGCAAATCATTAAAG
1 TCAAGTGGCAAATCATTAAAG
*
14696210 TCAAGTGGTAAATCATTAAAG
1 TCAAGTGGCAAATCATTAAAG
14696231 TCAA
1 TCAA
14696235 ATGATTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (21 bp):
TCAAGTGGCAAATCATTAAAG
Found at i:14699278 original size:23 final size:23
Alignment explanation
Indices: 14699233--14699280 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
14699223 AATAAAATAC
*
14699233 CCTAACCCGAAATACTAACTAAA
1 CCTAACCCGAAATACCAACTAAA
* * *
14699256 CCTAACCCGAATTACCCATTAAA
1 CCTAACCCGAAATACCAACTAAA
14699279 CC
1 CC
14699281 CTAGCCCAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.35, G:0.04, T:0.19
Consensus pattern (23 bp):
CCTAACCCGAAATACCAACTAAA
Found at i:14706560 original size:7 final size:7
Alignment explanation
Indices: 14706548--14706588 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
14706538 AAAAAAAGGG
14706548 ATGAAAA
1 ATGAAAA
14706555 ATGAAAA
1 ATGAAAA
14706562 ATG-AAA
1 ATGAAAA
14706568 ATGAAAA
1 ATGAAAA
*
14706575 GTGAAAA
1 ATGAAAA
14706582 ATGAAAA
1 ATGAAAA
14706589 TTAATGATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:14706571 original size:20 final size:20
Alignment explanation
Indices: 14706548--14706589 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
14706538 AAAAAAAGGG
14706548 ATGAAAAATGAAAAATGAAA
1 ATGAAAAATGAAAAATGAAA
*
14706568 ATGAAAAGTGAAAAATGAAA
1 ATGAAAAATGAAAAATGAAA
14706588 AT
1 AT
14706590 TAATGATGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (20 bp):
ATGAAAAATGAAAAATGAAA
Found at i:14708095 original size:44 final size:43
Alignment explanation
Indices: 14708036--14708363 Score: 153
Period size: 44 Copynumber: 7.5 Consensus size: 43
14708026 GAAGATGGCA
* *
14708036 AATCTTATCTCCCTGAAGTTGCAGTGGATCAGATTGAAACCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAACCAAT
* * * **
14708080 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACCAAT
* * ** *** *
14708123 AGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATC-A-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACCAAT
** * * * *
14708165 GGTCTTATCTCCCTGAGGTTGCAGTGGAACAGACTGAGAA--AAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AACCAAT
* ** * ** * *
14708208 AAGTCTTATCTGCCTGAAGTCACAGTGGGGCAGACCAAA-GAAGCA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACCAA--T
* * * ** *
14708253 AATCTTATCTCCCTGAGGTTGCGGTGGAGTAGATTGAAGTCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAACCAAT
* * * * * **
14708297 AATCCTATCTCTCTGAAGTTGTAGTGGAGCGGGTTAAAGTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACCAAT
*
14708340 AAATCTTATCTCTCTGAAGTTGCA
1 -AATCTTATCTCCCTGAAGTTGCA
14708364 ATAGAATAGA
Statistics
Matches: 206, Mismatches: 66, Indels: 24
0.70 0.22 0.08
Matches are distributed among these distances:
41 25 0.12
42 4 0.02
43 15 0.07
44 157 0.76
45 4 0.02
46 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACCAAT
Found at i:14716233 original size:24 final size:24
Alignment explanation
Indices: 14716205--14716256 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
14716195 GGCATGCATG
14716205 TACA-TAATGATGTTAGGGAC-TAGA
1 TACATTAAT-ATGTTAGGGACGTA-A
14716229 TACATTAATATGTTAGGGACGTAA
1 TACATTAATATGTTAGGGACGTAA
14716253 TACA
1 TACA
14716257 ATAGTACACA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (24 bp):
TACATTAATATGTTAGGGACGTAA
Found at i:14716260 original size:140 final size:141
Alignment explanation
Indices: 14715948--14716289 Score: 363
Period size: 140 Copynumber: 2.4 Consensus size: 141
14715938 GACATGCATT
* * * * * * * *
14715948 TACATTGTGATATTAGGGATATAGTATAATAATACACATATCATAAGAAGTAATGCATGTAATTT
1 TACATTATGATGTTAGGGACATAATACAATAGTACACATATAATAAGAAGGAATGCATGTAATTT
* * * * * * * *
14716013 GAGTTGATAGGGGCTATATACATAAGCCACTTATCATAATAAGGTATGGATGTACATATTGATGT
66 CAGTTGATAGGGACTAGATACATAAGCCACTAAGCATAATAAGGCATGCATGTACATAATGATGT
14716078 CAGGGACTATG
131 CAGGGACTATG
* * * *
14716089 TACATTGTGATGTTGGGGACATAGTATAATAGTACACATATAATAAGAAGGAATGCATGTAATTT
1 TACATTATGATGTTAGGGACATAATACAATAGTACACATATAATAAGAAGGAATGCATGTAATTT
* *
14716154 CAGTT-ATTAGGGACTAGATACATCA-TCA-TAAGGCATAATAAGGCATGCATGTACATAATGAT
66 CAGTTGA-TAGGGACTAGATACATAAGCCACTAA-GCATAATAAGGCATGCATGTACATAATGAT
*
14716216 GTTAGGGACTA-G
129 GTCAGGGACTATG
* * *
14716228 ATACATTAAT-ATGTTAGGGACGTAATACAATAGTACACATATTAT-AGTAAGGCATGCATGTA
1 -TACATT-ATGATGTTAGGGACATAATACAATAGTACACATATAATAAG-AAGGAATGCATGTA
14716290 CATTGTGATG
Statistics
Matches: 172, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
139 5 0.03
140 88 0.51
141 79 0.46
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.31
Consensus pattern (141 bp):
TACATTATGATGTTAGGGACATAATACAATAGTACACATATAATAAGAAGGAATGCATGTAATTT
CAGTTGATAGGGACTAGATACATAAGCCACTAAGCATAATAAGGCATGCATGTACATAATGATGT
CAGGGACTATG
Found at i:14716451 original size:141 final size:141
Alignment explanation
Indices: 14716285--14716594 Score: 390
Period size: 141 Copynumber: 2.2 Consensus size: 141
14716275 TAAGGCATGC
* * * * *
14716285 ATGTACATTGTGATGTCAGGGACATATTATAATGGTACACATATCATAA-AAGGGAATGCATATA
1 ATGTACATTGTGATGTTAGGGACATAGTATAATAGTACACATACCATAAGAA-GGAATGCATACA
* * *
14716349 ATTTGAGTTAGTAGGGACTATGTAC-GTAGGTCACATATCATAATAAGGCATGCATGCACATTTT
65 ATTTGAGTTAGTAGGAACTATGTACAG-AAGTCACATATCATAATAAGGCATGCATGCACATGTT
*
14716413 GATGTTAGAGATT
129 GATGTTAGAGACT
* * *
14716426 ATGTACATTGTGATGTTAGGGACATAGTATAATAGTATACATACCATAAGAAGGAATGCGTGCAA
1 ATGTACATTGTGATGTTAGGGACATAGTATAATAGTACACATACCATAAGAAGGAATGCATACAA
** * * * *
14716491 TTTGAGTTAGTTTGAACTATGTACAGAAGTCGCATATCATGATAAGGCGTGCATGTACATGTTGA
66 TTTGAGTTAGTAGGAACTATGTACAGAAGTCACATATCATAATAAGGCATGCATGCACATGTTGA
*
14716556 TGTTAGGGACT
131 TGTTAGAGACT
* * *
14716567 ATGTACATTATGATCTTAGGAACATAGT
1 ATGTACATTGTGATGTTAGGGACATAGT
14716595 TGTTAGGCTC
Statistics
Matches: 145, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
141 142 0.98
142 3 0.02
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (141 bp):
ATGTACATTGTGATGTTAGGGACATAGTATAATAGTACACATACCATAAGAAGGAATGCATACAA
TTTGAGTTAGTAGGAACTATGTACAGAAGTCACATATCATAATAAGGCATGCATGCACATGTTGA
TGTTAGAGACT
Found at i:14720629 original size:22 final size:23
Alignment explanation
Indices: 14720600--14720647 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
14720590 GTTTTGAATC
14720600 TTTATTGTTTTT-A-TTCCTTTT
1 TTTATTGTTTTTCATTTCCTTTT
*
14720621 TTTAGTTGTTTTTCATTTTCTTTT
1 TTTA-TTGTTTTTCATTTCCTTTT
14720645 TTT
1 TTT
14720648 TTTCTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 8 0.35
23 1 0.04
24 10 0.43
ACGTcount: A:0.08, C:0.08, G:0.06, T:0.77
Consensus pattern (23 bp):
TTTATTGTTTTTCATTTCCTTTT
Found at i:14724873 original size:17 final size:17
Alignment explanation
Indices: 14724826--14724873 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
14724816 CCTATTCTTA
**
14724826 AAAAATAAAAATTGTCC
1 AAAAATAAAAATAATCC
* **
14724843 AAAATTAATTATAATCC
1 AAAAATAAAAATAATCC
14724860 AAAAATAAAAATAA
1 AAAAATAAAAATAA
14724874 AAAGTTCAGT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAAATAAAAATAATCC
Found at i:14726898 original size:17 final size:18
Alignment explanation
Indices: 14726864--14726902 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14726854 ACTCAATGCG
*
14726864 GAAAAATAATACTTACAA
1 GAAAAATAATACTGACAA
*
14726882 GAAAAATACTA-TGACAA
1 GAAAAATAATACTGACAA
14726899 GAAA
1 GAAA
14726903 TATGAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (18 bp):
GAAAAATAATACTGACAA
Found at i:14729590 original size:18 final size:18
Alignment explanation
Indices: 14729546--14729593 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
14729536 CGCAATAAAA
14729546 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAATTGAAT
** *
14729564 AGCGATTTGTAAA-TGAAT
1 AATGTTTTG-AAATTGAAT
14729582 AATGTTTTGAAA
1 AATGTTTTGAAA
14729594 ACGAACGACA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (18 bp):
AATGTTTTGAAATTGAAT
Found at i:14729953 original size:25 final size:25
Alignment explanation
Indices: 14729925--14729978 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
14729915 ACTGTCTTTC
* **
14729925 ATAGTATATCCTGAAACTGTTATAG
1 ATAGTATATACTGAAACTACTATAG
*
14729950 ATAGTATATACTGAGACTACTATAG
1 ATAGTATATACTGAAACTACTATAG
14729975 ATAG
1 ATAG
14729979 ACTATGCAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (25 bp):
ATAGTATATACTGAAACTACTATAG
Found at i:14741270 original size:12 final size:12
Alignment explanation
Indices: 14741253--14741278 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14741243 TTGCAAATGA
14741253 TTCATTTCCATT
1 TTCATTTCCATT
14741265 TTCATTTCCATT
1 TTCATTTCCATT
14741277 TT
1 TT
14741279 TAGAAACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (12 bp):
TTCATTTCCATT
Found at i:14744540 original size:45 final size:45
Alignment explanation
Indices: 14744484--14744569 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
14744474 TACTATGTGA
* *
14744484 ACCGAACATCATTGATTAGTAAGGTGGTTTCTATGTGTTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGTTGATTCC
*
14744529 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGTTGA
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGTTGA
14744570 CTAAATGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGTTGATTCC
Found at i:14746444 original size:17 final size:17
Alignment explanation
Indices: 14746422--14746502 Score: 135
Period size: 17 Copynumber: 4.8 Consensus size: 17
14746412 AACCAATGAA
14746422 GGTTATTTTTGTAATTT
1 GGTTATTTTTGTAATTT
14746439 GGTTATTTTTGTAATTT
1 GGTTATTTTTGTAATTT
**
14746456 GGTTATTTTTGTAATGA
1 GGTTATTTTTGTAATTT
14746473 GGTTATTTTTGTAATTT
1 GGTTATTTTTGTAATTT
*
14746490 GGTTATTTATGTA
1 GGTTATTTTTGTA
14746503 CACGATTTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 59 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (17 bp):
GGTTATTTTTGTAATTT
Found at i:14747821 original size:9 final size:9
Alignment explanation
Indices: 14747809--14747936 Score: 62
Period size: 10 Copynumber: 13.7 Consensus size: 9
14747799 TTTTATATTT
*
14747809 TTTTTTGAA
1 TTTTTTAAA
14747818 TTTTTTAAAA
1 TTTTTT-AAA
*
14747828 TTTTTAAAA
1 TTTTTTAAA
14747837 TTTTTTATAA
1 TTTTTTA-AA
14747847 TTTATTTAAA
1 TTT-TTTAAA
** *
14747857 -AATATAAA
1 TTTTTTAAA
**
14747865 -TTTAGAAA
1 TTTTTTAAA
14747873 TTTTTATAAA
1 TTTTT-TAAA
* *
14747883 TATTTTGAA
1 TTTTTTAAA
**
14747892 TTTTAAAAA
1 TTTTTTAAA
*
14747901 TTATTTTGAA
1 TT-TTTTAAA
*
14747911 TTTTTGAAAA
1 TTTTT-TAAA
14747921 TTATTTTAAA
1 TT-TTTTAAA
14747931 TTTTTT
1 TTTTTT
14747937 TTTTGTAATT
Statistics
Matches: 88, Mismatches: 23, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
8 10 0.11
9 35 0.40
10 36 0.41
11 7 0.08
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:14747831 original size:19 final size:19
Alignment explanation
Indices: 14747809--14747936 Score: 68
Period size: 19 Copynumber: 6.8 Consensus size: 19
14747799 TTTTATATTT
14747809 TTTTTTGAATTTTTTAAAA
1 TTTTTTGAATTTTTTAAAA
** *
14747828 TTTTTAAAATTTTTTATAA
1 TTTTTTGAATTTTTTAAAA
*** *
14747847 TTTATTT-AAAAATAT-AAA
1 TTT-TTTGAATTTTTTAAAA
* *
14747865 --TTTAGAAATTTTTATAAA
1 TTTTTTGAATTTTTTA-AAA
* *
14747883 TATTTTGAA-TTTTAAAAA
1 TTTTTTGAATTTTTTAAAA
*
14747901 TTATTTTGAATTTTTGAAAA
1 TT-TTTTGAATTTTTTAAAA
*
14747921 TTATTTTAAATTTTTT
1 TT-TTTTGAATTTTTT
14747937 TTTTGTAATT
Statistics
Matches: 82, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
15 2 0.02
16 6 0.07
18 9 0.11
19 35 0.43
20 30 0.37
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
TTTTTTGAATTTTTTAAAA
Found at i:14749315 original size:36 final size:36
Alignment explanation
Indices: 14749274--14749346 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
14749264 TTTCTTGAAA
14749274 GTAAATTAGAAATTCTTTTAATTAATAAGGCTAAAG
1 GTAAATTAGAAATTCTTTTAATTAATAAGGCTAAAG
*
14749310 GTAAATTAGAAATTCTTTTAATTAATAAGGCTTAAG
1 GTAAATTAGAAATTCTTTTAATTAATAAGGCTAAAG
14749346 G
1 G
14749347 GAAAAAATCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.37
Consensus pattern (36 bp):
GTAAATTAGAAATTCTTTTAATTAATAAGGCTAAAG
Found at i:14749439 original size:11 final size:10
Alignment explanation
Indices: 14749396--14749460 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
14749386 AAGAAATTTT
14749396 AAATTTTTAA
1 AAATTTTTAA
* * *
14749406 AAAATATTAT
1 AAATTTTTAA
*
14749416 AAATTTATAA
1 AAATTTTTAA
14749426 AAATTATTTAA
1 AAATT-TTTAA
*
14749437 AAATTTATAAA
1 AAATTT-TTAA
*
14749448 AAATTATTAA
1 AAATTTTTAA
14749458 AAA
1 AAA
14749461 ATAATAATAC
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
10 25 0.60
11 17 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTTTTAA
Found at i:14749440 original size:21 final size:21
Alignment explanation
Indices: 14749396--14749462 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 21
14749386 AAGAAATTTT
* * *
14749396 AAATTTTTAAAAAATA-TTAT
1 AAATTTATAAAAATTATTTAA
14749416 AAATTTATAAAAATTATTTAA
1 AAATTTATAAAAATTATTTAA
*
14749437 AAATTTATAAAAAATTATTAAA
1 AAATTTAT-AAAAATTATTTAA
14749459 AAAT
1 AAAT
14749463 AATAATACCA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.34
21 11 0.27
22 16 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTTATAAAAATTATTTAA
Found at i:14749461 original size:11 final size:11
Alignment explanation
Indices: 14749396--14749462 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 11
14749386 AAGAAATTTT
*
14749396 AAATTTTTAAA
1 AAATTATTAAA
*
14749407 AAA-TATTATA
1 AAATTATTAAA
*
14749417 AATTTA-T-AA
1 AAATTATTAAA
*
14749426 AAATTATTTAA
1 AAATTATTAAA
14749437 AAATT-TATAAA
1 AAATTAT-TAAA
14749448 AAATTATTAAA
1 AAATTATTAAA
14749459 AAAT
1 AAAT
14749463 AATAATACCA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
9 6 0.13
10 10 0.22
11 28 0.62
12 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAATTATTAAA
Found at i:14749467 original size:21 final size:21
Alignment explanation
Indices: 14749396--14749460 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
14749386 AAGAAATTTT
* *
14749396 AAATTTTTAAAAAA-TATTAT
1 AAATTTATAAAAAATTATTAA
14749416 AAATTTAT-AAAAATTATTTAA
1 AAATTTATAAAAAATTA-TTAA
14749437 AAATTTATAAAAAATTATTAA
1 AAATTTATAAAAAATTATTAA
14749458 AAA
1 AAA
14749461 ATAATAATAC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
19 5 0.12
20 9 0.22
21 18 0.45
22 8 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTTATAAAAAATTATTAA
Found at i:14751535 original size:44 final size:44
Alignment explanation
Indices: 14751478--14751567 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 44
14751468 GTTGAAATAA
*
14751478 AATAGAATTTGTGATAATTATACATTTAAAAA-TATTTAAAATTT
1 AATAGAATTTGTGATAATTACACATTTAAAAATTA-TTAAAATTT
* *
14751522 AATAGAATTTGTGATAATTACACTTTTAAAAATTATTAGAATTT
1 AATAGAATTTGTGATAATTACACATTTAAAAATTATTAAAATTT
14751566 AA
1 AA
14751568 ATTACAATCA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
44 40 0.95
45 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (44 bp):
AATAGAATTTGTGATAATTACACATTTAAAAATTATTAAAATTT
Found at i:14752629 original size:11 final size:10
Alignment explanation
Indices: 14752597--14752634 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
14752587 ATTCTTTGAT
14752597 AATCTTGCCA
1 AATCTTGCCA
14752607 AATCCTTG-CA
1 AAT-CTTGCCA
14752617 AATCTTGCCCA
1 AATCTTG-CCA
14752628 AATCTTG
1 AATCTTG
14752635 ATACCAATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.16
10 8 0.32
11 13 0.52
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (10 bp):
AATCTTGCCA
Found at i:14754014 original size:5 final size:6
Alignment explanation
Indices: 14753987--14754012 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
14753977 GGCTATGGAG
14753987 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
14754013 TATTATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:14757217 original size:81 final size:81
Alignment explanation
Indices: 14757119--14757281 Score: 202
Period size: 81 Copynumber: 2.0 Consensus size: 81
14757109 TTGCGTTACG
* * ** * * *
14757119 ACCTTAAAATTCAGGTTGCTCCACA-CTAGAAAAGGGTGTTTAAGATCTTCGTGGATAAAACCAA
1 ACCTCAAAATTCAGGTTGCTCCACACCTAG-AAAGGGTGTTTAAGACCTTAATAGAGAAAACAAA
**
14757183 GATTGTGGAGGAAATCA
65 GATTGCAGAGGAAATCA
* * *
14757200 ACCTCAAAATTCAGGTTGCTTCATACCTAGAAAGGGTGTTTGAGACCTTAATAGAGAAAACAAAG
1 ACCTCAAAATTCAGGTTGCTCCACACCTAGAAAGGGTGTTTAAGACCTTAATAGAGAAAACAAAG
14757265 ATTGCAGAGGAAATCA
66 ATTGCAGAGGAAATCA
14757281 A
1 A
14757282 AAGCTTAGAA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
81 65 0.94
82 4 0.06
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (81 bp):
ACCTCAAAATTCAGGTTGCTCCACACCTAGAAAGGGTGTTTAAGACCTTAATAGAGAAAACAAAG
ATTGCAGAGGAAATCA
Found at i:14761069 original size:36 final size:37
Alignment explanation
Indices: 14761022--14761094 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
14761012 TTTAAATAGC
*
14761022 GGTGAAGTCGGAA-AAGGAAGTCCGATGACCTTTTTT
1 GGTGAAGTCGGAAGAAGGAAGCCCGATGACCTTTTTT
*
14761058 GGTGAAGTCGGAAGTAGGAAGCCCGATGACCTTTTTT
1 GGTGAAGTCGGAAGAAGGAAGCCCGATGACCTTTTTT
14761095 AAATGACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 13 0.38
37 21 0.62
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (37 bp):
GGTGAAGTCGGAAGAAGGAAGCCCGATGACCTTTTTT
Found at i:14762126 original size:28 final size:28
Alignment explanation
Indices: 14762093--14762164 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
14762083 ATGTTTTCAT
14762093 TTTGGTCACTTAACTAAAAAAGTTATAA
1 TTTGGTCACTTAACTAAAAAAGTTATAA
*
14762121 TTTGGTCACTTAACTAAAAAATTTATAA
1 TTTGGTCACTTAACTAAAAAAGTTATAA
*
14762149 TTTGGTCACTGAACTA
1 TTTGGTCACTTAACTA
14762165 TTCAAAAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (28 bp):
TTTGGTCACTTAACTAAAAAAGTTATAA
Found at i:14762535 original size:31 final size:31
Alignment explanation
Indices: 14762498--14762556 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
14762488 TTAACAACCT
* *
14762498 AGTGACTTGAATAAAAACTTTTTAATAGTTC
1 AGTGACTTAAATAAAAACTTTTGAATAGTTC
*
14762529 AGTGACTTAAATGAAAACTTTTGAATAG
1 AGTGACTTAAATAAAAACTTTTGAATAG
14762557 GCCAATGACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTGAATAGTTC
Found at i:14766066 original size:22 final size:22
Alignment explanation
Indices: 14766023--14766067 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
14766013 TGTTTGTTTT
* *
14766023 ATTATTAAAGGTTATAATTAAA
1 ATTATAAAAGGTTATAAATAAA
14766045 ATTATAAAAGG-TATAAAATAAA
1 ATTATAAAAGGTTAT-AAATAAA
14766067 A
1 A
14766068 CACATGTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (22 bp):
ATTATAAAAGGTTATAAATAAA
Found at i:14775221 original size:12 final size:12
Alignment explanation
Indices: 14775204--14775245 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
14775194 AAATTGATGA
14775204 AATGAATTAATG
1 AATGAATTAATG
*
14775216 AATGAATTAATAA
1 AATGAATTAAT-G
*
14775229 AATCAATT-ATG
1 AATGAATTAATG
14775240 AATGAA
1 AATGAA
14775246 AAACTGCTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
11 5 0.20
12 13 0.52
13 7 0.28
ACGTcount: A:0.55, C:0.02, G:0.12, T:0.31
Consensus pattern (12 bp):
AATGAATTAATG
Found at i:14776695 original size:13 final size:13
Alignment explanation
Indices: 14776677--14776703 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14776667 TTAATTTATA
14776677 TGTGTGAAAATTT
1 TGTGTGAAAATTT
14776690 TGTGTGAAAATTT
1 TGTGTGAAAATTT
14776703 T
1 T
14776704 ATCGTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:14777948 original size:43 final size:41
Alignment explanation
Indices: 14777791--14777949 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 41
14777781 TATGTGATAT
* * *
14777791 CGTGTAAGACCACGTTTGGGACGTTGGCATCAATTTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACTTTGGCATCTATTT--GA-TTA
* * * * *
14777835 CGTGTAAGACTATGTCTGGGACATTGGCATCATATATGATTT
1 CGTGTAAGACCACGTCTGGGACTTTGGCATC-TATTTGATTA
* * *
14777877 CGCGTAAGACC-CTGTCTGAGA-TAGTGGCATCGTTATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACT-TTGGCATC--TATTTGATTA
*
14777920 CATGTAAGACCACGTCTGGGACTTTGGCAT
1 CGTGTAAGACCACGTCTGGGACTTTGGCAT
14777950 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 20, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
42 25 0.28
43 32 0.36
44 29 0.33
45 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (41 bp):
CGTGTAAGACCACGTCTGGGACTTTGGCATCTATTTGATTA
Found at i:14784695 original size:16 final size:16
Alignment explanation
Indices: 14784674--14784704 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14784664 CGCAAAGGAC
14784674 AATAGATTGTTGGAAA
1 AATAGATTGTTGGAAA
*
14784690 AATAGATTTTTGGAA
1 AATAGATTGTTGGAA
14784705 GCTTTCAGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
AATAGATTGTTGGAAA
Found at i:14788410 original size:24 final size:24
Alignment explanation
Indices: 14788369--14788416 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14788359 GACACACCAC
* *
14788369 AGCTCGCAAGAGCGTCCCATTATT
1 AGCTCGCAAGAGCATCCCAGTATT
* *
14788393 AGCTCTCAAGAGTATCCCAGTATT
1 AGCTCGCAAGAGCATCCCAGTATT
14788417 GGATCTCTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (24 bp):
AGCTCGCAAGAGCATCCCAGTATT
Found at i:14788448 original size:25 final size:25
Alignment explanation
Indices: 14788420--14788596 Score: 121
Period size: 25 Copynumber: 7.1 Consensus size: 25
14788410 CAGTATTGGA
* *
14788420 TCTCTTGAGCTTCCTGATATATGGC
1 TCTCATGAGCTTCCCGATATATGGC
*
14788445 TCTC-TAGAGCTTCCCGAT-TAAAGGTTC
1 TCTCAT-GAGCTTCCCGATAT-ATGG--C
* *
14788472 TTTCATGAGCTTCCTGAT-TAATGGC
1 TCTCATGAGCTTCCCGATAT-ATGGC
** *
14788497 TCTCCGGAGCTACCCGATAT-TGGC
1 TCTCATGAGCTTCCCGATATATGGC
* * * *
14788521 TCGCATGAACTTCCTGAT-TATGCC
1 TCTCATGAGCTTCCCGATATATGGC
* * *
14788545 TCTTATGAGCTTCCCGTTACATGGC
1 TCTCATGAGCTTCCCGATATATGGC
* *
14788570 TCACATGAGCTTCCCGTTATATGGC
1 TCTCATGAGCTTCCCGATATATGGC
14788595 TC
1 TC
14788597 GAAAGAGTTT
Statistics
Matches: 117, Mismatches: 27, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
23 1 0.01
24 34 0.29
25 60 0.51
26 1 0.01
27 20 0.17
28 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (25 bp):
TCTCATGAGCTTCCCGATATATGGC
Found at i:14788608 original size:25 final size:26
Alignment explanation
Indices: 14788551--14788622 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 26
14788541 TGCCTCTTAT
* *
14788551 GAGCTTCCCGTTACATGGCTC-ACAT
1 GAGCTTCCCGTTATATGGCTCGACAA
14788576 GAGCTTCCCGTTATATGGCTCGA-AA
1 GAGCTTCCCGTTATATGGCTCGACAA
* *
14788601 GAGTTTCCCATT-TATGTGCTCG
1 GAGCTTCCCGTTATATG-GCTCG
14788623 TATGAGCATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.10
25 36 0.88
26 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.32
Consensus pattern (26 bp):
GAGCTTCCCGTTATATGGCTCGACAA
Found at i:14795475 original size:30 final size:30
Alignment explanation
Indices: 14795440--14795501 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
14795430 CTTAACAATT
14795440 AAATGCCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
*
14795470 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
14795500 AA
1 AA
14795502 TAAATAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:14809031 original size:3 final size:3
Alignment explanation
Indices: 14809023--14809060 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
14809013 AAATTAGTTA
14809023 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14809061 GAAAAAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14814336 original size:2 final size:2
Alignment explanation
Indices: 14814287--14814316 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14814277 ATGTATAGTG
14814287 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14814317 AGGTTCGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14818565 original size:23 final size:23
Alignment explanation
Indices: 14818515--14818558 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
14818505 TTTTTGCGCT
*
14818515 TTTTTACTTCTTCTTTTTTGCAG
1 TTTTTACTTCTTCTTTTTTACAG
*
14818538 TTTTTGCTTCTTCTTTTTTAC
1 TTTTTACTTCTTCTTTTTTAC
14818559 TATTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.07, C:0.18, G:0.07, T:0.68
Consensus pattern (23 bp):
TTTTTACTTCTTCTTTTTTACAG
Found at i:14819632 original size:13 final size:13
Alignment explanation
Indices: 14819611--14819686 Score: 100
Period size: 13 Copynumber: 5.8 Consensus size: 13
14819601 AGTTTGTCAA
14819611 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
14819624 TGTTTTTGAAAAG
1 TGCTTTTGAAAAG
*
14819637 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
*
14819650 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
14819663 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
14819676 TGCTTTTGAAA
1 TGCTTTTGAAA
14819687 TGTTTATAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
12 2 0.04
13 52 0.93
14 2 0.04
ACGTcount: A:0.28, C:0.05, G:0.28, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:14820003 original size:6 final size:7
Alignment explanation
Indices: 14819969--14820001 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
14819959 ATAAATATAT
14819969 ATTTTTA
1 ATTTTTA
14819976 ATTTTTA
1 ATTTTTA
14819983 ATTTTTA
1 ATTTTTA
14819990 ATTTTTA
1 ATTTTTA
14819997 ATTTT
1 ATTTT
14820002 AAAATACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTTA
Found at i:14823920 original size:13 final size:13
Alignment explanation
Indices: 14823902--14823938 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
14823892 CTTGCAAATC
14823902 TCAAACTTCAAGA
1 TCAAACTTCAAGA
14823915 TCAAACTTCAAGA
1 TCAAACTTCAAGA
14823928 T-AATACTTCAA
1 TCAA-ACTTCAA
14823939 TTTAGAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 2 0.09
13 21 0.91
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (13 bp):
TCAAACTTCAAGA
Found at i:14824426 original size:5 final size:6
Alignment explanation
Indices: 14824409--14824433 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14824399 AGAAACAATC
14824409 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
14824434 CATATTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:14824691 original size:12 final size:11
Alignment explanation
Indices: 14824664--14824735 Score: 56
Period size: 12 Copynumber: 6.0 Consensus size: 11
14824654 AAGAAAACAG
*
14824664 ATAAAAATAATT
1 ATAAAAATAA-A
14824676 ATAACAAATAAA
1 ATAA-AAATAAA
14824688 ATAACAAATAATA
1 ATAA-AAATAA-A
14824701 ATGAAAAA-AATA
1 AT-AAAAATAA-A
14824713 AGTAAAAATAAA
1 A-TAAAAATAAA
*
14824725 ATCAAAATAAA
1 ATAAAAATAAA
14824736 GCAAAATAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
11 9 0.17
12 27 0.51
13 15 0.28
14 2 0.04
ACGTcount: A:0.72, C:0.04, G:0.03, T:0.21
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:14829007 original size:21 final size:21
Alignment explanation
Indices: 14828981--14829021 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14828971 TGCCTAAAAT
*
14828981 ATGAATTGGATTGAATTGAAC
1 ATGAATTGGATTAAATTGAAC
*
14829002 ATGAATTGTATTAAATTGAA
1 ATGAATTGGATTAAATTGAA
14829022 TTAAATTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.37
Consensus pattern (21 bp):
ATGAATTGGATTAAATTGAAC
Found at i:14830271 original size:51 final size:51
Alignment explanation
Indices: 14830142--14830332 Score: 201
Period size: 51 Copynumber: 3.8 Consensus size: 51
14830132 AGTGAAAGTG
* * * *
14830142 ATGGTCACTTATGTAGTACTATGTGCAGGCTACTATGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGATAGTA
* * *
14830191 ATAGGTCGCATGTGTAGTCCTATGTGCAGGCTACTATGCGTACTGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGATAGTA
* * * * * *
14830242 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-TCGAATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACT-GGATAGTA
*
14830294 ATGGTCACATGTGTAGTACTATGTGCAAGCTACTATGTG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
14830333 AACCGAACAT
Statistics
Matches: 116, Mismatches: 21, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 73 0.63
52 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGATAGTA
Found at i:14830332 original size:26 final size:26
Alignment explanation
Indices: 14830252--14830332 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
14830242 TTCGATCACG
*
14830252 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAAGCTACTA
* * * *
14830278 CGTGTA-T-CGAATG-GTAATGGTCAC-A
1 TGTGTAGTAC-TATGTGCAA-GCT-ACTA
14830303 TGTGTAGTACTATGTGCAAGCTACTA
1 TGTGTAGTACTATGTGCAAGCTACTA
14830329 TGTG
1 TGTG
14830333 AACCGAACAT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
24 3 0.08
25 14 0.36
26 18 0.46
27 4 0.10
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAAGCTACTA
Found at i:14830390 original size:45 final size:45
Alignment explanation
Indices: 14830334--14830428 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
14830324 TACTATGTGA
* * * *
14830334 ACCGAACATCATTGATTAGTAAAGTTGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGATGAATCC
* *
14830379 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGATGAATCC
14830424 ACCGA
1 ACCGA
14830429 GTATCTGTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAAGTGGTTGCTATGTGATGAATCC
Found at i:14832636 original size:24 final size:23
Alignment explanation
Indices: 14832566--14832648 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 23
14832556 CAGCTTGAAA
* * *
14832566 GAGCATCCCGTTATTAGCCCTATC
1 GAGCTTCCCGTTAATAGCTCT-TC
* * *
14832590 GAGCTTTCCGTTATATGGTTCTTGC
1 GAGCTTCCCGTTA-ATAGCTCTT-C
14832615 GAGCTTCCCGTTAATAGCTCTTC
1 GAGCTTCCCGTTAATAGCTCTTC
*
14832638 GGAGCATCCCG
1 -GAGCTTCCCG
14832649 ATCGGTTGTG
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
23 1 0.02
24 28 0.61
25 17 0.37
ACGTcount: A:0.17, C:0.29, G:0.22, T:0.33
Consensus pattern (23 bp):
GAGCTTCCCGTTAATAGCTCTTC
Found at i:14832817 original size:24 final size:24
Alignment explanation
Indices: 14832783--14832850 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
14832773 TTTCTGATAT
*
14832783 ATGGCTATTCATAGCTTCCCGTTA
1 ATGGCTCTTCATAGCTTCCCGTTA
*
14832807 ATGGCTCTTCAGAG-TTACCCGTTA
1 ATGGCTCTTCATAGCTT-CCCGTTA
* *
14832831 TTGGCTC-GCATGAGCTTCCC
1 ATGGCTCTTCAT-AGCTTCCC
14832851 ATTATAAAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
23 4 0.11
24 30 0.83
25 2 0.06
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.34
Consensus pattern (24 bp):
ATGGCTCTTCATAGCTTCCCGTTA
Found at i:14840065 original size:21 final size:21
Alignment explanation
Indices: 14840024--14840068 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14840014 TTTTGCCTAA
**
14840024 AATATGAATTGGATTGGATTG
1 AATATGAATTGGATTAAATTG
*
14840045 AATATGAATTGTATTAAATTG
1 AATATGAATTGGATTAAATTG
14840066 AAT
1 AAT
14840069 TAAACTTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (21 bp):
AATATGAATTGGATTAAATTG
Found at i:14842460 original size:5 final size:5
Alignment explanation
Indices: 14842452--14842479 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
14842442 AATTAAACTA
14842452 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
14842480 TGGTTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:14846859 original size:18 final size:18
Alignment explanation
Indices: 14846806--14846859 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
14846796 ATTCACCTAA
* *
14846806 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAATT
*
14846825 ATCCAACCCAACCCAATT
1 ACCCAACCCAACCCAATT
14846843 ACCCAACCCAACCCAAT
1 ACCCAACCCAACCCAAT
14846860 CATAAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.41, C:0.46, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAATT
Found at i:14847832 original size:57 final size:57
Alignment explanation
Indices: 14847665--14847913 Score: 281
Period size: 57 Copynumber: 4.4 Consensus size: 57
14847655 TTTCTGTTTG
* * *
14847665 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTGAGTGTTTCAAATTGAGCATTTG
1 CATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * *
14847722 CATACTGTCTTAAATTGAA-TCAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * *
14847778 CATGTTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * * * * *
14847835 CATGCGGTCTTAAATTAAATT-AAGCTGCT-ATTTAATTTTTCAAATTGAGTATTATT
1 CATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATT-TT
* * *
14847891 -ACGCTGTCCTAAATTAAATTAAA
1 CATGCTGTCATAAATTGAATTAAA
14847914 TTGTTGCTTC
Statistics
Matches: 162, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
55 36 0.22
56 59 0.36
57 67 0.41
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (57 bp):
CATGCTGTCATAAATTGAATTAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
Found at i:14848842 original size:9 final size:9
Alignment explanation
Indices: 14848829--14848887 Score: 91
Period size: 9 Copynumber: 6.6 Consensus size: 9
14848819 TTTTGAGAAG
*
14848829 TAATTCGGG
1 TAATTCGGT
14848838 TAATTCGGT
1 TAATTCGGT
*
14848847 TAATTCGGG
1 TAATTCGGT
14848856 TAATTCGGT
1 TAATTCGGT
*
14848865 TAATTCAGT
1 TAATTCGGT
14848874 TAATTCGGT
1 TAATTCGGT
14848883 TAATT
1 TAATT
14848888 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.42
Consensus pattern (9 bp):
TAATTCGGT
Found at i:14849911 original size:22 final size:22
Alignment explanation
Indices: 14849832--14849903 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
14849822 CTTTTTACAA
* **
14849832 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
14849854 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
14849876 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
14849898 CATGAG
1 CATGAG
14849904 GGTTTAGTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:14851811 original size:15 final size:16
Alignment explanation
Indices: 14851791--14851823 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
14851781 AGGCTCTTAG
14851791 TAAACAAATA-AAAAA
1 TAAACAAATAGAAAAA
14851806 TAAACAAATAGAAAAA
1 TAAACAAATAGAAAAA
14851822 TA
1 TA
14851824 GGGTCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (16 bp):
TAAACAAATAGAAAAA
Found at i:14853159 original size:20 final size:20
Alignment explanation
Indices: 14853136--14853191 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
14853126 TATATGTACA
*
14853136 TATATATATATTATACTTTC
1 TATATATATATTATAATTTC
* *
14853156 TATACATATTTTATAATTTC
1 TATATATATATTATAATTTC
14853176 TATATATATATATATA
1 TATATATATAT-TATA
14853192 TGCAATCATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 26 0.87
21 4 0.13
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (20 bp):
TATATATATATTATAATTTC
Found at i:14853270 original size:54 final size:53
Alignment explanation
Indices: 14853104--14853270 Score: 133
Period size: 54 Copynumber: 3.1 Consensus size: 53
14853094 TTATGATTTA
* * *
14853104 TATATTTATT-ACCTTATATATATATATGTACATATATATATATTATACTTTC
1 TATATTTATTAACTTTATATATATATATGTACGTATATAAATATTATACTTTC
* * * * * * * * *
14853156 TATACATATTTTATAATTTCTATATATATATATATATGCA-ATCATTATCTTTA-TGGTC
1 TAT--AT-TTAT-TAACTT-TATATATATATATGTACGTATATAAATAT-TATACT-TTC
14853214 TATATTTATTAACTTATATATATATATATGTACGTATATAAATATTATACTTTC
1 TATATTTATTAACTT-TATATATATATATGTACGTATATAAATATTATACTTTC
14853268 TAT
1 TAT
14853271 CCATATTTTT
Statistics
Matches: 83, Mismatches: 22, Indels: 18
0.67 0.18 0.15
Matches are distributed among these distances:
52 3 0.04
54 32 0.39
55 13 0.16
56 3 0.04
57 8 0.10
58 24 0.29
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.51
Consensus pattern (53 bp):
TATATTTATTAACTTTATATATATATATGTACGTATATAAATATTATACTTTC
Found at i:14853277 original size:58 final size:56
Alignment explanation
Indices: 14853105--14853278 Score: 164
Period size: 56 Copynumber: 3.1 Consensus size: 56
14853095 TATGATTTAT
* * *
14853105 ATATTTATT-ACCTTATATATATATATGTACATATATATATATTATACTTTCTATAC
1 ATATTTATTAACTTTATATATATATATGTAC-TATATAAATATTATACTTTCTATCC
* * * * *
14853161 ATATTT-TATAA-TTTCTATATATATA--TA-TATATGCAATCATTAT-CTTTATGGTCT
1 ATATTTAT-TAACTTTATATATATATATGTACTATAT-AAAT-ATTATACTTTCT-ATCC
14853215 ATATTTATTAACTTATATATATATATATGTACGTATATAAATATTATACTTTCTATCC
1 ATATTTATTAACTT-TATATATATATATGTAC-TATATAAATATTATACTTTCTATCC
14853273 ATATTT
1 ATATTT
14853279 TTTATAATTT
Statistics
Matches: 92, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
52 5 0.05
53 7 0.08
54 17 0.18
55 4 0.04
56 30 0.33
57 1 0.01
58 15 0.16
59 8 0.09
60 5 0.05
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (56 bp):
ATATTTATTAACTTTATATATATATATGTACTATATAAATATTATACTTTCTATCC
Found at i:14853294 original size:54 final size:54
Alignment explanation
Indices: 14853124--14853294 Score: 150
Period size: 54 Copynumber: 3.1 Consensus size: 54
14853114 ACCTTATATA
* *
14853124 TATATATGTACATATATATATATTATACTTTCTATACATA--TTTTATAATTTC
1 TATATATGTACATATATAAATATTATACTTTCTATCCATATTTTTTATAATTTC
* * * * * * * * *
14853176 TATATATATATATATATGCAATCATTAT-CTTTATGGTCTATATTTATTAACTTATATATA
1 TATATATGTACATATAT-AAAT-ATTATACTTTCT-ATCCATATTT-TTTA--TA-ATTTC
*
14853236 TATATATGTACGTATATAAATATTATACTTTCTATCCATATTTTTTATAATTTC
1 TATATATGTACATATATAAATATTATACTTTCTATCCATATTTTTTATAATTTC
14853290 TATAT
1 TATAT
14853295 GTATATTTTT
Statistics
Matches: 88, Mismatches: 21, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
52 15 0.17
53 7 0.08
54 17 0.19
55 2 0.02
56 1 0.01
57 6 0.07
58 13 0.15
59 10 0.11
60 17 0.19
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (54 bp):
TATATATGTACATATATAAATATTATACTTTCTATCCATATTTTTTATAATTTC
Found at i:14853294 original size:58 final size:57
Alignment explanation
Indices: 14853120--14853300 Score: 169
Period size: 58 Copynumber: 3.2 Consensus size: 57
14853110 TATTACCTTA
* *
14853120 TATATATATATGTACATATATATATATTATACTTTCTATACATA--TTTTATAATTTC
1 TATATATATATGTAC-TATATAAATATTATACTTTCTATCCATATTTTTTATAATTTC
* * * * * * *
14853176 TATATATATA--TA-TATATGCAATCATTAT-CTTTATGGTCTATATTTATTA-ACTTATA
1 TATATATATATGTACTATAT-AAAT-ATTATACTTTCT-ATCCATATTTTTTATAATT-TC
14853232 TATATATATATGTACGTATATAAATATTATACTTTCTATCCATATTTTTTATAATTTC
1 TATATATATATGTAC-TATATAAATATTATACTTTCTATCCATATTTTTTATAATTTC
*
14853290 TATATGTATAT
1 TATATATATAT
14853301 TTTTCTTTAT
Statistics
Matches: 96, Mismatches: 17, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
52 5 0.05
53 7 0.07
54 11 0.11
55 3 0.03
56 25 0.26
58 29 0.30
59 11 0.11
60 5 0.05
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (57 bp):
TATATATATATGTACTATATAAATATTATACTTTCTATCCATATTTTTTATAATTTC
Found at i:14859627 original size:22 final size:22
Alignment explanation
Indices: 14859589--14859651 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 22
14859579 TTGAGGCGAA
*
14859589 AAAAAAAGAAAAA--GAAAATG
1 AAAAAATGAAAAAGTGAAAATG
*
14859609 ACAAAATGAAAAAGTGAAAAAT-
1 AAAAAATGAAAAAGTG-AAAATG
*
14859631 AAAAAATGGAAAAGT-AAAATG
1 AAAAAATGAAAAAGTGAAAATG
14859652 GAGAGGCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
20 16 0.46
22 14 0.40
23 5 0.14
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.11
Consensus pattern (22 bp):
AAAAAATGAAAAAGTGAAAATG
Found at i:14859745 original size:25 final size:25
Alignment explanation
Indices: 14859711--14859763 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
14859701 AACCCGAAAA
*
14859711 GGGCGGCTCAAATATTGATCAGAAT
1 GGGCAGCTCAAATATTGATCAGAAT
* *
14859736 GGGCAGCTCAAATGTTGATTAGAAT
1 GGGCAGCTCAAATATTGATCAGAAT
14859761 GGG
1 GGG
14859764 GCATGCTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (25 bp):
GGGCAGCTCAAATATTGATCAGAAT
Found at i:14861006 original size:45 final size:45
Alignment explanation
Indices: 14860862--14860999 Score: 133
Period size: 45 Copynumber: 3.1 Consensus size: 45
14860852 ACAGATCAGT
* * *
14860862 GAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGCATTGACAGTGGAGCAGATC
* * * * *
14860907 GAA-A-A-CAAAGCCTTGCCTTCCT-CAGTTG-TAGTGGAGCAGGTT
1 GAAGATAGCAGA-TCTTGCCTTCCTGCA-TTGACAGTGGAGCAGATC
* *
14860949 AAAGATAGCAGATCTTGCCTTCCTGTATTGACAGTGGAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGCATTGACAGTGGAGCAGATC
14860994 GAAGAT
1 GAAGAT
14861000 GACAGATTTT
Statistics
Matches: 70, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
42 16 0.23
43 15 0.21
44 16 0.23
45 23 0.33
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGCCTTCCTGCATTGACAGTGGAGCAGATC
Found at i:14861216 original size:44 final size:43
Alignment explanation
Indices: 14861168--14861652 Score: 300
Period size: 44 Copynumber: 11.2 Consensus size: 43
14861158 AGTGAAGTAC
* *
14861168 ATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGG
1 ATTAAAGCC-ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * *
14861212 ATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAG
1 ATTAAAGCCATA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
*** * * *
14861255 ATCGCA-TC-TAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAG
1 ATTAAAGCCATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* ** *
14861296 ACTAAGTAAG-CA-GGTCTTATC-CTCCTGAAGTTGCAAT-GAGGCAG
1 A-TTA--AAGCCATAATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAG
* * *
14861340 ACTGAAGATGGCA-AATCTTATCTCCCTAAAGTTGCAGTGGAGCAG
1 A-TTAA-A-GCCATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* *
14861385 ATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGG
1 ATTAAAGCC-ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * * *
14861429 ATCAAAACCTTAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAG
1 ATTAAAGCCATA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
*** * *
14861472 ATCGCA-TC-TAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 ATTAAAGCCATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
** *
14861513 ACCAAATAAG-CA-AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAG
1 A--TTA-AAGCCATAATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAG
* * *
14861557 ACTGAAGATGGCA-AATTTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 A-TTAA-A-GCCATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * **
14861602 ATTAAAGCCGATAATCCTATCACCCTGAAGTTGCAGTGGAGTGG
1 ATTAAAGCC-ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
14861646 ATTAAAG
1 ATTAAAG
14861653 TACCAAATTC
Statistics
Matches: 351, Mismatches: 58, Indels: 64
0.74 0.12 0.14
Matches are distributed among these distances:
40 41 0.12
41 18 0.05
42 9 0.03
43 35 0.10
44 188 0.54
45 54 0.15
46 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (43 bp):
ATTAAAGCCATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
Found at i:14861257 original size:132 final size:131
Alignment explanation
Indices: 14860984--14861258 Score: 279
Period size: 132 Copynumber: 2.1 Consensus size: 131
14860974 TATTGACAGT
* * * *
14860984 GGAGCAGATCGAAGATGACAGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCTAATA
1 GGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGAAGTACATTAAAGCCAATA
* * * * * *
14861049 ATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTA
66 ATCCTACTTCCCTGAACAACAGTGGAACAGATTGAAAACTTCAGATCTTATCTCCCT-AGAAGTA
14861114 GC
130 GC
* * * *
14861116 GGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGAAGTACATTAAAGCCGATA
1 GGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGAAGTACATTAAAGCCAATA
*** * * *
14861181 ATCCTA-TCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAACCTT-AGATCTTATCTCTCT-GAAG
66 ATCCTACT-TCCCTGAA-CAACAGTGGAACAGATTGAAAA-CTTCAGATCTTATCTCCCTAGAAG
*
14861242 TTGC
128 TAGC
14861246 AGAGAGCAGATCG
1 -G-GAGCAGATCG
14861259 CATCTAGTCT
Statistics
Matches: 116, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
130 6 0.05
131 2 0.02
132 95 0.82
133 13 0.11
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (131 bp):
GGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGAAGTACATTAAAGCCAATA
ATCCTACTTCCCTGAACAACAGTGGAACAGATTGAAAACTTCAGATCTTATCTCCCTAGAAGTAG
C
Found at i:14861501 original size:217 final size:217
Alignment explanation
Indices: 14861168--14861647 Score: 870
Period size: 217 Copynumber: 2.2 Consensus size: 217
14861158 AGTGAAGTAC
*
14861168 ATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATC
1 ATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCTTAGATCTTATC
*
14861233 TCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAC
66 TCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * *
14861298 TAAGTAAGCAGGTCTTATCCTCCTGAAGTTGCAATGAGGCAGACTGAAGATGGCAAATCTTATCT
131 CAAATAAGCAAGTCTTATCCTCCTGAAGTTGCAATGAGGCAGACTGAAGATGGCAAATCTTATCT
14861363 CCCTAAAGTTGCAGTGGAGCAG
196 CCCTAAAGTTGCAGTGGAGCAG
14861385 ATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCTTAGATCTTATC
1 ATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCTTAGATCTTATC
14861450 TCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
66 TCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* *
14861515 CAAATAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATTTTATCT
131 CAAATAAGCAAGTCTTATCCTCCTGAAGTTGCAATGAGGCAGACTGAAGATGGCAAATCTTATCT
*
14861580 CCCTGAAGTTGCAGTGGAGCAG
196 CCCTAAAGTTGCAGTGGAGCAG
* *
14861602 ATTAAAGCCGATAATCCTATCACCCTGAAGTTGCAGTGGAGTGGAT
1 ATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGAT
14861648 TAAAGTACCA
Statistics
Matches: 253, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
217 253 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (217 bp):
ATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCTTAGATCTTATC
TCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
CAAATAAGCAAGTCTTATCCTCCTGAAGTTGCAATGAGGCAGACTGAAGATGGCAAATCTTATCT
CCCTAAAGTTGCAGTGGAGCAG
Found at i:14861531 original size:84 final size:87
Alignment explanation
Indices: 14861397--14861602 Score: 219
Period size: 84 Copynumber: 2.4 Consensus size: 87
14861387 TAAAGCCGAT
* * * *
14861397 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAACCTTAGATCTTAT-CTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCAAAACCTAAGATCTTATCCTC-CTGAAGTT
*
14861461 GCAGAGA-GCAGA-TCG-CAT-CT
65 GCAGAGAGGCAGACT-GACATGCA
* *
14861481 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCAAATAAGC-AAG-TCTTATCCTCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACC-AA-AACCTAAGATCTTATCCTCCTGAAGT
* *
14861544 TGCAGTGAGGCAGACTGAAGATGGCA
64 TGCAGAGAGGCAGACTG-ACAT-GCA
*
14861570 AATTTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
14861603 TTAAAGCCGA
Statistics
Matches: 102, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
84 51 0.50
85 13 0.13
86 4 0.04
87 2 0.02
89 32 0.31
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (87 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCAAAACCTAAGATCTTATCCTCCTGAAGTTG
CAGAGAGGCAGACTGACATGCA
Found at i:14861865 original size:15 final size:16
Alignment explanation
Indices: 14861845--14861877 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
14861835 AGGCTCTTAG
14861845 TAAACAAATA-AAAAA
1 TAAACAAATAGAAAAA
14861860 TAAACAAATAGAAAAA
1 TAAACAAATAGAAAAA
14861876 TA
1 TA
14861878 GGGTCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (16 bp):
TAAACAAATAGAAAAA
Found at i:14863166 original size:2 final size:2
Alignment explanation
Indices: 14863161--14863237 Score: 52
Period size: 2 Copynumber: 39.5 Consensus size: 2
14863151 TTTATTACCT
* * * *
14863161 TA TA TA TA TA TA TG TA GA TA TA TA TA TA TA TA T- TA TA CTT TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
14863203 TA TA CA TA T- TT TA TA -A TT TC TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14863238 GCAATCATTA
Statistics
Matches: 58, Mismatches: 13, Indels: 8
0.73 0.16 0.10
Matches are distributed among these distances:
1 3 0.05
2 54 0.93
3 1 0.02
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14863206 original size:20 final size:20
Alignment explanation
Indices: 14863183--14863233 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
14863173 TGTAGATATA
*
14863183 TATATATATATTATACTTTC
1 TATATATATATTATAATTTC
* *
14863203 TATACATATTTTATAATTTC
1 TATATATATATTATAATTTC
14863223 TATATATATAT
1 TATATATATAT
14863234 ATATGCAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATATATATTATAATTTC
Found at i:14863319 original size:22 final size:22
Alignment explanation
Indices: 14863294--14863335 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14863284 ATGTACGTAT
*
14863294 ATATATATTATACTTTCTATCC
1 ATATATATTATAATTTCTATCC
* *
14863316 ATATTTTTTATAATTTCTAT
1 ATATATATTATAATTTCTAT
14863336 ATGTATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATATATTATAATTTCTATCC
Found at i:14864714 original size:33 final size:33
Alignment explanation
Indices: 14864677--14864746 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
14864667 ATTTTTTTTT
*
14864677 GTTGGAAGAGTTATTGATAGCAAAACGTTTCTA
1 GTTGGAAGAGTTATTGATAGCAAAACGTTTCCA
14864710 GTTGGAAGAGTTATTGATAGCAAAACGTTTCCA
1 GTTGGAAGAGTTATTGATAGCAAAACGTTTCCA
14864743 GTTG
1 GTTG
14864747 AAAGCGCTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (33 bp):
GTTGGAAGAGTTATTGATAGCAAAACGTTTCCA
Found at i:14864950 original size:18 final size:19
Alignment explanation
Indices: 14864920--14864956 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14864910 AAAAACTTTA
*
14864920 AGTTTTTTATTTATTATTT
1 AGTTTTTTATTTATAATTT
14864939 AGTTTTTT-TTTATAATTT
1 AGTTTTTTATTTATAATTT
14864957 TTTGAGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
AGTTTTTTATTTATAATTT
Found at i:14865198 original size:22 final size:22
Alignment explanation
Indices: 14865170--14865218 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
14865160 CGATTAGATT
*
14865170 TTTCAGTGCATTATTCTTGAAC
1 TTTCAGTGCATTATTCTCGAAC
14865192 TTTCAGTGCATTATTCTCGAAC
1 TTTCAGTGCATTATTCTCGAAC
14865214 TTTCA
1 TTTCA
14865219 AATTTCTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.45
Consensus pattern (22 bp):
TTTCAGTGCATTATTCTCGAAC
Found at i:14866425 original size:21 final size:21
Alignment explanation
Indices: 14866391--14866438 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
14866381 TGATACATAA
14866391 GTGCCT-AAACGACACACAAG
1 GTGCCTGAAACGACACACAAG
* *
14866411 GTGCCTGATACGACACACGAG
1 GTGCCTGAAACGACACACAAG
14866432 GTGCCTG
1 GTGCCTG
14866439 GTCGGCAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.15
Consensus pattern (21 bp):
GTGCCTGAAACGACACACAAG
Done.