Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397291.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_182.0, whole genome shotgun sequence
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: 632866
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.29
Warning! 95618 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:3226 original size:16 final size:15
Alignment explanation
Indices: 3183--3235 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 15
3173 ATTAAAAATA
*
3183 TTAATAATAAATATT
1 TTAATAATATATATT
* *
3198 TTATAAAAAATATATT
1 TTA-ATAATATATATT
3214 TTGAATAATATATATT
1 TT-AATAATATATATT
3230 TTAATA
1 TTAATA
3236 GGTTACTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 7 0.23
16 23 0.74
17 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
TTAATAATATATATT
Found at i:10508 original size:14 final size:14
Alignment explanation
Indices: 10489--10515 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10479 TGGTAAATTT
10489 TTTTTTATAAGTTC
1 TTTTTTATAAGTTC
10503 TTTTTTATAAGTT
1 TTTTTTATAAGTT
10516 ATAATTTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTTTATAAGTTC
Found at i:10711 original size:18 final size:17
Alignment explanation
Indices: 10683--10725 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
10673 CCTAAAGCTC
* *
10683 TTTTTTTAAAAAATTTA
1 TTTTTTAAAAAAAGTTA
10700 TTCTTTTAAAAAAAGTTA
1 TT-TTTTAAAAAAAGTTA
10718 TTTTTTAA
1 TTTTTTAA
10726 GAGCTTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTTTTAAAAAAAGTTA
Found at i:13560 original size:24 final size:24
Alignment explanation
Indices: 13515--13561 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
13505 AAACAAATCA
*
13515 TGATTGGTGCTCTCTTGTGGGAGT
1 TGATTGGTGCTCCCTTGTGGGAGT
13539 TGATTAGGTGCTCCCTTG-GGGAG
1 TGATT-GGTGCTCCCTTGTGGGAG
13562 CATTGCACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.11, C:0.15, G:0.38, T:0.36
Consensus pattern (24 bp):
TGATTGGTGCTCCCTTGTGGGAGT
Found at i:15576 original size:14 final size:14
Alignment explanation
Indices: 15559--15585 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15549 TAGCTATAGA
15559 ATACATATATATAT
1 ATACATATATATAT
15573 ATACATATATATA
1 ATACATATATATA
15586 AACCTGTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ATACATATATATAT
Found at i:21156 original size:76 final size:74
Alignment explanation
Indices: 21024--21566 Score: 427
Period size: 76 Copynumber: 7.3 Consensus size: 74
21014 CATTCTGTTA
* * * * * *
21024 AGTGGTTGTAGTATTATGGGGTGACACGTCACGCTCCAATTGTTAGATATCAATGACATCTTGTG
1 AGTGGTTGTAGTATTAT--GGTGATACGCCATGCCCCAATTGTTAGATGTCGATGACATCTTGTG
**
21089 GTGACACATTG
64 GTGACACGCTG
* * * *
21100 AGTGGTTGTATTATTATCGAGTGATACACCATGCCCCAATTATTAGATGTCGATGACATCTTGTA
1 AGTGGTTGTAGTATTAT-G-GTGATACGCCATGCCCCAATTGTTAGATGTCGATGACATCTTGTG
21165 GTGACACGCTG
64 GTGACACGCTG
* * * * * *
21176 AGTGGTTGCAATATTATGGGGTGACATGCCATGCCCCAATTGTTTA-ATGTTGATAACATCTTGT
1 AGTGGTTGTAGTATTAT--GGTGATACGCCATGCCCCAATTG-TTAGATGTCGATGACATCTTGT
* *
21240 AGTGACATGCTG
63 GGTGACACGCTG
* ** * *
21252 AATGGTTGTAGTATTATGG-G----GGGACGCCCCAATTGTTAGAT-TCGATGACAACTTGTGGT
1 AGTGGTTGTAGTATTATGGTGATACGCCATGCCCCAATTGTTAGATGTCGATGACATCTTGTGGT
*
21311 GACACGTTG
66 GACACGCTG
* * * * *
21320 AGTGGTTGCAGTATTATGG-GCTAACGTGCCATGCCCTAATTGTTAGATGTCAATGACATCTTAT
1 AGTGGTTGTAGTATTATGGTGAT-AC--GCCATGCCCCAATTGTTAGATGTCGATGACATCTTGT
*
21384 GGTGATACGCTG
63 GGTGACACGCTG
* ** * * *
21396 AATGGTTGTAGTATTATGGGGTGATGTGCCATGCCCTAACTGTTAGATGTTGATGACATCTTGTG
1 AGTGGTTGTAGTATTAT--GGTGATACGCCATGCCCCAATTGTTAGATGTCGATGACATCTTGTG
*
21461 GTGACAAGCTG
64 GTGACACGCTG
* * * * ** * * * * *
21472 AGTAGTTGTAGCATTATGGGGTGACACGCCATACCTTAATTTTTAAATATTGATGACATCATGTG
1 AGTGGTTGTAGTATTAT--GGTGATACGCCATGCCCCAATTGTTAGATGTCGATGACATCTTGTG
* *
21537 GTGGCACGCTA
64 GTGACACGCTG
*
21548 AGTGGTTGTAGTACTATGG
1 AGTGGTTGTAGTATTATGG
21567 GGTGACACGC
Statistics
Matches: 376, Mismatches: 76, Indels: 32
0.78 0.16 0.07
Matches are distributed among these distances:
68 42 0.11
69 14 0.04
73 1 0.00
74 4 0.01
75 18 0.05
76 289 0.77
77 4 0.01
78 2 0.01
79 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (74 bp):
AGTGGTTGTAGTATTATGGTGATACGCCATGCCCCAATTGTTAGATGTCGATGACATCTTGTGGT
GACACGCTG
Found at i:21353 original size:144 final size:145
Alignment explanation
Indices: 21132--21416 Score: 403
Period size: 144 Copynumber: 2.0 Consensus size: 145
21122 GATACACCAT
* *
21132 GCCCCAATTATTAGATGTCGATGACATCTTGTAGTGACACGCTGAGTGGTTGCAATATTATGGGG
1 GCCCCAATTATTAGATGTCGATGACAACTTGTAGTGACACGCTGAGTGGTTGCAATATTATGGGC
* ** * *
21197 TGACATGCCATGCCCCAATTGTTTA-ATGTTGATAACATCTTGTAGTGACATGCTGAATGGTTGT
66 TAACATGCCATGCCCCAATTG-TTAGATGTCAATAACATCTTATAGTGACACGCTGAATGGTTGT
21261 AGTATTATGGGGGGAC
130 AGTATTATGGGGGGAC
* * * *
21277 GCCCCAATTGTTAGAT-TCGATGACAACTTGTGGTGACACGTTGAGTGGTTGCAGTATTATGGGC
1 GCCCCAATTATTAGATGTCGATGACAACTTGTAGTGACACGCTGAGTGGTTGCAATATTATGGGC
* * * * *
21341 TAACGTGCCATGCCCTAATTGTTAGATGTCAATGACATCTTATGGTGATACGCTGAATGGTTGTA
66 TAACATGCCATGCCCCAATTGTTAGATGTCAATAACATCTTATAGTGACACGCTGAATGGTTGTA
21406 GTATTATGGGG
131 GTATTATGGGG
21417 TGATGTGCCA
Statistics
Matches: 123, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
143 3 0.02
144 105 0.85
145 15 0.12
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (145 bp):
GCCCCAATTATTAGATGTCGATGACAACTTGTAGTGACACGCTGAGTGGTTGCAATATTATGGGC
TAACATGCCATGCCCCAATTGTTAGATGTCAATAACATCTTATAGTGACACGCTGAATGGTTGTA
GTATTATGGGGGGAC
Found at i:21482 original size:220 final size:221
Alignment explanation
Indices: 21054--21492 Score: 564
Period size: 220 Copynumber: 2.0 Consensus size: 221
21044 GTGACACGTC
* * * *
21054 ACGCTCCAATTGTTAGATATCAATGACATCTTGTGGTGACACATTGAGTGGTTGTATTATTATCG
1 ACGCCCCAATTGTTAGATATCAATGACAACTTGTGGTGACACATTGAGTGGTTGCAGTATTATCG
* * *
21119 AGTGATACACCATGCCCCAATTATTAGATGTCGATGACATCTTGTAGTGACACGCTGAGTGGTTG
66 AGTGATACACCATGCCCCAATTATTAGATGTCAATGACATCTTATAGTGACACGCTGAATGGTTG
* *
21184 CAATATTATGGGGTGACATGCCATGCCCCAATTGTTTAATGTTGATAACATCTTGTAGTGACATG
131 CAATATTATGGGGTGACATGCCATGCCCCAACTGTTTAATGTTGATAACATCTTGTAGTGACAAG
* *
21249 CTGAATGGTTGTAGTATTATGGGGGG
196 CTGAATAGTTGTAGCATTATGGGGGG
* *
21275 ACGCCCCAATTGTTAGAT-TCGATGACAACTTGTGGTGACACGTTGAGTGGTTGCAGTATTAT-G
1 ACGCCCCAATTGTTAGATATCAATGACAACTTGTGGTGACACATTGAGTGGTTGCAGTATTATCG
* * * * * *
21338 -G-GCTAACGTGCCATGCCCTAATTGTTAGATGTCAATGACATCTTATGGTGATACGCTGAATGG
66 AGTGAT-AC--ACCATGCCCCAATTATTAGATGTCAATGACATCTTATAGTGACACGCTGAATGG
* * ** * * *
21401 TTGTAGTATTATGGGGTGATGTGCCATGCCCTAACTG-TTAGATGTTGATGACATCTTGTGGTGA
128 TTGCAATATTATGGGGTGACATGCCATGCCCCAACTGTTTA-ATGTTGATAACATCTTGTAGTGA
*
21465 CAAGCTGAGTAGTTGTAGCATTATGGGG
192 CAAGCTGAATAGTTGTAGCATTATGGGG
21493 TGACACGCCA
Statistics
Matches: 187, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
217 2 0.01
218 3 0.02
219 4 0.02
220 161 0.86
221 17 0.09
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (221 bp):
ACGCCCCAATTGTTAGATATCAATGACAACTTGTGGTGACACATTGAGTGGTTGCAGTATTATCG
AGTGATACACCATGCCCCAATTATTAGATGTCAATGACATCTTATAGTGACACGCTGAATGGTTG
CAATATTATGGGGTGACATGCCATGCCCCAACTGTTTAATGTTGATAACATCTTGTAGTGACAAG
CTGAATAGTTGTAGCATTATGGGGGG
Found at i:24450 original size:150 final size:148
Alignment explanation
Indices: 24169--24453 Score: 340
Period size: 150 Copynumber: 1.9 Consensus size: 148
24159 TCGCTGCCTC
* *
24169 TATCAAGTGCAATAACAGAAATTACTATGTCACTTGATAAACATGTGGAAATGTTGAACATAAAC
1 TATCAACTGCAATAACAGAAATCACTATGTCACTTGATAAACATGTGGAAATGTTGAACATAAAC
*** * * * *
24234 TATTAGAACCATTCTTACTGGTGGCTCGTTAGTACTGTGCGACTGAGAAGGATCGGTTGGTGGTT
66 TATTAGAACCATTCTTACCAATGGCTCGTTAGCACTGTGCGACTGAGAAGGATCCGTTCGTAGTT
24299 GAGGACCTATTTCTCCTT
131 GAGGACCTATTTCTCCTT
* * * *
24317 TATCAACTGCTATAATAGAAATCACTATGTTATTTGATAAACATATGTGGAAATGTTGAACATAA
1 TATCAACTGCAATAACAGAAATCACTATGTCACTTGATAAAC--ATGTGGAAATGTTGAACATAA
* * * * * * *
24382 AC-AGTTAGAACCTTTCTTACCAATGGCTTGTTAGCATTGTGTGTCTGAGCAGGA-CCTTTCCGT
64 ACTA-TTAGAACCATTCTTACCAATGGCTCGTTAGCACTGTGCGACTGAGAAGGATCCGTT-CGT
24445 AGTTGAGGA
127 AGTTGAGGA
24454 GTTGTTGTCT
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
148 36 0.32
149 4 0.04
150 73 0.65
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (148 bp):
TATCAACTGCAATAACAGAAATCACTATGTCACTTGATAAACATGTGGAAATGTTGAACATAAAC
TATTAGAACCATTCTTACCAATGGCTCGTTAGCACTGTGCGACTGAGAAGGATCCGTTCGTAGTT
GAGGACCTATTTCTCCTT
Found at i:26017 original size:31 final size:31
Alignment explanation
Indices: 25982--26087 Score: 140
Period size: 31 Copynumber: 3.4 Consensus size: 31
25972 AGAAAGAAAT
* * *
25982 AAATGTTGTTACATGTTATGCATGCCAAGTA
1 AAATGTTGTTACACGTTATGCATACCAAGTC
* *
26013 AAATGTTGTTACACGCTCTGCATACCAAGTC
1 AAATGTTGTTACACGTTATGCATACCAAGTC
* **
26044 AAATGTTGTTACACATTAACCATACCAAGTC
1 AAATGTTGTTACACGTTATGCATACCAAGTC
26075 AAATGTTGTTACA
1 AAATGTTGTTACA
26088 TGCCAACGCT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (31 bp):
AAATGTTGTTACACGTTATGCATACCAAGTC
Found at i:26914 original size:23 final size:23
Alignment explanation
Indices: 26885--27004 Score: 82
Period size: 23 Copynumber: 5.2 Consensus size: 23
26875 CTTACAATGC
* *
26885 CGTGTCACAGATTCTCAGCATGT
1 CGTGTCATAGATTCTCAACATGT
* * * *
26908 CGTGTCATGGTTTCTTAACGTGGT
1 CGTGTCATAGATTCTCAACAT-GT
* * *
26932 -GTGTCATAGATTCTCACCGTGC
1 CGTGTCATAGATTCTCAACATGT
* * *
26954 CATCTCACATGATT-TCAACATGT
1 CGTGTCATA-GATTCTCAACATGT
* *
26977 CGTGTCATAGATTTTCACCATGT
1 CGTGTCATAGATTCTCAACATGT
27000 CGTGT
1 CGTGT
27005 GTCATAAGCC
Statistics
Matches: 72, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
22 5 0.07
23 61 0.85
24 6 0.08
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (23 bp):
CGTGTCATAGATTCTCAACATGT
Found at i:27784 original size:23 final size:23
Alignment explanation
Indices: 27731--28002 Score: 149
Period size: 23 Copynumber: 11.9 Consensus size: 23
27721 GTCACAGCCA
* *
27731 TGTCACATATGCTCACCATGCTG
1 TGTCACATATTCTCACCATGCCG
* * **
27754 TTTAACATATTCTCACCATGGGG
1 TGTCACATATTCTCACCATGCCG
* *
27777 TGTCACATATTCACACCATGGCG
1 TGTCACATATTCTCACCATGCCG
* * *
27800 TGGCAC--ATTCTCA-CACTGACA
1 TGTCACATATTCTCACCA-TGCCG
****
27821 TGTCACATATTCTCACCATTTTT
1 TGTCACATATTCTCACCATGCCG
* ** * *
27844 TCTCACATATTC-CTTTCAAGTCG
1 TGTCACATATTCTC-ACCATGCCG
* * *
27867 TGTCACATATTCTGACCCTACCG
1 TGTCACATATTCTCACCATGCCG
* *
27890 TGTCACATATTCTCACCCTACCG
1 TGTCACATATTCTCACCATGCCG
**
27913 TGTCACATATTC-CATCCATGGTG
1 TGTCACATATTCTCA-CCATGCCG
* * * * *
27936 TGTCACAAACTCTAAACCATACTG
1 TGTCACATATTCT-CACCATGCCG
* * *
27960 TGTCACATATTCTAACCATGACA
1 TGTCACATATTCTCACCATGCCG
*
27983 TGTCACATATTCCCACCATG
1 TGTCACATATTCTCACCATG
28003 GTGTTTCACA
Statistics
Matches: 189, Mismatches: 51, Indels: 18
0.73 0.20 0.07
Matches are distributed among these distances:
20 2 0.01
21 14 0.07
22 3 0.02
23 150 0.79
24 19 0.10
25 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (23 bp):
TGTCACATATTCTCACCATGCCG
Found at i:27961 original size:24 final size:24
Alignment explanation
Indices: 27934--28031 Score: 67
Period size: 23 Copynumber: 4.2 Consensus size: 24
27924 CCATCCATGG
27934 TGTGTCACAAACTCTAAACCATAC
1 TGTGTCACAAACTCTAAACCATAC
* *
27958 TGTGTCACATATTCT-AACCATGAC
1 TGTGTCACAAACTCTAAACCAT-AC
* * * ** **
27982 -ATGTCACATATTC-CCACCATGG
1 TGTGTCACAAACTCTAAACCATAC
* *
28004 TGTTTCACAAACTCTAAACCCTAC
1 TGTGTCACAAACTCTAAACCATAC
28028 TGTG
1 TGTG
28032 ACATAATTGT
Statistics
Matches: 54, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
23 32 0.59
24 22 0.41
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.30
Consensus pattern (24 bp):
TGTGTCACAAACTCTAAACCATAC
Found at i:27987 original size:70 final size:70
Alignment explanation
Indices: 27889--28031 Score: 209
Period size: 70 Copynumber: 2.0 Consensus size: 70
27879 TGACCCTACC
* * *
27889 GTGTCACATATTCTCACCCTACCGTGTCACATATT-CCATCCATGGTGTGTCACAAACTCTAAAC
1 GTGTCACATATTCTAACCATACCATGTCACATATTCCCA-CCATGGTGTGTCACAAACTCTAAAC
27953 CATACT
65 CATACT
*
27959 GTGTCACATATTCTAACCATGA-CATGTCACATATTCCCACCATGGTGTTTCACAAACTCTAAAC
1 GTGTCACATATTCTAACCAT-ACCATGTCACATATTCCCACCATGGTGTGTCACAAACTCTAAAC
*
28023 CCTACT
65 CATACT
28029 GTG
1 GTG
28032 ACATAATTGT
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
70 62 0.94
71 4 0.06
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (70 bp):
GTGTCACATATTCTAACCATACCATGTCACATATTCCCACCATGGTGTGTCACAAACTCTAAACC
ATACT
Found at i:34881 original size:15 final size:14
Alignment explanation
Indices: 34855--34884 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
34845 TAAATCTTAC
34855 CCTCTCTGCTGCCT
1 CCTCTCTGCTGCCT
34869 CCTCTCTTGCTGCCT
1 CCTCTC-TGCTGCCT
34884 C
1 C
34885 AAAATCTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.00, C:0.50, G:0.13, T:0.37
Consensus pattern (14 bp):
CCTCTCTGCTGCCT
Found at i:38681 original size:12 final size:12
Alignment explanation
Indices: 38664--38691 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38654 CTAAATCTTA
38664 CCTCTCTTGCTG
1 CCTCTCTTGCTG
38676 CCTCTCTTGCTG
1 CCTCTCTTGCTG
38688 CCTC
1 CCTC
38692 AAAAATCTCT
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:0.00, C:0.46, G:0.14, T:0.39
Consensus pattern (12 bp):
CCTCTCTTGCTG
Found at i:40442 original size:20 final size:20
Alignment explanation
Indices: 40417--40456 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
40407 AAGAAAGAAA
*
40417 TTTAAAAGAAA-ATTCATTTT
1 TTTAAAA-AAATATTAATTTT
40437 TTTAAAAAAATATTAATTTT
1 TTTAAAAAAATATTAATTTT
40457 CTATATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
TTTAAAAAAATATTAATTTT
Found at i:45629 original size:30 final size:28
Alignment explanation
Indices: 45595--45694 Score: 67
Period size: 30 Copynumber: 3.4 Consensus size: 28
45585 AGTAGGAAGT
45595 TGAGTGGAGGTAGGCATAGCTATAGTAGGC
1 TGAGTGGAGG-AGGCATA-CTATAGTAGGC
** * * * *
45625 TGAGTAAAGAGAGGCTTAATAGTAGTGGGT
1 TGAGTGGAG-GAGGCATACTA-TAGTAGGC
45655 TGAGTGGAGGGAGGCATAAC-ATCAGTAGGC
1 TGAGTGGA-GGAGGCAT-ACTAT-AGTAGGC
*
45685 TAAGTGGAGG
1 TGAGTGGAGG
45695 GAAGCTCAAT
Statistics
Matches: 52, Mismatches: 13, Indels: 11
0.68 0.17 0.14
Matches are distributed among these distances:
29 5 0.10
30 44 0.85
31 3 0.06
ACGTcount: A:0.30, C:0.08, G:0.40, T:0.22
Consensus pattern (28 bp):
TGAGTGGAGGAGGCATACTATAGTAGGC
Found at i:56755 original size:7 final size:7
Alignment explanation
Indices: 56743--56771 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
56733 AAATTTTTTT
56743 ATTACAA
1 ATTACAA
56750 ATTACAA
1 ATTACAA
56757 ATTACAA
1 ATTACAA
56764 ATTA-AA
1 ATTACAA
56770 AT
1 AT
56772 AATTTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (7 bp):
ATTACAA
Found at i:59918 original size:13 final size:13
Alignment explanation
Indices: 59900--59945 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
59890 AAAACAAGGA
59900 AGAAAGGAAGAAG
1 AGAAAGGAAGAAG
*
59913 AGAAAGGGAGAA-
1 AGAAAGGAAGAAG
*
59925 AG-GAGGAAGAAG
1 AGAAAGGAAGAAG
*
59937 AAAAAGGAA
1 AGAAAGGAA
59946 AGGGAGGGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
11 7 0.27
12 3 0.12
13 16 0.62
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (13 bp):
AGAAAGGAAGAAG
Found at i:59924 original size:21 final size:22
Alignment explanation
Indices: 59895--59939 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
59885 AAGAAAAAAC
59895 AAGGAAGAAAGGAAGAAG-AGA
1 AAGGAAGAAAGGAAGAAGAAGA
* *
59916 AAGGGAGAAAGGAGGAAGAAGA
1 AAGGAAGAAAGGAAGAAGAAGA
59938 AA
1 AA
59940 AAGGAAAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (22 bp):
AAGGAAGAAAGGAAGAAGAAGA
Found at i:59946 original size:21 final size:24
Alignment explanation
Indices: 59904--59948 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
59894 CAAGGAAGAA
*
59904 AGGAAGAAGAGAAAGGGAGAAAGG
1 AGGAAGAAGAGAAAGAGAGAAAGG
59928 AGGAAGAAGA-AAA-AG-GAAAGG
1 AGGAAGAAGAGAAAGAGAGAAAGG
59949 GAGGGTTCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 1 0.05
23 3 0.15
24 10 0.50
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (24 bp):
AGGAAGAAGAGAAAGAGAGAAAGG
Found at i:66807 original size:27 final size:27
Alignment explanation
Indices: 66776--66831 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
66766 AAATACCTTA
* *
66776 AACATGGCATTTAATAATTTTCTTTTC
1 AACATGGCATGTAACAATTTTCTTTTC
* *
66803 AACATGGCGTGTAACAATTTTTTTTTC
1 AACATGGCATGTAACAATTTTCTTTTC
66830 AA
1 AA
66832 TGTGACGTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (27 bp):
AACATGGCATGTAACAATTTTCTTTTC
Found at i:66840 original size:27 final size:27
Alignment explanation
Indices: 66791--66843 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
66781 GGCATTTAAT
*
66791 AATTTTCTTTTCAACATGGCGTGTAAC
1 AATTTTCTTTTCAACATGACGTGTAAC
* **
66818 AATTTTTTTTTCAATGTGACGTGTAA
1 AATTTTCTTTTCAACATGACGTGTAA
66844 TTTAATTTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.45
Consensus pattern (27 bp):
AATTTTCTTTTCAACATGACGTGTAAC
Found at i:66967 original size:28 final size:28
Alignment explanation
Indices: 66899--66968 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
66889 GTTAAATACA
66899 AACATGGCATGTAATAACTTTTTTTCTT
1 AACATGGCATGTAATAACTTTTTTTCTT
* * *
66927 AACATGACGTGTAATAGCTTTTTTT-TT
1 AACATGGCATGTAATAACTTTTTTTCTT
*
66954 CAACATGGCTTGTAA
1 -AACATGGCATGTAA
66969 CTTGGTCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 2 0.06
28 34 0.94
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (28 bp):
AACATGGCATGTAATAACTTTTTTTCTT
Found at i:67017 original size:124 final size:124
Alignment explanation
Indices: 66708--67051 Score: 322
Period size: 125 Copynumber: 2.8 Consensus size: 124
66698 ATGGTTTAAG
* *
66708 CATGGCATGTAAC-TGATCTTTAGT-TTTGTATTTCACTAGAACATAAACTCTTGGAGTTAAATA
1 CATGGCATGTAACTTGATCTTTA-TCTTTGTATTTCACTAGAATATAAACTCTTGAAGTTAAATA
* *
66771 CCTTAAACATGGCATTTAATAATTTTCTTTTCAACATGGCGTGTAACAATTTTTTTTTCAA
65 CC-TAAACATGGCATGTAATAATTTTCTTTTCAACATGACGTGTAACAATTTTTTTTTCAA
** * * * * * *
66832 TGTGACGTGTAATTTAAT-TTCTATCTTTATATTTCACTAGAATATAAAACTGTTGAAGTTAAAT
1 CATGGCATGTAACTTGATCTT-TATCTTTGTATTTCACTAGAATAT-AAACTCTTGAAGTTAAAT
* * *
66896 A-C-AAACATGGCATGTAATAACTTTT-TTTCTTAACATGACGTGTAATAGCTTTTTTTTTCAA
64 ACCTAAACATGGCATGTAATAA-TTTTCTTT-TCAACATGACGTGTAACA-ATTTTTTTTTCAA
* * * * * * * *
66957 CATGGCTTGTAACTTGGTCTTTATCATTGTATTTCAGTAGGATATAAATTTTTGAAGTTAAACAC
1 CATGGCATGTAACTTGATCTTTATCTTTGTATTTCACTAGAATATAAACTCTTGAAGTTAAATAC
* *** *
67022 CTTAAACGTTATATGTAATAATTTTTTTTT
66 C-TAAACATGGCATGTAATAATTTTCTTTT
67052 TCAATATAGC
Statistics
Matches: 175, Mismatches: 33, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
123 20 0.11
124 46 0.26
125 68 0.39
126 24 0.14
127 17 0.10
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (124 bp):
CATGGCATGTAACTTGATCTTTATCTTTGTATTTCACTAGAATATAAACTCTTGAAGTTAAATAC
CTAAACATGGCATGTAATAATTTTCTTTTCAACATGACGTGTAACAATTTTTTTTTCAA
Found at i:67108 original size:27 final size:27
Alignment explanation
Indices: 67078--67144 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
67068 CATGTAACAC
*
67078 CATTTTTTTTAACATAGCGTGTAATAA
1 CATTTTTTTTAACATAGCGTGCAATAA
* * *
67105 CATTTTTTTGAACATGGCGTGCAATGA
1 CATTTTTTTTAACATAGCGTGCAATAA
*
67132 TATTATTTTTTAA
1 CATT-TTTTTTAA
67145 ACATGATGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 26 0.79
28 7 0.21
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.46
Consensus pattern (27 bp):
CATTTTTTTTAACATAGCGTGCAATAA
Found at i:67237 original size:188 final size:189
Alignment explanation
Indices: 66899--67238 Score: 422
Period size: 189 Copynumber: 1.8 Consensus size: 189
66889 GTTAAATACA
* * * * * * *
66899 AACATGGCATGTAATAACTTTTTTTCTTAACATGACGTGTAATAGCTTTTTTTTTCAACATGGCT
1 AACATAGCATGTAATAACATTTTTTCTGAACATGACGTGCAATAGATTTTTTTTTAAACATGGAT
* * * *
66964 TGTAACTTGGTCTTTATCATTGTATTTCAGTAGGATATAAATTTTTGAAGTTAAACACCTTAAAC
66 TGTAACTTGGTCTATATCATTGTATTTCAGTAAGACATAAACTTTTGAAGTTAAACACCTTAAAC
* * * *
67029 GTTATATGTAATAATTTTTTTTTTCAATATAGCCTGTAACATGTAACACCATTTTTTTT
131 ATGACATGGAATAATTTTTTTTTTCAATATAGCCTGTAACATGTAACACCATTTTTTTT
* *
67088 AACATAGCGTGTAATAACATTTTTT-TGAACATGGCGTGCAAT-GATATTATTTTTTAAACAT-G
1 AACATAGCATGTAATAACATTTTTTCTGAACATGACGTGCAATAGAT-TT-TTTTTTAAACATGG
* *
67150 ATGTGTAACTTGGTCTATATCTTTGTACTTT-ATTAAGACATAAACTTTT-AAGTTAAACACCTT
64 AT-TGTAACTTGGTCTATATCATTGTA-TTTCAGTAAGACATAAACTTTTGAAGTTAAACACCTT
*
67213 AAACATGACGTGGAAT-ATTTTTTTTT
127 AAACATGACATGGAATAATTTTTTTTT
67239 AACATGACGT
Statistics
Matches: 127, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
187 12 0.09
188 43 0.34
189 69 0.54
190 3 0.02
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (189 bp):
AACATAGCATGTAATAACATTTTTTCTGAACATGACGTGCAATAGATTTTTTTTTAAACATGGAT
TGTAACTTGGTCTATATCATTGTATTTCAGTAAGACATAAACTTTTGAAGTTAAACACCTTAAAC
ATGACATGGAATAATTTTTTTTTTCAATATAGCCTGTAACATGTAACACCATTTTTTTT
Found at i:68163 original size:12 final size:13
Alignment explanation
Indices: 68146--68179 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
68136 AAAATATAAA
68146 ATATTTTAAAA-T
1 ATATTTTAAAATT
68158 ATATTTTAAAATT
1 ATATTTTAAAATT
*
68171 AAATTTTAA
1 ATATTTTAA
68180 TAAGGTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATTTTAAAATT
Found at i:70636 original size:36 final size:36
Alignment explanation
Indices: 70595--70667 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
70585 AAAGCAAGGG
70595 ATAAATTCATTTATTGTGATGACAAAAATATGACTT
1 ATAAATTCATTTATTGTGATGACAAAAATATGACTT
70631 ATAAATTCATTTATTGTGATGACAAAAATATGACTT
1 ATAAATTCATTTATTGTGATGACAAAAATATGACTT
70667 A
1 A
70668 CTTTCATGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (36 bp):
ATAAATTCATTTATTGTGATGACAAAAATATGACTT
Found at i:76518 original size:105 final size:105
Alignment explanation
Indices: 76405--76620 Score: 281
Period size: 105 Copynumber: 2.1 Consensus size: 105
76395 TTATGAGCGT
* * * * *
76405 TAAAGCTTGTGGTTGAAAA-ATGAGTGATGAATTATATGGTTAAAGAATGAGTGATAAAGCTTGC
1 TAAAGCTTGCGGCT-AAAATATGAGTGATGAATTATATGGTCAAAAAATGAGCGATAAAGCTTGC
* * * *
76469 TACCAAGTGTAATAATAACATTATAGCTAAAGTAAAAGTGA
65 AACCAAGTGCAACAATAACATTATAGCCAAAGTAAAAGTGA
* *
76510 TAAAGCTTGCGGCTAAAATATGAGTGATGAGTTATATGGTCAAAAAATTAGCGATAAAGCTTGCA
1 TAAAGCTTGCGGCTAAAATATGAGTGATGAATTATATGGTCAAAAAATGAGCGATAAAGCTTGCA
* * * *
76575 ACCAATTGCGACAATAACATTATAGCCAATGTAAGAGTGA
66 ACCAAGTGCAACAATAACATTATAGCCAAAGTAAAAGTGA
76615 TAAAGC
1 TAAAGC
76621 ATACAGCTAA
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
104 4 0.04
105 91 0.96
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.27
Consensus pattern (105 bp):
TAAAGCTTGCGGCTAAAATATGAGTGATGAATTATATGGTCAAAAAATGAGCGATAAAGCTTGCA
ACCAAGTGCAACAATAACATTATAGCCAAAGTAAAAGTGA
Found at i:79499 original size:17 final size:17
Alignment explanation
Indices: 79477--79515 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
79467 ATGCATCGCT
79477 TAATTGTCGAAAT-AGTA
1 TAATTGTC-AAATGAGTA
*
79494 TAATTGTCTAATGAGTA
1 TAATTGTCAAATGAGTA
79511 TAATT
1 TAATT
79516 TTTTACTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (17 bp):
TAATTGTCAAATGAGTA
Found at i:79813 original size:195 final size:195
Alignment explanation
Indices: 79461--79852 Score: 579
Period size: 195 Copynumber: 2.0 Consensus size: 195
79451 CCTTATAGAG
* ** *
79461 TAAAAAATGCATCGCTTAATTGTCGAAATAGTATAATTGTCTAATGAGTATAATTTTTTACTTTG
1 TAAAAAATGCATCGCTTAATTGTCGAAAGAGTATAATTACCTAAAGAGTATAATTTTTTACTTTG
* * ** *
79526 ATTTTTCTTATAATCAGTTGATTTGATTTGAGCATTTATGCAATATGTAATTTTCCTAAAAATCC
66 ATTTTTCTTACAATCAATTGATTCAATTTGAGCATTTATGCAATACGTAATTTTCCTAAAAATCC
* * *
79591 TTCATTTTTTTAGTGTAACTTTTACTAGAATATTTTGTATTATTGTATACAATATGTTATGGTCC
131 ATCATTTTTTTAGCGTAACTATTACTAGAATATTTTGTATTATTGTATACAATATGTTATGGTCC
* * *
79656 TAAAAGATGCATTGCTTAATTGTCTAAAGAGTATAATTACCTAAAGAGTATAATTTTTTACTTTG
1 TAAAAAATGCATCGCTTAATTGTCGAAAGAGTATAATTACCTAAAGAGTATAATTTTTTACTTTG
* * * *
79721 ATTTTTCTTACAATCAATTGATTCAATTTGAGTATTTCTGCAATACGTACTTTTCCTAGAAATCC
66 ATTTTTCTTACAATCAATTGATTCAATTTGAGCATTTATGCAATACGTAATTTTCCTAAAAATCC
**
79786 ATCATTTTTTTTAGCGTAAC-ATTACTAGAATATTTTGTATTATTGTATGTAATATGTTATGGTC
131 ATCA-TTTTTTTAGCGTAACTATTACTAGAATATTTTGTATTATTGTATACAATATGTTATGGTC
79850 C
195 C
79851 TA
1 TA
79853 TGGAGTAAAC
Statistics
Matches: 175, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
195 161 0.92
196 14 0.08
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.45
Consensus pattern (195 bp):
TAAAAAATGCATCGCTTAATTGTCGAAAGAGTATAATTACCTAAAGAGTATAATTTTTTACTTTG
ATTTTTCTTACAATCAATTGATTCAATTTGAGCATTTATGCAATACGTAATTTTCCTAAAAATCC
ATCATTTTTTTAGCGTAACTATTACTAGAATATTTTGTATTATTGTATACAATATGTTATGGTCC
Found at i:81604 original size:68 final size:68
Alignment explanation
Indices: 81472--81610 Score: 170
Period size: 68 Copynumber: 2.0 Consensus size: 68
81462 GGGGGGGGGG
* * * * *
81472 AAGTATGCATGATGAATGCCATGGGATTATGTATATGATGAAAATTTCATACACCATATGAGCTG
1 AAGTATGCATGATGAATGCCATGAGAATATGTATATGATGAAAATTCCATACACCACATAAGCTG
81537 ATT
66 ATT
* * * * * **
81540 AAGTATGCATGATGAATGCCATGAGAATGTGTTTATGATGTAGATTCCATATATGACATAAGCTG
1 AAGTATGCATGATGAATGCCATGAGAATATGTATATGATGAAAATTCCATACACCACATAAGCTG
81605 ATT
66 ATT
81608 AAG
1 AAG
81611 CATGTACCAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (68 bp):
AAGTATGCATGATGAATGCCATGAGAATATGTATATGATGAAAATTCCATACACCACATAAGCTG
ATT
Found at i:84874 original size:5 final size:5
Alignment explanation
Indices: 84858--84898 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
84848 GGAAATGGCA
*
84858 TCATT TCCTT TCATT TCATT TCAATT TGCATT TCATT TCAT
1 TCATT TCATT TCATT TCATT TC-ATT T-CATT TCATT TCAT
84899 CTTCTTGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 23 0.72
6 8 0.25
7 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.02, T:0.56
Consensus pattern (5 bp):
TCATT
Found at i:86759 original size:40 final size:40
Alignment explanation
Indices: 86715--87013 Score: 275
Period size: 40 Copynumber: 7.7 Consensus size: 40
86705 TCCGTGAAGA
* * *
86715 GTGCTTTTTATAATAGCACATAATTTGTTGATCCTTGTGG
1 GTGCTCTTTATAATAGCACACAATTTGTTGATCCTTGAGG
* *
86755 GTGCTCTTTATAATAGCACATAATTTGTTGATCCTTGTGG
1 GTGCTCTTTATAATAGCACACAATTTGTTGATCCTTGAGG
* *
86795 GTGCTCTTTGTAATAG--CAC-A--TGTT-ATCCTAGGAGG
1 GTGCTCTTTATAATAGCACACAATTTGTTGATCCT-TGAGG
* * *
86830 GTGCTCTTTATAATATCACACAATTTGTT-ATCTTTAGAAG
1 GTGCTCTTTATAATAGCACACAATTTGTTGATCCTT-GAGG
***
86870 GTGCTCTTTATAATAGCACACAATGCATTGATCCTTGGAGG
1 GTGCTCTTTATAATAGCACACAATTTGTTGATCCTT-GAGG
86911 GTGCTCTTTATAATAG--CAC--TTAT-TT-ATCCTTG-GCAG
1 GTGCTCTTTATAATAGCACACAATT-TGTTGATCCTTGAG--G
* * * * *
86947 GTGTTCTTTCTAATACCACACAATGTATTGATCCTTGGAGG
1 GTGCTCTTTATAATAGCACACAATTTGTTGATCCTT-GAGG
86988 GTGCTCTTTATAATAGCACACAATTT
1 GTGCTCTTTATAATAGCACACAATTT
87014 AGAATCACTA
Statistics
Matches: 213, Mismatches: 27, Indels: 37
0.77 0.10 0.13
Matches are distributed among these distances:
34 6 0.03
35 22 0.10
36 20 0.09
37 7 0.03
38 6 0.03
39 4 0.02
40 93 0.44
41 53 0.25
42 1 0.00
43 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (40 bp):
GTGCTCTTTATAATAGCACACAATTTGTTGATCCTTGAGG
Found at i:86967 original size:77 final size:78
Alignment explanation
Indices: 86710--87007 Score: 265
Period size: 77 Copynumber: 3.8 Consensus size: 78
86700 GTAGATCCGT
* * * *** *
86710 GAAGAGTGCTTTTTATAATAGCACATAATTTGTTGATCCTT-GTGGGTGCTCTTTATAATAGCAC
1 GAAG-GTGCTCTTTATAATACCACACAATGCATTGATCCTTGGAGGGTGCTCTTTATAATAGCAC
86774 ATAATTTGTTGATCCTT-
65 ---ATTTGTT-ATCCTTA
** * * * *
86791 GTGGGTGCTCTTTGTAATA--GCAC-ATG--TT-ATCCTAGGAGGGTGCTCTTTATAATATCACA
1 GAAGGTGCTCTTTATAATACCACACAATGCATTGATCCTTGGAGGGTGCTCTTTATAATA--GCA
*
86850 CAATTTGTTATCTTTA
64 C-ATTTGTTATCCTTA
*
86866 GAAGGTGCTCTTTATAATAGCACACAATGCATTGATCCTTGGAGGGTGCTCTTTATAATAGCAC-
1 GAAGGTGCTCTTTATAATACCACACAATGCATTGATCCTTGGAGGGTGCTCTTTATAATAGCACA
*
86930 TTAT-TTATCCTTG
66 TT-TGTTATCCTTA
* * * *
86943 GCAGGTGTTCTTTCTAATACCACACAATGTATTGATCCTTGGAGGGTGCTCTTTATAATAGCACA
1 GAAGGTGCTCTTTATAATACCACACAATGCATTGATCCTTGGAGGGTGCTCTTTATAATAGCACA
87008 CAATTTAGAA
Statistics
Matches: 181, Mismatches: 24, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
74 10 0.06
75 44 0.24
77 76 0.42
78 6 0.03
79 3 0.02
80 15 0.08
81 27 0.15
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (78 bp):
GAAGGTGCTCTTTATAATACCACACAATGCATTGATCCTTGGAGGGTGCTCTTTATAATAGCACA
TTTGTTATCCTTA
Found at i:88047 original size:63 final size:63
Alignment explanation
Indices: 87965--88099 Score: 209
Period size: 63 Copynumber: 2.1 Consensus size: 63
87955 TGTAGTTCAA
* * * * *
87965 TTTTTTTTTTGCTTTAACTTTTGCCTAAGTCTTCTTGTTAAGGATTTTCCACTTAGC-AGTCTT
1 TTTTTTTTTTGCCTAAACTTTTGCCTAAGTCGTCCTGTTAAGGATTTTCAACTTAGCAAG-CTT
88028 TTTTTTTTTTGCCTAAACTTTTGCCTAAGTCGTCCTGTTAAGGATTTTCAACTTAGCAAGCTT
1 TTTTTTTTTTGCCTAAACTTTTGCCTAAGTCGTCCTGTTAAGGATTTTCAACTTAGCAAGCTT
88091 TTTTTTTTT
1 TTTTTTTTT
88100 GGTACTGTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
63 64 0.97
64 2 0.03
ACGTcount: A:0.17, C:0.17, G:0.13, T:0.53
Consensus pattern (63 bp):
TTTTTTTTTTGCCTAAACTTTTGCCTAAGTCGTCCTGTTAAGGATTTTCAACTTAGCAAGCTT
Found at i:108034 original size:18 final size:18
Alignment explanation
Indices: 108013--108048 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
108003 GAAATTCTCT
*
108013 CAATCTTTGAATGCCTCC
1 CAATCTTCGAATGCCTCC
108031 CAATCTTCGAATGCCTCC
1 CAATCTTCGAATGCCTCC
108049 AAATGAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.36, G:0.11, T:0.31
Consensus pattern (18 bp):
CAATCTTCGAATGCCTCC
Found at i:111717 original size:30 final size:30
Alignment explanation
Indices: 111683--111746 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
111673 TTTCTCCTTG
* *
111683 GAGATATTTGGAGATTTATTTGAAAAAATA
1 GAGATATTGGGAGATTTATTCGAAAAAATA
*
111713 GAGATATTGGGAGATTTATTCGAAGAAATA
1 GAGATATTGGGAGATTTATTCGAAAAAATA
111743 -AGAT
1 GAGAT
111747 GAGAGGCAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.42, C:0.02, G:0.23, T:0.33
Consensus pattern (30 bp):
GAGATATTGGGAGATTTATTCGAAAAAATA
Found at i:111945 original size:24 final size:24
Alignment explanation
Indices: 111913--111969 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
111903 TCTTCAAGAG
111913 TCACAAACTTGGACTTAGTCTTAA
1 TCACAAACTTGGACTTAGTCTTAA
111937 TCACAAACTTGGACTTAGTCTTAA
1 TCACAAACTTGGACTTAGTCTTAA
*
111961 TCACGAACT
1 TCACAAACT
111970 ATGTTGCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (24 bp):
TCACAAACTTGGACTTAGTCTTAA
Found at i:115092 original size:2 final size:2
Alignment explanation
Indices: 115085--115124 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
115075 AGTCAAGAGC
115085 TA TA TA TA TA 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 TA TA TA TA TA
115125 AAATAATAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:117859 original size:85 final size:87
Alignment explanation
Indices: 117709--117885 Score: 216
Period size: 85 Copynumber: 2.1 Consensus size: 87
117699 TAGAAAAAAA
* * * * * *
117709 ATGTTGTTACATACCATGTTTAAGGTATTTAACTCCAAGAGTTTATGCCTTAGTGAAATATAAAG
1 ATGTTGTTACATACCATATTTAAGGTATTTAACTCAAAGAGTCTATGCCTTAATAAAATACAAAG
*
117774 A-AAAGATC-AAGTTACACGTC
66 ATAAAGATCAAAGTTACACATC
* * *
117794 ATGTTGTTATATACCATATTTAAGGTGTTTAACTCAAAGAGTCTATGTCC-TAATAAAATGCAAA
1 ATGTTGTTACATACCATATTTAAGGTATTTAACTCAAAGAGTCTATG-CCTTAATAAAATACAAA
* *
117858 GATAGAGATCAAAGTTACATATC
65 GATAAAGATCAAAGTTACACATC
117881 ATGTT
1 ATGTT
117886 TAAACCACGT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
85 54 0.70
86 8 0.10
87 15 0.19
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (87 bp):
ATGTTGTTACATACCATATTTAAGGTATTTAACTCAAAGAGTCTATGCCTTAATAAAATACAAAG
ATAAAGATCAAAGTTACACATC
Found at i:125109 original size:93 final size:96
Alignment explanation
Indices: 124931--125111 Score: 278
Period size: 93 Copynumber: 1.9 Consensus size: 96
124921 TTGTTTTCCA
* * *
124931 TTTCTTTTTTGCCTAAATTTTAGAATTATTTTTCTTTTCCTTTTTTTCCCCTATAGAGTAAAAGA
1 TTTCTTTTTTCCCTAAATTTTAGAATTATTTTTCTTTCCCTTTCTTTCCCCTATAGAGTAAAAGA
* *
124996 TGCATGGTTTAATTGCCTAAAGAGTATTTCT
66 TGCATGGCTTAACTGCCTAAAGAGTATTTCT
*
125027 TTTCTTTTTTCCCTAAATTTTAGAATTA-TTTT-TTTCCCTTTCTTT-CCCTATATAGTAAAAGA
1 TTTCTTTTTTCCCTAAATTTTAGAATTATTTTTCTTTCCCTTTCTTTCCCCTATAGAGTAAAAGA
*
125089 TGCATGGCTTAACTGGCTAAAGA
66 TGCATGGCTTAACTGCCTAAAGA
125112 NNNNNNNNNN
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
93 36 0.46
94 11 0.14
95 4 0.05
96 27 0.35
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (96 bp):
TTTCTTTTTTCCCTAAATTTTAGAATTATTTTTCTTTCCCTTTCTTTCCCCTATAGAGTAAAAGA
TGCATGGCTTAACTGCCTAAAGAGTATTTCT
Found at i:139232 original size:28 final size:26
Alignment explanation
Indices: 139200--139261 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 26
139190 ATACAAAAAC
139200 TTGTTACATGCCATGTTGAAAAATATT
1 TTGTTACATGCCATGTTGAAAAA-ATT
*
139227 ATTGTTACATGCCATGTTTAAAAAATT
1 -TTGTTACATGCCATGTTGAAAAAATT
139254 TTGTTACA
1 TTGTTACA
139262 CTTTAATGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 8 0.24
27 3 0.09
28 22 0.67
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (26 bp):
TTGTTACATGCCATGTTGAAAAAATT
Found at i:139232 original size:84 final size:84
Alignment explanation
Indices: 139088--139251 Score: 213
Period size: 84 Copynumber: 2.0 Consensus size: 84
139078 GAAAAAGGAT
* * * *
139088 ATTGTTGTTACACGTCATGTACAAAAACATGTTACGTGCCATGGTTAAAAAAAAGGTTGTTACAC
1 ATTGTTATTACACGTCATATACAAAAACATGTTACATGCCATGGTTAAAAAAAAGATTGTTACAC
139153 ACCATGTTGAAAAAAAAAG
66 ACCATGTTGAAAAAAAAAG
* * **
139172 ATTGTTATTACACGTCATATACAAAAACTTGTTACATGCCAT-GTTGAAAAATATTATTGTTACA
1 ATTGTTATTACACGTCATATACAAAAACATGTTACATGCCATGGTT-AAAAAAAAGATTGTTACA
** *
139236 TGCCATGTTTAAAAAA
65 CACCATGTTGAAAAAA
139252 TTTTGTTACA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
83 3 0.04
84 65 0.96
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (84 bp):
ATTGTTATTACACGTCATATACAAAAACATGTTACATGCCATGGTTAAAAAAAAGATTGTTACAC
ACCATGTTGAAAAAAAAAG
Found at i:140161 original size:63 final size:62
Alignment explanation
Indices: 140091--140221 Score: 244
Period size: 62 Copynumber: 2.1 Consensus size: 62
140081 GGACATTCGA
140091 TTTTTTTCTTGTTTTTTTTCACCAAAAAAAAAAGAGTTTACAAATAATTCAAAATTCAGACAT
1 TTTTTTTCTTGTTTTTTTTCACC-AAAAAAAAAGAGTTTACAAATAATTCAAAATTCAGACAT
140154 TTTTTTTCTTGTTTTTTTTCACCAAAAAAAAAGAGTTTACAAATAATTCAAAATTCAGACAT
1 TTTTTTTCTTGTTTTTTTTCACCAAAAAAAAAGAGTTTACAAATAATTCAAAATTCAGACAT
*
140216 TGTTTT
1 TTTTTT
140222 CGTTCACACA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 44 0.66
63 23 0.34
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (62 bp):
TTTTTTTCTTGTTTTTTTTCACCAAAAAAAAAGAGTTTACAAATAATTCAAAATTCAGACAT
Found at i:142526 original size:62 final size:62
Alignment explanation
Indices: 142450--142573 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
142440 TTATAATCGG
*
142450 TTCAAAGACATGCATGTCAAACAAAATGATAGTTTCTACTTTCCTTACCTTGAAATTTTTAA
1 TTCAAAGACATGCATCTCAAACAAAATGATAGTTTCTACTTTCCTTACCTTGAAATTTTTAA
142512 TTCAAAGACATGCATCTCAAACAAAATGATAGTTTCTACTTTCCTTACCTTGAAATTTTTAA
1 TTCAAAGACATGCATCTCAAACAAAATGATAGTTTCTACTTTCCTTACCTTGAAATTTTTAA
142574 ACTGAATCAC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (62 bp):
TTCAAAGACATGCATCTCAAACAAAATGATAGTTTCTACTTTCCTTACCTTGAAATTTTTAA
Found at i:143948 original size:31 final size:31
Alignment explanation
Indices: 143899--143981 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 31
143889 GCAATGGAAT
* * *
143899 TATACATTACCGGTCCAAGGTGTAATGAGAC
1 TATACATTACCAGCCCAAGGTGCAATGAGAC
* * **
143930 TATACATTACCAACCCAAGGTGCAATGGGGT
1 TATACATTACCAGCCCAAGGTGCAATGAGAC
*
143961 TATGCATTACCAGCCCAAGGT
1 TATACATTACCAGCCCAAGGT
143982 TGATAAGGGT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (31 bp):
TATACATTACCAGCCCAAGGTGCAATGAGAC
Found at i:145404 original size:22 final size:22
Alignment explanation
Indices: 145379--145433 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
145369 CCAATTGCAT
145379 TATTGTTGCACGGTAATTGAAC
1 TATTGTTGCACGGTAATTGAAC
* *
145401 TATTGTTGCATGGTAATTGCAC
1 TATTGTTGCACGGTAATTGAAC
*
145423 TGTTGTTGCAC
1 TATTGTTGCAC
145434 AACAGCTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.40
Consensus pattern (22 bp):
TATTGTTGCACGGTAATTGAAC
Found at i:146909 original size:19 final size:21
Alignment explanation
Indices: 146880--146919 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
146870 ACTTCATTAA
146880 AAATAATAAACTTAAT-AATT
1 AAATAATAAACTTAATGAATT
146900 AAATAA-AAACTTAATGAATT
1 AAATAATAAACTTAATGAATT
146920 TTATATCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (21 bp):
AAATAATAAACTTAATGAATT
Found at i:154028 original size:2 final size:2
Alignment explanation
Indices: 154021--154051 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
154011 ATAAACAGAA
154021 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
154052 AATAGCGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:164056 original size:25 final size:25
Alignment explanation
Indices: 163958--164119 Score: 94
Period size: 25 Copynumber: 6.5 Consensus size: 25
163948 TGCTTGATAA
*
163958 GGCATTGCGTGATTGTTATCTGTAT
1 GGCATTGCGTGATTGTTATCTGTAG
* * ** * *
163983 AGCATTACGTGACCGTTTTATGTAG
1 GGCATTGCGTGATTGTTATCTGTAG
* *
164008 GTCATTGCGTCATTGTTAGT-TGTAG
1 GGCATTGCGTGATTGTTA-TCTGTAG
* *
164033 GGCATTGCATGATTGTTATCTGTAT
1 GGCATTGCGTGATTGTTATCTGTAG
* * * * ** ** *
164058 GGAAGTGCATGAGTGTTAGATAAAT
1 GGCATTGCGTGATTGTTATCTGTAG
*
164083 GGCATTGCGTGAATT-TTATCTGTAT
1 GGCATTGCGTG-ATTGTTATCTGTAG
*
164108 GGCATTGTGTGA
1 GGCATTGCGTGA
164120 CTGTCATTGC
Statistics
Matches: 100, Mismatches: 34, Indels: 7
0.71 0.24 0.05
Matches are distributed among these distances:
24 2 0.02
25 95 0.95
26 3 0.03
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.40
Consensus pattern (25 bp):
GGCATTGCGTGATTGTTATCTGTAG
Found at i:167103 original size:32 final size:29
Alignment explanation
Indices: 167027--167103 Score: 79
Period size: 32 Copynumber: 2.6 Consensus size: 29
167017 AGATATTAAA
167027 GTATAACAAAATTTTTT-TAACATGACAT
1 GTATAACAAAATTTTTTCTAACATGACAT
* *
167055 G--TAACAATAATATTTTCTCAACATGACGT
1 GTATAACAA-AATTTTTTCT-AACATGACAT
167084 GCTATAACAACAATTTTTTC
1 G-TATAACAA-AATTTTTTC
167104 CAGCATAGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
26 6 0.15
27 7 0.18
28 2 0.05
29 10 0.26
32 14 0.36
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.38
Consensus pattern (29 bp):
GTATAACAAAATTTTTTCTAACATGACAT
Found at i:175256 original size:25 final size:25
Alignment explanation
Indices: 175163--175325 Score: 89
Period size: 25 Copynumber: 6.5 Consensus size: 25
175153 TGCTTGATAG
* *
175163 GGCATTGCGTGACTATTATCTATAT
1 GGCATTGCATGACTATTATCTGTAT
* * ** * *
175188 TGCATTGCGTGACCGTTTTGTGTA-
1 GGCATTGCATGACTATTATCTGTAT
* * *
175212 GGTCATT--ATGTCACTGTTATTTGTAG
1 GG-CATTGCATG--ACTATTATCTGTAT
*
175238 GGCATTGCATGACTATTATCTATAT
1 GGCATTGCATGACTATTATCTGTAT
** * * * * *
175263 GAAAGTGCGTGAGTGTTATATGTAT
1 GGCATTGCATGACTATTATCTGTAT
* *
175288 GGCATTGCATGAATTTTATCTGTAT
1 GGCATTGCATGACTATTATCTGTAT
175313 GGCATTGCATGAC
1 GGCATTGCATGAC
175326 AATCAATGCA
Statistics
Matches: 101, Mismatches: 31, Indels: 12
0.70 0.22 0.08
Matches are distributed among these distances:
23 2 0.02
24 1 0.01
25 93 0.92
26 2 0.02
27 3 0.03
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (25 bp):
GGCATTGCATGACTATTATCTGTAT
Found at i:186144 original size:17 final size:18
Alignment explanation
Indices: 186124--186157 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
186114 TACAAACTTT
*
186124 TTTACTTTA-ATTTTTAA
1 TTTACATTATATTTTTAA
186141 TTTACATTATATTTTTA
1 TTTACATTATATTTTTA
186158 TATTGCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTACATTATATTTTTAA
Found at i:186923 original size:27 final size:27
Alignment explanation
Indices: 186891--186976 Score: 104
Period size: 27 Copynumber: 3.1 Consensus size: 27
186881 ATCTTTTCAC
186891 TATTTATCCACTCTTGGTGGTTAAAAG
1 TATTTATCCACTCTTGGTGGTTAAAAG
*
186918 TATTTATCCACTCCTGGTGGATT-AAAG
1 TATTTATCCACTCTTGGTGG-TTAAAAG
* *
186945 TACTTATCCACT-TCTGATGGGTTAAAAG
1 TATTTATCCACTCT-TGGT-GGTTAAAAG
186973 TATT
1 TATT
186977 GATTCACTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
27 39 0.78
28 11 0.22
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (27 bp):
TATTTATCCACTCTTGGTGGTTAAAAG
Found at i:186984 original size:28 final size:27
Alignment explanation
Indices: 186909--186985 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
186899 CACTCTTGGT
* *
186909 GGTTAAAAGTATTTATCCACTCCTGGTG
1 GGTTAAAAGTA-TTATCCACTTCTGATG
*
186937 GATT-AAAGTACTTATCCACTTCTGATG
1 GGTTAAAAGTA-TTATCCACTTCTGATG
*
186964 GGTTAAAAGTATTGATTCACTT
1 GGTTAAAAGTATT-ATCCACTT
186986 TTTGGAACAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 25 0.61
28 16 0.39
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTTAAAAGTATTATCCACTTCTGATG
Found at i:191556 original size:73 final size:73
Alignment explanation
Indices: 191453--191593 Score: 228
Period size: 73 Copynumber: 1.9 Consensus size: 73
191443 CCAAGAGAAA
* *
191453 TTGTTAGTCGACTAAGAGCTTATTACCAAAAATTGGGTTCAGAGATAGAAATGACTTAATCGACT
1 TTGTTAGCCGACTAAGAGCTTATTACCAAAAATTGGGTTCAGAGATAGAAACGACTTAATCGACT
191518 AAGAAGTT
66 AAGAAGTT
** **
191526 TTGTTAGCCGACTAAGAGCTTATTGTCAAAAATTGGGTTCAGAGATAGACGCGACTTAATCGACT
1 TTGTTAGCCGACTAAGAGCTTATTACCAAAAATTGGGTTCAGAGATAGAAACGACTTAATCGACT
191591 AAG
66 AAG
191594 TGGCAATGTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (73 bp):
TTGTTAGCCGACTAAGAGCTTATTACCAAAAATTGGGTTCAGAGATAGAAACGACTTAATCGACT
AAGAAGTT
Found at i:191613 original size:73 final size:73
Alignment explanation
Indices: 191454--191615 Score: 207
Period size: 73 Copynumber: 2.2 Consensus size: 73
191444 CAAGAGAAAT
*
191454 TGTTAGTCGACTAAGAGCTTATTACCAAAAATTGGGTTCAGAGATAGAAATGACTTAATCGACTA
1 TGTTAGTCGACTAAGAGCTTATTACCAAAAATTGGGTTCAGAGATAGAAACGACTTAATCGACTA
***
191519 AGAAGTTT
66 AGAAGCAA
* ** **
191527 TGTTAGCCGACTAAGAGCTTATTGTCAAAAATTGGGTTCAGAGATAGACGCGACTTAATCGACTA
1 TGTTAGTCGACTAAGAGCTTATTACCAAAAATTGGGTTCAGAGATAGAAACGACTTAATCGACTA
**
191592 AGTGGCAA
66 AGAAGCAA
* *
191600 TGTTAATCAACTAAGA
1 TGTTAGTCGACTAAGA
191616 ACATTCTATC
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (73 bp):
TGTTAGTCGACTAAGAGCTTATTACCAAAAATTGGGTTCAGAGATAGAAACGACTTAATCGACTA
AGAAGCAA
Found at i:200546 original size:73 final size:73
Alignment explanation
Indices: 200432--200569 Score: 177
Period size: 73 Copynumber: 1.9 Consensus size: 73
200422 AGAGACAATG
* * *
200432 TTAGTTGACTAAGAGCTTACTGTCAAAAATTGGGTTCAGAGACAGAAACAACTTAATCGACTAAG
1 TTAGTCGACTAAGAGCTTACTGCCAAAAATTGAGTTCAGAGACAGAAACAACTTAATCGACTAAG
200497 AAGTTTTA
66 AAGTTTTA
* * * * * * * *
200505 TTAGTCGACTTAGAGTTTATTGCCAAAAGTTGAGTTTAGAGATAGACACGACTTAATCGACTAAG
1 TTAGTCGACTAAGAGCTTACTGCCAAAAATTGAGTTCAGAGACAGAAACAACTTAATCGACTAAG
200570 TGGCACTGTT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
73 54 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (73 bp):
TTAGTCGACTAAGAGCTTACTGCCAAAAATTGAGTTCAGAGACAGAAACAACTTAATCGACTAAG
AAGTTTTA
Found at i:201940 original size:52 final size:52
Alignment explanation
Indices: 201833--202072 Score: 277
Period size: 52 Copynumber: 4.7 Consensus size: 52
201823 AACATAATTG
* * *
201833 ATTTGGACTTTGGATATTGGTTTGGC-TTGATGTTTGAAGTTGATACATTTG
1 ATTTGGACTTTGGATATTTGTTTGGCTTTGATGTTTGAACTTGATACATTTA
201884 ATTTGGACTTTGGATATTTGTTTGGCTTTGATGTTTGAACTTGATACATTTA
1 ATTTGGACTTTGGATATTTGTTTGGCTTTGATGTTTGAACTTGATACATTTA
** * *
201936 ATTTGGACTTCAGATATTTGTTTGGCTTTGATGTTTGAACTTCACACATTTA
1 ATTTGGACTTTGGATATTTGTTTGGCTTTGATGTTTGAACTTGATACATTTA
* *** * * * * * * * * * *
201988 CTTCAAACTTTGGACAATTGATTGACTTTGTTATTAGAATTTGATATATTTG
1 ATTTGGACTTTGGATATTTGTTTGGCTTTGATGTTTGAACTTGATACATTTA
202040 ATTTGGACTTTGGATATTTGTTTGG-TTTGATGT
1 ATTTGGACTTTGGATATTTGTTTGGCTTTGATGT
202073 ATGACCTTTG
Statistics
Matches: 153, Mismatches: 35, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
51 31 0.20
52 122 0.80
ACGTcount: A:0.22, C:0.08, G:0.21, T:0.48
Consensus pattern (52 bp):
ATTTGGACTTTGGATATTTGTTTGGCTTTGATGTTTGAACTTGATACATTTA
Found at i:202084 original size:14 final size:14
Alignment explanation
Indices: 202065--202098 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
202055 ATTTGTTTGG
*
202065 TTTGATGTATGACC
1 TTTGATGTATGAAC
202079 TTTGATGTATGAAC
1 TTTGATGTATGAAC
202093 TTTGAT
1 TTTGAT
202099 TATTTCATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.09, G:0.21, T:0.47
Consensus pattern (14 bp):
TTTGATGTATGAAC
Found at i:207981 original size:4 final size:4
Alignment explanation
Indices: 207974--208002 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
207964 TATATATATA
207974 TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG T
208003 CACGGGGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:210769 original size:22 final size:20
Alignment explanation
Indices: 210741--210803 Score: 76
Period size: 22 Copynumber: 3.1 Consensus size: 20
210731 TAAACAAAAT
210741 CATATATATATATATATATCTA
1 CATATATATATATATATA-C-A
210763 CATATATATATATATA-ACA
1 CATATATATATATATATACA
* *
210782 CATATATA-AAATATATGCA
1 CATATATATATATATATACA
210801 CAT
1 CAT
210804 TTTGTGCATC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 6 0.16
19 14 0.37
20 1 0.03
21 1 0.03
22 16 0.42
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (20 bp):
CATATATATATATATATACA
Found at i:210797 original size:2 final size:2
Alignment explanation
Indices: 210742--210778 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
210732 AAACAAAATC
* *
210742 AT AT AT AT AT AT AT AT AT CT AC AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
210779 ACACATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:215928 original size:59 final size:59
Alignment explanation
Indices: 215865--215978 Score: 183
Period size: 59 Copynumber: 1.9 Consensus size: 59
215855 CTCTCTAGCC
* * * *
215865 ATAATTGTGTGCCAAAAGATATTGACAAAGGCAACGCCGCCACCTTGAATCTTTTCTCA
1 ATAATCGTGTGCCAAAAGACATTGACAAAGGCAACACCGCCAACTTGAATCTTTTCTCA
*
215924 ATAATCGTGTGCCAAAAGGCATTGACAAAGGCAACACCGCCAACTTGAATCTTTT
1 ATAATCGTGTGCCAAAAGACATTGACAAAGGCAACACCGCCAACTTGAATCTTTT
215979 ACCTATTATA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (59 bp):
ATAATCGTGTGCCAAAAGACATTGACAAAGGCAACACCGCCAACTTGAATCTTTTCTCA
Found at i:215998 original size:2 final size:2
Alignment explanation
Indices: 215991--216023 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
215981 CTATTATAGG
*
215991 TA TA TA TA CA 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 TA TA T
216024 TGAAGAGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:221193 original size:12 final size:12
Alignment explanation
Indices: 221176--221200 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
221166 GCACGTAGGT
221176 GGAGTTCCAAAA
1 GGAGTTCCAAAA
221188 GGAGTTCCAAAA
1 GGAGTTCCAAAA
221200 G
1 G
221201 CAATTCTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.28, T:0.16
Consensus pattern (12 bp):
GGAGTTCCAAAA
Found at i:226120 original size:21 final size:20
Alignment explanation
Indices: 226084--226125 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
226074 ACATATTTAC
226084 TAGTT-AATTTCAGTTATTT
1 TAGTTAAATTTCAGTTATTT
*
226103 TAGTTAAATTTTATGTTATTT
1 TAGTTAAATTTCA-GTTATTT
226124 TA
1 TA
226126 TTTTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 6 0.30
21 9 0.45
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (20 bp):
TAGTTAAATTTCAGTTATTT
Found at i:230229 original size:21 final size:20
Alignment explanation
Indices: 230196--230240 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
230186 TCTTGAGTAG
230196 TTAATTTAAGTTATTTTGGT
1 TTAATTTAAGTTATTTTGGT
* *
230216 TTAATTTTATGTTATTTTGTT
1 TTAA-TTTAAGTTATTTTGGT
230237 TTAA
1 TTAA
230241 ATTACTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.64
Consensus pattern (20 bp):
TTAATTTAAGTTATTTTGGT
Found at i:233613 original size:15 final size:16
Alignment explanation
Indices: 233572--233613 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
233562 ACGATGACGT
233572 TTTTAGCTTTTAAATC
1 TTTTAGCTTTTAAATC
*
233588 TTTTAGTTTTTAAATC
1 TTTTAGCTTTTAAATC
233604 TTTTAG-TTTT
1 TTTTAGCTTTT
233614 GGATTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (16 bp):
TTTTAGCTTTTAAATC
Found at i:234575 original size:80 final size:80
Alignment explanation
Indices: 234352--234598 Score: 293
Period size: 80 Copynumber: 3.1 Consensus size: 80
234342 CATAAGCTCC
* * * * * **
234352 ATTTATGAGATTGT-AATATGCATGCCATGAGATGTATGTGTTGGGATAGTCATATACATTATAA
1 ATTTATGAGGTTATGAA-ATGCATGCCATGAAATGTATGTGTTGAGATAGTCATATACAATATGG
*
234416 GCAAAGCATGTGAGTG
65 GCTAAGCATGTGAGTG
* * *
234432 ATTTATGAGGTTATGAAATGCATTCCAT-AAGATGTATGTGTTTAGATAGTCATATACACTATGG
1 ATTTATGAGGTTATGAAATGCATGCCATGAA-ATGTATGTGTTGAGATAGTCATATACAATATGG
234496 GCTAAGCATGTGAGTG
65 GCTAAGCATGTGAGTG
* * * *
234512 CTTTATGATGTTATGAAATGCATGCCATGAAATGTATGTGTTGATATAGTGATATACAATATGGG
1 ATTTATGAGGTTATGAAATGCATGCCATGAAATGTATGTGTTGAGATAGTCATATACAATATGGG
*
234577 TTAAGCATGATGA-TG
66 CTAAGCATG-TGAGTG
*
234592 ATGTATG
1 ATTTATG
234599 GAGATGTTAC
Statistics
Matches: 143, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 135 0.94
81 7 0.05
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (80 bp):
ATTTATGAGGTTATGAAATGCATGCCATGAAATGTATGTGTTGAGATAGTCATATACAATATGGG
CTAAGCATGTGAGTG
Found at i:248570 original size:19 final size:20
Alignment explanation
Indices: 248543--248585 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
248533 CTATGATTGA
248543 TGTCTTTCACAATGCCCAAG
1 TGTCTTTCACAATGCCCAAG
* *
248563 TGTC-TTCACAATGTCCTAG
1 TGTCTTTCACAATGCCCAAG
248582 TGTC
1 TGTC
248586 AAGTTAGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTCTTTCACAATGCCCAAG
Found at i:249816 original size:100 final size:103
Alignment explanation
Indices: 249637--249819 Score: 273
Period size: 100 Copynumber: 1.8 Consensus size: 103
249627 TTTTCACCCT
249637 TTCTCCTAGTCTCTTTTTTTCGTGAATCAATCAAACAAATTTTTTTCTCTCCAAACCAAAAAACA
1 TTCTCCTAGTCTCTTTTTTTCGTGAATCAATCAAACAAATTTTTTTCTCTCCAAACCAAAAAACA
*
249702 ATACTAAACCCTTTAACTCGTAAAAACTTGAAATCCCC
66 ATACAAAACCCTTTAACTCGTAAAAACTTGAAATCCCC
* * * * *
249740 TTCTCCTATTCTCTTTTTTTC-TTAATCAAT-AAAC-AATTTTTTTCTCTCTAAACCAAACAACT
1 TTCTCCTAGTCTCTTTTTTTCGTGAATCAATCAAACAAATTTTTTTCTCTCCAAACCAAAAAACA
**
249802 ATACAAAATTCTTTAACT
66 ATACAAAACCCTTTAACT
249820 TAGCAAAATT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
100 40 0.56
101 4 0.06
102 8 0.11
103 20 0.28
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.39
Consensus pattern (103 bp):
TTCTCCTAGTCTCTTTTTTTCGTGAATCAATCAAACAAATTTTTTTCTCTCCAAACCAAAAAACA
ATACAAAACCCTTTAACTCGTAAAAACTTGAAATCCCC
Found at i:250065 original size:45 final size:44
Alignment explanation
Indices: 249991--250080 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 44
249981 TTTGAAATCC
**
249991 CTTTCTCTTATCTTTTCCCTTCGTACATGGTTTTCACCCTTTCA
1 CTTTCTCTTATCTTTTCCCTTCACACATGGTTTTCACCCTTTCA
* *
250035 CTTTCTCTTCTCTTTTTCCCTTTACACATGGTTTTCACCCTTTCA
1 CTTTCTCTTATC-TTTTCCCTTCACACATGGTTTTCACCCTTTCA
250080 C
1 C
250081 CTAGTCTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 11 0.27
45 30 0.73
ACGTcount: A:0.11, C:0.33, G:0.06, T:0.50
Consensus pattern (44 bp):
CTTTCTCTTATCTTTTCCCTTCACACATGGTTTTCACCCTTTCA
Found at i:265877 original size:8 final size:7
Alignment explanation
Indices: 265843--265885 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
265833 CCGATCTTTC
265843 CTTTCTT
1 CTTTCTT
*
265850 TTTTCTT
1 CTTTCTT
*
265857 CTTCCTT
1 CTTTCTT
265864 CTTTCTT
1 CTTTCTT
265871 CCTTTCTTT
1 -CTTTC-TT
265880 CTTTCT
1 CTTTCT
265886 CCCTTTCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 18 0.60
8 10 0.33
9 2 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (7 bp):
CTTTCTT
Found at i:265879 original size:4 final size:4
Alignment explanation
Indices: 265837--265897 Score: 56
Period size: 4 Copynumber: 15.8 Consensus size: 4
265827 ACCAAACCGA
* *
265837 TCTT TCCTT TCTT T-TT TC-T TC-T TCCT TCTT TCTT CCTT TCTT TCTT
1 TCTT T-CTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT
* *
265883 TCTC CCTT TCTT TCT
1 TCTT TCTT TCTT TCT
265898 CACTTTGTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
3 9 0.19
4 34 0.72
5 4 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (4 bp):
TCTT
Found at i:265883 original size:16 final size:16
Alignment explanation
Indices: 265840--265897 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
265830 AAACCGATCT
265840 TTCCTTTCTTT-TTTC
1 TTCCTTTCTTTCTTTC
*
265855 TT-C-TTCCTTCTTTC
1 TTCCTTTCTTTCTTTC
265869 TTCCTTTCTTTCTTTC
1 TTCCTTTCTTTCTTTC
*
265885 TCCCTTTCTTTCT
1 TTCCTTTCTTTCT
265898 CACTTTGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
13 5 0.14
14 7 0.19
15 3 0.08
16 22 0.59
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (16 bp):
TTCCTTTCTTTCTTTC
Found at i:271235 original size:9 final size:9
Alignment explanation
Indices: 271182--271244 Score: 60
Period size: 8 Copynumber: 7.1 Consensus size: 9
271172 ATATTTCTTA
271182 AAAATAAA-
1 AAAATAAAT
271190 AAAATAAAT
1 AAAATAAAT
* *
271199 GAAAA-GAAG
1 -AAAATAAAT
271208 AAAAT-AAT
1 AAAATAAAT
271216 AAAATTAAAT
1 AAAA-TAAAT
271226 AAAATAAAT
1 AAAATAAAT
*
271235 AAAAGAAAT
1 AAAATAAAT
271244 A
1 A
271245 TTGAAACTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
8 18 0.39
9 17 0.37
10 11 0.24
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.17
Consensus pattern (9 bp):
AAAATAAAT
Found at i:271243 original size:18 final size:18
Alignment explanation
Indices: 271190--271244 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
271180 TAAAAATAAA
*
271190 AAAATAAATGAAAAG-AAG
1 AAAATAAAT-AAAAGAAAT
*
271208 AAAAT-AATAAAATTAAAT
1 AAAATAAATAAAA-GAAAT
271226 AAAATAAATAAAAGAAAT
1 AAAATAAATAAAAGAAAT
271244 A
1 A
271245 TTGAAACTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 4 0.13
17 3 0.10
18 17 0.55
19 7 0.23
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (18 bp):
AAAATAAATAAAAGAAAT
Found at i:274051 original size:12 final size:13
Alignment explanation
Indices: 274034--274062 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
274024 AGCCTACCCC
274034 TTTTTGAAA-TGT
1 TTTTTGAAATTGT
274046 TTTTTGAAATTGT
1 TTTTTGAAATTGT
274059 TTTT
1 TTTT
274063 ACACATTTTT
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:0.21, C:0.00, G:0.14, T:0.66
Consensus pattern (13 bp):
TTTTTGAAATTGT
Found at i:277571 original size:56 final size:56
Alignment explanation
Indices: 277496--277623 Score: 136
Period size: 56 Copynumber: 2.3 Consensus size: 56
277486 TGAAACTTGG
* * *
277496 TATT-TATATGGCCATCCACTT-GACCAATCA-AATTGCATGCACACTTTCATCCTTT
1 TATTCTATTTGGCCACCCACTTAG-CCAATCACAATT-CATACACACTTTCATCCTTT
* * * *
277551 TATTCTATTTGGCCACCCACTTAGCCAATTACAATTCATACACTCTTTTATCTTTT
1 TATTCTATTTGGCCACCCACTTAGCCAATCACAATTCATACACACTTTCATCCTTT
* *
277607 TATGCTATTTGACCACC
1 TATTCTATTTGGCCACC
277624 TTGCCAATGT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
55 4 0.07
56 52 0.85
57 5 0.08
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.39
Consensus pattern (56 bp):
TATTCTATTTGGCCACCCACTTAGCCAATCACAATTCATACACACTTTCATCCTTT
Found at i:282380 original size:20 final size:19
Alignment explanation
Indices: 282347--282384 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
282337 TTTCTCTATC
*
282347 TAAATAATATAATATTATA
1 TAAATAATAAAATATTATA
282366 TAAATAAATAAAATATTAT
1 TAAAT-AATAAAATATTAT
282385 TTTATTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAATAATAAAATATTATA
Found at i:286823 original size:23 final size:23
Alignment explanation
Indices: 286797--286894 Score: 72
Period size: 23 Copynumber: 4.3 Consensus size: 23
286787 CAAAAATTTG
*
286797 TACTCGCGTGATTTAATATCAAA
1 TACTCGCGTGATTCAATATCAAA
* ** *
286820 TACTCACACGATTCCATATCAAA
1 TACTCGCGTGATTCAATATCAAA
* ** *
286843 TACTCGTGTGATTCCAA-ATTTAG
1 TACTCGCGTGATT-CAATATCAAA
* * *
286866 TACTCACCTGATTCCATATCAAA
1 TACTCGCGTGATTCAATATCAAA
286889 TACTCG
1 TACTCG
286895 TAGGAATCAA
Statistics
Matches: 52, Mismatches: 21, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
22 2 0.04
23 48 0.92
24 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (23 bp):
TACTCGCGTGATTCAATATCAAA
Found at i:286847 original size:46 final size:46
Alignment explanation
Indices: 286797--286894 Score: 119
Period size: 46 Copynumber: 2.1 Consensus size: 46
286787 CAAAAATTTG
*
286797 TACTCGCGTGATT-TAATATCAAATACTCACAC-GATTCCATATCAAA
1 TACTCGCGTGATTCCAA-ATCAAATACTCAC-CTGATTCCATATCAAA
* ** *
286843 TACTCGTGTGATTCCAAATTTAGTACTCACCTGATTCCATATCAAA
1 TACTCGCGTGATTCCAAATCAAATACTCACCTGATTCCATATCAAA
286889 TACTCG
1 TACTCG
286895 TAGGAATCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
45 1 0.02
46 42 0.93
47 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (46 bp):
TACTCGCGTGATTCCAAATCAAATACTCACCTGATTCCATATCAAA
Found at i:286908 original size:69 final size:69
Alignment explanation
Indices: 286781--286910 Score: 154
Period size: 69 Copynumber: 1.9 Consensus size: 69
286771 AACTACTCAC
* * * * *
286781 GTGATTCAAAAATTTGTACTCGCGTGATTTAATATCAAATACTCACACGATTCCATATCAAATAC
1 GTGATTCAAAAATTTGTACTCACCTGATTCAATATCAAATACTCACACGAATCAATATCAAATAC
286846 TCGT
66 TCGT
* * ** *
286850 GTGATTC-CAAATTTAGTACTCACCTGATTCCATATCAAATACTCGTAGGAATCAATATCAA
1 GTGATTCAAAAATTT-GTACTCACCTGATTCAATATCAAATACTCACACGAATCAATATCAA
286911 CTGGTGATGT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
68 6 0.12
69 44 0.88
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (69 bp):
GTGATTCAAAAATTTGTACTCACCTGATTCAATATCAAATACTCACACGAATCAATATCAAATAC
TCGT
Found at i:287223 original size:15 final size:15
Alignment explanation
Indices: 287203--287232 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
287193 TTTATTTGGC
287203 ATTACGTGACTGAAT
1 ATTACGTGACTGAAT
*
287218 ATTACGTTACTGAAT
1 ATTACGTGACTGAAT
287233 TTTTGTTGAG
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:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (15 bp):
ATTACGTGACTGAAT
Found at i:287353 original size:27 final size:28
Alignment explanation
Indices: 287315--287368 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
287305 CCACTGATTC
287315 AACCAATTCAG-CCCCTTAATTGCACTG
1 AACCAATTCAGCCCCCTTAATTGCACTG
287342 AACCAATTCAGCCCCCTTAATTGCACT
1 AACCAATTCAGCCCCCTTAATTGCACT
287369 TATATCGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 11 0.42
28 15 0.58
ACGTcount: A:0.30, C:0.35, G:0.09, T:0.26
Consensus pattern (28 bp):
AACCAATTCAGCCCCCTTAATTGCACTG
Found at i:287895 original size:21 final size:22
Alignment explanation
Indices: 287870--287919 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
287860 ACTTGGTTTA
* *
287870 TTTTTATTTTTTATAT-TATTG
1 TTTTTATTTTCTATATCTATTC
*
287891 TTTTTATTTTCTATTTCTATTC
1 TTTTTATTTTCTATATCTATTC
287913 TTTTTAT
1 TTTTTAT
287920 ATTAGAGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTTATTTTCTATATCTATTC
Found at i:288228 original size:23 final size:23
Alignment explanation
Indices: 288201--288270 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
288191 GTAACACGCA
288201 TCCATATTTACTACTCACGCGAT
1 TCCATATTTACTACTCACGCGAT
* *
288224 TCCATATTTACGA-GCAGCGCGAT
1 TCCATATTTACTACTCA-CGCGAT
*
288247 TCCA-ATTCTATTACTCACGCGAT
1 TCCATATT-TACTACTCACGCGAT
288270 T
1 T
288271 GGATATTAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 5 0.13
23 32 0.82
24 2 0.05
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.33
Consensus pattern (23 bp):
TCCATATTTACTACTCACGCGAT
Found at i:288468 original size:69 final size:69
Alignment explanation
Indices: 288378--288557 Score: 191
Period size: 69 Copynumber: 2.6 Consensus size: 69
288368 TTACTAGGAA
* * * * *
288378 CGTGATTCCAAT-TCTATTACTCACACGAATGAATATTAACTACTCACGTGATTCAAAATTTTGT
1 CGTGATT-CAATATCAAATACTCACACGAATCAATATCAACTACTCACGTGATTCAAAATTTAGT
*
288442 ATTCG
65 ACTCG
* * * * * ** *
288447 CGTGATTCTATATCAAATACTCGCACGATTCCATATCAAATACTTGCGTGATTCCAAATTTAGTA
1 CGTGATTCAATATCAAATACTCACACGAATCAATATCAACTACTCACGTGATTCAAAATTTAGTA
288512 CTCG
66 CTCG
* **
288516 CGTGATTCAATATCAAATAGTCACGGGAATCAATATCAACTA
1 CGTGATTCAATATCAAATACTCACACGAATCAATATCAACTA
288558 GTGATGCGAT
Statistics
Matches: 88, Mismatches: 22, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
68 3 0.03
69 85 0.97
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (69 bp):
CGTGATTCAATATCAAATACTCACACGAATCAATATCAACTACTCACGTGATTCAAAATTTAGTA
CTCG
Found at i:288470 original size:23 final size:23
Alignment explanation
Indices: 288444--288534 Score: 101
Period size: 23 Copynumber: 4.0 Consensus size: 23
288434 AATTTTGTAT
*
288444 TCGCGTGATTCTATATCAAATAC
1 TCGCGTGATTCCATATCAAATAC
**
288467 TCGCACGATTCCATATCAAATAC
1 TCGCGTGATTCCATATCAAATAC
* * ** *
288490 TTGCGTGATTCCAAATTTAGTAC
1 TCGCGTGATTCCATATCAAATAC
*
288513 TCGCGTGATTCAATATCAAATA
1 TCGCGTGATTCCATATCAAATA
288535 GTCACGGGAA
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (23 bp):
TCGCGTGATTCCATATCAAATAC
Found at i:290860 original size:24 final size:24
Alignment explanation
Indices: 290833--290882 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
290823 CAGGACATTT
* * *
290833 GCAGCAAGAGTAGCAGCATCAAGA
1 GCAGCAAAAGAAGAAGCATCAAGA
*
290857 GCAGCAAAAGAAGAAGCATGAAGA
1 GCAGCAAAAGAAGAAGCATCAAGA
290881 GC
1 GC
290883 CGTAGGAGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.18, G:0.30, T:0.06
Consensus pattern (24 bp):
GCAGCAAAAGAAGAAGCATCAAGA
Found at i:293128 original size:26 final size:26
Alignment explanation
Indices: 293091--293169 Score: 97
Period size: 25 Copynumber: 3.1 Consensus size: 26
293081 ACATATCAAC
293091 CAGTCACGCAATGTTAAACCCTATTG
1 CAGTCACGCAATGTTAAACCCTATTG
* * * *
293117 TAGTCACACAATATT-AATCCTATTG
1 CAGTCACGCAATGTTAAACCCTATTG
* *
293142 CAGTCACGCAATGTTAACCCCTACTG
1 CAGTCACGCAATGTTAAACCCTATTG
293168 CA
1 CA
293170 TTCATGCAGA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
25 21 0.50
26 21 0.50
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (26 bp):
CAGTCACGCAATGTTAAACCCTATTG
Found at i:303606 original size:58 final size:57
Alignment explanation
Indices: 303530--303649 Score: 186
Period size: 58 Copynumber: 2.1 Consensus size: 57
303520 AGGGTTTCAT
* *
303530 CTTTGCATGCATAACATTTATTAAATTGCATAAAATAAATTTATAACATGCATACTA
1 CTTTGCATGCATAACATTTATTAAATTGCATAAAATAAATCTATAACATGCAAACTA
* * *
303587 TTTTGCATTGCATAGCATTTATTAAATTGCATAAAATAAATCTATCACATGCAAACTA
1 CTTTGCA-TGCATAACATTTATTAAATTGCATAAAATAAATCTATAACATGCAAACTA
303645 CTTTG
1 CTTTG
303650 GATGATTATG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
57 6 0.11
58 50 0.89
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (57 bp):
CTTTGCATGCATAACATTTATTAAATTGCATAAAATAAATCTATAACATGCAAACTA
Found at i:309296 original size:22 final size:22
Alignment explanation
Indices: 309268--309315 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
309258 ATATATTTTT
*
309268 ATTAAGATAAACTTACTCATTA
1 ATTAAGATAAAATTACTCATTA
309290 ATTAAGATAAAATTACTCATTA
1 ATTAAGATAAAATTACTCATTA
309312 ATTA
1 ATTA
309316 GGCTGGAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (22 bp):
ATTAAGATAAAATTACTCATTA
Found at i:310293 original size:22 final size:22
Alignment explanation
Indices: 310268--310320 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
310258 TTTTTAATGT
310268 AAATAAAAAT-TAAA-AGATTAAA
1 AAATAAAAATATAAATAGA--AAA
* *
310290 AAATAGAAATATAAATAGAGAA
1 AAATAAAAATATAAATAGAAAA
310312 AAATAAAAA
1 AAATAAAAA
310321 GAAATTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 19 0.73
23 4 0.15
24 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.19
Consensus pattern (22 bp):
AAATAAAAATATAAATAGAAAA
Found at i:322156 original size:170 final size:167
Alignment explanation
Indices: 321858--322607 Score: 588
Period size: 170 Copynumber: 4.4 Consensus size: 167
321848 NNNNNNNNNN
* * * ** * **
321858 TTCCTAAGCCAAACATTCAAATATAATTTGTTTTAATTAAAAATGTAAAACAATTC-AGCCCAAA
1 TTCCTAAGACAAACATTCAAATATAATCTATTTTAACCAAAAATATAAAA-AATTCAAG-TTAAA
* * **
321922 ATCAATTATAAGATTATAAAACCATTTAGAGCG-AGTAAGAAAGCTTTTGAAGGCATAAGTGACT
64 ATCAATTATGAGATTATAAAACCATTTA-AG-GTAGTAAGAAGGCTTTCAAAGGCAT-AGTGACT
*
321986 ATAGATGGACTTTTCTTATCAATGAATAGCTTTTCTTCATGT
126 ATAGATGGACTTTTCTTATCAATGAATAGCTTTTCTTCACGT
** * *
322028 TTTTTAAGGCAAACATTCAAATATTATCTATTTTAACCAAAAATATAAAAAAGTTCAAGTTAAAA
1 TTCCTAAGACAAACATTCAAATATAATCTATTTTAACCAAAAATATAAAAAA-TTCAAGTTAAAA
* * * *
322093 TCAATTATGAGATTATAAAACTATTTAAGGTAAGCAACAAGGCTTTCAAAGGCTTCAGTGACTAT
65 TCAATTATGAGATTATAAAACCATTTAAGGT-AGTAAGAAGGCTTTCAAAGGCAT-AGTGACTAT
* * *
322158 A-AGTGGGCTTTTCTTA-CTAATGGATGGCTTTTTCTTCACGT
128 AGA-TGGACTTTTCTTATC-AATGAATAGC-TTTTCTTCACGT
* * * * * * * * *
322199 TTTCTAATATAGACATTCAATTATAATATATTTTAACCCAAAATGTAAAATAATTCAACTTAAAA
1 TTCCTAAGACAAACATTCAAATATAATCTATTTTAACCAAAAATATAAAA-AATTCAAGTTAAAA
* * * * * * *
322264 TGAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAATGCTTTCGAA-GCTATGAATGATTA
65 TCAATTATGAGATTATAAAACCATTTAAGGT-AGTAAGAAGGCTTTCAAAGGC-AT-AGTGACTA
* * * * * * *
322328 TAAATGGACTTTTC-TCTCAGTGGATGGCTTTTGCTTTATGT
127 TAGATGGACTTTTCTTATCAATGAATAGCTTTT-CTTCACGT
* * * *
322369 TTCCT--GACTTATACATTCAAATATAATTTATTTTAACTAAAAATGAAAAAAAAATT--AGCTT
1 TTCCTAAGAC--AAACATTCAAATATAATCTATTTTAACCAAAAAT--ATAAAAAATTCAAG-TT
* * * * * * *
322430 AAAATTAATTCTGAGATTATAAAATCATTTAAAACGT-GTAAGAAGGTTTTTAAAGACATAGGTG
61 AAAATCAATTATGAGATTATAAAACCATTT--AAGGTAGTAAGAAGGCTTTCAAAGGCATA-GTG
* * *
322494 ACTATAGATGGACTTTTCTTGTCAATGAATAACGTTTCTTCACGT
123 ACTATAGATGGACTTTTCTTATCAATGAATAGCTTTTCTTCACGT
* * * * *
322539 TT-CTCGAGACAAACATTCAAATATTATCTATTTTAACCAAAGAGATAAAAAAGTTCAACTTAAA
1 TTCCT-AAGACAAACATTCAAATATAATCTATTTTAACCAAAAATATAAAAAA-TTCAAGTTAAA
322603 ATCAA
64 ATCAA
322608 GAAAAAATTG
Statistics
Matches: 459, Mismatches: 93, Indels: 56
0.75 0.15 0.09
Matches are distributed among these distances:
168 9 0.02
169 16 0.03
170 277 0.60
171 143 0.31
172 14 0.03
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (167 bp):
TTCCTAAGACAAACATTCAAATATAATCTATTTTAACCAAAAATATAAAAAATTCAAGTTAAAAT
CAATTATGAGATTATAAAACCATTTAAGGTAGTAAGAAGGCTTTCAAAGGCATAGTGACTATAGA
TGGACTTTTCTTATCAATGAATAGCTTTTCTTCACGT
Found at i:322512 original size:341 final size:339
Alignment explanation
Indices: 321870--322513 Score: 710
Period size: 341 Copynumber: 1.9 Consensus size: 339
321860 CCTAAGCCAA
* * ** *
321870 ACATTCAAATATAATTTGTTTTAATTAAAAATGTAAAACAATTCAGCCCAAAATCAATTATAAGA
1 ACATTCAAATATAATATATTTTAACCAAAAATGTAAAACAATTCAACCCAAAATCAATTATAAGA
* * *
321935 TTATAAAACCATTTAGAGCGAGTAAGAAAGCTTTTGAAGGCATAAGTGACTATAGATGGACTTTT
66 TTATAAAACCATTTAAAGCGAGTAAGAAAGCTTTCGAAGGCATAAGTGACTATAAATGGACTTTT
** * *
322000 CTTATCAATGAATAGCTTTTCTTCATGTTTTTTAAGGCAAACATTCAAATATTATCTATTTTAAC
131 CTTATCAATGAATAGCTTTTCTTCATGTTTCCTAACGCAAACATTCAAATATAATCTATTTTAAC
* * *
322065 CAAAAATATAAAAAAGTTCAAGTTAAAATCAATTATGAGATTATAAAACTATTTAAGGTAAGCAA
196 CAAAAATAAAAAAAAATT-AAGTTAAAATCAATTATGAGATTATAAAACTATTTAACGT-AGCAA
* * *
322130 CAAGGCTTTCAAAGGCTTCAGTGACTATAAGTGGGCTTTTCTTACTAATGGATGGCTTTTTCTTC
259 CAAGGCTTTCAAAGACATCAGTGACTATAAGTGGACTTTTCTTACTAATGGATGGCTTTTTCTTC
322195 ACGTTTTCTAATATAG
324 ACGTTTTCTAATATAG
* * * ** * *
322211 ACATTCAATTATAATATATTTTAACCCAAAATGTAAAATAATTCAACTTAAAATGAATTATGAGA
1 ACATTCAAATATAATATATTTTAACCAAAAATGTAAAACAATTCAACCCAAAATCAATTATAAGA
* * * *
322276 TTATAAAACCATTTAAAGTGAGTAATAATGCTTTCGAA-GCTATGAA-TGATTATAAATGGACTT
66 TTATAAAACCATTTAAAGCGAGTAAGAAAGCTTTCGAAGGC-AT-AAGTGACTATAAATGGACTT
* * * * * * ** * *
322339 TTC-TCTCAGTGGATGGCTTTTGCTTTATGTTTCCTGACTTATACATTCAAATATAATTTATTTT
129 TTCTTATCAATGAATAGCTTTT-CTTCATGTTTCCTAACGCAAACATTCAAATATAATCTATTTT
* * *
322403 AACTAAAAATGAAAAAAAAATT-AGCTTAAAATTAATTCTGAGATTATAAAA-TCATTTAAAACG
193 AACCAAAAAT-AAAAAAAAATTAAG-TTAAAATCAATTATGAGATTATAAAACT-ATTT--AACG
* * * *
322466 T-GTAAGAAGGTTTTTAAAGACAT-AGGTGACTAT-AGATGGACTTTTCTT
253 TAGCAACAAGGCTTTCAAAGACATCA-GTGACTATAAG-TGGACTTTTCTT
322514 GTCAATGAAT
Statistics
Matches: 247, Mismatches: 46, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
340 22 0.09
341 210 0.85
342 11 0.04
343 4 0.02
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (339 bp):
ACATTCAAATATAATATATTTTAACCAAAAATGTAAAACAATTCAACCCAAAATCAATTATAAGA
TTATAAAACCATTTAAAGCGAGTAAGAAAGCTTTCGAAGGCATAAGTGACTATAAATGGACTTTT
CTTATCAATGAATAGCTTTTCTTCATGTTTCCTAACGCAAACATTCAAATATAATCTATTTTAAC
CAAAAATAAAAAAAAATTAAGTTAAAATCAATTATGAGATTATAAAACTATTTAACGTAGCAACA
AGGCTTTCAAAGACATCAGTGACTATAAGTGGACTTTTCTTACTAATGGATGGCTTTTTCTTCAC
GTTTTCTAATATAG
Found at i:324006 original size:26 final size:24
Alignment explanation
Indices: 323977--324035 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
323967 TGAATAGACA
*
323977 TGTAACAACTTTTTTTAACCATGATG
1 TGTAACAACTTTTTGT-A-CATGATG
*
324003 TGTAACATA-TTTTTGTACATGGTG
1 TGTAACA-ACTTTTTGTACATGATG
324027 TGTAACAAC
1 TGTAACAAC
324036 AGTATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 1 0.03
24 13 0.45
25 1 0.03
26 13 0.45
27 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (24 bp):
TGTAACAACTTTTTGTACATGATG
Found at i:324073 original size:82 final size:82
Alignment explanation
Indices: 323977--324129 Score: 252
Period size: 82 Copynumber: 1.9 Consensus size: 82
323967 TGAATAGACA
* * * *
323977 TGTAACAACTTTTTTTAACCATGATGTGTAACATATTTTTGTACATGGTGTGTAACAACAGTATT
1 TGTAACAACCTTTTTTAACCATGATATGTAACATATTTTGGTACATGGCGTGTAACAACAGTATT
324042 TTTTTTTCAATGTGGTG
66 TTTTTTTCAATGTGGTG
* *
324059 TGTAACAACCTTTTTTAACTATGGTATGTAACATATTTTGGTACATGGCGTGTAACAACAGTATT
1 TGTAACAACCTTTTTTAACCATGATATGTAACATATTTTGGTACATGGCGTGTAACAACAGTATT
324124 TTTTTT
66 TTTTTT
324130 AACATGGCAT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 65 1.00
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.44
Consensus pattern (82 bp):
TGTAACAACCTTTTTTAACCATGATATGTAACATATTTTGGTACATGGCGTGTAACAACAGTATT
TTTTTTTCAATGTGGTG
Found at i:324178 original size:75 final size:79
Alignment explanation
Indices: 323990--324188 Score: 226
Period size: 82 Copynumber: 2.5 Consensus size: 79
323980 AACAACTTTT
* * **
323990 TTTAACCATGATGTGTAACATATTTTTGTACATGGTGTGTAACAACAGTATTTTTTTTTCAATGT
1 TTTAACCATGGTGTGTAACATATTTTTGTACATGGCGTGTAACAACAGTATTTTTTTTTCAACAT
** *
324055 GGTGTGTAACAACC
66 GGCATATAACAACC
* * *
324069 TTTTTTAACTATGGTATGTAACATATTTTGGTACATGGCGTGTAACAACAGTA-TTTTTTTT-AA
1 ---TTTAACCATGGTGTGTAACATATTTTTGTACATGGCGTGTAACAACAGTATTTTTTTTTCAA
324132 CATGGCATATAACAA-C
63 CATGGCATATAACAACC
* * *
324148 -TTAACCATGGCGTGTAACATGTTTTTGTACATAGCGTGTAA
1 TTTAACCATGGTGTGTAACATATTTTTGTACATGGCGTGTAA
324189 TTTCATTAAG
Statistics
Matches: 101, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
75 35 0.35
79 1 0.01
80 12 0.12
81 8 0.08
82 45 0.45
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (79 bp):
TTTAACCATGGTGTGTAACATATTTTTGTACATGGCGTGTAACAACAGTATTTTTTTTTCAACAT
GGCATATAACAACC
Found at i:324629 original size:14 final size:14
Alignment explanation
Indices: 324604--324637 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
324594 TATTATTTTA
*
324604 AATTTTAGTTAATT
1 AATTTTAATTAATT
*
324618 AGTTTTAATTAATT
1 AATTTTAATTAATT
324632 AATTTT
1 AATTTT
324638 GAGTGTTTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (14 bp):
AATTTTAATTAATT
Found at i:325096 original size:82 final size:80
Alignment explanation
Indices: 324944--325113 Score: 225
Period size: 82 Copynumber: 2.1 Consensus size: 80
324934 CATGGTTAGA
* * ** * * *
324944 TTGTTACATGCGAAGTTAAAAAAAATACTGTTTTTACACGTCATGTACCAAAATATGTTATACGT
1 TTGTTACATGCCAAGTTAAAAAAAATACTGTTGTTACACACCATATACCAAAATATGTTACACGC
325009 CATGGTTAAAAAAAG
66 CATGGTTAAAAAAAG
*
325024 TTGTTACATGCCATGTTGAAAACAAAAATACTGTTGTTACACACCATATA-CAAAATATGTTACA
1 TTGTTACATGCCAAGTT--AAA-AAAAATACTGTTGTTACACACCATATACCAAAATATGTTACA
*
325088 CGCCATGGTTAAAAAAGG
63 CGCCATGGTTAAAAAAAG
325106 TTGTTACA
1 TTGTTACA
325114 CGATATATTT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 15 0.19
82 40 0.51
83 23 0.29
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (80 bp):
TTGTTACATGCCAAGTTAAAAAAAATACTGTTGTTACACACCATATACCAAAATATGTTACACGC
CATGGTTAAAAAAAG
Found at i:326506 original size:83 final size:80
Alignment explanation
Indices: 326370--326540 Score: 234
Period size: 83 Copynumber: 2.1 Consensus size: 80
326360 CATGGTTAGA
* * *** * * *
326370 TTGTTACATGCGAAGTTAAAAAAAATACTGTTTTTACATGTCATGTACCAAAATATGTTATACGT
1 TTGTTACATGCCAAGTTAAAAAAAATACTGTTGTTACACACCATGTACAAAAATATGTTACACGC
326435 CATGGTTAAAAAAGG
66 CATGGTTAAAAAAGG
*
326450 TTGTTACATGCCATGTTGAAAACAAAAATACTGTTGTTACACACCATGTACAAAAATATGTTACA
1 TTGTTACATGCCAAGTT--AAA-AAAAATACTGTTGTTACACACCATGTACAAAAATATGTTACA
326515 CGCCATGGTTAAAAAAGG
63 CGCCATGGTTAAAAAAGG
326533 TTGTTACA
1 TTGTTACA
326541 CGGCATATTT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 15 0.19
82 3 0.04
83 61 0.77
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (80 bp):
TTGTTACATGCCAAGTTAAAAAAAATACTGTTGTTACACACCATGTACAAAAATATGTTACACGC
CATGGTTAAAAAAGG
Found at i:332769 original size:15 final size:15
Alignment explanation
Indices: 332751--332784 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
332741 GTTGATTTCA
332751 TTAAAAATAATTTAT
1 TTAAAAATAATTTAT
*
332766 TTAAAAATAATTTTT
1 TTAAAAATAATTTAT
332781 TTAA
1 TTAA
332785 TTAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAAAAATAATTTAT
Found at i:333311 original size:22 final size:22
Alignment explanation
Indices: 333259--333311 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
333249 GTATTGCATT
*
333259 ATTGGTTTTTAGATATAGTGAC
1 ATTGGTTTTTAGATATAGTGAA
* * *
333281 ACTGGTTTTTAGGTATTGTGAA
1 ATTGGTTTTTAGATATAGTGAA
*
333303 ATTGATTTT
1 ATTGGTTTT
333312 AAGTATTACG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.49
Consensus pattern (22 bp):
ATTGGTTTTTAGATATAGTGAA
Found at i:333466 original size:23 final size:22
Alignment explanation
Indices: 333415--333476 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
333405 ACAATGTCTA
**
333415 AGTCACACAATGCCTTATTAACT
1 AGTCACACAATG-CTTACAAACT
* *
333438 AATCACACAATGTCTTACAAATT
1 AGTCACACAATG-CTTACAAACT
*
333461 AGTCACGCAATGCTTA
1 AGTCACACAATGCTTA
333477 TCAATCAGGC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 4 0.12
23 28 0.88
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (22 bp):
AGTCACACAATGCTTACAAACT
Found at i:336925 original size:11 final size:10
Alignment explanation
Indices: 336911--336944 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
336901 TTTGATCATC
*
336911 TTTTTTCTCT
1 TTTTTTTTCT
336921 TTTTTTTTCT
1 TTTTTTTTCT
336931 TTTTTCTTTCT
1 TTTTT-TTTCT
336942 TTT
1 TTT
336945 GCATTCCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:336926 original size:12 final size:11
Alignment explanation
Indices: 336911--336944 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
336901 TTTGATCATC
336911 TTTTTTCTCTTT
1 TTTTTTCT-TTT
336923 TTTTTTCTTTT
1 TTTTTTCTTTT
*
336934 TTCTTTCTTTT
1 TTTTTTCTTTT
336945 GCATTCCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:340454 original size:31 final size:31
Alignment explanation
Indices: 340419--340579 Score: 75
Period size: 31 Copynumber: 5.2 Consensus size: 31
340409 TAGGTTTGAT
340419 CTCTTTTTGTGCCAACGTAACTGGACTTATA
1 CTCTTTTTGTGCCAACGTAACTGGACTTATA
* * * *
340450 CTC-TTTCGATGTC-A-GTTAAATTGGGCTTGA-A
1 CTCTTTTTG-TGCCAACG-T-AACTGGACTT-ATA
* *
340481 CTCCTTTTGTGTCAACGTAACTGGACTTATA
1 CTCTTTTTGTGCCAACGTAACTGGACTTATA
* * * * *
340512 CT-TCTTAGATGCC-A-GTTAAAGTGGGCTTAAA
1 CTCTTTTTG-TGCCAACG-T-AACTGGACTTATA
* * *
340543 CTCCTTTTATGCCAACGTAACTTGACTTATA
1 CTCTTTTTGTGCCAACGTAACTGGACTTATA
340574 CATCTT
1 C-TCTT
340580 GGATGCTAGA
Statistics
Matches: 92, Mismatches: 23, Indels: 29
0.64 0.16 0.20
Matches are distributed among these distances:
29 2 0.02
30 12 0.13
31 62 0.67
32 14 0.15
33 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (31 bp):
CTCTTTTTGTGCCAACGTAACTGGACTTATA
Found at i:340735 original size:62 final size:61
Alignment explanation
Indices: 340279--340734 Score: 409
Period size: 62 Copynumber: 7.4 Consensus size: 61
340269 TGGAGTCTAT
* * * * * * *
340279 TTAAATTAGACTTAAACTATTTTTGTGTCAACGTAATTGGACTTATACTCCATCGATGCTAG
1 TTAAATTGGGCTTAAACTCTTTTTGTGTCAACGTAACTGGACTTATACTTCTTAGATGC-AG
* * * * * * *
340341 TTAAATTGGGCTTGAACTCCTTTTGTGTCAATGTAACTGGATTTATA-TTGTTTTGATGTCAA
1 TTAAATTGGGCTTAAACTCTTTTTGTGTCAACGTAACTGGACTTATACTT-CTTAGATG-CAG
* * * * * *
340403 TTAAATTAGGTTTGATCTCTTTTTGTGCCAACGTAACTGGACTTATAC-TCTTTCGATGTCAG
1 TTAAATTGGGCTTAAACTCTTTTTGTGTCAACGTAACTGGACTTATACTTC-TTAGATG-CAG
* *
340465 TTAAATTGGGCTTGAACTCCTTTTGTGTCAACGTAACTGGACTTATACTTCTTAGATGCCAG
1 TTAAATTGGGCTTAAACTCTTTTTGTGTCAACGTAACTGGACTTATACTTCTTAGATG-CAG
* * * * * * *
340527 TTAAAGTGGGCTTAAACTCCTTTTATGCCAACGTAACTTGACTTATACATCTTGGATGCTAG
1 TTAAATTGGGCTTAAACTCTTTTTGTGTCAACGTAACTGGACTTATACTTCTTAGATGC-AG
* * ** * * * *
340589 ATAAATTGGGCTTAAA-TCTTTTTGTG-CTAACATAGGTAGACTTAAACATCTTGGATGCTAG
1 TTAAATTGGGCTTAAACTCTTTTTGTGTC-AACGTAACTGGACTTATACTTCTTAGATGC-AG
* ** *
340650 TTAAATTGGGCTTAAACTTTTTTTGTGTCAATATAACTGGACTTATACTTCTTAGATGTCAA
1 TTAAATTGGGCTTAAACTCTTTTTGTGTCAACGTAACTGGACTTATACTTCTTAGATG-CAG
*
340712 TTCAATTGGGCTTAAA-TCTTTTT
1 TTAAATTGGGCTTAAACTCTTTTT
340735 TTGTGCNNNN
Statistics
Matches: 326, Mismatches: 58, Indels: 21
0.80 0.14 0.05
Matches are distributed among these distances:
60 1 0.00
61 59 0.18
62 261 0.80
63 5 0.02
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (61 bp):
TTAAATTGGGCTTAAACTCTTTTTGTGTCAACGTAACTGGACTTATACTTCTTAGATGCAG
Found at i:340842 original size:62 final size:61
Alignment explanation
Indices: 340776--340994 Score: 104
Period size: 61 Copynumber: 3.6 Consensus size: 61
340766 AGATGCTAGC
* * * * **
340776 TAAATTGGGCTTACACTTTTTTTGTGTCAATGTAATTGGACTTATACTTTTTGAATGCCAAC
1 TAAATTGGGCTTA-ACTCTTTTTGTGTCAACGTAACTGGACTTATACTTCTTGAATGCCAGT
* * * ** ** * * * *
340838 TAAATTAGGCGTAA-TCATCTTTGTACCAATATAACTAGG-CTTAAACGTCTTGGATGTCAGT
1 TAAATTGGGCTTAACTC-TTTTTGTGTCAACGTAACT-GGACTTATACTTCTTGAATGCCAGT
* * * * * * *
340899 TAAATTAGGTTTAA-TCATTTTTGTGTCAATGTAACTAGATTTATACATCTT-AGATGCCAGC
1 TAAATTGGGCTTAACTC-TTTTTGTGTCAACGTAACTGGACTTATACTTCTTGA-ATGCCAGT
* * * *
340960 TAAATTGGCCTTGAACTCCTTTTGTGCCAATGTAA
1 TAAATTGGGCTT-AACTCTTTTTGTGTCAACGTAA
340995 TTGNNNNNNN
Statistics
Matches: 118, Mismatches: 33, Indels: 12
0.72 0.20 0.07
Matches are distributed among these distances:
60 2 0.02
61 84 0.71
62 30 0.25
63 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (61 bp):
TAAATTGGGCTTAACTCTTTTTGTGTCAACGTAACTGGACTTATACTTCTTGAATGCCAGT
Found at i:340964 original size:61 final size:60
Alignment explanation
Indices: 340794--340965 Score: 164
Period size: 61 Copynumber: 2.8 Consensus size: 60
340784 GCTTACACTT
* * * * *
340794 TTTTTGTGTCAATGTAATTGGACTTATACTTTTTGAATGCCAACTAAATTAGGCGTAATCA
1 TTTTTGTGTCAATGTAACTAGACTTATACTCTTAG-ATGCCAGCTAAATTAGGCGTAATCA
* ** * * * * * * **
340855 TCTTTGTACCAATATAACTAGGCTTAAACGTCTTGGATGTCAGTTAAATTAGGTTTAATCA
1 TTTTTGTGTCAATGTAACTAGACTTATAC-TCTTAGATGCCAGCTAAATTAGGCGTAATCA
*
340916 TTTTTGTGTCAATGTAACTAGATTTATACATCTTAGATGCCAGCTAAATT
1 TTTTTGTGTCAATGTAACTAGACTTATAC-TCTTAGATGCCAGCTAAATT
340966 GGCCTTGAAC
Statistics
Matches: 84, Mismatches: 26, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
61 80 0.95
62 4 0.05
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (60 bp):
TTTTTGTGTCAATGTAACTAGACTTATACTCTTAGATGCCAGCTAAATTAGGCGTAATCA
Found at i:341203 original size:62 final size:61
Alignment explanation
Indices: 341101--341577 Score: 361
Period size: 62 Copynumber: 7.8 Consensus size: 61
341091 NNNNNNNAAC
* * * * * *
341101 GTAACTAGACTTATACTTCTTGGATGTCAGTTAAAGTGGGCTTAAACTCTTTTTGTGCTAAT
1 GTAACTAGACTTATACATCTTGGATGCCAGATAAATTGGGCTTAAA-TCTCTTTGTGCCAAT
* * * *
341163 ATAACTAGACTTATACATCTTGGATGCCAGATAAATTGGGCTTAAATCTCTCTGTGCTAAC
1 GTAACTAGACTTATACATCTTGGATGCCAGATAAATTGGGCTTAAATCTCTTTGTGCCAAT
* ** * * * * ********* *
341224 ATAGGTAGGCTTAAACATCTTGGATGCTAGTTAAATTGGGCTTANNNNNNNNNNGTGCCAAC
1 GTAACTAGACTTATACATCTTGGATGCCAGATAAATTGGGCTTA-AATCTCTTTGTGCCAAT
* * * * * * * *
341286 GTAACTAGGCTTAAATATTTTAGATGCTAGCTAAATTGGGCTTAAACTCTTTTTGTGCCAAT
1 GTAACTAGACTTATACATCTTGGATGCCAGATAAATTGGGCTTAAA-TCTCTTTGTGCCAAT
* *
341348 GTAACTGGACTTATACTTCTTGGATGCCA-ACTAAATTGGGCTT-AATCATCTTTGTGCCAAT
1 GTAACTAGACTTATACATCTTGGATGCCAGA-TAAATTGGGCTTAAATC-TCTTTGTGCCAAT
* * * * * *
341409 ATAACTGGGCTTAAACATTTTGGATGCCAGCA-AAATTGGGCTT-AATCATCTTTGTGCCAAC
1 GTAACTAGACTTATACATCTTGGATGCCAG-ATAAATTGGGCTTAAATC-TCTTTGTGCCAAT
* * * * *
341470 GTAACTAGACTTATACATCTTAGATGCCAGCTAAATTGGCCTTGAA-CTCCTTTTGTTCCAAT
1 GTAACTAGACTTATACATCTTGGATGCCAGATAAATTGGGCTTAAATCT-C-TTTGTGCCAAT
* * * * *
341532 GTAATTGGACTTATACTTCTTGGATGCCAGTTAAATTGGGTTTAAA
1 GTAACTAGACTTATACATCTTGGATGCCAGATAAATTGGGCTTAAA
341578 ACCTCTCATG
Statistics
Matches: 330, Mismatches: 75, Indels: 20
0.78 0.18 0.05
Matches are distributed among these distances:
60 3 0.01
61 152 0.46
62 174 0.53
63 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.35
Consensus pattern (61 bp):
GTAACTAGACTTATACATCTTGGATGCCAGATAAATTGGGCTTAAATCTCTTTGTGCCAAT
Found at i:341407 original size:30 final size:30
Alignment explanation
Indices: 341372--341469 Score: 119
Period size: 30 Copynumber: 3.2 Consensus size: 30
341362 ACTTCTTGGA
341372 TGCCAACTAAATTGGGCTTAATCATCTTTG
1 TGCCAACTAAATTGGGCTTAATCATCTTTG
* *
341402 TGCCAA-TATAACTGGGCTTAAACAT-TTTGG
1 TGCCAACTA-AATTGGGCTTAATCATCTTT-G
* *
341432 ATGCCAGCAAAATTGGGCTTAATCATCTTTG
1 -TGCCAACTAAATTGGGCTTAATCATCTTTG
341463 TGCCAAC
1 TGCCAAC
341470 GTAACTAGAC
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
29 5 0.09
30 27 0.48
31 20 0.36
32 4 0.07
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (30 bp):
TGCCAACTAAATTGGGCTTAATCATCTTTG
Found at i:341525 original size:123 final size:122
Alignment explanation
Indices: 341098--341577 Score: 401
Period size: 123 Copynumber: 3.9 Consensus size: 122
341088 NNNNNNNNNN
* * * * * *
341098 AACGTAACTAGACTTATACTTCTTGGATGTCAGTTAAAGTGGGCTTAAACTCTTTTTGTGCTAAT
1 AACGTAACTAGACTTATACATCTTGGATGCCAGCTAAATTGGGCTT-AACTCATTTTGTGCCAAT
* * * *
341163 ATAACTAGACTTATACATCTTGGATGCCAG-ATAAATTGGGCTTAAATCTCTCTGTGCT
65 ATAACTAGACTTAAACATTTTGGATGCCAGCA-AAATTGGGCTTAAATCTCTTTGTGCC
* ** * * * * ********* *
341221 AACATAGGTAGGCTTAAACATCTTGGATGCTAGTTAAATTGGGCTTANNNNNNNNNNGTGCCAAC
1 AACGTAACTAGACTTATACATCTTGGATGCCAGCTAAATTGGGCTTA-ACTCATTTTGTGCCAAT
* * * * * * *
341286 GTAACTAGGCTTAAATATTTTAGATGCTAGCTAAATTGGGCTTAAACTCTTTTTGTGCC
65 ATAACTAGACTTAAACATTTTGGATGCCAGCAAAATTGGGCTTAAA-TCTCTTTGTGCC
* * * *
341345 AATGTAACTGGACTTATACTTCTTGGATGCCAACTAAATTGGGCTTAA-TCATCTTTGTGCCAAT
1 AACGTAACTAGACTTATACATCTTGGATGCCAGCTAAATTGGGCTTAACTCAT-TTTGTGCCAAT
* *
341409 ATAACTGGGCTTAAACATTTTGGATGCCAGCAAAATTGGGCTT-AATCATCTTTGTGCC
65 ATAACTAGACTTAAACATTTTGGATGCCAGCAAAATTGGGCTTAAATC-TCTTTGTGCC
* * * *
341467 AACGTAACTAGACTTATACATCTTAGATGCCAGCTAAATTGGCCTTGAACTCCTTTTGTTCCAAT
1 AACGTAACTAGACTTATACATCTTGGATGCCAGCTAAATTGGGCTT-AACTCATTTTGTGCCAAT
* * * * ** *
341532 GTAATTGGACTTATAC-TTCTTGGATGCCAGTTAAATTGGGTTTAAA
65 ATAACTAGACTTAAACATT-TTGGATGCCAGCAAAATTGGGCTTAAA
341578 ACCTCTCATG
Statistics
Matches: 275, Mismatches: 73, Indels: 17
0.75 0.20 0.05
Matches are distributed among these distances:
121 2 0.01
122 54 0.20
123 169 0.61
124 50 0.18
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.35
Consensus pattern (122 bp):
AACGTAACTAGACTTATACATCTTGGATGCCAGCTAAATTGGGCTTAACTCATTTTGTGCCAATA
TAACTAGACTTAAACATTTTGGATGCCAGCAAAATTGGGCTTAAATCTCTTTGTGCC
Found at i:343382 original size:12 final size:12
Alignment explanation
Indices: 343355--343384 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
343345 TGTCCTTTTC
343355 TCTTTTTGATCA
1 TCTTTTTGATCA
343367 -CTTTTTGATCA
1 TCTTTTTGATCA
343378 TCTTTTT
1 TCTTTTT
343385 TTCTCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63
Consensus pattern (12 bp):
TCTTTTTGATCA
Found at i:348298 original size:23 final size:23
Alignment explanation
Indices: 348251--348303 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
348241 TGGTCTCACC
* *
348251 ATACCT-AAAAACCAATGATATA
1 ATACCTAAAAAACCAATAATAGA
* *
348273 ATATCTAAAAAACCAATAATGGA
1 ATACCTAAAAAACCAATAATAGA
348296 ATACCTAA
1 ATACCTAA
348304 TAACTAATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.55, C:0.17, G:0.06, T:0.23
Consensus pattern (23 bp):
ATACCTAAAAAACCAATAATAGA
Done.