Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 99 of 211
Found at i:27443529 original size:15 final size:15
Alignment explanation
Indices: 27443509--27443542 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27443499 TTTTTATTAT
27443509 TTTTATTTGATTTAA
1 TTTTATTTGATTTAA
* *
27443524 TTTTATTTTATTTAG
1 TTTTATTTGATTTAA
27443539 TTTT
1 TTTT
27443543 GGGCCCGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (15 bp):
TTTTATTTGATTTAA
Found at i:27444975 original size:2 final size:2
Alignment explanation
Indices: 27444968--27444992 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27444958 TTACGTATCA
27444968 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
27444993 ACAAATTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:27459204 original size:40 final size:39
Alignment explanation
Indices: 27459156--27459265 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 39
27459146 TGGCGTTTGG
27459156 ACAAAAAACGCCGCTAAAAATCGAGCATTAGAGGTGCTTT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGAGGTGC-TT
* * * *
27459196 ACATAAAACGCCGCTAAATAGCGAGCATTAGCGGTGCTT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGAGGTGCTT
* *
27459235 CCAAAAAAGCGCCGCTAAAAAT-TAGCATTAG
1 ACAAAAAA-CGCCGCTAAAAATCGAGCATTAG
27459266 CAGCGTTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
39 16 0.27
40 44 0.73
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (39 bp):
ACAAAAAACGCCGCTAAAAATCGAGCATTAGAGGTGCTT
Found at i:27459389 original size:41 final size:41
Alignment explanation
Indices: 27459334--27459524 Score: 258
Period size: 41 Copynumber: 4.7 Consensus size: 41
27459324 CATTTGGTGC
* * *
27459334 TTTAGCGGCGTTTTTTCAAAAGCGCCGCTAATGCTTAGGCT
1 TTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGCT
* *
27459375 TTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCATGCT
1 TTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGCT
* *** *
27459416 TTTAGCGGCATTTTTGAAAAAGCATTGCTAATGCTTAGGCT
1 TTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGCT
*
27459457 TTTAGCGGCA-TTTTTGAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGCT
* *
27459497 TTTAGCGGCATTTTTGATAAAGCGCCGC
1 TTTAGCGGCATTTTTTAAAAAGCGCCGC
27459525 AAAAACATTT
Statistics
Matches: 130, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 34 0.26
41 96 0.74
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGCT
Found at i:27459490 original size:81 final size:82
Alignment explanation
Indices: 27459360--27459519 Score: 295
Period size: 81 Copynumber: 2.0 Consensus size: 82
27459350 CAAAAGCGCC
*
27459360 GCTAATGCTTAGGCTTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCATGCTTTTAGCGGC
1 GCTAATGCTTAGGCTTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGCTTTTAGCGGC
27459425 ATTTTTGAAAAAGCATT
66 ATTTTTGAAAAAGCATT
27459442 GCTAATGCTTAGGCTTTTAGCGGCATTTTTG-AAAAGCGCCGCTAATGCTCAGGCTTTTAGCGGC
1 GCTAATGCTTAGGCTTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGCTTTTAGCGGC
*
27459506 ATTTTTGATAAAGC
66 ATTTTTGAAAAAGC
27459520 GCCGCAAAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 45 0.59
82 31 0.41
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (82 bp):
GCTAATGCTTAGGCTTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGGCTTTTAGCGGC
ATTTTTGAAAAAGCATT
Found at i:27459865 original size:14 final size:14
Alignment explanation
Indices: 27459848--27459884 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
27459838 GGTTTTAATA
*
27459848 TATATGTTTTAGGG
1 TATATGGTTTAGGG
27459862 TATATGGTTTAGGG
1 TATATGGTTTAGGG
27459876 TATATGGTT
1 TATATGGTT
27459885 AATTTAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:27460190 original size:146 final size:147
Alignment explanation
Indices: 27459984--27460253 Score: 384
Period size: 146 Copynumber: 1.8 Consensus size: 147
27459974 AGGGTTGTGA
* * * * *
27459984 TTTAGGGGTTAAGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTAGGGTTTATGGATTC-GGT
1 TTTAGGGGTTAAGGGTTAGAGATTAAAGATTAAGAATTAAGGATTTAGGGTTTATGGATTCAGG-
* * *
27460048 GTTAGGATAGGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGTTTA
65 GTCAAGATAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGTTTA
27460113 GAGTGTAGTAGTTAGGGG
130 GAGTGTAGTAGTTAGGGG
* * *
27460131 TTTA-GGGTTTAGGGTTAGAGATTAAAGGTTAAGAATTAATGATTTAGGGTTTA-GAGATTCAGG
1 TTTAGGGGTTAAGGGTTAGAGATTAAAGATTAAGAATTAAGGATTTAGGGTTTATG-GATTCAGG
* *
27460194 GTCAAGTTAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAATTAAG
65 GTCAAGATAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAG
27460254 TTCTTATATA
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
145 1 0.01
146 101 0.94
147 6 0.06
ACGTcount: A:0.30, C:0.01, G:0.28, T:0.41
Consensus pattern (147 bp):
TTTAGGGGTTAAGGGTTAGAGATTAAAGATTAAGAATTAAGGATTTAGGGTTTATGGATTCAGGG
TCAAGATAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAGGTTTAG
AGTGTAGTAGTTAGGGG
Found at i:27460951 original size:7 final size:7
Alignment explanation
Indices: 27460936--27460999 Score: 60
Period size: 7 Copynumber: 9.0 Consensus size: 7
27460926 CCGTTCCCTT
27460936 TCCTTTC
1 TCCTTTC
*
27460943 TCATTTC
1 TCCTTTC
27460950 TCCTTTC
1 TCCTTTC
27460957 TCCTTTC
1 TCCTTTC
27460964 TCCTATTAC
1 TCCT-TT-C
27460973 -CCTTTC
1 TCCTTTC
* *
27460979 CCCTCTC
1 TCCTTTC
27460986 -CCTTTC
1 TCCTTTC
27460992 TCTCTTTC
1 TC-CTTTC
27461000 CTCTTCACCT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
6 6 0.12
7 31 0.65
8 10 0.21
9 1 0.02
ACGTcount: A:0.05, C:0.44, G:0.00, T:0.52
Consensus pattern (7 bp):
TCCTTTC
Found at i:27463302 original size:43 final size:43
Alignment explanation
Indices: 27463249--27463478 Score: 275
Period size: 43 Copynumber: 5.3 Consensus size: 43
27463239 GTTTTTAGAA
*
27463249 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCC
*
27463292 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCC
** *
27463335 ACAAACGCCGCTAAAGACCATGACCTTTAGCAACGCTTTTCCC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCC
* * * * **
27463378 ATAAACGCCACTAAAGAACATGACCTTTAGCGACGCTTTTTGTT
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTT-CC
* * * * *
27463422 AAAAACGCCGCTATAGATCA-AACCTTTAGCGGCGC-TTCTCAC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTC-C
*
27463464 AAAAACGCCGCTAAA
1 ACAAACGCCGCTAAA
27463479 AATATAACTT
Statistics
Matches: 164, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
42 17 0.10
43 131 0.80
44 16 0.10
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCC
Found at i:27465364 original size:19 final size:19
Alignment explanation
Indices: 27465340--27465376 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
27465330 TGAAGGCGAG
27465340 GCCCAAT-AACGAAATTCCA
1 GCCCAATCAA-GAAATTCCA
27465359 GCCCAATCAAGAAATTCC
1 GCCCAATCAAGAAATTCC
27465377 TTCGTACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.41, C:0.32, G:0.11, T:0.16
Consensus pattern (19 bp):
GCCCAATCAAGAAATTCCA
Found at i:27473718 original size:18 final size:19
Alignment explanation
Indices: 27473695--27473730 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27473685 TGAAGGCGAG
27473695 GCCCAAT-AACAAATTCCA
1 GCCCAATCAACAAATTCCA
*
27473713 GCCCAATCAAGAAATTCC
1 GCCCAATCAACAAATTCC
27473731 TTCATACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.33, G:0.08, T:0.17
Consensus pattern (19 bp):
GCCCAATCAACAAATTCCA
Found at i:27490373 original size:20 final size:20
Alignment explanation
Indices: 27490348--27490388 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
27490338 TCTAATCTCC
27490348 CCTCCAAAGAATATCGATGG
1 CCTCCAAAGAATATCGATGG
27490368 CCTCCAAAGAATATCGATGG
1 CCTCCAAAGAATATCGATGG
27490388 C
1 C
27490389 AAGAAGAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (20 bp):
CCTCCAAAGAATATCGATGG
Found at i:27502606 original size:14 final size:14
Alignment explanation
Indices: 27502587--27502614 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27502577 GAATCTGGTG
27502587 GATTCCATTTTCTT
1 GATTCCATTTTCTT
27502601 GATTCCATTTTCTT
1 GATTCCATTTTCTT
27502615 CTTGAGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
GATTCCATTTTCTT
Found at i:27519973 original size:25 final size:25
Alignment explanation
Indices: 27519945--27520038 Score: 122
Period size: 25 Copynumber: 3.8 Consensus size: 25
27519935 TCCTGTACAT
27519945 GTATGCTCATACGAGCTGT-GAGTCG
1 GTATGCTCATACGAGCTGTAGA-TCG
27519970 GTATGCTCACT-CGAGCTGTAGATCG
1 GTATGCTCA-TACGAGCTGTAGATCG
27519995 GTATGCTC-TCACGAGCTGTAGATCG
1 GTATGCTCAT-ACGAGCTGTAGATCG
* *
27520020 GTATGCTCACACAAGCTGT
1 GTATGCTCATACGAGCTGT
27520039 GGGTCAGAAC
Statistics
Matches: 62, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
23 1 0.02
25 58 0.94
26 3 0.05
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGTAGATCG
Found at i:27527419 original size:25 final size:26
Alignment explanation
Indices: 27527391--27527459 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
27527381 CAGTGAATCG
*
27527391 GTATGCTCACTCAAGCTGTAGATC-T
1 GTATGCTCACTCGAGCTGTAGATCAT
* * *
27527416 GTATGCTCTCTTGAGTTGTAGATCAT
1 GTATGCTCACTCGAGCTGTAGATCAT
*
27527442 -TATGCTCACACGAGCTGT
1 GTATGCTCACTCGAGCTGT
27527460 GGGTCAAAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
25 34 0.97
26 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
GTATGCTCACTCGAGCTGTAGATCAT
Found at i:27529171 original size:47 final size:47
Alignment explanation
Indices: 27529093--27529776 Score: 1125
Period size: 47 Copynumber: 14.5 Consensus size: 47
27529083 CCCTTCGGGA
* * * * * * *
27529093 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27529140 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27529187 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27529234 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27529281 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27529328 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27529375 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27529422 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27529469 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27529518 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27529565 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27529612 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27529661 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27529708 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27529755 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
27529777 TTGGCTGAAT
Statistics
Matches: 608, Mismatches: 25, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
47 517 0.85
49 91 0.15
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27529588 original size:143 final size:141
Alignment explanation
Indices: 27529093--27529776 Score: 1179
Period size: 143 Copynumber: 4.8 Consensus size: 141
27529083 CCCTTCGGGA
* * * * * * * * * * *
27529093 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
27529158 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
27529223 GGCCATTAGGC
131 GGCCATTAGGC
*
27529234 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
* *
27529299 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
27529364 GGCTATTAGGC
131 GGCCATTAGGC
*
27529375 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
*
27529440 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
27529505 TCGGCCATTAGGC
129 TCGGCCATTAGGC
27529518 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
27529583 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
27529648 TCGGCCATTAGGC
129 TCGGCCATTAGGC
27529661 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
27529726 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
27529777 TTGGCTGAAT
Statistics
Matches: 520, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
141 240 0.46
143 280 0.54
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:27541536 original size:27 final size:27
Alignment explanation
Indices: 27541506--27541560 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
27541496 TATTATAAAA
27541506 TTAA-TTAAAATTAAATATTTTAATAAT
1 TTAAGTTAAAATTAAATATTTT-ATAAT
* * *
27541533 TTAAGTTCAATTTAATTATTTTATAAT
1 TTAAGTTAAAATTAAATATTTTATAAT
27541560 T
1 T
27541561 ATATTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
TTAAGTTAAAATTAAATATTTTATAAT
Found at i:27542391 original size:12 final size:12
Alignment explanation
Indices: 27542374--27542398 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27542364 ATTTGGGAAG
27542374 TATAAGGAAAAT
1 TATAAGGAAAAT
27542386 TATAAGGAAAAT
1 TATAAGGAAAAT
27542398 T
1 T
27542399 CACCAAAATT
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:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (12 bp):
TATAAGGAAAAT
Found at i:27554764 original size:20 final size:20
Alignment explanation
Indices: 27554739--27554866 Score: 98
Period size: 20 Copynumber: 6.3 Consensus size: 20
27554729 CGTCTGTGCA
27554739 GTGCCTCTGTTTGCACTTTG
1 GTGCCTCTGTTTGCACTTTG
**
27554759 GTGCCTCTAATTGCACATTT-
1 GTGCCTCTGTTTGCAC-TTTG
* * *
27554779 GTACCTCTTTTTGCACTTCG
1 GTGCCTCTGTTTGCACTTTG
* * *
27554799 ATGCCTCTGATTACACATTT-
1 GTGCCTCTGTTTGCAC-TTTG
* * *
27554819 GTGCCTCTGTCTACACTTCG
1 GTGCCTCTGTTTGCACTTTG
27554839 GTGCCTCTGTTATGCATCTTTG
1 GTGCCTCTGTT-TGCA-CTTTG
*
27554861 ATGCCT
1 GTGCCT
27554867 TTGGTGTGGT
Statistics
Matches: 82, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
19 4 0.05
20 61 0.74
21 8 0.10
22 9 0.11
ACGTcount: A:0.13, C:0.27, G:0.18, T:0.41
Consensus pattern (20 bp):
GTGCCTCTGTTTGCACTTTG
Found at i:27554847 original size:40 final size:40
Alignment explanation
Indices: 27554739--27554847 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 40
27554729 CGTCTGTGCA
* * *
27554739 GTGCCTCTGTTTGCACTTTGGTGCCTCTAATTGCACATTT
1 GTGCCTCTGTTTGCACTTCGGTGCCTCTGATTACACATTT
* * *
27554779 GTACCTCTTTTTGCACTTCGATGCCTCTGATTACACATTT
1 GTGCCTCTGTTTGCACTTCGGTGCCTCTGATTACACATTT
* *
27554819 GTGCCTCTGTCTACACTTCGGTGCCTCTG
1 GTGCCTCTGTTTGCACTTCGGTGCCTCTG
27554848 TTATGCATCT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.13, C:0.28, G:0.18, T:0.40
Consensus pattern (40 bp):
GTGCCTCTGTTTGCACTTCGGTGCCTCTGATTACACATTT
Found at i:27556109 original size:11 final size:11
Alignment explanation
Indices: 27556091--27556120 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
27556081 CGCATAGGTT
27556091 GCATGTTTTTG
1 GCATGTTTTTG
*
27556102 GTATGTTTTTG
1 GCATGTTTTTG
27556113 GCATGTTT
1 GCATGTTT
27556121 AGATGTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.10, C:0.07, G:0.27, T:0.57
Consensus pattern (11 bp):
GCATGTTTTTG
Found at i:27564499 original size:27 final size:28
Alignment explanation
Indices: 27564415--27564512 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
27564405 CATGAGATTG
* * *
27564415 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
27564444 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
27564472 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
27564499 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
27564513 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:27564526 original size:29 final size:27
Alignment explanation
Indices: 27564443--27564526 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
27564433 TAAATTGTTC
* *
27564443 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
27564471 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
27564498 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
27564527 TTTTGAAACA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:27574094 original size:27 final size:27
Alignment explanation
Indices: 27574064--27574159 Score: 83
Period size: 27 Copynumber: 3.4 Consensus size: 27
27574054 AAAAGTGAGA
27574064 GAAAAAGAAAATGAAGAAAAGAAAATT
1 GAAAAAGAAAATGAAGAAAAGAAAATT
*
27574091 GAAAAAGAAATTGAGATTGAAAA-AGAAATT
1 GAAAAAGAAAATGA-A--GAAAAGA-AAATT
27574121 GAAAAAGAGAAAATCG-A-AAAAG-AAATT
1 G-AAAA-AGAAAAT-GAAGAAAAGAAAATT
27574148 GAAGAAAGAAAA
1 GAA-AAAGAAAA
27574160 GAAAATGAGT
Statistics
Matches: 58, Mismatches: 2, Indels: 19
0.73 0.03 0.24
Matches are distributed among these distances:
26 8 0.14
27 21 0.36
28 5 0.09
29 1 0.02
30 11 0.19
31 5 0.09
32 6 0.10
33 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.20, T:0.12
Consensus pattern (27 bp):
GAAAAAGAAAATGAAGAAAAGAAAATT
Found at i:27574100 original size:18 final size:18
Alignment explanation
Indices: 27574077--27574165 Score: 58
Period size: 18 Copynumber: 4.7 Consensus size: 18
27574067 AAAGAAAATG
27574077 AAGAAAAGAAAATTGAAA
1 AAGAAAAGAAAATTGAAA
* *
27574095 AAGAAATTG-AGATTGAAA
1 AAGAAA-AGAAAATTGAAA
* *
27574113 AAGAAATTGAAAA-AGAGAA
1 AAGAAA-AGAAAATTGA-AA
27574132 AATCGAAAA-AGAAATTGAAGA
1 AA--GAAAAGA-AAATTGAA-A
27574153 AAGAAAAGAAAAT
1 AAGAAAAGAAAAT
27574166 GAGTTAGAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
18 25 0.45
19 17 0.30
20 5 0.09
21 9 0.16
ACGTcount: A:0.66, C:0.01, G:0.19, T:0.13
Consensus pattern (18 bp):
AAGAAAAGAAAATTGAAA
Found at i:27574101 original size:12 final size:12
Alignment explanation
Indices: 27574064--27574158 Score: 67
Period size: 13 Copynumber: 7.8 Consensus size: 12
27574054 AAAAGTGAGA
*
27574064 GAAAAAGAAAAT
1 GAAAAAGAAATT
27574076 GAAGAAAAGAAAATT
1 G-A-AAAAG-AAATT
27574091 GAAAAAGAAATT
1 GAAAAAGAAATT
27574103 G----AG--ATT
1 GAAAAAGAAATT
27574109 GAAAAAGAAATT
1 GAAAAAGAAATT
*
27574121 GAAAAAGAGAAAATC
1 G-AAAA-AG-AAATT
27574136 GAAAAAGAAATT
1 GAAAAAGAAATT
27574148 GAAGAAAGAAA
1 GAA-AAAGAAA
27574159 AGAAAATGAG
Statistics
Matches: 67, Mismatches: 3, Indels: 25
0.71 0.03 0.26
Matches are distributed among these distances:
6 4 0.06
8 2 0.03
10 2 0.03
12 18 0.27
13 19 0.28
14 12 0.18
15 10 0.15
ACGTcount: A:0.66, C:0.01, G:0.20, T:0.13
Consensus pattern (12 bp):
GAAAAAGAAATT
Found at i:27574132 original size:45 final size:45
Alignment explanation
Indices: 27574027--27574167 Score: 140
Period size: 45 Copynumber: 3.3 Consensus size: 45
27574017 GAAAGACGAA
*
27574027 AAAAAG-AAATGAAAGAAAA-AAAATC---AAA-AAAGTGAGA--G
1 AAAAAGAAAATG-AAGAAAAGAAAATCGAAAAAGAAATTGAGATTG
*
27574065 AAAAAGAAAATGAAGAAAAGAAAATTGAAAAAGAAATTGAGATTG
1 AAAAAGAAAATGAAGAAAAGAAAATCGAAAAAGAAATTGAGATTG
* **
27574110 AAAAAGAAATTGAA-AAAGAGAAAATCGAAAAAGAAATTGAAGAAAG
1 AAAAAGAAAATGAAGAAA-AGAAAATCGAAAAAGAAATTG-AGATTG
27574156 -AAAAGAAAATGA
1 AAAAAGAAAATGA
27574168 GTTAGAAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
38 13 0.15
39 10 0.12
42 3 0.03
43 8 0.09
44 3 0.03
45 45 0.52
46 4 0.05
ACGTcount: A:0.68, C:0.01, G:0.19, T:0.11
Consensus pattern (45 bp):
AAAAAGAAAATGAAGAAAAGAAAATCGAAAAAGAAATTGAGATTG
Found at i:27578102 original size:2 final size:2
Alignment explanation
Indices: 27578095--27578125 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27578085 TTATAGCTAA
27578095 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
27578126 TATATATGAA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:27594440 original size:18 final size:18
Alignment explanation
Indices: 27594419--27594453 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
27594409 TGAGAAAATT
27594419 AAGATTATTGAGGAGACC
1 AAGATTATTGAGGAGACC
27594437 AAGATTATTGAGGAGAC
1 AAGATTATTGAGGAGAC
27594454 TAAGCACATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.09, G:0.29, T:0.23
Consensus pattern (18 bp):
AAGATTATTGAGGAGACC
Found at i:27595076 original size:36 final size:36
Alignment explanation
Indices: 27595029--27595101 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
27595019 AATGCAACTG
27595029 TAAAATTGGGAATTGGGGTAGAGGAAACTGAAAACA
1 TAAAATTGGGAATTGGGGTAGAGGAAACTGAAAACA
27595065 TAAAATTGGGAATTGGGGTAGAGGAAACTGAAAACA
1 TAAAATTGGGAATTGGGGTAGAGGAAACTGAAAACA
27595101 T
1 T
27595102 TGTAACTGTA
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:0.44, C:0.05, G:0.30, T:0.21
Consensus pattern (36 bp):
TAAAATTGGGAATTGGGGTAGAGGAAACTGAAAACA
Found at i:27607437 original size:20 final size:20
Alignment explanation
Indices: 27607412--27607460 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
27607402 TGAATTATTT
* *
27607412 AAGTAAGCAAGTAAGTGAAC
1 AAGTAAGCAAGTAAGTAAAA
*
27607432 AAGTAAGAAAGTAAGTAAAA
1 AAGTAAGCAAGTAAGTAAAA
27607452 AAG-AAGCAA
1 AAGTAAGCAA
27607461 AGACCATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.59, C:0.06, G:0.22, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAA
Found at i:27611243 original size:72 final size:72
Alignment explanation
Indices: 27611157--27611306 Score: 273
Period size: 72 Copynumber: 2.1 Consensus size: 72
27611147 ATCAAATTGT
27611157 AATTTTTTATAATTTAACAATCAAAGTGTAAACTTATTAATAATTAAATGACCATAAGTATAATT
1 AATTTTTTATAATTTAACAATCAAAGTGTAAACTTATTAATAATTAAATGACCATAAGTATAATT
27611222 TACCCAA
66 TACCCAA
* * *
27611229 ATTTTTTTATAATTTAACAATTAAAGTGTAACCTTATTAATAATTAAATGACCATAAGTATAATT
1 AATTTTTTATAATTTAACAATCAAAGTGTAAACTTATTAATAATTAAATGACCATAAGTATAATT
27611294 TACCCAA
66 TACCCAA
27611301 AATTTT
1 AATTTT
27611307 AGACACATTT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (72 bp):
AATTTTTTATAATTTAACAATCAAAGTGTAAACTTATTAATAATTAAATGACCATAAGTATAATT
TACCCAA
Found at i:27618998 original size:166 final size:167
Alignment explanation
Indices: 27618704--27619033 Score: 590
Period size: 166 Copynumber: 2.0 Consensus size: 167
27618694 AATAGGGTCA
* *
27618704 AAAAAAATTTTATGTTCTCCGGACAAACACAAGTACCTGGATATTGTGGACTAAGGCAGAATTCT
1 AAAAAAATTTTACGTTCTCCGGACAAACACAAGTACCTGGATATAGTGGACTAAGGCAGAATTCT
*
27618769 CATCACTTGTATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTACT
66 CATCACTTGGATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTACT
27618834 CTATTTCTTAGAATCTAGGATGGAAACAGCGGTTCAC
131 CTATTTCTTAGAATCTAGGATGGAAACAGCGGTTCAC
* *
27618871 AAAAAAA-TTTACGTTCTCTGGACAAACACAATTACCTGGATATAGTGGACTAAGGCAGAATTCT
1 AAAAAAATTTTACGTTCTCCGGACAAACACAAGTACCTGGATATAGTGGACTAAGGCAGAATTCT
*
27618935 CATCACTTGGATTGAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTACT
66 CATCACTTGGATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTACT
*
27619000 CTATTTCTTAGAATCTGGGATGGAAACAGCGGTT
131 CTATTTCTTAGAATCTAGGATGGAAACAGCGGTT
27619034 GGCATATAGG
Statistics
Matches: 156, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
166 149 0.96
167 7 0.04
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (167 bp):
AAAAAAATTTTACGTTCTCCGGACAAACACAAGTACCTGGATATAGTGGACTAAGGCAGAATTCT
CATCACTTGGATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTACT
CTATTTCTTAGAATCTAGGATGGAAACAGCGGTTCAC
Found at i:27621387 original size:23 final size:24
Alignment explanation
Indices: 27621355--27621400 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
27621345 TTTTCATTAG
* *
27621355 TATATTTTCTTTTCTT-ATTTTCA
1 TATATATTCTTCTCTTCATTTTCA
27621378 TATATATTCTTCTCTTCATTTTC
1 TATATATTCTTCTCTTCATTTTC
27621401 GATAACACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.65
Consensus pattern (24 bp):
TATATATTCTTCTCTTCATTTTCA
Found at i:27621793 original size:14 final size:14
Alignment explanation
Indices: 27621776--27621803 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27621766 AATTTTTCCC
27621776 CAGGATCATTTCAA
1 CAGGATCATTTCAA
27621790 CAGGATCATTTCAA
1 CAGGATCATTTCAA
27621804 ATTAAATACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
CAGGATCATTTCAA
Found at i:27626735 original size:53 final size:53
Alignment explanation
Indices: 27626652--27626763 Score: 197
Period size: 53 Copynumber: 2.1 Consensus size: 53
27626642 AGTTACTTCC
*
27626652 AAAAGATGTCAATTTTTTCTTTCTGTAATCCCATTTAGTTGTGGTGTATTTGT
1 AAAAGATGTCAATTTTTTCTTTCTGCAATCCCATTTAGTTGTGGTGTATTTGT
* *
27626705 ATAAGATGTCAGTTTTTTCTTTCTGCAATCCCATTTAGTTGTGGTGTATTTGT
1 AAAAGATGTCAATTTTTTCTTTCTGCAATCCCATTTAGTTGTGGTGTATTTGT
27626758 AAAAGA
1 AAAAGA
27626764 ACTTTGATGG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (53 bp):
AAAAGATGTCAATTTTTTCTTTCTGCAATCCCATTTAGTTGTGGTGTATTTGT
Found at i:27628489 original size:19 final size:18
Alignment explanation
Indices: 27628461--27628500 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
27628451 TGAACAAAAC
*
27628461 TTATCTACCTAAATAAGAT
1 TTATCGACCTAAATAA-AT
27628480 TTATCGACCTAAATAAAT
1 TTATCGACCTAAATAAAT
27628498 TTA
1 TTA
27628501 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (18 bp):
TTATCGACCTAAATAAAT
Found at i:27640152 original size:13 final size:14
Alignment explanation
Indices: 27640122--27640161 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
27640112 TCAACTTAAC
27640122 AGAAGAGGGAAGAG
1 AGAAGAGGGAAGAG
*
27640136 AGAAGAGGTAA-AG
1 AGAAGAGGGAAGAG
*
27640149 AGAAGAAGGAAGA
1 AGAAGAGGGAAGA
27640162 TCAACTAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.55, C:0.00, G:0.42, T:0.03
Consensus pattern (14 bp):
AGAAGAGGGAAGAG
Found at i:27640981 original size:24 final size:24
Alignment explanation
Indices: 27640931--27640981 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
27640921 AATACTATTA
*
27640931 AAAAAATAGAAAATACAAATTTTT
1 AAAAAATAGAAAATACAAATTTAT
* *
27640955 AAAAAATATATAATA-AAATTATAT
1 AAAAAATAGAAAATACAAATT-TAT
27640979 AAA
1 AAA
27640982 TAATTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAAAATAGAAAATACAAATTTAT
Found at i:27642138 original size:14 final size:15
Alignment explanation
Indices: 27642111--27642143 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
27642101 ACAATTTTTG
*
27642111 AATAATAATTTATCA
1 AATAATAATATATCA
27642126 AATAATAA-ATATCA
1 AATAATAATATATCA
27642140 AATA
1 AATA
27642144 TTTTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAATAATATATCA
Found at i:27643309 original size:28 final size:27
Alignment explanation
Indices: 27643264--27643344 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 27
27643254 CAAATTTGTA
* *
27643264 AAGGGAAAAAGTGCAAAATCTAAAAAAT
1 AAGGG-AAAACTGTAAAATCTAAAAAAT
* * *
27643292 AAGGGAAATATTTTAAAATCTGAAAAAT
1 AAGGGAAA-ACTGTAAAATCTAAAAAAT
*
27643320 ATGGGAAAACTGTAAAATCTAAAAA
1 AAGGGAAAACTGTAAAATCTAAAAA
27643345 CTAGGGGACA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
27 17 0.39
28 27 0.61
ACGTcount: A:0.57, C:0.06, G:0.16, T:0.21
Consensus pattern (27 bp):
AAGGGAAAACTGTAAAATCTAAAAAAT
Found at i:27644673 original size:51 final size:51
Alignment explanation
Indices: 27644609--27644947 Score: 322
Period size: 51 Copynumber: 6.7 Consensus size: 51
27644599 TATCGATGAA
* * *
27644609 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
* * * * * *
27644660 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTG-GT
* * * *
27644711 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTA-TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-TATTGGT
* * * * *
27644762 TACATGTGTGGTACTAAGTGAAGGCTACTA--TAGATACCGGA-AAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGT-G-TACC-GATAA-ATATTGGT
* *
27644813 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGATAAATA-TTGGT
* * *
27644863 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAA-ATTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
27644912 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
27644948 TCGAATGATA
Statistics
Matches: 235, Mismatches: 38, Indels: 32
0.77 0.12 0.10
Matches are distributed among these distances:
49 41 0.17
50 50 0.21
51 139 0.59
52 4 0.02
53 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
Found at i:27644785 original size:102 final size:101
Alignment explanation
Indices: 27644609--27644950 Score: 394
Period size: 102 Copynumber: 3.4 Consensus size: 101
27644599 TATCGATGAA
* *
27644609 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTA
27644673 CTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG
65 CTAAGTGAAGGCTACTATGTGTACCGAGAAG-TTTGAG
* * * *
27644711 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
*
27644776 TAAGTGAAGGCTACTATAG-ATACCG-GAAAGCTTTG-G
66 TAAGTGAAGGCTACTAT-GTGTACCGAG-AAG-TTTGAG
* * * * *
27644812 TCACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGT
1 -CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGT
* * * * * *
27644875 ACTATGTGAAGGCTACTACGTGAACTGTA-AA-ATTGAT
64 ACTAAGTGAAGGCTACTATGTGTACCG-AGAAGTTTGAG
27644912 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
27644951 AATGATAAAA
Statistics
Matches: 205, Mismatches: 25, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
99 36 0.18
100 3 0.01
101 40 0.20
102 124 0.60
103 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAGAAGTTTGAG
Found at i:27647338 original size:32 final size:32
Alignment explanation
Indices: 27647269--27647345 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
27647259 TTGTATAGAG
*
27647269 TTTAATTGATTTTATAAATTATTTTACAATAG
1 TTTAATTGATTTTATAAATTATTTTACAATAA
* *
27647301 CTTAATTGATATTTCT-AATTATTTTACGAA-AA
1 TTTAATTGAT-TTTATAAATTATTTTAC-AATAA
*
27647333 TTTAATTTATTTT
1 TTTAATTGATTTT
27647346 TTATTTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
31 3 0.08
32 29 0.76
33 6 0.16
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (32 bp):
TTTAATTGATTTTATAAATTATTTTACAATAA
Found at i:27647412 original size:11 final size:11
Alignment explanation
Indices: 27647374--27647426 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
27647364 TTTAAATATT
*
27647374 AAAAAA-TATT
1 AAAAAATTATA
27647384 AAAAAATTAT-
1 AAAAAATTATA
*
27647394 -AGAAATTATA
1 AAAAAATTATA
27647404 AAAAAATTATA
1 AAAAAATTATA
*
27647415 GAAAAA-TATA
1 AAAAAATTATA
27647425 AA
1 AA
27647427 TTTTATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 8 0.22
10 11 0.31
11 17 0.47
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:27648705 original size:13 final size:13
Alignment explanation
Indices: 27648687--27648711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27648677 ATGTATTTTT
27648687 TATTTTAAATATC
1 TATTTTAAATATC
27648700 TATTTTAAATAT
1 TATTTTAAATAT
27648712 TTTATTATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTTAAATATC
Found at i:27649029 original size:24 final size:24
Alignment explanation
Indices: 27648984--27649029 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
27648974 TCATATTGAG
* * *
27648984 ATTAATTTTCTATTTTTCATTTTC
1 ATTAAATTTCAATTTTACATTTTC
*
27649008 ATTAAATTTCAATTTTAGATTT
1 ATTAAATTTCAATTTTACATTT
27649030 AATTTTTGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTAAATTTCAATTTTACATTTTC
Found at i:27650688 original size:11 final size:11
Alignment explanation
Indices: 27650673--27650724 Score: 86
Period size: 11 Copynumber: 4.6 Consensus size: 11
27650663 TTTTTTTAAA
27650673 AAAAAGTATTTT
1 AAAAA-TATTTT
*
27650685 AAAAGTATTTT
1 AAAAATATTTT
27650696 AAAAATATTTT
1 AAAAATATTTT
27650707 AAAAATATTTT
1 AAAAATATTTT
27650718 AAAAATA
1 AAAAATA
27650725 AAAAAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
11 34 0.89
12 4 0.11
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:27651931 original size:164 final size:163
Alignment explanation
Indices: 27651660--27652288 Score: 584
Period size: 164 Copynumber: 3.8 Consensus size: 163
27651650 ATTTGCCAAT
*
27651660 ATAAAAGTTGAGGTACCAAATTATGTAAAAAATTAAAGTGTAAAAATTAAATTTGAAATTTGAGC
1 ATAAAAGTTGAGGTACCAAATTATGTAAAAAATTAAAGTAT-AAAATTAAATTTGAAATTTGAGC
* *
27651725 A-ATTATAGGGACTAAAATTGAAATTGGACCATTATTATAAAATCTAAAAAAAAG-TCTTTGTTT
65 ATATTATAGGGACTAAAATTGAAATTGGACCATTCTTATAAAATCTAAAAAAAAGAGCTTTGTTT
*
27651788 TATTATTTGGACAAATATAAAAAAGGAATGTCTAA
130 CATTATTTGGACAAAT-TAAAAAAGGAATGTCTAA
* *
27651823 ATAAAAGTTGTGGTACCAAATTATGTAAAAAAATTAAAGTATAAAATTAAATCTGAAATTTGAGC
1 ATAAAAGTTGAGGTACCAAATTATGT-AAAAAATTAAAGTATAAAATTAAATTTGAAATTTGAGC
*
27651888 ATATTATAGGGACTAAAATTGAAATTGGACCATTCTTATAAAATCTAAAAAAAGAGAGCTTTCTT
65 ATATTATAGGGACTAAAATTGAAATTGGACCATTCTTATAAAATCTAAAAAAA-AGAGCTTTGTT
* * *
27651953 TCATTATTTGGACAAGTTTCATAAAAGGAATGCCT--
129 TCATTATTTGGACAA-ATT-AAAAAAGGAATGTCTAA
* * ** * * *
27651988 -TAGACA-TTTA--T-TTATATTAAAGTACAAAAATTAAA-T-TTAAA-T----------TTTGA
1 ATA-AAAGTTGAGGTACCAAATT-ATGTA-AAAAATTAAAGTATAAAATTAAATTTGAAATTTGA
* * *
27652035 GCATGTTATAGGGATTAAAATTGAAATTGGACCATTTTTATAAAATCTCAAAAAAAGAAGAAGAA
63 GCATATTATAGGGACTAAAATTGAAATTGGACCATTCTTATAAAATCT------AA-AA-AA-AA
* * *
27652100 GAAAAAGCTTTGTTTCATTATTTGGACAAACTTCATAAAGGAATGTCCAA
119 G----AGCTTTGTTTCATTATTTGGACAAA-TTAAAAAAGGAATGTCTAA
* * *
27652150 ATAAAAGTTAAGGTACCAAATTATGT-AAAAATTAAAGTATAAAATTAAATTTGAAATCTAAGCA
1 ATAAAAGTTGAGGTACCAAATTATGTAAAAAATTAAAGTATAAAATTAAATTTGAAATTTGAGCA
* * * * *
27652214 TATTATAAGGACTAAAACTAAAATTGGACCGTTCTTATAAAATCAAAAAAGAGAAGAAGCTTTGT
66 TATTATAGGGACTAAAATTGAAATTGGACCATTCTTATAAAATCTAAAAA-A-AAG-AGCTTTGT
27652279 TTCATTATTT
128 TTCATTATTT
27652289 ATATAGATGT
Statistics
Matches: 377, Mismatches: 45, Indels: 85
0.74 0.09 0.17
Matches are distributed among these distances:
149 50 0.13
155 2 0.01
156 2 0.01
157 4 0.01
158 1 0.00
159 1 0.00
160 14 0.04
161 31 0.08
162 16 0.04
163 63 0.17
164 69 0.18
165 12 0.03
166 45 0.12
167 14 0.04
168 1 0.00
169 7 0.02
170 2 0.01
176 43 0.11
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (163 bp):
ATAAAAGTTGAGGTACCAAATTATGTAAAAAATTAAAGTATAAAATTAAATTTGAAATTTGAGCA
TATTATAGGGACTAAAATTGAAATTGGACCATTCTTATAAAATCTAAAAAAAAGAGCTTTGTTTC
ATTATTTGGACAAATTAAAAAAGGAATGTCTAA
Found at i:27654079 original size:35 final size:35
Alignment explanation
Indices: 27654030--27654528 Score: 385
Period size: 35 Copynumber: 14.1 Consensus size: 35
27654020 ATGGCTAATA
* * * *
27654030 AATGAATTACCAGTGTTGTGGTGGGATATTAATTG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
*
27654065 AGTGAAGTATCAGTGTTGTGGTGGGATGTTAAATGAATGAAG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTT--A--AAT---G
* *
27654107 AATGAAGTATCAGTGTTGTGGTAGGATATTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * * * *
27654142 AATTAATTAACGGTGTTGTGGTGAGATGTTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
** ** *
27654177 AATGAAGTATTGGTGTTGTGGCAGAATGTTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
** * *
27654212 AATGAAGAAGTATTGGTGTTATGATGGGATGTTAAATG
1 AAT---GAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * * * *
27654250 AATGTAGTA--A-CGTTGTGGCGGGATATTAATTG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * * *
27654282 AATGAGGTAT-TGATGTTGTGATAGGATGTTAAATG
1 AATGAAGTATCAG-TGTTGTGGTGGGATGTTAAATG
* ** * * * *
27654317 AATGTAGTAAAAATGTTGTAGTGGGATATTAATTG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * *
27654352 AATGAAGTATCGGTATTGTGGTAGGATGTTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * *
27654387 AATAAAGTATCGGTGTTGTGGTGGGATATTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * *
27654422 AATAAAGTAACAGTGTTATGGTGGGATGTTAAATG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * *
27654457 AATGAAGTATCAGTGTTGTGGCGAGATGTTAATTG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
* * * * *
27654492 AAAGAAGTATCAATGTTGTGGCGGAATGTTAATTG
1 AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
27654527 AA
1 AA
27654529 AAAGGATTGG
Statistics
Matches: 367, Mismatches: 83, Indels: 28
0.77 0.17 0.06
Matches are distributed among these distances:
32 23 0.06
35 279 0.76
37 1 0.00
38 33 0.09
39 2 0.01
40 1 0.00
42 28 0.08
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.34
Consensus pattern (35 bp):
AATGAAGTATCAGTGTTGTGGTGGGATGTTAAATG
Found at i:27655761 original size:48 final size:48
Alignment explanation
Indices: 27655691--27655788 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
27655681 AAAAAAAAAG
27655691 AGAGAAAATGAGATAAGTTGTCGACTCATGCTATGGCATATTCCAACA
1 AGAGAAAATGAGATAAGTTGTCGACTCATGCTATGGCATATTCCAACA
27655739 AGAGAAAATGAGATAAGTTGTCGACTCATGCTATGGCATATTCCAACA
1 AGAGAAAATGAGATAAGTTGTCGACTCATGCTATGGCATATTCCAACA
27655787 AG
1 AG
27655789 TTGAATATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (48 bp):
AGAGAAAATGAGATAAGTTGTCGACTCATGCTATGGCATATTCCAACA
Found at i:27668910 original size:21 final size:20
Alignment explanation
Indices: 27668885--27668941 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
27668875 TGAAGAGTGT
*
27668885 TGTGGCTGCATCTGATTCTGG
1 TGTGGATGCATCTGATT-TGG
* *
27668906 TGTGGATGCATCTAGCTTTGT
1 TGTGGATGCATCT-GATTTGG
27668927 TGTGGATGCATCTGA
1 TGTGGATGCATCTGA
27668942 CCGTGTTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 1 0.03
21 27 0.87
22 3 0.10
ACGTcount: A:0.14, C:0.16, G:0.32, T:0.39
Consensus pattern (20 bp):
TGTGGATGCATCTGATTTGG
Found at i:27668948 original size:21 final size:22
Alignment explanation
Indices: 27668881--27668949 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 22
27668871 GTATTGAAGA
* **
27668881 GTGTTGTGGCTGCATCTGATTC
1 GTGTTGTGGATGCATCTGAGCC
* *
27668903 -TGGTGTGGATGCATCT-AGCT
1 GTGTTGTGGATGCATCTGAGCC
*
27668923 TTGTTGTGGATGCATCTGA-CC
1 GTGTTGTGGATGCATCTGAGCC
27668944 GTGTTG
1 GTGTTG
27668950 ATTGTAGTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
20 1 0.03
21 35 0.95
22 1 0.03
ACGTcount: A:0.12, C:0.16, G:0.33, T:0.39
Consensus pattern (22 bp):
GTGTTGTGGATGCATCTGAGCC
Found at i:27671642 original size:22 final size:22
Alignment explanation
Indices: 27671614--27671656 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27671604 TACATATGAG
*
27671614 CCCTGTTATATTTTCATGCGAA
1 CCCTGTTATAATTTCATGCGAA
* *
27671636 CCCTGTTGTAATTTGATGCGA
1 CCCTGTTATAATTTCATGCGA
27671657 GCTCTGAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (22 bp):
CCCTGTTATAATTTCATGCGAA
Found at i:27672118 original size:158 final size:158
Alignment explanation
Indices: 27671940--27672256 Score: 616
Period size: 158 Copynumber: 2.0 Consensus size: 158
27671930 ATGATGTAAA
*
27671940 AGGGTTTTGTGCAATGAATGCATGCACAACTTTCTTTATAAATAATATATATACATATCTTTGCA
1 AGGGTTTTATGCAATGAATGCATGCACAACTTTCTTTATAAATAATATATATACATATCTTTGCA
*
27672005 CTAAATGGGTTATTGTATTATTTAATATATAAATGTATACAGATGGTGTGCGAACTTTAAATCTA
66 CTAAATGGGTTATTGTATTATTTAATATATAAATGTATACAGATAGTGTGCGAACTTTAAATCTA
27672070 CTATGTTGTGTGTACCTATAATATTATG
131 CTATGTTGTGTGTACCTATAATATTATG
27672098 AGGGTTTTATGCAATGAATGCATGCACAACTTTCTTTATAAATAATATATATACATATCTTTGCA
1 AGGGTTTTATGCAATGAATGCATGCACAACTTTCTTTATAAATAATATATATACATATCTTTGCA
27672163 CTAAATGGGTTATTGTATTATTTAATATATAAATGTATACAGATAGTGTGCGAACTTTAAATCTA
66 CTAAATGGGTTATTGTATTATTTAATATATAAATGTATACAGATAGTGTGCGAACTTTAAATCTA
27672228 CTATGTTGTGTGTACCTATAATATTATG
131 CTATGTTGTGTGTACCTATAATATTATG
27672256 A
1 A
27672257 AAACCCACGT
Statistics
Matches: 157, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 157 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (158 bp):
AGGGTTTTATGCAATGAATGCATGCACAACTTTCTTTATAAATAATATATATACATATCTTTGCA
CTAAATGGGTTATTGTATTATTTAATATATAAATGTATACAGATAGTGTGCGAACTTTAAATCTA
CTATGTTGTGTGTACCTATAATATTATG
Found at i:27675872 original size:12 final size:12
Alignment explanation
Indices: 27675855--27675884 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
27675845 ATTTTGAATT
27675855 AAAATTGAATAA
1 AAAATTGAATAA
27675867 AAAATTGAATAA
1 AAAATTGAATAA
27675879 AAAATT
1 AAAATT
27675885 AACTTTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (12 bp):
AAAATTGAATAA
Found at i:27675881 original size:11 final size:11
Alignment explanation
Indices: 27675848--27675881 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
27675838 TAAAATTATT
*
27675848 TTGAATTAAAA
1 TTGAATAAAAA
27675859 TTGAATAAAAAA
1 TTGAAT-AAAAA
27675871 TTGAATAAAAA
1 TTGAATAAAAA
27675882 ATTAACTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (11 bp):
TTGAATAAAAA
Found at i:27676301 original size:20 final size:20
Alignment explanation
Indices: 27676276--27676315 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
27676266 CGTAAAATGA
*
27676276 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
27676296 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
27676316 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:27676305 original size:34 final size:35
Alignment explanation
Indices: 27676261--27676327 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
27676251 GAGTAAAATA
*
27676261 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
27676295 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
27676328 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:27676331 original size:14 final size:15
Alignment explanation
Indices: 27676255--27676331 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
27676245 GATTGAGAGT
* *
27676255 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
27676269 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
27676283 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
27676303 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
27676318 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
27676332 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:27678358 original size:228 final size:228
Alignment explanation
Indices: 27677932--27679036 Score: 1080
Period size: 228 Copynumber: 4.9 Consensus size: 228
27677922 GATTCAATAG
* * * * * * * * *
27677932 ATGCAAATCTTTGTTAAAACCCTCACTGGCAAGACCATCACCCTCGAGGTGGAGAGTTCAGACAC
1 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTGGAGGTTGAAAGTTCAGACAC
* * * * * * *
27677997 CATTGATAATGTGAAGGCTAAGATCCAAGATAAGGAAGGGATCCCACCGGATCAGCAGAGGCTTA
66 CATTGACAATGTAAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTA
* * * * * * *
27678062 TATTTGCAGGCAAA-CAACTTGAGGATGGCCGCACGC-TAGCCGACTACAACATTCAGAAA-GAA
131 TATTTGCTGG-AAAGCAACTTGAAGATGGTCGCAC-CTTAGCCGATTACAATATCCA-AAAGGAG
* *
27678124 TCCACCCTTCACTTGGTTCTTCGACTTCGTGGCGGC
193 TCCACCCTCCACTTGGTTCTTCGACTTCGTGGTGGC
* * *
27678160 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATTACCTTGGAGGTTGAAAGCTCTGACAC
1 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTGGAGGTTGAAAGTTCAGACAC
* * * *
27678225 AATTGATAATGTAAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGATCAGCAGAGGCTTA
66 CATTGACAATGTAAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTA
* * * *
27678290 TCTTTGCTGGAAAGCAGCTTGAAGATGGTCGCACCTTAGCTGATTACAATATCCAAAAAGAGTCC
131 TATTTGCTGGAAAGCAACTTGAAGATGGTCGCACCTTAGCCGATTACAATATCCAAAAGGAGTCC
* * * *
27678355 ACCCTCCACCTGGTACTTCGTCTTCGAGGTGGC
196 ACCCTCCACTTGGTTCTTCGACTTCGTGGTGGC
* * * * * *
27678388 ATGCAAATCTTTGTCAAAACTCTCACTGGAAAGACAATTACCTTGGAGGTCGAGAGTTCGGATAC
1 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTGGAGGTTGAAAGTTCAGACAC
* * * * * * *
27678453 CATTGACAATGTGAAA-GCCAAGATTCAGGACAAAGAAGGAATCCCACCAGACCAACAAA-GATT
66 CATTGACAATGT-AAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
* * ** * * *
27678516 GATTTTTGCTGGAAAACAACTTGAAGATGGAAGAACTCTT-GCCGATTATAATATCCAGAAGGAG
130 -ATATTTGCTGGAAAGCAACTTGAAGATGGTCGCAC-CTTAGCCGATTACAATATCCAAAAGGAG
* * * * * * *
27678580 TCTACTCTCCATTTGGTTCTCCGCCTTCGGGGTGGT
193 TCCACCCTCCACTTGGTTCTTCGACTTCGTGGTGGC
* * * * * * * *
27678616 ATGCAGATCTTTGTAAAGACTCTTACCGGAAAGACCATCACTTTGGAGGTTGAAAGTTCCGATAC
1 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTGGAGGTTGAAAGTTCAGACAC
* *
27678681 CATTGACAATGTGAAGGCAAAGATCCAAGACAAGG-AGGGTATCCC-CCAGACCAGCAAAGGCTC
66 CATTGACAATGTAAAGGCAAAGATCCAAGACAAGGAAGGG-ATCCCACCAGACCAGCAAAGGCTT
* * * * * * * * *
27678744 ATCTTTGCTGGCAAGCAGCTCGAAGATGGTAGGACATTGGCCGACTACAATATCCAAAAGGAGTC
130 ATATTTGCTGGAAAGCAACTTGAAGATGGTCGCACCTTAGCCGATTACAATATCCAAAAGGAGTC
* * * * * *
27678809 TACCCTTCACTTGGTGT-TGCGGCTGCGTGGTGGG
195 CACCCTCCACTTGGT-TCTTCGACTTCGTGGTGGC
* * * * *
27678843 ATGCAGATCTTTGTTAAGACTCTTACTGGAAAGACTATCA-CTCTAGAGGTTGAAAGTTCAGACA
1 ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCT-TGGAGGTTGAAAGTTCAGACA
* * * *
27678907 CCATTGACAATCTTAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTC
65 CCATTGACAATGTAAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
* * * * * *
27678972 ATATTTGCTGGCAAGCAACTTGAAGATGG-CAGGACATTGGCTGATTATAATATCCAAAAGGAGT
130 ATATTTGCTGGAAAGCAACTTGAAGATGGTC-GCACCTTAGCCGATTACAATATCCAAAAGGAGT
27679036 C
194 C
27679037 TACTCTGCAT
Statistics
Matches: 737, Mismatches: 125, Indels: 30
0.83 0.14 0.03
Matches are distributed among these distances:
226 3 0.00
227 195 0.26
228 533 0.72
229 6 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (228 bp):
ATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTGGAGGTTGAAAGTTCAGACAC
CATTGACAATGTAAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTA
TATTTGCTGGAAAGCAACTTGAAGATGGTCGCACCTTAGCCGATTACAATATCCAAAAGGAGTCC
ACCCTCCACTTGGTTCTTCGACTTCGTGGTGGC
Found at i:27678954 original size:455 final size:454
Alignment explanation
Indices: 27677931--27679070 Score: 1264
Period size: 455 Copynumber: 2.5 Consensus size: 454
27677921 TGATTCAATA
* * * * *
27677931 GATGCAAATCTTTGTTAAAACCCTCACTGGCAAGACCATCACCCTCGAGGTGGAGAGTTCAGACA
1 GATGCAAATCTTTGTTAAAACTCTCACTGGAAAGACAATCA-CCTAGAGGTCGAGAGTTCAGACA
* * * * * * * *
27677996 CCATTGATAATGTGAAGGCTAAGATCCAAGATAAGGAAGGGATCCCACCGGATCAGCAGAGGCTT
65 CCATTGACAATGTGAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCA-AAGATT
* * * * * * * * * * *
27678061 ATATTTGCAGGCAAACAACTTGAGGATGGCCGCACGCTAGCCGACTACAACATTCAGAAAGAATC
129 ATATTTGCTGGCAAACAACTTGAAGATGGCAGAACTCTAGCCGATTATAATATCCAGAAGGAGTC
* * * * * * * * * *
27678126 CACCCTTCACTTGGTTCTTCGACTTCGTGGCGGCATGCAAATCTTTGTCAAGACTCTCACTGGAA
194 TACTCTCCATTTGGTTCTTCGCCTTCGCGGTGGTATGCAAATCTTTGTAAAGACTCTCACCGGAA
* * *
27678191 AGACAATTACCTTGGAGGTTGAAAGCTCTGACACAATTGATAATGTAAAGGCAAAGATCCAAGAC
259 AGACAATCACCTTGGAGGTTGAAAGCTCCGACACAATTGACAATGTAAAGGCAAAGATCCAAGAC
* * * * *
27678256 AAGGAAGGGATCCCACCAGATCAGCAGAGGCTTATCTTTGCTGGAAAGCAGCTTGAAGATGGTCG
324 AAGGAAGGGATCCCACCAGACCAGCAAAGGCTCATCTTTGCTGGAAAGCAGCTCGAAGATGGTAG
* * * * *
27678321 CACCTTAGCTGATTACAATATCCAAAAAGAGTCCACCCTCCACCTGGTACTTCGTCTTCGAGGTG
389 CACATTAGCCGACTACAATATCCAAAAAGAGTCCACCCTCCACCTGGTACTTCGGCTGCGAGGTG
27678386 G
454 G
* * * * * *
27678387 CATGCAAATCTTTGTCAAAACTCTCACTGGAAAGACAATTACCTTGGAGGTCGAGAGTTCGGATA
1 GATGCAAATCTTTGTTAAAACTCTCACTGGAAAGACAATCACC-TAGAGGTCGAGAGTTCAGACA
* * * * * *
27678452 CCATTGACAATGTGAAAGCCAAGATTCAGGACAAAGAAGGAATCCCACCAGACCAACAAAGATTG
65 CCATTGACAATGTGAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGATT-
* * * *
27678517 ATTTTTGCTGGAAAACAACTTGAAGATGGAAGAACTCTTGCCGATTATAATATCCAGAAGGAGTC
129 ATATTTGCTGGCAAACAACTTGAAGATGGCAGAACTCTAGCCGATTATAATATCCAGAAGGAGTC
* * * *
27678582 TACTCTCCATTTGGTTCTCCGCCTTCGGGGTGGTATGCAGATCTTTGTAAAGACTCTTACCGGAA
194 TACTCTCCATTTGGTTCTTCGCCTTCGCGGTGGTATGCAAATCTTTGTAAAGACTCTCACCGGAA
* * * * * *
27678647 AGACCATCACTTTGGAGGTTGAAAGTTCCGATACCATTGACAATGTGAAGGCAAAGATCCAAGAC
259 AGACAATCACCTTGGAGGTTGAAAGCTCCGACACAATTGACAATGTAAAGGCAAAGATCCAAGAC
*
27678712 AAGG-AGGGTATCCC-CCAGACCAGCAAAGGCTCATCTTTGCTGGCAAGCAGCTCGAAGATGGTA
324 AAGGAAGGG-ATCCCACCAGACCAGCAAAGGCTCATCTTTGCTGGAAAGCAGCTCGAAGATGGTA
* * * * * * * *
27678775 GGACATTGGCCGACTACAATATCCAAAAGGAGTCTACCCTTCACTTGGT-GTTGCGGCTGCGTGG
388 GCACATTAGCCGACTACAATATCCAAAAAGAGTCCACCCTCCACCTGGTACTT-CGGCTGCGAGG
27678839 TGG
452 TGG
* * * * * *
27678842 GATGCAGATCTTTGTTAAGACTCTTACTGGAAAGACTATCACTCTAGAGGTTGAAAGTTCAGACA
1 GATGCAAATCTTTGTTAAAACTCTCACTGGAAAGACAATCAC-CTAGAGGTCGAGAGTTCAGACA
* * * *
27678907 CCATTGACAATCTTAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTC
65 CCATTGACAATGTGAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAA-GATT
* * * * *
27678972 ATATTTGCTGGCAAGCAACTTGAAGATGGCAGGACAT-TGGCTGATTATAATATCCAAAAGGAGT
129 ATATTTGCTGGCAAACAACTTGAAGATGGCAGAAC-TCTAGCCGATTATAATATCCAGAAGGAGT
* *
27679036 CTACTCTGCATCTT-GTCCTTCGCCTTCGCGGTGGT
193 CTACTCTCCAT-TTGGTTCTTCGCCTTCGCGGTGGT
27679071 TTCTAGGTAA
Statistics
Matches: 563, Mismatches: 113, Indels: 17
0.81 0.16 0.02
Matches are distributed among these distances:
454 2 0.00
455 289 0.51
456 272 0.48
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (454 bp):
GATGCAAATCTTTGTTAAAACTCTCACTGGAAAGACAATCACCTAGAGGTCGAGAGTTCAGACAC
CATTGACAATGTGAAGGCAAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGATTAT
ATTTGCTGGCAAACAACTTGAAGATGGCAGAACTCTAGCCGATTATAATATCCAGAAGGAGTCTA
CTCTCCATTTGGTTCTTCGCCTTCGCGGTGGTATGCAAATCTTTGTAAAGACTCTCACCGGAAAG
ACAATCACCTTGGAGGTTGAAAGCTCCGACACAATTGACAATGTAAAGGCAAAGATCCAAGACAA
GGAAGGGATCCCACCAGACCAGCAAAGGCTCATCTTTGCTGGAAAGCAGCTCGAAGATGGTAGCA
CATTAGCCGACTACAATATCCAAAAAGAGTCCACCCTCCACCTGGTACTTCGGCTGCGAGGTGG
Found at i:27680257 original size:5 final size:6
Alignment explanation
Indices: 27680240--27680264 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27680230 GATATTTAAC
27680240 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
27680265 ACCATCAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:27691677 original size:40 final size:40
Alignment explanation
Indices: 27691633--27691737 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
27691623 GTGATGTCAG
*
27691633 GGACATCAAAGTGCATT-CAGAGGCACAATTGTGCAAACAA
1 GGACACCAAAGTG-ATTACAGAGGCACAATTGTGCAAACAA
* * * *
27691673 GGACACCAAAGTGTTTACAGGGGCACAGTTGTGCAAACAG
1 GGACACCAAAGTGATTACAGAGGCACAATTGTGCAAACAA
* *
27691713 GGACACCGAAGTGTTTACAG-GGCAC
1 GGACACCAAAGTGATTACAGAGGCAC
27691738 CGAGGAGCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 7 0.12
40 51 0.88
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (40 bp):
GGACACCAAAGTGATTACAGAGGCACAATTGTGCAAACAA
Found at i:27695870 original size:62 final size:59
Alignment explanation
Indices: 27695767--27695960 Score: 185
Period size: 62 Copynumber: 3.1 Consensus size: 59
27695757 TCACTTTAAG
* *
27695767 ATTAAATTAATATAATACTTATTAAGACAAATATTAGATTAAATTTAATATTAAATCTT
1 ATTAAATTAATAGAATACTTATTAAGACAAATATTAAATTAAATTTAATATTAAATCTT
* *
27695826 ATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTTAATATTGTGATAATCA
1 ATTAAATTAATAGAATACTTAT-T--AAGACAAATATTAAATTAAATTTAATA-T-T-A-AAT--
27695891 CTTTAAT
57 C--T--T
* * * *
27695898 ATTAAATTAATAAAATAC-TATTAAGATAGATATTAAATTAAATTAAATATTAAATC-T
1 ATTAAATTAATAGAATACTTATTAAGACAAATATTAAATTAAATTTAATATTAAATCTT
27695955 ATTAAA
1 ATTAAA
27695961 ATATTATTAT
Statistics
Matches: 114, Mismatches: 8, Indels: 28
0.76 0.05 0.19
Matches are distributed among these distances:
57 7 0.06
59 20 0.18
60 1 0.01
62 26 0.23
63 1 0.01
64 4 0.04
65 2 0.02
66 4 0.04
67 1 0.01
68 26 0.23
70 2 0.02
71 3 0.03
72 17 0.15
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.41
Consensus pattern (59 bp):
ATTAAATTAATAGAATACTTATTAAGACAAATATTAAATTAAATTTAATATTAAATCTT
Found at i:27698016 original size:12 final size:12
Alignment explanation
Indices: 27697999--27698023 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27697989 AAATAAACTC
27697999 ATTAAGGATTTA
1 ATTAAGGATTTA
27698011 ATTAAGGATTTA
1 ATTAAGGATTTA
27698023 A
1 A
27698024 ACGTATAAAT
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:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
ATTAAGGATTTA
Found at i:27705410 original size:26 final size:26
Alignment explanation
Indices: 27705381--27705442 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
27705371 TACCTGCAAT
27705381 AGTTTCAGAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
* *
27705407 AGTTTCAGAATATCATAGCATGTATC
1 AGTTTCAGAATATCATAACATATATC
27705433 AGTTTCAGAA
1 AGTTTCAGAA
27705443 CACTTACAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.34
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATATC
Found at i:27712834 original size:466 final size:464
Alignment explanation
Indices: 27711960--27713813 Score: 2756
Period size: 466 Copynumber: 4.0 Consensus size: 464
27711950 GCTCAAATCC
27711960 CCTCTCTTATTATTTTTATTTTTAATGTCAGCATTAAAAGCTTGGTCAAACCCCTCCTTGCCGCC
1 CCTCTCTTATTATTTTTATTTTTAATGTCAGCATTAAAAGCTTGGTCAAACCCCTCCTTGCCGCC
* *
27712025 CAAAAATTCTTACCATACAAGAGAGATTCTGTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
66 CAAAAATTCTTACCATGCAAGAGAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
** * * *
27712090 CCCATTTTTCACTTCCTTTGTTCCCCCTCCTTTCCTTTTCTTTCCCATGTCTCACTCCTTGTAAT
131 CCCCCTTTTCACTCCCTTTGTTCCCCCTCATTTCCTTTTCTTTCCCATGTCTCACTCCTTGCAAT
27712155 TTTTTCCCTTCACCCATTGACCTTTGCCATCCCATGCACCTAGACAAAATAAAATTTTTGTTTCT
196 TTTTTCCCTTCACCCATTGACCTTTGCCATCCCATGCACCTAGACAAAATAAAATTTTTGTTTCT
* *
27712220 CTTCTCATCCACTTGTTTCTCTCATCATTTTCTCTTCTCTTCCAATAGCCACCACTATTTTCACA
261 CTTCTCATCCACTTTTTTCTCTCATCATTTTCTCTTCTCTTTCAATAGCCACCACT-TTTTCACA
* * *
27712285 ATTTAGTCATCTTATCACCACCTTCGACCACCATTGCAACACCAAATCACCACCCATACATCACC
325 TTTTAGCCATCTTATCACCACCTTCGACCACCATTGCAACACCAAATCACCACCCATACACCACC
* * * *
27712350 GTCACTCCTCTTTCACCCTTTTCTTGCCATTTTTGCACCACCAATTGACCTCTACTTTGCCGATG
390 GTCACTCCCCTCTCACCCTCTTCTTGCCATTTTTGCACCACCGATTGACCTCTACTTTGCCG-TG
*
27712415 TCGTCTCACCG
454 TCGTCTCGCCG
* ** * * * *
27712426 CCTCTCTTATTATTTTTATTTTTAATTTTGGCATTAAAAGCTTAGTCAAACCCTTCATTGCCACC
1 CCTCTCTTATTATTTTTATTTTTAATGTCAGCATTAAAAGCTTGGTCAAACCCCTCCTTGCCGCC
* *
27712491 AAAAAATTCTTACCATGCCAGAGAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
66 CAAAAATTCTTACCATGCAAGAGAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
* *
27712556 CCCCCTTTTCACTCCCTTCT-TATCCCCTTCATTTCCTTTTCTTTCCAATGTCTCACTCCTTGCA
131 CCCCCTTTTCACTCCCTT-TGT-TCCCCCTCATTTCCTTTTCTTTCCCATGTCTCACTCCTTGCA
* * *
27712620 ATTTTTTCCCTTCACCCATTGACTTTTGCCATCCCATGCACCCAGACAAAATAAAATTTTTGTGT
194 ATTTTTTCCCTTCACCCATTGACCTTTGCCATCCCATGCACCTAGACAAAATAAAATTTTTGTTT
* *
27712685 CTCTTCTCATCCACTTTTTTCTCTTATTATTTTCTCTTCTCTTTCAATAGCCACCACTTTTTCAC
259 CTCTTCTCATCCACTTTTTTCTCTCATCATTTTCTCTTCTCTTTCAATAGCCACCACTTTTTCAC
*
27712750 ATTTTAGCCATCTTATCACCACCTTCGACCACCATTGCAACACCAAATCACCACCTATACACCAC
324 ATTTTAGCCATCTTATCACCACCTTCGACCACCATTGCAACACCAAATCACCACCCATACACCAC
* * * *
27712815 TGTCACTCCCCTCTCACCCTCTTCTTGCCATTTTTGCACCATCGCTTGACCTCCA-TTGTCGCCG
389 CGTCACTCCCCTCTCACCCTCTTCTTGCCATTTTTGCACCACCGATTGACCTCTACTT-T-GCCG
27712879 TTGTCGTCTCGCCG
452 -TGTCGTCTCGCCG
*
27712893 CCTCTCTTATTATTTTTATTTTTAATGTCGGCATTAAAAGCTTGGTCAAACCCCTCCTTGCCGCC
1 CCTCTCTTATTATTTTTATTTTTAATGTCAGCATTAAAAGCTTGGTCAAACCCCTCCTTGCCGCC
*
27712958 CAAAAATTCTTACCATGCAAGATAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
66 CAAAAATTCTTACCATGCAAGAGAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
* * *
27713023 CCCCTTTTTCACTCCCTTTGTTCCCACTCATTTCCTTTTCTTTTCCATGTCTCACTCCTTGCAA-
131 CCCCCTTTTCACTCCCTTTGTTCCCCCTCATTTCCTTTTCTTTCCCATGTCTCACTCCTTGCAAT
* * * * *
27713087 TTTTTCCCTTCACCTATTGAACTTTGCCGTCTCATGCACCTAGACAAAATAAAAGTTTTGTTTCT
196 TTTTTCCCTTCACCCATTGACCTTTGCCATCCCATGCACCTAGACAAAATAAAATTTTTGTTTCT
* * *
27713152 CTTCTCATCCACTTTTTCTCTCTCATCATTTTCCCTTCT-ATTCTAATAGCCACTACTTTTTCAC
261 CTTCTCATCCACTTTTT-TCTCTCATCATTTTCTCTTCTCTTTC-AATAGCCACCACTTTTTCAC
* *
27713216 ATTTTAGCCATCTTATCACCACCTTCAACCACCATT--------AAATCACCACCCATACACTAC
324 ATTTTAGCCATCTTATCACCACCTTCGACCACCATTGCAACACCAAATCACCACCCATACACCAC
* *
27713273 CGTCACTCCCCTCTCACCCTCTTCTTGCCATTTTTGCACCACCTATT-AGCCTCTACTATTGCTG
389 CGTCACTCCCCTCTCACCCTCTTCTTGCCATTTTTGCACCACCGATTGA-CCTCTACT-TTGCCG
*
27713337 TCGTCATCTCGCCG
452 T-GTCGTCTCGCCG
* * *
27713351 CCTCTCTTATTATTTTTATTTTTAATGTCAGCTTTAAAAGCTTGGTCAAACCTCTCCTTACCGCC
1 CCTCTCTTATTATTTTTATTTTTAATGTCAGCATTAAAAGCTTGGTCAAACCCCTCCTTGCCGCC
*
27713416 CAAAAATTCTTACCATGCAAAAGAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
66 CAAAAATTCTTACCATGCAAGAGAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
*
27713481 CCCCCTTTTTCACTCCCTTTGTTCCCCCTCCTTTCCTTTTCTTTCCCATGTCTCACTCCTTGCAA
131 CCCCC-TTTTCACTCCCTTTGTTCCCCCTCATTTCCTTTTCTTTCCCATGTCTCACTCCTTGCAA
* *
27713546 TTTTTTCCCTTCACCCATTGACCTTTGCCATCCCATACACCTAGAC-AAA-ACAA-TTTT-TTTC
195 TTTTTTCCCTTCACCCATTGACCTTTGCCATCCCATGCACCTAGACAAAATAAAATTTTTGTTTC
* * *
27713607 TCTTCTCATCCACTTTTTTCTCTCATCATTTTCTCTTATCTTTCAATAGCCACCAGTTTTTCAAA
260 TCTTCTCATCCACTTTTTTCTCTCATCATTTTCTCTTCTCTTTCAATAGCCACCACTTTTTCACA
* * * * *
27713672 TTTTAGCCATCTTATCACCACCTTCGACCATCATTACAACACCAAATCACCATCCATACAGCACA
325 TTTTAGCCATCTTATCACCACCTTCGACCACCATTGCAACACCAAATCACCACCCATACACCACC
* * * * *
27713737 ATCACTCCCCTTTCACCCTTTTCTTGCCATTTTTGCACCACCGCTTAACCTCTAC--TGCCGTCG
390 GTCACTCCCCTCTCACCCTCTTCTTGCCATTTTTGCACCACCGATTGACCTCTACTTTGCCGT-G
*
27713800 TCGTCTCGCGG
454 TCGTCTCGCCG
27713811 CCT
1 CCT
27713814 TTATTTTCTC
Statistics
Matches: 1253, Mismatches: 112, Indels: 52
0.88 0.08 0.04
Matches are distributed among these distances:
455 70 0.06
456 25 0.02
457 6 0.00
458 212 0.17
459 61 0.05
460 60 0.05
463 66 0.05
464 1 0.00
465 79 0.06
466 363 0.29
467 310 0.25
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (464 bp):
CCTCTCTTATTATTTTTATTTTTAATGTCAGCATTAAAAGCTTGGTCAAACCCCTCCTTGCCGCC
CAAAAATTCTTACCATGCAAGAGAGATTCTTTCCTCCCATACCTTTCTTTTATTTCCCTTCTTAT
CCCCCTTTTCACTCCCTTTGTTCCCCCTCATTTCCTTTTCTTTCCCATGTCTCACTCCTTGCAAT
TTTTTCCCTTCACCCATTGACCTTTGCCATCCCATGCACCTAGACAAAATAAAATTTTTGTTTCT
CTTCTCATCCACTTTTTTCTCTCATCATTTTCTCTTCTCTTTCAATAGCCACCACTTTTTCACAT
TTTAGCCATCTTATCACCACCTTCGACCACCATTGCAACACCAAATCACCACCCATACACCACCG
TCACTCCCCTCTCACCCTCTTCTTGCCATTTTTGCACCACCGATTGACCTCTACTTTGCCGTGTC
GTCTCGCCG
Found at i:27714222 original size:20 final size:20
Alignment explanation
Indices: 27714199--27714277 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
27714189 AATGAAGTTT
*
27714199 AAATGATTTTAACCAAGTCA
1 AAATGATTTCAACCAAGTCA
* *
27714219 AAATGACTTCAACCAAGTTA
1 AAATGATTTCAACCAAGTCA
* *
27714239 AAATCATTTTAA-CACA-TCA
1 AAATGATTTCAACCA-AGTCA
* *
27714258 AAATTATTTCAAACAAGTCA
1 AAATGATTTCAACCAAGTCA
27714278 GAATTGCTCT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
19 15 0.32
20 32 0.68
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (20 bp):
AAATGATTTCAACCAAGTCA
Found at i:27714259 original size:39 final size:40
Alignment explanation
Indices: 27714193--27714275 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
27714183 TTTTAAAATG
* * *
27714193 AAGTTTAAATGATTTTAACCAAGTCAAAATGACTTCAACC
1 AAGTTAAAATCATTTTAACCAAGTCAAAATGACTTCAAAC
* *
27714233 AAGTTAAAATCATTTTAA-CACA-TCAAAATTATTTCAAAC
1 AAGTTAAAATCATTTTAACCA-AGTCAAAATGACTTCAAAC
27714272 AAGT
1 AAGT
27714276 CAGAATTGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 20 0.54
40 17 0.46
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (40 bp):
AAGTTAAAATCATTTTAACCAAGTCAAAATGACTTCAAAC
Found at i:27722605 original size:20 final size:20
Alignment explanation
Indices: 27722576--27722660 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
27722566 AAGTTAAGTT
*
27722576 AAAATTATTTTAACCAAGAC
1 AAAATGATTTTAACCAAGAC
* **
27722596 AAAATGATTTCAACCAAGTT
1 AAAATGATTTTAACCAAGAC
* *
27722616 AAAATCATTTT-AGCACA-AC
1 AAAATGATTTTAACCA-AGAC
* *
27722635 AAAATGATTTTCAAACAAGTC
1 AAAATGATTTT-AACCAAGAC
27722656 AAAAT
1 AAAAT
27722661 TGCTCCAGTC
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
19 13 0.27
20 27 0.55
21 9 0.18
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.28
Consensus pattern (20 bp):
AAAATGATTTTAACCAAGAC
Found at i:27722615 original size:40 final size:40
Alignment explanation
Indices: 27722571--27722661 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
27722561 TTTTAAAGTT
*
27722571 AAGTTAAAATTATTTTAACCA-AGACAAAATGA-TTTCAACC
1 AAGTTAAAATTATTTT-ACCACA-ACAAAATGATTTTCAAAC
* *
27722611 AAGTTAAAATCATTTTAGCACAACAAAATGATTTTCAAAC
1 AAGTTAAAATTATTTTACCACAACAAAATGATTTTCAAAC
*
27722651 AAGTCAAAATT
1 AAGTTAAAATT
27722662 GCTCCAGTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
39 12 0.27
40 32 0.73
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.30
Consensus pattern (40 bp):
AAGTTAAAATTATTTTACCACAACAAAATGATTTTCAAAC
Found at i:27723094 original size:23 final size:23
Alignment explanation
Indices: 27723064--27723110 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
27723054 ATGCCAAGAT
* *
27723064 TGTTACCATATTGATTTTGATAC
1 TGTTACCAAAATGATTTTGATAC
27723087 TGTTACCAAAATGATTTTGATAC
1 TGTTACCAAAATGATTTTGATAC
27723110 T
1 T
27723111 AAAATGCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (23 bp):
TGTTACCAAAATGATTTTGATAC
Found at i:27735570 original size:13 final size:13
Alignment explanation
Indices: 27735552--27735583 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
27735542 TTTCCAGCAA
27735552 TTATGAATTTATT
1 TTATGAATTTATT
27735565 TTATGAATTTATT
1 TTATGAATTTATT
*
27735578 TGATGA
1 TTATGA
27735584 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:27735812 original size:51 final size:50
Alignment explanation
Indices: 27735682--27735813 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
27735672 GGGTAAAGAG
* * *
27735682 ATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAC
* ** *
27735732 GTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAG-AC
* *
27735783 ATTCCATGTAAGACAATGTCTGGGACATGGC
1 ATCCCATGTAAGACCATGTCTGGGACATGGC
27735814 TTTGGCATGT
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 42 0.61
51 27 0.39
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAC
Found at i:27748275 original size:21 final size:21
Alignment explanation
Indices: 27748249--27748289 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
27748239 TTTTAGAAAT
*
27748249 TGTTAGATTTCATGACGTATA
1 TGTTAGATTTAATGACGTATA
27748270 TGTTAGATTTAATGACGTAT
1 TGTTAGATTTAATGACGTAT
27748290 TGCTATCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (21 bp):
TGTTAGATTTAATGACGTATA
Found at i:27751557 original size:27 final size:27
Alignment explanation
Indices: 27751527--27751690 Score: 186
Period size: 27 Copynumber: 6.1 Consensus size: 27
27751517 AGGTAGTCCA
* * *
27751527 TTCAGAGTTCGCCACAAAGACGATTCT
1 TTCAGAGTTCTCCACAAAGGCTATTCT
* *
27751554 TTCAGATTTTTCCACAAAGGCTATTCT
1 TTCAGAGTTCTCCACAAAGGCTATTCT
* *
27751581 TTCAGATTTTTCCACAAAGGCTATTCT
1 TTCAGAGTTCTCCACAAAGGCTATTCT
* * *
27751608 TTCAAAGTTCACCATAAAGGCTATTCT
1 TTCAGAGTTCTCCACAAAGGCTATTCT
* **
27751635 TTCAGAGTTCTCCATAAAGATTATTCT
1 TTCAGAGTTCTCCACAAAGGCTATTCT
*
27751662 TTTAGAGTT-TGCCACAAAGGCTATTCT
1 TTCAGAGTTCT-CCACAAAGGCTATTCT
27751689 TT
1 TT
27751691 GTTGTCGTGT
Statistics
Matches: 118, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.01
27 117 0.99
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.37
Consensus pattern (27 bp):
TTCAGAGTTCTCCACAAAGGCTATTCT
Found at i:27752072 original size:22 final size:22
Alignment explanation
Indices: 27752029--27752072 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
27752019 CATATACAAC
* *
27752029 CATACTCCAACATTTCAGTACT
1 CATACACCAACATCTCAGTACT
27752051 CATACACCAATCATCTCA-TACT
1 CATACACCAA-CATCTCAGTACT
27752073 TCAATTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (22 bp):
CATACACCAACATCTCAGTACT
Found at i:27756479 original size:17 final size:18
Alignment explanation
Indices: 27756457--27756498 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
27756447 TTTTCCTGGG
27756457 CCCAAAACCAAT-ACAAA
1 CCCAAAACCAATAACAAA
* *
27756474 CCC-AAACTATTAACAAA
1 CCCAAAACCAATAACAAA
27756491 CCCAAAAC
1 CCCAAAAC
27756499 AAATTAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 11 0.52
18 4 0.19
ACGTcount: A:0.55, C:0.36, G:0.00, T:0.10
Consensus pattern (18 bp):
CCCAAAACCAATAACAAA
Found at i:27761949 original size:9 final size:9
Alignment explanation
Indices: 27761935--27761963 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
27761925 TTCAGACTCA
27761935 AAAAAAATC
1 AAAAAAATC
27761944 -AAAAAATC
1 AAAAAAATC
27761952 AAAAAAATC
1 AAAAAAATC
27761961 AAA
1 AAA
27761964 GTCAAAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAATC
Found at i:27761990 original size:6 final size:6
Alignment explanation
Indices: 27761967--27762025 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
27761957 AATCAAAGTC
* * *
27761967 AAAATAG AAAAA- AAAAAG AAAAAG GAAAA- AAGAAG AAAAAG TAAAAG
1 AAAA-AG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
* *
27762014 TAAAAG TAAAAG
1 AAAAAG AAAAAG
27762026 GAGAGGTCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
5 8 0.18
6 33 0.73
7 4 0.09
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (6 bp):
AAAAAG
Found at i:27761997 original size:17 final size:17
Alignment explanation
Indices: 27761975--27762027 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
27761965 TCAAAATAGA
27761975 AAAAAAAAAGAAAAAGG
1 AAAAAAAAAGAAAAAGG
* *
27761992 AAAAAAGAAGAAAAAGT
1 AAAAAAAAAGAAAAAGG
* *
27762009 AAAAGTAAAAGTAAAAGG
1 AAAA-AAAAAGAAAAAGG
27762027 A
1 A
27762028 GAGGTCAAGG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
17 19 0.66
18 10 0.34
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAGG
Found at i:27763344 original size:44 final size:43
Alignment explanation
Indices: 27763296--27763378 Score: 121
Period size: 44 Copynumber: 1.9 Consensus size: 43
27763286 GGGACATTAA
* *
27763296 GTGATCAGAGCAACTTAAATTTTGGATCAAATTGGGGCATGGTG
1 GTGATCAGAGCAACTCAAATTTT-GATCAAATCGGGGCATGGTG
* *
27763340 GTGATCAGAGCAGCTCAAATTTTGATCAGATCGGGGCAT
1 GTGATCAGAGCAACTCAAATTTTGATCAAATCGGGGCAT
27763379 ATGATGATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
43 14 0.40
44 21 0.60
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (43 bp):
GTGATCAGAGCAACTCAAATTTTGATCAAATCGGGGCATGGTG
Found at i:27764799 original size:150 final size:149
Alignment explanation
Indices: 27764510--27765969 Score: 1302
Period size: 150 Copynumber: 9.9 Consensus size: 149
27764500 GTCTGCAATT
* * * * *
27764510 AAAAGATTGAAGCCACAACGGCGAATCTTACCTTTC-CAGGCAGTGCAGTGGAACAGATTGAAGC
1 AAAAGATTGAAGCTACAACAGCGGATCTTA-CTTTCTTA-GCATTGCAGTGGAACAGATTGAAGC
* * * ** * *
27764574 TACAACAGCGGATCTTGC-TTCC--CCGAT--AGTTAAAAAGATTGAAGCTACAACAGTGGATCT
64 TACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCT
* *
27764634 TACTTTCTTAGCATTGCAATGG
129 TACTTCCTGA-CATTGCAATGG
* * * * * ** *
27764656 AACAGATTGAAGCTACAGCAGCGGATCTTACTTCCCT-GACATTGCAATTAAAAAGATTGAAGCT
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG-CATTGCAGTGGAACAGATTGAAGCT
* * * *
27764720 ACAACAGTGAATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTT
65 ACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTT
**
27764785 ACTTCCATGACATTGCAATTA
130 ACTTCC-TGACATTGCAATGG
* * * *
27764806 AAAAGATTGAAGCTACAACAGCGGATCTTACTTCCTTAGCGTTGCAGTGGAACAGATTAAAGCCA
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAGTGGAACAGATTGAAGCTA
* *
27764871 CAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTACCACAGCGGATCTTA
66 CAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTA
*
27764936 CTTCCCTGACATTGCAAT-T
131 CTT-CCTGACATTGCAATGG
* * *
27764955 AAGAAAATTGAAGCTACAACAGCAGATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAAGCT
1 AA-AAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAGTGGAACAGATTGAAGCT
* * * ** * *
27765020 ACAACAGCGTATCTTACTTTCCT-GACATTGCAATTAAAAAGATTGAAGCTACAACAGTGGATCT
65 ACAACAGCGGATCTTACTTTCCTAG-CGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCT
*
27765084 TACTTTCCT-AGCATTGCAGTGG
129 TAC-TTCCTGA-CATTGCAATGG
* * * ** *
27765106 AACAGATTGAAGCTACAACAGCGGATCTTAC-TTCTCTAACATTGCAATTAAAAAGATTGAAGCT
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCT-TAGCATTGCAGTGGAACAGATTGAAGCT
* *
27765170 ACAACAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAAGCTACAATAGCGGATCTT
65 ACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTT
**
27765235 ACTTCCCTGACATTGCAATTA
130 ACTT-CCTGACATTGCAATGG
* * * *
27765256 AAAAGATTGAAGCTACAACAGTGAATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAATCTA
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAGTGGAACAGATTGAAGCTA
* * * ** *
27765321 CAACAGCGGATCTTACTTCCCT-GACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTT
66 CAACAGCGGATCTTACTTTCCTAG-CGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTT
**
27765385 ACTTCCCTGACATTGCAATTA
130 ACTT-CCTGACATTGCAATGG
27765406 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAGTGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAGTGGAACAGATTGAAGCTA
* * * ** * **
27765471 CAACAGCGGATCTTACTTCCCT-GACATTGCAATTAAAAAGATTGAAGCTACAACAGCAAATCTT
66 CAACAGCGGATCTTACTTTCCTAG-CGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTT
* * * *
27765535 ACTTTCTTAGCGTTGCAGTGG
130 ACTTCCTGA-CATTGCAATGG
* * * * ** *
27765556 AACAGATTGAAGCTACAACAGCGGATCTTACTTCCAT-GACATTGCAATTAAAAAGATTGAAGCT
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG-CATTGCAGTGGAACAGATTGAAGCT
* * * **
27765620 ACAACAGTGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAAGCCACAACAATGG---TT
65 ACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTT
27765682 -C-T--T---A--G---TGG
130 ACTTCCTGACATTGCAATGG
* * **
27765690 AACAGATTGAAGCCACAACAGCGGATCTTACTTTCTTAGTGTTGCAGTGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAGTGGAACAGATTGAAGCTA
* * * ** * * *
27765755 CAACAGCGGATCTTGC-TTCC--CCG--GCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTA
66 CAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTA
* * ** *
27765815 CTTTCCAGGCGGTGCAGTGG
131 C-TTCCTGACATTGCAATGG
* * *** * * ** * *
27765835 AATAGATTGAAGCTACAACGGTAAATCTT-CTTTCCCT-GACATTGCAATTAAAAAGATTGAAGT
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTT-CTTAG-CATTGCAGTGGAACAGATTGAAGC
* * * * * * * ** *
27765898 TACAACAGCGAATCTTAC-TTCCCAGGCGATGTAATGGAATAGATTGAAGCTACGATGGCGAATC
64 TACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATC
27765962 TTACTTCC
128 TTACTTCC
27765970 CCAACATTGT
Statistics
Matches: 1087, Mismatches: 179, Indels: 93
0.80 0.13 0.07
Matches are distributed among these distances:
129 22 0.02
131 2 0.00
132 2 0.00
133 4 0.00
134 71 0.07
135 2 0.00
137 1 0.00
142 1 0.00
143 1 0.00
144 6 0.01
145 104 0.10
146 29 0.03
147 2 0.00
148 5 0.00
149 19 0.02
150 800 0.74
151 16 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (149 bp):
AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAGTGGAACAGATTGAAGCTA
CAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTA
CTTCCTGACATTGCAATGG
Found at i:27765685 original size:50 final size:50
Alignment explanation
Indices: 27764609--27765675 Score: 1159
Period size: 50 Copynumber: 21.3 Consensus size: 50
27764599 ATAGTTAAAA
*
27764609 AGATTGAAGCTACAACAGTGGATCTTACTTTCTTAGCATTGCAATGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAATGGAAC
* * * ** *
27764659 AGATTGAAGCTACAGCAGCGGATCTTACTTCCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG-CATTGCAATGGAAC
* * * *
27764709 AGATTGAAGCTACAACAGTGAATCTTACTTTCTTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAATGGAAC
* * * ** *
27764759 AGATTGAAGCTACAACAGCGAATCTTACTTCCAT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG-CATTGCAATGGAAC
* * *
27764809 AGATTGAAGCTACAACAGCGGATCTTACTTCCTTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAATGGAAC
* * * ** *
27764859 AGATTAAAGCCACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAATGGAAC
* * * *
27764909 AGATTGAAGCTACCACAGCGGATCTTACTTCCCT-GACATTGCAATTAAGAA-
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG-CATTGCAA-T-GGAAC
* * *
27764960 A-ATTGAAGCTACAACAGCAGATCTTACTTTCTTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAATGGAAC
* * ** *
27765009 AGATTGAAGCTACAACAGCGTATCTTACTTTCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG-CATTGCAATGGAAC
* * *
27765059 AGATTGAAGCTACAACAGTGGATCTTACTTTCCTAGCATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAATGGAAC
* ** *
27765109 AGATTGAAGCTACAACAGCGGATCTTAC-TTCTCTAACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCT-TAGCATTGCAATGGAAC
* *
27765159 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAATGGAAC
* * * ** *
27765209 AGATTGAAGCTACAATAGCGGATCTTACTTCCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG-CATTGCAATGGAAC
* * * *
27765259 AGATTGAAGCTACAACAGTGAATCTTACTTTCTTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAATGGAAC
* * * ** *
27765309 AGATTGAATCTACAACAGCGGATCTTACTTCCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG-CATTGCAATGGAAC
* * ** *
27765359 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG-CATTGCAATGGAAC
*
27765409 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAATGGAAC
* * ** *
27765459 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG-CATTGCAATGGAAC
** * *
27765509 AGATTGAAGCTACAACAGCAAATCTTACTTTCTTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAATGGAAC
* * ** *
27765559 AGATTGAAGCTACAACAGCGGATCTTACTTCCAT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAG-CATTGCAATGGAAC
* * *
27765609 AGATTGAAGCTACAACAGTGGATCTTACTTTCTTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAATGGAAC
*
27765659 AGATTGAAGCCACAACA
1 AGATTGAAGCTACAACA
27765676 ATGGTTCTTA
Statistics
Matches: 848, Mismatches: 147, Indels: 44
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.00
49 13 0.02
50 815 0.96
51 14 0.02
52 3 0.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAATGGAAC
Found at i:27765719 original size:34 final size:34
Alignment explanation
Indices: 27765651--27765719 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
27765641 TTAGCGTTGC
* *
27765651 AGTGGAACAGATTGAAGCCACAACAATGGTTCTT
1 AGTGGAACAGATTGAAGCCACAACAACGGATCTT
*
27765685 AGTGGAACAGATTGAAGCCACAACAGCGGATCTT
1 AGTGGAACAGATTGAAGCCACAACAACGGATCTT
27765719 A
1 A
27765720 CTTTCTTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (34 bp):
AGTGGAACAGATTGAAGCCACAACAACGGATCTT
Found at i:27765863 original size:95 final size:97
Alignment explanation
Indices: 27765693--27765950 Score: 290
Period size: 95 Copynumber: 2.6 Consensus size: 97
27765683 TTAGTGGAAC
* * * * * *
27765693 AGATTGAAGCCACAACAGCGGATCTTACTTTCTTA-GTGTTGCAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCTACAACAGCGAATCTTACTTTC-CAGGCGATGCAGTGGAATAGATTGAAGCTACA
**
27765757 ACAGCGGATCTTGC-TTCCC-C-GGCAATTAAAA
65 ACAGCAAATCTT-CTTTCCCACAGGCAATTAAAA
* *
27765788 AGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGTGGAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTTCCAGGCGATGCAGTGGAATAGATTGAAGCTACAA
* * *
27765853 CGGTAAATCTTCTTTCCCTGACATTGCAATTAAAA
66 CAGCAAATCTTCTTTCCC--ACA-GGCAATTAAAA
* * * *
27765888 AGATTGAAGTTACAACAGCGAATCTTACTTCCCAGGCGATGTAATGGAATAGATTGAAGCTAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTTCCAGGCGATGCAGTGGAATAGATTGAAGCTAC
27765951 GATGGCGAAT
Statistics
Matches: 138, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
94 2 0.01
95 68 0.49
98 1 0.01
100 67 0.49
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (97 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTTCCAGGCGATGCAGTGGAATAGATTGAAGCTACAA
CAGCAAATCTTCTTTCCCACAGGCAATTAAAA
Found at i:27765968 original size:50 final size:50
Alignment explanation
Indices: 27765687--27765970 Score: 206
Period size: 50 Copynumber: 5.8 Consensus size: 50
27765677 TGGTTCTTAG
* * * * ** * * *
27765687 TGGAACAGATTGAAGCCACAACAGCGGATCTTACTTTCTTA-GTGTTGCAG
1 TGGAATAGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAGGCGATGCAA
* * * *
27765737 TGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCC---CG--GCAA
1 TGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAA
** * * * *
27765782 TTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAG
1 TGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAA
** * *
27765832 TGGAATAGATTGAAGCTACAACGGTAAATCTT-CTTTCCCTGAC-ATTGCAA
1 TGGAATAGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAGGCGA-TGCAA
** * * * *
27765882 TTAAAAAGATTGAAGTTACAACAGCGAATCTTACTTCCCAGGCGATGTAA
1 TGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAA
* *
27765932 TGGAATAGATTGAAGCTACGATGGCGAATCTTACTTCCC
1 TGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCC
27765971 CAACATTGTA
Statistics
Matches: 184, Mismatches: 41, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
45 35 0.19
47 1 0.01
48 2 0.01
49 4 0.02
50 140 0.76
51 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (50 bp):
TGGAATAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAA
Found at i:27765970 original size:100 final size:100
Alignment explanation
Indices: 27765778--27765993 Score: 281
Period size: 100 Copynumber: 2.2 Consensus size: 100
27765768 TGCTTCCCCG
* * * *
27765778 GCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGTGGAATAGATT
1 GCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCAATGGAATAGATT
* **
27765843 GAAGCTACAACGGTAAATCTTCTTTCCCTGACATT
66 GAAGCTACAACGGCAAATCTTCTTTCCCCAACATT
* *
27765878 GCAATTAAAAAGATTGAAGTTACAACAGCGAATCTTACTTCCCAGGCGATGTAATGGAATAGATT
1 GCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCAATGGAATAGATT
* * *
27765943 GAAGCTACGATGGCGAATCTTAC-TTCCCCAACATT
66 GAAGCTACAACGGCAAATCTT-CTTTCCCCAACATT
* * *
27765978 GTAGTTAAACAGATTG
1 GCAATTAAAAAGATTG
27765994 GAGATGGCAG
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
100 99 0.99
101 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (100 bp):
GCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCAGGCGATGCAATGGAATAGATT
GAAGCTACAACGGCAAATCTTCTTTCCCCAACATT
Found at i:27766067 original size:18 final size:18
Alignment explanation
Indices: 27766044--27766078 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27766034 AATCGCATCT
*
27766044 AGTCCTATCTCCCTAAGC
1 AGTCCTATCACCCTAAGC
27766062 AGTCCTATCACCCTAAG
1 AGTCCTATCACCCTAAG
27766079 TAGTAGTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.37, G:0.11, T:0.26
Consensus pattern (18 bp):
AGTCCTATCACCCTAAGC
Found at i:27766144 original size:44 final size:44
Alignment explanation
Indices: 27766066--27766277 Score: 146
Period size: 44 Copynumber: 4.8 Consensus size: 44
27766056 CTAAGCAGTC
* * *
27766066 CTATCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAAATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAAATT
* * * * **
27766110 CTGTCATCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAA-T
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAAATT
* * * * * * **
27766153 CTTATCTTCGC-AATACAGTAGAGAAGCAGATTTAAG--T-CATTTGT
1 C-TATC-ACCCTAA-GCAGTAGTGGAGCAGATTGAAGATTGCAAAT-T
* * *
27766197 CCTATCACCCTAAGTAGTAGTGGAGTAGATTGAAGATTGCAGATT
1 -CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAAATT
* *
27766242 CTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGAT
27766278 GGTGAATCTT
Statistics
Matches: 121, Mismatches: 37, Indels: 20
0.68 0.21 0.11
Matches are distributed among these distances:
43 20 0.17
44 77 0.64
45 21 0.17
46 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (44 bp):
CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGCAAATT
Found at i:27766309 original size:132 final size:132
Alignment explanation
Indices: 27766062--27766693 Score: 1021
Period size: 132 Copynumber: 4.8 Consensus size: 132
27766052 CTCCCTAAGC
* *
27766062 AGTCCTATCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAAATTCTGTCATCCTAAGCAGT
1 AGTCCTATCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGT
* * *
27766127 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCGCAATACAGTAGAGAAGCAGATTTAAGTCA
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCA
27766192 TT
131 TT
* *
27766194 TGTCCTATCACCCTAAGTAGTAGTGGAGTAGATTGAAGATTGCAGATTCTGTCACCCTAAGCAGT
1 AGTCCTATCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGT
* *
27766259 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATATAGTGGAGAAGCAAATTTAAGCCA
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCA
27766324 TT
131 TT
* * * * * *
27766326 AGTCTTATCACCCTAAATAGTAGTGGAATAGGTCGAAGATTGCAGATTCTGTCACCTTAAACAGT
1 AGTCCTATCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGT
27766391 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCA
27766456 TT
131 TT
** * * * *
27766458 AGTCCTATCACCCTAAACAGTAGTGGAATAGGTCGAAGATTGCAGATTCTGTCACCTTAAGTAGT
1 AGTCCTATCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGT
* * *
27766523 AGTGGAGCAGATCGAATATGGTGAATCTTATCTTTCCAATACAGTGGAGAAGCAGATTTAAGCCG
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCA
27766588 TT
131 TT
* * *
27766590 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGT
1 AGTCCTATCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGT
27766655 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAA
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAA
27766694 GTGGAATGAA
Statistics
Matches: 465, Mismatches: 35, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 465 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
AGTCCTATCACCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGT
AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCA
TT
Found at i:27766406 original size:44 final size:44
Alignment explanation
Indices: 27766333--27766538 Score: 118
Period size: 44 Copynumber: 4.7 Consensus size: 44
27766323 ATTAGTCTTA
* * ** *
27766333 TCACCCTAAATAGTAGTGGAATAGGTCGAAGATTGCAGATTCTG
1 TCACCTTAAACAGTAGTGGAGCAGATCGAAGATTGCAGATTCTG
** *
27766377 TCACCTTAAACAGTAGTGGAGCAGATCGAAGA-TGGTGAATCT-
1 TCACCTTAAACAGTAGTGGAGCAGATCGAAGATTGCAGATTCTG
* * * * ** * *
27766419 T-ATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TCCTA
1 TCACCTT---AA-ACAGTAGTGGAGCAGATCGAAG--ATTGCAGATTCTG
* ** *
27766465 TCACCCTAAACAGTAGTGGAATAGGTCGAAGATTGCAGATTCTG
1 TCACCTTAAACAGTAGTGGAGCAGATCGAAGATTGCAGATTCTG
**
27766509 TCACCTTAAGTAGTAGTGGAGCAGATCGAA
1 TCACCTTAAACAGTAGTGGAGCAGATCGAA
27766539 TATGGTGAAT
Statistics
Matches: 115, Mismatches: 35, Indels: 24
0.66 0.20 0.14
Matches are distributed among these distances:
41 7 0.06
42 1 0.01
43 23 0.20
44 58 0.50
45 19 0.17
46 2 0.02
47 4 0.03
48 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (44 bp):
TCACCTTAAACAGTAGTGGAGCAGATCGAAGATTGCAGATTCTG
Found at i:27766897 original size:17 final size:18
Alignment explanation
Indices: 27766875--27766916 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
27766865 TTTTCCTGGC
27766875 CCCAAAACCAAT-ACAAA
1 CCCAAAACCAATAACAAA
* *
27766892 CCC-AAACTATTAACAAA
1 CCCAAAACCAATAACAAA
27766909 CCCAAAAC
1 CCCAAAAC
27766917 AAATTAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 11 0.52
18 4 0.19
ACGTcount: A:0.55, C:0.36, G:0.00, T:0.10
Consensus pattern (18 bp):
CCCAAAACCAATAACAAA
Found at i:27770461 original size:10 final size:10
Alignment explanation
Indices: 27770435--27770471 Score: 56
Period size: 10 Copynumber: 3.5 Consensus size: 10
27770425 CTTTTTTTCC
27770435 TTTCTCTATTT
1 TTTCTCT-TTT
27770446 TATTCTCTTTT
1 T-TTCTCTTTT
27770457 TTTCTCTTTT
1 TTTCTCTTTT
27770467 TTTCT
1 TTTCT
27770472 TCCCAATCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 14 0.56
11 5 0.20
12 6 0.24
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTCTCTTTT
Found at i:27773372 original size:6 final size:6
Alignment explanation
Indices: 27773361--27773404 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
27773351 GTAAACCACG
27773361 CCTTCA CCTTCA CCTTCA CCTTCA CCTTCA CCTTCA CCTTCA CC
1 CCTTCA CCTTCA CCTTCA CCTTCA CCTTCA CCTTCA CCTTCA CC
27773405 CATTGCTACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (6 bp):
CCTTCA
Found at i:27776605 original size:50 final size:50
Alignment explanation
Indices: 27776530--27776829 Score: 375
Period size: 50 Copynumber: 5.9 Consensus size: 50
27776520 CATTTGGGTA
* *
27776530 GAGAGGTCTCATGTAAGGCCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
27776580 GAGAGGTCCCATGTAAGGCCATGTCTGGGACATGGCGTTGGCATTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC----G--TTGGCACCGAGAT
* * * *
27776636 GAAAGGTCCCATATAAGACCATGTCTGAGACATGGCGCTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
27776686 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * *
27776736 GTGAGGTCCCCCGTAAGACCATGTCTGGAACATGGCATGGGCACCGATAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
** *
27776786 GAGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GAG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
27776830 TGTTATGATC
Statistics
Matches: 216, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
50 136 0.63
51 33 0.15
52 1 0.00
54 1 0.00
56 45 0.21
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.21
Consensus pattern (50 bp):
GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:27776718 original size:106 final size:99
Alignment explanation
Indices: 27776532--27776830 Score: 359
Period size: 106 Copynumber: 2.9 Consensus size: 99
27776522 TTTGGGTAGA
* * *
27776532 GAGGTCTCATGTAAGGCCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAG
1 GAGGTCCCATGTAAGACCATGTCT-GGACATGGCGATGGCACCGAGATGAGAGGTCCCATGTAAG
*
27776597 GCCATGTCTGGGACATGGCGTTGGCATTGGCACCGA-GAT
65 ACCATGTCTGGGACATGGCGTTGGCATT-G-A--GATG-T
* *
27776636 GAAAGGTCCCATATAAGACCATGTCTGAGACATGGCGCTGGCACCGAGATGAGAGGTCCCATGTA
1 G--AGGTCCCATGTAAGACCATGTCTG-GACATGGCGATGGCACCGAGATGAGAGGTCCCATGTA
*
27776701 AGACCATGTCTGGGACATGGCGTTGGCACTGAGATGT
63 AGACCATGTCTGGGACATGGCGTTGGCATTGAGATGT
** * **
27776738 GAGGTCCCCCGTAAGACCATGTCTGGAACATGGC-ATGGGCACCGATATGAGAACATCCCATGTA
1 GAGGTCCCATGTAAGACCATGTCTGG-ACATGGCGAT-GGCACCGAGATGAG-AGGTCCCATGTA
*
27776802 AGACCATGTCTGGGACATGGCTTTGGCAT
63 AGACCATGTCTGGGACATGGCGTTGGCAT
27776831 GTTATGATCA
Statistics
Matches: 173, Mismatches: 15, Indels: 17
0.84 0.07 0.08
Matches are distributed among these distances:
99 2 0.01
100 41 0.24
101 37 0.21
102 4 0.02
103 1 0.01
104 2 0.01
105 2 0.01
106 84 0.49
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.21
Consensus pattern (99 bp):
GAGGTCCCATGTAAGACCATGTCTGGACATGGCGATGGCACCGAGATGAGAGGTCCCATGTAAGA
CCATGTCTGGGACATGGCGTTGGCATTGAGATGT
Found at i:27785513 original size:2 final size:2
Alignment explanation
Indices: 27785506--27785531 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27785496 ACTCTACTAT
27785506 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
27785532 GAGGAGGAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:27799438 original size:26 final size:27
Alignment explanation
Indices: 27799394--27799447 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
27799384 TGGATCCGTA
*
27799394 TGTTACTTGTTTTTGTTAATTTTAATT
1 TGTTACTTGTTTTTGTTAATTTCAATT
* *
27799421 TGTTTCTT-TTTTTTTTAATTTCAATT
1 TGTTACTTGTTTTTGTTAATTTCAATT
27799447 T
1 T
27799448 ACTAAGCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.17, C:0.06, G:0.07, T:0.70
Consensus pattern (27 bp):
TGTTACTTGTTTTTGTTAATTTCAATT
Found at i:27809197 original size:19 final size:20
Alignment explanation
Indices: 27809175--27809219 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
27809165 AAAAATACAA
27809175 AAAAAATTA-AAATATTT-AT
1 AAAAAATTACAAAT-TTTCAT
27809194 AAAAAATTACAAATTTTCAT
1 AAAAAATTACAAATTTTCAT
27809214 AAAAAA
1 AAAAAA
27809220 AAATTTCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAATTACAAATTTTCAT
Found at i:27811505 original size:22 final size:21
Alignment explanation
Indices: 27811480--27811527 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
27811470 ACTTATGCTT
27811480 TAAAA-TTCAAAAAATAAATGAA
1 TAAAATTTCAAAAAATAAA--AA
*
27811502 TAAAATTTCTAAAAATAAAAA
1 TAAAATTTCAAAAAATAAAAA
27811523 TAAAA
1 TAAAA
27811528 GTTTGGATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 5 0.21
23 12 0.50
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (21 bp):
TAAAATTTCAAAAAATAAAAA
Found at i:27812248 original size:9 final size:9
Alignment explanation
Indices: 27812234--27812261 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
27812224 TTATTGTTAG
27812234 TGTGAATAT
1 TGTGAATAT
27812243 TGTGAATAT
1 TGTGAATAT
27812252 TGTGAATAT
1 TGTGAATAT
27812261 T
1 T
27812262 ATGTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
TGTGAATAT
Found at i:27813750 original size:19 final size:19
Alignment explanation
Indices: 27813717--27813764 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
27813707 TAAACAATTC
27813717 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
27813734 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
27813753 AATAATATAAAT
1 AATAATATAAAT
27813765 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:27813904 original size:17 final size:16
Alignment explanation
Indices: 27813854--27813916 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 16
27813844 GGGTAAGAAG
27813854 TAAAAGTTTAGGGGAAAAA
1 TAAAAGTTTA-GGG--AAA
*
27813873 TAAAAAGTTTTGGGAAA
1 T-AAAAGTTTAGGGAAA
27813890 TAAAAGTTTGAGGGAAA
1 TAAAAGTTT-AGGGAAA
27813907 GTAAATAGTT
1 -TAAA-AGTT
27813917 GGAGTAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 8 0.21
17 10 0.26
18 4 0.11
19 8 0.21
20 8 0.21
ACGTcount: A:0.48, C:0.00, G:0.25, T:0.27
Consensus pattern (16 bp):
TAAAAGTTTAGGGAAA
Found at i:27814588 original size:27 final size:29
Alignment explanation
Indices: 27814534--27814591 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
27814524 ATAGTTATAA
27814534 ATTATTTTTAAAAAATTTATATTATTATTT
1 ATTATTTTTAAAAAA-TTATATTATTATTT
* *
27814564 ATTATTTTTAAATAA-TA-ATTTTTATTT
1 ATTATTTTTAAAAAATTATATTATTATTT
27814591 A
1 A
27814592 GATTCCAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 10 0.38
28 2 0.08
30 14 0.54
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
ATTATTTTTAAAAAATTATATTATTATTT
Found at i:27818268 original size:43 final size:43
Alignment explanation
Indices: 27818220--27818306 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
27818210 ATAATGTCAT
27818220 TAGTTAGTCTAAATATTTAATATTATTAACTATTTCAATAAAA
1 TAGTTAGTCTAAATATTTAATATTATTAACTATTTCAATAAAA
* *
27818263 TAGTTAGTCTAAATATTTAATATTGTTAACTGTTTCAATAAAA
1 TAGTTAGTCTAAATATTTAATATTATTAACTATTTCAATAAAA
27818306 T
1 T
27818307 TGTTTATGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (43 bp):
TAGTTAGTCTAAATATTTAATATTATTAACTATTTCAATAAAA
Found at i:27819208 original size:44 final size:44
Alignment explanation
Indices: 27819140--27819376 Score: 237
Period size: 44 Copynumber: 5.4 Consensus size: 44
27819130 GGGTCTCCAA
* * ** *
27819140 TCCC-ATCTTATGTGTATGCGATGTGTGAATTTTATCCCGTTCT
1 TCCCTATCTTGTGTGTATGCTATGTGTGGGTTTTATCCAGTTCT
* * *
27819183 TCCCCATCTTATATGTATGCTATGTGTGGGTTTT-TCCAGTTCT
1 TCCCTATCTTGTGTGTATGCTATGTGTGGGTTTTATCCAGTTCT
* *
27819226 TCCCTATCTTGTGTGTATG-TCATGTATGGGTTTTATCCAATTCT
1 TCCCTATCTTGTGTGTATGCT-ATGTGTGGGTTTTATCCAGTTCT
* * * * *
27819270 TTCCTATCTTGTGTATATACTATGTGTGGATTTTATCTAGTTCT
1 TCCCTATCTTGTGTGTATGCTATGTGTGGGTTTTATCCAGTTCT
* * * * *
27819314 TCCCTATCTTGTGTGTACGCCATGTATGAGTTTTATCCAATTCT
1 TCCCTATCTTGTGTGTATGCTATGTGTGGGTTTTATCCAGTTCT
* * *
27819358 TCTCTCTCTTATGTGTATG
1 TCCCTATCTTGTGTGTATG
27819377 TCCGTTGTGC
Statistics
Matches: 159, Mismatches: 31, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 40 0.25
44 117 0.74
45 1 0.01
ACGTcount: A:0.16, C:0.19, G:0.17, T:0.47
Consensus pattern (44 bp):
TCCCTATCTTGTGTGTATGCTATGTGTGGGTTTTATCCAGTTCT
Found at i:27820542 original size:13 final size:11
Alignment explanation
Indices: 27820516--27820540 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27820506 TTTGTAGATG
27820516 TTTGAGAGAAT
1 TTTGAGAGAAT
27820527 TTTGAGAGAAT
1 TTTGAGAGAAT
27820538 TTT
1 TTT
27820541 TTAAATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (11 bp):
TTTGAGAGAAT
Found at i:27824330 original size:19 final size:18
Alignment explanation
Indices: 27824290--27824330 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
27824280 TTGAGCTTGG
*
27824290 ATTTCACCATATTAAGCC
1 ATTTCACCATATTAAGCA
*
27824308 ATTTCACCATTATTGAGCA
1 ATTTCACCA-TATTAAGCA
27824327 ATTT
1 ATTT
27824331 TTTGTCATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (18 bp):
ATTTCACCATATTAAGCA
Found at i:27824570 original size:79 final size:79
Alignment explanation
Indices: 27824439--27824605 Score: 298
Period size: 79 Copynumber: 2.1 Consensus size: 79
27824429 CAAAACAATT
*
27824439 TTTTAGGGGCGAATGAAATTTTAACTTTTTATAGTCTATATCTTTATAATTTTGAAAGGATTAAA
1 TTTTAGGGGCGAATGAAATTTTAACATTTTATAGTCTATATCTTTATAATTTTGAAAGGATTAAA
*
27824504 TCGAATTTTTATAA
66 TAGAATTTTTATAA
**
27824518 TTTTAGGGGCGAATGAAATTTTAACATTTTATAGTCTATATCTTTATAATTTTTTAAGGATTAAA
1 TTTTAGGGGCGAATGAAATTTTAACATTTTATAGTCTATATCTTTATAATTTTGAAAGGATTAAA
27824583 TAGAATTTTTATAA
66 TAGAATTTTTATAA
27824597 TTTTAGGGG
1 TTTTAGGGG
27824606 GGCTAAAGTG
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 84 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (79 bp):
TTTTAGGGGCGAATGAAATTTTAACATTTTATAGTCTATATCTTTATAATTTTGAAAGGATTAAA
TAGAATTTTTATAA
Found at i:27826267 original size:26 final size:27
Alignment explanation
Indices: 27826217--27826276 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 27
27826207 AAAAATAATT
*
27826217 AAAATATTATAATTTTTTTTATTTATC
1 AAAATATTATAATATTTTTTATTTATC
27826244 AAAATATTATAA-ATTTTTTATTTATC
1 AAAATATTATAATATTTTTTATTTATC
27826270 AAAATAT
1 AAAATAT
27826277 ACCAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 20 0.62
27 12 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (27 bp):
AAAATATTATAATATTTTTTATTTATC
Found at i:27826592 original size:18 final size:18
Alignment explanation
Indices: 27826571--27826605 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27826561 GTAATAACTC
*
27826571 TATTTTAATTTAATAAAT
1 TATTCTAATTTAATAAAT
*
27826589 TATTCTCATTTAATAAA
1 TATTCTAATTTAATAAA
27826606 CTCTAATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTCTAATTTAATAAAT
Found at i:27826616 original size:15 final size:15
Alignment explanation
Indices: 27826596--27826625 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27826586 AATTATTCTC
27826596 ATTTAATAAACTCTA
1 ATTTAATAAACTCTA
27826611 ATTTAATAAACTCTA
1 ATTTAATAAACTCTA
27826626 TTTTGGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTTAATAAACTCTA
Found at i:27826695 original size:45 final size:45
Alignment explanation
Indices: 27826631--27826719 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
27826621 CTCTATTTTG
27826631 GTAATTTGATGAAAATAGTTTATTAAATTAAAATAGAGTTATTAA
1 GTAATTTGATGAAAATAGTTTATTAAATTAAAATAGAGTTATTAA
*
27826676 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTA
1 GTAATTTGATGAAAATAGTTTATTAAATTAAAATAGAGTTATTA
27826720 CTTATTAGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (45 bp):
GTAATTTGATGAAAATAGTTTATTAAATTAAAATAGAGTTATTAA
Found at i:27827414 original size:27 final size:27
Alignment explanation
Indices: 27827375--27827435 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
27827365 TGTTTTTGGT
** *
27827375 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTAATAAATAAAAAAAGTTATA
27827402 ATATTTTAATAAATAAAAAAAGTTATA
1 ATATTTTAATAAATAAAAAAAGTTATA
27827429 ATATTTT
1 ATATTTT
27827436 GGTTATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (27 bp):
ATATTTTAATAAATAAAAAAAGTTATA
Found at i:27827792 original size:20 final size:20
Alignment explanation
Indices: 27827769--27827815 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
27827759 TTATTTTTAC
*
27827769 TTTTTTATTAACTTTTGTCT
1 TTTTTTATAAACTTTTGTCT
* *
27827789 TTTTCTT-TAAATTTTTTTCT
1 TTTT-TTATAAACTTTTGTCT
27827809 TTTTTTA
1 TTTTTTA
27827816 ATTTTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.09
20 18 0.82
21 2 0.09
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTTTATAAACTTTTGTCT
Found at i:27827830 original size:19 final size:19
Alignment explanation
Indices: 27827748--27827861 Score: 56
Period size: 19 Copynumber: 5.9 Consensus size: 19
27827738 ATGACACCCT
*
27827748 TATTTTATTTTTTATTTTTA
1 TATTTT-TTTTTAATTTTTA
* * * *
27827768 -CTTTTTTATTAACTTTTG
1 TATTTTTTTTTAATTTTTA
* *
27827786 TCTTTTTCTTTAAATTTTT-
1 TATTTTT-TTTTAATTTTTA
*
27827805 T-TCTTTTTTTAATTTTTA
1 TATTTTTTTTTAATTTTTA
* *
27827823 TATTTTTTCTT-ATTTTATT
1 TATTTTTTTTTAATTTT-TA
27827842 TATTTATTGTTATTAATTTT
1 TATTT-TT-TT-TTAATTTT
27827862 GAAAATTTTA
Statistics
Matches: 71, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
17 10 0.14
18 19 0.27
19 24 0.34
20 10 0.14
21 1 0.01
22 2 0.03
23 5 0.07
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (19 bp):
TATTTTTTTTTAATTTTTA
Found at i:27827833 original size:24 final size:25
Alignment explanation
Indices: 27827801--27827848 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
27827791 TTCTTTAAAT
*
27827801 TTTTTTCTTTTTTTAATT-TTTATA
1 TTTTTTCTTATTTTAATTATTTATA
*
27827825 TTTTTTCTTATTTTATTTATTTAT
1 TTTTTTCTTATTTTAATTATTTAT
27827849 TGTTATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTTTTCTTATTTTAATTATTTATA
Done.