Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 214 of 425
Found at i:65414857 original size:31 final size:31
Alignment explanation
Indices: 65414819--65414913 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
65414809 CCTTTTCATA
*
65414819 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
65414850 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
65414881 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
65414912 TT
1 TT
65414914 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:65415156 original size:24 final size:24
Alignment explanation
Indices: 65415105--65415247 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
65415095 GCTTTATCAT
*
65415105 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
65415130 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
65415154 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
65415177 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
65415201 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
65415225 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
65415248 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:65415184 original size:47 final size:48
Alignment explanation
Indices: 65415105--65415246 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
65415095 GCTTTATCAT
* *
65415105 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
65415154 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
65415201 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
65415247 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:65415205 original size:71 final size:72
Alignment explanation
Indices: 65415104--65415247 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
65415094 TGCTTTATCA
*
65415104 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
65415169 GCCCTTT
66 GCCCTTT
* * **
65415176 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
65415239 AGCCCTTT
65 AGCCCTTT
65415247 T
1 T
65415248 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:65415323 original size:20 final size:20
Alignment explanation
Indices: 65415298--65415357 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
65415288 TATGATTACC
65415298 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
65415318 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
65415338 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
65415358 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:65415328 original size:11 final size:11
Alignment explanation
Indices: 65415298--65415352 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
65415288 TATGATTACC
65415298 TCATGTGCATA
1 TCATGTGCATA
*
65415309 TCA--TACATA
1 TCATGTGCATA
65415318 TCATGTGCATA
1 TCATGTGCATA
* *
65415329 TCA--TACATT
1 TCATGTGCATA
65415338 TCATGTGCATA
1 TCATGTGCATA
65415349 TCAT
1 TCAT
65415353 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:65415432 original size:25 final size:25
Alignment explanation
Indices: 65415400--65415447 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65415390 ATACATAAAC
* * *
65415400 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
65415425 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
65415448 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:65416702 original size:27 final size:27
Alignment explanation
Indices: 65416682--65417023 Score: 372
Period size: 27 Copynumber: 12.7 Consensus size: 27
65416672 AGGGTATTTT
65416682 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
65416709 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
65416736 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* * *
65416763 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
65416790 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
65416817 GGTAA-TTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
65416843 -GATAATTATGTAAATCTG-GGGTAAAAT
1 AG-TAATTTTGTAAATC-GAGGGTAAAAC
* * *
65416870 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTTTGTAAATCGA-GGGTAAAAC
* * * *
65416897 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
65416924 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTTTGTAAATC-GAGGGTAAAAC
* * *
65416951 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* **
65416978 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
65417005 -GTAATTCTATAAATCGAGG
1 AGTAATTTTGTAAATCGAGG
65417024 TACTTTGGTA
Statistics
Matches: 280, Mismatches: 26, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
25 1 0.00
26 41 0.15
27 234 0.84
28 4 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTTTGTAAATCGAGGGTAAAAC
Found at i:65416755 original size:81 final size:82
Alignment explanation
Indices: 65416681--65417023 Score: 414
Period size: 81 Copynumber: 4.3 Consensus size: 82
65416671 AAGGGTATTT
* * * *
65416681 TAGTAATTTTGTAAATC-GAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTT
1 TAGTAATTCTGTAAATCTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTT
* *
65416745 GTAAATCAAGGGTAAAA
66 ATAAATCGAGGGTAAAA
* * * *
65416762 CAGTAATTCTATAAATC-GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAA-TTT
1 TAGTAATTCTGTAAATCTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTT
*
65416825 GTAAATCGAGGGTAAAA
66 ATAAATCGAGGGTAAAA
* * * * * * *
65416842 -CGATAATTATGTAAATCTG-GGGTAAAATGGTAATTATGTAAATTAGGGGTAAAACGGTAATTC
1 TAG-TAATTCTGTAAATCTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTT
65416905 TATAAATCGAGGGTAAAA
65 TATAAATCGAGGGTAAAA
* *
65416923 TAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTT
1 TAGTAATTCTGTAAATCTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTT
*
65416987 ACAAATCGAGGGTAAAA
66 ATAAATCGAGGGTAAAA
* *
65417004 -CGTAATTCTATAAATC-GAGG
1 TAGTAATTCTGTAAATCTGAGG
65417024 TACTTTGGTA
Statistics
Matches: 226, Mismatches: 30, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
79 1 0.00
80 87 0.38
81 137 0.61
82 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (82 bp):
TAGTAATTCTGTAAATCTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTT
ATAAATCGAGGGTAAAA
Found at i:65416865 original size:134 final size:132
Alignment explanation
Indices: 65416683--65417019 Score: 453
Period size: 134 Copynumber: 2.5 Consensus size: 132
65416673 GGGTATTTTA
* *
65416683 GTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGT
1 GTAA-TTTGTAAATCGAGGGTAAAACGA-TAATTTTGTAAATC-GGGGTAAAAC-GTAATTATGT
*
65416747 AAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAA-TCGAGGG
62 AAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACT-GAGGG
65416811 TAAAACG
126 TAAAACG
* *
65416818 GTAATTTGTAAATCGAGGGTAAAACGATAATTATGTAAATCTGGGGTAAAATGGTAATTATGTAA
1 GTAATTTGTAAATCGAGGGTAAAACGATAATTTTGTAAATC-GGGGTAAAA-CGTAATTATGTAA
* * *
65416883 ATTAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAA
64 ATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAA
65416948 AACG
129 AACG
* * ** * *
65416952 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGTAATTCTATAA
1 GTAATT-TGTAAATCGAGGGTAAAACGATAATTTTGTAAATCG-GGGTAAAACGTAATTATGTAA
65417017 ATC
64 ATC
65417020 GAGGTACTTT
Statistics
Matches: 179, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
134 135 0.75
135 44 0.25
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (132 bp):
GTAATTTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGGGGTAAAACGTAATTATGTAAAT
CAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
CG
Found at i:65417062 original size:27 final size:27
Alignment explanation
Indices: 65417032--65417096 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
65417022 GGTACTTTGG
65417032 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* *
65417059 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
*
65417086 TAATTTCACAA
1 TAATTTTACAA
65417097 ATTAGGGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:65417105 original size:27 final size:27
Alignment explanation
Indices: 65417075--65417253 Score: 236
Period size: 27 Copynumber: 6.7 Consensus size: 27
65417065 TACAGGTCGA
** * *
65417075 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
65417102 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
65417129 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
65417156 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
65417183 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
65417210 TGGTATTTTAGTAATTTTACAAAGC-A-
1 GGGTATTTTGGTAATTTTACAAA-CTAG
*
65417236 AGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
65417254 GTAAACCAAA
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
26 16 0.12
27 120 0.88
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:65417133 original size:81 final size:81
Alignment explanation
Indices: 65417022--65417232 Score: 237
Period size: 81 Copynumber: 2.6 Consensus size: 81
65417012 TATAAATCGA
* * * * **
65417022 GGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACAGGTCGA-GGGTATTTCA
1 GGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTAATAATTTTACA-AACGAGGGGTATTTCA
*
65417085 GTAATTTCACAAATTAGG
64 GTAATTTCACAAACTAGG
* * **
65417103 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAACGAGGGGTATTTCAGT
*
65417168 AATTTTACAAACTAGG
66 AATTTCACAAACTAGG
* * ** *
65417184 GGTATTTTGGTAATTTTATAAACCAATGGTATTTTAGTAATTTTACAAA
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAA
65417233 GCAAGGTATT
Statistics
Matches: 110, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 2 0.02
81 104 0.95
82 4 0.04
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAACGAGGGGTATTTCAGT
AATTTCACAAACTAGG
Found at i:65417267 original size:26 final size:26
Alignment explanation
Indices: 65417103--65417270 Score: 183
Period size: 27 Copynumber: 6.3 Consensus size: 26
65417093 ACAAATTAGG
* *
65417103 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
65417130 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
65417157 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
65417184 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* *
65417210 TGGTATTTTAGTAATTTTACAAAGCAA
1 -GGTATTTTGGTAATTTTACAAACCAA
**
65417237 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
65417263 AGTATTTT
1 GGTATTTT
65417271 AAACATGGAT
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
26 29 0.23
27 98 0.77
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:65418388 original size:3 final size:3
Alignment explanation
Indices: 65418382--65418407 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
65418372 TTAAAAAAAA
65418382 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
65418408 GCATTCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:65420734 original size:45 final size:45
Alignment explanation
Indices: 65420637--65420735 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 45
65420627 GTGTTTTTGT
* * * *
65420637 GTAAGACCATGTCTAGGACGTTGGCATCAATATACGTGTCTTCGT
1 GTAAGACCACGTCTAGGACGTTAGCATCAATATACGTGTCTACGA
* * * *
65420682 GTGAGACCACGTCTAGGATGTTAGCATCGATATATGTGGT-TACGA
1 GTAAGACCACGTCTAGGACGTTAGCATCAATATACGT-GTCTACGA
65420727 GTAAGACCA
1 GTAAGACCA
65420736 TGTTAGTGGC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
45 42 0.95
46 2 0.05
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (45 bp):
GTAAGACCACGTCTAGGACGTTAGCATCAATATACGTGTCTACGA
Found at i:65427801 original size:45 final size:45
Alignment explanation
Indices: 65427737--65427858 Score: 190
Period size: 45 Copynumber: 2.7 Consensus size: 45
65427727 AGGACTATGC
*
65427737 TATGTGTTTTCGTGTAAGACCACATCTGGGACGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
*
65427782 TATGTTTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
* * * *
65427827 TATGTGGTTACGAGTAAGACCATGTCTGGGAC
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGAC
65427859 ATCGGCATTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (45 bp):
TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
Found at i:65429835 original size:16 final size:17
Alignment explanation
Indices: 65429806--65429851 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
65429796 ATAATTTTTA
*
65429806 TTTATTCTTATTTCATC
1 TTTATTCATATTTCATC
*
65429823 TTTATTCAT-TTTCATG
1 TTTATTCATATTTCATC
*
65429839 TTTATTTATATTT
1 TTTATTCATATTT
65429852 ATGTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATTCATATTTCATC
Found at i:65429855 original size:16 final size:16
Alignment explanation
Indices: 65429806--65429857 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
65429796 ATAATTTTTA
* *
65429806 TTTATTCTTATTTCATC
1 TTTATTCAT-TTTCATG
65429823 TTTATTCATTTTCATG
1 TTTATTCATTTTCATG
*
65429839 TTTATTTATATTT-ATG
1 TTTATTCAT-TTTCATG
65429855 TTT
1 TTT
65429858 TTTTTACACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 20 0.65
17 11 0.35
ACGTcount: A:0.19, C:0.10, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTATTCATTTTCATG
Found at i:65435845 original size:49 final size:49
Alignment explanation
Indices: 65435776--65436354 Score: 945
Period size: 49 Copynumber: 12.1 Consensus size: 49
65435766 GTACATAATA
65435776 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
65435825 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
65435874 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
65435923 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
65435972 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTG-AAA-GTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
65436019 ATATATGTGATAAGGCCTAATGGCC---GTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
65436065 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
65436114 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* * *
65436163 ATATATGTGATAAGGCCTAATGGCTGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
65436212 ATATATGTG---A----TAA-GGCC--TGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
65436251 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
65436300 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
65436349 ATATAT
1 ATATAT
65436355 ATGTGGTAAA
Statistics
Matches: 500, Mismatches: 15, Indels: 30
0.92 0.03 0.06
Matches are distributed among these distances:
39 30 0.06
41 3 0.01
42 4 0.01
44 12 0.02
45 3 0.01
46 32 0.06
47 32 0.06
48 3 0.01
49 381 0.76
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:65436202 original size:240 final size:232
Alignment explanation
Indices: 65435776--65436354 Score: 964
Period size: 240 Copynumber: 2.4 Consensus size: 232
65435766 GTACATAATA
65435776 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCC-A-GTGATGAATGTGAAAATGTATATATATGTGATAAGGC
65435841 CTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
64 CTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
65435906 TGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTA
129 TGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTA
65435971 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG-T
194 TATATATGTGATAAGGCC---T-------GTGATGAATGTGAAAGTGAT
65436019 ATATATGTGATAAGGCCTAATGGCC-GTGATGAATGTGAAAATGTATATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCAGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCT
* *
65436083 AATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
66 AATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
65436148 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGACGTGATGAATGTGAAAGTGTATA
131 AATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATA
65436213 TATATGTGATAAGGCCTGTGATGAATGTGAAAGTGTAT
196 TATATGTGATAAGGCCTGTGATGAATGTGAAAGTG-AT
65436251 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCC-A-GTGATGAATGTGAAAATGTATATATATGTGATAAGGC
65436316 CTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
64 CTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
65436355 ATGTGGTAAA
Statistics
Matches: 324, Mismatches: 7, Indels: 18
0.93 0.02 0.05
Matches are distributed among these distances:
230 18 0.06
232 26 0.08
235 74 0.23
237 1 0.00
240 180 0.56
243 25 0.08
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (232 bp):
ATATATGTGATAAGGCCTAATGGCCAGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCT
AATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
AATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATA
TATATGTGATAAGGCCTGTGATGAATGTGAAAGTGAT
Found at i:65436241 original size:88 final size:88
Alignment explanation
Indices: 65436141--65436317 Score: 327
Period size: 88 Copynumber: 2.0 Consensus size: 88
65436131 TAATGGCCGA
*
65436141 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGACGTGATGAATGTGAAA
1 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAA
*
65436206 GTGTATATATATGTGATAAGGCC
66 ATGTATATATATGTGATAAGGCC
*
65436229 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAA
65436294 ATGTATATATATGTGATAAGGCC
66 ATGTATATATATGTGATAAGGCC
65436317 T
1 T
65436318 AATGGCCGAC
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (88 bp):
TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAA
ATGTATATATATGTGATAAGGCC
Found at i:65436245 original size:39 final size:39
Alignment explanation
Indices: 65436191--65436268 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
65436181 AATGGCTGAC
65436191 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
65436230 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
65436269 AATGGCCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (39 bp):
GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
Found at i:65436478 original size:37 final size:36
Alignment explanation
Indices: 65436423--65436509 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
65436413 AACTTGGAAA
65436423 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
65436461 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
*
65436498 TATGTCCTGGTA
1 TATGTCCGGGTA
65436510 AGACTTCGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.28
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:65441729 original size:30 final size:31
Alignment explanation
Indices: 65441648--65441730 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
65441638 TCAGTCTCGA
*
65441648 CATAT-ACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
65441678 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
65441709 CATATCTCT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
65441731 ACTGTAAGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 17 0.35
31 31 0.65
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:65441978 original size:25 final size:25
Alignment explanation
Indices: 65441950--65442019 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
65441940 CTCTTTTAAT
*
65441950 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
65441975 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
65442000 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
65442020 AGCATTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:65442891 original size:27 final size:27
Alignment explanation
Indices: 65442829--65442906 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
65442819 GAGCATATTC
65442829 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
65442856 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
65442883 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
65442907 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:65442977 original size:27 final size:27
Alignment explanation
Indices: 65442947--65443054 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
65442937 GTAAATCTAC
65442947 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
65442974 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* **
65443000 AGAAAGTCAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
65443030 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
65443055 ACAAATTGAT
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.01
27 42 0.62
28 7 0.10
29 17 0.25
30 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:65443060 original size:27 final size:27
Alignment explanation
Indices: 65442996--65443133 Score: 129
Period size: 27 Copynumber: 5.1 Consensus size: 27
65442986 TTTCTATAAT
* * *
65442996 TTTTAGAAAGTCAAGGGTATTTTTGTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
**
65443024 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* * **
65443051 TTTTACAAAT-TGATGGTATTTCAGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
*
65443078 TTTCACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
65443105 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
65443132 TT
1 TT
65443134 CTACCCTATA
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 82 0.90
28 8 0.09
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.43
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:65443127 original size:81 final size:81
Alignment explanation
Indices: 65443010--65443166 Score: 219
Period size: 81 Copynumber: 1.9 Consensus size: 81
65443000 AGAAAGTCAA
* ** * *
65443010 GGGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTA-CAAATTGATGGTATTTCA
1 GGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACCAAATAGA-GGTATTTCA
65443074 GTAATTTCACAAACTAG
65 GTAATTTCACAAACTAG
**
65443091 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTCTACCCTATAGAGGTATTTCA
1 GGGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTCTACCAAATAGAGGTATTTCA
65443155 GTAATTTCACAA
65 GTAATTTCACAA
65443167 TCGAGGGTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 1 0.01
81 61 0.91
82 5 0.07
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTCTACCAAATAGAGGTATTTCAG
TAATTTCACAAACTAG
Found at i:65443201 original size:27 final size:27
Alignment explanation
Indices: 65443165--65443256 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
65443155 GTAATTTCAC
** *
65443165 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTGTA
65443192 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAATAGTAATTCTGTA
* * *
65443219 AATCAAGGGTAAAATAGTGATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTGTA
65443246 AATCGAGGGTA
1 AATCGAGGGTA
65443257 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTCTGTA
Found at i:65444110 original size:30 final size:30
Alignment explanation
Indices: 65444074--65444134 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
65444064 TTTAAAAGGC
65444074 CCTCATCCAAGCATCCAGGTTTTTTTTTTT
1 CCTCATCCAAGCATCCAGGTTTTTTTTTTT
65444104 CCTCATCCAAGCATCCAGGTTTTTTTTTTT
1 CCTCATCCAAGCATCCAGGTTTTTTTTTTT
65444134 C
1 C
65444135 ACTTTATACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.28, G:0.10, T:0.46
Consensus pattern (30 bp):
CCTCATCCAAGCATCCAGGTTTTTTTTTTT
Found at i:65449217 original size:9 final size:9
Alignment explanation
Indices: 65449203--65449271 Score: 60
Period size: 9 Copynumber: 8.0 Consensus size: 9
65449193 ATTAAGCTAA
65449203 GTGTTTAAT
1 GTGTTTAAT
65449212 GTGTTT--T
1 GTGTTTAAT
65449219 GTGTTTAAT
1 GTGTTTAAT
65449228 AAGTGTTTAAAT
1 --GTGTTT-AAT
65449240 GTGTTTAAT
1 GTGTTTAAT
*
65449249 ATG-TT--T
1 GTGTTTAAT
65449255 GT-TTTAAT
1 GTGTTTAAT
65449263 GTGTTTAAT
1 GTGTTTAAT
65449272 TGCAGGCGTC
Statistics
Matches: 49, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
6 4 0.08
7 7 0.14
8 5 0.10
9 18 0.37
10 6 0.12
11 6 0.12
12 3 0.06
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (9 bp):
GTGTTTAAT
Found at i:65449244 original size:21 final size:22
Alignment explanation
Indices: 65449218--65449271 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
65449208 TAATGTGTTT
65449218 TGTGTTTAATAAG-TGTTTAAA
1 TGTGTTTAATAAGTTGTTTAAA
* *
65449239 TGTGTTTAATATGTTTGTTTTAA
1 TGTGTTTAATAAG-TTGTTTAAA
65449262 TGTGTTTAAT
1 TGTGTTTAAT
65449272 TGCAGGCGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 12 0.41
23 17 0.59
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (22 bp):
TGTGTTTAATAAGTTGTTTAAA
Found at i:65449324 original size:38 final size:38
Alignment explanation
Indices: 65449273--65449350 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
65449263 GTGTTTAATT
* *
65449273 GCAGGCGTCTTTTCAGCTGGAAACCGTTACATTCAAGG
1 GCAGGCGTCTTTTCAGCTAGAAACCATTACATTCAAGG
*
65449311 GCAGGTGTCTTTTCAGCTAGAAACCATTACATTCAAGG
1 GCAGGCGTCTTTTCAGCTAGAAACCATTACATTCAAGG
65449349 GC
1 GC
65449351 TGTTACAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (38 bp):
GCAGGCGTCTTTTCAGCTAGAAACCATTACATTCAAGG
Found at i:65451339 original size:19 final size:19
Alignment explanation
Indices: 65451315--65451362 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
65451305 AAAGGAAGTG
65451315 AGAAAAAGAAATCG-AGAGA
1 AGAAAAAGAAA-CGCAGAGA
* *
65451334 AGAAAAA-AAAGGCATAGA
1 AGAAAAAGAAACGCAGAGA
65451352 AGAAAAAGAAA
1 AGAAAAAGAAA
65451363 AGGAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 1 0.04
18 14 0.56
19 10 0.40
ACGTcount: A:0.69, C:0.04, G:0.23, T:0.04
Consensus pattern (19 bp):
AGAAAAAGAAACGCAGAGA
Found at i:65451627 original size:20 final size:20
Alignment explanation
Indices: 65451602--65451641 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
65451592 AGAAACGAGT
65451602 GGAAAAGGTGAAAGTGAGCA
1 GGAAAAGGTGAAAGTGAGCA
65451622 GGAAAAGGTGAAAGTGAGCA
1 GGAAAAGGTGAAAGTGAGCA
65451642 AAAAAAACGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.40, T:0.10
Consensus pattern (20 bp):
GGAAAAGGTGAAAGTGAGCA
Found at i:65451647 original size:20 final size:20
Alignment explanation
Indices: 65451604--65451647 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
65451594 AAACGAGTGG
**
65451604 AAAAGGTGAAAGTGAGCAGG
1 AAAAGGTGAAAGTGAGCAAA
65451624 AAAAGGTGAAAGTGAGCAAA
1 AAAAGGTGAAAGTGAGCAAA
65451644 AAAA
1 AAAA
65451648 ACGTGAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.32, T:0.09
Consensus pattern (20 bp):
AAAAGGTGAAAGTGAGCAAA
Found at i:65463483 original size:30 final size:30
Alignment explanation
Indices: 65463449--65463545 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
65463439 AGCTCACTCC
65463449 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
65463479 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * * *
65463509 CAGCTCAACTTTAGCTCATGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
65463539 TAGCTCA
1 TAGCTCA
65463546 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:65466186 original size:21 final size:20
Alignment explanation
Indices: 65466152--65466219 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
65466142 ACATTCTTGT
65466152 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
65466173 AAAGAAAAAGCAAAATAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
65466194 AAAGAAAACGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
65466215 AAAGA
1 AAAGA
65466220 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:65466299 original size:11 final size:12
Alignment explanation
Indices: 65466267--65466297 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
65466257 TTGAGAGAAC
65466267 TTGAAAAAGCCT
1 TTGAAAAAGCCT
65466279 TTGAAAAAGCCT
1 TTGAAAAAGCCT
65466291 TTGAAAA
1 TTGAAAA
65466298 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:65466308 original size:12 final size:12
Alignment explanation
Indices: 65466300--65466324 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65466290 TTTGAAAAGC
65466300 AAAAAGAAAATG
1 AAAAAGAAAATG
65466312 AAAAAGAAAATG
1 AAAAAGAAAATG
65466324 A
1 A
65466325 GATTGAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:65466321 original size:18 final size:18
Alignment explanation
Indices: 65466294--65466336 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
65466284 AAAGCCTTTG
65466294 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
65466313 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
65466331 AAAAGA
1 AAAAGA
65466337 GAACAAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:65468668 original size:30 final size:29
Alignment explanation
Indices: 65468574--65468669 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 29
65468564 AGCTCACTCC
65468574 TAGCTCATA-TTCAGCTCACGAGCTAAACT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACT
* * * *
65468603 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAG-CTAAACT
* *
65468633 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAA-CT
65468663 TAGCTCA
1 TAGCTCA
65468670 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
28 1 0.02
29 21 0.40
30 31 0.58
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (29 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACT
Found at i:65471611 original size:15 final size:15
Alignment explanation
Indices: 65471572--65471612 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
65471562 GTATCTTGGG
*
65471572 TTTCTTTATCCTAGA
1 TTTCTTTATTCTAGA
*
65471587 TCTCTTTATTCTAGA
1 TTTCTTTATTCTAGA
65471602 TTTCTTTATTC
1 TTTCTTTATTC
65471613 GGTTTTCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.20, G:0.05, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTAGA
Found at i:65474065 original size:46 final size:46
Alignment explanation
Indices: 65474012--65474183 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 46
65474002 TTGGGCATCC
*
65474012 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAACGTCT
* *** ** * *
65474058 GAACTCGTTGAGTTGAGTCCTAGTTCGAGAGATGTAA--CTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-AATGC-AAACGTCT
* * * * *
65474105 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAACGTCT
* * *
65474151 GAGCTCGTTGAGTTAAGTCCGAGTTTACTTATG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
65474184 GGCGGGTTAC
Statistics
Matches: 96, Mismatches: 25, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
45 1 0.01
46 62 0.65
47 31 0.32
48 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAACGTCT
Found at i:65474164 original size:93 final size:93
Alignment explanation
Indices: 65474005--65474175 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
65473995 AGGATGTTTG
* *
65474005 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAACGCCTGAACTCGTTGAG
* *
65474070 TTGAGTCCTAGTTCGAGAGATGTAACTA
66 TTAAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
65474098 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAACGCCTGAACTCGTTGAG
65474163 TTAAGTCCGAGTT
66 TTAAGTCCGAGTT
65474176 TACTTATGGG
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAACGCCTGAACTCGTTGAG
TTAAGTCCGAGTTCGAGAGATGTAACTA
Found at i:65476272 original size:28 final size:27
Alignment explanation
Indices: 65476229--65476334 Score: 81
Period size: 28 Copynumber: 3.7 Consensus size: 27
65476219 GAATTTAGTG
65476229 TTAA-CTGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCC-TAGCCCATATCAATA
*
65476256 TTAATCTGGGCCATAGCCCCT-TACAATAA
1 TTAATCTGGGCC-TAGCCCATAT-CAAT-A
* *
65476285 TAGAGTATACTGGGCCTAGCCCATATCAGTA
1 T-TA--AT-CTGGGCCTAGCCCATATCAATA
*
65476316 TCAATCTGGGCCGTAGCCC
1 TTAATCTGGGCC-TAGCCC
65476335 TATACAAGTT
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
27 12 0.19
28 26 0.41
29 2 0.03
30 2 0.03
31 2 0.03
32 12 0.19
33 8 0.12
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAATA
Found at i:65476312 original size:60 final size:59
Alignment explanation
Indices: 65476232--65476372 Score: 171
Period size: 60 Copynumber: 2.4 Consensus size: 59
65476222 TTTAGTGTTA
*
65476232 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCT-TACAA-TAAT-AGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAG-CCCTATACAAGT--TGAGA-TAT
* *
65476293 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATACAAGTTGAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAGTTGAGATAT
* *
65476352 ATTGGGCCTTGCCCATATCAA
1 ACTGGGCCTAGCCCATATCAA
65476373 CACAGTTGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
59 26 0.37
60 36 0.51
61 9 0.13
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAGTTGAGATAT
Found at i:65480478 original size:71 final size:71
Alignment explanation
Indices: 65480394--65480557 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
65480384 CGATTTGTCT
65480394 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65480459 CTTTCA
66 CTTTCA
65480465 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65480530 CTTTCA
66 CTTTCA
65480536 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
65480558 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:65480595 original size:71 final size:70
Alignment explanation
Indices: 65480394--65480591 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
65480384 CGATTTGTCT
* * * *
65480394 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65480459 CTTTCA
65 CTTTCA
* * * *
65480465 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65480530 CTTTCA
65 CTTTCA
* *
65480536 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
65480592 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:65487583 original size:71 final size:71
Alignment explanation
Indices: 65487499--65487662 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
65487489 CGATTTGTCT
65487499 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65487564 CTTTCA
66 CTTTCA
65487570 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65487635 CTTTCA
66 CTTTCA
65487641 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
65487663 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:65487700 original size:71 final size:70
Alignment explanation
Indices: 65487499--65487696 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
65487489 CGATTTGTCT
* * * *
65487499 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65487564 CTTTCA
65 CTTTCA
* * * *
65487570 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65487635 CTTTCA
65 CTTTCA
* *
65487641 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
65487697 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:65489033 original size:30 final size:28
Alignment explanation
Indices: 65488997--65489052 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
65488987 AAGCGAAAAA
* *
65488997 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
65489027 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
65489053 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:65492314 original size:29 final size:29
Alignment explanation
Indices: 65492281--65492340 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
65492271 ATAACCAAAC
*
65492281 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
65492310 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
65492339 CT
1 CT
65492341 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:65492333 original size:15 final size:15
Alignment explanation
Indices: 65492287--65492334 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
65492277 AAACCTACAA
*
65492287 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
65492302 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
65492316 AAACTTCATATCCAT
1 AAACTTCATATCCAT
65492331 AAAC
1 AAAC
65492335 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:65494635 original size:5 final size:6
Alignment explanation
Indices: 65494606--65494649 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
65494596 TCTCTCAAAC
* * * *
65494606 TCTTTT TCATTC TCATTT TCTTTT TCTTTT TCTTTT TGTTTT TC
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC
65494650 AAAGGATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (6 bp):
TCTTTT
Found at i:65494660 original size:13 final size:12
Alignment explanation
Indices: 65494644--65494675 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
65494634 TTTCTTTTTG
65494644 TTTTTCAAAGGA
1 TTTTTCAAAGGA
*
65494656 TTTTTCAAAGGC
1 TTTTTCAAAGGA
65494668 TTTTTCAA
1 TTTTTCAA
65494676 GTTCCCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (12 bp):
TTTTTCAAAGGA
Found at i:65494733 original size:5 final size:5
Alignment explanation
Indices: 65494723--65494779 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
65494713 CTCTTGCCTC
*
65494723 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
65494770 TCTTT TCTTT
1 TCTTT TCTTT
65494780 GTTTTCTGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:65494763 original size:15 final size:14
Alignment explanation
Indices: 65494723--65494779 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
65494713 CTCTTGCCTC
*
65494723 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
65494738 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
65494753 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
65494770 TCTTTTCTTT
1 TCTTTTCTTT
65494780 GTTTTCTGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:65494780 original size:21 final size:21
Alignment explanation
Indices: 65494723--65494784 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
65494713 CTCTTGCCTC
* *
65494723 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
65494744 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
65494765 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
65494785 CTGTTTACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 7 0.21
21 22 0.65
22 5 0.15
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.77
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:65497476 original size:30 final size:30
Alignment explanation
Indices: 65497391--65497487 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
65497381 TAAACTAAAA
* *
65497391 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
65497421 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
65497451 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
65497480 ATGAGCTA
1 -TGAGCTA
65497488 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:65501860 original size:10 final size:10
Alignment explanation
Indices: 65501845--65501871 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
65501835 ATTGATGATA
65501845 ATTAGTTCAC
1 ATTAGTTCAC
65501855 ATTAGTTCAC
1 ATTAGTTCAC
65501865 ATTAGTT
1 ATTAGTT
65501872 TGGCTAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (10 bp):
ATTAGTTCAC
Found at i:65504006 original size:15 final size:15
Alignment explanation
Indices: 65503986--65504033 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
65503976 TCAAAGATGG
65503986 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
65504001 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
65504015 GTTTATGGATATAAA
1 GTTTATGGATATGAA
65504030 GTTT
1 GTTT
65504034 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:65504020 original size:14 final size:14
Alignment explanation
Indices: 65503980--65504023 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
65503970 AAGGTTTCAA
65503980 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
65503994 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
65504009 AGATGGGTTTATGG
1 AGATGGGTTTATGG
65504023 A
1 A
65504024 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:65504049 original size:29 final size:29
Alignment explanation
Indices: 65503980--65504039 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
65503970 AAGGTTTCAA
*
65503980 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
65504009 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
65504038 AG
1 AG
65504040 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:65506339 original size:19 final size:19
Alignment explanation
Indices: 65506294--65506339 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
65506284 ATTAACACAC
*
65506294 AATTAATTAAAATATAACT
1 AATTAATAAAAATATAACT
*
65506313 -ATTCATAAAAATCATAA-T
1 AATTAATAAAAAT-ATAACT
65506331 AATTAATAA
1 AATTAATAA
65506340 TTAAACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AATTAATAAAAATATAACT
Found at i:65506583 original size:30 final size:30
Alignment explanation
Indices: 65506529--65506587 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
65506519 AGGAAGAAAG
*
65506529 AAAGAGCTGAAAGTAAGCTCAGTTGAGCTC
1 AAAGAGCTCAAAGTAAGCTCAGTTGAGCTC
*
65506559 AAAGTAGCTCAAA-TAAGCTGAGTTGAGCT
1 AAAG-AGCTCAAAGTAAGCTCAGTTGAGCT
65506588 GGACGGAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.22
Consensus pattern (30 bp):
AAAGAGCTCAAAGTAAGCTCAGTTGAGCTC
Found at i:65507760 original size:30 final size:30
Alignment explanation
Indices: 65507726--65507824 Score: 85
Period size: 30 Copynumber: 3.3 Consensus size: 30
65507716 CTTTAGCTCG
65507726 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65507756 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* * *
65507786 TGAGCAAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
65507816 TGAGCTAAG
1 TGAGCTAAG
65507825 AGTGATCTCG
Statistics
Matches: 50, Mismatches: 16, Indels: 6
0.69 0.22 0.08
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65507761 original size:19 final size:19
Alignment explanation
Indices: 65507707--65507752 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
65507697 TAAACTAAAA
65507707 TGAGCTAAGCTTTAGCTCG
1 TGAGCTAAGCTTTAGCTCG
65507726 TGAGCTAAGCTTTAGCTCG
1 TGAGCTAAGCTTTAGCTCG
65507745 TGAGCTAA
1 TGAGCTAA
65507753 AGTTGAGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (19 bp):
TGAGCTAAGCTTTAGCTCG
Found at i:65510094 original size:30 final size:29
Alignment explanation
Indices: 65510054--65510143 Score: 101
Period size: 30 Copynumber: 3.1 Consensus size: 29
65510044 TCGAGTTAAA
65510054 CTAAAA-TGAGCTAAGCTTTAGCTCGTGAG
1 CTAAAACTGAGCTAAG-TTTAGCTCGTGAG
** * * * *
65510083 CTAAAGTTGAGCTAAGATTAAACTCCTAAG
1 CTAAAACTGAGCTAAG-TTTAGCTCGTGAG
65510113 CTAAAACTGAGCTAAGTTTAGCTCGTGAG
1 CTAAAACTGAGCTAAGTTTAGCTCGTGAG
65510142 CT
1 CT
65510144 GAATATGAGC
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
29 16 0.33
30 32 0.67
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (29 bp):
CTAAAACTGAGCTAAGTTTAGCTCGTGAG
Found at i:65515034 original size:30 final size:30
Alignment explanation
Indices: 65515000--65515086 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
65514990 TAAACTAAAA
65515000 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65515030 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
65515060 TGAGCTAAGGTTTAGCTCGTGAGCTAA
1 TGAGCTAAGCTTTAGCTCGTGAGCTAA
65515087 TATGAGCTAG
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
29 2 0.05
30 37 0.88
31 3 0.07
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65517284 original size:12 final size:12
Alignment explanation
Indices: 65517269--65517299 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
65517259 TTCTTTTTGC
65517269 TTTTCAAAGGCT
1 TTTTCAAAGGCT
65517281 TTTTCAAAGGCT
1 TTTTCAAAGGCT
65517293 TTTTCAA
1 TTTTCAA
65517300 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:65517357 original size:5 final size:5
Alignment explanation
Indices: 65517347--65517414 Score: 59
Period size: 5 Copynumber: 13.0 Consensus size: 5
65517337 CTCTTGCCTC
*
65517347 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
*
65517394 TCTTT TCTTT ACTTT CTCTTT
1 TCTTT TCTTT TCTTT -TCTTT
65517415 ACAAGAATGT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
4 4 0.08
5 33 0.63
6 10 0.19
7 5 0.10
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (5 bp):
TCTTT
Found at i:65517387 original size:15 final size:14
Alignment explanation
Indices: 65517347--65517403 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
65517337 CTCTTGCCTC
*
65517347 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
65517362 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
65517377 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
65517394 TCTTTTCTTT
1 TCTTTTCTTT
65517404 ACTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:65517408 original size:21 final size:21
Alignment explanation
Indices: 65517347--65517414 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
65517337 CTCTTGCCTC
* *
65517347 TCTTTTCTTTT-TATTTCGTTT
1 TCTTTTCTTTTCT-TTACTTTT
* *
65517368 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTACTTTT
*
65517389 TCTTTTCTTTTCTTTACTTTC
1 TCTTTTCTTTTCTTTACTTTT
65517410 TCTTT
1 TCTTT
65517415 ACAAGAATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.08
21 30 0.79
22 5 0.13
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTACTTTT
Found at i:65521972 original size:12 final size:12
Alignment explanation
Indices: 65521955--65522000 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
65521945 TTATACAAGT
65521955 AAAAAAAATTTG
1 AAAAAAAATTTG
**
65521967 AAAAAAAATTCA
1 AAAAAAAATTTG
65521979 AAAAAAAATTTCG
1 AAAAAAAATTT-G
65521992 AAAAGAAAA
1 AAAA-AAAA
65522001 AAAAATCTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 20 0.71
13 4 0.14
14 4 0.14
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.17
Consensus pattern (12 bp):
AAAAAAAATTTG
Found at i:65522014 original size:19 final size:19
Alignment explanation
Indices: 65521978--65522017 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
65521968 AAAAAAATTC
*
65521978 AAAAAAAAATTTCGAAAAG
1 AAAAAAAAATCTCGAAAAG
65521997 AAAAAAAAATCT-GAAAA-
1 AAAAAAAAATCTCGAAAAG
65522014 AAAA
1 AAAA
65522018 GTGTTTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 5 0.25
19 11 0.55
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAAAAAAATCTCGAAAAG
Found at i:65522874 original size:30 final size:30
Alignment explanation
Indices: 65522840--65522936 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
65522830 AGCTCACTTC
*
65522840 TAGCTCAATTTCAACTCACGAGCTAAACCT
1 TAGCTCAATTTCAGCTCACGAGCTAAACCT
* * * * * *
65522870 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAATTTCAGCTCACGAGCTAAACCT
* * *
65522900 CATCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAA-TTTCAGCTCACGAGCTAAACCT
65522930 TAGCTCA
1 TAGCTCA
65522937 TTTTAGTTTA
Statistics
Matches: 48, Mismatches: 18, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
30 46 0.96
31 2 0.04
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (30 bp):
TAGCTCAATTTCAGCTCACGAGCTAAACCT
Found at i:65524381 original size:11 final size:11
Alignment explanation
Indices: 65524365--65524394 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
65524355 AGCTAAACCG
65524365 AGCTCACTCCT
1 AGCTCACTCCT
65524376 AGCTCACTCCT
1 AGCTCACTCCT
65524387 AGCTCACT
1 AGCTCACT
65524395 TTCAACTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.20, C:0.43, G:0.10, T:0.27
Consensus pattern (11 bp):
AGCTCACTCCT
Found at i:65524420 original size:30 final size:29
Alignment explanation
Indices: 65524386--65524457 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 29
65524376 AGCTCACTCC
65524386 TAGCTCACTTTCAACTCACGAGCTAAACCT
1 TAGCTCACTTT-AACTCACGAGCTAAACCT
* *
65524416 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTC-ACTTTAACTCACGAGCTAAACCT
*
65524446 TAGCTCATTTTA
1 TAGCTCACTTTA
65524458 GTTTAAACTC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.13
30 28 0.74
31 5 0.13
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (29 bp):
TAGCTCACTTTAACTCACGAGCTAAACCT
Found at i:65528819 original size:10 final size:10
Alignment explanation
Indices: 65528804--65528830 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
65528794 TACTCCTTCA
65528804 AGCTCAAATC
1 AGCTCAAATC
65528814 AGCTCAAATC
1 AGCTCAAATC
65528824 AGCTCAA
1 AGCTCAA
65528831 CTTCAACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:65528852 original size:10 final size:10
Alignment explanation
Indices: 65528804--65528852 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
65528794 TACTCCTTCA
*
65528804 AGCTCAAATC
1 AGCTCAACTC
*
65528814 AGCTCAAATC
1 AGCTCAACTC
65528824 AGCTCAACTTC
1 AGCTCAAC-TC
* *
65528835 AACTCAACTT
1 AGCTCAACTC
65528845 AGCTCAAC
1 AGCTCAAC
65528853 GAGCTCGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 25 0.74
11 9 0.26
ACGTcount: A:0.37, C:0.33, G:0.08, T:0.22
Consensus pattern (10 bp):
AGCTCAACTC
Found at i:65530482 original size:14 final size:14
Alignment explanation
Indices: 65530465--65530504 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
65530455 CGAATGGAAT
*
65530465 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
65530479 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
65530493 GATATGAACAAA
1 GGTAGGAACAAA
65530505 TTGGTCAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:65532443 original size:14 final size:14
Alignment explanation
Indices: 65532426--65532465 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
65532416 CGGATGGAAT
*
65532426 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
65532440 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
65532454 GATATGAACAAA
1 GGTAGGAACAAA
65532466 TTGGTCAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:65534912 original size:40 final size:40
Alignment explanation
Indices: 65534867--65535033 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
65534857 CGGAATATAA
65534867 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
65534907 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
65534947 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
65534987 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
65535026 CCGGATAT
1 CCGGATAT
65535034 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65535017 original size:80 final size:79
Alignment explanation
Indices: 65534867--65535033 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
65534857 CGGAATATAA
* *
65534867 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
65534932 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
65534947 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
65535009 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
65535026 CCGGATAT
1 CCGGATAT
65535034 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:65535880 original size:17 final size:19
Alignment explanation
Indices: 65535857--65535902 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
65535847 AAGAAGCATG
65535857 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
65535875 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
65535893 AATCATGCTC
1 AATCATGCTC
65535903 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:65542913 original size:40 final size:40
Alignment explanation
Indices: 65542868--65543034 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
65542858 CGGAATATAA
65542868 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
65542908 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
65542948 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
65542988 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
65543027 CCGGATAT
1 CCGGATAT
65543035 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:65543018 original size:80 final size:79
Alignment explanation
Indices: 65542868--65543034 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
65542858 CGGAATATAA
* *
65542868 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
65542933 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
65542948 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
65543010 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
65543027 CCGGATAT
1 CCGGATAT
65543035 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:65543875 original size:17 final size:19
Alignment explanation
Indices: 65543852--65543897 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
65543842 AAGAAGCATG
65543852 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
65543870 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
65543888 AATCATGCTC
1 AATCATGCTC
65543898 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:65552030 original size:30 final size:30
Alignment explanation
Indices: 65551996--65552092 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
65551986 TAAACTAAAA
65551996 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65552026 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* * *
65552056 TGAGCTGAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
65552086 TGAGCTA
1 TGAGCTA
65552093 GGAGTGAGCT
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
29 1 0.02
30 41 0.85
31 6 0.12
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65555894 original size:55 final size:56
Alignment explanation
Indices: 65555799--65555924 Score: 218
Period size: 55 Copynumber: 2.3 Consensus size: 56
65555789 AGTAAGACCA
* *
65555799 TGGCATCGATATGTGGTTCCGATATATGTGTACGGGTAAGACCCTGTCTGGGACAG
1 TGGCATCGATATGTGGTTCCGATATATGTGTACGAGTAAGACCCTATCTGGGACAG
*
65555855 TGGCATCGATATGTGGTT-CGATATATGTGTATGAGTAAGACCCTATCTGGGACAG
1 TGGCATCGATATGTGGTTCCGATATATGTGTACGAGTAAGACCCTATCTGGGACAG
65555910 TGGCATCGATATGTG
1 TGGCATCGATATGTG
65555925 ACTACATGTA
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
55 49 0.73
56 18 0.27
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (56 bp):
TGGCATCGATATGTGGTTCCGATATATGTGTACGAGTAAGACCCTATCTGGGACAG
Found at i:65561938 original size:27 final size:26
Alignment explanation
Indices: 65561890--65561948 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 26
65561880 AGCATCAGCT
*
65561890 ATTAAATTTGTCCCTAAGCTAGACAC
1 ATTAAATTTGTCCCTAAACTAGACAC
65561916 ATTAAATTGATGT-CCTAAACTAGACAC
1 ATTAAATT--TGTCCCTAAACTAGACAC
65561943 ATTAAA
1 ATTAAA
65561949 ACTATGTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 8 0.27
27 19 0.63
28 3 0.10
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (26 bp):
ATTAAATTTGTCCCTAAACTAGACAC
Found at i:65563068 original size:20 final size:20
Alignment explanation
Indices: 65563045--65563092 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
65563035 AGCTCCGTCC
65563045 AGCTCAACTCAGCTCA-TTTG
1 AGCTCAACTCAGCT-AGTTTG
***
65563065 AGCTCGTTTCAGCTAGTTTG
1 AGCTCAACTCAGCTAGTTTG
65563085 AGCTCAAC
1 AGCTCAAC
65563093 CGAGCTTACT
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTAGTTTG
Found at i:65565944 original size:30 final size:31
Alignment explanation
Indices: 65565864--65565945 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 31
65565854 CTTTTGTTTC
* * *
65565864 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATTTTCTTTTGCAATCTCA
* *
65565895 AATTTC-TTTTCGTTCTCTTTTGCAATCTC-
1 AATTTCTTTTTCATTTTCTTTTGCAATCTCA
* *
65565924 ATTTTCTTTTTCTTTTTCTTTT
1 AATTTCTTTTTCATTTTCTTTT
65565946 TGCTTTTCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 5 0.12
30 31 0.74
31 6 0.14
ACGTcount: A:0.12, C:0.22, G:0.02, T:0.63
Consensus pattern (31 bp):
AATTTCTTTTTCATTTTCTTTTGCAATCTCA
Found at i:65566025 original size:5 final size:5
Alignment explanation
Indices: 65566015--65566071 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
65566005 CTCTTGCCTC
*
65566015 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTTT TCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TC-TTT TC-TTT TCTTT
65566062 TCTTT TCTTT
1 TCTTT TCTTT
65566072 GTTTTCTCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 4 0.09
5 26 0.58
6 14 0.31
7 1 0.02
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:65566081 original size:16 final size:16
Alignment explanation
Indices: 65566013--65566082 Score: 83
Period size: 16 Copynumber: 4.4 Consensus size: 16
65566003 GCCTCTTGCC
*
65566013 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
65566029 T-TCGTTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
65566045 TCT-TTTTCTTTTTCT
1 TCTCTTTTCTTTTTCT
*
65566060 TTTCTTTTCTTTGTT-T
1 TCTCTTTTCTTT-TTCT
65566076 TCTCTTT
1 TCTCTTT
65566083 GCAAGAATGT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
15 16 0.34
16 28 0.60
17 3 0.06
ACGTcount: A:0.01, C:0.19, G:0.03, T:0.77
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:65568730 original size:30 final size:30
Alignment explanation
Indices: 65568696--65568792 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
65568686 TAAACTAAAA
65568696 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65568726 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* * *
65568756 TGAGCTAAGGTTTAGCTTGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
65568786 TGAGCTA
1 TGAGCTA
65568793 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65570219 original size:26 final size:26
Alignment explanation
Indices: 65570190--65570268 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 26
65570180 CAACCTTAAC
*
65570190 CCTAGAGGTATATCAGTAATTTTACT
1 CCTAGAGGTATATCAGTAATTTTACA
* * * *
65570216 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGAGGTATATCAGT-AATTTTACA
* *
65570243 CCTATAAAGGTATTTCAGTAATTTTA
1 CC--TAGAGGTATATCAGTAATTTTA
65570269 TCAATTTTAA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
26 14 0.36
27 9 0.23
28 6 0.15
29 10 0.26
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (26 bp):
CCTAGAGGTATATCAGTAATTTTACA
Found at i:65571519 original size:30 final size:30
Alignment explanation
Indices: 65571485--65571581 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
65571475 AGCTCACTCC
65571485 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
65571515 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
65571545 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
65571575 TAGCTCA
1 TAGCTCA
65571582 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:65574678 original size:24 final size:24
Alignment explanation
Indices: 65574646--65574705 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
65574636 CTTTTTAGCT
65574646 CATCCAAGCAGCATATTAAAGAAG
1 CATCCAAGCAGCATATTAAAGAAG
*
65574670 CATCCAAGCAGTATATTAAAGAAG
1 CATCCAAGCAGCATATTAAAGAAG
65574694 CATCCAAGCAGC
1 CATCCAAGCAGC
65574706 CTTAAATCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (24 bp):
CATCCAAGCAGCATATTAAAGAAG
Found at i:65581149 original size:30 final size:30
Alignment explanation
Indices: 65581115--65581211 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
65581105 TAAACTAAAA
65581115 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65581145 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* * *
65581175 TGAGCTAAGGTTTAGCTTGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
65581205 TGAGCTA
1 TGAGCTA
65581212 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65583352 original size:30 final size:30
Alignment explanation
Indices: 65583281--65583363 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
65583271 CTTTTGTTTC
* *
65583281 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
65583312 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
65583341 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
65583364 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:65583363 original size:18 final size:18
Alignment explanation
Indices: 65583314--65583369 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
65583304 CACTCTCAAA
* *
65583314 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
65583331 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
65583349 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
65583368 TT
1 TT
65583370 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:65583370 original size:12 final size:12
Alignment explanation
Indices: 65583339--65583363 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65583329 TTTTTCAATC
65583339 TCATTTTCTTTT
1 TCATTTTCTTTT
65583351 TCATTTTCTTTT
1 TCATTTTCTTTT
65583363 T
1 T
65583364 GCTTTTCAAA
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:65583442 original size:5 final size:5
Alignment explanation
Indices: 65583432--65583497 Score: 55
Period size: 5 Copynumber: 12.6 Consensus size: 5
65583422 CTCTTGCCTC
*
65583432 TCTTT TCTTT T-TCTT TCGTTT TCTTT TTTTCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTT-T TCTTT T-C-TTT TCTTT
*
65583481 TCTTT T-TTT TGTTT TCT
1 TCTTT TCTTT TCTTT TCT
65583498 CTTTACAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
4 5 0.10
5 31 0.61
6 10 0.20
7 5 0.10
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:65583455 original size:16 final size:15
Alignment explanation
Indices: 65583432--65583490 Score: 66
Period size: 17 Copynumber: 3.7 Consensus size: 15
65583422 CTCTTGCCTC
65583432 TCTTTTCTTTTTCTT
1 TCTTTTCTTTTTCTT
*
65583447 TCGTTTTCTTTTTTTCT
1 TC-TTTTCTTTTTCT-T
65583464 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC-TT
65583481 TCTTTT-TTTT
1 TCTTTTCTTTT
65583491 GTTTTCTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
15 6 0.16
16 15 0.39
17 16 0.42
18 1 0.03
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (15 bp):
TCTTTTCTTTTTCTT
Found at i:65583456 original size:21 final size:21
Alignment explanation
Indices: 65583432--65583497 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 21
65583422 CTCTTGCCTC
65583432 TCTTTTCTTTTTCTTTCGTTT
1 TCTTTTCTTTTTCTTTCGTTT
*
65583453 TCTTTT-TTTCTTCTTTTGCTTTT
1 TCTTTTCTTT-TTC-TTT-CGTTT
65583476 TCTTTTCTTTTT-TTT-GTTT
1 TCTTTTCTTTTTCTTTCGTTT
65583495 TCT
1 TCT
65583498 CTTTACAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 6 0.15
20 3 0.08
21 12 0.31
22 3 0.08
23 12 0.31
24 3 0.08
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.79
Consensus pattern (21 bp):
TCTTTTCTTTTTCTTTCGTTT
Found at i:65583474 original size:17 final size:16
Alignment explanation
Indices: 65583432--65583501 Score: 65
Period size: 16 Copynumber: 4.3 Consensus size: 16
65583422 CTCTTGCCTC
*
65583432 TCTTTTCTTTTTCT-T
1 TCTTTTCTTTTTTTCT
65583447 TCGTTTTCTTTTTTTCT
1 TC-TTTTCTTTTTTTCT
65583464 TCTTTTGCTTTTTCTT-T
1 TCTTTT-CTTTTT-TTCT
*
65583481 TCTTTTTTTTGTTTTC-
1 TCTTTTCTTT-TTTTCT
65583497 TCTTT
1 TCTTT
65583502 ACAAAAATGT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
15 2 0.04
16 25 0.53
17 18 0.38
18 2 0.04
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (16 bp):
TCTTTTCTTTTTTTCT
Found at i:65583476 original size:7 final size:6
Alignment explanation
Indices: 65583434--65583487 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
65583424 CTTGCCTCTC
* * *
65583434 TTTTCT TTTTC- -TTTCG TTTTCT TTTT-T TCTTCT TTTGCT TTTTC-
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
65583478 TTTTCT TTTT
1 TTTTCT TTTT
65583488 TTTGTTTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.10
5 9 0.23
6 26 0.67
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:65583476 original size:33 final size:32
Alignment explanation
Indices: 65583430--65583501 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 32
65583420 GCCTCTTGCC
65583430 TCTCTTTTCTTTTTC-TTTCGTTTTCTTT-TTT
1 TCTCTTTTCTTTTTCTTTTC-TTTTCTTTGTTT
*
65583461 TCTTCTTTTGCTTTTTCTTTTCTTTTTTTTGTTT
1 TC-TCTTTT-CTTTTTCTTTTCTTTTCTTTGTTT
65583495 TCTCTTT
1 TCTCTTT
65583502 ACAAAAATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
31 2 0.06
32 6 0.17
33 19 0.53
34 9 0.25
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (32 bp):
TCTCTTTTCTTTTTCTTTTCTTTTCTTTGTTT
Found at i:65583500 original size:21 final size:21
Alignment explanation
Indices: 65583430--65583501 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 21
65583420 GCCTCTTGCC
65583430 TCTCTTTTCTTTTTCTTTCGTTT
1 TCTCTTTTCTTTTT-TTT-GTTT
65583453 TCT-TTTT-TTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TT-TTTTG-TTT
65583475 T-TCTTTTCTTTTTTTTGTTT
1 TCTCTTTTCTTTTTTTTGTTT
65583495 TCTCTTT
1 TCTCTTT
65583502 ACAAAAATGT
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
20 4 0.09
21 14 0.33
22 19 0.44
23 6 0.14
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (21 bp):
TCTCTTTTCTTTTTTTTGTTT
Found at i:65586018 original size:30 final size:30
Alignment explanation
Indices: 65585984--65586080 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
65585974 TAAACTAAAA
65585984 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65586014 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* * *
65586044 TGAGCTAAGGTTTAGCTTGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
65586074 TGAGCTA
1 TGAGCTA
65586081 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65591609 original size:20 final size:21
Alignment explanation
Indices: 65591561--65591611 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
65591551 AAATGAGCTG
* *
65591561 AACGAGCTAAATTCGAGCTCA
1 AACGAGCTGAATTCGAACTCA
*
65591582 AACAAGCTGAA-TCGAACTCA
1 AACGAGCTGAATTCGAACTCA
*
65591602 AGCGAGCTGA
1 AACGAGCTGA
65591612 TGGAAACTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.16
Consensus pattern (21 bp):
AACGAGCTGAATTCGAACTCA
Found at i:65598896 original size:15 final size:15
Alignment explanation
Indices: 65598876--65598931 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
65598866 GATCACATAT
65598876 ATATTCATTTGTAAC
1 ATATTCATTTGTAAC
** *
65598891 ATATTCA--CAT-AT
1 ATATTCATTTGTAAC
65598903 ATATTCATTTGTAAC
1 ATATTCATTTGTAAC
65598918 ATATTCAATTTGTA
1 ATATTC-ATTTGTA
65598932 TCACATACCA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
12 8 0.26
13 1 0.03
14 1 0.03
15 14 0.45
16 7 0.23
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.46
Consensus pattern (15 bp):
ATATTCATTTGTAAC
Found at i:65598899 original size:27 final size:27
Alignment explanation
Indices: 65598868--65598924 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
65598858 ACTTCTAAGA
65598868 TCACATATATATTCATTTGTAACATAT
1 TCACATATATATTCATTTGTAACATAT
65598895 TCACATATATATTCATTTGTAACATAT
1 TCACATATATATTCATTTGTAACATAT
65598922 TCA
1 TCA
65598925 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.04, T:0.44
Consensus pattern (27 bp):
TCACATATATATTCATTTGTAACATAT
Found at i:65599922 original size:29 final size:29
Alignment explanation
Indices: 65599853--65599912 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
65599843 AAGGATTCAA
*
65599853 AGATGGGTTTATGGATATTAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
65599882 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
65599911 AG
1 AG
65599913 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:65600931 original size:14 final size:14
Alignment explanation
Indices: 65600889--65600933 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
65600879 TTAAAGAAGC
65600889 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
65600903 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
65600916 AACTCATTTAATTA
1 AACTCATTAAATTA
65600930 AACT
1 AACT
65600934 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:65603429 original size:18 final size:18
Alignment explanation
Indices: 65603408--65603457 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
65603398 AAACTCTTTT
65603408 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
65603426 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
65603444 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
65603458 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Done.