Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 316 of 344
Found at i:103775748 original size:21 final size:21
Alignment explanation
Indices: 103775718--103775767 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
103775708 ATTTTTAATT
* * *
103775718 TATATATATTTTTATTTTTTA
1 TATATTTATTTCTATTTTTCA
103775739 TATATTTATTTCTATTTTTCA
1 TATATTTATTTCTATTTTTCA
*
103775760 TATTTTTA
1 TATATTTA
103775768 ATGTGTACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (21 bp):
TATATTTATTTCTATTTTTCA
Found at i:103776645 original size:127 final size:127
Alignment explanation
Indices: 103776450--103776752 Score: 417
Period size: 127 Copynumber: 2.4 Consensus size: 127
103776440 TCCAATGAAA
*
103776450 AAATCGAAACCCAGCACGGTAGGGCACGATTCTTCGAATTTCCAAACATTGAACATTACCTCGCT
1 AAATCGAAACCCAGCACGATAGGGCACGATTCTTCGAATTTCCAAACATTGAACATTACCTCGCT
* *
103776515 TTAGCATTTAGAAAATACAAATGAAATTCTAAAGGAATATTCAACTATTTTGAGCAAACCGG
66 TTAGCATTTAGAAAACACAAATGAAATTCTAAAGGAATATTCAACTATTTTGAACAAACCGG
* * ** * * ** * *
103776577 AAATCGAAACCCAACACGATTGGGCACGATTCCCCGAATTTCTAAACATTGAATATTGTCTTGTT
1 AAATCGAAACCCAGCACGATAGGGCACGATTCTTCGAATTTCCAAACATTGAACATTACCTCGCT
* * * * * *
103776642 TTAGCATTTGGAAAACGCGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGG
66 TTAGCATTTAGAAAACACAAATGAAATTCTAAAGGAATATTCAACTATTTTGAACAAACCGG
* *
103776704 AAATCAAAAGCCAGCACGATAGGGCACGATTCTTCGAATTTCCAAACAT
1 AAATCGAAACCCAGCACGATAGGGCACGATTCTTCGAATTTCCAAACAT
103776753 CAAACATTGC
Statistics
Matches: 150, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
127 150 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (127 bp):
AAATCGAAACCCAGCACGATAGGGCACGATTCTTCGAATTTCCAAACATTGAACATTACCTCGCT
TTAGCATTTAGAAAACACAAATGAAATTCTAAAGGAATATTCAACTATTTTGAACAAACCGG
Found at i:103778779 original size:18 final size:17
Alignment explanation
Indices: 103778756--103778812 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
103778746 AGGGTTTCTT
103778756 GGTTTTTTTTTTGGGTTA
1 GGTTTTTTTTTT-GGTTA
*
103778774 GGTTTTTCTTTT--TT-
1 GGTTTTTTTTTTGGTTA
*
103778788 -CTTTTTTTTTTGGTTA
1 GGTTTTTTTTTTGGTTA
103778804 GGTTTTTTT
1 GGTTTTTTT
103778813 AGGGGGGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
13 9 0.29
15 4 0.13
17 7 0.23
18 11 0.35
ACGTcount: A:0.04, C:0.04, G:0.19, T:0.74
Consensus pattern (17 bp):
GGTTTTTTTTTTGGTTA
Found at i:103779601 original size:14 final size:14
Alignment explanation
Indices: 103779582--103779631 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
103779572 GAGTTGATTT
*
103779582 TTGAAAAATATAAA
1 TTGAAAAATAGAAA
103779596 TTGAAAAAATAGAAA
1 TTG-AAAAATAGAAA
**
103779611 TTGAAAAGCAGAAA
1 TTGAAAAATAGAAA
103779625 TT-AAAAA
1 TTGAAAAA
103779632 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 14 0.45
15 13 0.42
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.22
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:103779605 original size:15 final size:15
Alignment explanation
Indices: 103779585--103779617 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
103779575 TTGATTTTTG
*
103779585 AAAAATATAAATTGA
1 AAAAATAGAAATTGA
103779600 AAAAATAGAAATTGA
1 AAAAATAGAAATTGA
103779615 AAA
1 AAA
103779618 GCAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
AAAAATAGAAATTGA
Found at i:103779747 original size:73 final size:74
Alignment explanation
Indices: 103779654--103779854 Score: 260
Period size: 75 Copynumber: 2.7 Consensus size: 74
103779644 TGAGCTGAGG
* * *
103779654 CTCAACTCACCTCTGGCAATATGAGTT-AATTTTTGACAAACAGAAATTGAAATTACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCGT
103779718 GTCCCGAGA
66 GTCCCGAGA
* * * * *
103779727 CTCAACTCACCTTTCACAATATGAGTTGATTTTTTGAAAAACAGGAATTTAAAAATACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACA-GAAATTGAAAATACCTCAGCG
** *
103779792 TGTCTTGAGG
65 TGTCCCGAGA
* *
103779802 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACGAACAGAAATTGAA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGACAAACAGAAATTGAA
103779855 GAACAGAAAT
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
73 24 0.22
74 13 0.12
75 59 0.55
76 11 0.10
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (74 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCGT
GTCCCGAGA
Found at i:103779860 original size:14 final size:14
Alignment explanation
Indices: 103779841--103779868 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
103779831 TTTTTTTTAC
103779841 GAACAGAAATTGAA
1 GAACAGAAATTGAA
103779855 GAACAGAAATTGAA
1 GAACAGAAATTGAA
103779869 AAGACCTCAG
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:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:103779875 original size:239 final size:237
Alignment explanation
Indices: 103779606--103780310 Score: 1187
Period size: 239 Copynumber: 3.0 Consensus size: 237
103779596 TTGAAAAAAT
* * *
103779606 AGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCTGAGGCTCAACTCACCTCTGGC
1 AGAAATTGAAAA-CAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGC
*
103779671 AATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGACTCAACTCA
65 AATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCA
* * *
103779736 CCTTTCACAATATGAGTTGATTTTTTGAAAAACAGGAATTTAAAAATACCTCAGCGTGTCTTGAG
130 CCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGGAATTTAAAAATACCTCAGCGTGTCCTGAG
103779801 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACGAAC
194 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACGAAC
103779845 AGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGC
1 AGAAATTGAA-AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGC
103779910 AATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCA
65 AATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCA
*
103779975 CCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGG
130 CCTCTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTTAAAAATACCTCAGCGTGTCCTGAGG
103780040 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAAC
195 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTACGAAC
*
103780084 AGAAATTGAAAAACATAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGC
1 AGAAATTG-AAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGC
* * ***
103780149 AATATGAGTTGATTTTTGACAAACAGAAATCGAAATTACCTCAGCGTGTTTTGAGGCTCAACTCA
65 AATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCA
* * * *
103780214 CCTCTCGCAATATGAGTTGATTTTTGACAAACA-GAAATTGAAATTACCTCAGCGTGTCCTGAGG
130 CCTCTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTTAAAAATACCTCAGCGTGTCCTGAGG
*
103780278 CTCAACTCACCTCTAGCAATATGAGTTGATTTT
195 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
103780311 GAAAAAAAAA
Statistics
Matches: 443, Mismatches: 20, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
237 4 0.01
238 127 0.29
239 308 0.70
240 4 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (237 bp):
AGAAATTGAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTTAAAAATACCTCAGCGTGTCCTGAGGC
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACGAAC
Found at i:103779981 original size:73 final size:73
Alignment explanation
Indices: 103779850--103780073 Score: 340
Period size: 74 Copynumber: 3.0 Consensus size: 73
103779840 CGAACAGAAA
* * **
103779850 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
103779915 GAGTTAATTT
64 GAGTTGATTT
* *
103779925 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
103779990 GTTGATTT
66 GTTGATTT
* *
103779998 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
103780063 AGTTGATTT
65 AGTTGATTT
103780072 TT
1 TT
103780074 TTTTACGAAC
Statistics
Matches: 137, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
73 53 0.39
74 58 0.42
75 26 0.19
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:103780010 original size:312 final size:295
Alignment explanation
Indices: 103779856--103780404 Score: 674
Period size: 312 Copynumber: 1.8 Consensus size: 295
103779846 GAAATTGAAG
* **
103779856 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATCGAAATTACCTCAGC--GTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
*
103779921 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
64 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAAT
*
103779986 ATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
129 ATGAGTTGATTTTTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCCTGAGACTCAACTCACC
* *
103780051 TCTCGCAATATGAGTTGATTTTTTTTTACGAACAGAA-ATTGAAAAACATAAATTGAAAAGACCT
193 TCTCGCAATATGAGTTGA---TTTTTT--GAA-A-AACA--G---GA-AT---TTAAAAAGACCT
103780115 CAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
242 CAGCA-GTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
**** *
103780170 AACAGAAATCGAAATTACCTCAGCGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATCGAAATTACCTCAGCGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
*
103780235 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATAT
66 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATAT
* * * * * *
103780300 GAGTTGA-TTTTGAAAAA-AAAAATTAAAAGTATCTCAACGTGTCTTGAGACTCAACTCATCTCT
131 GAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGACTCAACTCACCTCT
* * *
103780363 CGCAATATAAGTTGATTTTCCTTGAAAAGCATGAA-TTAAAAA
196 CGCAATATGAGTTGATTTT--TTGAAAAACAGGAATTTAAAAA
103780405 CATCAAAATA
Statistics
Matches: 210, Mismatches: 22, Indels: 25
0.82 0.09 0.10
Matches are distributed among these distances:
295 6 0.03
299 1 0.00
300 1 0.00
304 1 0.00
305 2 0.01
306 7 0.03
308 2 0.01
309 49 0.23
310 4 0.02
311 10 0.05
312 106 0.50
314 21 0.10
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (295 bp):
AACAGAAATCGAAATTACCTCAGCGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGACTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTGAAAAACAGGAATTTAAAAAGACCTCAGCAGTGAGCCGAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTTTGACA
Found at i:103780154 original size:92 final size:91
Alignment explanation
Indices: 103779998--103780165 Score: 259
Period size: 92 Copynumber: 1.8 Consensus size: 91
103779988 GAGTTGATTT
* *
103779998 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
103780063 AGTTGATTTTTTTTTACGAACAGAAA
66 AGTTGATTTTTTTTTACGAACAGAAA
* *
103780089 TTGAAAAACATAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAAT
103780152 ATGAGTTGATTTTT
63 ATGAGTTGATTTTT
103780166 GACAAACAGA
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
90 14 0.20
91 13 0.19
92 41 0.59
93 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (91 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTTTACGAACAGAAA
Found at i:103780238 original size:165 final size:164
Alignment explanation
Indices: 103779925--103780381 Score: 524
Period size: 166 Copynumber: 2.9 Consensus size: 164
103779915 GAGTTAATTT
* ** *
103779925 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
*
103779990 GTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
66 GTTGATTTTTGAAAAACAGAAATTCAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
103780055 GCAATATGAGTTGATTTTTTTTTACGAACAGAAA
131 GCAATATGAGTTGATTTTTTTTTACGAACAGAAA
* *
103780089 TTGAAAAACATAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* * * **
103780154 GAGTTGATTTTTGACAAACAGAAA-TCGAAATTACCTCAGCGTGTTTTGAGGCTCAACTCACCTC
64 GAGTTGATTTTTGAAAAACAGAAATTCAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
103780218 TCGCAATATGAGTTGA----TTTTT--G-AC-----
129 TCGCAATATGAGTTGATTTTTTTTTACGAACAGAAA
** * * *
103780242 -----AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
* * * * * * *
103780302 GTTGA-TTTTGAAAAA-AAAAATT-AAAAGTATCTCAACGTGTCTTGAGACTCAACTCATCTCTC
66 GTTGATTTTTGAAAAACAGAAATTCAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
*
103780364 GCAATATAAGTTGATTTT
131 GCAATATGAGTTGATTTT
103780382 CCTTGAAAAG
Statistics
Matches: 257, Mismatches: 29, Indels: 30
0.81 0.09 0.09
Matches are distributed among these distances:
144 50 0.19
145 10 0.04
146 36 0.14
148 22 0.09
158 2 0.01
159 1 0.00
161 5 0.02
164 26 0.10
165 51 0.20
166 54 0.21
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (164 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAACAGAAATTCAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTTTTTACGAACAGAAA
Found at i:103780368 original size:71 final size:73
Alignment explanation
Indices: 103780128--103780381 Score: 377
Period size: 73 Copynumber: 3.5 Consensus size: 73
103780118 CATGTGAGCC
*
103780128 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATCGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
*
103780193 CGTGTTTT
66 CGTGTCTT
103780201 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
*
103780266 CGTGTCCT
66 CGTGTCTT
* * * * * * *
103780274 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGA-AAAAAAAAATTAAAAGTATCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
103780337 CGTGTCTT
66 CGTGTCTT
* * *
103780345 GAGACTCAACTCATCTCTCGCAATATAAGTTGATTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
103780382 CCTTGAAAAG
Statistics
Matches: 165, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
71 54 0.33
72 9 0.05
73 102 0.62
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (73 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
CGTGTCTT
Found at i:103788495 original size:12 final size:12
Alignment explanation
Indices: 103788475--103788510 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
103788465 TGGGATATGC
*
103788475 AATGTATGAATG
1 AATGCATGAATG
103788487 AATGCATGAATG
1 AATGCATGAATG
103788499 AATGCATGAATG
1 AATGCATGAATG
103788511 TCAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:103790719 original size:8 final size:8
Alignment explanation
Indices: 103790708--103790740 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
103790698 AAGTGGGAAA
103790708 GTGGCTAG
1 GTGGCTAG
103790716 GTGGCTAG
1 GTGGCTAG
103790724 GTGGCTAG
1 GTGGCTAG
103790732 GTGGCTAG
1 GTGGCTAG
103790740 G
1 G
103790741 GTTTCTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.12, C:0.12, G:0.52, T:0.24
Consensus pattern (8 bp):
GTGGCTAG
Found at i:103790771 original size:18 final size:17
Alignment explanation
Indices: 103790748--103790804 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
103790738 AGGGTTTCTT
103790748 GGTTTTTTTTTTGGGTTA
1 GGTTTTTTTTTT-GGTTA
*
103790766 GGTTTTTCTTTT--TT-
1 GGTTTTTTTTTTGGTTA
*
103790780 -CTTTTTTTTTTGGTTA
1 GGTTTTTTTTTTGGTTA
103790796 GGTTTTTTT
1 GGTTTTTTT
103790805 GGGGGGGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
13 9 0.29
15 4 0.13
17 7 0.23
18 11 0.35
ACGTcount: A:0.04, C:0.04, G:0.19, T:0.74
Consensus pattern (17 bp):
GGTTTTTTTTTTGGTTA
Found at i:103792644 original size:21 final size:20
Alignment explanation
Indices: 103792620--103792663 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
103792610 ATACGTAATA
103792620 ATAGGAATAAAAAGTATATAC
1 ATAGGAATAAAAA-TATATAC
* *
103792641 ATAGTATTAAAAATATATAC
1 ATAGGAATAAAAATATATAC
103792661 ATA
1 ATA
103792664 ATATAGCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (20 bp):
ATAGGAATAAAAATATATAC
Found at i:103792656 original size:47 final size:44
Alignment explanation
Indices: 103792599--103792688 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 44
103792589 TAAATAGATA
* * *
103792599 TATTAAAATATATACGTAATAATAGGAATAAAAAGTATATACATAG
1 TATTAAAATATATACATAAT-ATAGCAATAAAAA-TACATACATAG
*
103792645 TATTAAAAATATATACATAATATAGCATTAAAAATACATACATA
1 TATT-AAAATATATACATAATATAGCAATAAAAATACATACATA
103792689 ATATAGTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
45 9 0.23
46 15 0.38
47 15 0.38
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (44 bp):
TATTAAAATATATACATAATATAGCAATAAAAATACATACATAG
Found at i:103792674 original size:25 final size:25
Alignment explanation
Indices: 103792641--103792780 Score: 142
Period size: 25 Copynumber: 5.5 Consensus size: 25
103792631 AAGTATATAC
103792641 ATAGTATTAAAAATATATACATAAT
1 ATAGTATTAAAAATATATACATAAT
* *
103792666 ATAGCATTAAAAATACATACATAAT
1 ATAGTATTAAAAATATATACATAAT
*
103792691 ATAGTTATT-AAAATATATACATAAG
1 ATAG-TATTAAAAATATATACATAAT
* * *
103792716 ATAATATGTAAGAAAAAATATA-ATTGAT
1 ATAGTAT-T-A-AAAATATATACA-TAAT
*
103792744 ATAGTATTAAAGATATATACATAAT
1 ATAGTATTAAAAATATATACATAAT
*
103792769 ATA-TATAAAAAA
1 ATAGTATTAAAAA
103792781 ATCATATATA
Statistics
Matches: 93, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
24 10 0.11
25 59 0.63
26 5 0.05
27 2 0.02
28 17 0.18
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:103792774 original size:13 final size:13
Alignment explanation
Indices: 103792756--103792803 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
103792746 AGTATTAAAG
103792756 ATATATACATAAT
1 ATATATACATAAT
* *
103792769 ATATATAAAAAAAT
1 ATATAT-ACATAAT
*
103792783 CATATATACATGAT
1 -ATATATACATAAT
103792797 ATATATA
1 ATATATA
103792804 TATTAGCAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 13 0.46
14 9 0.32
15 6 0.21
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.35
Consensus pattern (13 bp):
ATATATACATAAT
Found at i:103793021 original size:24 final size:24
Alignment explanation
Indices: 103792994--103793065 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
103792984 TAAAAATATA
* * *
103792994 ATATTTAAAAAGTATGTACATAAC
1 ATATATAAAAAATATATACATAAC
*
103793018 ATATATAAAAAATATATACATAAT
1 ATATATAAAAAATATATACATAAC
** *
103793042 ATAGTATTTAAAATATTTACATAA
1 ATA-TATAAAAAATATATACATAA
103793066 TAATAGGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 23 0.57
25 17 0.43
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (24 bp):
ATATATAAAAAATATATACATAAC
Found at i:103793092 original size:21 final size:19
Alignment explanation
Indices: 103793072--103793110 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
103793062 ATAATAATAG
103793072 GAATAAAAAGTATATACATA
1 GAATAAAAA-TATATACATA
* *
103793092 GTATTAAAATATATACATA
1 GAATAAAAATATATACATA
103793111 ATATATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (19 bp):
GAATAAAAATATATACATA
Found at i:103793113 original size:11 final size:11
Alignment explanation
Indices: 103793082--103793121 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
103793072 GAATAAAAAG
*
103793082 TATATACATAG
1 TATATACATAA
103793093 TAT-TA-A-AA
1 TATATACATAA
103793101 TATATACATAA
1 TATATACATAA
103793112 TATATACATA
1 TATATACATA
103793122 TTAGAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
8 4 0.16
9 3 0.12
10 3 0.12
11 15 0.60
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (11 bp):
TATATACATAA
Found at i:103793122 original size:19 final size:19
Alignment explanation
Indices: 103793077--103793114 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
103793067 AATAGGAATA
*
103793077 AAAAGTATATACATAGTATT
1 AAAA-TATATACATAATATT
103793097 AAAATATATACATAATAT
1 AAAATATATACATAATAT
103793115 ATACATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (19 bp):
AAAATATATACATAATATT
Found at i:103793232 original size:25 final size:25
Alignment explanation
Indices: 103793204--103793272 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
103793194 AATAATGATA
* * *
103793204 TTAAAAGTATAAACGTAATATAGTG
1 TTAAAAATACAAACATAATATAGTG
* *
103793229 TTAAAAATACATACATAATATAGTTA
1 TTAAAAATACAAACATAATATAG-TG
* *
103793255 TTAAAAATATATACATAA
1 TTAAAAATACAAACATAA
103793273 GATAATATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 19 0.51
26 18 0.49
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (25 bp):
TTAAAAATACAAACATAATATAGTG
Found at i:103793235 original size:26 final size:26
Alignment explanation
Indices: 103793159--103793272 Score: 85
Period size: 26 Copynumber: 4.5 Consensus size: 26
103793149 ACTATTACAT
* *
103793159 AAATATACACAT-ATATA--TATTGA
1 AAATATAAACATAATATAGTTATTAA
* * *
103793182 AAATTTATACATAATA-ATGATATTAA
1 AAATATAAACATAATATA-GTTATTAA
* * *
103793208 AAGTATAAACGTAATATAG-TGTTAA
1 AAATATAAACATAATATAGTTATTAA
* *
103793233 AAATACATACATAATATAGTTATTAA
1 AAATATAAACATAATATAGTTATTAA
*
103793259 AAATATATACATAA
1 AAATATAAACATAA
103793273 GATAATATGT
Statistics
Matches: 71, Mismatches: 14, Indels: 9
0.76 0.15 0.10
Matches are distributed among these distances:
23 11 0.15
24 3 0.04
25 20 0.28
26 36 0.51
27 1 0.01
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (26 bp):
AAATATAAACATAATATAGTTATTAA
Found at i:103793300 original size:28 final size:28
Alignment explanation
Indices: 103793257--103793313 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
103793247 TATAGTTATT
*
103793257 AAAAATATATACATAAGATAATATGTAAG
1 AAAAATATATAAATAAGATAATAT-TAAG
*
103793286 AAAAA-ATATAAATAATATAATATTAAG
1 AAAAATATATAAATAAGATAATATTAAG
103793313 A
1 A
103793314 TATTTACATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.19
28 16 0.62
29 5 0.19
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (28 bp):
AAAAATATATAAATAAGATAATATTAAG
Found at i:103793386 original size:213 final size:200
Alignment explanation
Indices: 103793025--103793420 Score: 447
Period size: 213 Copynumber: 1.9 Consensus size: 200
103793015 AACATATATA
* * * * *
103793025 AAAAATATATACATAATATAGTATTTAAAATATTTACATAATAATAGGAATAAAAAGTATATACA
1 AAAAATACATACATAATATAGTATTAAAAATATATACATAATAATAGGAAGAAAAAATATATACA
* * * *
103793090 TAGTATTAAAATATATACATAATATATACATATTAGAAATAATAACAATATTAAAAACAACTATT
66 TAATATTAAAATATATACATAATATATACATATTAGAAAGAATAACAATACTAAAAACAACTACT
**
103793155 ACATAAATATACACATATATATATTGAAAATTTATACATAATAATGATATTAAAAGTATAAACGT
131 ACATAAATATACAC--ATATATATT-AAAATAAATACATAAT-A--ATATTAAAAGTATAAACGT
103793220 AATATAGTGTT
190 AATATAGTGTT
*
103793231 AAAAATACATACATAATATAGTTATTAAAAATATATACATAAGATAATATGTAAGAAAAAATATA
1 AAAAATACATACATAATATAG-TATTAAAAATATATACAT-A-ATAATA-GGAAGAAAAAATAT-
* * * * **
103793296 AATAATATAATATTAAGATATTTACATAATATATATACATATTAG-AAGAA-AAGAATGACTATT
61 -AT-ACATAATATTAAAATATATACAT-A-ATATATACATATTAGAAAGAATAACAAT-ACTAAA
* *
103793359 AATAA-TACTACATAAATATATACATATATATTAAAATAAATACATAATAATATTAAAAGTAT
121 AACAACTACTACATAAATATACACATATATATTAAAATAAATACATAATAATATTAAAAGTAT
103793421 GTATATAAAA
Statistics
Matches: 160, Mismatches: 20, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
206 20 0.12
207 29 0.18
208 1 0.01
209 7 0.04
210 25 0.16
211 9 0.06
212 2 0.01
213 40 0.25
214 12 0.08
215 15 0.09
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (200 bp):
AAAAATACATACATAATATAGTATTAAAAATATATACATAATAATAGGAAGAAAAAATATATACA
TAATATTAAAATATATACATAATATATACATATTAGAAAGAATAACAATACTAAAAACAACTACT
ACATAAATATACACATATATATTAAAATAAATACATAATAATATTAAAAGTATAAACGTAATATA
GTGTT
Found at i:103793401 original size:20 final size:22
Alignment explanation
Indices: 103793370--103793416 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
103793360 ATAATACTAC
*
103793370 ATAAATATATACATATATATTAAA
1 ATAAATACATA-ATA-ATATTAAA
103793394 ATAAATACATAATAATATTAAA
1 ATAAATACATAATAATATTAAA
103793416 A
1 A
103793417 GTATGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
23 3 0.14
24 10 0.45
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (22 bp):
ATAAATACATAATAATATTAAA
Found at i:103793569 original size:21 final size:23
Alignment explanation
Indices: 103793544--103793616 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 23
103793534 CTAAGAAATA
103793544 ATAATAATGTTAAAAAAAT-TAT
1 ATAATAATGTTAAAAAAATATAT
* * *
103793566 -TAATAATATTACATAAATATAT
1 ATAATAATGTTAAAAAAATATAT
* *
103793588 ACATATATATGTTAAAAAAATAAAT
1 ATA-ATA-ATGTTAAAAAAATATAT
103793613 ATAA
1 ATAA
103793617 AATAATATTA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 15 0.39
22 3 0.08
23 1 0.03
24 4 0.11
25 15 0.39
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (23 bp):
ATAATAATGTTAAAAAAATATAT
Found at i:103793706 original size:18 final size:18
Alignment explanation
Indices: 103793685--103793758 Score: 50
Period size: 18 Copynumber: 4.2 Consensus size: 18
103793675 ATATACGATG
103793685 ATAATAATAATGTTAATA
1 ATAATAATAATGTTAATA
* *
103793703 ATAATATTAATAG-TAGTA
1 ATAATAATAAT-GTTAATA
*
103793721 A-ATATAATAATATATAA-A
1 ATA-ATAATAATGT-TAATA
103793739 A-AATAATTAAT-TTAATA
1 ATAATAA-TAATGTTAATA
103793756 ATA
1 ATA
103793759 GAGAAATGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
16 3 0.07
17 8 0.18
18 30 0.68
19 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (18 bp):
ATAATAATAATGTTAATA
Found at i:103798212 original size:3 final size:3
Alignment explanation
Indices: 103798206--103798271 Score: 57
Period size: 3 Copynumber: 22.7 Consensus size: 3
103798196 TTCTAATACC
* *
103798206 ATT ATT ATT -TT ATT ATT ACT ATT ATT -TCT ATT ATT ATT ATT ATG
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
** *
103798250 GCT ATT ATT -TT ATT ATG ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
103798272 ATTTCTTTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
2 5 0.10
3 43 0.88
4 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:103798239 original size:18 final size:18
Alignment explanation
Indices: 103798208--103798258 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
103798198 CTAATACCAT
103798208 TATTATTT-TATTATTAC
1 TATTATTTCTATTATTAC
*
103798225 TATTATTTCTATTATTAT
1 TATTATTTCTATTATTAC
**
103798243 TATTATGGCTATTATT
1 TATTATTTCTATTATT
103798259 TTATTATGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 8 0.27
18 22 0.73
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (18 bp):
TATTATTTCTATTATTAC
Found at i:103799851 original size:21 final size:21
Alignment explanation
Indices: 103799825--103799864 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
103799815 TAAGGAGGGA
103799825 AAAATAACAAAAAATAGCATT
1 AAAATAACAAAAAATAGCATT
103799846 AAAATAACAAAAAATAGCA
1 AAAATAACAAAAAATAGCA
103799865 GATTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.70, C:0.10, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAATAACAAAAAATAGCATT
Found at i:103813093 original size:44 final size:44
Alignment explanation
Indices: 103813026--103813385 Score: 594
Period size: 44 Copynumber: 8.2 Consensus size: 44
103813016 TTGGCGAATC
*
103813026 TAGCAGATTTGGCGTCTCCGTATTGGCGGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
* * *
103813070 TAGTAGATTTGGCGTCTCTGTATTGGCGGAGAGCATATCGAAGG
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
*
103813114 TAGCAGATTTGGCGTCTCTGTATTAGCGGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
*
103813158 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
*
103813202 TAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
* *
103813246 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCAAATA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
*
103813290 TAGCAGATTTGGCGTCTTTGTATTGGCGGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
* * *
103813334 TAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
*
103813378 TAACAGAT
1 TAGCAGAT
103813386 GGGTGTTCCT
Statistics
Matches: 293, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 293 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (44 bp):
TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
Found at i:103813634 original size:18 final size:18
Alignment explanation
Indices: 103813607--103813646 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
103813597 CAACAACCAA
* *
103813607 AAAACCAAAATTAAAAAC
1 AAAACAAAAAATAAAAAC
*
103813625 AAAACAAAAAATAATAAC
1 AAAACAAAAAATAAAAAC
103813643 AAAA
1 AAAA
103813647 ACCCAATAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.78, C:0.12, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAACAAAAAATAAAAAC
Found at i:103817275 original size:46 final size:46
Alignment explanation
Indices: 103817208--103817382 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
103817198 TGTAACCCGC
*
103817208 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
103817254 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * * *
103817304 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
103817347 CAATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
103817383 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 61 0.58
47 27 0.25
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:103817331 original size:93 final size:93
Alignment explanation
Indices: 103817216--103817386 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
103817206 GCCCATAAGT
* * * * *
103817216 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCAATAAGTGAACTCAGACTCAACTCAA
103817281 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
103817309 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCAATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCAATAAGTGAACTCAGACTCAACTCAA
103817374 CGAGTTCGGATGC
66 CGAGTTCGGATGC
103817387 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCAATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:103824856 original size:46 final size:46
Alignment explanation
Indices: 103824789--103824963 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
103824779 TGTAACCCGC
*
103824789 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
103824835 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * ** *
103824885 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGTACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
103824928 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
103824964 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 61 0.58
47 27 0.25
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:103824912 original size:93 final size:93
Alignment explanation
Indices: 103824797--103824967 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
103824787 GCCCATAAGT
* * *
103824797 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
103824862 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
103824890 GAACTCGGACTCAACTCAACGAGTTCGTACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
103824955 CGAGTTCGGATGC
66 CGAGTTCGGATGC
103824968 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:103827292 original size:130 final size:129
Alignment explanation
Indices: 103827062--103827296 Score: 321
Period size: 130 Copynumber: 1.8 Consensus size: 129
103827052 AAAATGCTTA
* *
103827062 AAAACGAAGACGATGTTCAATGTTTGGCGATTGAGAATCGTGCCCTATTGTGCTGGGTTGCGCTT
1 AAAACGAAGACGATGTCCAATGTTTGGCGATTGAGAATCGTGCCCTATCGTGCTGGGTTGCGCTT
** * *
103827127 TTTCATTGGTTCGAAACAATTGAAGATCCCTTCGGAATTTCCCTCACATTTTCTAAAATCTTTC
66 TTTCATTGGCCCAAAACAATCGAAGATCCCTTCGGAATTTCCCTCACATTTTCTAAAATCTTTC
* * *
103827191 AAAATGAAGGCGATGTCCGATGTTTGGCGATTCGAGAATCGAT-CCCTATCGTGCTGGGTTGCGC
1 AAAACGAAGACGATGTCCAATGTTTGGCGATT-GAGAATCG-TGCCCTATCGTGCTGGGTTGCGC
* * *
103827255 TTTTTCATTTGCCCAAAATAATCGAATATCTCC-TCGGAATTT
64 TTTTTCATTGGCCCAAAACAATCGAAGATC-CCTTCGGAATTT
103827297 TCACACATAT
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
129 28 0.31
130 60 0.66
131 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (129 bp):
AAAACGAAGACGATGTCCAATGTTTGGCGATTGAGAATCGTGCCCTATCGTGCTGGGTTGCGCTT
TTTCATTGGCCCAAAACAATCGAAGATCCCTTCGGAATTTCCCTCACATTTTCTAAAATCTTTC
Found at i:103827783 original size:15 final size:16
Alignment explanation
Indices: 103827754--103827783 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
103827744 TTTCCCCTTT
103827754 TTTTTAAATCTAGAAA
1 TTTTTAAATCTAGAAA
103827770 TTTTTAAATC-AGAA
1 TTTTTAAATCTAGAA
103827784 GGGTGGTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (16 bp):
TTTTTAAATCTAGAAA
Found at i:103830282 original size:21 final size:22
Alignment explanation
Indices: 103830239--103830282 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
103830229 AGATATATGT
* * *
103830239 ATATATATAATATAATATTAAA
1 ATATATATAATACAACATAAAA
103830261 ATATA-ATAATACAACATAAAA
1 ATATATATAATACAACATAAAA
103830282 A
1 A
103830283 AAACATGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (22 bp):
ATATATATAATACAACATAAAA
Found at i:103830451 original size:19 final size:21
Alignment explanation
Indices: 103830410--103830466 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 21
103830400 ATTACCTAGG
*
103830410 TATATACATATATATCAAGTA
1 TATATACATATATATCAAATA
*
103830431 TATATACGTAT-TAT-AAATA
1 TATATACATATATATCAAATA
*
103830450 TATA-A-ATATATAACAAA
1 TATATACATATATATCAAA
103830467 GCATAAACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
17 3 0.10
18 3 0.10
19 11 0.37
20 3 0.10
21 10 0.33
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.37
Consensus pattern (21 bp):
TATATACATATATATCAAATA
Found at i:103830629 original size:31 final size:31
Alignment explanation
Indices: 103830605--103830677 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 31
103830595 ACACACGTAC
103830605 ATAATAAAAATA-T-ATACTAATACACAATA
1 ATAATAAAAATAGTAATACTAATACACAATA
* *
103830634 ATAATAATAATAGTAATACTAATAATACTAATA
1 ATAATAAAAATAGTAATACTAAT-ACAC-AATA
103830667 AT-ATAAAAATA
1 ATAATAAAAATA
103830678 ACAAGGATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 11 0.30
30 1 0.03
31 8 0.22
32 11 0.30
33 6 0.16
ACGTcount: A:0.62, C:0.07, G:0.01, T:0.30
Consensus pattern (31 bp):
ATAATAAAAATAGTAATACTAATACACAATA
Found at i:103830638 original size:3 final size:3
Alignment explanation
Indices: 103830605--103830678 Score: 60
Period size: 3 Copynumber: 24.3 Consensus size: 3
103830595 ACACACGTAC
* * * *
103830605 ATA ATA AAA ATA TATA CTA ATA CACA ATA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * *
103830652 CTA ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
103830679 CAAGGATATT
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
2 2 0.04
3 47 0.87
4 5 0.09
ACGTcount: A:0.62, C:0.07, G:0.01, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:103841536 original size:44 final size:44
Alignment explanation
Indices: 103841469--103841828 Score: 576
Period size: 44 Copynumber: 8.2 Consensus size: 44
103841459 TTGGCGAATC
*
103841469 TAGCAGATTTGGCGTCTCCGTATTGGCGGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
* * * *
103841513 TAGTAGATTTGGCTTCTTTGTATTGGCGGAGAGCAGATCGAAGG
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
*
103841557 TAGCAGATTTGGCGTCTCTGTATTAGCGGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
*
103841601 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
*
103841645 TAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
* *
103841689 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCAAATA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
* *
103841733 TAGCAGATTTGGCGTCTTTGTATTGGCGGAGAGCAGATCAAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
* * *
103841777 TAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAA
1 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
*
103841821 TAACAGAT
1 TAGCAGAT
103841829 GGGTGTTCCT
Statistics
Matches: 291, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 291 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (44 bp):
TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGA
Found at i:103844999 original size:131 final size:131
Alignment explanation
Indices: 103844759--103844999 Score: 333
Period size: 131 Copynumber: 1.8 Consensus size: 131
103844749 CGAAGCCGGA
* * *
103844759 TTCGATGTTTGGCAATTCGCGGAATCGTGCCTTAACGTGTTGGGTTGCAATTCTGCGTTTGCTCA
1 TTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTCTGCGTTTGCTCA
* * * *
103844824 AAATAATCGCATATCATTTCAAAATTTCACTCACGCCTTTTAAAATTCCTCAAAACGAAGACGAG
66 AAATAATCGCATATCACTTCAAAATTCCACTCACACCTTCTAAAATTCCTCAAAACGAAGACGAG
103844889 G
131 G
*
103844890 TTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTTGCGTTTGCTCA
1 TTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTCTGCGTTTGCTCA
* * * * *
103844955 AAATATTCGGGC-T-TCCCTTCAAAATTCCATTCATATCTTCTAAAA
66 AAATAATC--GCATATCACTTCAAAATTCCACTCACACCTTCTAAAA
103845000 ATTTTTTAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
131 92 0.97
132 1 0.01
133 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (131 bp):
TTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTCTGCGTTTGCTCA
AAATAATCGCATATCACTTCAAAATTCCACTCACACCTTCTAAAATTCCTCAAAACGAAGACGAG
G
Found at i:103845046 original size:131 final size:131
Alignment explanation
Indices: 103844757--103845094 Score: 317
Period size: 131 Copynumber: 2.6 Consensus size: 131
103844747 GTCGAAGCCG
* * * *
103844757 GATTCGATGTTTGGCAATTCGCGGAATCGTGCCTTAACGTGTTGGGTTGCAATTCTGCGTTTGCT
1 GATTCGACGTTTGACAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTTGCGTTTGCT
* * * * *
103844822 CAAAATAATCGCATATCATTTCAAAATTTCACTCACGCCTTTTAAAATTCCTCAAAACGAAGACG
66 CAAAATAATCGCATATCACTTCAAAATTCCACTCACACCTTTAAAAATTCCTCAAAACGAAGACA
103844887 A
131 A
* **
103844888 GGTTCGATATTT-AGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTTGCGTTTGC
1 GATTCGACGTTTGA-CAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTTGCGTTTGC
* * * * * ** *
103844952 TCAAAATATTCGGGC-T-TCCCTTCAAAATTCCATTCATATCTTCTAAAAATTTTTTAAAACGAA
65 TCAAAATAATC--GCATATCACTTCAAAATTCCACTCACACCTT-TAAAAATTCCTCAAAACGAA
*
103845015 GGCAA
127 GACAA
* * * * * * ***
103845020 TATTCGGCGTTTGACAATTCG-AGAATCATGCCCTATCGTGCTGGGTTGTGGTTTCTG-GTTTGC
1 GATTCGACGTTTGACAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTT-TGCGTTTGC
*
103845083 TCAAAATGATCG
65 TCAAAATAATCG
103845095 AACATTCCTT
Statistics
Matches: 168, Mismatches: 33, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
129 1 0.01
131 128 0.76
132 36 0.21
133 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (131 bp):
GATTCGACGTTTGACAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTTGCGTTTGCT
CAAAATAATCGCATATCACTTCAAAATTCCACTCACACCTTTAAAAATTCCTCAAAACGAAGACA
A
Found at i:103845370 original size:130 final size:129
Alignment explanation
Indices: 103845140--103845374 Score: 330
Period size: 130 Copynumber: 1.8 Consensus size: 129
103845130 AAAATGCTTA
* *
103845140 AAAACGAAGACGATGTTCAATGTTTGGCGATTGAGAATCGTGCCCTATTGTGCTGGGTTGCGCTT
1 AAAACGAAGACGATGTCCAATGTTTGGCGATTGAGAATCGTGCCCTATCGTGCTGGGTTGCGCTT
** * *
103845205 TTTCATTGGTTCGAAACAATTGAAGATCCCTTCGGAATTTCCCTCACATTTTCTAAAATCTTTC
66 TTTCATTGGCCCAAAACAATCGAAGATCCCTTCGGAATTTCCCTCACATTTTCTAAAATCTTTC
* *
103845269 AAAATGAAGGCGATGTCCAATGTTTGGCGATTTGAGAATCGAT-CCCTATCGTGCTGGGTTGCGC
1 AAAACGAAGACGATGTCCAATGTTTGGCGA-TTGAGAATCG-TGCCCTATCGTGCTGGGTTGCGC
* * *
103845333 TTTTTCATTTGCCCAAAATAATCGAATATCTCC-TCGGAATTT
64 TTTTTCATTGGCCCAAAACAATCGAAGATC-CCTTCGGAATTT
103845375 TCACACGTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
129 27 0.29
130 62 0.67
131 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (129 bp):
AAAACGAAGACGATGTCCAATGTTTGGCGATTGAGAATCGTGCCCTATCGTGCTGGGTTGCGCTT
TTTCATTGGCCCAAAACAATCGAAGATCCCTTCGGAATTTCCCTCACATTTTCTAAAATCTTTC
Found at i:103857209 original size:18 final size:20
Alignment explanation
Indices: 103857175--103857211 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
103857165 TTAAAATATA
103857175 AAAAATGAAAAATTATTTTT
1 AAAAATGAAAAATTATTTTT
103857195 AAAAAT-AAAAA-TATTTT
1 AAAAATGAAAAATTATTTT
103857212 CAGAAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAAATGAAAAATTATTTTT
Found at i:103857218 original size:19 final size:20
Alignment explanation
Indices: 103857175--103857218 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
103857165 TTAAAATATA
*
103857175 AAAAATGAAAAATTATTTTT
1 AAAAATGAAAAATTATTTTC
103857195 AAAAAT-AAAAA-TATTTTC
1 AAAAATGAAAAATTATTTTC
103857213 AGAAAA
1 A-AAAA
103857219 ACTTAAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 9 0.41
20 6 0.27
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (20 bp):
AAAAATGAAAAATTATTTTC
Found at i:103861380 original size:13 final size:13
Alignment explanation
Indices: 103861359--103861389 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
103861349 ATACATTCTC
*
103861359 ATTTGCAACATCA
1 ATTTTCAACATCA
103861372 ATTTTCAACATCA
1 ATTTTCAACATCA
103861385 ATTTT
1 ATTTT
103861390 ACGAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.42
Consensus pattern (13 bp):
ATTTTCAACATCA
Found at i:103863986 original size:28 final size:28
Alignment explanation
Indices: 103863927--103863986 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
103863917 ATTATCAATC
*
103863927 CCATAAGTTATAAAACTCTTCCTATACC
1 CCATAAGTTATAAAACTCTTCCTATACA
* *
103863955 CCATAAGTTATGAGACGT-TTCCTATACA
1 CCATAAGTTATAAAAC-TCTTCCTATACA
103863983 CCAT
1 CCAT
103863987 TAATATGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.32
Consensus pattern (28 bp):
CCATAAGTTATAAAACTCTTCCTATACA
Found at i:103864146 original size:14 final size:14
Alignment explanation
Indices: 103864106--103864146 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
103864096 AAAAAGAAGA
103864106 TACACTCTCTCTTC
1 TACACTCTCTCTTC
103864120 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
103864131 TACACTCTTTCTTC
1 TACACTCTCTCTTC
103864145 TA
1 TA
103864147 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:103868052 original size:28 final size:28
Alignment explanation
Indices: 103868012--103868074 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
103868002 GTCATTATCA
103868012 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
103868040 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
103868068 ACCCCAT
1 ACCCCAT
103868075 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:103868279 original size:28 final size:28
Alignment explanation
Indices: 103868239--103868301 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
103868229 GTCATTATCA
103868239 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
103868267 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
103868295 ACCCCAT
1 ACCCCAT
103868302 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:103868317 original size:227 final size:227
Alignment explanation
Indices: 103867922--103868374 Score: 906
Period size: 227 Copynumber: 2.0 Consensus size: 227
103867912 TCCTATTGGG
103867922 TTTTTCTTAATAAGGTTTTAACGAGGCATAATTAGATAATGAACATCCAAGAGGGAGTGTTATGA
1 TTTTTCTTAATAAGGTTTTAACGAGGCATAATTAGATAATGAACATCCAAGAGGGAGTGTTATGA
103867987 AATATTTATGTGGATGTCATTATCAACCCCATAAGTTATAAAACTCTTCCTATACCCCATAAGTT
66 AATATTTATGTGGATGTCATTATCAACCCCATAAGTTATAAAACTCTTCCTATACCCCATAAGTT
103868052 ATGAGACTTTTCCTATACCCCATTAATATGGGAGATAAAAGGTCATGACCCTTTACATGCCCTAT
131 ATGAGACTTTTCCTATACCCCATTAATATGGGAGATAAAAGGTCATGACCCTTTACATGCCCTAT
103868117 AATAATTAGAGAGTTACTTTTAACCCCTATAC
196 AATAATTAGAGAGTTACTTTTAACCCCTATAC
103868149 TTTTTCTTAATAAGGTTTTAACGAGGCATAATTAGATAATGAACATCCAAGAGGGAGTGTTATGA
1 TTTTTCTTAATAAGGTTTTAACGAGGCATAATTAGATAATGAACATCCAAGAGGGAGTGTTATGA
103868214 AATATTTATGTGGATGTCATTATCAACCCCATAAGTTATAAAACTCTTCCTATACCCCATAAGTT
66 AATATTTATGTGGATGTCATTATCAACCCCATAAGTTATAAAACTCTTCCTATACCCCATAAGTT
103868279 ATGAGACTTTTCCTATACCCCATTAATATGGGAGATAAAAGGTCATGACCCTTTACATGCCCTAT
131 ATGAGACTTTTCCTATACCCCATTAATATGGGAGATAAAAGGTCATGACCCTTTACATGCCCTAT
103868344 AATAATTAGAGAGTTACTTTTAACCCCTATA
196 AATAATTAGAGAGTTACTTTTAACCCCTATA
103868375 TATATGGGGC
Statistics
Matches: 226, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 226 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (227 bp):
TTTTTCTTAATAAGGTTTTAACGAGGCATAATTAGATAATGAACATCCAAGAGGGAGTGTTATGA
AATATTTATGTGGATGTCATTATCAACCCCATAAGTTATAAAACTCTTCCTATACCCCATAAGTT
ATGAGACTTTTCCTATACCCCATTAATATGGGAGATAAAAGGTCATGACCCTTTACATGCCCTAT
AATAATTAGAGAGTTACTTTTAACCCCTATAC
Found at i:103868461 original size:14 final size:14
Alignment explanation
Indices: 103868421--103868461 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
103868411 AAAAAGAAGA
103868421 TACACTCTCTCTTC
1 TACACTCTCTCTTC
103868435 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
103868446 TACACTCTTTCTTC
1 TACACTCTCTCTTC
103868460 TA
1 TA
103868462 TCATATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:103872417 original size:13 final size:11
Alignment explanation
Indices: 103872385--103872409 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
103872375 TAAAAATAAG
103872385 AAAAGGGAAGA
1 AAAAGGGAAGA
103872396 AAAAGGGAAGA
1 AAAAGGGAAGA
103872407 AAA
1 AAA
103872410 TGAGGGAAAA
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (11 bp):
AAAAGGGAAGA
Found at i:103876471 original size:15 final size:16
Alignment explanation
Indices: 103876444--103876473 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
103876434 TTTTCCACCG
103876444 CATTTGTTTTTAATTT
1 CATTTGTTTTTAATTT
103876460 CATTTG-TTTTAATT
1 CATTTGTTTTTAATT
103876474 ATTTGTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (16 bp):
CATTTGTTTTTAATTT
Found at i:103879010 original size:111 final size:111
Alignment explanation
Indices: 103878816--103879031 Score: 324
Period size: 111 Copynumber: 1.9 Consensus size: 111
103878806 GAGCTAGAGC
* * **
103878816 CTTTGTTCCACCCACCAGACTGGCTCCAACTAGAGGATTGGCCTCCTTGATCAGCACTGGATTGA
1 CTTTGCTCCACCCACCAGACTGACTCCAACTAGAGGATTGGCCTCCTTGATCAGCACCAGATTGA
* * ** *
103878881 ATCCAAGTCTTGGCTCCACCTCCACTTGTTCCACCATTCCCCCCCT
66 ATCCAACTCCTACCTCCACCTCCACTTGCTCCACCATTCCCCCCCT
* *
103878927 CTTTGCTCCAGCCACCAGCCTGACTCCAACTAGAGGATTGGCCTCCTTGATCAGCACCAGATTGA
1 CTTTGCTCCACCCACCAGACTGACTCCAACTAGAGGATTGGCCTCCTTGATCAGCACCAGATTGA
*
103878992 TTCCAACTCCTACCTCCACCTCCACTTGCTCCACCATTCC
66 ATCCAACTCCTACCTCCACCTCCACTTGCTCCACCATTCC
103879032 AGCCCTGGTT
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
111 93 1.00
ACGTcount: A:0.20, C:0.39, G:0.15, T:0.26
Consensus pattern (111 bp):
CTTTGCTCCACCCACCAGACTGACTCCAACTAGAGGATTGGCCTCCTTGATCAGCACCAGATTGA
ATCCAACTCCTACCTCCACCTCCACTTGCTCCACCATTCCCCCCCT
Found at i:103879215 original size:30 final size:30
Alignment explanation
Indices: 103879166--103879320 Score: 190
Period size: 30 Copynumber: 5.3 Consensus size: 30
103879156 ACCCCCTCTT
** * * **
103879166 CCACCTCTACCTCTATAGCCACCTCTGTCA
1 CCACCTCTACCTCCGTAGCCTCCACCATCA
103879196 CCACCTCTACCTCCGTAGCCTCCACCATCA
1 CCACCTCTACCTCCGTAGCCTCCACCATCA
*
103879226 CCGCCTCTACCTCCGTAGCCTCCACCATCA
1 CCACCTCTACCTCCGTAGCCTCCACCATCA
*
103879256 CCGCCTCTACCTCCGTAGCCTCCACCATCA
1 CCACCTCTACCTCCGTAGCCTCCACCATCA
** *
103879286 CTGCCTCTGCCTCCGTAGCCT---CCATCA
1 CCACCTCTACCTCCGTAGCCTCCACCATCA
103879313 CCACCTCT
1 CCACCTCT
103879321 GCCACCAAAA
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
27 12 0.11
30 102 0.89
ACGTcount: A:0.17, C:0.52, G:0.09, T:0.23
Consensus pattern (30 bp):
CCACCTCTACCTCCGTAGCCTCCACCATCA
Found at i:103879306 original size:15 final size:15
Alignment explanation
Indices: 103879199--103879307 Score: 68
Period size: 15 Copynumber: 7.3 Consensus size: 15
103879189 TCTGTCACCA
103879199 CCTCTACCTCCGTAG
1 CCTCTACCTCCGTAG
* *
103879214 CCTCCACCATCAC--CG
1 CCTCTACC-TC-CGTAG
103879229 CCTCTACCTCCGTAG
1 CCTCTACCTCCGTAG
* *
103879244 CCTCCACCATCAC--CG
1 CCTCTACC-TC-CGTAG
103879259 CCTCTACCTCCGTAG
1 CCTCTACCTCCGTAG
*
103879274 CCTCCACCATCAC-T-G
1 CCTCTACC-TC-CGTAG
*
103879289 CCTCTGCCTCCGTAG
1 CCTCTACCTCCGTAG
103879304 CCTC
1 CCTC
103879308 CATCACCACC
Statistics
Matches: 71, Mismatches: 11, Indels: 24
0.67 0.10 0.23
Matches are distributed among these distances:
13 3 0.04
14 7 0.10
15 51 0.72
16 7 0.10
17 3 0.04
ACGTcount: A:0.15, C:0.52, G:0.11, T:0.22
Consensus pattern (15 bp):
CCTCTACCTCCGTAG
Found at i:103879739 original size:93 final size:93
Alignment explanation
Indices: 103879640--103879820 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
103879630 GTTCCAGCCA
103879640 CCTTTTTTGCCCCAACCAGAGTCTTGGCCAGAATCATTGCCAGTACCCCAACTCTTCTTACCCCA
1 CCTTTTTTGCCCCAACCAGAGTCTTGGCCAGAATCATTGCCAGTACCCCAACTCTTCTTACCCCA
103879705 GCTT-GAATCCTGACTTGCATCTGTCAAT
66 G-TTAGAATCCTGACTTGCATCTGTCAAT
* * * * *
103879733 CCTTTTTTGCCCCAACCAGAGTCTTGGCCAGCATCATTTCCAGTGCCCCAATTTTTCTTACCCCA
1 CCTTTTTTGCCCCAACCAGAGTCTTGGCCAGAATCATTGCCAGTACCCCAACTCTTCTTACCCCA
*
103879798 GTTAGAGTCCTGACTTGCATCTG
66 GTTAGAATCCTGACTTGCATCTG
103879821 CTGATCCCTT
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 2 0.02
93 79 0.98
ACGTcount: A:0.20, C:0.34, G:0.15, T:0.31
Consensus pattern (93 bp):
CCTTTTTTGCCCCAACCAGAGTCTTGGCCAGAATCATTGCCAGTACCCCAACTCTTCTTACCCCA
GTTAGAATCCTGACTTGCATCTGTCAAT
Found at i:103879833 original size:93 final size:93
Alignment explanation
Indices: 103879643--103879841 Score: 285
Period size: 93 Copynumber: 2.1 Consensus size: 93
103879633 CCAGCCACCT
103879643 TTTTTGCCCCAACCAGAGTCTTGGCCAGAATCATTGCCAGTACCCCAACTCTTCTTACCCCAGCT
1 TTTTTGCCCCAACCAGAGTCTTGGCCAGAATCATTGCCAGTACCCCAACTCTTCTTACCCCAGCT
*
103879708 TGAATCCTGACTTGCATCTGTCAATCCT
66 TGAATCCTGACTTGCATCTGTCAATCCC
* * * * *
103879736 TTTTTGCCCCAACCAGAGTCTTGGCCAGCATCATTTCCAGTGCCCCAATTTTTCTTACCCCAG-T
1 TTTTTGCCCCAACCAGAGTCTTGGCCAGAATCATTGCCAGTACCCCAACTCTTCTTACCCCAGCT
* *
103879800 TAGAGTCCTGACTTGCATCTG-CTGATCCC
66 T-GAATCCTGACTTGCATCTGTC-AATCCC
*
103879829 TTTTTCCCCCAAC
1 TTTTTGCCCCAAC
103879842 TAGAATCATT
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
92 3 0.03
93 92 0.97
ACGTcount: A:0.20, C:0.35, G:0.14, T:0.32
Consensus pattern (93 bp):
TTTTTGCCCCAACCAGAGTCTTGGCCAGAATCATTGCCAGTACCCCAACTCTTCTTACCCCAGCT
TGAATCCTGACTTGCATCTGTCAATCCC
Found at i:103889850 original size:24 final size:23
Alignment explanation
Indices: 103889818--103889895 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
103889808 CCGAATTATA
*
103889818 TAATATATATATATATTTTTATTTT
1 TAAT-TATATATATA-TTTTAATTT
*
103889843 TAATTATATTTATATTTTAATTT
1 TAATTATATATATATTTTAATTT
* * *
103889866 TAATTTTA-ATATA-ATCAATTT
1 TAATTATATATATATTTTAATTT
*
103889887 TTATTATAT
1 TAATTATAT
103889896 TTTTCAAATT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
21 12 0.27
22 4 0.09
23 15 0.34
24 9 0.20
25 4 0.09
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (23 bp):
TAATTATATATATATTTTAATTT
Found at i:103889852 original size:18 final size:17
Alignment explanation
Indices: 103889829--103889864 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
103889819 AATATATATA
*
103889829 TATATTTTTATTTTTAAT
1 TATATTTATA-TTTTAAT
103889847 TATATTTATATTTTAAT
1 TATATTTATATTTTAAT
103889864 T
1 T
103889865 TTAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATATTTATATTTTAAT
Found at i:103899789 original size:39 final size:39
Alignment explanation
Indices: 103899726--103899853 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
103899716 GGTCTTTAAC
** * *
103899726 CCGGATATTTTTCCAGCACGTAGCCCGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * * * *
103899765 CCGGATATATTTCTAGCATATAGCCTGTGTATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
103899804 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
103899843 CCGGATATTTT
1 CCGGATATTTT
103899854 CAATCTCATA
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:103904598 original size:32 final size:32
Alignment explanation
Indices: 103904557--103904623 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
103904547 CCATGGCTTT
103904557 CTTGTCTTTCATATTCGGCTGAAAGAGATGAA
1 CTTGTCTTTCATATTCGGCTGAAAGAGATGAA
103904589 CTTGTCTTTCATATTCGGCTGAAAGAGATGAA
1 CTTGTCTTTCATATTCGGCTGAAAGAGATGAA
103904621 CTT
1 CTT
103904624 TTCATGCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (32 bp):
CTTGTCTTTCATATTCGGCTGAAAGAGATGAA
Found at i:103905499 original size:47 final size:47
Alignment explanation
Indices: 103905384--103905563 Score: 256
Period size: 46 Copynumber: 3.9 Consensus size: 47
103905374 TTTTGAAATG
* **
103905384 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGTG-
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGA
* * *
103905430 AAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACGTGACATGA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGA
103905477 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGA
* * * *
103905523 AAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
103905564 TCGAAGATAA
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
46 81 0.66
47 41 0.34
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (47 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGA
Found at i:103905544 original size:93 final size:93
Alignment explanation
Indices: 103905384--103905558 Score: 262
Period size: 93 Copynumber: 1.9 Consensus size: 93
103905374 TTTTGAAATG
* * * * *
103905384 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGTGAAATGTGTAAAACCATGGT
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAAGTAAAATGAGTAAAACCATAGT
*
103905449 TGAAAGATACCATGGCAACGTGACATGA
66 TGAAAGACACCATGGCAACGTGACATGA
*
103905477 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAG-AAAATGAGTAAGACCATAG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-AGTAAAATGAGTAAAACCATAG
*
103905541 TTGAAAGACACTATGGCA
65 TTGAAAGACACCATGGCA
103905559 TCATGTCGAA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (93 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAAGTAAAATGAGTAAAACCATAGT
TGAAAGACACCATGGCAACGTGACATGA
Found at i:103905667 original size:13 final size:13
Alignment explanation
Indices: 103905647--103905689 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
103905637 CCAGATGATG
103905647 AATGGTTATATGA
1 AATGGTTATATGA
* **
103905660 ATTGGTTATACAA
1 AATGGTTATATGA
*
103905673 AATGGTTATGTGA
1 AATGGTTATATGA
103905686 AATG
1 AATG
103905690 TTTACAAGAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.37
Consensus pattern (13 bp):
AATGGTTATATGA
Found at i:103905704 original size:26 final size:26
Alignment explanation
Indices: 103905647--103905715 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 26
103905637 CCAGATGATG
*
103905647 AATGGTTATATGAATTGGTTATACAA
1 AATGGTTATATGAAATGGTTATACAA
*
103905673 AATGGTTATGTGAAAT-GTT-TACAA
1 AATGGTTATATGAAATGGTTATACAA
*
103905697 GAATTGGTCATATGGAAAT
1 -AA-TGGTTATAT-GAAAT
103905716 ATATATATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 5 0.14
25 5 0.14
26 21 0.58
27 5 0.14
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.36
Consensus pattern (26 bp):
AATGGTTATATGAAATGGTTATACAA
Found at i:103908650 original size:31 final size:31
Alignment explanation
Indices: 103908597--103908659 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
103908587 AACCCGGTGG
**
103908597 CTTAAATAAAAACTTTTGAATAGTTTAGTGA
1 CTTAAATAAAAACTTTCAAATAGTTTAGTGA
103908628 CTTAAATGAAAAA-TTTCAAATAGTTTAGTGA
1 CTTAAAT-AAAAACTTTCAAATAGTTTAGTGA
103908659 C
1 C
103908660 CAAAATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 24 0.83
32 5 0.17
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.37
Consensus pattern (31 bp):
CTTAAATAAAAACTTTCAAATAGTTTAGTGA
Found at i:103913553 original size:34 final size:35
Alignment explanation
Indices: 103913515--103913581 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
103913505 GTATCAGTCT
103913515 GGCCTTAGCCCAACTCAGTAACAG-TAAGCAGTGG
1 GGCCTTAGCCCAACTCAGTAACAGATAAGCAGTGG
* * *
103913549 GGCCTTGGCCCATCTCAGTAACAGATATGCAGT
1 GGCCTTAGCCCAACTCAGTAACAGATAAGCAGT
103913582 CACACAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 22 0.76
35 7 0.24
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (35 bp):
GGCCTTAGCCCAACTCAGTAACAGATAAGCAGTGG
Found at i:103919892 original size:34 final size:35
Alignment explanation
Indices: 103919853--103919919 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 35
103919843 GTAACTGTCT
* *
103919853 GGCCTTAGCCTAACTCAGTAACAG-TAAGCAGTGG
1 GGCCTTAGCCCAACTAAGTAACAGATAAGCAGTGG
* * *
103919887 GGCCTTGGCCCATCTAAGTAACAGATATGCAGT
1 GGCCTTAGCCCAACTAAGTAACAGATAAGCAGT
103919920 CACACAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 20 0.74
35 7 0.26
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.22
Consensus pattern (35 bp):
GGCCTTAGCCCAACTAAGTAACAGATAAGCAGTGG
Found at i:103920813 original size:18 final size:18
Alignment explanation
Indices: 103920739--103920805 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 18
103920729 ATAAAAATAT
*
103920739 TTTAAAAAAG-AATAAAAA
1 TTTAAAAATGTAA-AAAAA
103920757 TTTATAAAAATAGTAAATAAAA
1 -TT-TAAAAAT-GTAAA-AAAA
* *
103920779 TTTAAAACTGTCAAAAAA
1 TTTAAAAATGTAAAAAAA
103920797 TTTAAAAAT
1 TTTAAAAAT
103920806 TAATAAAAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
18 12 0.30
19 6 0.15
20 12 0.30
21 4 0.10
22 6 0.15
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (18 bp):
TTTAAAAATGTAAAAAAA
Found at i:103921070 original size:12 final size:13
Alignment explanation
Indices: 103921045--103921069 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103921035 CAAAAATTCA
103921045 AAAAATTATTTTT
1 AAAAATTATTTTT
103921058 AAAAATTATTTT
1 AAAAATTATTTT
103921070 ATTTTATTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAAAATTATTTTT
Found at i:103925333 original size:64 final size:65
Alignment explanation
Indices: 103925232--103925466 Score: 366
Period size: 66 Copynumber: 3.6 Consensus size: 65
103925222 TTGATTTATG
* * *
103925232 TATTGAATTTTCATTTTTGTATGAACTTCAATTATTTACATATATTTTCATTATG-TTCTTTTTC
1 TATTGAATTTTCATTCTTGTATGAATTTCAATTATTTACATATATTTGCATTATGTTTCTTTTTC
103925296 TATTGAATTTTCATTCTTGTATGAATTTCAATTATTTACATATATTTGCATTATGTTTCTATTTT
1 TATTGAATTTTCATTCTTGTATGAATTTCAATTATTTACATATATTTGCATTATGTTTCT-TTTT
103925361 C
65 C
**
103925362 TATTGAATTTTCATTCTTGTAACAATTTCAATTATTTACATATATTTGCATTATGTTTCTATTTT
1 TATTGAATTTTCATTCTTGTATGAATTTCAATTATTTACATATATTTGCATTATGTTTC--TTTT
103925427 TC
64 TC
*
103925429 TATTGAATTTTCATTCTTGTATAAACTTT-AATTATTTA
1 TATTGAATTTTCATTCTTGTATGAA-TTTCAATTATTTA
103925467 GATAAACTTG
Statistics
Matches: 159, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
64 52 0.33
65 4 0.03
66 62 0.39
67 37 0.23
68 4 0.03
ACGTcount: A:0.27, C:0.11, G:0.06, T:0.56
Consensus pattern (65 bp):
TATTGAATTTTCATTCTTGTATGAATTTCAATTATTTACATATATTTGCATTATGTTTCTTTTTC
Found at i:103929052 original size:56 final size:56
Alignment explanation
Indices: 103928764--103929033 Score: 396
Period size: 56 Copynumber: 4.8 Consensus size: 56
103928754 TATCCCAGAA
** * * *
103928764 TGGTCTTACTCATAAACACATATCGAAATCACCTATCGATGCCAACGTATTAAACG
1 TGGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACG
* *
103928820 TGGTCTTACTCGCACACACATATTGGAATAACATATCGATGCCAACGTATTAAACG
1 TGGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACG
* * * *
103928876 TGGTCTTACTCGCACACACATATCGGAGTCATATATTGATGCCAATGTATTAAACG
1 TGGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACG
* *
103928932 TGGTCTTACTCGCACACACATATTGGAATCACATATCGATGCCAACGTATTAAACT
1 TGGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACG
* * *
103928988 TGGTCTTACTCACACACACATATCAGAATCACATATTGATGCCAAC
1 TGGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAAC
103929034 ATCCCAGACG
Statistics
Matches: 191, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 191 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.28
Consensus pattern (56 bp):
TGGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACG
Found at i:103929066 original size:168 final size:168
Alignment explanation
Indices: 103928764--103929068 Score: 423
Period size: 168 Copynumber: 1.8 Consensus size: 168
103928754 TATCCCAGAA
* *
103928764 TGGTCTTACTCATAAACACATATCGAAATCACCTATCGATGCCAACGTATTAAACGTGGTCTTAC
1 TGGTCTTACTCACAAACACATATCGAAATCACATATCGATGCCAACGTATTAAACGTGGTCTTAC
* ** * ** *
103928829 TCGCACACACATATTGGAATAACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACA
66 TCACACACACATATCAGAATAACATATCGATGCCAACATACCAAACGTGGTCTTACACGCACACA
103928894 CATATCGGAGTCATATATTGATGCCAATGTATTAAACG
131 CATATCGGAGTCATATATTGATGCCAATGTATTAAACG
* * * * *
103928932 TGGTCTTACTCGCACACACATATTGGAATCACATATCGATGCCAACGTATTAAACTTGGTCTTAC
1 TGGTCTTACTCACAAACACATATCGAAATCACATATCGATGCCAACGTATTAAACGTGGTCTTAC
* * * * *
103928997 TCACACACACATATCAGAATCACATATTGATGCCAACATCCCAGACGTGGTCTTACACGTA-ATC
66 TCACACACACATATCAGAATAACATATCGATGCCAACATACCAAACGTGGTCTTACACGCACA-C
103929061 ACATATCG
130 ACATATCG
103929069 ATGCCAACGT
Statistics
Matches: 117, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
167 1 0.01
168 116 0.99
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (168 bp):
TGGTCTTACTCACAAACACATATCGAAATCACATATCGATGCCAACGTATTAAACGTGGTCTTAC
TCACACACACATATCAGAATAACATATCGATGCCAACATACCAAACGTGGTCTTACACGCACACA
CATATCGGAGTCATATATTGATGCCAATGTATTAAACG
Found at i:103929075 original size:43 final size:43
Alignment explanation
Indices: 103929014--103929155 Score: 223
Period size: 43 Copynumber: 3.3 Consensus size: 43
103929004 CACATATCAG
* *
103929014 AATCACATATTGATGCCAACATCCCAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
* *
103929057 AATCACATATCGATGCCAACGTCCCAGACGTAGTCTTACATGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
*
103929100 AATCACATATCGATGCCAACGTCCTAGATC-TGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAGA-CGTGGTCTTACACGT
103929143 AATCACATATCGA
1 AATCACATATCGA
103929156 AAATCCTATG
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 90 0.99
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
Found at i:103936062 original size:22 final size:22
Alignment explanation
Indices: 103936037--103936081 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
103936027 TTAAGTTACA
* * *
103936037 TAGCGGTAAAACCTTAAACTTG
1 TAGCAGTAAAACATCAAACTTG
103936059 TAGCAGTAAAACATCAAACTTG
1 TAGCAGTAAAACATCAAACTTG
103936081 T
1 T
103936082 GCGAGAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (22 bp):
TAGCAGTAAAACATCAAACTTG
Found at i:103944083 original size:20 final size:21
Alignment explanation
Indices: 103944044--103944095 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
103944034 CTTTCTCTTC
103944044 TCCTCTTTTCTAATTTTTTTT
1 TCCTCTTTTCTAATTTTTTTT
103944065 TCCTCTTTTCTAATTTTTTTT
1 TCCTCTTTTCTAATTTTTTTT
103944086 T-CTCTTTTCT
1 TCCTCTTTTCT
103944096 CTTTGAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 9 0.29
21 22 0.71
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (21 bp):
TCCTCTTTTCTAATTTTTTTT
Found at i:103946728 original size:17 final size:17
Alignment explanation
Indices: 103946706--103946739 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
103946696 TTGTGAAAGA
103946706 CATCATAAGTTAATTAC
1 CATCATAAGTTAATTAC
103946723 CATCATAAGTTAATTAC
1 CATCATAAGTTAATTAC
103946740 TTTGCTCACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (17 bp):
CATCATAAGTTAATTAC
Found at i:103950895 original size:21 final size:23
Alignment explanation
Indices: 103950862--103950908 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
103950852 AAGAAAGGAA
103950862 AAATTGTAAAGAGAAATAGAG-G
1 AAATTGTAAAGAGAAATAGAGAG
*
103950884 AAATTG-AAAGAGAGATAGAGAG
1 AAATTGTAAAGAGAAATAGAGAG
103950906 AAA
1 AAA
103950909 ATAGAGAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.57, C:0.00, G:0.28, T:0.15
Consensus pattern (23 bp):
AAATTGTAAAGAGAAATAGAGAG
Found at i:103950905 original size:23 final size:22
Alignment explanation
Indices: 103950853--103950910 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
103950843 TAAAGCAAAA
103950853 AGAAAG-GA-AAAATTGTAAAG
1 AGAAAGAGAGAAAATTGTAAAG
* *
103950873 AGAAATAGAGGAAATTG-AAAG
1 AGAAAGAGAGAAAATTGTAAAG
103950894 AGAGATAGAGAGAAAAT
1 AGA-A-AGAGAGAAAAT
103950911 AGAGAGAGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 5 0.17
21 9 0.30
22 7 0.23
23 9 0.30
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.14
Consensus pattern (22 bp):
AGAAAGAGAGAAAATTGTAAAG
Found at i:103950918 original size:23 final size:21
Alignment explanation
Indices: 103950869--103950918 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
103950859 GAAAAATTGT
*
103950869 AAAGAGAAATAGAGGAAATTG
1 AAAGAGAAATAGAGGAAATAG
*
103950890 AAAGAGAGATAGAGAGAAAATAG
1 AAAGAGAAATAGAG-G-AAATAG
*
103950913 AGAGAG
1 AAAGAG
103950919 TGAGAGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 13 0.54
22 1 0.04
23 10 0.42
ACGTcount: A:0.58, C:0.00, G:0.32, T:0.10
Consensus pattern (21 bp):
AAAGAGAAATAGAGGAAATAG
Found at i:103963228 original size:18 final size:18
Alignment explanation
Indices: 103963207--103963250 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
103963197 ACGTAATTTT
*
103963207 AAAATATAAATAAAGA-TA
1 AAAATA-AAATAAAAAGTA
103963225 AAAATAAAATAAAAAGTA
1 AAAATAAAATAAAAAGTA
103963243 AAAATAAA
1 AAAATAAA
103963251 TAATAGGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
AAAATAAAATAAAAAGTA
Found at i:103963251 original size:17 final size:16
Alignment explanation
Indices: 103963206--103963253 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 16
103963196 AACGTAATTT
*
103963206 TAAAATATAAATAAAGA
1 TAAAA-ATAAATAAAAA
103963223 TAAAAATAAAATAAAAA
1 TAAAAAT-AAATAAAAA
103963240 GTAAAAATAAATAA
1 -TAAAAATAAATAA
103963254 TAGGTGTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 2 0.07
17 19 0.68
18 7 0.25
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (16 bp):
TAAAAATAAATAAAAA
Found at i:103963255 original size:7 final size:6
Alignment explanation
Indices: 103963207--103963255 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
103963197 ACGTAATTTT
* *
103963207 AAAATA TAAATA AAGATA AAAAT- AAAATA AAAAGTA AAAATA AATAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAATA AA-AATA
103963256 GGTGTTTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
5 5 0.14
6 21 0.58
7 10 0.28
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:103970746 original size:17 final size:17
Alignment explanation
Indices: 103970711--103970746 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
103970701 AAAAGTGTAG
*
103970711 AAACCTAAAAGAAAACT
1 AAACCTAAAACAAAACT
*
103970728 AAACCTAAAACAAAGCT
1 AAACCTAAAACAAAACT
103970745 AA
1 AA
103970747 TGTCTGTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.19, G:0.06, T:0.11
Consensus pattern (17 bp):
AAACCTAAAACAAAACT
Found at i:103972976 original size:29 final size:28
Alignment explanation
Indices: 103972922--103972981 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
103972912 ATCCAAAACC
**
103972922 TAAAATCTAAAATAAAAAACTCATAACT
1 TAAAATCTAAAATAAAAAACAAATAACT
*
103972950 TAAAATCTGAAAATAAAAATA-AAATAATT
1 TAAAATCT-AAAATAAAAA-ACAAATAACT
103972979 TAA
1 TAA
103972982 TATTTATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.30
29 18 0.67
30 1 0.04
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (28 bp):
TAAAATCTAAAATAAAAAACAAATAACT
Found at i:103974484 original size:90 final size:90
Alignment explanation
Indices: 103974354--103974581 Score: 404
Period size: 90 Copynumber: 2.5 Consensus size: 90
103974344 ACGTTGTTAG
* * *
103974354 ATGGTTGTGAATACACAACATAATTGCAGATTAAAGCTGCAAGATAATGGATGGGCAAACCACCA
1 ATGGTTTTGAATACACAACAAAATTGTAGATTAAAGCTGCAAGATAATGGATGGGCAAACCACCA
103974419 GTGTTGCAGGTTAATAAGCTACCAA
66 GTGTTGCAGGTTAATAAGCTACCAA
103974444 ATGGTTTTGAATACACAACAAAATTGTAGATTAAAGCTGCAAGATAATGGATGGGCAAACCACCA
1 ATGGTTTTGAATACACAACAAAATTGTAGATTAAAGCTGCAAGATAATGGATGGGCAAACCACCA
103974509 GTGTTGCAGGTTAATAAGCTACCAA
66 GTGTTGCAGGTTAATAAGCTACCAA
*
103974534 ATGGTTTTGAATACACAACAAAATTGTAGA-TAATAGCTGCTAGATAAT
1 ATGGTTTTGAATACACAACAAAATTGTAGATTAA-AGCTGCAAGATAAT
103974582 ATGTGGATGA
Statistics
Matches: 133, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
89 3 0.02
90 130 0.98
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (90 bp):
ATGGTTTTGAATACACAACAAAATTGTAGATTAAAGCTGCAAGATAATGGATGGGCAAACCACCA
GTGTTGCAGGTTAATAAGCTACCAA
Found at i:103977028 original size:33 final size:33
Alignment explanation
Indices: 103976986--103977050 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
103976976 TTGGGTTAGG
* *
103976986 CCGTGTGATCCATAC-AGCCAAGGCAAATTTGGA
1 CCGTGTGATCCACACGA-CCAAAGCAAATTTGGA
103977019 CCGTGTGATCCACACGACCAAAGCAAATTTGG
1 CCGTGTGATCCACACGACCAAAGCAAATTTGG
103977051 GTCGAGTGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (33 bp):
CCGTGTGATCCACACGACCAAAGCAAATTTGGA
Found at i:103983059 original size:24 final size:24
Alignment explanation
Indices: 103983027--103983077 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
103983017 TAGTACAAAG
103983027 ACAAATGTATAG-TAAATAAAATAT
1 ACAAATGTATAGATAAA-AAAATAT
* * *
103983051 ACAAGTGTATGGATAAAAATATAT
1 ACAAATGTATAGATAAAAAAATAT
103983075 ACA
1 ACA
103983078 TTTGTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (24 bp):
ACAAATGTATAGATAAAAAAATAT
Found at i:103984944 original size:59 final size:53
Alignment explanation
Indices: 103984847--103984978 Score: 122
Period size: 54 Copynumber: 2.4 Consensus size: 53
103984837 TAGGGTCTGA
* * * * *
103984847 ATTTAGCCTGGACTGGTAATTCAAATCCAAGCTCATGAGAGTAATTGTCGTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATCCAAA-CCAAACTCAT--GAGT--TTAT-ATTACAGGGG
**
103984906 ATTTAGCCTGGACTGGTAATCCCGA-CAATACTCTATGAGTTTATATTACAGGGG
1 ATTTAGCCTGGACTGGTAATCCAAACCAA-ACTC-ATGAGTTTATATTACAGGGG
103984960 ATTTAGCCTGGACTGGTAA
1 ATTTAGCCTGGACTGGTAA
103984979 CCCCACTATA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
54 27 0.42
55 3 0.05
57 7 0.11
58 3 0.05
59 24 0.38
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (53 bp):
ATTTAGCCTGGACTGGTAATCCAAACCAAACTCATGAGTTTATATTACAGGGG
Found at i:103985088 original size:46 final size:46
Alignment explanation
Indices: 103985021--103985384 Score: 394
Period size: 46 Copynumber: 8.0 Consensus size: 46
103985011 GCTTTCTGAA
* * * *
103985021 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATAAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
103985067 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATTG-T
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA-TGAC
* * *
103985113 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
103985159 ATAAAATGTGTAAGACCATGGTTGAAAG-TACTATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
103985204 ATGAAAAAAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * ** *
103985250 -GGGAATGAATAAGACCATGGTTGAAAAATACCATGGCAATGTAAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
103985295 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
103985341 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
103985385 TCAAAGATAA
Statistics
Matches: 274, Mismatches: 39, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
45 74 0.27
46 199 0.73
47 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:103985238 original size:91 final size:92
Alignment explanation
Indices: 103985021--103985379 Score: 402
Period size: 91 Copynumber: 3.9 Consensus size: 92
103985011 GCTTTCTGAA
** * * *
103985021 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATAATATG-AAATGTGTAAGACCA
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAAATGAGTAAGACCA
* *
103985085 TGGTTGAAAGACACCATGGCAACATTG-T
65 TGGTTGAAAGACACCATGGCAAC-GTGAC
** * * *
103985113 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAGTAAGACCAT
* * *
103985178 GGTTGAAAG-TACTATGGCAGCGTGAC
66 GGTTGAAAGACACCATGGCAACGTGAC
** * ** *
103985204 ATGAAAAAAATAAGACCATGGTTGAAAGATACCATGGCAACATGA-CGGGAATGAATAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAGTAAGACCAT
* * * *
103985268 GGTTGAAAAATACCATGGCAATGTAAC
66 GGTTGAAAGACACCATGGCAACGTGAC
* * *
103985295 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGAAAATGAGTAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAGTAAGACCAT
* *
103985360 AGTTGAAAGACACTATGGCA
66 GGTTGAAAGACACCATGGCA
103985380 TCATGTCAAA
Statistics
Matches: 226, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
90 23 0.10
91 103 0.46
92 100 0.44
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (92 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAGTAAGACCAT
GGTTGAAAGACACCATGGCAACGTGAC
Found at i:103985399 original size:182 final size:182
Alignment explanation
Indices: 103985031--103985402 Score: 451
Period size: 182 Copynumber: 2.0 Consensus size: 182
103985021 ATGAAATGTG
* ** *
103985031 TAAGACCATGGTTGAAAGACACCATGGCAACATAATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGACACCATGGCAACATAATAGGAAATGAATAAGACCATGGTTGAAAAA
*** *** * *
103985096 CACCATGGCAACATTGTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATAT
66 CACCATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACAGGACAG
* * * *
103985161 AAAATGTGTAAGACCATGGTTGAAAGTACTATGGCAGCGTGACATGAAAAAAA
131 AAAATGAGTAAGACCATAGTTGAAAGCACTATGGCAGCATGACA-GAAAAAAA
* * * *
103985214 TAAGACCATGGTTGAAAGATACCATGGCAACATGA-CGGGAATGAATAAGACCATGGTTGAAAAA
1 TAAGACCATGGTTGAAAGACACCATGGCAACATAATAGGAAATGAATAAGACCATGGTTGAAAAA
* ** **
103985278 TACCATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGACAG
66 CACCATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACAGGACAG
* * *
103985343 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCA-AAGATAAA
131 AAAATGAGTAAGACCATAGTTGAAAG-CACTATGGCAGCATGACAGAA-AAAAA
103985396 TAAGACC
1 TAAGACC
103985403 GTGGATGGGA
Statistics
Matches: 159, Mismatches: 28, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
181 2 0.01
182 110 0.69
183 47 0.30
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (182 bp):
TAAGACCATGGTTGAAAGACACCATGGCAACATAATAGGAAATGAATAAGACCATGGTTGAAAAA
CACCATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACAGGACAG
AAAATGAGTAAGACCATAGTTGAAAGCACTATGGCAGCATGACAGAAAAAAA
Found at i:103985686 original size:16 final size:17
Alignment explanation
Indices: 103985665--103985697 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
103985655 ATGATGGAGC
103985665 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
103985681 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
103985698 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:104000646 original size:17 final size:18
Alignment explanation
Indices: 104000624--104000665 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
104000614 AATCGCAATC
104000624 TCACTA-CATTTTCAGTT
1 TCACTACCATTTTCAGTT
104000641 TCACTACCATTTTCAGTT
1 TCACTACCATTTTCAGTT
104000659 TACACTA
1 T-CACTA
104000666 ACTAAAGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.26
18 12 0.52
19 5 0.22
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.43
Consensus pattern (18 bp):
TCACTACCATTTTCAGTT
Found at i:104008848 original size:26 final size:26
Alignment explanation
Indices: 104008819--104008926 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
104008809 TGATACAAAT
*
104008819 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
104008845 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
104008871 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104008897 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104008923 TGAT
1 TGAT
104008927 GGAAATTTTA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:104013555 original size:9 final size:9
Alignment explanation
Indices: 104013533--104013581 Score: 82
Period size: 9 Copynumber: 5.6 Consensus size: 9
104013523 TATTTATTTC
104013533 ATAAT-ATA
1 ATAATGATA
*
104013541 AAAATGATA
1 ATAATGATA
104013550 ATAATGATA
1 ATAATGATA
104013559 ATAATGATA
1 ATAATGATA
104013568 ATAATGATA
1 ATAATGATA
104013577 ATAAT
1 ATAAT
104013582 ATTATATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
8 4 0.11
9 34 0.89
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (9 bp):
ATAATGATA
Found at i:104013592 original size:3 final size:3
Alignment explanation
Indices: 104013581--104013699 Score: 150
Period size: 3 Copynumber: 40.0 Consensus size: 3
104013571 ATGATAATAA
* * * *
104013581 TAT TA- TAT TAT TAT CAT TAT TAT CAT TAT TAT CAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
104013628 TAT CAT TTT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
104013676 TAT TAT TAT TAT TGT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
104013700 CTTTTTACTT
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
2 2 0.02
3 97 0.98
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:104013864 original size:8 final size:8
Alignment explanation
Indices: 104013851--104013886 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
104013841 TTATAATTTA
104013851 AATAATAT
1 AATAATAT
104013859 AATAATAT
1 AATAATAT
104013867 AATAATAT
1 AATAATAT
104013875 AATAAT-T
1 AATAATAT
104013882 AATAA
1 AATAA
104013887 ATTAAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AATAATAT
Found at i:104014709 original size:18 final size:18
Alignment explanation
Indices: 104014676--104014710 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
104014666 TTTTTTATAT
**
104014676 TTTTATTATTTTAATTAA
1 TTTTATTATTCAAATTAA
104014694 TTTTATTATTCAAATTA
1 TTTTATTATTCAAATTA
104014711 TGCCATTTGG
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:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATTATTCAAATTAA
Found at i:104024561 original size:17 final size:17
Alignment explanation
Indices: 104024535--104024572 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
104024525 TGGGCAATAA
104024535 AAGAAGAAGAGAAAAAG
1 AAGAAGAAGAGAAAAAG
* *
104024552 AAGAATAAGAGAAGAAG
1 AAGAAGAAGAGAAAAAG
104024569 AAGA
1 AAGA
104024573 GGAGGAGGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (17 bp):
AAGAAGAAGAGAAAAAG
Found at i:104027096 original size:20 final size:21
Alignment explanation
Indices: 104027062--104027106 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
104027052 ATTTTATAAT
104027062 ACATAAATTAAATAA-AAATA
1 ACATAAATTAAATAATAAATA
** *
104027082 ACATAAATTTTATAATATATA
1 ACATAAATTAAATAATAAATA
104027103 ACAT
1 ACAT
104027107 TTATAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
ACATAAATTAAATAATAAATA
Found at i:104027886 original size:3 final size:3
Alignment explanation
Indices: 104027878--104027908 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
104027868 TCAAAACCTC
104027878 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
104027909 ATTAAGGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:104034467 original size:14 final size:14
Alignment explanation
Indices: 104034448--104034483 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
104034438 AAAGACGTAT
104034448 GAAAATTTCAATAA
1 GAAAATTTCAATAA
*
104034462 GAAAATTTCGATAA
1 GAAAATTTCAATAA
104034476 GAAAATTT
1 GAAAATTT
104034484 TACCGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.53, C:0.06, G:0.11, T:0.31
Consensus pattern (14 bp):
GAAAATTTCAATAA
Found at i:104035776 original size:25 final size:24
Alignment explanation
Indices: 104035746--104035793 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
104035736 AGCACAACTC
104035746 TTATGAGCGTCCTAATATAGGCTCT
1 TTATGAGCGTCCTAATAT-GGCTCT
* *
104035771 TTATGAGCTTCCTGATATGGCTC
1 TTATGAGCGTCCTAATATGGCTC
104035794 GCTTCAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (24 bp):
TTATGAGCGTCCTAATATGGCTCT
Found at i:104044627 original size:21 final size:24
Alignment explanation
Indices: 104044595--104044639 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
104044585 GTTGATTCTT
104044595 TTATAGAATTTA-T-ATTTTTTTA
1 TTATAGAATTTAGTGATTTTTTTA
104044617 TTATA-AATTTAGTGATTTTTTTA
1 TTATAGAATTTAGTGATTTTTTTA
104044640 AATTTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 6 0.29
23 9 0.43
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (24 bp):
TTATAGAATTTAGTGATTTTTTTA
Found at i:104044709 original size:60 final size:62
Alignment explanation
Indices: 104044651--104044770 Score: 145
Period size: 60 Copynumber: 2.0 Consensus size: 62
104044641 ATTTAATTTG
* *
104044651 ATAAAAAAATAAAAAATAGTATCTAAATATTAATTTGAT-AAAAAT-AAATTTAATAATTTCA
1 ATAAAAAAAT-AAAAATAGTATCTAAATATTAATTAGATAAAAAATAAAATTAAATAATTTCA
*** * * *
104044712 ATATTTAAGTATAAATTGTATCTAAATATTAATTAGATAAAAAATAAAATTAAATAATT
1 ATAAAAAAATAAAAATAGTATCTAAATATTAATTAGATAAAAAATAAAATTAAATAATT
104044771 ATACCTCTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
60 25 0.51
61 12 0.24
62 12 0.24
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.37
Consensus pattern (62 bp):
ATAAAAAAATAAAAATAGTATCTAAATATTAATTAGATAAAAAATAAAATTAAATAATTTCA
Found at i:104045416 original size:14 final size:14
Alignment explanation
Indices: 104045397--104045423 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
104045387 TTTCATCAAA
104045397 TTAATCTTAAAATC
1 TTAATCTTAAAATC
104045411 TTAATCTTAAAAT
1 TTAATCTTAAAAT
104045424 AACTAACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATCTTAAAATC
Found at i:104059825 original size:8 final size:8
Alignment explanation
Indices: 104059814--104059850 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
104059804 TTTGAGTTGT
104059814 AGTGGGGG
1 AGTGGGGG
104059822 AGTGGGGG
1 AGTGGGGG
104059830 AGTGGGGG
1 AGTGGGGG
*
104059838 AGTGTGGG
1 AGTGGGGG
104059846 AGTGG
1 AGTGG
104059851 ATTGAGAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.14, C:0.00, G:0.70, T:0.16
Consensus pattern (8 bp):
AGTGGGGG
Found at i:104062356 original size:15 final size:15
Alignment explanation
Indices: 104062336--104062392 Score: 82
Period size: 15 Copynumber: 3.8 Consensus size: 15
104062326 AAATAATAGT
104062336 ATAAATTAATAAAT-A
1 ATAAA-TAATAAATAA
104062351 ATAAATAA-AAATAA
1 ATAAATAATAAATAA
104062365 CATAAATAATAAATAA
1 -ATAAATAATAAATAA
104062381 ATAAATAATAAA
1 ATAAATAATAAA
104062393 ATTAACAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.10
14 4 0.10
15 25 0.64
16 6 0.15
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAAATAATAAATAA
Found at i:104062357 original size:4 final size:4
Alignment explanation
Indices: 104062336--104062392 Score: 61
Period size: 4 Copynumber: 15.2 Consensus size: 4
104062326 AAATAATAGT
*
104062336 ATAA ATTA ATAA AT-A ATAA AT-A A-AA ATAA CATAA AT-A ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA -ATAA ATAA ATAA ATAA
104062381 ATAA AT-A ATAA A
1 ATAA ATAA ATAA A
104062393 ATTAACAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
3 13 0.29
4 28 0.62
5 4 0.09
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:104062414 original size:34 final size:32
Alignment explanation
Indices: 104062342--104062429 Score: 92
Period size: 34 Copynumber: 2.7 Consensus size: 32
104062332 TAGTATAAAT
*
104062342 TAATAAAT-AATAAATAAAAATAACATAAATAA
1 TAATAAATAAAT-AATAAAATTAACATAAATAA
104062374 TAAATAAATAAATAATAAAATTAACAATACGAA-AA
1 T-AATAAATAAATAATAAAATTAAC-ATA--AATAA
104062409 TAAT-AATAAAATAATAAAATT
1 TAATAAAT-AAATAATAAAATT
104062430 CAAAGTCAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
32 1 0.02
33 21 0.43
34 22 0.45
35 3 0.06
36 2 0.04
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.26
Consensus pattern (32 bp):
TAATAAATAAATAATAAAATTAACATAAATAA
Done.