Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 25 of 427
Found at i:6645286 original size:25 final size:25
Alignment explanation
Indices: 6645238--6645286 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6645228 ACAGTTTCAC
6645238 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
6645263 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
6645287 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:6645777 original size:135 final size:135
Alignment explanation
Indices: 6645534--6645816 Score: 498
Period size: 135 Copynumber: 2.1 Consensus size: 135
6645524 GAGTAGTCTC
*
6645534 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
6645599 GTTATCTGAATAAGGGGCTAAGGCCAGTTTATTGTAATCTGAAAAGGGCTCT-GCCCAGTACCAC
66 GTTATCTGAATAAGGGGCTAAGGCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
6645663 TGTTA
131 TGTTA
6645668 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
6645733 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAAT-TGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGG-CCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
6645797 ACTGTTG
129 ACTGTTA
**
6645804 CCTGAATGGGCTT
1 CCCAAATGGGCTT
6645817 AGGCCCAATG
Statistics
Matches: 142, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
134 20 0.14
135 80 0.56
136 42 0.30
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (135 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
TGTTA
Found at i:6647086 original size:12 final size:12
Alignment explanation
Indices: 6647069--6647095 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6647059 ACTCAGGGAA
6647069 GAGGCCGTGGTC
1 GAGGCCGTGGTC
6647081 GAGGCCGTGGTC
1 GAGGCCGTGGTC
6647093 GAG
1 GAG
6647096 ACCGAGGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.11, C:0.22, G:0.52, T:0.15
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:6652002 original size:26 final size:26
Alignment explanation
Indices: 6651973--6652082 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
6651963 TGATACAAAT
6651973 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
6651999 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6652025 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
6652051 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6652077 TGATAA
1 TGATAA
6652083 GAATTTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6653565 original size:26 final size:26
Alignment explanation
Indices: 6653536--6653588 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6653526 TTTACAGTTT
6653536 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
6653562 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
6653588 T
1 T
6653589 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:6654112 original size:135 final size:135
Alignment explanation
Indices: 6653835--6654116 Score: 530
Period size: 135 Copynumber: 2.1 Consensus size: 135
6653825 GAGTAGTCTC
*
6653835 CCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
1 CCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
6653900 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
66 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
6653965 TGTTA
131 TGTTA
6653970 CCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
1 CCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
6654035 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAAT-TGAAAAGGGCTCTGGCCCAGTACCAC
66 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
6654099 TGTTA
131 TGTTA
*
6654104 CCTGAATGGGCTT
1 CC-AAATGGGCTT
6654117 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
134 33 0.23
135 111 0.77
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (135 bp):
CCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
TGTTA
Found at i:6659955 original size:52 final size:52
Alignment explanation
Indices: 6659880--6660090 Score: 151
Period size: 52 Copynumber: 3.9 Consensus size: 52
6659870 GCTGAGGTAT
**
6659880 TTTTAGTTTT--AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAA
1 TTTTAGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAA
* * * * *
6659930 TTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA
1 TTTTAGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA---A
** * *
6659994 TTTTAGTTTT--AAATTGACTCATACTGCGAGAGGTGAGTTAAGCCTTTTTA
1 TTTTAGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAA
* * * *
6660044 TTTTGGTTTTCAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCCT
1 TTTTAGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
6660091 CGGGCACGCT
Statistics
Matches: 122, Mismatches: 23, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
50 19 0.16
52 60 0.49
53 1 0.01
61 2 0.02
62 30 0.25
64 10 0.08
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (52 bp):
TTTTAGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAA
Found at i:6660043 original size:115 final size:115
Alignment explanation
Indices: 6659808--6660110 Score: 515
Period size: 114 Copynumber: 2.7 Consensus size: 115
6659798 CGTTGAGGTA
* *
6659808 TTTTTAATTGTTGTTTTCAAAATCAACTCATATTG-TGAGAAGTGAGTTGAGCCTCGGGGCACGC
1 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCT-AGAGGTGAGTTGAGCCTCGGGGCACGC
*
6659872 TGAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
65 TGAGGTA-TTTTAGTTTTAAATTGACTCATACTGCGAGAGGTGAGTTAAGCC
6659924 -TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
6659988 GAGGTATTTTAGTTTTAAATTGACTCATACTGCGAGAGGTGAGTTAAGCC
66 GAGGTATTTTAGTTTTAAATTGACTCATACTGCGAGAGGTGAGTTAAGCC
* *
6660038 TTTTT-ATTTTGGTTTTCAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCT
1 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
6660101 GAGGTATTTT
66 GAGGTATTTT
6660111 CAATTTTTGT
Statistics
Matches: 180, Mismatches: 5, Indels: 7
0.94 0.03 0.04
Matches are distributed among these distances:
113 19 0.11
114 90 0.50
115 70 0.39
116 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.38
Consensus pattern (115 bp):
TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTATTTTAGTTTTAAATTGACTCATACTGCGAGAGGTGAGTTAAGCC
Found at i:6660154 original size:185 final size:194
Alignment explanation
Indices: 6659924--6660324 Score: 466
Period size: 185 Copynumber: 2.1 Consensus size: 194
6659914 GAGTTAAGCC
* * * *
6659924 TTTT-AATTTTTGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTCAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
** *
6659988 GAGGT-A-T-TTT-AGTTT-T-A-AATTGACTCATACTGCGAGAGGTGAGTT-AAGCCTTTTTAT
66 GAGGTAATTATTTCAGTTTGTAAGAATCAACTCATACTGCGAGAGGTGAGTTGAA-CCTTTTAAT
* * * *
6660045 TT-T-GGTTTTCAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTA
130 TTCTACGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTA
* **
6660107 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
1 TTTTCAATTTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
* * *
6660172 TGAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTT
65 TGAGGTAA-TT--ATTTCAGTTTGT-AAGAATCAACTCATACTGCGAGAGGTGAGTTGAACCTTT
* * *
6660237 TAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGA
126 TAATTTCTACGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGA
6660302 GGTA
191 GGTA
* *
6660306 TTTTCAATTTCTGTCTTCA
1 TTTTCAATTTTTGTTTTCA
6660325 TTATTATGTT
Statistics
Matches: 178, Mismatches: 23, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
183 4 0.02
184 9 0.05
185 49 0.28
186 1 0.01
188 1 0.01
191 3 0.02
192 4 0.02
193 1 0.01
195 1 0.01
196 34 0.19
197 3 0.02
198 42 0.24
199 26 0.15
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (194 bp):
TTTTCAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
GAGGTAATTATTTCAGTTTGTAAGAATCAACTCATACTGCGAGAGGTGAGTTGAACCTTTTAATT
TCTACGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCCGAGGTA
Found at i:6660220 original size:73 final size:70
Alignment explanation
Indices: 6660049--6660230 Score: 238
Period size: 71 Copynumber: 2.5 Consensus size: 70
6660039 TTTTATTTTG
* * * * *
6660049 GTTTTCAAAATCAATTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAA
1 GTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGATGAGGTAATTTCAA
*
6660114 TTTTT
66 TTTCT
* **
6660119 GTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTC
1 GT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGATGAGGTAATTTC
6660184 AATTTCT
64 AATTTCT
*
6660191 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 GTTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
6660231 ACCTTTTAAT
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
70 2 0.02
71 38 0.40
72 28 0.29
73 27 0.28
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.35
Consensus pattern (70 bp):
GTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGATGAGGTAATTTCAA
TTTCT
Found at i:6660401 original size:87 final size:87
Alignment explanation
Indices: 6660247--6660582 Score: 435
Period size: 87 Copynumber: 3.8 Consensus size: 87
6660237 TAATTTCTAC
* *
6660247 TTTTTCAA-AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTC
1 TTTTTGAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTC
*
6660311 AATTTCTGTCTTCATTATTATG
66 AATTTCTGTTTTCATTATTATG
*
6660333 TTTTTGAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTC
1 TTTTTGAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTC
*
6660398 AATTTCTATTTTCATTATTATG
66 AATTTCTGTTTTCATTATTATG
** *
6660420 -TTTTGAAAGAATCAACTTGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATT
1 TTTTTG-AAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATT
* * *
6660484 TTCAATTTCCGTTTTTCAAT-TTCTG
63 TTCAATTTCTG-TTTTCATTATTATG
*** * * * *
6660509 TCTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 T-TT-TTGAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTT
6660574 TCAATTTCT
64 TCAATTTCT
6660583 TTGTCAAAAA
Statistics
Matches: 220, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
86 12 0.05
87 114 0.52
89 48 0.22
90 7 0.03
91 39 0.18
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (87 bp):
TTTTTGAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTC
AATTTCTGTTTTCATTATTATG
Found at i:6660618 original size:71 final size:73
Alignment explanation
Indices: 6660516--6660654 Score: 210
Period size: 71 Copynumber: 1.9 Consensus size: 73
6660506 CTGTCTTCAA
* *
6660516 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAATT
6660580 TCTTTGTC
66 TCTTTGTC
* * *
6660588 AAAAAA-CAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAAT
6660652 TTC
65 TTC
6660655 CGTTTTTCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
71 32 0.53
72 6 0.10
73 22 0.37
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAATT
TCTTTGTC
Found at i:6660778 original size:72 final size:75
Alignment explanation
Indices: 6660658--6660817 Score: 229
Period size: 72 Copynumber: 2.1 Consensus size: 75
6660648 CAATTTCCGT
6660658 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-AC
1 TTTTCAATTTCTG-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCAC
*
6660722 ACGCTGAGGTA
65 ACGCCGAGGTA
* * *
6660733 -TTTCAATTTCTG-TTGTC-AAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCG
1 TTTTCAATTTCTGCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CA
6660795 CACGCCGAGGTA
64 CACGCCGAGGTA
6660807 TTTTCAATTTC
1 TTTTCAATTTC
6660818 CGTTTTTCAA
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
72 42 0.55
73 2 0.03
74 23 0.30
75 10 0.13
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (75 bp):
TTTTCAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACA
CGCCGAGGTA
Found at i:6660826 original size:14 final size:14
Alignment explanation
Indices: 6660807--6660841 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6660797 CGCCGAGGTA
6660807 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
6660821 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
6660835 CTTTCAA
1 TTTTCAA
6660842 AAAAAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:6660947 original size:74 final size:77
Alignment explanation
Indices: 6660822--6661538 Score: 253
Period size: 79 Copynumber: 9.1 Consensus size: 77
6660812 AATTTCCGTT
* *
6660822 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-AC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
*
6660886 ACGCTGAGGTAA
66 ACGCCGAGGTAA
* *
6660898 TTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
*
6660961 CACGCCGAGGTAT
65 CACGCCGAGGTAA
* * * *** * *
6660974 TTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAA--AA-TCAACTCATATTGCGAGAGGTG
1 TTTCAATTTCTGTCTGTCAA------------AAAAAATCAACTC-A-T-ATTGCGAGAG--GCG
* *
6661036 AGTTGAGCCTCAGG-ACACACTGAGGTAA
49 AGTTGAGCCTCAGGCACACGCCGAGGTAA
* * * *
6661064 TTTCAATTTCTGT-TGTC--AAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCA
*
6661126 CACGCCGAGGTAT
65 CACGCCGAGGTAA
* * * * * * *
6661139 TTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAA--AAATCA-ACT-CATATTGCGAGAGG
1 TTTCAATTTCTGTCTGTCAA------------AAAAAATCAACTCATATTGC-GA--GAG-G---
* * *
6661200 TGAGTTGAGCCTC-GGGACACGCTGAGGTAA
47 CGAGTTGAGCCTCAGGCACACGCCGAGGTAA
* * *** *
6661230 TTTCAATTTCTGT-TTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-AC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
** *
6661290 ACGTTGAGGTAT
66 ACGCCGAGGTAA
* * * * * *
6661302 TTTCAATTTTTGT-TTTC--AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGGCTC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
* *
6661363 ACGCGCTGAGCTAT
66 ACGC-C-GAGGTAA
* * * * *
6661377 TTTCAATTTCTATCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCA
* * *
6661441 CACACTGAGGTATTT
65 CACGCCGAGGTA--A
* * * * * * * *
6661456 TTTCAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
* * *
6661520 CATGTCGAGGTAT
65 CACGCCGAGGTAA
6661533 TTTCAA
1 TTTCAA
6661539 AATCTGTTTT
Statistics
Matches: 492, Mismatches: 85, Indels: 127
0.70 0.12 0.18
Matches are distributed among these distances:
72 42 0.09
73 54 0.11
74 40 0.08
75 58 0.12
76 46 0.09
77 58 0.12
78 7 0.01
79 71 0.14
86 1 0.00
87 5 0.01
88 6 0.01
89 6 0.01
90 44 0.09
91 24 0.05
92 17 0.03
93 13 0.03
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (77 bp):
TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
ACGCCGAGGTAA
Found at i:6660952 original size:238 final size:227
Alignment explanation
Indices: 6660659--6661678 Score: 750
Period size: 238 Copynumber: 4.2 Consensus size: 227
6660649 AATTTCCGTT
6660659 TTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTTCTG-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
6660724 GCTGAGGTA-TTTCAATTTCTGTTGTC-AAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCC
65 GCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
6660787 TCAGGTCGCACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAAAATCAA
130 TCAGG--ACACGCCGAGGTATTTTCAA--------TTTCAATTTCTGT-TTTC--AAAAAATCAA
6660852 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
182 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
* * *
6660898 TTTCAATTTCTG-TTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCAC
1 TTTCAATTTCTGCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
* *
6660962 ACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTG
63 ACGCTGAGGTATTTTCAA--------TTTC--TGT-TG----TC-AAAAAAATCAACTCATATTG
* * *
6661027 CGAGAGGTGAGTTGAGCCTCAGGACACACTGAGG-----T-AATTTCAATTTCTGTTGTCAAAAA
112 CGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAATTTCAATTTCTGTTTTCAAAAA
* * * *
6661086 GTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAA
177 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGG-----T-AA
6661145 TTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 --------TTTCAATTTCTG-CTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * * **
6661210 CTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAAT
55 CTCAGGACACGCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGT
* ** *
6661273 GAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA--T---TTT-TGTTTTCAAAAAATCAACTT
120 GAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAATTTCAATTTCTGTTTTCAAAAAATCAACTC
* * * *
6661332 ATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTAT
185 ATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAA
* * *
6661377 TTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
1 TTTCAATTTCT-GCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GAC
* * * * * *
6661442 ACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTT
63 ACGCTGAGGTA--TTTTCAATTTCT-GTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * * *
6661507 GAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTTC-AAAAATC
125 GAGCCTCAGG--ACACGCCGAGGTATTTTC--AA------TTTCAATTTCTGTTTTCAAAAAATC
* * * * *
6661571 AACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCAGTGCTGAGCT-A
180 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACA-CGCTGAGGTAA
*
6661619 TTTCCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTT-CAATTTCTG----CTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
6661679 TTTTTAATTT
Statistics
Matches: 636, Mismatches: 64, Indels: 154
0.74 0.07 0.18
Matches are distributed among these distances:
222 40 0.06
224 28 0.04
226 10 0.02
227 5 0.01
229 35 0.06
231 16 0.03
232 1 0.00
233 3 0.00
237 3 0.00
238 137 0.22
239 54 0.08
240 12 0.02
241 22 0.03
242 19 0.03
243 17 0.03
244 42 0.07
245 8 0.01
246 14 0.02
247 32 0.05
248 4 0.01
249 4 0.01
250 2 0.00
251 3 0.00
252 2 0.00
255 12 0.02
256 30 0.05
257 2 0.00
258 79 0.12
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (227 bp):
TTTCAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAGGACACGCCGAGGTATTTTCAATTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGA
GGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
Found at i:6660971 original size:76 final size:76
Alignment explanation
Indices: 6660822--6661513 Score: 242
Period size: 75 Copynumber: 8.8 Consensus size: 76
6660812 AATTTCCGTT
* *
6660822 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACA
*
6660887 CGCTGAGGTAA
66 CGCCGAGGTAA
* *
6660898 TTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG--A
*
6660961 CACGCCGAGGTAT
64 CACGCCGAGGTAA
* * * *** * *
6660974 TTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAA--AA-TCAACTCATATTGCGAGAGGTG
1 TTTCAATTTCTGTCTGTCAA------------AAAAAATCAACTC-A-T-ATTGCGAGAG--GCG
* *
6661036 AGTTGAGCCTCAGGACACACTGAGGTAA
49 AGTTGAGCCTCAGGACACGCCGAGGTAA
* * * *
6661064 TTTCAATTTCTGT-TGTC--AAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG--GA
*
6661126 CACGCCGAGGTAT
64 CACGCCGAGGTAA
* * * * * * *
6661139 TTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAA--AAATCA-ACT-CATATTGCGAGAGG
1 TTTCAATTTCTGTCTGTCAA------------AAAAAATCAACTCATATTGC-GA--GAG-G---
* * *
6661200 TGAGTTGAGCCTCGGGACACGCTGAGGTAA
47 CGAGTTGAGCCTCAGGACACGCCGAGGTAA
* * *** *
6661230 TTTCAATTTCTGT-TTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACA
** *
6661291 CGTTGAGGTAT
66 CGCCGAGGTAA
* * * * * *
6661302 TTTCAATTTTTGT-TTTC--AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGGCTC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-AC
* *
6661363 ACGCGCTGAGCTAT
65 ACGC-C-GAGGTAA
* * * *
6661377 TTTCAATTTCTATCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA-GATC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGA-C
* *
6661440 ACACACTGAGGTATTT
65 ACGC-C-GAGGTA--A
* * * * * * *
6661456 TTTCAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTC
6661514 GGGTCACATG
Statistics
Matches: 475, Mismatches: 79, Indels: 121
0.70 0.12 0.18
Matches are distributed among these distances:
72 43 0.09
73 53 0.11
74 40 0.08
75 58 0.12
76 46 0.10
77 58 0.12
78 6 0.01
79 55 0.12
86 1 0.00
87 5 0.01
88 6 0.01
89 6 0.01
90 44 0.09
91 24 0.05
92 16 0.03
93 14 0.03
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (76 bp):
TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACA
CGCCGAGGTAA
Found at i:6660982 original size:166 final size:165
Alignment explanation
Indices: 6660429--6661456 Score: 1496
Period size: 166 Copynumber: 6.3 Consensus size: 165
6660419 GTTTTGAAAG
* *
6660429 AATCAACTTGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
*
6660494 GTTTTTCAATTTCTGTC-TTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
6660558 ACACGCTGAGGTAATTTCAATTTCT-TTGTCAAAA
131 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAA
* *
6660592 AA-CAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
6660656 GTTTTTCAATTTCTGCCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
6660720 ACACGCTGAGGT-ATTTCAATTTCTGTTGTCAAAA
131 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAA
* *
6660754 AGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCGCACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
*
6660819 GTTTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
6660884 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
131 ACACGCTGAGGTAATTTCAATTTCTGTTGTC-AAAA
* *
6660920 AATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
6660985 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
6661050 ACACACTGAGGTAATTTCAATTTCTGTTGTCAAAA
131 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAA
* *
6661085 AGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
*
6661150 GTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
66 GTTTTTCAATTTCTGCCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
6661215 GACACGCTGAGGTAATTTCAATTTCTGTTTTC-AAA
130 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAA
* * ** * **
6661250 ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTTCAA-----
1 AATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* * *
6661308 -----T---TTT-TG-TTTTC--AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGG
66 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* * * * *
6661360 CTCACGCGCTGAGCTATTTTCAATTTCTATCTTTCAAAAA
131 ---ACACGCTGAGGTAATTTCAATTTCTGT-TGTC-AAAA
* * * * *
6661400 AATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTT
1 AATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTT
6661457 TTCAATTTAT
Statistics
Matches: 806, Mismatches: 44, Indels: 41
0.90 0.05 0.05
Matches are distributed among these distances:
144 2 0.00
145 37 0.05
147 23 0.03
148 8 0.01
149 2 0.00
150 38 0.05
152 15 0.02
153 1 0.00
161 12 0.01
162 141 0.17
163 102 0.13
164 55 0.07
165 139 0.17
166 231 0.29
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (165 bp):
AATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAA
Found at i:6661073 original size:90 final size:89
Alignment explanation
Indices: 6660898--6661073 Score: 248
Period size: 92 Copynumber: 2.0 Consensus size: 89
6660888 GCTGAGGTAA
* *
6660898 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACA
* *
6660963 CGCCGAGGTATTTTCAATTTCCGTT
65 CACCGAGGTAATTTCAATTTCCGTT
*
6660988 TTTCAATTTCTGCCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTCAATTTCTG--TTGTC-AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCA
*
6661051 CACACTGAGGTAATTTCAATTTC
63 CACACCGAGGTAATTTCAATTTC
6661074 TGTTGTCAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
90 33 0.43
91 2 0.03
92 42 0.55
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (89 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACAC
ACCGAGGTAATTTCAATTTCCGTT
Found at i:6661128 original size:73 final size:74
Alignment explanation
Indices: 6661008--6661513 Score: 251
Period size: 73 Copynumber: 6.5 Consensus size: 74
6660998 TGCCTTTCAA
*
6661008 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA-CTGAGGTAATTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCCGAGGTAATTTCAATT
6661072 TCTGTTGTC
66 TCTGTTGTC
* * *
6661081 AAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCA-GATCACACGCCGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACAC-CCGAGGTAATTTCAA
* *
6661145 TTTCCGTTTTTC
64 TTTCTG-TTGTC
** * * * * * *
6661157 AATTTCTGCCTTTCAAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
1 AA------------AAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCAGGACA
* * *
6661219 C-GCTGAGGTAATTTCAATTTCTGTTTTC
46 CACCCGAGGTAATTTCAATTTCTGTTGTC
* ** * *** *
6661247 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC-GTTGAGGTATTTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCCGAGGTAATTTCAATT
* *
6661310 TTTGTTTTC
66 TCTGTTGTC
* * * * *
6661319 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGG-CTCACGCGCTGAGCTATTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACAC-C-C-GAGGTAATTTCA
* *
6661382 ATTTCTATCTTTC
63 ATTTCTGT-TGTC
* * *
6661395 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA-GATCACACACTGAGGTATTTTTT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACAC-CCGAGGTA--ATTT
* * *
6661459 CAATTTATATTTTTC
61 CAATTTCT-GTTGTC
* *
6661474 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
6661514 GGGTCACATG
Statistics
Matches: 332, Mismatches: 60, Indels: 76
0.71 0.13 0.16
Matches are distributed among these distances:
71 2 0.01
72 36 0.11
73 75 0.23
75 35 0.11
76 10 0.03
77 57 0.17
78 2 0.01
79 58 0.17
80 3 0.01
85 2 0.01
86 1 0.00
87 3 0.01
88 15 0.05
89 1 0.00
90 5 0.02
91 18 0.05
93 7 0.02
94 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (74 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCCGAGGTAATTTCAATT
TCTGTTGTC
Found at i:6661456 original size:145 final size:140
Alignment explanation
Indices: 6661174--6661515 Score: 335
Period size: 145 Copynumber: 2.3 Consensus size: 140
6661164 GCCTTTCAAA
* *
6661174 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGCTAATTTCAATTT
* * * **
6661239 CTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
66 CTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACTGAGG----T
6661304 TCAATTTTTGTTTTC
127 T-AATTTTTGTTTTC
* * * *
6661319 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACACGCTGAGCTAATTTCAAT
** *
6661384 TTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGA
64 TTCTAT-TTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-CACACACTGA
6661449 GGTATTTTTTCAATTTATAT-TTTTC
124 GG------TT-AATTT-T-TGTTTTC
* *
6661474 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGG
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
6661516 GTCACATGTC
Statistics
Matches: 166, Mismatches: 19, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
145 39 0.23
147 23 0.14
148 4 0.02
150 35 0.21
151 1 0.01
152 9 0.05
154 11 0.07
155 6 0.04
156 38 0.23
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (140 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGCTAATTTCAATTT
CTATTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACTGAGGTTAAT
TTTTGTTTTC
Found at i:6661504 original size:79 final size:76
Alignment explanation
Indices: 6661173--6661889 Score: 429
Period size: 79 Copynumber: 9.0 Consensus size: 76
6661163 TGCCTTTCAA
** *
6661173 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
6661236 TTTCTGTTTTC
66 TTTCTTTTTTC
* ** * *
6661247 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
6661308 TTT-TTGTTTTC
66 TTTCTT-TTTTC
* ** * * *
6661319 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
6661383 TTTCTATCTTTC
66 TTTCT-TTTTTC
* *
6661395 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
*
6661460 AATTTATATTTTTC
64 AATTTCT-TTTTTC
* * * * *
6661474 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
**
6661538 AAATCTGTTTTTC
65 ATTTCT-TTTTTC
* ** * **
6661551 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCA-GTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
* *
6661615 GCTATTTCCAATTTCTGTTTTTTTTC
55 GGTATTTTCAATTTC----TTTTTTC
* * * * * *
6661641 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
* *
6661705 GAGTCTTTTAATTTCTGTTTTC
58 -A-T-TTTCAATTTCTTTTTTC
* **
6661727 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
*
6661788 AAAATCTGCTTTTCAAGTTAAGTTTC
64 --AA------TTTC---TT--TTTTC
** * * *
6661814 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
6661879 TTTCTGTTTTT
66 TTTCT-TTTTT
6661890 AATGTCTGTT
Statistics
Matches: 504, Mismatches: 78, Indels: 119
0.72 0.11 0.17
Matches are distributed among these distances:
71 1 0.00
72 62 0.12
73 33 0.07
74 3 0.01
75 21 0.04
76 9 0.02
77 72 0.14
78 5 0.01
79 73 0.14
80 31 0.06
81 5 0.01
82 7 0.01
83 31 0.06
84 5 0.01
85 1 0.00
86 6 0.01
87 27 0.05
88 43 0.09
89 53 0.11
90 15 0.03
91 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTTTTTTC
Found at i:6661551 original size:14 final size:13
Alignment explanation
Indices: 6661532--6661567 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
6661522 TGTCGAGGTA
6661532 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
6661545 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
6661559 TTTTCAAAA
1 TTTTCAAAA
6661568 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:6661637 original size:88 final size:88
Alignment explanation
Indices: 6661476--6661636 Score: 218
Period size: 88 Copynumber: 1.8 Consensus size: 88
6661466 TATTTTTCAA
* * * *
6661476 AAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTCCAAAA
6661541 TCTGTTTTTCAAATTCTGTTTTC
66 TCTGTTTTTCAAATTCTGTTTTC
* * * *
6661564 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCA-GTG-CTGAGCTATTTCCAAT
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTC-GAGCTATTTCCAAA
*
6661627 TTCTGTTTTT
65 ATCTGTTTTT
6661637 TTTCAAAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 1 0.02
87 22 0.35
88 40 0.63
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (88 bp):
AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTCCAAAA
TCTGTTTTTCAAATTCTGTTTTC
Found at i:6661696 original size:30 final size:30
Alignment explanation
Indices: 6661660--6661721 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
6661650 CAACTCATAT
6661660 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
6661690 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
6661720 TG
1 TG
6661722 TTTTCAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:6661781 original size:251 final size:247
Alignment explanation
Indices: 6661301--6661889 Score: 766
Period size: 251 Copynumber: 2.4 Consensus size: 247
6661291 CGTTGAGGTA
* * *
6661301 TTTTCAATTTTTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* *
6661366 CGCTGAGCTATTTTCAATTTC---TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
66 CGCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* *
6661428 GAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATT
131 GAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATAGTTTTC-AAAAAATCAACTCACATT
* * ** * *
6661493 GCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGT
195 GCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
* *
6661546 TTTTCAAATTCTGTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCA-G
1 TTTTCAAATTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* *
6661609 TGCTGAGCTATTTCCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGT
66 CGCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGT
* * * * * *
6661674 TGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCT-GTTTTC-AAAAATCA
130 TGAGC--TTCAGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATAGTTTTCAAAAAATCA
*
6661735 ACTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
186 ACTCACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
* *
6661797 TTTTCAAGTTAAG-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC
1 TTTTCAAATTATGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC
6661861 GCGCTGAGCTATTTTCAATTTCTGTTTTT
65 GCGCTGAGCTATTTTCAATTTCTGTTTTT
6661890 AATGTCTGTT
Statistics
Matches: 299, Mismatches: 29, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
243 20 0.07
244 42 0.14
245 16 0.05
246 13 0.04
247 30 0.10
248 1 0.00
249 3 0.01
250 6 0.02
251 74 0.25
252 45 0.15
253 37 0.12
254 7 0.02
255 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (247 bp):
TTTTCAAATTATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
CGCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATAGTTTTCAAAAAATCAACTCACATTG
CGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
Found at i:6662589 original size:28 final size:31
Alignment explanation
Indices: 6662538--6662601 Score: 107
Period size: 28 Copynumber: 2.2 Consensus size: 31
6662528 AGCCCCCCAA
6662538 AAAAACCTAACCCCCAAAAAAAAAGAA-AAG
1 AAAAACCTAACCCCCAAAAAAAAAGAAGAAG
6662568 AAAAA-CTAA-CCCCAAAAAAAAAGAAGAAG
1 AAAAACCTAACCCCCAAAAAAAAAGAAGAAG
6662597 AAAAA
1 AAAAA
6662602 GAAAAACCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
28 16 0.48
29 12 0.36
30 5 0.15
ACGTcount: A:0.70, C:0.19, G:0.08, T:0.03
Consensus pattern (31 bp):
AAAAACCTAACCCCCAAAAAAAAAGAAGAAG
Found at i:6666634 original size:15 final size:15
Alignment explanation
Indices: 6666614--6666645 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6666604 GTTATTCAAA
6666614 TTCCATGTCTTCCAT
1 TTCCATGTCTTCCAT
6666629 TTCCATGTCTTCCAT
1 TTCCATGTCTTCCAT
6666644 TT
1 TT
6666646 TTCTTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.31, G:0.06, T:0.50
Consensus pattern (15 bp):
TTCCATGTCTTCCAT
Found at i:6671067 original size:21 final size:21
Alignment explanation
Indices: 6671041--6671081 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6671031 ATCTGCTCAA
* *
6671041 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
6671062 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
6671082 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:6676791 original size:18 final size:18
Alignment explanation
Indices: 6676754--6676790 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
6676744 TTGAGTTTCA
6676754 TTCTCTGTTTCTTTATTT
1 TTCTCTGTTTCTTTATTT
6676772 TTCTC-GTTTCTTTATTT
1 TTCTCTGTTTCTTTATTT
6676789 TT
1 TT
6676791 TTATCTTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.73
Consensus pattern (18 bp):
TTCTCTGTTTCTTTATTT
Found at i:6678387 original size:18 final size:18
Alignment explanation
Indices: 6678364--6678400 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6678354 TGTGTATTAT
6678364 TTATTTAAAAATGTTTTA
1 TTATTTAAAAATGTTTTA
* *
6678382 TTATTTTAAATTGTTTTA
1 TTATTTAAAAATGTTTTA
6678400 T
1 T
6678401 GTCCCTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TTATTTAAAAATGTTTTA
Found at i:6678507 original size:2 final size:2
Alignment explanation
Indices: 6678500--6678533 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6678490 TTATACATAC
6678500 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6678534 CTATGTACGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6681273 original size:23 final size:24
Alignment explanation
Indices: 6681232--6681282 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
6681222 TAACCTTTTT
* **
6681232 ATATAAATTTTTATTTTTTTA-AA
1 ATATAAATTTTGAAATTTTTATAA
6681255 ATATAAATTTTGAAATTTTTATAA
1 ATATAAATTTTGAAATTTTTATAA
6681279 ATAT
1 ATAT
6681283 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
ATATAAATTTTGAAATTTTTATAA
Found at i:6681385 original size:18 final size:18
Alignment explanation
Indices: 6681358--6681403 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
6681348 CCAAATATGT
* *
6681358 TATTCGAATTATTCGAGC
1 TATTCAAATTATTCAAGC
* *
6681376 TATTCAAATTATTTAAGT
1 TATTCAAATTATTCAAGC
6681394 TATTCAAATT
1 TATTCAAATT
6681404 GTAAAATTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.46
Consensus pattern (18 bp):
TATTCAAATTATTCAAGC
Found at i:6683943 original size:13 final size:12
Alignment explanation
Indices: 6683919--6683952 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
6683909 TGTTTTATTA
6683919 TATTAAGATAAT
1 TATTAAGATAAT
6683931 TATTAATGATAAT
1 TATTAA-GATAAT
*
6683944 TATTTAGAT
1 TATTAAGAT
6683953 TTAAATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (12 bp):
TATTAAGATAAT
Found at i:6683979 original size:10 final size:10
Alignment explanation
Indices: 6683964--6684023 Score: 84
Period size: 10 Copynumber: 6.0 Consensus size: 10
6683954 TAAATTTAGG
*
6683964 ATTTATTTTT
1 ATTTATCTTT
6683974 ATTTATCTTT
1 ATTTATCTTT
6683984 ATTTATCTTT
1 ATTTATCTTT
*
6683994 AATTATCTTT
1 ATTTATCTTT
*
6684004 ATTTATCTGT
1 ATTTATCTTT
*
6684014 GTTTATCTTT
1 ATTTATCTTT
6684024 TAGAATTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 44 1.00
ACGTcount: A:0.20, C:0.08, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:6689200 original size:18 final size:18
Alignment explanation
Indices: 6689177--6689249 Score: 101
Period size: 18 Copynumber: 4.1 Consensus size: 18
6689167 CATTTACGGC
*
6689177 ACTATTCACGTATATAGT
1 ACTATTCACGTATACAGT
* *
6689195 ACTATTCATGTATACGGT
1 ACTATTCACGTATACAGT
*
6689213 ACTATTTACGTATACAGT
1 ACTATTCACGTATACAGT
*
6689231 ACTGTTCACGTATACAGT
1 ACTATTCACGTATACAGT
6689249 A
1 A
6689250 GTTGGGATTG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (18 bp):
ACTATTCACGTATACAGT
Found at i:6692392 original size:42 final size:42
Alignment explanation
Indices: 6692334--6692418 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
6692324 TGGAAATATG
*
6692334 GAGAGATAGAGCTCATGATAGAGTTAGCTTGTCTCAGAAGCA
1 GAGAGATAGAGCTCATGACAGAGTTAGCTTGTCTCAGAAGCA
6692376 GAGAGATAGAGCTCATGACAGAGTTAGCTTGTCTCAGAAGCA
1 GAGAGATAGAGCTCATGACAGAGTTAGCTTGTCTCAGAAGCA
6692418 G
1 G
6692419 TATTTGAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.22
Consensus pattern (42 bp):
GAGAGATAGAGCTCATGACAGAGTTAGCTTGTCTCAGAAGCA
Found at i:6696085 original size:2 final size:2
Alignment explanation
Indices: 6696078--6696108 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6696068 TTTCATTCTT
6696078 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6696109 TTGAATGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6697827 original size:72 final size:72
Alignment explanation
Indices: 6697715--6697855 Score: 219
Period size: 72 Copynumber: 2.0 Consensus size: 72
6697705 TTTTGGTCCC
* * * *
6697715 ATTCCATTGTCGATAGGGGAGTTATCATCTTTGTATTTCTTTGATGTTTCAGAAAATCAATTAAG
1 ATTCCATTGTCGATAGGGGAGTTATCATCTTTGAAGTTCTTTGATGTTACAGAAAATCAATTAAA
6697780 TGGTCAA
66 TGGTCAA
* * *
6697787 ATTCCATTGTCTATAGGGGAGTTATCATCTTTGAAGTTCTTTGATGTTACAGATAATCAGTTAAA
1 ATTCCATTGTCGATAGGGGAGTTATCATCTTTGAAGTTCTTTGATGTTACAGAAAATCAATTAAA
6697852 TGGT
66 TGGT
6697856 ACTTTTCCTC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (72 bp):
ATTCCATTGTCGATAGGGGAGTTATCATCTTTGAAGTTCTTTGATGTTACAGAAAATCAATTAAA
TGGTCAA
Found at i:6705590 original size:34 final size:34
Alignment explanation
Indices: 6705549--6705617 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
6705539 ACAAAGAAAC
6705549 AAACCATGGGATGGGAGTGAGACTTACTCCATAG
1 AAACCATGGGATGGGAGTGAGACTTACTCCATAG
6705583 AAACCATGGGATGGGAGTGAGACTTACTCCATAG
1 AAACCATGGGATGGGAGTGAGACTTACTCCATAG
6705617 A
1 A
6705618 CTTCATTAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.20
Consensus pattern (34 bp):
AAACCATGGGATGGGAGTGAGACTTACTCCATAG
Found at i:6706666 original size:14 final size:15
Alignment explanation
Indices: 6706639--6706676 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
6706629 AAACTTATAT
*
6706639 TATAAAAATTAAAAAA
1 TATAAAAA-CAAAAAA
6706655 T-TAAAAACAAAAAA
1 TATAAAAACAAAAAA
6706669 TATAAAAA
1 TATAAAAA
6706677 AAGCGTACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 7 0.35
15 12 0.60
16 1 0.05
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
TATAAAAACAAAAAA
Found at i:6707533 original size:24 final size:23
Alignment explanation
Indices: 6707470--6707534 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
6707460 TTTATAACTA
*
6707470 TGTTATGTATACAATTTACATATAT
1 TGTTATGTAT--ATTTTACATATAT
6707495 TGTTATGTATATTTTA-ATATTAT
1 TGTTATGTATATTTTACATA-TAT
* *
6707518 TAGTTATTTATCTTTTA
1 T-GTTATGTATATTTTA
6707535 TACCATTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 3 0.09
23 9 0.26
24 13 0.37
25 10 0.29
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.57
Consensus pattern (23 bp):
TGTTATGTATATTTTACATATAT
Found at i:6707887 original size:23 final size:22
Alignment explanation
Indices: 6707856--6707898 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
6707846 ATATTAATAC
6707856 ATATATTTTAT-TATGAGTATAT
1 ATATATTTTATATAT-AGTATAT
6707878 ATATACTTTTATATATAGTAT
1 ATATA-TTTTATATATAGTAT
6707899 TATTTTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 11 0.58
24 3 0.16
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.53
Consensus pattern (22 bp):
ATATATTTTATATATAGTATAT
Found at i:6708037 original size:2 final size:2
Alignment explanation
Indices: 6708030--6708063 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
6708020 ATATTTATTT
*
6708030 TA TA TA TA TA TA TA TA TA TA TA T- TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6708064 TTTAACATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6708046 original size:23 final size:23
Alignment explanation
Indices: 6708020--6708063 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6708010 ACATTTTTCA
* *
6708020 ATATTTATTTTATATATATATAT
1 ATATATATATTATATATATATAT
*
6708043 ATATATATATTATGTATATAT
1 ATATATATATTATATATATAT
6708064 TTTAACATTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
ATATATATATTATATATATATAT
Found at i:6708155 original size:2 final size:2
Alignment explanation
Indices: 6708148--6708176 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6708138 TATTACTATT
6708148 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6708177 TACGTACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6721864 original size:53 final size:53
Alignment explanation
Indices: 6721752--6721872 Score: 138
Period size: 53 Copynumber: 2.3 Consensus size: 53
6721742 TACACGAAAG
* * *
6721752 CACTTATCACTT-TTCTCCAATGTCATAGCCCAGCTATGGTCTTATACGGGAAT
1 CACTTATCACTTGTTCTCCAATGCCATAGCCCAACTATGGTATTATA-GGGAAT
* * * *
6721805 CACTTATCACTTGTTTTCCGATGCCATAGCCCAATTATGGTATTAT-TGGATAT
1 CACTTATCACTTGTTCTCCAATGCCATAGCCCAACTATGGTATTATAGGGA-AT
*
6721858 CGCTTATCACTTGTT
1 CACTTATCACTTGTT
6721873 GACATGGTCC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
52 3 0.05
53 28 0.48
54 27 0.47
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (53 bp):
CACTTATCACTTGTTCTCCAATGCCATAGCCCAACTATGGTATTATAGGGAAT
Found at i:6728544 original size:2 final size:2
Alignment explanation
Indices: 6728537--6728581 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
6728527 ACAATACTTT
*
6728537 TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6728579 TA T
1 TA T
6728582 TTTAAAACCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6728552 original size:12 final size:12
Alignment explanation
Indices: 6728535--6728585 Score: 77
Period size: 12 Copynumber: 4.3 Consensus size: 12
6728525 AAACAATACT
6728535 TTTATATATATA
1 TTTATATATATA
6728547 TTTATATATATA
1 TTTATATATATA
*
6728559 TATATATATATA
1 TTTATATATATA
*
6728571 TATATATATAT-
1 TTTATATATATA
6728582 TTTA
1 TTTA
6728586 AAACCACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
11 3 0.08
12 34 0.92
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTATATATATA
Found at i:6738834 original size:20 final size:20
Alignment explanation
Indices: 6738820--6738861 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
6738810 GTGTGTCAAA
6738820 AAAAATTGTAATGTGAATAT
1 AAAAATTGTAATGTGAATAT
*
6738840 AAAAATTGTAATGTGAACAT
1 AAAAATTGTAATGTGAATAT
6738860 AA
1 AA
6738862 CTATTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.31
Consensus pattern (20 bp):
AAAAATTGTAATGTGAATAT
Found at i:6739280 original size:10 final size:10
Alignment explanation
Indices: 6739265--6739299 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
6739255 ATTTAATTCT
6739265 TAAATATATA
1 TAAATATATA
*
6739275 TAAATAAATA
1 TAAATATATA
*
6739285 TAAATATAAA
1 TAAATATATA
6739295 TAAAT
1 TAAAT
6739300 GATTTTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
TAAATATATA
Found at i:6743115 original size:14 final size:15
Alignment explanation
Indices: 6743087--6743115 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6743077 AGCAAAAAAT
6743087 GGAAGTAACAGTGAA
1 GGAAGTAACAGTGAA
6743102 GGAAGTAA-AGTGAA
1 GGAAGTAACAGTGAA
6743116 TTGGCTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.03, G:0.34, T:0.14
Consensus pattern (15 bp):
GGAAGTAACAGTGAA
Found at i:6753029 original size:54 final size:54
Alignment explanation
Indices: 6752940--6753072 Score: 196
Period size: 54 Copynumber: 2.5 Consensus size: 54
6752930 CAATCCCAAC
* * *
6752940 TACTGTATACGTGAACAGTACCGTATTCGTAAATAGTG-TCGTATACGTGAATAG
1 TACTGTATACGTGAATAGTACCGTATACGTAAATAGTGCT-GTATACGTAAATAG
* *
6752994 TGCTGTATACGTGAATAGTACCGTATACGTGAATAGTGCTGTATACGTAAATAG
1 TACTGTATACGTGAATAGTACCGTATACGTAAATAGTGCTGTATACGTAAATAG
*
6753048 TACCGTATACGTGAATAGTACCGTA
1 TACTGTATACGTGAATAGTACCGTA
6753073 AACGGTCGTA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
54 70 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.31
Consensus pattern (54 bp):
TACTGTATACGTGAATAGTACCGTATACGTAAATAGTGCTGTATACGTAAATAG
Found at i:6753067 original size:18 final size:18
Alignment explanation
Indices: 6752944--6753072 Score: 168
Period size: 18 Copynumber: 7.2 Consensus size: 18
6752934 CCCAACTACT
*
6752944 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* * **
6752962 GTATTCGTAAATAGTGTC
1 GTATACGTGAATAGTACC
* *
6752980 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
6752998 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* *
6753016 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
*
6753034 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
6753052 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
6753070 GTA
1 GTA
6753073 AACGGTCGTA
Statistics
Matches: 94, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 94 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:6760485 original size:21 final size:21
Alignment explanation
Indices: 6760459--6760499 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6760449 ATCTGCTCAA
* *
6760459 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
6760480 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
6760500 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:6772361 original size:10 final size:9
Alignment explanation
Indices: 6772351--6772400 Score: 52
Period size: 10 Copynumber: 5.7 Consensus size: 9
6772341 ATCTGAAAAT
6772351 AATAAATAA
1 AATAAATAA
*
6772360 TA-AAAT-A
1 AATAAATAA
6772367 -ATAAGATAA
1 AATAA-ATAA
6772376 AATAAATAA
1 AATAAATAA
6772385 AATAAAATAA
1 AAT-AAATAA
6772395 AATAAA
1 AATAAA
6772401 AATAAAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
6 1 0.03
7 3 0.09
8 6 0.17
9 12 0.34
10 13 0.37
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (9 bp):
AATAAATAA
Found at i:6772366 original size:15 final size:15
Alignment explanation
Indices: 6772346--6772405 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
6772336 TTAATATCTG
6772346 AAAATAATAA-ATAAT
1 AAAATAA-AAGATAAT
*
6772361 AAAATAATAAGATAAA
1 AAAATAA-AAGATAAT
* *
6772377 ATAAATAAAATAAAAT
1 A-AAATAAAAGATAAT
6772393 AAAATAAAA-ATAA
1 AAAATAAAAGATAA
6772406 AAATTGGGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
14 3 0.08
15 18 0.47
16 11 0.29
17 6 0.16
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.22
Consensus pattern (15 bp):
AAAATAAAAGATAAT
Found at i:6772375 original size:5 final size:5
Alignment explanation
Indices: 6772358--6772407 Score: 61
Period size: 5 Copynumber: 10.4 Consensus size: 5
6772348 AATAATAAAT
*
6772358 AATAA AAT-- AATAA GATAA AAT-A AATAA AATAA AATAA AATAAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA
6772406 AA
1 AA
6772408 ATTGGGTTGC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 3 0.08
4 4 0.10
5 27 0.69
6 5 0.13
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:6772379 original size:25 final size:25
Alignment explanation
Indices: 6772346--6772406 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 25
6772336 TTAATATCTG
6772346 AAAATAATAAAT-AATAAAAT--AAT
1 AAAATAA-AAATAAATAAAATAAAAT
*
6772369 AAGAT-AAAATAAATAAAATAAAAT
1 AAAATAAAAATAAATAAAATAAAAT
6772393 AAAATAAAAATAAA
1 AAAATAAAAATAAA
6772407 AATTGGGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 4 0.12
22 9 0.28
23 4 0.12
24 7 0.22
25 8 0.25
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (25 bp):
AAAATAAAAATAAATAAAATAAAAT
Found at i:6772389 original size:14 final size:14
Alignment explanation
Indices: 6772358--6772407 Score: 66
Period size: 14 Copynumber: 3.5 Consensus size: 14
6772348 AATAATAAAT
6772358 AATAAAAT-AATAA
1 AATAAAATAAATAA
*
6772371 GATAAAATAAATAA
1 AATAAAATAAATAA
6772385 AATAAAATAAAATAAA
1 AATAAAAT-AAAT-AA
6772401 AATAAAA
1 AATAAAA
6772408 ATTGGGTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
13 7 0.22
14 12 0.38
15 4 0.12
16 9 0.28
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (14 bp):
AATAAAATAAATAA
Found at i:6774531 original size:15 final size:15
Alignment explanation
Indices: 6774511--6774540 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6774501 CATTTTATTT
*
6774511 ATATTAGGATAATTA
1 ATATTAAGATAATTA
6774526 ATATTAAGATAATTA
1 ATATTAAGATAATTA
6774541 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:6775331 original size:18 final size:18
Alignment explanation
Indices: 6775308--6775349 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
6775298 TCTCCATCTC
*
6775308 AATTTCTGTCATTT-ATTT
1 AATTTC-GTAATTTAATTT
6775326 AATTTCGTAATTTCAATTT
1 AATTTCGTAATTT-AATTT
6775345 AATTT
1 AATTT
6775350 AAATACTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 6 0.29
19 9 0.43
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.57
Consensus pattern (18 bp):
AATTTCGTAATTTAATTT
Found at i:6776701 original size:17 final size:18
Alignment explanation
Indices: 6776681--6776714 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6776671 AAGTGAATTG
6776681 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
6776698 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
6776715 ATGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:6788870 original size:15 final size:15
Alignment explanation
Indices: 6788837--6788869 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
6788827 AACCATTTTC
6788837 TTTTCTTTCTTTCTT
1 TTTTCTTTCTTTCTT
*
6788852 TTTTCTTT-TTTATT
1 TTTTCTTTCTTTCTT
6788866 TTTT
1 TTTT
6788870 TATATCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTCTTTCTTTCTT
Found at i:6795682 original size:21 final size:21
Alignment explanation
Indices: 6795657--6795705 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6795647 TCATCTAGCA
** *
6795657 CTGCTGAAGTGAGAGTTAAGG
1 CTGCTGAAGACAGAGTCAAGG
*
6795678 CTGCTGAGGACAGAGTCAAGG
1 CTGCTGAAGACAGAGTCAAGG
6795699 CTGCTGA
1 CTGCTGA
6795706 GTGGAAGCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.37, T:0.20
Consensus pattern (21 bp):
CTGCTGAAGACAGAGTCAAGG
Found at i:6796061 original size:23 final size:23
Alignment explanation
Indices: 6796029--6796072 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6796019 TATACTTCCT
* *
6796029 TTTGATTTAGCACCTTTAATGCC
1 TTTGAATTAGCACCATTAATGCC
*
6796052 TTTGAATTAGCTCCATTAATG
1 TTTGAATTAGCACCATTAATG
6796073 TAGCTACCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (23 bp):
TTTGAATTAGCACCATTAATGCC
Found at i:6801297 original size:13 final size:13
Alignment explanation
Indices: 6801279--6801303 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6801269 TTCAATTAAA
6801279 TAAATTAATAATG
1 TAAATTAATAATG
6801292 TAAATTAATAAT
1 TAAATTAATAAT
6801304 CACATAAATA
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:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
TAAATTAATAATG
Found at i:6805761 original size:21 final size:21
Alignment explanation
Indices: 6805735--6805775 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6805725 AGACGAGCGA
* *
6805735 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6805756 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6805776 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:6808697 original size:22 final size:21
Alignment explanation
Indices: 6808672--6808714 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
6808662 TCAACAACAA
* *
6808672 TAATGATTGAATTAATATTTTT
1 TAATGAATAAATTAA-ATTTTT
*
6808694 TAATTAATAAATTAAATTTTT
1 TAATGAATAAATTAAATTTTT
6808715 AACTTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TAATGAATAAATTAAATTTTT
Found at i:6811120 original size:28 final size:28
Alignment explanation
Indices: 6811074--6811197 Score: 72
Period size: 28 Copynumber: 4.1 Consensus size: 28
6811064 CCCAAACTCA
* ** *
6811074 AAACCTTAAACCCTGAATCTATAATCTC
1 AAACCCTAAACCCCAAATCTAGAATCTC
6811102 AAACCCTAAACCCCAAATCTAGAA-CATC
1 AAACCCTAAACCCCAAATCTAGAATC-TC
* *
6811130 AAACAATTGAACCTTAAACCCTAAATCTATAATC-C
1 AAAC-------CC-TAAACCCCAAATCTAGAATCTC
* *
6811165 TAAACCCTAAACCCCAAATATAGAACCTC
1 -AAACCCTAAACCCCAAATCTAGAATCTC
6811194 AAAC
1 AAAC
6811198 AATTGGACCT
Statistics
Matches: 74, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
27 1 0.01
28 46 0.62
29 3 0.04
35 3 0.04
36 20 0.27
37 1 0.01
ACGTcount: A:0.45, C:0.31, G:0.03, T:0.21
Consensus pattern (28 bp):
AAACCCTAAACCCCAAATCTAGAATCTC
Found at i:6811149 original size:64 final size:64
Alignment explanation
Indices: 6811075--6811214 Score: 228
Period size: 64 Copynumber: 2.2 Consensus size: 64
6811065 CCAAACTCAA
* *
6811075 AACCTTAAACCCTGAATCTATAAT-CTCAAACCCTAAACCCCAAATCTAGAACATCAAACAATTG
1 AACCTTAAACCCTAAATCTATAATCCT-AAACCCTAAACCCCAAATATAGAACATCAAACAATTG
*
6811139 AACCTTAAACCCTAAATCTATAATCCTAAACCCTAAACCCCAAATATAGAACCTCAAACAATTG
1 AACCTTAAACCCTAAATCTATAATCCTAAACCCTAAACCCCAAATATAGAACATCAAACAATTG
*
6811203 GACCTTAAACCC
1 AACCTTAAACCC
6811215 CAAACTCGTA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 69 0.97
65 2 0.03
ACGTcount: A:0.44, C:0.31, G:0.04, T:0.21
Consensus pattern (64 bp):
AACCTTAAACCCTAAATCTATAATCCTAAACCCTAAACCCCAAATATAGAACATCAAACAATTG
Found at i:6813253 original size:131 final size:136
Alignment explanation
Indices: 6813129--6813492 Score: 415
Period size: 138 Copynumber: 2.7 Consensus size: 136
6813119 TATTCGATCG
* ** * *
6813129 TTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCC-CGAATTGTCAAA-C-A
1 TTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCACGAATTGTCAAAGCAA
* * * * * * *
6813191 -CT-GAGTATCGCCTTTGTTTTGAAGGATTTTTAGAAGACCTGAGTGAAATTTTGAAGGGATATT
66 TATCAAATATCGCCTTCGTTTTAAAGAATTTTTAGAAGACATGAGTGAAATTTTGAAGGGATATT
6813254 TGATTA
131 TGATTA
* * * *
6813260 TTTTGAGTAAACGAGATATTGCAACCCAACACGTTAGGGCACGATTCCACAAATT-TCCAAATGG
1 TTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCACGAATTGT-CAAA--G
* * *
6813324 CAATATCAAATCTCGTCTTCGTTTTAAAGAATTTTTATAAGACATGAGTGAAATTTTGAAGGGAT
63 CAATATCAAATATCGCCTTCGTTTTAAAGAATTTTTAGAAGACATGAGTGAAATTTTGAAGGGAT
6813389 ATTTGATTA
128 ATTTGATTA
* * * *
6813398 TTTTGAGCAAACGCGAAATTGCAACCCAGCACGTTAGGGCACGTTTCCGCGAATTG-C-CA--AA
1 TTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCACGAATTGTCAAAGCAA
*
6813459 TATCAAATCTCGCCTTCGTTTTAAAGAATTTTTA
66 TATCAAATATCGCCTTCGTTTTAAAGAATTTTTA
6813493 AATGAATAAT
Statistics
Matches: 196, Mismatches: 28, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
131 41 0.21
132 44 0.22
135 1 0.01
136 2 0.01
137 2 0.01
138 106 0.54
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (136 bp):
TTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCACGAATTGTCAAAGCAA
TATCAAATATCGCCTTCGTTTTAAAGAATTTTTAGAAGACATGAGTGAAATTTTGAAGGGATATT
TGATTA
Found at i:6813384 original size:138 final size:132
Alignment explanation
Indices: 6812838--6813492 Score: 419
Period size: 131 Copynumber: 4.9 Consensus size: 132
6812828 TAAAAAATAC
* * * * * * *
6812838 GAGTGAAATTTCGAAGAGATATTCGATTATTTTGAACAAACGGGGAATTGCAACCCAACACGATA
1 GAGTGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
* * ** * * * * ** *
6812903 GGGCACTATTCCCCGGATTGCCAAACATCGAACAT-T-TCTTTCG-TTAAAAGGGTTTTTAGAAA
66 GGGCACGATTCCACAAATTGCCAAATATC-AA-ATCTCGCCTTCGTTTTAAAGAATTTTTAGAAG
*
6812965 ACGT
129 ACAT
*** * * * ** * * * * ** ** *
6812969 GAGTGAAATTCCAAAGAGATCTTCGATCGTTTAGAACAAATGAAAAAGCGCAACCCGGCACGATA
1 GAGTGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
* * * ** ** **
6813034 GGGTACGATT-CTCAAA-T-CACTAATCATCAAAGATCGCCTTCGTTTTGGAGGGTTTTTA-ACA
66 GGGCACGATTCCACAAATTGC-CAAAT-ATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAGA-A
*
6813095 AACAT
128 GACAT
*** * * * ** * ** * *
6813100 GAGTGAAAACCTAAAGGAATATTCGATCGTTTTGAACAAACGAGAAATCACAACCCAGCACGATA
1 GAGTGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
* * * * * * * * * *
6813165 GGGCATGATTCC-CGAATTGTCAAACA-CTGAGTATCGCCTTTGTTTTGAAGGATTTTTAGAAGA
66 GGGCACGATTCCACAAATTGCCAAATATC-AAATCTCGCCTTCGTTTTAAAGAATTTTTAGAAGA
*
6813228 CCT
130 CAT
* *
6813231 GAGTGAAATTTTGAAGGGATATTTGATTATTTTGAGTAAACGAGATATTGCAACCCAACACGTTA
1 GAGTGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
* *
6813296 GGGCACGATTCCACAAATTTCCAAATGGCAATATCAAATCTCGTCTTCGTTTTAAAGAATTTTTA
66 GGGCACGATTCCACAAATTGCC--A----AATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTA
*
6813361 TAAGACAT
125 GAAGACAT
* *
6813369 GAGTGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAACGCGAAATTGCAACCCAGCACGTTA
1 GAGTGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
* * *
6813434 GGGCACGTTTCCGCGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTA
66 GGGCACGATTCCACAAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTA
6813493 AATGAATAAT
Statistics
Matches: 413, Mismatches: 92, Indels: 37
0.76 0.17 0.07
Matches are distributed among these distances:
128 2 0.00
129 7 0.02
130 13 0.03
131 230 0.56
132 47 0.11
134 1 0.00
136 1 0.00
138 111 0.27
139 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (132 bp):
GAGTGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
GGGCACGATTCCACAAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAGAAGAC
AT
Found at i:6820573 original size:14 final size:14
Alignment explanation
Indices: 6820553--6820593 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
6820543 TTGCAACTTG
6820553 CACAACTTGCACAT
1 CACAACTTGCACAT
* *
6820567 TACAACTTGCAAAT
1 CACAACTTGCACAT
6820581 CACAACTTGCACA
1 CACAACTTGCACA
6820594 ATTTGGTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.39, C:0.32, G:0.07, T:0.22
Consensus pattern (14 bp):
CACAACTTGCACAT
Found at i:6820968 original size:30 final size:30
Alignment explanation
Indices: 6820932--6820996 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
6820922 TAAATTTATT
*
6820932 AAAAATTAAAAAAAATTGTAAAAACCATAA
1 AAAAATTAAAAAAAATTATAAAAACCATAA
** ** *
6820962 AAAAATTGTAAAATTTTATAAAAATCATAA
1 AAAAATTAAAAAAAATTATAAAAACCATAA
6820992 AAAAA
1 AAAAA
6820997 ATTTATAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (30 bp):
AAAAATTAAAAAAAATTATAAAAACCATAA
Found at i:6829431 original size:17 final size:17
Alignment explanation
Indices: 6829401--6829433 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6829391 GCATTAATTT
6829401 ATAATAATTATATTTAA
1 ATAATAATTATATTTAA
6829418 ATAA-AATTATTATTTA
1 ATAATAATTA-TATTTA
6829434 TAGGTATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATAATAATTATATTTAA
Found at i:6838698 original size:31 final size:31
Alignment explanation
Indices: 6838663--6838757 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
6838653 TTTATTCTTG
6838663 AGAGCTAATGAAAATGAGGTGAGCAATGCTA
1 AGAGCTAATGAAAATGAGGTGAGCAATGCTA
*
6838694 AGAGCTAATGAAAATGAGGTGAGCAATCCTA
1 AGAGCTAATGAAAATGAGGTGAGCAATGCTA
6838725 AGAGCTAATGAAAATGAGGTGAGCAATGCTA
1 AGAGCTAATGAAAATGAGGTGAGCAATGCTA
6838756 AG
1 AG
6838758 TATATTTTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.19
Consensus pattern (31 bp):
AGAGCTAATGAAAATGAGGTGAGCAATGCTA
Found at i:6842030 original size:21 final size:21
Alignment explanation
Indices: 6842004--6842044 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6841994 AGACGAGCGA
* *
6842004 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6842025 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6842045 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:6848835 original size:27 final size:27
Alignment explanation
Indices: 6848797--6848850 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
6848787 CCAAAATAGC
6848797 TATATGTTTCAGTGGTCGAGTACCAGT
1 TATATGTTTCAGTGGTCGAGTACCAGT
6848824 TATATGTTTCAGTGGTCGAGTACCAGT
1 TATATGTTTCAGTGGTCGAGTACCAGT
6848851 ACTAATTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (27 bp):
TATATGTTTCAGTGGTCGAGTACCAGT
Found at i:6853919 original size:21 final size:21
Alignment explanation
Indices: 6853893--6853933 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6853883 AGACGAGCGA
* *
6853893 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6853914 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6853934 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:6862050 original size:4 final size:4
Alignment explanation
Indices: 6862031--6862082 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
6862021 GAAATGATCG
* * * *
6862031 AATA CATA AGTA AATA AATA AATA CATA AGTA AATA AATA AAT- -ATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
6862077 AATA AA
1 AATA AA
6862083 ACATGGCAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
4 36 0.95
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:6862054 original size:20 final size:20
Alignment explanation
Indices: 6862031--6862074 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
6862021 GAAATGATCG
6862031 AATACATAAGTAAATAAATA
1 AATACATAAGTAAATAAATA
6862051 AATACATAAGTAAATAAATA
1 AATACATAAGTAAATAAATA
6862071 AATA
1 AATA
6862075 TAAATAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (20 bp):
AATACATAAGTAAATAAATA
Found at i:6862176 original size:3 final size:3
Alignment explanation
Indices: 6862120--6862157 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
6862110 AACGAAAACG
6862120 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6862158 GTATAAAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6862321 original size:65 final size:64
Alignment explanation
Indices: 6862252--6862412 Score: 159
Period size: 65 Copynumber: 2.4 Consensus size: 64
6862242 TGTAAAACAT
*
6862252 ATAATACTAGATTAAAAATATATACA-ATATTTATTGAAAACAGTA-A-TAATATATAAAAATAA
1 ATAATACTAGATTAAAAATATATACATATATGTATT-AAAACA-TATACTAATA-AT-AAAATAA
**
6862314 CTA
62 AAA
* * *
6862317 ATAATAACTATA-TATAAATATATACATATATGTATTAAAATATATACGTAATAATAAAATAAAA
1 ATAAT-ACTAGATTAAAAATATATACATATATGTATTAAAACATATAC-TAATAATAAAATAAAA
6862381 A
64 A
6862382 ATATATACGTAGTATTAAAAATATATACATA
1 ATA-ATAC-TAG-ATTAAAAATATATACATA
6862413 ATAATAAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
64 2 0.03
65 37 0.47
66 19 0.24
67 6 0.08
68 15 0.19
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.34
Consensus pattern (64 bp):
ATAATACTAGATTAAAAATATATACATATATGTATTAAAACATATACTAATAATAAAATAAAAA
Found at i:6862403 original size:20 final size:20
Alignment explanation
Indices: 6862378--6862424 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
6862368 TAATAAAATA
* * *
6862378 AAAAATATATACGTAGTATT
1 AAAAATATATACATAATAAT
6862398 AAAAATATATACATAATAAT
1 AAAAATATATACATAATAAT
6862418 AAAAATA
1 AAAAATA
6862425 CAATATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (20 bp):
AAAAATATATACATAATAAT
Found at i:6862485 original size:24 final size:23
Alignment explanation
Indices: 6862439--6862500 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
6862429 ATTAAAAGAT
*
6862439 ATATATACGTAATAT-ATAAAAA
1 ATATATACATAATATAATAAAAA
* *
6862461 ATGTATACATAATATAATATTAAA
1 ATATATACATAATATAATA-AAAA
* *
6862485 ATATTTACATAGTATA
1 ATATATACATAATATA
6862501 TACATATAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 13 0.41
23 3 0.09
24 16 0.50
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATATACATAATATAATAAAAA
Found at i:6862503 original size:57 final size:56
Alignment explanation
Indices: 6862382--6862503 Score: 131
Period size: 57 Copynumber: 2.1 Consensus size: 56
6862372 AAAATAAAAA
* * *
6862382 ATATATACGTAGTATTAAAAATATATACATAATAATAAAAATACAATATTAAAAGAT
1 ATATATACGTAATATTAAAAATATATACATAATAATAAAAATAAAATATT-AAACAT
* * * *
6862439 ATATATACGTAATATATAAAAAATGTATACATAAT-ATAATATTAAAATATT-TACAT
1 ATATATACGTAATAT-T-AAAAATATATACATAATAATAAAAATAAAATATTAAACAT
6862495 AGTATATAC
1 A-TATATAC
6862504 ATATAAGTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
56 4 0.07
57 21 0.38
58 14 0.25
59 16 0.29
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.34
Consensus pattern (56 bp):
ATATATACGTAATATTAAAAATATATACATAATAATAAAAATAAAATATTAAACAT
Found at i:6862710 original size:23 final size:22
Alignment explanation
Indices: 6862684--6862728 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
6862674 TTGAAAACAT
* *
6862684 ATATACATAGTATTAGTATTTAA
1 ATATACATAATA-TAATATTTAA
*
6862707 ATATATATAATATAATATTTAA
1 ATATACATAATATAATATTTAA
6862729 GAAAAACTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (22 bp):
ATATACATAATATAATATTTAA
Found at i:6863061 original size:22 final size:22
Alignment explanation
Indices: 6863031--6863096 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
6863021 AAGTGAAAAT
6863031 AATACTAATGCTAATAAATAATA
1 AATA-TAATGCTAATAAATAATA
** *
6863054 AATATAATAATAAT-ATTAATAA
1 AATATAATGCTAATAAATAAT-A
6863076 AATATAATAGC--ATAAATAATA
1 AATATAAT-GCTAATAAATAATA
6863097 TTAAAATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
21 8 0.24
22 22 0.65
23 4 0.12
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (22 bp):
AATATAATGCTAATAAATAATA
Found at i:6863082 original size:28 final size:28
Alignment explanation
Indices: 6863042--6863116 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 28
6863032 ATACTAATGC
*
6863042 TAATAAATAATAAATATAAT-AATAATAT
1 TAATAAATAAT-AATAGAATAAATAATAT
*
6863070 TAATAAA-ATATAATAGCATAAATAATAT
1 TAATAAATA-ATAATAGAATAAATAATAT
* *
6863098 TAA-AATTAA-AATAAAATAA
1 TAATAAATAATAATAGAATAA
6863117 TGAGAAAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
26 8 0.21
27 10 0.26
28 21 0.54
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (28 bp):
TAATAAATAATAATAGAATAAATAATAT
Found at i:6865842 original size:18 final size:18
Alignment explanation
Indices: 6865817--6865888 Score: 74
Period size: 18 Copynumber: 4.0 Consensus size: 18
6865807 ACCGTTTATG
*
6865817 GTACTATTCACGTATACA
1 GTACTATTCACATATACA
* *
6865835 GCACTATTCATATATAC-
1 GTACTATTCACATATACA
*
6865852 GATACTATTCACATATACG
1 G-TACTATTCACATATACA
* *
6865871 GTACTGTTCACGTATACA
1 GTACTATTCACATATACA
6865889 ATAGTTGGGA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
17 1 0.02
18 42 0.95
19 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
GTACTATTCACATATACA
Found at i:6865887 original size:36 final size:36
Alignment explanation
Indices: 6865818--6865887 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
6865808 CCGTTTATGG
* *
6865818 TACTATTCACGTATACAGCACTATTCATATATACGA
1 TACTATTCACATATACAGCACTATTCACATATACGA
* * * *
6865854 TACTATTCACATATACGGTACTGTTCACGTATAC
1 TACTATTCACATATACAGCACTATTCACATATAC
6865888 AATAGTTGGG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (36 bp):
TACTATTCACATATACAGCACTATTCACATATACGA
Found at i:6878221 original size:9 final size:9
Alignment explanation
Indices: 6878193--6878249 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
6878183 TATAGTTTTT
*
6878193 TTTTTTATA
1 TTTTTTAAA
*
6878202 TTTTTCAAAA
1 TTTTT-TAAA
6878212 TTTTTTAAA
1 TTTTTTAAA
6878221 TTTCTTATAAA
1 TTT-TT-TAAA
*
6878232 TTTTTTGAA
1 TTTTTTAAA
6878241 -TTTTTAAA
1 TTTTTTAAA
6878249 T
1 T
6878250 AATTCCTACA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
8 7 0.18
9 14 0.36
10 11 0.28
11 7 0.18
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:6878253 original size:20 final size:19
Alignment explanation
Indices: 6878193--6878253 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
6878183 TATAGTTTTT
* *
6878193 TTTTTTATATTTTTCAAAA
1 TTTTTTAAATTTTTAAAAA
*
6878212 TTTTTTAAATTTCTTATAAA
1 TTTTTTAAATTT-TTAAAAA
*
6878232 TTTTTTGAATTTTTAAATAA
1 TTTTTTAAATTTTTAAA-AA
6878252 TT
1 TT
6878254 CCTACAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 15 0.43
20 20 0.57
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTTTAAATTTTTAAAAA
Found at i:6878333 original size:18 final size:17
Alignment explanation
Indices: 6878302--6878335 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6878292 ATTTTCAGTC
6878302 TTTTAATTTATTTAATT
1 TTTTAATTTATTTAATT
*
6878319 TTTTACATTTTTTTAAT
1 TTTTA-ATTTATTTAAT
6878336 ATGACAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTAATTTATTTAATT
Found at i:6880977 original size:18 final size:19
Alignment explanation
Indices: 6880932--6880979 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
6880922 TAAAAAAACT
6880932 AAAATATCTTTAAATAATAA
1 AAAATAT-TTTAAATAATAA
** *
6880952 AATTTATTTT-AATTATAA
1 AAAATATTTTAAATAATAA
6880970 AAAATATTTT
1 AAAATATTTT
6880980 TCTAATTTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 15 0.65
19 3 0.13
20 5 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAATATTTTAAATAATAA
Found at i:6885896 original size:21 final size:21
Alignment explanation
Indices: 6885867--6885906 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6885857 TAATTTGTCC
* *
6885867 ATGTTTTTTGTAAAAAGGATA
1 ATGTATTTTATAAAAAGGATA
6885888 ATGTATTTTATAAAAAGGA
1 ATGTATTTTATAAAAAGGA
6885907 CAAAATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (21 bp):
ATGTATTTTATAAAAAGGATA
Found at i:6889806 original size:72 final size:72
Alignment explanation
Indices: 6889685--6889923 Score: 401
Period size: 72 Copynumber: 3.3 Consensus size: 72
6889675 CACCTTGAAC
*
6889685 TTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTGAATTTG
1 TTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTGAATTTC
6889750 TTTGATG
66 TTTGATG
* *
6889757 TTTCAGAAAATCAATTATATGGTCAAATTCCATTGTCTATAGGGAAGTTATCATCTTTG-ATATT
1 TTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTGAAT-TT
6889821 CTTTGATG
65 CTTTGATG
*
6889829 TTTCAGAAAAT-AATTTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTGAAGTT
1 TTTCAGAAAATCAA-TTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTGAATTT
6889893 CTTTGATG
65 CTTTGATG
*
6889901 TTTCAGAAAATCAATTGAATGGT
1 TTTCAGAAAATCAATTAAATGGT
6889924 ACTTTCCCTT
Statistics
Matches: 156, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
71 4 0.03
72 149 0.96
73 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (72 bp):
TTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTGAATTTC
TTTGATG
Found at i:6890353 original size:41 final size:41
Alignment explanation
Indices: 6890236--6890355 Score: 134
Period size: 41 Copynumber: 2.9 Consensus size: 41
6890226 TCATTTACAA
* * * *
6890236 AAAAACTAAGCAATAGCGGCCTTTTTTGTCCAAACACCACT
1 AAAAACTGAGCAATAGCGGCATTTTTAGTCCAAACGCCACT
* * * *
6890277 AAAAACTGAGCAATAGCGCCGTTTTTGGTACAAACGCCACT
1 AAAAACTGAGCAATAGCGGCATTTTTAGTCCAAACGCCACT
* *
6890318 AAAAACCT-ATCAATAGCGGCATTTTTAATCCAAACGCC
1 AAAAA-CTGAGCAATAGCGGCATTTTTAGTCCAAACGCC
6890356 CGATAAAGTT
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 64 0.97
42 2 0.03
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (41 bp):
AAAAACTGAGCAATAGCGGCATTTTTAGTCCAAACGCCACT
Found at i:6891766 original size:68 final size:70
Alignment explanation
Indices: 6891694--6891891 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
6891684 ACACCCTGTA
* * * *
6891694 GTAGCTAGGTCACATGTGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGTGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
6891756 ATAAAT
65 ATAAAT
* *
6891762 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGTGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
6891827 ATAAAT
65 ATAAAT
* *
6891833 GTAGCTGGGTCGCATGTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGTGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
6891892 AGACAAATCG
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 23 0.19
69 3 0.03
70 1 0.01
71 91 0.77
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGTGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:6891816 original size:71 final size:71
Alignment explanation
Indices: 6891728--6891891 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
6891718 GAGATGTATC
6891728 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
6891793 AGGACA
66 AGGACA
* *
6891799 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGTGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
6891864 AGGACA
66 AGGACA
6891870 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
6891892 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:6893394 original size:22 final size:22
Alignment explanation
Indices: 6893344--6893395 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
6893334 AATCATTAAT
* **
6893344 CCCTAAACCCTAAATTCTAAAA
1 CCCTAAACCATAAACCCTAAAA
* *
6893366 ACATAAACCATAAACCCTAAAA
1 CCCTAAACCATAAACCCTAAAA
6893388 CCCTAAAC
1 CCCTAAAC
6893396 AAAAAAATTC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (22 bp):
CCCTAAACCATAAACCCTAAAA
Found at i:6893528 original size:21 final size:22
Alignment explanation
Indices: 6893502--6893557 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
6893492 TTTATATTTT
*
6893502 GGTTTAGGGTTTAATATTTA-A
1 GGTTTAGGGTTTAAGATTTAGA
6893523 GGTTTAGGGTTTAAGATTTAGA
1 GGTTTAGGGTTTAAGATTTAGA
* *
6893545 GTTTTATGGTTTA
1 GGTTTAGGGTTTA
6893558 GGGTTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (22 bp):
GGTTTAGGGTTTAAGATTTAGA
Found at i:6893535 original size:14 final size:14
Alignment explanation
Indices: 6893518--6893565 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
6893508 GGGTTTAATA
6893518 TTTAAGGTTTAGGG
1 TTTAAGGTTTAGGG
* *
6893532 TTTAAGATTTAGAGT
1 TTTAAGGTTTAG-GG
*
6893547 TTTATGGTTTAGGG
1 TTTAAGGTTTAGGG
6893561 TTTAA
1 TTTAA
6893566 TATTTAGTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:6893543 original size:35 final size:34
Alignment explanation
Indices: 6893504--6893600 Score: 82
Period size: 35 Copynumber: 2.9 Consensus size: 34
6893494 TATATTTTGG
*
6893504 TTTAGGGTTTAATATTTAAGGTTTAGGGTTTAAGA
1 TTTAGAGTTTAATATTT-AGGTTTAGGGTTTAAGA
*
6893539 TTTAGAGTTT--TA--T-GGTTTAGGGTTTAATA
1 TTTAGAGTTTAATATTTAGGTTTAGGGTTTAAGA
*
6893568 TTTAGTA-TGTTAA-GTTTATGGTTTAGGGTTTAA
1 TTTAG-AGT-TTAATATTTA-GGTTTAGGGTTTAA
6893601 TTGTTATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
29 21 0.41
30 3 0.06
31 1 0.02
33 3 0.06
35 23 0.45
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (34 bp):
TTTAGAGTTTAATATTTAGGTTTAGGGTTTAAGA
Found at i:6893557 original size:29 final size:33
Alignment explanation
Indices: 6893516--6893600 Score: 106
Period size: 29 Copynumber: 2.6 Consensus size: 33
6893506 TAGGGTTTAA
*
6893516 TATTTAAGGTTTAGGGTTTAAGATTTAG-A-G-
1 TATTTATGGTTTAGGGTTTAAGATTTAGTATGT
*
6893546 T-TTTATGGTTTAGGGTTTAATATTTAGTATGT
1 TATTTATGGTTTAGGGTTTAAGATTTAGTATGT
6893578 TAAGTTTATGGTTTAGGGTTTAA
1 T-A-TTTATGGTTTAGGGTTTAA
6893601 TTGTTATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
29 24 0.51
30 2 0.04
31 1 0.02
32 1 0.02
35 19 0.40
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (33 bp):
TATTTATGGTTTAGGGTTTAAGATTTAGTATGT
Found at i:6893571 original size:14 final size:14
Alignment explanation
Indices: 6893525--6893572 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
6893515 ATATTTAAGG
*
6893525 TTTAGGGTTTAAGA
1 TTTAGGGTTTAATA
* * *
6893539 TTTAGAGTTTTATGG
1 TTTAGGGTTTAAT-A
6893554 TTTAGGGTTTAATA
1 TTTAGGGTTTAATA
6893568 TTTAG
1 TTTAG
6893573 TATGTTAAGT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTAATA
Found at i:6893840 original size:15 final size:15
Alignment explanation
Indices: 6893816--6893849 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6893806 ATATTTAAGG
* *
6893816 TTTAGGGTTTATGAT
1 TTTAGCGTTTAAGAT
6893831 TTTAGCGTTTAAGAT
1 TTTAGCGTTTAAGAT
6893846 TTTA
1 TTTA
6893850 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.21, T:0.53
Consensus pattern (15 bp):
TTTAGCGTTTAAGAT
Found at i:6894083 original size:40 final size:39
Alignment explanation
Indices: 6894038--6894189 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 39
6894028 ATCTAGTGGC
*
6894038 ATTAGCGGCGCTTTTTGAAAAACACCGCTAAAGATCGAG
1 ATTAGCGGCGCTTTTTGAAAAACACCGCTAAAGATCAAG
* * *** *
6894077 AGTTAGCAGCGCTTTTTTAAAAATGTCACTAAAGATCAAG
1 A-TTAGCGGCGCTTTTTGAAAAACACCGCTAAAGATCAAG
* *
6894117 TATTAGCGGCGCTTTTTGAAAAACGCTGCTAAAGATCAAG
1 -ATTAGCGGCGCTTTTTGAAAAACACCGCTAAAGATCAAG
* * * *
6894157 AATTAGCGACACTTTTTCAAAAACACCGTTAAA
1 -ATTAGCGGCGCTTTTTGAAAAACACCGCTAAA
6894190 AGTTTAATTA
Statistics
Matches: 91, Mismatches: 20, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 89 0.98
41 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (39 bp):
ATTAGCGGCGCTTTTTGAAAAACACCGCTAAAGATCAAG
Found at i:6897095 original size:12 final size:14
Alignment explanation
Indices: 6897078--6897114 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
6897068 CTAAAAATAA
6897078 TAAAAAT-TTTA-T
1 TAAAAATATTTACT
6897090 TAAAAATAATTTACT
1 TAAAAAT-ATTTACT
6897105 TAAAAATATT
1 TAAAAATATT
6897115 AAGTCAAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.32
14 7 0.32
15 8 0.36
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAAAATATTTACT
Found at i:6897801 original size:9 final size:9
Alignment explanation
Indices: 6897789--6897896 Score: 53
Period size: 9 Copynumber: 12.0 Consensus size: 9
6897779 TCTTTCTTTT
6897789 CTTACATAA
1 CTTACATAA
6897798 CTTACATAA
1 CTTACATAA
6897807 --TACATAA
1 CTTACATAA
* *
6897814 -ATATATATA
1 CTTACATA-A
*
6897823 TTATATCATAA
1 CT-TA-CATAA
6897834 CTTACATAA
1 CTTACATAA
* * *
6897843 -ATATATAT
1 CTTACATAA
*
6897851 CATATCATAA
1 CTTA-CATAA
**
6897861 CTTTTATAA
1 CTTACATAA
*
6897870 CTTACAAAA
1 CTTACATAA
*
6897879 CTTACTTAA
1 CTTACATAA
6897888 CTTACATAA
1 CTTACATAA
6897897 TACATAAATA
Statistics
Matches: 74, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
7 7 0.09
8 10 0.14
9 43 0.58
10 7 0.09
11 4 0.05
12 3 0.04
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (9 bp):
CTTACATAA
Found at i:6897846 original size:27 final size:29
Alignment explanation
Indices: 6897807--6897863 Score: 91
Period size: 27 Copynumber: 2.0 Consensus size: 29
6897797 ACTTACATAA
*
6897807 TACATAAATATATATATTATATCATAACT
1 TACATAAATATATATATCATATCATAACT
6897836 TACAT-AA-ATATATATCATATCATAACT
1 TACATAAATATATATATCATATCATAACT
6897863 T
1 T
6897864 TTATAACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 20 0.74
28 2 0.07
29 5 0.19
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (29 bp):
TACATAAATATATATATCATATCATAACT
Found at i:6899706 original size:14 final size:14
Alignment explanation
Indices: 6899676--6899718 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
6899666 TTTTAAATAT
6899676 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
*
6899689 TTATAATGGTTTAC
1 TTATAATGGTTTAA
6899703 TTATAATGGTTTAA
1 TTATAATGGTTTAA
6899717 TT
1 TT
6899719 CGTCATTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 7 0.26
14 20 0.74
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:6906415 original size:6 final size:6
Alignment explanation
Indices: 6906322--6906399 Score: 59
Period size: 6 Copynumber: 13.0 Consensus size: 6
6906312 AAACATTCAC
* ** * * * *
6906322 TGATTT TGATTT TGATTT TGATTT TGATCT CAATCTA GGA-TT AGAATT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGAT-TT TGATTT TGATTT
* *
6906370 TGATTT TGATTT CGATTT AGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT
6906400 AGGGTTATTT
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
5 3 0.05
6 52 0.93
7 1 0.02
ACGTcount: A:0.23, C:0.05, G:0.17, T:0.55
Consensus pattern (6 bp):
TGATTT
Found at i:6906599 original size:34 final size:34
Alignment explanation
Indices: 6906561--6906665 Score: 96
Period size: 34 Copynumber: 3.2 Consensus size: 34
6906551 ATTGTATGAA
6906561 TGCCATTATCAAACTGATCTTTATTGTGTGTATC
1 TGCCATTATCAAACTGATCTTTATTGTGTGTATC
* * * * *
6906595 TGCCATTGT----TTGTATCTGTCATTGTATG-A-A
1 TGCCATTATCAAACTG-ATCT-TTATTGTGTGTATC
*
6906625 TGCCATTATCAAACTGATCTTTATTGTGTATATC
1 TGCCATTATCAAACTGATCTTTATTGTGTGTATC
6906659 TGCCATT
1 TGCCATT
6906666 GTTTGTATCT
Statistics
Matches: 52, Mismatches: 11, Indels: 16
0.66 0.14 0.20
Matches are distributed among these distances:
30 10 0.19
31 5 0.10
32 15 0.29
33 5 0.10
34 17 0.33
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (34 bp):
TGCCATTATCAAACTGATCTTTATTGTGTGTATC
Found at i:6906608 original size:16 final size:16
Alignment explanation
Indices: 6906583--6906619 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
6906573 ACTGATCTTT
6906583 ATTGTGTGTATCTGCC
1 ATTGTGTGTATCTGCC
* *
6906599 ATTGTTTGTATCTGTC
1 ATTGTGTGTATCTGCC
6906615 ATTGT
1 ATTGT
6906620 ATGAATGCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.22, T:0.51
Consensus pattern (16 bp):
ATTGTGTGTATCTGCC
Found at i:6906789 original size:62 final size:62
Alignment explanation
Indices: 6906537--6906925 Score: 499
Period size: 62 Copynumber: 6.2 Consensus size: 62
6906527 GATTTTGATG
** * * * *
6906537 TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCTGCCAT
1 TGTTTGTATCTGCCATTAAAT-TAT-ACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
* ** * * *
6906601 TGTTTGTATCTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTAAAT-TAT-ACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
** * * *
6906665 TGTTTGTATCTGCCATTGTATGAATGTCATTATCAAATTGATGTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTAAAT-TAT-ACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
* *
6906729 TGTTTGTATTTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTAAATTATACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
* * *
6906791 TGTTTGTATCTGCCATTAAATTATACATTGTTAAACTGATGTTTATTGTGTGTATCTGCCAT
1 TGTTTGTATCTGCCATTAAATTATACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
* * *
6906853 TGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATATTTGTCAT
1 TGTTTGTATCTGCCATTAAATTATACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
6906915 TGTTTGTATCT
1 TGTTTGTATCT
6906926 AAGCTCCTAT
Statistics
Matches: 305, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
62 163 0.53
63 2 0.01
64 140 0.46
ACGTcount: A:0.24, C:0.13, G:0.15, T:0.47
Consensus pattern (62 bp):
TGTTTGTATCTGCCATTAAATTATACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
Found at i:6906860 original size:16 final size:16
Alignment explanation
Indices: 6906835--6906869 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
6906825 ACTGATGTTT
6906835 ATTGTGTGTATCTGCC
1 ATTGTGTGTATCTGCC
*
6906851 ATTGTTTGTATCTGCC
1 ATTGTGTGTATCTGCC
6906867 ATT
1 ATT
6906870 AAATTATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.17, G:0.20, T:0.49
Consensus pattern (16 bp):
ATTGTGTGTATCTGCC
Found at i:6907229 original size:15 final size:15
Alignment explanation
Indices: 6907209--6907252 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
6907199 TGAAGAAAAC
6907209 GTGTCTGGTAGTGAT
1 GTGTCTGGTAGTGAT
*
6907224 GTGTCTGGTAGTGAA
1 GTGTCTGGTAGTGAT
6907239 GT-TCTGGTAGTGAT
1 GTGTCTGGTAGTGAT
6907253 AGTGATGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.16, C:0.07, G:0.39, T:0.39
Consensus pattern (15 bp):
GTGTCTGGTAGTGAT
Done.