Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold39
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: 4724573
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 178835 characters in sequence are not A, C, G, or T
File 24 of 27
Found at i:4076777 original size:43 final size:42
Alignment explanation
Indices: 4076677--4076824 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 42
4076667 AGGATGTAAT
* * * * *
4076677 CTTTTTTCCTTTCTCCTCAAGGAGCAAGACCCATTTCATTAT-
1 CTTTTTTCCTTTGTCCTCAAAGACCAAGACACATTTAATT-TC
**
4076719 C--TTTTCCTTTGTCCTCAAAGACCGGGACACATTTAATTTC
1 CTTTTTTCCTTTGTCCTCAAAGACCAAGACACATTTAATTTC
* ** *
4076759 CTTATTTTCCTTTATCCTCAAAGAGTAAGACACATTTTATTTC
1 CTT-TTTTCCTTTGTCCTCAAAGACCAAGACACATTTAATTTC
4076802 CTTTTTTCCTTTGTCCTCAAAGA
1 CTTTTTTCCTTTGTCCTCAAAGA
4076825 GCAGGATATA
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 31 0.35
42 20 0.23
43 36 0.41
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.42
Consensus pattern (42 bp):
CTTTTTTCCTTTGTCCTCAAAGACCAAGACACATTTAATTTC
Found at i:4076810 original size:160 final size:160
Alignment explanation
Indices: 4076603--4076891 Score: 445
Period size: 160 Copynumber: 1.8 Consensus size: 160
4076593 ACGTACTCCT
* * * *
4076603 TTTTCCATTGTCCTCAAACAGCAGGACGCATTTTGTTTCCTTTTTTCCATTGTCCTCAAAGAGCA
1 TTTTCCATTATCCTCAAACAGCAAGACACATTTTATTTCCTTTTTTCCATTGTCCTCAAAGAGCA
* *
4076668 GGATGTAA-TCTTTTTTCCTTTCTCCTCAAGGAGCAAGACCCATTTCATTATCTTTTCCTTTGTC
66 GGATATAATTC-TTTTTCCTTTATCCTCAAGGAGCAAGACCCATTTCATTATCTTTTCCTTTGTC
4076732 CTCAAAGACCGGGACACATTTAATTTCCTTA
130 CTCAAAGACCGGGACACATTTAATTTCCTTA
* * * *
4076763 TTTTCCTTTATCCTCAAAGAGTAAGACACATTTTATTTCCTTTTTTCCTTTGTCCTCAAAGAGCA
1 TTTTCCATTATCCTCAAACAGCAAGACACATTTTATTTCCTTTTTTCCATTGTCCTCAAAGAGCA
* * *
4076828 GGATATACTTCTTTTTCCTTTATCCTCAAGGAGCAGGACCCATTTCATTCTCTTTTCCTTTGTC
66 GGATATAATTCTTTTTCCTTTATCCTCAAGGAGCAAGACCCATTTCATTATCTTTTCCTTTGTC
4076892 TTTGAAGAGT
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
160 113 0.98
161 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (160 bp):
TTTTCCATTATCCTCAAACAGCAAGACACATTTTATTTCCTTTTTTCCATTGTCCTCAAAGAGCA
GGATATAATTCTTTTTCCTTTATCCTCAAGGAGCAAGACCCATTTCATTATCTTTTCCTTTGTCC
TCAAAGACCGGGACACATTTAATTTCCTTA
Found at i:4076845 original size:43 final size:41
Alignment explanation
Indices: 4076602--4076848 Score: 184
Period size: 42 Copynumber: 6.0 Consensus size: 41
4076592 GACGTACTCC
* * *
4076602 TTTTTCCATTGTCCTCAAACAGCAGGACGCATTTTGTTTCCT
1 TTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTT-TTTCCT
* * **
4076644 TTTTTCCATTGTCCTCAAAGAGCAGG----A-TGTAAT-CT
1 TTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTTTTTCCT
* * * * ** *
4076679 TTTTTCCTTTCTCCTCAAGGAGCAAGACCCATTTCATT-AT
1 TTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTTTTTCCT
* * * *
4076719 CTTTTCCTTTGTCCTCAAAGACCGGGACACATTTAATTTCCT
1 TTTTTCCTTTGTCCTCAAAGAGCAGGACACATTT-TTTTCCT
* * *
4076761 TATTTTCCTTTATCCTCAAAGAGTAAGACACATTTTATTTCCT
1 T-TTTTCCTTTGTCCTCAAAGAGCAGGACACATTTT-TTTCCT
* *
4076804 TTTTTCCTTTGTCCTCAAAGAGCAGGATATACTTCTTTTTCCT
1 TTTTTCCTTTGTCCTCAAAGAGCAGGACACA-TT-TTTTTCCT
4076847 TT
1 TT
4076849 ATCCTCAAGG
Statistics
Matches: 160, Mismatches: 34, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
35 24 0.15
36 1 0.01
37 2 0.01
38 1 0.01
39 1 0.01
40 31 0.19
41 2 0.01
42 51 0.32
43 45 0.28
44 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (41 bp):
TTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTTTTTCCT
Found at i:4077590 original size:50 final size:50
Alignment explanation
Indices: 4077533--4077709 Score: 174
Period size: 50 Copynumber: 3.3 Consensus size: 50
4077523 TCTCATAATT
* *
4077533 TGTATCGATACATTGTCCATTGTATCGATACATTCTGGGTTTTGCCCAGA
1 TGTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTGCCCAGA
* *
4077583 TGTATCGATATATTCTTCATTGTATCGATACATTCTGGGTAATATTCTCAGTTTTACCAAGA
1 TGTATCGATACATTCTTCATTGTATCGATACATTCTGGG---T-TT-T--G-----CCCAGA
* * * *
4077645 TGTATTGATACATTTTTCATTGTATCGATACATTCTGGGGTTTACCCAGA
1 TGTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTGCCCAGA
4077695 TGTATCGATACATTC
1 TGTATCGATACATTC
4077710 AAGCATTTTT
Statistics
Matches: 103, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
50 54 0.52
53 1 0.01
54 2 0.02
55 1 0.01
57 2 0.02
58 2 0.02
62 41 0.40
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.41
Consensus pattern (50 bp):
TGTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTGCCCAGA
Found at i:4080756 original size:79 final size:79
Alignment explanation
Indices: 4080624--4081362 Score: 702
Period size: 79 Copynumber: 9.3 Consensus size: 79
4080614 TCATTTATGT
* * * *
4080624 TTTTATTTCTAAAATATTGA-TTTTCTACCATCGGGGATACTCCAATCCTGTTATTTCTGAGGGG
1 TTTTATTTCTAAAACATTAATTTTTC-ACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGG
*
4080688 ATACTCCAACCCCGA
65 ATACTCCAACCTCGA
* * * * *
4080703 TTTTATTTCCAAAACATTAATTTTCCACCATCGGGGATACTCAAACCCCGTTATTTCCGAGGAGA
1 TTTTATTTCTAAAACATTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
4080768 TACTCCAACCTCGA
66 TACTCCAACCTCGA
* * * *
4080782 CTTTATTTCTAAAACATCT-ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTTAGGGG
1 TTTTATTTCTAAAACAT-TAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGG
*
4080846 ATACTCCAACCTCGG
65 ATACTCCAACCTCGA
* * * * * ** ** * *
4080861 CTTTATTTTTAAAACATCAATTTTTCACAATCAGGGATACTCCAGTCTTGTTATTTTTGAAGGGA
1 TTTTATTTCTAAAACATTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
*
4080926 TACTCCAACCCCGA
66 TACTCCAACCTCGA
* * ** * * * * * *
4080940 CTTTATTTCCAAAACATGGATTTTTCACAATCAGTGATACTCTAATCTCGTTATTT-TCGAGGGG
1 TTTTATTTCTAAAACATTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCT-GAGGGG
* *
4081004 ATACTCCAAGCTCAA
65 ATACTCCAACCTCGA
* * ** * *
4081019 TTTTATTTCCAGAACACCAATTTTTCACCATTGGGGATACTCCAACCCCGTTATTTCTGAAGGGA
1 TTTTATTTCTAAAACATTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
4081084 TACTCCAA--TCGTA
66 TACTCCAACCTCG-A
* * * * * *
4081097 GCTTTATTTCTAAAACATTGA-TTTTCTACAATCGGGGATACTTCAACCCTGTTATTTTTGAGGG
1 -TTTTATTTCTAAAACATTAATTTTTC-ACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGG
*
4081161 GATACTCCAACCTCAA
64 GATACTCCAACCTCGA
* * * * ** * *
4081177 TTTTA-TTCTCAAAACATCAATTTTCCACCATTGGGGATACTCTAACCTTGTTATTTCCGAAGGG
1 TTTTATTTCT-AAAACATTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGG
*
4081241 ATACTCCAACCTTGA
65 ATACTCCAACCTCGA
* * * * * *
4081256 TTTTATTTCTAAAACATTGATTTTTCTCCATTGGGGATACTTCAACCCCGTTATTTCTAAGGGGG
1 TTTTATTTCTAAAACATTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
* *
4081321 TACTCCGACC-CCA
66 TACTCCAACCTCGA
* *
4081334 TTTTTATCTCTAAAATATTAAATTTTTCA
1 -TTTTATTTCTAAAACATT-AATTTTTCA
4081363 TTGGGAGATA
Statistics
Matches: 542, Mismatches: 103, Indels: 29
0.80 0.15 0.04
Matches are distributed among these distances:
77 2 0.00
78 12 0.02
79 504 0.93
80 22 0.04
81 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.36
Consensus pattern (79 bp):
TTTTATTTCTAAAACATTAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
TACTCCAACCTCGA
Found at i:4080914 original size:158 final size:158
Alignment explanation
Indices: 4080625--4081340 Score: 807
Period size: 158 Copynumber: 4.5 Consensus size: 158
4080615 CATTTATGTT
* * * * *
4080625 TTTATTTCTAAAATATTGA-TTTTCTACCATCGGGGATACTCCAATCCTGTTATTTCTGAGGGGA
1 TTTATTTCTAAAACATTGATTTTTC-ACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGA
* * * *
4080689 TACTCCAACCCCGATTTTATTTCCAAAACATTAATTTTCCACCATCGGGGATACTCAAACCCCGT
65 TACTCCAACCTCAATTTTATTTCCAAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCGT
4080754 TATTTCCG-AGGAGATACTCCAACCTCGAC
130 TATTTCCGAAGG-GATACTCCAACCTCGAC
*
4080783 TTTATTTCTAAAACATCT-ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTTAGGGGA
1 TTTATTTCTAAAACAT-TGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGA
*** ** * * * ** **
4080847 TACTCCAACCTCGGCTTTATTTTTAAAACATCAATTTTTCACAATCAGGGATACTCCAGTCTTGT
65 TACTCCAACCTCAATTTTATTTCCAAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCGT
** *
4080912 TATTTTTGAAGGGATACTCCAACCCCGAC
130 TATTTCCGAAGGGATACTCCAACCTCGAC
* * * * * * * *
4080941 TTTATTTCCAAAACATGGATTTTTCACAATCAGTGATACTCTAATCTCGTTATTTTCGAGGGGAT
1 TTTATTTCTAAAACATTGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGAT
* * * * *
4081006 ACTCCAAGCTCAATTTTATTTCCAGAACACCAATTTTTCACCATTGGGGATACTCCAACCCCGTT
66 ACTCCAACCTCAATTTTATTTCCAAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCGTT
*
4081071 ATTTCTGAAGGGATACTCCAA--TCGTAGC
131 ATTTCCGAAGGGATACTCCAACCTCG-A-C
* *
4081099 TTTATTTCTAAAACATTGA-TTTTCTACAATCGGGGATACTTCAACCCTGTTATTTTTGAGGGGA
1 TTTATTTCTAAAACATTGATTTTTC-ACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGA
* * **
4081163 TACTCCAACCTCAATTTTA-TTCTCAAAACATCAATTTTCCACCATTGGGGATACTCTAACCTTG
65 TACTCCAACCTCAATTTTATTTC-CAAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCG
* *
4081227 TTATTTCCGAAGGGATACTCCAACCTTGAT
129 TTATTTCCGAAGGGATACTCCAACCTCGAC
* * * * * * *
4081257 TTTATTTCTAAAACATTGATTTTTCTCCATTGGGGATACTTCAACCCCGTTATTTCTAAGGGGGT
1 TTTATTTCTAAAACATTGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGAT
* * *
4081322 ACTCCGACCCCATTTTTAT
66 ACTCCAACCTCAATTTTAT
4081341 CTCTAAAATA
Statistics
Matches: 467, Mismatches: 79, Indels: 23
0.82 0.14 0.04
Matches are distributed among these distances:
156 2 0.00
157 9 0.02
158 439 0.94
159 15 0.03
160 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (158 bp):
TTTATTTCTAAAACATTGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGAT
ACTCCAACCTCAATTTTATTTCCAAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCGTT
ATTTCCGAAGGGATACTCCAACCTCGAC
Found at i:4081348 original size:237 final size:236
Alignment explanation
Indices: 4080625--4081348 Score: 880
Period size: 237 Copynumber: 3.1 Consensus size: 236
4080615 CATTTATGTT
* * *
4080625 TTTATTTCTAAAATATTGATTTTCTACCATCGGGGATACTCCAATCCTGTTATTTCTGAGGGGAT
1 TTTATTTCTAAAACATTGATTTTCTACAATCGGGGATACTCCAATCCTGTTATTTTTGAGGGGAT
* * *
4080690 ACTCCAACCCCGATTTTATTTCCAAAACATTAATTTTCCACCATCGGGGATACTCAAACCCCGTT
66 ACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACCATCGGGGATACTCTAACCTCGTT
* * *
4080755 ATTTCCG-AGGAGATACTCCAACCTCGACTTTATTTCTAAAACATCTATTTTTCACAATCGGGGA
131 ATTTCCGAAGG-GATACTCCAACCTCGATTTTATTTCTAAAACAT-TATTTTTCACCATTGGGGA
* * * *
4080819 TACTCCAACCCCGTTATTTTTTAGGGGATACTCCAACCTCGGC
194 TACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCAGC
* ** * * * *
4080862 TTTATTTTTAAAACATCAATTTT-TCACAATCAGGGATACTCCAGTCTTGTTATTTTTGAAGGGA
1 TTTATTTCTAAAACATTGATTTTCT-ACAATCGGGGATACTCCAATCCTGTTATTTTTGAGGGGA
* ** * * * * *
4080926 TACTCCAACCCCGACTTTATTTCCAAAACATGGATTTTTCACAATCAGTGATACTCTAATCTCGT
65 TACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACCATCGGGGATACTCTAACCTCGT
* * * * * * **
4080991 TATTTTCGAGGGGATACTCCAAGCTCAATTTTATTTCCAGAACACCAATTTTTCACCATTGGGGA
130 TATTTCCGAAGGGATACTCCAACCTCGATTTTATTTCTAAAACA-TTATTTTTCACCATTGGGGA
* **
4081056 TACTCCAACCCCGTTATTTCTGAA-GGGATACTCCAATCGTAGC
194 TACTCCAACCCCGTTATTTCT-AAGGGGATACTCCAACCCCAGC
* *
4081099 TTTATTTCTAAAACATTGATTTTCTACAATCGGGGATACTTCAACCCTGTTATTTTTGAGGGGAT
1 TTTATTTCTAAAACATTGATTTTCTACAATCGGGGATACTCCAATCCTGTTATTTTTGAGGGGAT
* * * *
4081164 ACTCCAACCTCAATTTTA-TTCTCAAAACATCAATTTTCCACCATTGGGGATACTCTAACCTTGT
66 ACTCCAACCCCGATTTTATTTC-CAAAACATCAATTTTCCACCATCGGGGATACTCTAACCTCGT
* *
4081228 TATTTCCGAAGGGATACTCCAACCTTGATTTTATTTCTAAAACATTGATTTTTCTCCATTGGGGA
130 TATTTCCGAAGGGATACTCCAACCTCGATTTTATTTCTAAAACATT-ATTTTTCACCATTGGGGA
* * * **
4081293 TACTTCAACCCCGTTATTTCTAAGGGGGTACTCCGACCCCATT
194 TACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCAGC
*
4081336 TTTATCTCTAAAA
1 TTTATTTCTAAAA
4081349 TATTAAATTT
Statistics
Matches: 402, Mismatches: 77, Indels: 16
0.81 0.16 0.03
Matches are distributed among these distances:
236 6 0.01
237 392 0.98
238 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (236 bp):
TTTATTTCTAAAACATTGATTTTCTACAATCGGGGATACTCCAATCCTGTTATTTTTGAGGGGAT
ACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACCATCGGGGATACTCTAACCTCGTT
ATTTCCGAAGGGATACTCCAACCTCGATTTTATTTCTAAAACATTATTTTTCACCATTGGGGATA
CTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCAGC
Found at i:4081595 original size:23 final size:22
Alignment explanation
Indices: 4081569--4081617 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
4081559 ATCGTCCCTT
** *
4081569 TTTTATGTATTTTTGTGTATTTA
1 TTTTATGTAAATTTGT-TAGTTA
*
4081592 TTTTGTGTAAATTTGTTAGTTA
1 TTTTATGTAAATTTGTTAGTTA
4081614 TTTT
1 TTTT
4081618 CTTTGTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.18, C:0.00, G:0.14, T:0.67
Consensus pattern (22 bp):
TTTTATGTAAATTTGTTAGTTA
Found at i:4084800 original size:21 final size:21
Alignment explanation
Indices: 4084758--4084802 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4084748 TCTCTCCTTT
* *
4084758 ATCTCCCCCGTTTATTAATAA
1 ATCTCCCCCGTTAATCAATAA
4084779 ATCTCCCCC-TTAATCAAGTAA
1 ATCTCCCCCGTTAATCAA-TAA
4084800 ATC
1 ATC
4084803 ATATCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.31, C:0.31, G:0.04, T:0.33
Consensus pattern (21 bp):
ATCTCCCCCGTTAATCAATAA
Found at i:4086585 original size:13 final size:13
Alignment explanation
Indices: 4086567--4086592 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4086557 ATAGTCACCC
4086567 TGTATCGATACAA
1 TGTATCGATACAA
4086580 TGTATCGATACAA
1 TGTATCGATACAA
4086593 AGAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4088691 original size:15 final size:15
Alignment explanation
Indices: 4088671--4088701 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4088661 ATTTCGTTTG
*
4088671 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4088686 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4088701 G
1 G
4088702 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4092788 original size:13 final size:13
Alignment explanation
Indices: 4092770--4092795 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4092760 CAATTTTTTG
4092770 TGTATCGATACAT
1 TGTATCGATACAT
4092783 TGTATCGATACAT
1 TGTATCGATACAT
4092796 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4096300 original size:13 final size:13
Alignment explanation
Indices: 4096282--4096308 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4096272 ACATTATGCT
4096282 TTGTATCGATACA
1 TTGTATCGATACA
4096295 TTGTATCGATACA
1 TTGTATCGATACA
4096308 T
1 T
4096309 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4096305 original size:33 final size:32
Alignment explanation
Indices: 4096263--4096325 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
4096253 CACACCCAGA
*
4096263 TGTATCGATACAT-TATGCTTTGTATCGATACAT
1 TGTATCGATACATGT-T-CATTGTATCGATACAT
4096296 TGTATCGATACATGTTCATTGTATCGATAC
1 TGTATCGATACATGTTCATTGTATCGATAC
4096326 GTGGACATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.46
33 14 0.50
34 1 0.04
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAT
Found at i:4096317 original size:19 final size:19
Alignment explanation
Indices: 4096292--4096347 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
4096282 TTGTATCGAT
*
4096292 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
4096311 TCATTGTATCGATACGTGG
1 ACATTGTATCGATACATGG
4096330 ACATTGTATCGATACATG
1 ACATTGTATCGATACATG
4096348 AGATTAGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:4096421 original size:33 final size:33
Alignment explanation
Indices: 4096379--4096443 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
4096369 TCACTGTTTG
*
4096379 TATCGATACATGGT-ACAATGTATCGATACATTA
1 TATCGATACATGATGA-AATGTATCGATACATTA
*
4096412 TATCGATACATGATGAATTGTATCGATACATT
1 TATCGATACATGATGAAATGTATCGATACATT
4096444 GCTTGTAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.35
Consensus pattern (33 bp):
TATCGATACATGATGAAATGTATCGATACATTA
Found at i:4104519 original size:22 final size:23
Alignment explanation
Indices: 4104464--4104520 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
4104454 AAGATTTGAC
* *
4104464 GAAGGGGGAGAAATTTTTTCATT
1 GAAGGGGGAGAAATTCTTTAATT
*
4104487 GAA-GGGAAGAAATTCTTTAATT
1 GAAGGGGGAGAAATTCTTTAATT
4104509 -AAGGGGGAGAAA
1 GAAGGGGGAGAAA
4104521 AATGAAAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.07
22 24 0.83
23 3 0.10
ACGTcount: A:0.39, C:0.04, G:0.32, T:0.26
Consensus pattern (23 bp):
GAAGGGGGAGAAATTCTTTAATT
Found at i:4105175 original size:13 final size:13
Alignment explanation
Indices: 4105154--4105206 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
4105144 CGATACATGG
*
4105154 TACAATGTATCGA
1 TACATTGTATCGA
4105167 TACATTGTATCGA
1 TACATTGTATCGA
4105180 TACA-TG-AT-G-
1 TACATTGTATCGA
4105189 -A-ATTGTATCGA
1 TACATTGTATCGA
4105200 TACATTG
1 TACATTG
4105207 CTTGTAACAG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:4105180 original size:33 final size:33
Alignment explanation
Indices: 4105138--4105206 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
4105128 CTACCACTGT
*
4105138 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
*
4105171 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
4105204 TTG
1 TTG
4105207 CTTGTAACAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:4105826 original size:13 final size:13
Alignment explanation
Indices: 4105808--4105832 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4105798 CATATAATGT
4105808 TGTATCGATACAA
1 TGTATCGATACAA
4105821 TGTATCGATACA
1 TGTATCGATACA
4105833 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4105830 original size:33 final size:33
Alignment explanation
Indices: 4105788--4105854 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
4105778 TTCAACGATT
4105788 TGTATCGATACATATAATGTTGTATCGATACAA
1 TGTATCGATACATATAATGTTGTATCGATACAA
** *
4105821 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATATAATGTTGTATCGATACAA
4105854 T
1 T
4105855 TTAAGCTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATATAATGTTGTATCGATACAA
Found at i:4105913 original size:13 final size:13
Alignment explanation
Indices: 4105895--4105919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4105885 ATTACTCAAA
4105895 TGTATCGATACAT
1 TGTATCGATACAT
4105908 TGTATCGATACA
1 TGTATCGATACA
4105920 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4105971 original size:52 final size:50
Alignment explanation
Indices: 4105908--4106052 Score: 191
Period size: 52 Copynumber: 2.8 Consensus size: 50
4105898 ATCGATACAT
*
4105908 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* * *
4105960 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCTCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
4106012 TGTATCGATACACTATTAAATGTATCGATACATGCAAGCAA
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAA
4106053 CTTTTCATAT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:4111172 original size:120 final size:122
Alignment explanation
Indices: 4110912--4111446 Score: 570
Period size: 120 Copynumber: 4.4 Consensus size: 122
4110902 CCACAACTTC
* * *
4110912 GTGGCACCCCTTTAG-CCTTCAAATAGCAGGATGCCTTTTTCTTTTCAAAGCCTACATGAGTTGG
1 GTGGCA-CCCTTTAGTCC-TCAAAGAGCAGGATGCCTTTTT-TTTTC-AAGCCAACACGAGTTGG
* * *** * * *
4110976 TGGCACCCTTTAGTCCTCAAAGAGTATGACATCTTCTTCATTTTC-AAGCCCACTTGAGTTG
62 TGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTC-TTTTCAAAGCCCACATCAGTTG
* * * *
4111037 GTGGCA-CCTTTAGTCCTCAAAGAGTAGGATGCCTTTTTTTTTCAAGCTAATACGAATTGGTGGC
1 GTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTTTTTCAAGCCAACACGAGTTGGTGGC
4111101 A-CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAA-CCCACATCAGTTG
66 ACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACATCAGTTG
* * * * * *
4111156 GTGGTATCTTTTAGTCCTCAAAGAGCAGGACGTC-TTTTTTTTCAAGCCCACACGAGTTGGTGGC
1 GTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTTTTTCAAGCCAACACGAGTTGGTGGC
* * *
4111220 ATCCTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTT-AAAGCCCACA-CGAGTTG
66 ACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACATC-AGTTG
* * * *
4111276 ATGGCACCCTATAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTT-AAGGCCCACACGAGTTGGT
1 GTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTT--TTTTTCAA-GCCAACACGAGTTGGT
* * * *
4111340 GGCACTCTTTAGTCCTCAAAG-GATAGGATG-CTTTTTCCTTTTCAAAGCACACATGAGTTG
63 GGCACCCTTTAGTCCTCAAAGAG-CAGGATGCCTTTTT-CTTTTCAAAGCCCACATCAGTTG
* * *
4111400 GTGGCACCCTTTAGTCCTTAAAGAGCAAGATGCCTTTTCCTTTTCAA
1 GTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTT-TTTTTCAA
4111447 AGCAAAATTT
Statistics
Matches: 348, Mismatches: 47, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
119 52 0.15
120 124 0.36
121 20 0.06
122 13 0.04
123 82 0.24
124 51 0.15
125 6 0.02
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (122 bp):
GTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTTTTTCAAGCCAACACGAGTTGGTGGC
ACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACATCAGTTG
Found at i:4111450 original size:62 final size:62
Alignment explanation
Indices: 4110912--4111449 Score: 598
Period size: 62 Copynumber: 8.8 Consensus size: 62
4110902 CCACAACTTC
* * * *
4110912 GTGGCACCCCTTTAG-CCTTCAAATAGCAGGATGCCTTTTTCTTTTCAAAGCCTACATGAGTTG
1 GTGGCA-CCCTTTAGTCC-TCAAAGAGCAGGATGCCTTTTCCTTTTCAAAGCCCACACGAGTTG
* * *** * **
4110975 GTGGCACCCTTTAGTCCTCAAAGAGTATGACATCTTCTTCATTTTC-AAGCCCACTTGAGTTG
1 GTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTT-TTCCTTTTCAAAGCCCACACGAGTTG
* * ** * *
4111037 GTGGCA-CCTTTAGTCCTCAAAGAGTAGGATGCCTTTT-TTTTTC-AAGCTAATACGAATTG
1 GTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTCAAAGCCCACACGAGTTG
*
4111096 GTGGCA-CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAA-CCCACATC-AGTTG
1 GTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTCAAAGCCCACA-CGAGTTG
* * * * *
4111156 GTGGTATCTTTTAGTCCTCAAAGAGCAGGACGTCTTTT--TTTTC-AAGCCCACACGAGTTG
1 GTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTCAAAGCCCACACGAGTTG
* *
4111215 GTGGCATCCTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTT-AAAGCCCACACGAGTTG
1 GTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTCAAAGCCCACACGAGTTG
* * * * *
4111276 ATGGCACCCTATAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTTAAGGCCCACACGAGTTG
1 GTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTCAAAGCCCACACGAGTTG
* * * * *
4111338 GTGGCACTCTTTAGTCCTCAAAG-GATAGGATGCTTTTTCCTTTTCAAAGCACACATGAGTTG
1 GTGGCACCCTTTAGTCCTCAAAGAG-CAGGATGCCTTTTCCTTTTCAAAGCCCACACGAGTTG
* *
4111400 GTGGCACCCTTTAGTCCTTAAAGAGCAAGATGCCTTTTCCTTTTCAAAGC
1 GTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTCAAAGC
4111450 AAAATTTTCA
Statistics
Matches: 406, Mismatches: 55, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
58 3 0.01
59 100 0.25
60 19 0.05
61 116 0.29
62 152 0.37
63 16 0.04
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (62 bp):
GTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTCAAAGCCCACACGAGTTG
Found at i:4112836 original size:20 final size:21
Alignment explanation
Indices: 4112797--4112851 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
4112787 TTTTAACCCA
*
4112797 AATGTATCGATACAATAAGTG
1 AATGTATCAATACAATAAGTG
*
4112818 AATGTATCAATGC-ATAAGTG
1 AATGTATCAATACAATAAGTG
*
4112838 AATGTATCGATACA
1 AATGTATCAATACA
4112852 TTCTTGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (21 bp):
AATGTATCAATACAATAAGTG
Found at i:4112909 original size:165 final size:165
Alignment explanation
Indices: 4112637--4112975 Score: 473
Period size: 165 Copynumber: 2.1 Consensus size: 165
4112627 TCCTAACAGC
* * *
4112637 ATCGATACAATAAGTGAGCATATCAATACATAAGTGAATGTATCGATACATGGTTGAAATGTATT
1 ATCGATACAATAAGTGAACATATCAATACATAAGTGAATGTATCGATACATGCTTGAAATGTATC
* * *
4112702 GATACTGGACCGTGTCGAAGCAAATTTTTCATTCTAGAAAGAAAATATAT-TGATACATTTTTTA
66 GATACTGGACCATGTCGAAGCAAATTTTGCATTCTAGAAAGAAAATATATCT-ATACATTTTTCA
* *
4112766 TAGTATCGATACATTCTGGGTTTTTAACCCAAATGT
130 TAGTATCGATACATTATGGGTTCTTAACCCAAATGT
** * *
4112802 ATCGATACAATAAGTGAATGTATCAATGCATAAGTGAATGTATCGATACATTCTTGAAATGTATC
1 ATCGATACAATAAGTGAACATATCAATACATAAGTGAATGTATCGATACATGCTTGAAATGTATC
* * * * * *
4112867 GATACTGGATCATGTCGAAGCAAATTTTGCATTTTGGAAAGAAAATGTCTCTATATATTTTTCAT
66 GATACTGGACCATGTCGAAGCAAATTTTGCATTCTAGAAAGAAAATATATCTATACATTTTTCAT
* * *
4112932 TGTATTGATACATTATGGGTTCTTGACCCAAATGT
131 AGTATCGATACATTATGGGTTCTTAACCCAAATGT
4112967 ATCGATACA
1 ATCGATACA
4112976 TATTTTAATG
Statistics
Matches: 152, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
165 151 0.99
166 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (165 bp):
ATCGATACAATAAGTGAACATATCAATACATAAGTGAATGTATCGATACATGCTTGAAATGTATC
GATACTGGACCATGTCGAAGCAAATTTTGCATTCTAGAAAGAAAATATATCTATACATTTTTCAT
AGTATCGATACATTATGGGTTCTTAACCCAAATGT
Found at i:4115301 original size:98 final size:97
Alignment explanation
Indices: 4115119--4115307 Score: 243
Period size: 98 Copynumber: 1.9 Consensus size: 97
4115109 TTATTCACGA
* * * * *
4115119 GGATACTCCAACCCTATTCTTTCGAGGGGATACTCCAACCTCTTTTTTAAACTCATCAAGATTTA
1 GGATACTCCAACCCTATTCTTCCAAGAGGATACTCCAACCCCTGTTTTAAACTCATCAAGATTTA
**
4115184 AACCTTATTTTTGTGTAAATTATCATCATCAG
66 AACCTTATTTTTGCCTAAATTATCATCATCAG
* * * * *
4115216 GGATACTCCAACCCTATTCTTCCAATAGGATACTCTAACCCCGTGTTTTGAACTCGTCGAGATTT
1 GGATACTCCAACCCTATTCTTCCAAGAGGATACTCCAACCCC-TGTTTTAAACTCATCAAGATTT
* *
4115281 AAATCTTATTTTTGCCTAAATTGTCAT
65 AAACCTTATTTTTGCCTAAATTATCAT
4115308 TGTCGAGGAC
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
97 36 0.47
98 41 0.53
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (97 bp):
GGATACTCCAACCCTATTCTTCCAAGAGGATACTCCAACCCCTGTTTTAAACTCATCAAGATTTA
AACCTTATTTTTGCCTAAATTATCATCATCAG
Found at i:4115322 original size:98 final size:97
Alignment explanation
Indices: 4115116--4115352 Score: 255
Period size: 97 Copynumber: 2.4 Consensus size: 97
4115106 ATTTTATTCA
* * * * * *
4115116 CGAGGATACTCCAACCCTATTCTTTCGAGGGGATACTCCAACCTCTTTTTTAAACTCATCAAGAT
1 CGAGGATACTCCAACCCTATTCTTCCAAGAGGATACTCTAACCCCTGTTTTAAACTCATCAAGAT
**
4115181 TTAAACCTTATTTTTGTGTAAATTATCATCAT
66 TTAAACCTTATTTTTGCCTAAATTATCATCAT
* * * *
4115213 C-AGGGATACTCCAACCCTATTCTTCCAATAGGATACTCTAACCCCGTGTTTTGAACTCGTCGAG
1 CGA-GGATACTCCAACCCTATTCTTCCAAGAGGATACTCTAACCCC-TGTTTTAAACTCATCAAG
* * **
4115277 ATTTAAATCTTATTTTTGCCTAAATTGTCATTGT
64 ATTTAAACCTTATTTTTGCCTAAATTATCATCAT
* * *
4115311 CGAGGACACTCC-GCTCC-ATTCCTCCAAGAGGATACTCTAACC
1 CGAGGATACTCCAAC-CCTATTCTTCCAAGAGGATACTCTAACC
4115353 TTATTTTTCA
Statistics
Matches: 116, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
96 1 0.01
97 61 0.53
98 53 0.46
99 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (97 bp):
CGAGGATACTCCAACCCTATTCTTCCAAGAGGATACTCTAACCCCTGTTTTAAACTCATCAAGAT
TTAAACCTTATTTTTGCCTAAATTATCATCAT
Found at i:4117922 original size:22 final size:22
Alignment explanation
Indices: 4117871--4117923 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
4117861 GTTTCAATTA
*
4117871 CTGCTTGCTGGAATTTTGGTTG
1 CTGCTTGCTAGAATTTTGGTTG
** *
4117893 CTATTTGCTAGAGTTTTGGTTG
1 CTGCTTGCTAGAATTTTGGTTG
4117915 CTGCTTGCT
1 CTGCTTGCT
4117924 CTCTTCTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.09, C:0.15, G:0.28, T:0.47
Consensus pattern (22 bp):
CTGCTTGCTAGAATTTTGGTTG
Found at i:4118401 original size:29 final size:29
Alignment explanation
Indices: 4118369--4118436 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
4118359 GTTTTATTGG
*
4118369 TGTCTTCATTACAGCAGCAGTTTCTTTTT
1 TGTCTTCATTACAGCAACAGTTTCTTTTT
* * * *
4118398 TGTCTTCATTGCTGTAACTGTTTCTTTTT
1 TGTCTTCATTACAGCAACAGTTTCTTTTT
4118427 TGTCTTCATT
1 TGTCTTCATT
4118437 GCTACAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.13, C:0.19, G:0.13, T:0.54
Consensus pattern (29 bp):
TGTCTTCATTACAGCAACAGTTTCTTTTT
Found at i:4118445 original size:29 final size:29
Alignment explanation
Indices: 4118388--4118445 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
4118378 TACAGCAGCA
**
4118388 GTTTCTTTTTTGTCTTCATTGCTGTAACT
1 GTTTCTTTTTTGTCTTCATTGCTACAACT
4118417 GTTTCTTTTTTGTCTTCATTGCTACAACT
1 GTTTCTTTTTTGTCTTCATTGCTACAACT
4118446 TAATTGCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.12, C:0.19, G:0.12, T:0.57
Consensus pattern (29 bp):
GTTTCTTTTTTGTCTTCATTGCTACAACT
Found at i:4118929 original size:14 final size:13
Alignment explanation
Indices: 4118910--4118957 Score: 66
Period size: 14 Copynumber: 3.8 Consensus size: 13
4118900 AATTATACTA
4118910 TTTTATTATTATAT
1 TTTTATTATTAT-T
4118924 TTTTATTATTATT
1 TTTTATTATTATT
4118937 TTTT-TT-TTATT
1 TTTTATTATTATT
4118948 TTTTA-TATTA
1 TTTTATTATTA
4118958 ATGTTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.31
12 5 0.16
13 5 0.16
14 12 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTATTATTATT
Found at i:4120436 original size:15 final size:15
Alignment explanation
Indices: 4120416--4120444 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4120406 CATTCCCAAC
4120416 AGATTTGAAAATTTT
1 AGATTTGAAAATTTT
4120431 AGATTTGAAAATTT
1 AGATTTGAAAATTT
4120445 CAGTAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (15 bp):
AGATTTGAAAATTTT
Found at i:4121425 original size:106 final size:107
Alignment explanation
Indices: 4121270--4121477 Score: 257
Period size: 106 Copynumber: 2.0 Consensus size: 107
4121260 ATTTTAAAAT
4121270 TTATGAAATAAATTGAATTTTTCAAAACTGATTTAAAGAAAGTCTAATGACAATA-TTAGATGAA
1 TTATGAAATAAATTGAATTTTTCAAAACTGATTTAAAGAAAGTCTAATGACAATACTT-GATGAA
** *
4121334 TTTTAAAAATTTTAAACTAAGAAAAA-TCTCCCCAAAAATATC
65 TTCAAAAAATTATAAACTAAGAAAAATTCTCCCCAAAAATATC
* *
4121376 TTATGAAAATAAATT-AATTTTTTAAAACTGATTTAATATG-AA-T-TAAATGATAATACTTGAT
1 TTATG-AAATAAATTGAATTTTTCAAAACTGATTTAA-A-GAAAGTCT-AATGACAATACTTGAT
* * *
4121437 TAATTCAAAAAATTATAAATTAAGAAAAATTCTCCCGAAAA
62 GAATTCAAAAAATTATAAACTAAGAAAAATTCTCCCCAAAA
4121478 TATTACAGAG
Statistics
Matches: 88, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
105 1 0.01
106 62 0.70
107 24 0.27
108 1 0.01
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.35
Consensus pattern (107 bp):
TTATGAAATAAATTGAATTTTTCAAAACTGATTTAAAGAAAGTCTAATGACAATACTTGATGAAT
TCAAAAAATTATAAACTAAGAAAAATTCTCCCCAAAAATATC
Found at i:4121523 original size:17 final size:18
Alignment explanation
Indices: 4121501--4121550 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
4121491 AAAACTCTAT
4121501 ATCTCAAAAATAA-GAAA
1 ATCTCAAAAATAATGAAA
*
4121518 ATCTCAAAAAAAAATGAAA
1 ATCTC-AAAAATAATGAAA
*
4121537 ATTTCATAAAATAA
1 ATCTCA-AAAATAA
4121551 AAGGAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 5 0.19
18 8 0.30
19 14 0.52
ACGTcount: A:0.64, C:0.10, G:0.04, T:0.22
Consensus pattern (18 bp):
ATCTCAAAAATAATGAAA
Found at i:4124329 original size:20 final size:19
Alignment explanation
Indices: 4124304--4124344 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
4124294 CATTGGGCTC
*
4124304 AATGTATCAATACAATTCAT
1 AATGTATCAACACAATT-AT
4124324 AATGTATCAACACAATTAT
1 AATGTATCAACACAATTAT
4124343 AA
1 AA
4124345 CCGTTAGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.32
Consensus pattern (19 bp):
AATGTATCAACACAATTAT
Found at i:4124465 original size:33 final size:33
Alignment explanation
Indices: 4124428--4124505 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
4124418 CATTTTATGG
* *
4124428 TGTATTGATACAATGCATCGATACCAAGTAATA
1 TGTATCGATACAATGCATCGATACCAAGTAAAA
** *
4124461 TGTATCGATGTAATGTATCGATACCAAGTAAAA
1 TGTATCGATACAATGCATCGATACCAAGTAAAA
4124494 TGTATCGATACA
1 TGTATCGATACA
4124506 TCTGGGTGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAATGCATCGATACCAAGTAAAA
Found at i:4124469 original size:20 final size:19
Alignment explanation
Indices: 4124439--4124504 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 19
4124429 GTATTGATAC
*
4124439 AATGCATCGATACCAAGTA
1 AATGTATCGATACCAAGTA
4124458 ATATGTATCGAT-----GT-
1 A-ATGTATCGATACCAAGTA
4124472 AATGTATCGATACCAAGTAA
1 AATGTATCGATACCAAGT-A
4124492 AATGTATCGATAC
1 AATGTATCGATAC
4124505 ATCTGGGTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 15
0.70 0.02 0.28
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
18 2 0.05
19 1 0.03
20 22 0.58
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACCAAGTA
Found at i:4125231 original size:58 final size:57
Alignment explanation
Indices: 4124943--4125439 Score: 360
Period size: 58 Copynumber: 8.6 Consensus size: 57
4124933 GCACTTTCAA
* * * *
4124943 GTCACTTTCCATGATTTAAAGACTTTGATGTAATTTTGTGAATGTTGATGTTATTTAG
1 GTCATTTTCCATGA-TTAAGGACTTTGATGTAATTTTGTGAATTTTGATGTCATTTAG
* * * * * * *
4125001 GTGATTTT-CATGGCTTAGGGAATTTGATGCAATTTTGTAAATTTTAATGTCATTTAG
1 GTCATTTTCCAT-GATTAAGGACTTTGATGTAATTTTGTGAATTTTGATGTCATTTAG
* * * * * *
4125058 GCCATTCTT-CATGATCTATGGA-TTTGATATAATTTTATAAATTTTGATGTTATTTAG
1 GTCATT-TTCCATGAT-TAAGGACTTTGATGTAATTTTGTGAATTTTGATGTCATTTAG
* * * * * * * * *
4125115 ATCAATTTCCTTGACTT-AGTGATTTTGAAGCAATGTTATGAATTTTGATATCATTTAG
1 GTCATTTTCCATGA-TTAAG-GACTTTGATGTAATTTTGTGAATTTTGATGTCATTTAG
* * *
4125173 GTTATTTTCCATGACTTAAGGACTTTGATGTAATTTTGTGAATTTTTATGTTATTTAG
1 GTCATTTTCCATGA-TTAAGGACTTTGATGTAATTTTGTGAATTTTGATGTCATTTAG
* * * * * *
4125231 GACATTTTTCATGATCT-AGGAACTTTAATGTAATTTTATAAATTTTAATGTCATTTAG
1 GTCATTTTCCATGAT-TAAGG-ACTTTGATGTAATTTTGTGAATTTTGATGTCATTTAG
* * * * * *
4125289 GTTATTTTTCCATGATTCAGAGACTTTGATGCAAATTTGTGAATTTTGATATCATTTAA
1 GTCA-TTTTCCATGATTAAG-GACTTTGATGTAATTTTGTGAATTTTGATGTCATTTAG
* ** * * *
4125348 GTCATTTTCTATGATCGAGGAAC-TTGATGCAATTTTATGAACTTTGATGTCATTTA-
1 GTCATTTTCCATGATTAAGG-ACTTTGATGTAATTTTGTGAATTTTGATGTCATTTAG
* * * * *
4125404 ATCATTTTTCATGATCTAAGAACTTTAATATAATTT
1 GTCATTTTCCATGAT-TAAGGACTTTGATGTAATTT
4125440 CATACATATT
Statistics
Matches: 343, Mismatches: 80, Indels: 33
0.75 0.18 0.07
Matches are distributed among these distances:
56 17 0.05
57 129 0.38
58 150 0.44
59 46 0.13
60 1 0.00
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (57 bp):
GTCATTTTCCATGATTAAGGACTTTGATGTAATTTTGTGAATTTTGATGTCATTTAG
Found at i:4125275 original size:116 final size:115
Alignment explanation
Indices: 4124948--4125439 Score: 414
Period size: 116 Copynumber: 4.3 Consensus size: 115
4124938 TTCAAGTCAC
* * **
4124948 TTTCCATGATTTAAAGACTTTGATGTAATTTTGTGAATGTTGATGTTATTTAGGTGATTTTCATG
1 TTTCCATGA-TTAAGGACTTTGATGTAATTTTGTGAATTTTGATGTTATTTAGGACATTTTCATG
* * * **
4125013 -GCTTAGGGAA-TTTGATGCAATTTTGTAAATTTTAATGTCATTTAGGCCAT
65 ATCTTA-GGAACTTTAATGCAATTTTATAAATTTTAATGTCATTTAGGTTAT
* * * * *
4125063 TCTT-CATGATCTATGGA-TTTGATATAATTTTATAAATTTTGATGTTATTTA-GATCAATTTCC
1 T-TTCCATGAT-TAAGGACTTTGATGTAATTTTGTGAATTTTGATGTTATTTAGGA-C-ATTTTC
* * * * * *
4125125 TTGA-CTTAGTG-ATTTTGAA-GCAATGTTATGAATTTTGATATCATTTAGGTTAT
62 ATGATCTTAG-GAACTTT-AATGCAATTTTATAAATTTTAATGTCATTTAGGTTAT
*
4125178 TTTCCATGACTTAAGGACTTTGATGTAATTTTGTGAATTTTTATGTTATTTAGGACATTTTTCAT
1 TTTCCATGA-TTAAGGACTTTGATGTAATTTTGTGAATTTTGATGTTATTTAGGACA-TTTTCAT
*
4125243 GATC-TAGGAACTTTAATGTAATTTTATAAATTTTAATGTCATTTAGGTTATT
64 GATCTTAGGAACTTTAATGCAATTTTATAAATTTTAATGTCATTTAGGTTA-T
* * * * * * *
4125295 TTTCCATGATTCAGAGACTTTGATGCAAATTTGTGAATTTTGATATCATTTAAGTCATTTTCTAT
1 TTTCCATGATTAAG-GACTTTGATGTAATTTTGTGAATTTTGATGTTATTTAGGACATTTTC-AT
* * * * * * *
4125360 GATC-GAGGAAC-TTGATGCAATTTTATGAACTTTGATGTCATTTA-ATCAT
64 GATCTTAGGAACTTTAATGCAATTTTATAAATTTTAATGTCATTTAGGTTAT
* * * *
4125409 TTTTCATGATCTAAGAACTTTAATATAATTT
1 TTTCCATGAT-TAAGGACTTTGATGTAATTT
4125440 CATACATATT
Statistics
Matches: 303, Mismatches: 54, Indels: 41
0.76 0.14 0.10
Matches are distributed among these distances:
113 1 0.00
114 56 0.18
115 72 0.24
116 114 0.38
117 60 0.20
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (115 bp):
TTTCCATGATTAAGGACTTTGATGTAATTTTGTGAATTTTGATGTTATTTAGGACATTTTCATGA
TCTTAGGAACTTTAATGCAATTTTATAAATTTTAATGTCATTTAGGTTAT
Found at i:4125471 original size:173 final size:170
Alignment explanation
Indices: 4124948--4125480 Score: 472
Period size: 173 Copynumber: 3.1 Consensus size: 170
4124938 TTCAAGTCAC
* * * * * * *
4124948 TTTCCATGATTTAAAGACTTTGATGTAATTTTGTGAATGTTGATGTTATTTAGGTGATTTTCATG
1 TTTCCATGA-TTAGAGACTTTGATGCAAATTTGTGAATTTTGATATCATTTAGGTCATTTTCAT-
* * * * * * * *
4125013 GCTTAGGGAATTTGATGCAATTTTGTAAATTTTAATGTCATTTAGGCCATTCTTCATGATCTATG
64 GATCAAGGAACTTGATGCAATTTTGTGAATTTTAATGTCATTTA-GACATTTTTCATGATCTAAG
* * * *
4125078 GA-TTTGATATAATTTTATAAATTTTGATGTTATTT-AGATCA-A
128 AACTTTAATATAATTTTATAAATTTAGATG-TATTTAAG-TCATT
* * * * * *
4125120 TTTCCTTGACTTAGTGATTTTGAAGC-AATGTTATGAATTTTGATATCATTTAGGTTATTTTCCA
1 TTTCCATGA-TTAGAGACTTTGATGCAAAT-TTGTGAATTTTGATATCATTTAGGTCATTTT-CA
* * * *
4125184 TGACTTAAGG-ACTTTGATGTAATTTTGTGAATTTTTATGTTATTTAGGACATTTTTCATGATCT
63 TGA-TCAAGGAAC-TTGATGCAATTTTGTGAATTTTAATGTCATTTA-GACATTTTTCATGATCT
* * * *
4125248 AGGAACTTTAATGTAATTTTATAAATTTTA-ATGTCATTTAGGTTATT
125 AAGAACTTTAATATAATTTTATAAA-TTTAGATGT-ATTTAAGTCATT
*
4125295 TTTCCATGATTCAGAGACTTTGATGCAAATTTGTGAATTTTGATATCATTTAAGTCATTTTCTAT
1 TTTCCATGATT-AGAGACTTTGATGCAAATTTGTGAATTTTGATATCATTTAGGTCATTTTC-AT
* * * *
4125360 GATCGAGGAACTTGATGCAATTTTATGAACTTTGATGTCATTTA-ATCATTTTTCATGATCTAAG
64 GATCAAGGAACTTGATGCAATTTTGTGAATTTTAATGTCATTTAGA-CATTTTTCATGATCTAAG
* *
4125424 AACTTTAATATAATTTCATACATATTAGA-GATATTTAAGTCATT
128 AACTTTAATATAATTTTATAAAT-TTAGATG-TATTTAAGTCATT
4125468 TTT-CATGACTTAG
1 TTTCCATGA-TTAG
4125481 GAATTACTAT
Statistics
Matches: 293, Mismatches: 50, Indels: 36
0.77 0.13 0.09
Matches are distributed among these distances:
171 2 0.01
172 56 0.19
173 112 0.38
174 63 0.22
175 57 0.19
176 3 0.01
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (170 bp):
TTTCCATGATTAGAGACTTTGATGCAAATTTGTGAATTTTGATATCATTTAGGTCATTTTCATGA
TCAAGGAACTTGATGCAATTTTGTGAATTTTAATGTCATTTAGACATTTTTCATGATCTAAGAAC
TTTAATATAATTTTATAAATTTAGATGTATTTAAGTCATT
Found at i:4127194 original size:2 final size:2
Alignment explanation
Indices: 4127187--4127213 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4127177 AAAAGTGGAA
4127187 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4127214 AAGAATCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4128145 original size:2 final size:2
Alignment explanation
Indices: 4128099--4128137 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4128089 CATGCATGTT
4128099 TA TA TA TA 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 TA TA TA TA T
4128138 GAATATATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4128950 original size:29 final size:28
Alignment explanation
Indices: 4128894--4128961 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
4128884 ATGAATTATT
*
4128894 AATATACTAAAAAATTATATAAATATAA
1 AATATATTAAAAAATTATATAAATATAA
* *
4128922 AATATTTTAAAATAATTATA-ATATAATAA
1 AATATATTAAAA-AATTATATAAAT-ATAA
4128951 AATATATTAAA
1 AATATATTAAA
4128962 TGTCTAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 13 0.38
29 21 0.62
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (28 bp):
AATATATTAAAAAATTATATAAATATAA
Found at i:4128954 original size:10 final size:10
Alignment explanation
Indices: 4128919--4128961 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
4128909 TATATAAATA
*
4128919 TAAAATATTT
1 TAAAATATAT
4128929 TAAAATA-AT
1 TAAAATATAT
* *
4128938 TATAATATAA
1 TAAAATATAT
4128948 TAAAATATAT
1 TAAAATATAT
4128958 TAAA
1 TAAA
4128962 TGTCTAGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.26
10 20 0.74
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TAAAATATAT
Found at i:4133626 original size:29 final size:29
Alignment explanation
Indices: 4133594--4133690 Score: 128
Period size: 29 Copynumber: 3.4 Consensus size: 29
4133584 TATAAACATC
*
4133594 ATTTATTA-TTAAGAATAAAAATAATTTTA
1 ATTTATTATTTAA-AATAAATATAATTTTA
* *
4133623 ATTTATTATTTAATATAAATATAATTTTT
1 ATTTATTATTTAAAATAAATATAATTTTA
4133652 ATTTATTATTTAACAA-AAATATAATTTTA
1 ATTTATTATTTAA-AATAAATATAATTTTA
4133681 ATTTA-TATTT
1 ATTTATTATTT
4133691 TATTTTCTAC
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.08
29 51 0.84
30 5 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
ATTTATTATTTAAAATAAATATAATTTTA
Found at i:4133693 original size:36 final size:35
Alignment explanation
Indices: 4133634--4133719 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 35
4133624 TTTATTATTT
* * *
4133634 AATATAAATATAATTTTTATTTATTATT-TAAC-AAA
1 AATATAATTTTAATTTATATTTATT-TTCT-ACTAAA
*
4133669 AATATAATTTTAATTTATATTTTATTTTCTACTATA
1 AATATAATTTTAATTTATA-TTTATTTTCTACTAAA
4133705 AATATAATTTTAATT
1 AATATAATTTTAATT
4133720 ATTTATTATG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
35 20 0.45
36 24 0.55
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (35 bp):
AATATAATTTTAATTTATATTTATTTTCTACTAAA
Found at i:4135083 original size:3 final size:3
Alignment explanation
Indices: 4135075--4135109 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
4135065 TTACAAACAA
*
4135075 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4135110 AACAGAGGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:4136587 original size:2 final size:2
Alignment explanation
Indices: 4136580--4136605 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4136570 TCAATTTCTT
4136580 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
4136606 AAAGAATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4136777 original size:17 final size:17
Alignment explanation
Indices: 4136755--4136795 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4136745 ATAAAAAATT
* *
4136755 AAATAATTTATAATACC
1 AAATAATTGACAATACC
*
4136772 AAATAATTGACAATGCC
1 AAATAATTGACAATACC
4136789 AAATAAT
1 AAATAAT
4136796 AATTTTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (17 bp):
AAATAATTGACAATACC
Found at i:4136866 original size:20 final size:20
Alignment explanation
Indices: 4136841--4136881 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
4136831 TATCCATTAC
4136841 TTATTTATTTA-AAAAAACTA
1 TTATTT-TTTACAAAAAACTA
4136861 TTATTTTTTACTAAAAAACTA
1 TTATTTTTTAC-AAAAAACTA
4136882 ACCATCTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 9 0.47
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATTTTTTACAAAAAACTA
Found at i:4138019 original size:12 final size:12
Alignment explanation
Indices: 4137979--4138027 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
4137969 AATTATGATA
*
4137979 ATATTTATATTT
1 ATATTAATATTT
*
4137991 AAATT-ATATTT
1 ATATTAATATTT
*
4138002 -TA-TAATTTTT
1 ATATTAATATTT
4138012 ATATTAATATTT
1 ATATTAATATTT
4138024 ATAT
1 ATAT
4138028 ATTTATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
9 1 0.03
10 6 0.20
11 8 0.27
12 15 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATATTAATATTT
Found at i:4138030 original size:14 final size:13
Alignment explanation
Indices: 4137977--4138027 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
4137967 TAAATTATGA
4137977 TAATATTTATATT
1 TAATATTTATATT
4137990 TAA-A-TTATATT
1 TAATATTTATATT
* *
4138001 TTATAATTTTTATAT
1 TAAT-ATTTATAT-T
4138016 TAATATTTATAT
1 TAATATTTATAT
4138028 ATTTATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 4 0.13
14 12 0.40
15 4 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TAATATTTATATT
Found at i:4138038 original size:21 final size:20
Alignment explanation
Indices: 4137977--4138039 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 20
4137967 TAAATTATGA
4137977 TAATA-TTTATATTTA-AAT
1 TAATATTTTATATTTATAAT
*
4137995 T-ATATTTTATAATTTTTATAT
1 TAATATTTTAT-ATTTATA-AT
4138016 TAATATTTATATATTTATAAT
1 TAATATTT-TATATTTATAAT
4138037 TAA
1 TAA
4138040 ATAAAATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 3 0.08
18 6 0.16
19 4 0.11
20 1 0.03
21 8 0.22
22 12 0.32
23 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TAATATTTTATATTTATAAT
Found at i:4138490 original size:20 final size:20
Alignment explanation
Indices: 4138441--4138491 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 20
4138431 ATATTTAATA
4138441 AATATAATATT-AA-AATTTT
1 AATAT-ATATTAAATAATTTT
4138460 AATAT-TA-TAAATAATTTT
1 AATATATATTAAATAATTTT
4138478 AATATATATTAAAT
1 AATATATATTAAAT
4138492 TTATCAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.04
17 4 0.14
18 11 0.39
19 7 0.25
20 5 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATATATTAAATAATTTT
Found at i:4138682 original size:17 final size:16
Alignment explanation
Indices: 4138662--4138742 Score: 61
Period size: 17 Copynumber: 5.3 Consensus size: 16
4138652 TTTATTAAAA
4138662 TAAAATA-AAAATTATTT
1 TAAAATATAAAA-TA-TT
4138679 TAAAAATATAAAATATT
1 T-AAAATATAAAATATT
4138696 TAAAAT-T---ATATT
1 TAAAATATAAAATATT
*
4138708 T-AAA-A-AATATATT
1 TAAAATATAAAATATT
4138721 TAAAATATAAAAATATT
1 TAAAATAT-AAAATATT
4138738 TAAAA
1 TAAAA
4138743 ATTATATTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
11 3 0.06
12 6 0.11
13 6 0.11
14 3 0.06
15 2 0.04
16 5 0.09
17 16 0.30
18 8 0.15
19 4 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAAATATAAAATATT
Found at i:4138684 original size:12 final size:13
Alignment explanation
Indices: 4138667--4138750 Score: 64
Period size: 13 Copynumber: 6.0 Consensus size: 13
4138657 TAAAATAAAA
4138667 TAAAAATTAT-TT
1 TAAAAATTATATT
4138679 TAAAAATATAAAATATT
1 TAAAAAT-T---ATATT
4138696 T-AAAATTATATT
1 TAAAAATTATATT
*
4138708 TAAAAAATATATT
1 TAAAAATTATATT
*
4138721 TAAAATATAAAAATATT
1 TAAAA-AT---TATATT
4138738 TAAAAATTATATT
1 TAAAAATTATATT
4138751 ATTTAAATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
12 13 0.22
13 21 0.36
14 1 0.02
15 1 0.02
16 9 0.16
17 13 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TAAAAATTATATT
Found at i:4138686 original size:18 final size:17
Alignment explanation
Indices: 4138663--4138757 Score: 61
Period size: 16 Copynumber: 6.1 Consensus size: 17
4138653 TTATTAAAAT
4138663 AAAATA-AAAATTATTTTA
1 AAAATATAAAA-TA-TTTA
4138681 AAAATATAAAATATTT-
1 AAAATATAAAATATTTA
4138697 AAAAT-T---ATATTTA
1 AAAATATAAAATATTTA
4138710 AAAA-AT---ATATTT-
1 AAAATATAAAATATTTA
4138722 AAAATATAAAAATATTTA
1 AAAATAT-AAAATATTTA
* *
4138740 AAAAT-TATATTATTTA
1 AAAATATAAAATATTTA
4138756 AA
1 AA
4138758 TATTAATAGA
Statistics
Matches: 66, Mismatches: 2, Indels: 20
0.75 0.02 0.23
Matches are distributed among these distances:
12 10 0.15
13 13 0.20
15 1 0.02
16 15 0.23
17 10 0.15
18 13 0.20
19 4 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATATAAAATATTTA
Found at i:4138693 original size:30 final size:30
Alignment explanation
Indices: 4138657--4138744 Score: 76
Period size: 30 Copynumber: 3.0 Consensus size: 30
4138647 GAGTTTTTAT
4138657 TAAAATAAAATAAAAATTATTTTAAAAATA
1 TAAAATAAAATAAAAATTATTTTAAAAATA
* *
4138687 TAAAAT--ATTTAAAATTATATTTAAAAA-A
1 TAAAATAAAATAAAAATTAT-TTTAAAAATA
** *
4138715 TATATTTAAAATATAAAAATA-TTTAAAAAT
1 TA-AAATAAAATA-AAAATTATTTTAAAAAT
4138745 TATATTATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
28 13 0.29
29 10 0.22
30 14 0.31
31 2 0.04
32 6 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
TAAAATAAAATAAAAATTATTTTAAAAATA
Found at i:4138723 original size:42 final size:42
Alignment explanation
Indices: 4138667--4138750 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
4138657 TAAAATAAAA
*
4138667 TAAAAATTATTTTAAAA-ATATAAAATATTT-AAAATTATATT
1 TAAAAAATATTTTAAAATATA-AAAATATTTAAAAATTATATT
4138708 TAAAAAATATATTTAAAATATAAAAATATTTAAAAATTATATT
1 TAAAAAATAT-TTTAAAATATAAAAATATTTAAAAATTATATT
4138751 ATTTAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
41 9 0.23
42 16 0.41
43 14 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (42 bp):
TAAAAAATATTTTAAAATATAAAAATATTTAAAAATTATATT
Found at i:4138727 original size:11 final size:11
Alignment explanation
Indices: 4138691--4138729 Score: 51
Period size: 11 Copynumber: 3.3 Consensus size: 11
4138681 AAAATATAAA
4138691 ATATTTAAAATT
1 ATATTTAAAA-T
4138703 ATATTTAAAAAAT
1 ATATTT--AAAAT
4138716 ATATTTAAAAT
1 ATATTTAAAAT
4138727 ATA
1 ATA
4138730 AAAATATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 8 0.32
12 6 0.24
13 7 0.28
14 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATTTAAAAT
Found at i:4138760 original size:43 final size:41
Alignment explanation
Indices: 4138667--4138750 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 41
4138657 TAAAATAAAA
*
4138667 TAAAAATTAT-TTTAAAAATATAAAATATTTAAAATTATATT
1 TAAAAAATATATTT-AAAATATAAAATATTTAAAATTATATT
4138708 TAAAAAATATATTTAAAATATAAAAATATTTAAAAATTATATT
1 TAAAAAATATATTTAAAATAT-AAAATATTT-AAAATTATATT
4138751 ATTTAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
41 16 0.41
42 12 0.31
43 11 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (41 bp):
TAAAAAATATATTTAAAATATAAAATATTTAAAATTATATT
Found at i:4139064 original size:66 final size:66
Alignment explanation
Indices: 4138980--4139110 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
4138970 TTTATTTTTT
*
4138980 AATATTTTACAAATTAACATGTAATTTTTTAAAAATTAAAATATCTTAATTCTAAAAATTTAAAA
1 AATATTTTACAAACTAACATGTAATTTTTTAAAAATTAAAATATCTTAATTCTAAAAATTTAAAA
4139045 C
66 C
4139046 AATATTTTA-AGAACTAACATGTAATTTTTTAAAAATTAAAATATCTTAATTCTAAAAATTTAAA
1 AATATTTTACA-AACTAACATGTAATTTTTTAAAAATTAAAATATCTTAATTCTAAAAATTTAAA
4139110 A
65 A
4139111 TAAATAATTA
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
65 1 0.02
66 62 0.98
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.40
Consensus pattern (66 bp):
AATATTTTACAAACTAACATGTAATTTTTTAAAAATTAAAATATCTTAATTCTAAAAATTTAAAA
C
Found at i:4139118 original size:23 final size:23
Alignment explanation
Indices: 4139009--4139132 Score: 74
Period size: 22 Copynumber: 5.4 Consensus size: 23
4138999 TGTAATTTTT
**
4139009 TAAAAATTAAAATATCTTAATTC
1 TAAAAATTAAAATATAATAATTC
* * *
4139032 TAAAAATTTAAA-ACAAT-ATTT
1 TAAAAATTAAAATATAATAATTC
* * * * * *
4139053 TAAGAACTAACATGTAAT-TTTT
1 TAAAAATTAAAATATAATAATTC
**
4139075 TAAAAATTAAAATATCTTAATTC
1 TAAAAATTAAAATATAATAATTC
*
4139098 TAAAAATTTAAAATAAATAATTATTC
1 TAAAAA-TTAAAAT--ATAATAATTC
4139124 TAAAAATTA
1 TAAAAATTA
4139133 CAAAATTAAA
Statistics
Matches: 73, Mismatches: 23, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
21 11 0.15
22 20 0.27
23 19 0.26
24 7 0.10
25 3 0.04
26 13 0.18
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (23 bp):
TAAAAATTAAAATATAATAATTC
Found at i:4139155 original size:28 final size:27
Alignment explanation
Indices: 4139077--4139156 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 27
4139067 TAATTTTTTA
*
4139077 AAAATTAAAATATCTTAATTCTAAAAATTT
1 AAAATTAAAATAT-TTAA--CTAAAAATTC
* *
4139107 AAAA-T-AAATAATTATTCTAAAAATTAC
1 AAAATTAAAATATTTA-ACTAAAAATT-C
4139134 AAAATTAAAATATTTAACTAAAA
1 AAAATTAAAATATTTAACTAAAA
4139157 TTTTATTTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
26 9 0.22
27 7 0.17
28 12 0.29
29 9 0.22
30 4 0.10
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (27 bp):
AAAATTAAAATATTTAACTAAAAATTC
Found at i:4140984 original size:22 final size:24
Alignment explanation
Indices: 4140946--4140989 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
4140936 AAAAACTTAC
4140946 AATTCTATTTCAAATTT-AAAATA
1 AATTCTATTTCAAATTTGAAAATA
4140969 AATTC-ATTT-AAGATTTGAAAA
1 AATTCTATTTCAA-ATTTGAAAA
4140990 AATATTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.11
22 8 0.42
23 9 0.47
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (24 bp):
AATTCTATTTCAAATTTGAAAATA
Found at i:4143740 original size:2 final size:2
Alignment explanation
Indices: 4143733--4143757 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4143723 TTGATTTATT
4143733 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 T
4143758 TGAGAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4143911 original size:17 final size:17
Alignment explanation
Indices: 4143891--4143924 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4143881 TATATAACTA
4143891 TTTTTTAA-ATATTAAAT
1 TTTTTTAACA-ATTAAAT
4143908 TTTTTTAACAATTAAAT
1 TTTTTTAACAATTAAAT
4143925 ATATCGCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTTTAACAATTAAAT
Found at i:4144004 original size:21 final size:22
Alignment explanation
Indices: 4143980--4144024 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4143970 CACAATAAAT
4143980 ATAA-TTATATTGTT-AAATTTA
1 ATAATTTAT-TTGTTAAAATTTA
*
4144001 ATAATTTATTTTTTAAAATTTA
1 ATAATTTATTTGTTAAAATTTA
4144023 AT
1 AT
4144025 CGTATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATAATTTATTTGTTAAAATTTA
Found at i:4144934 original size:20 final size:20
Alignment explanation
Indices: 4144883--4144960 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
4144873 TTAGCTAAAG
* * *
4144883 GTTTAGGACTAATGTTTAGA
1 GTTTAGGATTAGTGTTTATA
*
4144903 GTTTAGGGTTAG-GATTTATA
1 GTTTAGGATTAGTG-TTTATA
*
4144923 GTTTATGATTAGTGTTTATA
1 GTTTAGGATTAGTGTTTATA
4144943 GTTT-GAGATTAGTGTTTA
1 GTTTAG-GATTAGTGTTTA
4144961 AGGTTTAGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (20 bp):
GTTTAGGATTAGTGTTTATA
Found at i:4145469 original size:20 final size:21
Alignment explanation
Indices: 4145444--4145483 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
4145434 ATACAGCTAG
4145444 ATGTATCGATACA-TAGGCCA
1 ATGTATCGATACATTAGGCCA
4145464 ATGTATCGATACATTAGGCC
1 ATGTATCGATACATTAGGCC
4145484 TATCTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (21 bp):
ATGTATCGATACATTAGGCCA
Found at i:4148002 original size:5 final size:5
Alignment explanation
Indices: 4147992--4148040 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
4147982 ATCCTATGTA
* *
4147992 AAAAT AAAAT AAAAT AAAAT AAAAT GATA- AAAAT AAAA- AAAAT CAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
4148041 CAATAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
4 6 0.16
5 26 0.70
6 5 0.14
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4148026 original size:24 final size:25
Alignment explanation
Indices: 4147997--4148049 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
4147987 ATGTAAAAAT
*
4147997 AAAATAAAATAAAAT-AAAAT-GATA
1 AAAATAAAA-AAAATCAAAATCAATA
4148021 AAAATAAAAAAAATCAAAATCAATA
1 AAAATAAAAAAAATCAAAATCAATA
4148046 AAAA
1 AAAA
4148050 AATTAGTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 5 0.19
24 14 0.54
25 7 0.27
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (25 bp):
AAAATAAAAAAAATCAAAATCAATA
Found at i:4148064 original size:30 final size:30
Alignment explanation
Indices: 4148028--4148099 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
4148018 ATAAAAATAA
* *
4148028 AAAAAATCAAAATCAATAAAAAAATTAGTC
1 AAAAAATCAAAATCAATAAAAAAATCAATC
* *
4148058 AAAAAATTAAAATCAATCAAAAAATCAATC
1 AAAAAATCAAAATCAATAAAAAAATCAATC
*
4148088 AAAAAGTCAAAA
1 AAAAAATCAAAA
4148100 ACAAAGAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.68, C:0.11, G:0.03, T:0.18
Consensus pattern (30 bp):
AAAAAATCAAAATCAATAAAAAAATCAATC
Found at i:4148081 original size:12 final size:12
Alignment explanation
Indices: 4148066--4148097 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4148056 TCAAAAAATT
4148066 AAAATCAATCAA
1 AAAATCAATCAA
4148078 AAAATCAATCAA
1 AAAATCAATCAA
*
4148090 AAAGTCAA
1 AAAATCAA
4148098 AAACAAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.66, C:0.16, G:0.03, T:0.16
Consensus pattern (12 bp):
AAAATCAATCAA
Found at i:4149097 original size:19 final size:19
Alignment explanation
Indices: 4149073--4149140 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
4149063 AATTCAACGA
4149073 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
4149092 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
4149107 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
4149124 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
4149141 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:4149111 original size:32 final size:32
Alignment explanation
Indices: 4149075--4149137 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4149065 TTCAACGATT
*
4149075 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
4149107 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
4149138 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:4149112 original size:13 final size:13
Alignment explanation
Indices: 4149094--4149118 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4149084 ACATAAGTTT
4149094 TGTATCGATACAA
1 TGTATCGATACAA
4149107 TGTATCGATACA
1 TGTATCGATACA
4149119 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4149198 original size:13 final size:13
Alignment explanation
Indices: 4149180--4149205 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4149170 CATTTTTCTG
4149180 TGTATCGATACAT
1 TGTATCGATACAT
4149193 TGTATCGATACAT
1 TGTATCGATACAT
4149206 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4149217 original size:33 final size:33
Alignment explanation
Indices: 4149160--4149226 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
4149150 GCCAAGGAAA
*** *
4149160 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCAATACAT
*
4149193 TGTATCGATACATGGATCTTTGTATCAATACAT
1 TGTATCGATACATGGATCTGTGTATCAATACAT
4149226 T
1 T
4149227 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCAATACAT
Found at i:4151724 original size:28 final size:28
Alignment explanation
Indices: 4151688--4151764 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
4151678 ATTTTTCACA
* * *
4151688 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
4151716 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
4151744 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
4151765 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:4153367 original size:32 final size:32
Alignment explanation
Indices: 4153331--4153393 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
4153321 GTCAACGATT
4153331 TGTATCAATACATAAGTGTTGTATCGATACAA
1 TGTATCAATACATAAGTGTTGTATCGATACAA
* *
4153363 TGTATCGATACATAAGTGTTGTATTGATACA
1 TGTATCAATACATAAGTGTTGTATCGATACA
4153394 TATGAAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCAATACATAAGTGTTGTATCGATACAA
Found at i:4153368 original size:13 final size:13
Alignment explanation
Indices: 4153350--4153374 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4153340 ACATAAGTGT
4153350 TGTATCGATACAA
1 TGTATCGATACAA
4153363 TGTATCGATACA
1 TGTATCGATACA
4153375 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4153455 original size:13 final size:13
Alignment explanation
Indices: 4153437--4153461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4153427 ATTACTCAAA
4153437 TGTATCGATACAT
1 TGTATCGATACAT
4153450 TGTATCGATACA
1 TGTATCGATACA
4153462 CTGATATTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4156545 original size:19 final size:19
Alignment explanation
Indices: 4156521--4156618 Score: 85
Period size: 19 Copynumber: 5.8 Consensus size: 19
4156511 TGTCAACGAT
4156521 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
4156540 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
* *
4156554 -TGTATCAATACATAAGTG
1 TTGTATCGATACATAAGTA
4156572 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
*
4156586 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTA
4156604 TTGTATCGATACATA
1 TTGTATCGATACATA
4156619 TGAAGCTACT
Statistics
Matches: 62, Mismatches: 5, Indels: 24
0.68 0.05 0.26
Matches are distributed among these distances:
13 21 0.34
14 1 0.02
16 4 0.06
19 36 0.58
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:4156558 original size:32 final size:32
Alignment explanation
Indices: 4156522--4156616 Score: 172
Period size: 32 Copynumber: 3.0 Consensus size: 32
4156512 GTCAACGATT
*
4156522 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
4156554 TGTATCAATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
4156586 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
4156617 TATGAAGCTA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:4156559 original size:13 final size:13
Alignment explanation
Indices: 4156541--4156597 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
4156531 ACATAAGTAT
4156541 TGTATCGATACAA
1 TGTATCGATACAA
*
4156554 TGTATCAATACATAA
1 TGTATCGATAC--AA
4156569 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
4156586 TGTATCGATACA
1 TGTATCGATACA
4156598 TAAGTGTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4170677 original size:1 final size:1
Alignment explanation
Indices: 4170600--4170668 Score: 66
Period size: 1 Copynumber: 69.0 Consensus size: 1
4170590 CATCCTCCGC
** * * * * * *
4170600 AAAAAAAAGCAAAAAAAAAAAAAACAAATAAAAGAAAAAACAAAAAAAAAAACAAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4170665 AAAA
1 AAAA
4170669 TGACAAAAAG
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.88, C:0.07, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:4170677 original size:11 final size:9
Alignment explanation
Indices: 4170610--4170668 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
4170600 AAAAAAAAGC
4170610 AAAAAA-AA
1 AAAAAACAA
4170618 AAAAAACAA
1 AAAAAACAA
* *
4170627 ATAAAAGAA
1 AAAAAACAA
*
4170636 AAAACAAAAA
1 AAAA-AACAA
4170646 AAAAAACAA
1 AAAAAACAA
4170655 AAAAAACAA
1 AAAAAACAA
4170664 AAAAA
1 AAAAA
4170669 TGACAAAAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
8 6 0.14
9 30 0.68
10 8 0.18
ACGTcount: A:0.90, C:0.07, G:0.02, T:0.02
Consensus pattern (9 bp):
AAAAAACAA
Found at i:4170677 original size:28 final size:28
Alignment explanation
Indices: 4170613--4170667 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
4170603 AAAAAGCAAA
* *
4170613 AAAAAAAAAAACAAATAAAAGAAAAAAC
1 AAAAAAAAAAACAAAAAAAACAAAAAAC
4170641 AAAAAAAAAAACAAAAAAAACAAAAAA
1 AAAAAAAAAAACAAAAAAAACAAAAAA
4170668 ATGACAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.89, C:0.07, G:0.02, T:0.02
Consensus pattern (28 bp):
AAAAAAAAAAACAAAAAAAACAAAAAAC
Found at i:4172174 original size:57 final size:57
Alignment explanation
Indices: 4172113--4172271 Score: 196
Period size: 57 Copynumber: 2.8 Consensus size: 57
4172103 TCAACCTTCA
* * * **
4172113 AAAGCCCACAAGTCAGTGGCATCTTTTTAAAAACCCACAAGTT-AGTGGCA-CCTTTTC
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAACCCACAAGTTGA-TGGCACCCCATTC
* *
4172170 AAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCCCACAAGTTGATGGCACCCCATTC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAACCCACAAGTTGATGGCACCCCATTC
*
4172227 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCATACAAGTTG
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAACCC--ACAAGTTG
4172272 GTCGCATCTT
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
56 20 0.22
57 62 0.69
59 8 0.09
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.19
Consensus pattern (57 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCAAAAACCCACAAGTTGATGGCACCCCATTC
Found at i:4172178 original size:28 final size:28
Alignment explanation
Indices: 4172113--4172252 Score: 142
Period size: 28 Copynumber: 4.9 Consensus size: 28
4172103 TCAACCTTCA
* *
4172113 AAAGCCCACAAGTCAGTGGCATCTTTTTA
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTC
* *
4172142 AAAACCCACAAGTTAGTGGCACCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC
4172170 AAAGCCCACAAGTCAGTGGCAACC--TTC
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTC
* **
4172197 AGAAGCCCACAAGT-TGATGGCACCCCATTC
1 A-AAGCCCACAAGTCAG-TGGCA-CCTTTTC
4172227 AAAGCCCACAAGTCAGTGGCAACCTT
1 AAAGCCCACAAGTCAGTGGC-ACCTT
4172253 CAAAAGCCCA
Statistics
Matches: 93, Mismatches: 10, Indels: 16
0.78 0.08 0.13
Matches are distributed among these distances:
27 6 0.06
28 41 0.44
29 40 0.43
30 6 0.06
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTC
Found at i:4172448 original size:49 final size:49
Alignment explanation
Indices: 4172281--4173218 Score: 1139
Period size: 49 Copynumber: 19.1 Consensus size: 49
4172271 GGTCGCATCT
*
4172281 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGTATATT-G-A----CA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * * * *
4172325 CCTTGAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTAACCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT---CA
* *
4172377 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
4172426 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-T--
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * *
4172472 TC---AAG-CCTAATATCGTTGGCCGTGAATCAGTATATTGGCATCTTCA
1 TCTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * * * * *
4172518 CCTTCAAGCCCAATATCGTTGGCCCTGAATCAGCATATTGGCATCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
4172567 CCTTCAAGTCCAATATCGCTGGCCTTGAATCATCATATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
4172616 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
4172665 ACTTGAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
4172714 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
4172763 ACTTGAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
4172812 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
4172861 ACTTGAA-TCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCA
1 TCTTTAAGT-CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCA
* *
4172913 TCTTCTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
4172963 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* *
4173012 ACTTGAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * *
4173061 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
* * ** *
4173110 ACTTGAAACCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCA
* * *
4173162 TCTTCTAAGTCCAATGTCGATGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
4173212 TCTTTAA
1 TCTTTAA
4173219 CATTCCTAAG
Statistics
Matches: 773, Mismatches: 94, Indels: 49
0.84 0.10 0.05
Matches are distributed among these distances:
42 2 0.00
43 59 0.08
44 5 0.01
45 1 0.00
46 3 0.00
48 2 0.00
49 555 0.72
50 15 0.02
51 4 0.01
52 56 0.07
53 70 0.09
54 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (49 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
Found at i:4174085 original size:19 final size:19
Alignment explanation
Indices: 4174061--4174190 Score: 107
Period size: 19 Copynumber: 7.8 Consensus size: 19
4174051 TGTCAACGAT
4174061 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
4174080 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
*
4174094 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTA
4174112 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
*
4174126 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTA
4174144 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
*
4174158 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTA
4174176 TTGTATCGATACATA
1 TTGTATCGATACATA
4174191 TGAAGCTACT
Statistics
Matches: 88, Mismatches: 5, Indels: 36
0.68 0.04 0.28
Matches are distributed among these distances:
13 33 0.38
14 1 0.01
16 6 0.07
19 48 0.55
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:4174098 original size:32 final size:32
Alignment explanation
Indices: 4174062--4174188 Score: 245
Period size: 32 Copynumber: 4.0 Consensus size: 32
4174052 GTCAACGATT
*
4174062 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
4174094 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
4174126 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
4174158 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
4174189 TATGAAGCTA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 94 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:4174099 original size:13 final size:13
Alignment explanation
Indices: 4174081--4174169 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
4174071 ACATAAGTAT
4174081 TGTATCGATACAA
1 TGTATCGATACAA
4174094 TGTATCGATACATAA
1 TGTATCGATAC--AA
4174109 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
4174126 TGTATCGATACATAA
1 TGTATCGATAC--AA
4174141 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
4174158 TGTATCGATACA
1 TGTATCGATACA
4174170 TAAGTGTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 34 0.53
15 4 0.06
17 4 0.06
19 22 0.34
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4178107 original size:79 final size:78
Alignment explanation
Indices: 4178019--4178407 Score: 372
Period size: 78 Copynumber: 4.9 Consensus size: 78
4178009 ATAAAAATAG
* * * *
4178019 GGTTGGAGTATTCCATTGGAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATCAATATTTT
1 GGTTGGAGTATTCC-TTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTT
4178084 AGAAATAAAATCGA
65 AGAAATAAAATCGA
* * ** * * * ** *
4178098 GGTTAGAGTATCTCCTCGAAAATAATAGGGTTAGAGTATCCCC-ATTATGGAAAATTGATGTTTC
1 GGTTGGAGTAT-TCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTT
* ** *
4178162 AAAAATAAAGCCAA
65 AGAAATAAAATCGA
* * * * *
4178176 GGTTGGAGTATCCCCTCGAAAATAACGGGATTAGAGTATCCCCGATTGTGAAAAATCGATGTTTT
1 GGTTGGAGTAT-TCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTT
*
4178241 AAAAATAAAATCG-
65 AGAAATAAAATCGA
* * * * * *
4178254 GAGTTGGAGTATCCCCTCAAAATAACGGGGTTGGAGCATCTCCGA-TGATGAAAAATCAGTGTTT
1 G-GTTGGAGTATTCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTG-TGAAAAATCAATGTTT
4178318 TAGAAATAAAATCGA
64 TAGAAATAAAATCGA
* * * * *
4178333 GGTTGAAGTA-TCCTCTCAAAAATAACGGGGTTGGAGCATCCTCGATTGTGAAAAATCGATGTTT
1 GGTTGGAGTATTCCT-T-GAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTT
4178397 TAGAAATAAAA
64 TAGAAATAAAA
4178408 AATCAAAGAA
Statistics
Matches: 256, Mismatches: 46, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
77 4 0.02
78 126 0.49
79 121 0.47
80 5 0.02
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (78 bp):
GGTTGGAGTATTCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTTA
GAAATAAAATCGA
Found at i:4178215 original size:157 final size:157
Alignment explanation
Indices: 4178019--4178407 Score: 451
Period size: 157 Copynumber: 2.5 Consensus size: 157
4178009 ATAAAAATAG
* * * * * * * *
4178019 GGTTGGAGTATTCCATTGGAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATCAATATTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTT
* * * *
4178084 AGAAATAAAATC-GAGGTTAGAGTATCTCCTCGAAAATAATAGGGTTAGAGTATC-CCCATTATG
66 AGAAATAAAATCGGA-GTTAGAGTATCCCCTC-AAAATAACAGGGTTAGAGCATCTCCCATGATG
* * *
4178147 GAAAAT-TGATGTTTCAAAAATAAAGCCAA
129 AAAAATCAG-TGTTTCAAAAATAAAACCAA
* *
4178176 GGTTGGAGTATCCCCTCGAAAATAACGGGATTAGAGTATCCCCGATTGTGAAAAATCGATGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTT
* * * * *
4178241 AAAAATAAAATCGGAGTTGGAGTATCCCCTCAAAATAACGGGGTTGGAGCATCTCCGATGATGAA
66 AGAAATAAAATCGGAGTTAGAGTATCCCCTCAAAATAACAGGGTTAGAGCATCTCCCATGATGAA
* * * *
4178306 AAATCAGTGTTTTAGAAATAAAATCGA
131 AAATCAGTGTTTCAAAAATAAAACCAA
* * * * *
4178333 GGTTGAAGTATCCTCTCAAAAATAACGGGGTTGGAGCATCCTCGATTGTGAAAAATCGATGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTT
4178398 AGAAATAAAA
66 AGAAATAAAA
4178408 AATCAAAGAA
Statistics
Matches: 195, Mismatches: 34, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
156 18 0.09
157 174 0.89
158 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (157 bp):
GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTT
AGAAATAAAATCGGAGTTAGAGTATCCCCTCAAAATAACAGGGTTAGAGCATCTCCCATGATGAA
AAATCAGTGTTTCAAAAATAAAACCAA
Found at i:4182010 original size:32 final size:32
Alignment explanation
Indices: 4181955--4182023 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
4181945 GGTACTATTT
*
4181955 TCAAAACCCATAAAAATTGGTGGCAACCTTTC
1 TCAAAACCCACAAAAATTGGTGGCAACCTTTC
* *
4181987 TCAAAAGCCCACACAAATT-GTGGCATCCTTTC
1 TCAAAA-CCCACAAAAATTGGTGGCAACCTTTC
4182019 TCAAA
1 TCAAA
4182024 GTCTGCACCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 23 0.70
33 10 0.30
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.25
Consensus pattern (32 bp):
TCAAAACCCACAAAAATTGGTGGCAACCTTTC
Found at i:4182338 original size:52 final size:52
Alignment explanation
Indices: 4182266--4182483 Score: 199
Period size: 52 Copynumber: 4.2 Consensus size: 52
4182256 TGTTAGCCTT
* * *
4182266 CAGCATATTGGCA-TTCTTGTCATCTTTAAATCCAATATCGCTGGCCTTGAAC
1 CAGCATATTGGCACCT-TTGTCATCTTTAAGTCCAATATCGCTAGCCTTGAAC
* *
4182318 C-GACATATTGGCACCTTTGTCATCTTTAAGTCCAATATTGCTAGCCTTGAAT
1 CAG-CATATTGGCACCTTTGTCATCTTTAAGTCCAATATCGCTAGCCTTGAAC
* * ** *
4182370 CAGCATATTGGCACCTTTATCAT-TTTCAAGTCCAATGTCATTAGCCTTGAAT
1 CAGCATATTGGCACCTTTGTCATCTTT-AAGTCCAATATCGCTAGCCTTGAAC
* * * * * * * * * *
4182422 CAGCACATTGGCACTTTTCTCATCTTCATGTCTAATGTCGCTGGCCTTAAAT
1 CAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATATCGCTAGCCTTGAAC
*
4182474 CAGCACATTG
1 CAGCATATTG
4182484 ACATTTGTCA
Statistics
Matches: 141, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
51 4 0.03
52 133 0.94
53 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (52 bp):
CAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATATCGCTAGCCTTGAAC
Found at i:4182404 original size:104 final size:103
Alignment explanation
Indices: 4182265--4182598 Score: 296
Period size: 104 Copynumber: 3.1 Consensus size: 103
4182255 TTGTTAGCCT
* * * * * *
4182265 TCAGCATATTGGCATTCTTGTCATCTTT-AAATCCAATATCGCTGGCCTTGAACCGACATATTGG
1 TCAGCATATTGGCACT-TTATCATCTTTCAAGTCCAATGTCACTGGCCTTGAATC-ACATATTGG
* * * *
4182329 CACCTTTGTCATCTTTAAGTCCAATATTGCTAGCCTTGAA
64 CACCTTTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAA
* * *
4182369 TCAGCATATTGGCACCTTTATCAT-TTTCAAGTCCAATGTCATTAGCCTTGAATCAGCACATTGG
1 TCAGCATATTGGCA-CTTTATCATCTTTCAAGTCCAATGTCACTGGCCTTGAATCA-CATATTGG
* * * * * *
4182433 CACTTTTCTCATCTTCATGTCTAATGTCGCTGGCCTTAAA
64 CACCTTTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAA
* * * *
4182473 TCAGCACATTGACATTTGTCAAATCCATCTTTCTAAAGCCCAATGTCACTGGCCTTGAATCAACA
1 TCAGCATATTGGCACTT-T---AT-CATCTTTC--AAGTCCAATGTCACTGGCCTTGAATC-ACA
* * *
4182538 TATTGGCACCTTCATCATATTTAA-TCCCAATGTCACTGGCCTTGAA
58 TATTGGCACCTTTATCATCTTTAAGT-CCAATGTCGCTGGCCTTGAA
4182584 TCAGCATATTGGCAC
1 TCAGCATATTGGCAC
4182599 CCTTATTATC
Statistics
Matches: 180, Mismatches: 37, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
103 6 0.03
104 91 0.51
105 1 0.01
107 2 0.01
108 3 0.02
109 4 0.02
110 1 0.01
111 71 0.39
112 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (103 bp):
TCAGCATATTGGCACTTTATCATCTTTCAAGTCCAATGTCACTGGCCTTGAATCACATATTGGCA
CCTTTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAA
Found at i:4183297 original size:21 final size:21
Alignment explanation
Indices: 4183249--4183299 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
4183239 ATACAACAAA
4183249 TGAAA-GTATCGATACATAAG
1 TGAAATGTATCGATACATAAG
***
4183269 TG-AATGTATCGATACATGTT
1 TGAAATGTATCGATACATAAG
4183289 TGAAATGTATC
1 TGAAATGTATC
4183300 AATGTAAGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 2 0.08
20 16 0.62
21 8 0.31
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (21 bp):
TGAAATGTATCGATACATAAG
Found at i:4183405 original size:49 final size:52
Alignment explanation
Indices: 4183342--4183459 Score: 179
Period size: 49 Copynumber: 2.3 Consensus size: 52
4183332 TTTGGAAAGA
*
4183342 AAATGTATCAATACATTTTT-ATTGTATCGATACATT-TGGGTTTTGA-TCC
1 AAATGTATCAATACATTTTTCATTGTATCGATACATTCTGGGTTTTGAGCCC
* *
4183391 AAATGTATCTATACATTTTTCATTGTATCGATACATTCTGGGTTTTTAGCCC
1 AAATGTATCAATACATTTTTCATTGTATCGATACATTCTGGGTTTTGAGCCC
*
4183443 AAATGTATCGATACATT
1 AAATGTATCAATACATT
4183460 CTGGGTTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 19 0.31
50 16 0.26
51 9 0.15
52 18 0.29
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (52 bp):
AAATGTATCAATACATTTTTCATTGTATCGATACATTCTGGGTTTTGAGCCC
Found at i:4183450 original size:32 final size:32
Alignment explanation
Indices: 4183414--4183493 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
4183404 CATTTTTCAT
4183414 TGTATCGATACATTCTGGGTTTTT-AGCCCAAA
1 TGTATCGATACATTCTGGGTTTTTGA-CCCAAA
*
4183446 TGTATCGATACATTCTGGGTTTTTGACCTAAA
1 TGTATCGATACATTCTGGGTTTTTGACCCAAA
*
4183478 TGTATCGATGCATTCT
1 TGTATCGATACATTCT
4183494 ATAATGTATC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 44 0.98
33 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATTCTGGGTTTTTGACCCAAA
Found at i:4184349 original size:8 final size:8
Alignment explanation
Indices: 4184336--4184362 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
4184326 GTTTTAGGAT
4184336 TGTTTTAA
1 TGTTTTAA
4184344 TGTTTTAA
1 TGTTTTAA
4184352 TGTTTTAA
1 TGTTTTAA
4184360 TGT
1 TGT
4184363 CATTTTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (8 bp):
TGTTTTAA
Found at i:4186021 original size:97 final size:97
Alignment explanation
Indices: 4185855--4186054 Score: 269
Period size: 97 Copynumber: 2.1 Consensus size: 97
4185845 TTATCCATGA
* *
4185855 GGGATATTCCAACCTTGCTTTTAAACTTCTCAAGATTAAAATCTTATTTTTGCTCAAATTACCAT
1 GGGATACTCCAACCCTGCTTTTAAACTTCTCAAGATTAAAATCTTATTTTTGCTCAAATTACCAT
* * *
4185920 CATCGAGGATATTTCAA-TCGTATTCTTCCGAG
66 CATCGAGGATACTCCAACTC-TATTCCTCCGAG
* * * * *
4185952 GGGATACTCCAACCCTGCTTTTGAACTTGTTAAGATTTAAATCTTATTTTTGC-CTAAATTATCA
1 GGGATACTCCAACCCTGCTTTTAAACTTCTCAAGATTAAAATCTTATTTTTGCTC-AAATTACCA
*
4186016 TCATCGAGGATACTCCAACTCTATTCCTCTGAG
65 TCATCGAGGATACTCCAACTCTATTCCTCCGAG
4186049 GGGATA
1 GGGATA
4186055 TTCTAATCCC
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
96 1 0.01
97 87 0.97
98 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (97 bp):
GGGATACTCCAACCCTGCTTTTAAACTTCTCAAGATTAAAATCTTATTTTTGCTCAAATTACCAT
CATCGAGGATACTCCAACTCTATTCCTCCGAG
Found at i:4194134 original size:12 final size:12
Alignment explanation
Indices: 4194117--4194142 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4194107 CCCGAGTGAC
4194117 GATTAGTCATAG
1 GATTAGTCATAG
4194129 GATTAGTCATAG
1 GATTAGTCATAG
4194141 GA
1 GA
4194143 GTTGTCGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATTAGTCATAG
Found at i:4195228 original size:13 final size:13
Alignment explanation
Indices: 4195210--4195235 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4195200 TACACCAAGT
4195210 ATGTATCGATACA
1 ATGTATCGATACA
4195223 ATGTATCGATACA
1 ATGTATCGATACA
4195236 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4197418 original size:21 final size:21
Alignment explanation
Indices: 4197394--4197435 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4197384 TTGATTATCT
4197394 TGAGATA-ATCGATAGTTATTA
1 TGAGATACATCG-TAGTTATTA
* *
4197415 TGAGGTACATCGTGGTTATTA
1 TGAGATACATCGTAGTTATTA
4197436 AAATTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (21 bp):
TGAGATACATCGTAGTTATTA
Found at i:4199168 original size:31 final size:31
Alignment explanation
Indices: 4199133--4199197 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
4199123 ATCCCCTCAT
4199133 AAATAACGGGGTT-AGAGTATCCCCGATTGTG
1 AAATAACGGGGTTGA-AGTATCCCCGATTGTG
*
4199164 AAATAACGGGGTTGAAGTATCCCTGATTGTG
1 AAATAACGGGGTTGAAGTATCCCCGATTGTG
4199195 AAA
1 AAA
4199198 AATTGGTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (31 bp):
AAATAACGGGGTTGAAGTATCCCCGATTGTG
Found at i:4199294 original size:109 final size:108
Alignment explanation
Indices: 4199054--4199416 Score: 460
Period size: 110 Copynumber: 3.3 Consensus size: 108
4199044 ATCCTCTTAA
* * * * * *
4199054 AAATAACGGGGTTGGAGTAT-CCTCGATTGTAAAAAATCAATGTTTTGGAAATAAAATCAGGGTT
1 AAATAACGGGGTTGAAGTATCCCT-GATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGGGTT
*
4199118 GGAGTATCCCCTCATAAATAACGGGGTTAGAGTATCCCCGATTGTG
65 GGAGTATCCCCT-AGAAATAAC-GGGTTAGAGTATCCCCGATTGTG
* * *
4199164 AAATAACGGGGTTGAAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAACAAAATTGGGGTTG
1 AAATAACGGGGTTGAAGTATCCCTGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGGGTTG
* *
4199229 GAGTATCCCCTAGAAATAACGGGATTTGAGTATCCCCAATTGTG
66 GAGTATCCCCTAGAAATAACGGG-TTAGAGTATCCCCGATTGTG
* * *
4199273 AAATAACGGGGTTAAAGTATCCTTGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGGGTTA
1 AAATAACGGGGTTGAAGTATCCCTGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGGGTTG
* * *
4199338 GAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCTCGATTGTG
66 GAGTATCCCCTAG-AAATAAC-GGGTTAGAGTATCCCCGATTGTG
* * *
4199383 AAATAACAGGGTTGGAGTAT-CTTCGATTGTGAAA
1 AAATAACGGGGTTGAAGTATCCCT-GATTGTGAAA
4199417 TAACAGGGTT
Statistics
Matches: 223, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
108 3 0.01
109 100 0.45
110 114 0.51
111 6 0.03
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (108 bp):
AAATAACGGGGTTGAAGTATCCCTGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGGGTTG
GAGTATCCCCTAGAAATAACGGGTTAGAGTATCCCCGATTGTG
Found at i:4199387 original size:31 final size:31
Alignment explanation
Indices: 4199352--4199435 Score: 159
Period size: 31 Copynumber: 2.7 Consensus size: 31
4199342 ATCCCCTTGA
4199352 AAATAACAGGGTTGGAGTATCCTCGATTGTG
1 AAATAACAGGGTTGGAGTATCCTCGATTGTG
*
4199383 AAATAACAGGGTTGGAGTATCTTCGATTGTG
1 AAATAACAGGGTTGGAGTATCCTCGATTGTG
4199414 AAATAACAGGGTTGGAGTATCC
1 AAATAACAGGGTTGGAGTATCC
4199436 CTGAGATGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.29
Consensus pattern (31 bp):
AAATAACAGGGTTGGAGTATCCTCGATTGTG
Found at i:4201754 original size:20 final size:20
Alignment explanation
Indices: 4201729--4201780 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
4201719 AAAATACCTG
*
4201729 AATGTATCGATACATTGAAA
1 AATGTATCGATACAATGAAA
* *
4201749 AATGTATTGATACAATGAAC
1 AATGTATCGATACAATGAAA
*
4201769 AATGTACCGATA
1 AATGTATCGATA
4201781 TAACTTGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATGAAA
Found at i:4201846 original size:21 final size:21
Alignment explanation
Indices: 4201820--4201875 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
4201810 GTTGGGACCT
4201820 TGTATCGATACATTAAGGGCA
1 TGTATCGATACATTAAGGGCA
*
4201841 TGTATCGATACATTAAGGGCT
1 TGTATCGATACATTAAGGGCA
4201862 TGTATCGATACATT
1 TGTATCGATACATT
4201876 TTGGCAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATTAAGGGCA
Found at i:4205194 original size:17 final size:17
Alignment explanation
Indices: 4205174--4205231 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
4205164 AAATAAATAT
4205174 TCTTAATGGGAAAGAAG
1 TCTTAATGGGAAAGAAG
4205191 TCTTAATGGGTAAA-AAG
1 TCTTAATGGG-AAAGAAG
* * *
4205208 TCTTAATGAGTAAGAAT
1 TCTTAATGGGAAAGAAG
4205225 TCTTAAT
1 TCTTAAT
4205232 TATCAAGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 2 0.06
17 31 0.86
18 3 0.08
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (17 bp):
TCTTAATGGGAAAGAAG
Found at i:4213184 original size:13 final size:13
Alignment explanation
Indices: 4213166--4213190 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4213156 CATTTTATGG
4213166 TGTATCGATACAA
1 TGTATCGATACAA
4213179 TGTATCGATACA
1 TGTATCGATACA
4213191 TACAATGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4213195 original size:17 final size:18
Alignment explanation
Indices: 4213173--4213209 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
4213163 TGGTGTATCG
4213173 ATACAA-TGTATCGATAC
1 ATACAAGTGTATCGATAC
4213190 ATACAATGTGTATCGATAC
1 ATACAA-GTGTATCGATAC
4213209 A
1 A
4213210 AGTTTGGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (18 bp):
ATACAAGTGTATCGATAC
Found at i:4213206 original size:32 final size:33
Alignment explanation
Indices: 4213143--4213210 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
4213133 CGCTACAAGC
***
4213143 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACAATGGTGTATCGATA
4213176 CAATGTATCGATACATACAAT-GTGTATCGATA
1 CAATGTATCGATACATACAATGGTGTATCGATA
4213208 CAA
1 CAA
4213211 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (33 bp):
CAATGTATCGATACATACAATGGTGTATCGATA
Found at i:4215254 original size:20 final size:21
Alignment explanation
Indices: 4215215--4215267 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
4215205 GCGGCTAGTG
*
4215215 TGGGGGCTGCTCGGTTGTGACC
1 TGGGGG-TGCTCGGTCGTGACC
4215237 TGGGGGTGC-CGGTCGTGACC
1 TGGGGGTGCTCGGTCGTGACC
4215257 TGGTGGGTGCT
1 TGG-GGGTGCT
4215268 GCCTAAGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 13 0.46
21 9 0.32
22 6 0.21
ACGTcount: A:0.04, C:0.21, G:0.49, T:0.26
Consensus pattern (21 bp):
TGGGGGTGCTCGGTCGTGACC
Done.