Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 58 of 320
Found at i:17055497 original size:15 final size:15
Alignment explanation
Indices: 17055477--17055507 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17055467 TTTTTATTTT
*
17055477 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
17055492 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
17055507 A
1 A
17055508 GCTTTTTTGA
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:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:17055546 original size:22 final size:22
Alignment explanation
Indices: 17055534--17055583 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
17055524 TAACGAGAGT
17055534 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
*
17055556 TTTGAGA-G-ATTTGAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
17055576 TTTGAGAG
1 TTTGAGAG
17055584 AATATTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.69
21 1 0.04
22 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:17055557 original size:11 final size:11
Alignment explanation
Indices: 17055534--17055585 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
17055524 TAACGAGAGT
*
17055534 TTTGAGAGGAA
1 TTTGAGAGAAA
*
17055545 TTTAAGAGAAA
1 TTTGAGAGAAA
17055556 TTTGAGAG--A
1 TTTGAGAGAAA
17055565 TTTGAGAGAAA
1 TTTGAGAGAAA
17055576 TTTGAGAGAA
1 TTTGAGAGAA
17055586 TATTGAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:17055597 original size:31 final size:31
Alignment explanation
Indices: 17055534--17055597 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
17055524 TAACGAGAGT
* *
17055534 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
17055565 TTTGAGAGAAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
17055596 TT
1 TT
17055598 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:17056002 original size:18 final size:18
Alignment explanation
Indices: 17055979--17056014 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17055969 GTCTTCCTTC
* *
17055979 TTATTATTATTTGGATTA
1 TTATTATCATTTGAATTA
17055997 TTATTATCATTTGAATTA
1 TTATTATCATTTGAATTA
17056015 CGAGAAGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (18 bp):
TTATTATCATTTGAATTA
Found at i:17058553 original size:27 final size:27
Alignment explanation
Indices: 17058516--17058571 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
17058506 TCAGGTCACC
17058516 CCCTATAACTTATGGAAGGGTAGAAAA
1 CCCTATAACTTATGGAAGGGTAGAAAA
17058543 CCCTATAACTTATGGAAGGGTAGAAAA
1 CCCTATAACTTATGGAAGGGTAGAAAA
17058570 CC
1 CC
17058572 AAGTGTGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (27 bp):
CCCTATAACTTATGGAAGGGTAGAAAA
Found at i:17062515 original size:47 final size:47
Alignment explanation
Indices: 17062439--17062584 Score: 168
Period size: 47 Copynumber: 3.1 Consensus size: 47
17062429 TCATATATCA
* * *
17062439 CACACCGAA-GCCATAGCCCAACTACGGTCTTATACGGAAGCACATAT
1 CACACC-AATGCCATAGCCCAGCTATGGTCTTATACGGAAACACATAT
*
17062486 CACACCAATGCCATAGCCCAGCTATGGTCTTATACGGAAACAGATAT
1 CACACCAATGCCATAGCCCAGCTATGGTCTTATACGGAAACACATAT
** * * * * *
17062533 CACACTGATGTCATATCCTAGATATGGTCTTATACGGATATCACATAT
1 CACACCAATGCCATAGCCCAGCTATGGTCTTATACGGA-AACACATAT
17062581 CACA
1 CACA
17062585 TATTGCCATG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
46 2 0.02
47 72 0.85
48 11 0.13
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (47 bp):
CACACCAATGCCATAGCCCAGCTATGGTCTTATACGGAAACACATAT
Found at i:17065372 original size:43 final size:43
Alignment explanation
Indices: 17065325--17065481 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
17065315 TTACATATCA
* * *
17065325 ATGCCACTGTCCTAGACAAGGTCTTACACGAAATCGATAAATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCGATAAATG
*
17065368 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCG-TATAATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCGATA-AATG
* * * * * **
17065411 ATACCAATGTCCCACACATTGTCTTACACAAAATC-ACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCGATAA-ATG
*
17065454 ATGCCAATGTCCTAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
17065482 TGTAATCTCA
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 3 0.03
43 92 0.97
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCGATAAATG
Found at i:17068753 original size:53 final size:53
Alignment explanation
Indices: 17068663--17068767 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
17068653 TTCTTTTTTA
* * * *
17068663 AACTTACCATTGTCATGTCTTGACATGGTCTTGCGTGGTATCCTTGCCTTATG
1 AACTCACCATTGTCATGCCTTGACATGGTCTTACGTGGGATCCTTGCCTTATG
* *
17068716 AACTCACCATTGTCATGCCTTGGCATGGTCTTACGTGGGATCTTTGCCTTAT
1 AACTCACCATTGTCATGCCTTGACATGGTCTTACGTGGGATCCTTGCCTTAT
17068768 AGTAGTTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (53 bp):
AACTCACCATTGTCATGCCTTGACATGGTCTTACGTGGGATCCTTGCCTTATG
Found at i:17069824 original size:16 final size:16
Alignment explanation
Indices: 17069803--17069835 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
17069793 AAAAACCTAA
17069803 TGGTCTAATTACCATT
1 TGGTCTAATTACCATT
17069819 TGGTCTAATTACCATT
1 TGGTCTAATTACCATT
17069835 T
1 T
17069836 AAGGACCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (16 bp):
TGGTCTAATTACCATT
Found at i:17073285 original size:20 final size:20
Alignment explanation
Indices: 17073260--17073306 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
17073250 GCATCTTCAA
17073260 ATGCATAAGCAATCATATAT
1 ATGCATAAGCAATCATATAT
17073280 ATGCATAAGCAATCATATAT
1 ATGCATAAGCAATCATATAT
*
17073300 ATACATA
1 ATGCATA
17073307 TATATATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.30
Consensus pattern (20 bp):
ATGCATAAGCAATCATATAT
Found at i:17073811 original size:86 final size:86
Alignment explanation
Indices: 17073698--17073907 Score: 246
Period size: 86 Copynumber: 2.5 Consensus size: 86
17073688 ATATAGCTCG
* * * * *
17073698 TACAATGCC-ATATCCCAGACATGGTCTTACATGTTATCACAT-ATCGATGCCACTATCCTAGAC
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAAT-GATGCCAATATCCCACAC
* *
17073761 AGGGTCTTACACGAAATCGATAA
65 AGGGTCTTACACAAAATC-ACAA
* ** ** *
17073784 -ACGATGCCAATGTCCCAGACATGGTCTTACACATAATCGTATAATGATGCCAATGTCCCACACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAATGATGCCAATATCCCACACA
**
17073848 TTGTCTTACACAAAATCACAA
66 GGGTCTTACACAAAATCACAA
17073869 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
17073908 TCATCTCGGT
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
85 10 0.10
86 91 0.88
87 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (86 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAATGATGCCAATATCCCACACA
GGGTCTTACACAAAATCACAA
Found at i:17073822 original size:43 final size:43
Alignment explanation
Indices: 17073702--17073900 Score: 190
Period size: 43 Copynumber: 4.7 Consensus size: 43
17073692 AGCTCGTACA
* ** * *
17073702 ATGCC-ATATCCCAGACATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAACG
* * * * *
17073744 ATGCCACTATCCTAGACAGGGTCTTACACGA-AATC-GATAAACG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-ATAATCACAT-AACG
** *
17073787 ATGCCAATGTCCCAGACATGGTCTTACACATAATCGTATAATG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAACG
* * * *
17073830 ATGCCAATGTCCCACACATTGTCTTACACAAAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATA-ACG
17073873 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
17073901 TGTAATCTCA
Statistics
Matches: 128, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
42 9 0.07
43 117 0.91
44 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAACG
Found at i:17076808 original size:6 final size:6
Alignment explanation
Indices: 17076793--17076824 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
17076783 AATTATACTC
17076793 TTTT-T TTTTCT TTTTCT TTTTCT TTTT-T TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
17076825 ACGTTGGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 9 0.35
6 17 0.65
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (6 bp):
TTTTCT
Found at i:17076812 original size:16 final size:16
Alignment explanation
Indices: 17076791--17076823 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17076781 AAAATTATAC
17076791 TCTTTTTTTTTCTTTT
1 TCTTTTTTTTTCTTTT
17076807 TCTTTTTCTTTT-TTTT
1 TCTTTTT-TTTTCTTTT
17076823 T
1 T
17076824 TACGTTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TCTTTTTTTTTCTTTT
Found at i:17077198 original size:23 final size:23
Alignment explanation
Indices: 17077177--17077224 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
17077167 ATAAATATTG
17077177 TAAAATAAATATAATTATTATTCA
1 TAAAA-AAATATAATTATTATTCA
* *
17077201 TAACAAATTATAATTATTATTCA
1 TAAAAAAATATAATTATTATTCA
17077224 T
1 T
17077225 TGATTTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAAAAAATATAATTATTATTCA
Found at i:17090312 original size:2 final size:2
Alignment explanation
Indices: 17090305--17090341 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
17090295 AAACAAATAA
*
17090305 GT GT GT GT GT GT GT GT GT GT GT GT AT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
17090342 ATCACATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.03, C:0.00, G:0.49, T:0.49
Consensus pattern (2 bp):
GT
Found at i:17092205 original size:26 final size:26
Alignment explanation
Indices: 17092166--17092223 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
17092156 TGATACAAAT
17092166 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
17092192 TGATAAT-GGTTTAGGTAAATGTTTCA
1 TGATAATAGG-TTAGGTAAATGTTCCA
17092218 TGATAA
1 TGATAA
17092224 AAATTTCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 2 0.07
26 28 0.93
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:17093738 original size:26 final size:26
Alignment explanation
Indices: 17093709--17093761 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
17093699 TTTACAGTTT
17093709 TACCCCTAGTAGATAAATT-ACCGAAA
1 TACCCCTAG-AGATAAATTGACCGAAA
* *
17093735 TACCCCTAGAGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
17093761 T
1 T
17093762 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:17094255 original size:137 final size:136
Alignment explanation
Indices: 17094009--17094294 Score: 491
Period size: 137 Copynumber: 2.1 Consensus size: 136
17093999 GAGTAGTCTC
*
17094009 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* * * *
17094074 ATTATCTGAATAAGGGGCTAAGGCCTAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTATCA
66 ATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACCA
17094139 CTATTA
131 CTATTA
17094145 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
17094210 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
65 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
17094275 ACTATTA
130 ACTATTA
**
17094282 CCTGAATGGGCTT
1 CCCAAATGGGCTT
17094295 AGGCCCAATG
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
136 20 0.14
137 121 0.86
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
ATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACCA
CTATTA
Found at i:17096671 original size:20 final size:20
Alignment explanation
Indices: 17096648--17096697 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
17096638 AAGTTTTATC
*
17096648 ATTTATAATATATTTTTAAT
1 ATTTATAATATATATTTAAT
* * *
17096668 ATTTGTTATGTATATTTAAT
1 ATTTATAATATATATTTAAT
17096688 AGTTTATAAT
1 A-TTTATAAT
17096698 TGGAGTTTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (20 bp):
ATTTATAATATATATTTAAT
Found at i:17096765 original size:13 final size:15
Alignment explanation
Indices: 17096735--17096767 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
17096725 CACCGTTACA
17096735 TTTAATATTTATTAG
1 TTTAATATTTATTAG
17096750 TTTAAT-TTTATT-G
1 TTTAATATTTATTAG
17096763 TTTAA
1 TTTAA
17096768 CTAAAGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 6 0.33
15 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTAATATTTATTAG
Found at i:17096910 original size:20 final size:19
Alignment explanation
Indices: 17096873--17096911 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
17096863 TTTTTATATT
**
17096873 TTTATATTATTTTTTAAAA
1 TTTATATTATTTAATAAAA
17096892 TTTATATATATTTAATAAAA
1 TTTATAT-TATTTAATAAAA
17096912 AGAATGCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTATATTATTTAATAAAA
Found at i:17100094 original size:55 final size:55
Alignment explanation
Indices: 17100024--17100185 Score: 225
Period size: 55 Copynumber: 2.9 Consensus size: 55
17100014 ATTTCTCAAA
* * * *
17100024 AATATTGCTTCTTTTGGATATATTGTTTTTATGTTTAAATTGATTATTATGTTGG
1 AATACTGCTTCTTTTGAATAAATTGTTTATATGTTTAAATTGATTATTATGTTGG
* * * *
17100079 AATACTGCTTCTTTTGAATAAACTGTTTATATGTTTACATCGATTATCATGTTGG
1 AATACTGCTTCTTTTGAATAAATTGTTTATATGTTTAAATTGATTATTATGTTGG
* **
17100134 AAGACTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATTGATTATTATGT
1 AATACTGCTTCTTTTGAATAAATTGTTTATATGTTTAAATTGATTATTATGT
17100186 AGCATGTCTA
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.08, G:0.15, T:0.51
Consensus pattern (55 bp):
AATACTGCTTCTTTTGAATAAATTGTTTATATGTTTAAATTGATTATTATGTTGG
Found at i:17100494 original size:9 final size:8
Alignment explanation
Indices: 17100469--17100493 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17100459 AAAAATGGTT
17100469 ATAAAAAA
1 ATAAAAAA
17100477 ATAAAAAA
1 ATAAAAAA
17100485 ATAAAAAA
1 ATAAAAAA
17100493 A
1 A
17100494 AATTTTCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
ATAAAAAA
Found at i:17102072 original size:29 final size:28
Alignment explanation
Indices: 17102040--17102099 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
17102030 AAAAAACCCC
* *
17102040 TTTTTTGTTAATTACGGAAATGGACCGAT
1 TTTTTTATTAATTACGGAAAAGGACC-AT
* *
17102069 TTTTTTATTATTTATGGAAAAGGACCAT
1 TTTTTTATTAATTACGGAAAAGGACCAT
17102097 TTT
1 TTT
17102100 CCCCGAAAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (28 bp):
TTTTTTATTAATTACGGAAAAGGACCAT
Found at i:17102401 original size:23 final size:23
Alignment explanation
Indices: 17102353--17102401 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
17102343 TTTCAAGTTT
*
17102353 TTTAAGGTTAGGGTTTTTGATTG
1 TTTAAGGTTAGGGTTTTTGATGG
*
17102376 TTTAGGGTTAGGGTTTTT-AGTGG
1 TTTAAGGTTAGGGTTTTTGA-TGG
17102399 TTT
1 TTT
17102402 TTAAGGGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.14, C:0.00, G:0.33, T:0.53
Consensus pattern (23 bp):
TTTAAGGTTAGGGTTTTTGATGG
Found at i:17102407 original size:143 final size:143
Alignment explanation
Indices: 17102241--17102544 Score: 497
Period size: 143 Copynumber: 2.1 Consensus size: 143
17102231 TTTTAATGGT
*
17102241 TTAGGGTTTTAG-GGTTTTTTAAGGGA-AAATTAATGAACACTTAGAGTTGAGGGTTAATTAATT
1 TTAGGGTTTTAGTGG-TTTTTAAGGGAGAAATTAATGAACACTTAGAGTGGAGGGTTAATTAATT
17102304 AAATTAACTATGAGAATAAAAAAATCAATTAAATTAAGGTTTCAAGTTTTTTAAGGTTAGGGTTT
65 AAATTAACTATGAGAAT-AAAAAATCAATTAAATTAAGGTTTCAAGTTTTTTAAGGTTAGGGTTT
17102369 TTGATTG-TTTAGGG
129 TTGATTGTTTTAGGG
17102383 TTAGGGTTTTTAGTGGTTTTTAAGGGAGAAATTAATGAACACTTAGAGTGGAGGGTTAATTAATT
1 TTAGGG-TTTTAGTGGTTTTTAAGGGAGAAATTAATGAACACTTAGAGTGGAGGGTTAATTAATT
* * ** *
17102448 AAATTAATTATGAGAATAAAAAATCAATTAAATTAGGGTTTTGAGTTTTTTAGGGTTAGGGTTTT
65 AAATTAACTATGAGAATAAAAAATCAATTAAATTAAGGTTTCAAGTTTTTTAAGGTTAGGGTTTT
17102513 TGATTGTTTTAGGG
130 TGATTGTTTTAGGG
*
17102527 TTAGGGTTTTAGTAGTTT
1 TTAGGGTTTTAGTGGTTT
17102545 AGGTTTTTTA
Statistics
Matches: 151, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
142 6 0.04
143 78 0.52
144 67 0.44
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.41
Consensus pattern (143 bp):
TTAGGGTTTTAGTGGTTTTTAAGGGAGAAATTAATGAACACTTAGAGTGGAGGGTTAATTAATTA
AATTAACTATGAGAATAAAAAATCAATTAAATTAAGGTTTCAAGTTTTTTAAGGTTAGGGTTTTT
GATTGTTTTAGGG
Found at i:17102522 original size:24 final size:24
Alignment explanation
Indices: 17102480--17102536 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
17102470 ATCAATTAAA
17102480 TTAGGG-TTTTGAGTTTTTTAGGG
1 TTAGGGTTTTTGAGTTTTTTAGGG
17102503 TTAGGGTTTTTGA-TTGTTTTAGGG
1 TTAGGGTTTTTGAGTT-TTTTAGGG
17102527 TTAGGGTTTT
1 TTAGGGTTTT
17102537 AGTAGTTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 8 0.25
24 24 0.75
ACGTcount: A:0.12, C:0.00, G:0.33, T:0.54
Consensus pattern (24 bp):
TTAGGGTTTTTGAGTTTTTTAGGG
Found at i:17102544 original size:23 final size:22
Alignment explanation
Indices: 17102480--17102544 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 22
17102470 ATCAATTAAA
*
17102480 TTAGGGTTTTGAGTTTTTTAGGG
1 TTAGGGTTTT-AGTGTTTTAGGG
*
17102503 TTAGGGTTTTTGATTGTTTTAGGG
1 TTAGGG-TTTT-AGTGTTTTAGGG
17102527 TTAGGGTTTTAGTAGTTT
1 TTAGGGTTTTAGT-GTTT
17102545 AGGTTTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 2 0.05
23 14 0.38
24 21 0.57
ACGTcount: A:0.14, C:0.00, G:0.32, T:0.54
Consensus pattern (22 bp):
TTAGGGTTTTAGTGTTTTAGGG
Found at i:17102809 original size:126 final size:126
Alignment explanation
Indices: 17102598--17103063 Score: 666
Period size: 126 Copynumber: 3.7 Consensus size: 126
17102588 GAAATTAATG
* * * *
17102598 AACACATTCAAGAATGATGCACTTTCAGCAAAATTTCGAAAAAAAGTTTCCACGTGGACGTTCTT
1 AACAC-TTCAAGAAGGATGCACTTTCAGCAAAATTTCGAAAAAAAGCTCCCACGTGGACGCTCTT
* * *
17102663 TTTCTACAGTGATATTTGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
65 TTGCTACAGTGGTATCTGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
** * * * * *
17102725 AACGTTTTAAGAAGGATGCACTTTTAGCAAAATTTCGGAAAAAAGCTTCCACGTGGACGCTATTT
1 AACACTTCAAGAAGGATGCACTTTCAGCAAAATTTCGAAAAAAAGCTCCCACGTGGACGCTCTTT
* *
17102790 TGCTATAGTGGTATCTGATAAAATAATTTTGAGAAGATGTTTTTGAACAAATAGTGTCAAA
66 TGCTACAGTGGTATCTGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
* *
17102851 AACACTTCAAGAAGGATGCACTTTCAGCAAAATTTCAAAAAAAAGCACCCACGTGGACGCTCTTT
1 AACACTTCAAGAAGGATGCACTTTCAGCAAAATTTCGAAAAAAAGCTCCCACGTGGACGCTCTTT
* * * *
17102916 TGCTACAGTGGTCTTTGATAAAATAATTTTGACAAGATGTTTCTGAAAAAATAGTGTCAAA
66 TGCTACAGTGGTATCTGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
* * * *
17102977 AACACTTCAAGAAGGATGCACTTTTAACAAAATTAT-GAAAACAAGCTCCCACATGGACGCTCTT
1 AACACTTCAAGAAGGATGCACTTTCAGCAAAATT-TCGAAAAAAAGCTCCCACGTGGACGCTCTT
17103041 TTGCTACAGTGGTATCTGA-AAAA
65 TTGCTACAGTGGTATCTGATAAAA
17103064 GCCTTAAACT
Statistics
Matches: 301, Mismatches: 37, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
125 4 0.01
126 293 0.97
127 4 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (126 bp):
AACACTTCAAGAAGGATGCACTTTCAGCAAAATTTCGAAAAAAAGCTCCCACGTGGACGCTCTTT
TGCTACAGTGGTATCTGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
Found at i:17104663 original size:53 final size:53
Alignment explanation
Indices: 17104522--17104672 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
17104512 ATAAGTGCGC
* **
17104522 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
17104575 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
17104628 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
17104673 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:17112182 original size:53 final size:54
Alignment explanation
Indices: 17112041--17112191 Score: 209
Period size: 53 Copynumber: 2.8 Consensus size: 54
17112031 ATAAGTGCGC
* **
17112041 CCGTTTAAGACCATAGT-TGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGTCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
17112094 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGTCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
17112147 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAGTCTGGGCTATGGCATCGGTAT-A-ATGTGA
17112192 ACCATGTAAG
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (54 bp):
CCGTATAAGACCATAGTCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:17117514 original size:7 final size:7
Alignment explanation
Indices: 17117502--17117527 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17117492 TTATATAGGT
17117502 AATACTA
1 AATACTA
17117509 AATACTA
1 AATACTA
17117516 AATACTA
1 AATACTA
17117523 AATAC
1 AATAC
17117528 GAAACGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:17118690 original size:21 final size:22
Alignment explanation
Indices: 17118652--17118699 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
17118642 ACACAAATTT
*
17118652 TTTGAAAAAAATTAGAGACAAC
1 TTTGAAAAAAATTAGAGACAAA
* *
17118674 TTTGATAAAAATT-GAGAGAAA
1 TTTGAAAAAAATTAGAGACAAA
17118695 TTTGA
1 TTTGA
17118700 GAGAATTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.29
Consensus pattern (22 bp):
TTTGAAAAAAATTAGAGACAAA
Found at i:17119704 original size:27 final size:26
Alignment explanation
Indices: 17119633--17119706 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 26
17119623 CAATACACAA
* ***
17119633 ATTAAAAATATAATAAAAAGTGGTTAT
1 ATTAAAAATA-AAAAAAAAGTAAATAT
*
17119660 ATTAAAATTGAAATAAAAAAGTAAATAT
1 ATTAAAAAT-AAA-AAAAAAGTAAATAT
17119688 GATTAAAAATAAAAAAAAA
1 -ATTAAAAATAAAAAAAAA
17119707 TTATTTAGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 16 0.42
28 14 0.37
29 8 0.21
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (26 bp):
ATTAAAAATAAAAAAAAAGTAAATAT
Found at i:17119705 original size:28 final size:27
Alignment explanation
Indices: 17119633--17119706 Score: 67
Period size: 28 Copynumber: 2.7 Consensus size: 27
17119623 CAATACACAA
* * ***
17119633 ATTAAAAATATAATAAAAAGTGGTTAT
1 ATTAAAAATAAAAAAAAAAGTAAATAT
* *
17119660 ATTAAAATTGAAATAAAAAAGTAAATAT
1 ATTAAAAAT-AAAAAAAAAAGTAAATAT
17119688 GATTAAAAATAAAAAAAAA
1 -ATTAAAAATAAAAAAAAA
17119707 TTATTTAGTA
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
27 8 0.22
28 20 0.56
29 8 0.22
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (27 bp):
ATTAAAAATAAAAAAAAAAGTAAATAT
Found at i:17124271 original size:12 final size:12
Alignment explanation
Indices: 17124256--17124287 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
17124246 GAATTTTGTT
17124256 TCTCAATAATCC
1 TCTCAATAATCC
*
17124268 TCTCAGTAATCC
1 TCTCAATAATCC
17124280 TCTCAATA
1 TCTCAATA
17124288 GTTTTTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.31, C:0.31, G:0.03, T:0.34
Consensus pattern (12 bp):
TCTCAATAATCC
Found at i:17124803 original size:30 final size:30
Alignment explanation
Indices: 17124746--17124805 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
17124736 AGTATTTGAG
* * * *
17124746 AGACCTGATATCTTATTCAGGGGCTTGGGA
1 AGACCCGATATCTCATTCAAGAGCTTGGGA
*
17124776 AGACCCGATATCTCATTCAAGATCTTGGGA
1 AGACCCGATATCTCATTCAAGAGCTTGGGA
17124806 TTGAGAAACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (30 bp):
AGACCCGATATCTCATTCAAGAGCTTGGGA
Found at i:17126210 original size:29 final size:26
Alignment explanation
Indices: 17126181--17126234 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
17126171 ACTTTTAAAT
*
17126181 AAAT-AGTTAATAGAACCAGTTGGTC
1 AAATAAGTTAATAGAACCACTTGGTC
*
17126206 AAATAAGTTAATAGAATCACTTGGTC
1 AAATAAGTTAATAGAACCACTTGGTC
17126232 AAA
1 AAA
17126235 CTAGTCACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (26 bp):
AAATAAGTTAATAGAACCACTTGGTC
Found at i:17129826 original size:132 final size:131
Alignment explanation
Indices: 17129641--17130414 Score: 621
Period size: 132 Copynumber: 5.9 Consensus size: 131
17129631 TTCAGAGCTA
* * * * * *
17129641 CGATATTAAATCAAGTAACTCAAATAAAATTGCTCATGATTTGAAACCT-AACGAACTTTAGTTT
1 CGATCTTAAATCAACTAATTCAAATAAAATTGTTCATGATTTGAAA--TGAATGAACTTTAGGTT
* * * * * * * **
17129705 GCGATATTCAATCAGTGAACCTAGATAATACCAGCTATGATATTAAGTCAATGAGCTCCTCGGAG
64 GAGATCTTAAATCAATGAACCTTGATAATACCAGCTACGATATTAAATCAATGAGCTATTCGGAG
17129770 TTG
129 TTG
* * *
17129773 CAATCTTAAATCAACCAATTCAAATAAAATTGTTCATGATTTGAAATGAAACGAACTTTAGGTTG
1 CGATCTTAAATCAACTAATTCAAATAAAATTGTTCATGATTTGAAATG-AATGAACTTTAGGTTG
* * * * * * * *
17129838 AAATCTTAAATCAACGAACCTTGATTATACCAGCTGCGATCTTAAGTCAATGAGCTGTTTGGAGT
65 AGATCTTAAATCAATGAACCTTGATAATACCAGCTACGATATTAAATCAATGAGCTATTCGGAGT
17129903 TG
130 TG
* * * * * * *
17129905 TGATCTTAAAT-AAGCTAATTTAAATAAAATTGGTCATGATCTAAAATCAAATGAAATTTAGGTT
1 CGATCTTAAATCAA-CTAATTCAAATAAAATTGTTCATGATTTGAAAT-GAATGAACTTTAGGTT
* * * * ** * *
17129969 GTGATCTTAACTCAA-AAAGCCTTGATAATACTAGCGGCGATATTAAATCAGTGAGCTATTCGAA
64 GAGATCTTAAATCAATGAA-CCTTGATAATACCAGCTACGATATTAAATCAATGAGCTATTCGGA
17130033 GTTG
128 GTTG
* * * * * *
17130037 TGATCTTAAATCAGCTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAAATTTTGGTTG
1 CGATCTTAAATCAACTAATTCAAATAAAATTGTTCATGATTTGAAAT-GAATGAACTTTAGGTTG
* * ** *
17130102 AGATCTTAAATCAATGAACCTTGATGATACCAGCTACAATATTAAATCAGCGAGCTATTCAGAGT
65 AGATCTTAAATCAATGAACCTTGATAATACCAGCTACGATATTAAATCAATGAGCTATTCGGAGT
17130167 TG
130 TG
* *
17130169 CGATCTTAAATTAGCTAATTCAAATAAAATTGTTCATGATTTGAAATCGAATGAACTTTAGGTTG
1 CGATCTTAAATCAACTAATTCAAATAAAATTGTTCATGATTTGAAAT-GAATGAACTTTAGGTTG
* * * * * * * * * *
17130234 CA-ATATTAAAT-GA-GCAAGCCTTCATGATACCAGCTATGATCTTAAATCAACGAGTTGTGT-A
65 -AGATCTTAAATCAATG-AA-CCTTGATAATACCAGCTACGATATTAAATCAATGAGCTAT-TCG
* *
17130295 AAGTTA
126 GAGTTG
* * * * * * * *
17130301 CTATATTAAATCAACTAACTCAAATAGAATTGTTCATGATCTCATATCGAATGAACATTAGGTTG
1 CGATCTTAAATCAACTAATTCAAATAAAATTGTTCATGATTTGAAAT-GAATGAACTTTAGGTTG
* * ** * * *
17130366 CA-ATCTTAACT-AAGCGAACCTTGACGATACCAACTGCGATCTTAAATCA
65 -AGATCTTAAATCAA-TGAACCTTGATAATACCAGCTACGATATTAAATCA
17130415 GCGAGTTGTT
Statistics
Matches: 532, Mismatches: 97, Indels: 26
0.81 0.15 0.04
Matches are distributed among these distances:
130 2 0.00
131 7 0.01
132 515 0.97
133 7 0.01
134 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (131 bp):
CGATCTTAAATCAACTAATTCAAATAAAATTGTTCATGATTTGAAATGAATGAACTTTAGGTTGA
GATCTTAAATCAATGAACCTTGATAATACCAGCTACGATATTAAATCAATGAGCTATTCGGAGTT
G
Found at i:17130134 original size:264 final size:262
Alignment explanation
Indices: 17129631--17130419 Score: 717
Period size: 264 Copynumber: 3.0 Consensus size: 262
17129621 TCAGTAAGTT
* * * * * * * * * *
17129631 TTCAGAGCTACGATATTAAATCAAG-TAACTCAAATAAAATTGCTCATGATTTGAAACCTAACGA
1 TTCAGAGTTGCGATCTTAAAT-AAGCTAATTCAAATAAAATTGGTCATGATCTAAAATCAAATGA
* * * * ** ** * * *
17129695 ACTTTAGTTTGCGATATTCAATCAGTGAA-CCTAGATAATACCAGCTATGATATTAAGTCAATGA
65 AATTTAGGTTGCAATATTAAATCA-AAAAGCCTTCATAATACCAGCGACGATATTAAATCAATGA
** * * * * *
17129759 GCTCCTCGGAGTTGCAATCTTAAATCAACCAATTCAAATAAAATTGTTCATGATTTGAAAT-GAA
129 GCTATTCGAAGTTG-TATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCG-A
* * * *
17129823 ACGAACTTTAGGTTGAAATCTTAAATCAACGAACCTTGATTATACCAGCTGCGATCTTAAGTCAA
192 ATGAAATTTAGGTTG-AATCTTAAATCAACGAACCTTGATGATACCAGCTGCGATCTTAAATCAA
* *
17129888 TGAGCTG
256 CGAGCTA
** * *
17129895 TTTGGAGTTGTGATCTTAAATAAGCTAATTTAAATAAAATTGGTCATGATCTAAAATCAAATGAA
1 TTCAGAGTTGCGATCTTAAATAAGCTAATTCAAATAAAATTGGTCATGATCTAAAATCAAATGAA
** * * * * * *
17129960 ATTTAGGTTGTGATCTTAACTCAAAAAGCCTTGATAATACTAGCGGCGATATTAAATCAGTGAGC
66 ATTTAGGTTGCAATATTAAATCAAAAAGCCTTCATAATACCAGCGACGATATTAAATCAATGAGC
*
17130025 TATTCGAAGTTGTGATCTTAAATCAGCTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATG
131 TATTCGAAGTTGT-ATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATG
* * * * * *
17130090 AAATTTTGGTTGAGATCTTAAATCAATGAACCTTGATGATACCAGCTACAATATTAAATCAGCGA
195 AAATTTAGGTTGA-ATCTTAAATCAACGAACCTTGATGATACCAGCTGCGATCTTAAATCAACGA
17130155 GCTA
259 GCTA
* * * * *
17130159 TTCAGAGTTGCGATCTTAAATTAGCTAATTCAAATAAAATTGTTCATGATTTGAAATCGAATGAA
1 TTCAGAGTTGCGATCTTAAATAAGCTAATTCAAATAAAATTGGTCATGATCTAAAATCAAATGAA
* * ** * * * * * *
17130224 CTTTAGGTTGCAATATTAAATGAGCAAGCCTTCATGATACCAGCTATGATCTTAAATCAACGAGT
66 ATTTAGGTTGCAATATTAAATCAAAAAGCCTTCATAATACCAGCGACGATATTAAATCAATGAGC
* * * * * * *
17130289 TGTGT-AAAGTTACTATATTAAATCAACTAACTCAAATAGAATTGTTCATGATCTCATATCGAAT
131 TAT-TCGAAGTT-GTATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAAT
* * * *
17130353 GAACA-TTAGGTTGCAATCTTAACT-AAGCGAACCTTGACGATACCAACTGCGATCTTAAATCAG
194 GAA-ATTTAGGTTG-AATCTTAAATCAA-CGAACCTTGATGATACCAGCTGCGATCTTAAATCAA
17130416 CGAG
256 CGAG
17130420 TTGTTTAGAG
Statistics
Matches: 423, Mismatches: 92, Indels: 20
0.79 0.17 0.04
Matches are distributed among these distances:
263 8 0.02
264 410 0.97
265 5 0.01
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (262 bp):
TTCAGAGTTGCGATCTTAAATAAGCTAATTCAAATAAAATTGGTCATGATCTAAAATCAAATGAA
ATTTAGGTTGCAATATTAAATCAAAAAGCCTTCATAATACCAGCGACGATATTAAATCAATGAGC
TATTCGAAGTTGTATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGA
AATTTAGGTTGAATCTTAAATCAACGAACCTTGATGATACCAGCTGCGATCTTAAATCAACGAGC
TA
Found at i:17130444 original size:396 final size:394
Alignment explanation
Indices: 17129600--17130445 Score: 896
Period size: 396 Copynumber: 2.1 Consensus size: 394
17129590 GAACCTTAAT
* * * * *
17129600 AATAACAACTGTGATATTAAATCAGTAAGTTTTCAGAGCTACGATATTAAATCAAGTAACTCAAA
1 AATACCAACTGCGATATTAAATCAGTGAGTTTTTAGAGTTACGATATTAAATC-AGTAACTCAAA
* * * * * * *
17129665 TAAAATTGCTCATGATTTGAAACCTAACGAACTTTAGTTTGCGATATTCAATCAGTGAACCTAGA
65 TAAAATTGCTCATGATCTGAAACCGAACGAAATTTAGGTTGAGATATTAAATCAATGAACCTAGA
** * * * *
17129730 TAATACCAGCTATGATATTAAGTCAATGAGCTCCTCGGAGTTGCAATCTTAAATCAACCAATTCA
130 TAATACCAGCTACAATATTAAATCAACGAGCTACTCAGAGTTGCAATCTTAAATCAACCAATTCA
*
17129795 AATAAAATTGTTCATGATTTGAAATGAAACGAACTTTAGGTTGAAATCTTAAATCAACGAACCTT
195 AATAAAATTGTTCATGATTTGAAATGAAACGAACTTTAGGTTGAAATATTAAATCAACGAACCTT
* * * * * * ** * * *
17129860 GATTATACCAGCTGCGATCTTAAGTCAATGAGCTGTTTGGAGTTGTGATCTTAAATAAGCTAATT
260 CATGATACCAGCTACGATCTTAAATCAACGAGCTGTGTAAAGTTCTGATATTAAATAAGCTAACT
* **
17129925 TAAATAAAATTGGTCATGATCTAAAATCAAATGAAATTTAGGTTGTGATCTTAACTCAAAAAGCC
325 CAAATAAAATTGGTCATGATCTAAAATCAAATGAAATTTAGGTTGCAATCTTAACTCAAAAAGCC
*
17129990 TTGAT
390 TTGAC
* * * * * * ** *
17129995 AATACTAGCGGCGATATTAAATCAGTGAGCTATTCGAAGTTGTGATCTTAAATCAGCTAACTCAA
1 AATACCAACTGCGATATTAAATCAGTGAGTTTTTAG-AGTTACGATATTAAATCAG-TAACTCAA
* * * * * *
17130060 ATAAAATTGTTCATGATCTGAAATCGAATGAAATTTTGGTTGAGATCTTAAATCAATGAACCTTG
64 ATAAAATTGCTCATGATCTGAAACCGAACGAAATTTAGGTTGAGATATTAAATCAATGAACCTAG
* * * * * * *
17130125 ATGATACCAGCTACAATATTAAATCAGCGAGCTATTCAGAGTTGCGATCTTAAATTAGCTAATTC
129 ATAATACCAGCTACAATATTAAATCAACGAGCTACTCAGAGTTGCAATCTTAAATCAACCAATTC
* * * *
17130190 AAATAAAATTGTTCATGATTTGAAATCG-AATGAACTTTAGGTTGCAATATTAAATGAGC-AAGC
194 AAATAAAATTGTTCATGATTTGAAAT-GAAACGAACTTTAGGTTGAAATATTAAATCAACGAA-C
* *
17130253 CTTCATGATACCAGCTATGATCTTAAATCAACGAGTTGTGTAAAGTTACT-ATATTAAATCAA-C
257 CTTCATGATACCAGCTACGATCTTAAATCAACGAGCTGTGTAAAGTT-CTGATATTAAAT-AAGC
* * * * *
17130316 TAACTCAAATAGAATTGTTCATGATCTCATATCGAATGAACA-TTAGGTTGCAATCTTAACT-AA
320 TAACTCAAATAAAATTGGTCATGATCTAAAATCAAATGAA-ATTTAGGTTGCAATCTTAACTCAA
*
17130379 GCGAA-CCTTGAC
384 --AAAGCCTTGAC
* * * *
17130391 GATACCAACTGCGATCTTAAATCAGCGAGTTGTTTAGAGTTACAATATTAAATCA
1 AATACCAACTGCGATATTAAATCAGTGAGTT-TTTAGAGTTACGATATTAAATCA
17130446 ATGAACCTTG
Statistics
Matches: 360, Mismatches: 81, Indels: 19
0.78 0.18 0.04
Matches are distributed among these distances:
395 32 0.09
396 318 0.88
397 10 0.03
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (394 bp):
AATACCAACTGCGATATTAAATCAGTGAGTTTTTAGAGTTACGATATTAAATCAGTAACTCAAAT
AAAATTGCTCATGATCTGAAACCGAACGAAATTTAGGTTGAGATATTAAATCAATGAACCTAGAT
AATACCAGCTACAATATTAAATCAACGAGCTACTCAGAGTTGCAATCTTAAATCAACCAATTCAA
ATAAAATTGTTCATGATTTGAAATGAAACGAACTTTAGGTTGAAATATTAAATCAACGAACCTTC
ATGATACCAGCTACGATCTTAAATCAACGAGCTGTGTAAAGTTCTGATATTAAATAAGCTAACTC
AAATAAAATTGGTCATGATCTAAAATCAAATGAAATTTAGGTTGCAATCTTAACTCAAAAAGCCT
TGAC
Found at i:17130509 original size:67 final size:68
Alignment explanation
Indices: 17130362--17130512 Score: 162
Period size: 67 Copynumber: 2.2 Consensus size: 68
17130352 TGAACATTAG
* * * * * *
17130362 GTTGCAATCTTAACT-AAGCGAACCTTGACGATACCAACTGCGATCTTAAATCAGCGAGTTGTTT
1 GTTGCAATCTTAAATCAAGCGAACCTTGACGATACCAACTGCAATCTTAAATCAACGAGCTATTC
17130426 AGA
66 AGA
* * * * * * *
17130429 GTTACAATATTAAATCAA-TGAACCTTGATGATACCAATTGCAATCTTTAATCAATGAGCTATTC
1 GTTGCAATCTTAAATCAAGCGAACCTTGACGATACCAACTGCAATCTTAAATCAACGAGCTATTC
*
17130493 ATA
66 AGA
17130496 GTTGCAATCTTAAATCA
1 GTTGCAATCTTAAATCA
17130513 TCTAACCCAA
Statistics
Matches: 67, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
67 65 0.97
68 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (68 bp):
GTTGCAATCTTAAATCAAGCGAACCTTGACGATACCAACTGCAATCTTAAATCAACGAGCTATTC
AGA
Found at i:17133522 original size:28 final size:28
Alignment explanation
Indices: 17133490--17133573 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
17133480 AACTTCGATC
17133490 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
17133518 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
17133540 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
17133568 ACGTGT
1 ACGTGT
17133574 ACCAGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:17133563 original size:50 final size:50
Alignment explanation
Indices: 17133385--17133629 Score: 298
Period size: 49 Copynumber: 4.9 Consensus size: 50
17133375 ATCTATTGTG
* * *
17133385 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
17133435 A-GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-TT
* * * **
17133485 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
17133535 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
17133585 -GGTCGCATGTGTAGTAATAAGTGCAGGCTACTATGCGTACCAGAT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
17133630 GGCTTTGGCT
Statistics
Matches: 165, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
49 76 0.46
50 54 0.33
51 35 0.21
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:17156729 original size:29 final size:29
Alignment explanation
Indices: 17156666--17156733 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
17156656 TAATCAACCG
17156666 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
17156695 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
17156724 CGCACACTTA
1 CGCACACTTA
17156734 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:17156846 original size:174 final size:174
Alignment explanation
Indices: 17156555--17156882 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
17156545 AACTCAAGGT
* * *
17156555 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTTGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
17156620 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
17156685 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
17156729 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
17156794 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
17156859 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
17156883 TATACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:17156874 original size:29 final size:29
Alignment explanation
Indices: 17156835--17156913 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
17156825 CTTAATAATC
** *
17156835 AACCACGCACACTTAGTGCCATGTACTTTA
1 AACC-CGCACACTTAGTGCCATACAATTTA
* *
17156865 AACTCGCACACTTAGTGCTATACAATTTA
1 AACCCGCACACTTAGTGCCATACAATTTA
17156894 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
17156914 ATCTCATGAC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 39 0.93
30 3 0.07
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATACAATTTA
Found at i:17159983 original size:15 final size:15
Alignment explanation
Indices: 17159965--17160007 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
17159955 ACAACACCAA
*
17159965 TGTATCCGCCACCGG
1 TGTATCTGCCACCGG
17159980 TGTATCTGCCACCGG
1 TGTATCTGCCACCGG
17159995 TGTATCTGCCACC
1 TGTATCTGCCACC
17160008 TCTGACAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.14, C:0.37, G:0.23, T:0.26
Consensus pattern (15 bp):
TGTATCTGCCACCGG
Found at i:17162593 original size:26 final size:27
Alignment explanation
Indices: 17162564--17162626 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
17162554 ATTTGAAATG
* *
17162564 AATTTTAATTAAAAT-TATCTATTTTT
1 AATTTTAATTAAAATATATATAATTTT
17162590 AATTTT--TTAAAAATATATATAATTTT
1 AATTTTAATT-AAAATATATATAATTTT
17162616 AA-TTTAATTAA
1 AATTTTAATTAA
17162627 TTAAATAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
24 2 0.06
25 8 0.26
26 19 0.61
27 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
AATTTTAATTAAAATATATATAATTTT
Found at i:17163337 original size:21 final size:19
Alignment explanation
Indices: 17163299--17163338 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
17163289 TTAAAGCATA
17163299 TCAAAGCTTATATATTTTT
1 TCAAAGCTTATATATTTTT
17163318 TCAAAGCTTATATATTTTT
1 TCAAAGCTTATATATTTTT
17163337 TC
1 TC
17163339 TTTCTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (19 bp):
TCAAAGCTTATATATTTTT
Found at i:17168486 original size:27 final size:27
Alignment explanation
Indices: 17168456--17168633 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
17168446 ATATTGAGTC
* * *
17168456 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
17168483 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
17168510 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** ** *
17168538 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
17168565 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
17168592 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
17168619 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17168634 GTATAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:17168595 original size:82 final size:81
Alignment explanation
Indices: 17168477--17168632 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17168467 TGCTATATAA
* *
17168477 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17168542 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17168559 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17168623 CACTTAGTGC
65 CACTTAGTGC
17168633 TGTATAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:17174704 original size:24 final size:24
Alignment explanation
Indices: 17174677--17174723 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
17174667 AGTGTTATGT
*
17174677 GGAGGAAATCAAGGAGAGGATTAG
1 GGAGAAAATCAAGGAGAGGATTAG
17174701 GGAGAAAATCAAGGAGAGGATTA
1 GGAGAAAATCAAGGAGAGGATTA
17174724 TAGAGAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.04, G:0.38, T:0.13
Consensus pattern (24 bp):
GGAGAAAATCAAGGAGAGGATTAG
Found at i:17174729 original size:24 final size:24
Alignment explanation
Indices: 17174682--17174729 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
17174672 TATGTGGAGG
*
17174682 AAATCAAGGAGAGGATTAGGGAGA
1 AAATCAAGGAGAGGATTAGAGAGA
*
17174706 AAATCAAGGAGAGGATTATAGAGA
1 AAATCAAGGAGAGGATTAGAGAGA
17174730 GATTTTAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.04, G:0.33, T:0.15
Consensus pattern (24 bp):
AAATCAAGGAGAGGATTAGAGAGA
Found at i:17184642 original size:24 final size:22
Alignment explanation
Indices: 17184590--17184642 Score: 52
Period size: 24 Copynumber: 2.3 Consensus size: 22
17184580 GAGTGTTATG
* *
17184590 TGGAGGAAATCAAGAGAGGATT
1 TGGAGAAAATCAAGAAAGGATT
*
17184612 GGTGAGAAAATCAAGGAAAGGATT
1 TG-GAGAAAATCAA-GAAAGGATT
17184636 ATGGAGA
1 -TGGAGA
17184643 GATTTTAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 1 0.04
23 10 0.42
24 12 0.50
25 1 0.04
ACGTcount: A:0.43, C:0.04, G:0.36, T:0.17
Consensus pattern (22 bp):
TGGAGAAAATCAAGAAAGGATT
Found at i:17188961 original size:43 final size:42
Alignment explanation
Indices: 17188895--17188986 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 42
17188885 AAGTCGTACA
* *
17188895 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAATCACATATCG
1 ATGCC-ACGTCCCAGACGTGGTCTTAC-TCGTAAACACATAACG
17188938 ATGCCACTGTCCCAGACAG-GGTCTTACTCGTAAACACATAACG
1 ATGCCAC-GTCCCAGAC-GTGGTCTTACTCGTAAACACATAACG
17188981 ATGCCA
1 ATGCCA
17188987 TGGTCTTACT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
42 3 0.07
43 40 0.91
44 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCACGTCCCAGACGTGGTCTTACTCGTAAACACATAACG
Found at i:17189080 original size:63 final size:63
Alignment explanation
Indices: 17188976--17189108 Score: 239
Period size: 63 Copynumber: 2.1 Consensus size: 63
17188966 CGTAAACACA
* *
17188976 TAACGATGCCATGGTCTTACTTGCACACATATATCGAAATCCTATGTCATGACATATGTATCC
1 TAACTATGCCATGGTCTTACTCGCACACATATATCGAAATCCTATGTCATGACATATGTATCC
*
17189039 TAACTATGCCATGGTCTTACTCGCACACATATTTCGAAATCCTATGTCATGACATATGTATCC
1 TAACTATGCCATGGTCTTACTCGCACACATATATCGAAATCCTATGTCATGACATATGTATCC
17189102 TAACTAT
1 TAACTAT
17189109 TCCTAAGGTT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (63 bp):
TAACTATGCCATGGTCTTACTCGCACACATATATCGAAATCCTATGTCATGACATATGTATCC
Found at i:17194268 original size:56 final size:56
Alignment explanation
Indices: 17194205--17194354 Score: 171
Period size: 56 Copynumber: 2.7 Consensus size: 56
17194195 GAGATTGGCG
*
17194205 CTAAGTGTGCGGGTTTAAAT-TGTGCAGCACTAAGTGTGCGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATATGT--AGCACTAAGTGTGCGAGATTGACTATGTAGCA
* * * * *
17194261 GTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCGAGATTGACTATGTAGCA
* * * *
17194317 CTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCG
17194355 GACTTAATAT
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
55 38 0.46
56 41 0.50
57 3 0.04
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCGAGATTGACTATGTAGCA
Found at i:17194287 original size:28 final size:28
Alignment explanation
Indices: 17194230--17194354 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
17194220 TAAATTGTGC
*
17194230 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
17194257 AGCAGTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
17194285 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
17194313 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
17194340 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17194355 GACTTAATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 38 0.42
28 53 0.58
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:17194294 original size:55 final size:55
Alignment explanation
Indices: 17194230--17194354 Score: 180
Period size: 55 Copynumber: 2.3 Consensus size: 55
17194220 TAAATTGTGC
* *
17194230 AGCACTAAGTGTGCGA-ATTGACTATGTAGCAGTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATAT
* * *
17194285 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATAT
*
17194340 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17194355 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
55 38 0.60
56 25 0.40
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATAT
Found at i:17199730 original size:40 final size:40
Alignment explanation
Indices: 17199675--17200031 Score: 597
Period size: 40 Copynumber: 8.9 Consensus size: 40
17199665 GCATGAGCAT
17199675 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
17199715 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
17199755 TTGATAAATCCGGGCTAAGACCTGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
17199795 TTGATATATTCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
17199835 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
17199875 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
17199915 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
17199955 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
17199995 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
17200032 TTGCGGTTAT
Statistics
Matches: 295, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 295 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:17213608 original size:28 final size:28
Alignment explanation
Indices: 17213566--17213635 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
17213556 GGTGTCAGTG
*
17213566 GTTGCAGTTCCAGGTACTATGTACTAGT
1 GTTGCAATTCCAGGTACTATGTACTAGT
*
17213594 GTTGCAATTCTAGGTACTATGTACTAGT
1 GTTGCAATTCCAGGTACTATGTACTAGT
*
17213622 GTTGCAGTTCCAGG
1 GTTGCAATTCCAGG
17213636 CACTCTGTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (28 bp):
GTTGCAATTCCAGGTACTATGTACTAGT
Found at i:17216579 original size:30 final size:31
Alignment explanation
Indices: 17216518--17216594 Score: 113
Period size: 30 Copynumber: 2.5 Consensus size: 31
17216508 TCTATATAGA
* * *
17216518 ATAT-ATATATATGCCTGGGTTTTGTTATAT
1 ATATAATATATATGCATGGGTCTTGGTATAT
17216548 ATATAATATATATGCATGGGTCTTGGT-TAT
1 ATATAATATATATGCATGGGTCTTGGTATAT
17216578 ATATAATATATATGCAT
1 ATATAATATATATGCAT
17216595 ATATGAGTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 24 0.56
31 19 0.44
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.45
Consensus pattern (31 bp):
ATATAATATATATGCATGGGTCTTGGTATAT
Found at i:17216619 original size:33 final size:34
Alignment explanation
Indices: 17216545--17216629 Score: 108
Period size: 33 Copynumber: 2.6 Consensus size: 34
17216535 GGTTTTGTTA
*
17216545 TATATATAATATATATGC----ATGGGTCTTGGT
1 TATATATAATATATATGCATATATGAGTCTTGGT
17216575 TATATATAATATATATGCATATATGAGTCTT-GT
1 TATATATAATATATATGCATATATGAGTCTTGGT
* *
17216608 TTTATATAATATATATGTATAT
1 TATATATAATATATATGCATAT
17216630 GGGTTTTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
30 18 0.38
33 22 0.46
34 8 0.17
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (34 bp):
TATATATAATATATATGCATATATGAGTCTTGGT
Found at i:17218230 original size:41 final size:41
Alignment explanation
Indices: 17218159--17218332 Score: 167
Period size: 41 Copynumber: 4.3 Consensus size: 41
17218149 CAATATCACA
**
17218159 CACACTAAGTGCCAATACATAGTTGAAGCTATTTTAATCTCG
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATTTTAATCTCG
* * *** *
17218201 CACACTAAGTGCCTTACATAGCCAAAGCTATTGCCATCTCT
1 CACACTAAGTGCCATACATAGCCGAAGCTATTTTAATCTCG
* * * **
17218242 CATACTAAGTGCCACATATAGCCGAAGCTATTCCAAAT-T-G
1 CACACTAAGTGCCATACATAGCCGAAGCTATT-TTAATCTCG
*
17218282 CACACTAAGTGCCATACATAGCCGAAGCTATTTTGAA-C-CA
1 CACACTAAGTGCCATACATAGCCGAAGCTATTTT-AATCTCG
17218322 CACACTAAGTG
1 CACACTAAGTG
17218333 TAACACCCCT
Statistics
Matches: 105, Mismatches: 23, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
40 42 0.40
41 48 0.46
42 15 0.14
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (41 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATTTTAATCTCG
Found at i:17223090 original size:17 final size:17
Alignment explanation
Indices: 17223070--17223107 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
17223060 GAATGAATTA
*
17223070 TTATATTATATGAAATG
1 TTATATTAAATGAAATG
*
17223087 TTATATTAAATGAACTG
1 TTATATTAAATGAAATG
17223104 TTAT
1 TTAT
17223108 TATGCATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (17 bp):
TTATATTAAATGAAATG
Found at i:17235187 original size:40 final size:40
Alignment explanation
Indices: 17235142--17235409 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
17235132 GCAAACACAT
*
17235142 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
17235182 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
17235222 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
17235262 TTGCCTTCGGGTCATAGCCCGGATATATTATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
17235302 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
17235342 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
17235382 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
17235410 TCCAATGCTC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:17243766 original size:40 final size:40
Alignment explanation
Indices: 17243721--17243988 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
17243711 GCAAACACAT
*
17243721 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
17243761 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
17243801 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
17243841 TTGCCTTCGGGTCATAGCCCGGATATATTATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
17243881 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
17243921 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
17243961 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
17243989 TCCAATGCTC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:17252216 original size:49 final size:51
Alignment explanation
Indices: 17252144--17252276 Score: 150
Period size: 49 Copynumber: 2.7 Consensus size: 51
17252134 AGGTTATAAT
* * * *
17252144 GCCGATGCCATTTCCCAGACATGGTCTTACACTGA-CTATTGA-A-AT-TGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAGCT-CTCACATATCCG-G
* *
17252193 GCCGATGCTATGTCCCAGACATGGTTTTACACT-AGCTCTCACATATCCGG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAGCTCTCACATATCCGG
*
17252243 GCCGATGCCATGTCCTAGACATGGTCTTACACTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTG
17252277 GCACATCTTG
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
48 3 0.04
49 33 0.47
50 33 0.47
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (51 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGAGCTCTCACATATCCGG
Found at i:17252355 original size:46 final size:46
Alignment explanation
Indices: 17252292--17252413 Score: 181
Period size: 46 Copynumber: 2.7 Consensus size: 46
17252282 TCTTGTAACC
* *
17252292 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATTCCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGATTACATTCCGAGGCT
* * * * *
17252338 GATTCATGTCCCTGACATGTCTTGCACTAGATTACATTCTGAGGTT
1 GATGCATGTCCCAGACATGTCTTACACTAGATTACATTCCGAGGCT
17252384 GATGCATGTCCCAGACATGTCTTACACTAG
1 GATGCATGTCCCAGACATGTCTTACACTAG
17252414 CACACAAATG
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.31
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGATTACATTCCGAGGCT
Found at i:17253136 original size:13 final size:13
Alignment explanation
Indices: 17253118--17253142 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17253108 CCAAAAATGT
17253118 AAAAATCATCAAG
1 AAAAATCATCAAG
17253131 AAAAATCATCAA
1 AAAAATCATCAA
17253143 AATCACTTAC
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:17263684 original size:5 final size:5
Alignment explanation
Indices: 17263671--17263716 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
17263661 ACACCTATTA
*
17263671 TTTAT TTTAC TTTAT TTTAT TTTATT TTTAT CTTTAT TTATAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT -TTTAT TT-TAT TTT
17263717 GAAATTACAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 21 0.58
6 15 0.42
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:17270525 original size:46 final size:46
Alignment explanation
Indices: 17270458--17270586 Score: 197
Period size: 46 Copynumber: 2.8 Consensus size: 46
17270448 TGTAACCCGG
* * *
17270458 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCAG-AT
*
17270504 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGACATTCAGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCAGAT
*
17270550 CCATAAGTGAACTCGGACTCAACTCAACGAACTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
17270587 TGCCCAAATA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
46 75 0.99
47 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCAGAT
Found at i:17272265 original size:70 final size:70
Alignment explanation
Indices: 17272179--17272314 Score: 263
Period size: 70 Copynumber: 1.9 Consensus size: 70
17272169 TACTCACAAC
*
17272179 ATGGTTATACTTTTCTTGTTTAACTTATACTATATCTCTCATCGTTGAACCATTTGGAAAGCTAT
1 ATGGTTATACTTTTCTTGTTTAACTTAAACTATATCTCTCATCGTTGAACCATTTGGAAAGCTAT
17272244 CAGAT
66 CAGAT
17272249 ATGGTTATACTTTTCTTGTTTAACTTAAACTATATCTCTCATCGTTGAACCATTTGGAAAGCTAT
1 ATGGTTATACTTTTCTTGTTTAACTTAAACTATATCTCTCATCGTTGAACCATTTGGAAAGCTAT
17272314 C
66 C
17272315 GAATATTCAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (70 bp):
ATGGTTATACTTTTCTTGTTTAACTTAAACTATATCTCTCATCGTTGAACCATTTGGAAAGCTAT
CAGAT
Found at i:17282330 original size:14 final size:15
Alignment explanation
Indices: 17282300--17282330 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
17282290 TTATGAAGAC
17282300 ATCATTTATACAAAAA
1 ATCATTTATA-AAAAA
17282316 ATCATTTATAAAAAA
1 ATCATTTATAAAAAA
17282331 GCTTTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (15 bp):
ATCATTTATAAAAAA
Found at i:17283576 original size:32 final size:32
Alignment explanation
Indices: 17283518--17283637 Score: 143
Period size: 32 Copynumber: 3.8 Consensus size: 32
17283508 TTAGTATAGT
** *
17283518 TTGCATAGATACAGTTTGCAT-TTCATTCAGC
1 TTGCATAGATACAGTTCACATAATCATTCAGC
* * *
17283549 TTGCACAAATATAGTTCACATAATCATTCAGC
1 TTGCATAGATACAGTTCACATAATCATTCAGC
* * *
17283581 TTGCGTAGATACAATTCACATATTCATTCAGC
1 TTGCATAGATACAGTTCACATAATCATTCAGC
*
17283613 TTGCATAGATACAGTTTACATAATC
1 TTGCATAGATACAGTTCACATAATC
17283638 CTACAACACG
Statistics
Matches: 72, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
31 16 0.22
32 56 0.78
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (32 bp):
TTGCATAGATACAGTTCACATAATCATTCAGC
Found at i:17283844 original size:55 final size:55
Alignment explanation
Indices: 17283770--17283890 Score: 136
Period size: 55 Copynumber: 2.2 Consensus size: 55
17283760 AGACTCATAA
* * * *
17283770 ACAGACATATCGTAGATAGTTCC-AAAGGCAGTCATACTACGAATAGTCTCTACGT
1 ACAGACATATGGCAAATAG-TCCTAAAGACAGTCATACTACGAATAGTCTCTACGT
* ** * *
17283825 ACAGACCTATGGCAAATAGTCCTGCAGATAGTCATACTACGGATAGTCTCTACGT
1 ACAGACATATGGCAAATAGTCCTAAAGACAGTCATACTACGAATAGTCTCTACGT
*
17283880 ATAGACATATG
1 ACAGACATATG
17283891 ACGGATAGTC
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 3 0.06
55 51 0.94
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (55 bp):
ACAGACATATGGCAAATAGTCCTAAAGACAGTCATACTACGAATAGTCTCTACGT
Found at i:17283871 original size:15 final size:15
Alignment explanation
Indices: 17283851--17283900 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
17283841 TAGTCCTGCA
17283851 GATAGTCATACTACG
1 GATAGTCATACTACG
17283866 GATAGTC-T-CTACG
1 GATAGTCATACTACG
* *
17283879 TATAGACATA-TGACG
1 GATAGTCATACT-ACG
17283894 GATAGTC
1 GATAGTC
17283901 CTGTGAACAG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 10 0.36
14 3 0.11
15 15 0.54
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (15 bp):
GATAGTCATACTACG
Found at i:17283899 original size:55 final size:55
Alignment explanation
Indices: 17283799--17283903 Score: 156
Period size: 55 Copynumber: 1.9 Consensus size: 55
17283789 TTCCAAAGGC
* *
17283799 AGTCATACTACGAATAGTCTCTACGTACAGACCTATGGCAAATAGTCCTGCAGAT
1 AGTCATACTACGAATAGTCTCTACGTACAGACATATGACAAATAGTCCTGCAGAT
* * **
17283854 AGTCATACTACGGATAGTCTCTACGTATAGACATATGACGGATAGTCCTG
1 AGTCATACTACGAATAGTCTCTACGTACAGACATATGACAAATAGTCCTG
17283904 TGAACAGTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (55 bp):
AGTCATACTACGAATAGTCTCTACGTACAGACATATGACAAATAGTCCTGCAGAT
Found at i:17293092 original size:42 final size:42
Alignment explanation
Indices: 17292980--17293125 Score: 145
Period size: 42 Copynumber: 3.4 Consensus size: 42
17292970 TTTCGTTATG
*
17292980 TGATTTCATGTAAGACCAC-GTCTGGGACGTTGGCATCG-ACTTC
1 TGATTTCATGTAAGACC-CTGTCTGGGACATTGGCATCGTA--TC
* * *
17293023 T-ATATTACGTGTAAGACCATGTATGGGACATTGGCATCGTATC
1 TGAT-TT-CATGTAAGACCCTGTCTGGGACATTGGCATCGTATC
* * *
17293066 TGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGATGTT
1 TGATTTCATGTAAGACCCTGTCTGGGACATTGGCATCG-TATC
*
17293109 TGATTACATGTAAGACC
1 TGATTTCATGTAAGACC
17293126 ACGTCTAGGA
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
42 30 0.35
43 26 0.30
44 29 0.34
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
TGATTTCATGTAAGACCCTGTCTGGGACATTGGCATCGTATC
Found at i:17293367 original size:20 final size:21
Alignment explanation
Indices: 17293338--17293377 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
17293328 GTATAAATGA
17293338 TTTGATGATA-C-TTATTTGC
1 TTTGATGATATCTTTATTTGC
17293357 TTTGAATGATATCTTTATTTG
1 TTTG-ATGATATCTTTATTTG
17293378 TATATGGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 1 0.06
22 7 0.39
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.55
Consensus pattern (21 bp):
TTTGATGATATCTTTATTTGC
Found at i:17302184 original size:27 final size:27
Alignment explanation
Indices: 17302146--17302199 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
17302136 AATACAATGG
17302146 ATGAAGGAATACCATGTAATCGTACTA
1 ATGAAGGAATACCATGTAATCGTACTA
*
17302173 ATGAAGGAATACCATGTAATTGTACTA
1 ATGAAGGAATACCATGTAATCGTACTA
17302200 TCTTGACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (27 bp):
ATGAAGGAATACCATGTAATCGTACTA
Found at i:17304925 original size:29 final size:29
Alignment explanation
Indices: 17304893--17304968 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
17304883 ATCATATTCG
*
17304893 TATGGCCTATTAGGCCCAAATCACCTGTA
1 TATGGCCTATTAGGCCCAAATCACATGTA
* *
17304922 TATGGCCCATTAGGCCCAAATCACATTTA
1 TATGGCCTATTAGGCCCAAATCACATGTA
* *
17304951 TATGGCTTGTTAGGCCCA
1 TATGGCCTATTAGGCCCA
17304969 GTCACATTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (29 bp):
TATGGCCTATTAGGCCCAAATCACATGTA
Found at i:17315638 original size:27 final size:26
Alignment explanation
Indices: 17315608--17315722 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
17315598 GGCAAAATTC
17315608 TCATTTTACCTCATAAGGGCAAAACAA
1 TCATTTTACC-CATAAGGGCAAAACAA
*
17315635 TCATTTTAACCCATAAGGGTAAAACAA
1 TCATTTT-ACCCATAAGGGCAAAACAA
* *
17315662 TCATTTTACCCCAAAAGGGCAAAACAG
1 TCATTTTA-CCCATAAGGGCAAAACAA
* * * *
17315689 TCATTTTGCCACATGAGGGAAAAATAA
1 TCATTTTACC-CATAAGGGCAAAACAA
17315716 TCATTTT
1 TCATTTT
17315723 TTCGATTAGG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.04
27 69 0.92
28 3 0.04
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (26 bp):
TCATTTTACCCATAAGGGCAAAACAA
Found at i:17315680 original size:54 final size:54
Alignment explanation
Indices: 17315608--17315722 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
17315598 GGCAAAATTC
* * *
17315608 TCATTTTACCTCATAAGGGCAAAACAATCATTTTAACC-CATAAGGGTAAAACAA
1 TCATTTTACCCCAAAAGGGCAAAACAATCATTTT-ACCACATAAGGGAAAAACAA
* * * *
17315662 TCATTTTACCCCAAAAGGGCAAAACAGTCATTTTGCCACATGAGGGAAAAATAA
1 TCATTTTACCCCAAAAGGGCAAAACAATCATTTTACCACATAAGGGAAAAACAA
17315716 TCATTTT
1 TCATTTT
17315723 TTCGATTAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
53 2 0.04
54 51 0.96
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (54 bp):
TCATTTTACCCCAAAAGGGCAAAACAATCATTTTACCACATAAGGGAAAAACAA
Found at i:17320937 original size:16 final size:16
Alignment explanation
Indices: 17320908--17320940 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17320898 CTAGCTCGAG
17320908 TGCATTTTATTTTCTT
1 TGCATTTTATTTTCTT
17320924 TGCATGTTTA-TTTCTT
1 TGCAT-TTTATTTTCTT
17320940 T
1 T
17320941 TTTTTTCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.12, C:0.12, G:0.09, T:0.67
Consensus pattern (16 bp):
TGCATTTTATTTTCTT
Found at i:17320967 original size:16 final size:16
Alignment explanation
Indices: 17320942--17320990 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
17320932 TATTTCTTTT
17320942 TTTTTCAGTTTAGTTTG
1 TTTTT-AGTTTAGTTTG
*
17320959 TTTTTAGTTTTATTTTG
1 TTTTTAG-TTTAGTTTG
*
17320976 -TTTTCGTTTAGTTTG
1 TTTTTAGTTTAGTTTG
17320991 CTTGAAGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 13 0.46
ACGTcount: A:0.10, C:0.04, G:0.16, T:0.69
Consensus pattern (16 bp):
TTTTTAGTTTAGTTTG
Found at i:17325702 original size:5 final size:5
Alignment explanation
Indices: 17325681--17325717 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
17325671 TTTATGGAAC
17325681 TTTCT TTGT-T TTT-T TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TT-TCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
17325718 TTTCTATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 5 0.17
5 24 0.80
6 1 0.03
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.84
Consensus pattern (5 bp):
TTTCT
Found at i:17325712 original size:15 final size:13
Alignment explanation
Indices: 17325681--17325720 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 13
17325671 TTTATGGAAC
17325681 TTTCTTTGTTTTTT
1 TTTCTTT-TTTTTT
17325695 TTTCTTTTCTTTTCT
1 TTTCTTTT-TTTT-T
17325710 TTTCTTTTTTT
1 TTTCTTTTTTT
17325721 CTATAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.04
14 14 0.58
15 9 0.38
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:17329060 original size:17 final size:17
Alignment explanation
Indices: 17329038--17329071 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17329028 CATGGGTTTA
17329038 TTGTGAATTTCAGTAAT
1 TTGTGAATTTCAGTAAT
* *
17329055 TTGTGATTTTGAGTAAT
1 TTGTGAATTTCAGTAAT
17329072 AAGGACTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (17 bp):
TTGTGAATTTCAGTAAT
Found at i:17333213 original size:21 final size:20
Alignment explanation
Indices: 17333187--17333228 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
17333177 TGTGTCCCCT
17333187 GTTTTGAGTAAAATTTTCAAA
1 GTTTTGAG-AAAATTTTCAAA
* *
17333208 GTTTTGTGAAAATTTTTAAA
1 GTTTTGAGAAAATTTTCAAA
17333228 G
1 G
17333229 ATATTGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (20 bp):
GTTTTGAGAAAATTTTCAAA
Found at i:17347626 original size:73 final size:74
Alignment explanation
Indices: 17347539--17347687 Score: 255
Period size: 74 Copynumber: 2.0 Consensus size: 74
17347529 TAGGTTCAGG
*
17347539 CTTGAATTGGGTG-AAAAAATGGCTTGGTTTTGGCCTATTCCTTGTCCACAAGGCCAAATACACG
1 CTTGAATTGGGTGAAAAAAATGGCTTGGTTTTGGCCTATTCCTTGTCCACAAGGCCAAAAACACG
17347603 GGTGTGTGT
66 GGTGTGTGT
* * *
17347612 CTTGAATTGGGTGAAAAAAATGGCTTGGTTTTGGCCTATTTCTTGTCTACAAGGCCAAAAACACT
1 CTTGAATTGGGTGAAAAAAATGGCTTGGTTTTGGCCTATTCCTTGTCCACAAGGCCAAAAACACG
17347677 GGTGTGTGT
66 GGTGTGTGT
17347686 CT
1 CT
17347688 CAGCCATGTG
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
73 13 0.18
74 58 0.82
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (74 bp):
CTTGAATTGGGTGAAAAAAATGGCTTGGTTTTGGCCTATTCCTTGTCCACAAGGCCAAAAACACG
GGTGTGTGT
Found at i:17350608 original size:21 final size:21
Alignment explanation
Indices: 17350582--17350623 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17350572 ATGATGCCTT
*
17350582 GATCCAAAGTCAAGCAGCAAC
1 GATCCAAAGCCAAGCAGCAAC
*
17350603 GATCCAAAGCCAAGCATCAAC
1 GATCCAAAGCCAAGCAGCAAC
17350624 ACTAAAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.31, G:0.17, T:0.10
Consensus pattern (21 bp):
GATCCAAAGCCAAGCAGCAAC
Found at i:17353519 original size:25 final size:26
Alignment explanation
Indices: 17353359--17353515 Score: 232
Period size: 26 Copynumber: 6.2 Consensus size: 26
17353349 GAGGAAGTGC
17353359 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
17353385 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
17353411 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
17353437 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
17353463 AAAAGGGCTT-TGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
17353488 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
17353511 AAAAG
1 AAAAG
17353516 AGGGTAGGCC
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
23 5 0.04
24 3 0.03
25 29 0.24
26 82 0.69
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:17353764 original size:31 final size:31
Alignment explanation
Indices: 17353726--17353804 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
17353716 CGTTTACAGT
17353726 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
** * *
17353757 AAAGGCTTTGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
17353788 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCAGCCCAGT
17353805 AACCGTTAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGAAATGATTTATGA
Found at i:17357097 original size:47 final size:47
Alignment explanation
Indices: 17357019--17357378 Score: 576
Period size: 47 Copynumber: 7.6 Consensus size: 47
17357009 CCCTTCGGGA
* * * * * *
17357019 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17357066 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17357113 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17357160 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17357207 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17357256 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17357303 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17357352 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
17357379 TATTCAAATA
Statistics
Matches: 291, Mismatches: 18, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
47 200 0.69
49 91 0.31
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17357257 original size:96 final size:96
Alignment explanation
Indices: 17357019--17357378 Score: 593
Period size: 96 Copynumber: 3.8 Consensus size: 96
17357009 CCCTTCGGGA
* * * * * * *
17357019 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
17357082 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
17357113 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
17357176 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
17357207 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
17357272 ACTTTCATATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
17357303 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
17357368 ACTTTCACATT
66 ACTTTCACATT
17357379 TATTCAAATA
Statistics
Matches: 247, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
93 1 0.00
94 91 0.37
96 155 0.63
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17357275 original size:143 final size:141
Alignment explanation
Indices: 17357019--17357378 Score: 576
Period size: 143 Copynumber: 2.5 Consensus size: 141
17357009 CCCTTCGGGA
* * * * * * * *
17357019 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
17357084 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
17357149 GGCTATTAGGC
131 GGCCATTAGGC
17357160 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* * *
17357225 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCATATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
17357290 TCGGCCATTAGGC
129 TCGGCCATTAGGC
17357303 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
17357368 ACTTTCACATT
64 ACTTTCACATT
17357379 TATTCAAATA
Statistics
Matches: 203, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
141 47 0.23
143 109 0.54
145 47 0.23
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:17360775 original size:27 final size:27
Alignment explanation
Indices: 17360745--17360950 Score: 144
Period size: 27 Copynumber: 7.6 Consensus size: 27
17360735 CAAATTGTAA
*
17360745 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
***
17360772 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
***
17360799 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
* ** * *
17360826 AATTACTATTTTACCCTTGATTTACAG
1 AATTACCAAATTACCCTCGATTTATAG
**** * *
17360853 AATTACTGTTTTACCCTCGATTTACAA
1 AATTACCAAATTACCCTCGATTTATAG
* * * * * *
17360880 AATTACTAAAATGCCCTCGGTTTACAA
1 AATTACCAAATTACCCTCGATTTATAG
* * *
17360907 AATTACCAAAATACCCTCGA-TCAGTAA
1 AATTACCAAATTACCCTCGATTTA-TAG
*
17360934 AATTACCAAAATACCCT
1 AATTACCAAATTACCCT
17360951 AGTCTGTAAA
Statistics
Matches: 156, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 2 0.01
27 154 0.99
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (27 bp):
AATTACCAAATTACCCTCGATTTATAG
Found at i:17360787 original size:54 final size:54
Alignment explanation
Indices: 17360729--17360842 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
17360719 ATTACTGAAA
* *
17360729 TACCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTT
* * * **** *
17360783 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTT
17360837 TACCCT
1 TACCCT
17360843 TGATTTACAG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.38
Consensus pattern (54 bp):
TACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTT
Found at i:17360848 original size:54 final size:54
Alignment explanation
Indices: 17360756--17360887 Score: 201
Period size: 54 Copynumber: 2.4 Consensus size: 54
17360746 ATTACCAAAG
** *
17360756 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
* *
17360810 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
* *
17360864 TACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTATAGAATTACTA
17360888 AAATGCCCTC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:17360904 original size:54 final size:54
Alignment explanation
Indices: 17360783--17360913 Score: 163
Period size: 54 Copynumber: 2.4 Consensus size: 54
17360773 ATTACCGTTT
* * * ***
17360783 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
* *
17360837 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
* * *
17360891 TGCCCTCGGTTTACAAAATTACC
1 TACCCTCGATTTACAGAATTACC
17360914 AAAATACCCT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:17360922 original size:81 final size:81
Alignment explanation
Indices: 17360711--17360927 Score: 200
Period size: 81 Copynumber: 2.7 Consensus size: 81
17360701 AATACTTTAG
* ** * * ** * *
17360711 TTTACCAAATTACTGAAATACCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATT
1 TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATT
17360776 ACCGTTTTACCCTCGA
66 ACCGTTTTACCCTCGA
* * **** * * * *** *
17360792 TTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATT
1 TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATT
*
17360857 ACTGTTTTACCCTCGA
66 ACCGTTTTACCCTCGA
* * *
17360873 TTTACAAAATTACTAAAATGCCCTCGGTTTACAAAATTACCAAAATACCCTCGAT
1 TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCTCGAT
17360928 CAGTAAAATT
Statistics
Matches: 102, Mismatches: 34, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
81 102 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATT
ACCGTTTTACCCTCGA
Found at i:17360949 original size:81 final size:81
Alignment explanation
Indices: 17360864--17361140 Score: 292
Period size: 81 Copynumber: 3.4 Consensus size: 81
17360854 ATTACTGTTT
* * ** * * *
17360864 TACCCTCGATTTACAAAATTACTAAAATGCCCTCGGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
*
17360929 AGTAAAATTACCAAAA
66 TGTAAAATTACCAAAA
* * ** * * *
17360945 TACCCTAG-TCTGTAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCATTAATT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
17361009 TGTAAAATTACCAAAA
66 TGTAAAATTACCAAAA
* * ** * * *
17361025 TTCCCT-TAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACTGAAATACCCTCAAT
1 TACCCTCGA-TTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAAT
17361089 TTGTAAAATTACCAAAA
65 TTGTAAAATTACCAAAA
*
17361106 TACCC-CTGATTTACAAAGTTAC-AGAAATACCCTTG
1 TACCCTC-GATTTACAAAATTACTA-AAATACCCTTG
17361141 ACTTTCTAAA
Statistics
Matches: 162, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
80 64 0.40
81 97 0.60
82 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
TGTAAAATTACCAAAA
Found at i:17360998 original size:27 final size:27
Alignment explanation
Indices: 17360878--17361223 Score: 257
Period size: 27 Copynumber: 12.8 Consensus size: 27
17360868 CTCGATTTAC
* * * **
17360878 AAAATTACTAAAATGCCCTCGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
17360905 AAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
17360932 AAAATTACCAAAATACCC-TAGTCTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
17360958 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
17360985 AAAATTACCGAAATACCATTAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
17361012 AAAATTACCAAAATTCCCTTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
17361039 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* ** ***
17361066 GAAATTACTGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
17361093 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
17361120 AAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCA-AAATACCCTTG-GTTTGT
* * **
17361148 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACCA-AAATACCCTTGGTTTGT
** *
17361176 AAAATTACTGAAATACCTTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
17361203 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
17361224 TAGGATGAAA
Statistics
Matches: 252, Mismatches: 62, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
26 22 0.09
27 205 0.81
28 7 0.03
29 18 0.07
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:17361284 original size:27 final size:27
Alignment explanation
Indices: 17361254--17361345 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
17361244 ACCCCTATTA
*
17361254 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
17361281 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
17361308 GGTAAAGTGATCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
17361335 GGTAAAATGAC
1 GGTAAAATGAC
17361346 AAATATGCCC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:17362175 original size:26 final size:26
Alignment explanation
Indices: 17362146--17362318 Score: 251
Period size: 26 Copynumber: 6.7 Consensus size: 26
17362136 GAGGAAGTGC
**
17362146 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
17362172 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
17362198 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
17362224 AAAAGGGCTTATGTCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
17362250 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
17362276 AAAAGGGCTT-TGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
17362301 AAAAGGGCTT-TGCCCCAG
1 AAAAGGGCTTATGCCCCAG
17362319 CTATTAAAAG
Statistics
Matches: 131, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
25 29 0.22
26 102 0.78
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:17362224 original size:52 final size:51
Alignment explanation
Indices: 17362146--17362318 Score: 296
Period size: 52 Copynumber: 3.4 Consensus size: 51
17362136 GAGGAAGTGC
17362146 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCC-AGTTTACCG
17362198 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGTCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATG-CCCAGTTTACCG
*
17362250 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATG-CCCAGTTTACCG
17362301 AAAAGGGCTT-TGCCCCAG
1 AAAAGGGCTTATGCCCCAG
17362319 CTATTAAAAG
Statistics
Matches: 118, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
50 8 0.07
51 23 0.19
52 84 0.71
53 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCAGTTTACCG
Found at i:17362574 original size:31 final size:31
Alignment explanation
Indices: 17362539--17362617 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
17362529 CGTTTACAGT
*
17362539 AAAGGCTTCAGCCTAGTGAAATGATTTATGA
1 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
* *
17362570 AAAGGC-TCTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTC-AGCCCAGTGAAATGATTTATGA
17362601 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCAGCCCAGT
17362618 AACCGTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 2 0.05
31 38 0.90
32 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGAAATGATTTATGA
Found at i:17379553 original size:21 final size:19
Alignment explanation
Indices: 17379518--17379556 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
17379508 TAAACACCTA
17379518 TTATTTTTATTTATTTATT
1 TTATTTTTATTTATTTATT
17379537 TTATTTTTATCTTTATTTAT
1 TTATTTTTA--TTTATTTAT
17379557 ATTTTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (19 bp):
TTATTTTTATTTATTTATT
Found at i:17406282 original size:21 final size:21
Alignment explanation
Indices: 17406258--17406299 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17406248 TCATCAGATC
17406258 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGCATCGGGGG
**
17406279 TACAGGTTGAGGCATCGGGGG
1 TACACCTTGAGGCATCGGGGG
17406300 AGGTGGGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGCATCGGGGG
Found at i:17416230 original size:23 final size:23
Alignment explanation
Indices: 17416188--17416231 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
17416178 CTGACCTCTG
* *
17416188 TGTATTACGAATATAGAATTTTT
1 TGTATTACGAATACAAAATTTTT
*
17416211 TGTATTACGAATGCAAAATTT
1 TGTATTACGAATACAAAATTT
17416232 CAATGACTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (23 bp):
TGTATTACGAATACAAAATTTTT
Found at i:17416324 original size:20 final size:20
Alignment explanation
Indices: 17416296--17416338 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
17416286 ATATAAAGAA
* *
17416296 AAAACTTATAATTATTTTTT
1 AAAACTTATAATGAATTTTT
* *
17416316 AAAATTTATTATGAATTTTT
1 AAAACTTATAATGAATTTTT
17416336 AAA
1 AAA
17416339 GTTAGAACAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
AAAACTTATAATGAATTTTT
Found at i:17417370 original size:93 final size:93
Alignment explanation
Indices: 17417211--17417381 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
17417201 GCCCCTAAGT
* * * *
17417211 GAACTTGGACTCAGCTCAACGAGCTTGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
17417276 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
17417304 GAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTT-GGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
17417368 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
17417382 TTAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17417378 original size:46 final size:46
Alignment explanation
Indices: 17417206--17417378 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
17417196 AACCCGCCCC
* * * * *
17417206 TAAGTGAACTTGGACTCAGCTCAACGAGCTT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCA
* * *
17417252 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
17417300 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
17417345 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17417379 TGCTTAACCA
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 56 0.53
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:17417397 original size:46 final size:45
Alignment explanation
Indices: 17417204--17417397 Score: 157
Period size: 46 Copynumber: 4.2 Consensus size: 45
17417194 GTAACCCGCC
* * *
17417204 CCTAAGTGAACTTGGACTCAGCTCAACGAGCTT-GG--GCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAG-TTCGGATGC-TT-ACAT
*
17417249 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-C---TTACAT
* * *** *
17417299 -CTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTTACAT
17417342 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTTAACCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTT-A-CAT
17417390 CCT-AGTGA
1 CCTAAGTGA
17417398 CATGTCGCTT
Statistics
Matches: 121, Mismatches: 16, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
43 5 0.04
44 1 0.01
45 6 0.05
46 63 0.52
47 30 0.25
48 8 0.07
49 2 0.02
50 3 0.02
51 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTTACAT
Found at i:17424788 original size:46 final size:45
Alignment explanation
Indices: 17424721--17424888 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 45
17424711 TACCCCTAAG
*
17424721 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* *
17424767 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* * ** * *
17424814 CGAACTCGGACTCAACTCAATGAGTTCGAACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCATAAA
17424860 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
17424889 ATGCTCAACC
Statistics
Matches: 100, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 54 0.54
47 27 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:17424881 original size:93 final size:93
Alignment explanation
Indices: 17424722--17424892 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
17424712 ACCCCTAAGT
** *
17424722 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
17424787 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
17424815 GAACTCGGACTCAACTCAATGAGTTCGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
17424880 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17424893 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Done.