Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 23 of 59
Found at i:8440543 original size:2 final size:2
Alignment explanation
Indices: 8440538--8440578 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
8440528 TCTATACATG
*
8440538 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8440579 TCATTATCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8440578 original size:10 final size:10
Alignment explanation
Indices: 8440523--8440578 Score: 67
Period size: 10 Copynumber: 5.6 Consensus size: 10
8440513 TCTATAACAC
*
8440523 ACATATCTAT
1 ACATATATAT
*
8440533 ACATGTATAT
1 ACATATATAT
*
8440543 ATATATATAT
1 ACATATATAT
*
8440553 ATATATATAT
1 ACATATATAT
*
8440563 ATATATATAT
1 ACATATATAT
8440573 ACATAT
1 ACATAT
8440579 TCATTATCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 41 1.00
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (10 bp):
ACATATATAT
Found at i:8440688 original size:42 final size:42
Alignment explanation
Indices: 8440615--8440730 Score: 169
Period size: 42 Copynumber: 2.7 Consensus size: 42
8440605 TCATCAGTTC
* *
8440615 ATGTGCACTCCCCACTAGCACATGGCTGGGTCATCATCGGCTT
1 ATGTGCACT-CCCACTAGCACATAGCCGGGTCATCATCGGCTT
*
8440658 ATGTGCACTCCCACTTGCACATAGCCGGGTCATCATCGGCTT
1 ATGTGCACTCCCACTAGCACATAGCCGGGTCATCATCGGCTT
* * *
8440700 ATGTGCACTCCTACTCGCACATAGTCGGGTC
1 ATGTGCACTCCCACTAGCACATAGCCGGGTC
8440731 CACATCAACA
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 58 0.87
43 9 0.13
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.26
Consensus pattern (42 bp):
ATGTGCACTCCCACTAGCACATAGCCGGGTCATCATCGGCTT
Found at i:8467189 original size:20 final size:20
Alignment explanation
Indices: 8467166--8467211 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
8467156 CTTCTAAACC
8467166 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
8467186 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
8467206 TCAAAT
1 TCAAAT
8467212 GGGATCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:8474466 original size:31 final size:30
Alignment explanation
Indices: 8474414--8474520 Score: 117
Period size: 31 Copynumber: 3.5 Consensus size: 30
8474404 AGGGGTGAAG
8474414 TTGTAATTATGAACAAG-TTGAAGGATCAAA
1 TTGTAATTATGAA-AAGTTTGAAGGATCAAA
*
8474444 TTGTAATTTATGAAATGTTTGAAGGATCAAA
1 TTGTAA-TTATGAAAAGTTTGAAGGATCAAA
** *
8474475 TTGTAAAAGATGAAAAGTTTGGAGGATCAAA
1 TTGT-AATTATGAAAAGTTTGAAGGATCAAA
* * *
8474506 TCGTAAATAAGAAAA
1 TTGTAATTATGAAAA
8474521 AAATTGACGA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
30 17 0.26
31 47 0.71
32 2 0.03
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.30
Consensus pattern (30 bp):
TTGTAATTATGAAAAGTTTGAAGGATCAAA
Found at i:8475721 original size:42 final size:41
Alignment explanation
Indices: 8475674--8475884 Score: 190
Period size: 42 Copynumber: 4.8 Consensus size: 41
8475664 CATCTCATAT
* * * *
8475674 GCAACGGCTTATGCGTACTCCCACTCGCATATAGCCGGGTTA
1 GCAACGACTTATG-GTACTCCCACTCGCACATAGCCGAGTCA
* *
8475716 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCCGAGTCA
1 GCAACGACTTATG-GTACTCCCACTCGCACATAGCCGAGTCA
*
8475758 GCAACGACTTATGTTCACTCCCACTCGCACATAGCCGAGTCA
1 GCAACGACTTATGGT-ACTCCCACTCGCACATAGCCGAGTCA
* * *
8475800 GCAACGACTTATCGACTTATGTGCACTCCCACTCACACATAGTCGGGTCA
1 GCAACGACTTAT-G------GT--ACTCCCACTCGCACATAGCCGAGTCA
*
8475850 GCAACGACTTAT-GTACACTCCTACTCGCACATAGC
1 GCAACGACTTATGGT--ACTCCCACTCGCACATAGC
8475885 TGGGTCCACA
Statistics
Matches: 144, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
42 106 0.74
43 1 0.01
49 1 0.01
50 36 0.25
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (41 bp):
GCAACGACTTATGGTACTCCCACTCGCACATAGCCGAGTCA
Found at i:8475821 original size:50 final size:50
Alignment explanation
Indices: 8475762--8475861 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
8475752 GAGTCAGCAA
* *
8475762 CGACTTATGTTCACTCCCACTCGCACATAGCCGAGTCAGCAACGACTTAT
1 CGACTTATGTGCACTCCCACTCACACATAGCCGAGTCAGCAACGACTTAT
* *
8475812 CGACTTATGTGCACTCCCACTCACACATAGTCGGGTCAGCAACGACTTAT
1 CGACTTATGTGCACTCCCACTCACACATAGCCGAGTCAGCAACGACTTAT
8475862 GTACACTCCT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (50 bp):
CGACTTATGTGCACTCCCACTCACACATAGCCGAGTCAGCAACGACTTAT
Found at i:8478368 original size:15 final size:15
Alignment explanation
Indices: 8478348--8478388 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
8478338 TCAAGTGTAT
8478348 GCCTACATATTGATA
1 GCCTACATATTGATA
8478363 GCCTACATATTGATA
1 GCCTACATATTGATA
* *
8478378 ACCTCCATATT
1 GCCTACATATT
8478389 TTTCATGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (15 bp):
GCCTACATATTGATA
Found at i:8483197 original size:26 final size:26
Alignment explanation
Indices: 8483168--8483226 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
8483158 ATTTTCTAGT
* *
8483168 TTTCCTTTGT-TTTTCTCTTTTCTTCC
1 TTTCCTTTCTATTTTCTCTCTTCTT-C
* *
8483194 TTTCCTCTCTATTTTCTCTCTTGTTC
1 TTTCCTTTCTATTTTCTCTCTTCTTC
8483220 TTTCCTT
1 TTTCCTT
8483227 ATGGCCGGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.02, C:0.29, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTCCTTTCTATTTTCTCTCTTCTTC
Found at i:8484237 original size:42 final size:42
Alignment explanation
Indices: 8484079--8484224 Score: 193
Period size: 42 Copynumber: 3.5 Consensus size: 42
8484069 CAGCTCATAT
* * * *
8484079 GCAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
1 GCAACGGCTTATGCGCACTCCCACTCGCACATAACTGGGTCA
** * * * *
8484121 GCAACGATTTATGCGTAGTCCCACTCGCATATAATTGGGTCA
1 GCAACGGCTTATGCGCACTCCCACTCGCACATAACTGGGTCA
*
8484163 GCAACGGCTTATGCTCACTCCCACTCGCACATAACTGGGTCA
1 GCAACGGCTTATGCGCACTCCCACTCGCACATAACTGGGTCA
8484205 GCAACGGCTTATGCGCACTC
1 GCAACGGCTTATGCGCACTC
8484225 TTACTTGCAC
Statistics
Matches: 86, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (42 bp):
GCAACGGCTTATGCGCACTCCCACTCGCACATAACTGGGTCA
Found at i:8484854 original size:19 final size:19
Alignment explanation
Indices: 8484813--8484854 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
8484803 GAAGAAAGAG
* *
8484813 AAGAAGCTGCTGGAGAATG
1 AAGAAGCTACTGGAGAATA
8484832 AAGAAGCTACTGGAAGAA-A
1 AAGAAGCTACTGG-AGAATA
8484851 AAGA
1 AAGA
8484855 TATTTATAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.48, C:0.10, G:0.31, T:0.12
Consensus pattern (19 bp):
AAGAAGCTACTGGAGAATA
Found at i:8486836 original size:25 final size:25
Alignment explanation
Indices: 8486808--8486858 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
8486798 ATACATGGCA
* *
8486808 AGGCCATGGGTTGTTATACGTGGTT
1 AGGCCATGAGTTGATATACGTGGTT
8486833 AGGCCATGAGTTGATATACGTGGTT
1 AGGCCATGAGTTGATATACGTGGTT
8486858 A
1 A
8486859 CGACCACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.12, G:0.33, T:0.33
Consensus pattern (25 bp):
AGGCCATGAGTTGATATACGTGGTT
Found at i:8493307 original size:22 final size:22
Alignment explanation
Indices: 8493279--8493329 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
8493269 GCCCAAATTT
8493279 TCGCTGCTGCGAAAATGCATTC
1 TCGCTGCTGCGAAAATGCATTC
8493301 TCGCTGCTGCGAAAATGCATTC
1 TCGCTGCTGCGAAAATGCATTC
8493323 TCGCTGC
1 TCGCTGC
8493330 AACGAGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (22 bp):
TCGCTGCTGCGAAAATGCATTC
Found at i:8495743 original size:67 final size:66
Alignment explanation
Indices: 8495652--8495901 Score: 290
Period size: 67 Copynumber: 3.7 Consensus size: 66
8495642 GTTATGATGT
* * *
8495652 ATAGTTATCAACCTTTGAAATTTTTTGTGTTAAGGTTGATATGGCTTGATATGATTACATATGGT
1 ATAGTTATCAACCTTTGAATTTTTTTGTATTAAGATTGATATGGCTTGATATGATTACATATGGT
8495717 G
66 G
* * *
8495718 AATTGTTACCAACCTTTGAATTTTTTTGTATTAAGATTGATATGGCTTGACATGATTTTATGATC
1 -ATAGTTATCAACCTTTGAATTTTTTTGTATTAAGATTGATATGGCTTGATATGA---T-T-A-C
8495783 ATATATGGTG
59 --ATATGGTG
* *
8495793 TATAGTTATCAACCTTTGAATTTTTTTTGTATTAAGGTTGATATGGCTTGATATGATTA-AGAT-
1 -ATAGTTATCAACCTTTGAA-TTTTTTTGTATTAAGATTGATATGGCTTGATATGATTACATATG
8495856 GT-
64 GTG
* *
8495858 ATAGTTATCAACCATTGAATTTTTTTGTATTATGATTGATATGG
1 ATAGTTATCAACCTTTGAATTTTTTTGTATTAAGATTGATATGG
8495902 TTATGGTATA
Statistics
Matches: 159, Mismatches: 15, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
63 23 0.14
64 18 0.11
66 2 0.01
67 51 0.32
70 1 0.01
71 2 0.01
72 2 0.01
73 2 0.01
75 25 0.16
76 33 0.21
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (66 bp):
ATAGTTATCAACCTTTGAATTTTTTTGTATTAAGATTGATATGGCTTGATATGATTACATATGGT
G
Found at i:8495849 original size:76 final size:75
Alignment explanation
Indices: 8495701--8495850 Score: 228
Period size: 76 Copynumber: 2.0 Consensus size: 75
8495691 TATGGCTTGA
* *
8495701 TATGATTACATATGGTGAATTGTTACCAACCTTTGAATTTTTTTGTATTAAGATTGATATGGCTT
1 TATGATCACATATGGTGAATAGTTACCAACCTTTGAATTTTTTTGTATTAAGATTGATATGGCTT
8495766 GACATGATTT
66 GACATGATTT
* * * *
8495776 TATGATCATATATGGTGTATAGTTATCAACCTTTGAATTTTTTTTGTATTAAGGTTGATATGGCT
1 TATGATCACATATGGTGAATAGTTACCAACCTTTGAA-TTTTTTTGTATTAAGATTGATATGGCT
*
8495841 TGATATGATT
65 TGACATGATT
8495851 AAGATGTATA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
75 32 0.48
76 35 0.52
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (75 bp):
TATGATCACATATGGTGAATAGTTACCAACCTTTGAATTTTTTTGTATTAAGATTGATATGGCTT
GACATGATTT
Found at i:8495917 original size:139 final size:141
Alignment explanation
Indices: 8495644--8495901 Score: 396
Period size: 139 Copynumber: 1.8 Consensus size: 141
8495634 TTAATATGGT
*
8495644 TATGATGTATAGTTATCAACCTTTGAAATTTTTTGTGTTAAGGTTGATATGGCTTGATATGATTA
1 TATGATGTATAGTTATCAACCTTTGAAATTTTTTGTATTAAGGTTGATATGGCTTGATATGATTA
* * * *
8495709 CATATGGTGAATTGTTACCAACCTTTGAATTTTTTTGTATTAAGATTGATATGGCTTGACATGAT
66 CAGATGGT-AATAGTTACCAACCATTGAATTTTTTTGTATTAAGATTGATATGGCTTGACATGAA
8495774 TTTATGATCATA
130 TTTATGATCATA
* *
8495786 TATGGTGTATAGTTATCAACCTTTGAATTTTTTTTGTATTAAGGTTGATATGGCTTGATATGATT
1 TATGATGTATAGTTATCAACCTTTGAA-ATTTTTTGTATTAAGGTTGATATGGCTTGATATGATT
* *
8495851 A-AGAT-GT-ATAGTTATCAACCATTGAATTTTTTTGTATTATGATTGATATGG
65 ACAGATGGTAATAGTTACCAACCATTGAATTTTTTTGTATTAAGATTGATATGG
8495902 TTATGGTATA
Statistics
Matches: 107, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
139 40 0.37
141 2 0.02
142 29 0.27
143 36 0.34
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.46
Consensus pattern (141 bp):
TATGATGTATAGTTATCAACCTTTGAAATTTTTTGTATTAAGGTTGATATGGCTTGATATGATTA
CAGATGGTAATAGTTACCAACCATTGAATTTTTTTGTATTAAGATTGATATGGCTTGACATGAAT
TTATGATCATA
Found at i:8498273 original size:20 final size:21
Alignment explanation
Indices: 8498245--8498283 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8498235 AAAAATCTCA
*
8498245 TTCTACCAGCAGCTTCTTCAT
1 TTCTACCAGCAACTTCTTCAT
8498266 TTCT-CCAGCAACTTCTTC
1 TTCTACCAGCAACTTCTTC
8498284 TTCTCCTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.18, C:0.36, G:0.08, T:0.38
Consensus pattern (21 bp):
TTCTACCAGCAACTTCTTCAT
Found at i:8499286 original size:53 final size:54
Alignment explanation
Indices: 8499169--8499325 Score: 246
Period size: 53 Copynumber: 2.9 Consensus size: 54
8499159 GGTGATACTT
* * *
8499169 TTCGGCTATGTGCATGATGTGGTAGGATGCACATGAGCTGGGTGAGATGGGATG
1 TTCGGCTATGTGCACGATGTGGTGGGATGCACATGAGTTGGGTGAGATGGGATG
*
8499223 TTCGGTTATGTGCACGATGTGGTGGGATGC-CATGAGTTGGGTGAGATGGGATG
1 TTCGGCTATGTGCACGATGTGGTGGGATGCACATGAGTTGGGTGAGATGGGATG
*
8499276 -TCTGGCTATGTGCACGATGTGGTGGGATGCACATGATTTGGGTGAGATGG
1 TTC-GGCTATGTGCACGATGTGGTGGGATGCACATGAGTTGGGTGAGATGG
8499326 AATGATTGCT
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 2 0.02
53 48 0.51
54 45 0.47
ACGTcount: A:0.18, C:0.11, G:0.41, T:0.29
Consensus pattern (54 bp):
TTCGGCTATGTGCACGATGTGGTGGGATGCACATGAGTTGGGTGAGATGGGATG
Found at i:8501704 original size:20 final size:19
Alignment explanation
Indices: 8501681--8501719 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
8501671 TGTGGTCGAG
8501681 CAACATAAAA-AGAAAGAAAA
1 CAACA-AAAAGAGAAA-AAAA
8501701 CAACAAAAAGAGAAAAAAA
1 CAACAAAAAGAGAAAAAAA
8501720 GAAAAAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.77, C:0.10, G:0.10, T:0.03
Consensus pattern (19 bp):
CAACAAAAAGAGAAAAAAA
Found at i:8503516 original size:21 final size:21
Alignment explanation
Indices: 8503492--8503530 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8503482 TATTTTAATA
8503492 AAAAAT-AAAAGAGAAAAAGG
1 AAAAATGAAAAGAGAAAAAGG
*
8503512 AAAAATGAAAATAGAAAAA
1 AAAAATGAAAAGAGAAAAA
8503531 AATAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (21 bp):
AAAAATGAAAAGAGAAAAAGG
Found at i:8507556 original size:37 final size:39
Alignment explanation
Indices: 8507506--8507581 Score: 129
Period size: 37 Copynumber: 2.0 Consensus size: 39
8507496 CAATATCATG
*
8507506 CAAAACTTTTTTTATTTATTG-AA-AAAAATTCGAACCT
1 CAAAAATTTTTTTATTTATTGAAACAAAAATTCGAACCT
8507543 CAAAAATTTTTTTATTTATTGAAACAAAAATTCGAACCT
1 CAAAAATTTTTTTATTTATTGAAACAAAAATTCGAACCT
8507582 ACTTTTCGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 20 0.56
38 2 0.06
39 14 0.39
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.39
Consensus pattern (39 bp):
CAAAAATTTTTTTATTTATTGAAACAAAAATTCGAACCT
Found at i:8512494 original size:21 final size:22
Alignment explanation
Indices: 8512464--8512505 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
8512454 GGATATGTTC
**
8512464 ATGCAATTCATGTCAAAGACTA
1 ATGCAATTCATAACAAAGACTA
8512486 ATGC-ATTCATAACAAAGACT
1 ATGCAATTCATAACAAAGACT
8512506 GATGTCTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (22 bp):
ATGCAATTCATAACAAAGACTA
Found at i:8518303 original size:39 final size:40
Alignment explanation
Indices: 8518260--8518338 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
8518250 CCGAGAGTTT
* * *
8518260 CTCGCTGCAGCGAG-ATTCATTTTTGCTATAGTGAAATTC
1 CTCGCTGCAGCGAGAATTCATTCTCGCTACAGTGAAATTC
* *
8518299 CTCGCTGTAGCGAGAATTCATTCTCGCTGCAGTGAAATTC
1 CTCGCTGCAGCGAGAATTCATTCTCGCTACAGTGAAATTC
8518339 AGAGCATAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
39 13 0.38
40 21 0.62
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.33
Consensus pattern (40 bp):
CTCGCTGCAGCGAGAATTCATTCTCGCTACAGTGAAATTC
Found at i:8525796 original size:83 final size:81
Alignment explanation
Indices: 8525687--8525850 Score: 222
Period size: 82 Copynumber: 2.0 Consensus size: 81
8525677 CTCTCCTAGG
* ***
8525687 GTTTGGTTGTGCTGAAAATTAAGGTTAAAAGTTTTGGGTTTTGGTTCCCAAGAAGTTAGGAGAAG
1 GTTTGGTTGTGCTGAAAATTAAGGTTAAAAGATGCAGG-TTTGGTTCCCAAGAAGTTAGGAGAAG
8525752 GAAGAAACAAGAAAAGA
65 GAAGAAACAAGAAAAGA
** *
8525769 NGTTTGGTTGTGCTGGAAAA-TGGGGTTAGAAGATGCAGGTTTGGTTCCCAAGAAGTTAGGAGAA
1 -GTTTGGTTGTGCT-GAAAATTAAGGTTAAAAGATGCAGGTTTGGTTCCCAAGAAGTTAGGAGAA
*
8525833 GGAAGAAGCAAGAAAAGA
64 GGAAGAAACAAGAAAAGA
8525851 AAGGAAAGGA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
82 42 0.58
83 25 0.35
84 5 0.07
ACGTcount: A:0.35, C:0.07, G:0.32, T:0.25
Consensus pattern (81 bp):
GTTTGGTTGTGCTGAAAATTAAGGTTAAAAGATGCAGGTTTGGTTCCCAAGAAGTTAGGAGAAGG
AAGAAACAAGAAAAGA
Found at i:8525852 original size:5 final size:5
Alignment explanation
Indices: 8525842--8525892 Score: 50
Period size: 5 Copynumber: 10.4 Consensus size: 5
8525832 AGGAAGAAGC
* * * * *
8525842 AAGAA AAGAA AGGAA AGGAA AAGAA AA-CA AAGAA AATAA AATAA AAGAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
8525891 AA
1 AA
8525893 TTGATTTTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
4 3 0.08
5 36 0.92
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAGAA
Found at i:8535490 original size:28 final size:27
Alignment explanation
Indices: 8535454--8535506 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
8535444 ATATCCTGGT
*
8535454 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
8535481 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
8535507 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:8535574 original size:20 final size:20
Alignment explanation
Indices: 8535551--8535596 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
8535541 CTTCTAAACC
8535551 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
8535571 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
8535591 TCAAAT
1 TCAAAT
8535597 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:8538696 original size:31 final size:32
Alignment explanation
Indices: 8538661--8538729 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 32
8538651 ATTGAAGTCT
* *
8538661 AAACAAATACCAAATCCAATGTCCAAAGTT-G
1 AAACAAATACCAAATCCAAAGTCCAAAGTTCA
* *
8538692 AAAC-AATATCAATTCCAAAGTCCAAAGTTCA
1 AAACAAATACCAAATCCAAAGTCCAAAGTTCA
8538723 AAACAAA
1 AAACAAA
8538730 CATCCAGTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 22 0.69
31 8 0.25
32 2 0.06
ACGTcount: A:0.52, C:0.22, G:0.07, T:0.19
Consensus pattern (32 bp):
AAACAAATACCAAATCCAAAGTCCAAAGTTCA
Found at i:8539236 original size:29 final size:29
Alignment explanation
Indices: 8539203--8539285 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
8539193 TCGAATCTGT
*
8539203 GAAGAAAAATTTAGGGGTAAATAATTTGG
1 GAAGAAAAATTTATGGGTAAATAATTTGG
8539232 GAAGAAAAATTTATGGGTAAATAATTTGG
1 GAAGAAAAATTTATGGGTAAATAATTTGG
8539261 GAAGAAAAATTTATGGGTAAATAAT
1 GAAGAAAAATTTATGGGTAAATAAT
8539286 AGCACTAGCC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (29 bp):
GAAGAAAAATTTATGGGTAAATAATTTGG
Found at i:8540405 original size:20 final size:21
Alignment explanation
Indices: 8540380--8540434 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
8540370 GATCAGTTGG
*
8540380 AAGAAAGGAGAAAG-GAAAGA
1 AAGAAAGGAGAAAGAAAAAGA
*
8540400 AAGAAATGAGAAAGAAAAAGA
1 AAGAAAGGAGAAAGAAAAAGA
*
8540421 GAGAAAGGAAGAAA
1 AAGAAAGG-AGAAA
8540435 AAGCTTGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 13 0.45
21 11 0.38
22 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (21 bp):
AAGAAAGGAGAAAGAAAAAGA
Found at i:8540426 original size:14 final size:15
Alignment explanation
Indices: 8540394--8540434 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
8540384 AAGGAGAAAG
8540394 GAAAGAAAGAAATGA
1 GAAAGAAAGAAATGA
8540409 GAAAGAAA-AAGA-GA
1 GAAAGAAAGAA-ATGA
*
8540423 GAAAGGAAGAAA
1 GAAAGAAAGAAA
8540435 AAGCTTGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.02
Consensus pattern (15 bp):
GAAAGAAAGAAATGA
Found at i:8542186 original size:2 final size:2
Alignment explanation
Indices: 8542181--8542207 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8542171 TATATATATA
8542181 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
8542208 TCTCACAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:8545238 original size:16 final size:16
Alignment explanation
Indices: 8545186--8545239 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
8545176 AATTTGAGAG
8545186 AAAATG-GATAGGAG-
1 AAAATGAGATAGGAGC
*
8545200 AATAA-AAGATAGGAGC
1 AA-AATGAGATAGGAGC
8545216 AAAATGAGATAGGAGC
1 AAAATGAGATAGGAGC
8545232 AAAATGAG
1 AAAATGAG
8545240 GAAATTTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 2 0.06
15 12 0.35
16 20 0.59
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.13
Consensus pattern (16 bp):
AAAATGAGATAGGAGC
Found at i:8557167 original size:13 final size:14
Alignment explanation
Indices: 8557149--8557177 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8557139 TTTAAAAGCT
8557149 AAATT-AAACTAAC
1 AAATTAAAACTAAC
8557162 AAATTAAAACTAAC
1 AAATTAAAACTAAC
8557176 AA
1 AA
8557178 TTGAAGGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATTAAAACTAAC
Found at i:8557371 original size:36 final size:36
Alignment explanation
Indices: 8557317--8557389 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
8557307 CCAAGCTATT
* *
8557317 TACAAGTATCTGTTAAGGTGCTCATAAAAATATCTA
1 TACAAGTATCTATCAAGGTGCTCATAAAAATATCTA
8557353 TACAAGTATCTATCAAGGTGCTCATAAAAATATCTA
1 TACAAGTATCTATCAAGGTGCTCATAAAAATATCTA
8557389 T
1 T
8557390 CTTAATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (36 bp):
TACAAGTATCTATCAAGGTGCTCATAAAAATATCTA
Found at i:8558538 original size:21 final size:21
Alignment explanation
Indices: 8558514--8558583 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 21
8558504 TTAAAATAAT
*
8558514 TTAAAGTAAAATAACATAAAA
1 TTAAACTAAAATAACATAAAA
* *
8558535 TTAAACTAAACTAAC-TTAAA
1 TTAAACTAAAATAACATAAAA
* * *
8558555 CTAAACT-AATTAACAT-ATA
1 TTAAACTAAAATAACATAAAA
8558574 TTAAACTAAA
1 TTAAACTAAA
8558584 TTAAAAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
19 14 0.35
20 13 0.32
21 13 0.32
ACGTcount: A:0.59, C:0.11, G:0.01, T:0.29
Consensus pattern (21 bp):
TTAAACTAAAATAACATAAAA
Found at i:8558555 original size:15 final size:14
Alignment explanation
Indices: 8558533--8558567 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
8558523 AATAACATAA
8558533 AATTAAACTAAACT
1 AATTAAACTAAACT
8558547 AACTTAAACTAAACT
1 AA-TTAAACTAAACT
8558562 AATTAA
1 AATTAA
8558568 CATATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (14 bp):
AATTAAACTAAACT
Found at i:8568008 original size:19 final size:18
Alignment explanation
Indices: 8567979--8568016 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
8567969 TCATTAGTTA
8567979 TTTAATTAATTAATTATT
1 TTTAATTAATTAATTATT
8567997 TTTAATTTAATTAATTATT
1 TTTAA-TTAATTAATTATT
8568016 T
1 T
8568017 GAAATCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTAATTAATTAATTATT
Found at i:8569396 original size:14 final size:14
Alignment explanation
Indices: 8569372--8569405 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
8569362 TTTAAAAGCT
8569372 AAATT-AAACTAAC
1 AAATTAAAACTAAC
8569385 AAATTAAAACTAAC
1 AAATTAAAACTAAC
8569399 -AATTAAA
1 AAATTAAA
8569406 GGCTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATTAAAACTAAC
Found at i:8570487 original size:19 final size:19
Alignment explanation
Indices: 8570435--8570487 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
8570425 TAACCCATAA
*
8570435 TTCTACAGCAGATATAATCAT
1 TTCTACAGCA-A-AAAATCAT
* * *
8570456 TTCAAAAGAAAAAAATCAT
1 TTCTACAGCAAAAAATCAT
8570475 TTCTACAGCAAAA
1 TTCTACAGCAAAA
8570488 CAACAAGAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
19 17 0.68
20 1 0.04
21 7 0.28
ACGTcount: A:0.49, C:0.17, G:0.08, T:0.26
Consensus pattern (19 bp):
TTCTACAGCAAAAAATCAT
Found at i:8573042 original size:19 final size:19
Alignment explanation
Indices: 8573018--8573055 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8573008 CCATTTGACT
8573018 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
8573037 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
8573056 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:8574307 original size:13 final size:13
Alignment explanation
Indices: 8574289--8574313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8574279 GGAGAAATTG
8574289 TGATTTTATAAAA
1 TGATTTTATAAAA
8574302 TGATTTTATAAA
1 TGATTTTATAAA
8574314 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:8575514 original size:15 final size:14
Alignment explanation
Indices: 8575491--8575533 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
8575481 GATCAAAGAT
8575491 TTTGGTTTTAAAGC
1 TTTGGTTTTAAAGC
*
8575505 TTTGGATTTTAAAGTT
1 TTTGG-TTTTAAAG-C
*
8575521 TTTTGTTTTAAAG
1 TTTGGTTTTAAAG
8575534 TTGTTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.20
15 16 0.64
16 4 0.16
ACGTcount: A:0.23, C:0.02, G:0.19, T:0.56
Consensus pattern (14 bp):
TTTGGTTTTAAAGC
Found at i:8575534 original size:15 final size:16
Alignment explanation
Indices: 8575511--8575540 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8575501 AAGCTTTGGA
8575511 TTTTAAAGTT-TTTTG
1 TTTTAAAGTTGTTTTG
8575526 TTTTAAAGTTGTTTT
1 TTTTAAAGTTGTTTT
8575541 AAGAAATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (16 bp):
TTTTAAAGTTGTTTTG
Found at i:8577590 original size:13 final size:13
Alignment explanation
Indices: 8577572--8577596 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8577562 TTCCAAAAAA
8577572 TTTATAAAATCAG
1 TTTATAAAATCAG
8577585 TTTATAAAATCA
1 TTTATAAAATCA
8577597 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
TTTATAAAATCAG
Found at i:8580128 original size:13 final size:13
Alignment explanation
Indices: 8580110--8580135 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8580100 AGGAGAAATT
8580110 GTGATTTTATAAA
1 GTGATTTTATAAA
8580123 GTGATTTTATAAA
1 GTGATTTTATAAA
8580136 TTTTCTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
GTGATTTTATAAA
Found at i:8582058 original size:19 final size:19
Alignment explanation
Indices: 8582017--8582084 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 19
8582007 CTATGCCTAC
*
8582017 TCTTTTTTTTCTCATTTCATT
1 TCTTTTTTTT-TC-TTTTATT
*
8582038 TCTTTTTTTTTCTTTTTTT
1 TCTTTTTTTTTCTTTTATT
*
8582057 TCTTTCTTTCTTTCCTGTTTCTT
1 TCTTT-TTT-TTT-CT-TTTATT
8582080 TCTTT
1 TCTTT
8582085 CTTTCTTCTG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 10 0.25
20 5 0.12
21 13 0.32
22 2 0.05
23 10 0.25
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.76
Consensus pattern (19 bp):
TCTTTTTTTTTCTTTTATT
Found at i:8582062 original size:4 final size:4
Alignment explanation
Indices: 8582031--8582109 Score: 58
Period size: 4 Copynumber: 19.5 Consensus size: 4
8582021 TTTTTTCTCA
* * *
8582031 TTTC ATTTC TTT- TTT- TTTC TTTTT TTTC TTTC TTTC TTTC -CTG TTTC
1 TTTC -TTTC TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC
8582078 TTTC TTTC TTTC -TTC TGTTCC TCTTC TTTC TT
1 TTTC TTTC TTTC TTTC T-TT-C T-TTC TTTC TT
8582110 ACCATATTTG
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
3 10 0.16
4 36 0.59
5 11 0.18
6 4 0.07
ACGTcount: A:0.01, C:0.23, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:8582062 original size:23 final size:24
Alignment explanation
Indices: 8582031--8582109 Score: 69
Period size: 23 Copynumber: 3.4 Consensus size: 24
8582021 TTTTTTCTCA
* * *
8582031 TTTCATTTCTTTTTTTTTCT-TTTT
1 TTTC-TTTCTTTTCTTTCCTGTTTC
8582055 TTTCTTTC-TTTCTTTCCTGTTTC
1 TTTCTTTCTTTTCTTTCCTGTTTC
*
8582078 TTTCTTTC-TTTC-TT-CTGTTCC
1 TTTCTTTCTTTTCTTTCCTGTTTC
8582099 TCTTCTTTCTT
1 T-TTCTTTCTT
8582110 ACCATATTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
21 7 0.15
22 17 0.35
23 20 0.42
24 4 0.08
ACGTcount: A:0.01, C:0.23, G:0.03, T:0.73
Consensus pattern (24 bp):
TTTCTTTCTTTTCTTTCCTGTTTC
Found at i:8582085 original size:19 final size:20
Alignment explanation
Indices: 8582055--8582109 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 20
8582045 TTTTCTTTTT
8582055 TTTCTTTCTTTCTTTC-CTG
1 TTTCTTTCTTTCTTTCTCTG
8582074 TTTCTTTCTTTCTTTCTTCTG
1 TTTCTTTCTTTCTTTC-TCTG
*
8582095 TTCCTCTTCTTTCTT
1 TTTCT-TTCTTTCTT
8582110 ACCATATTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 16 0.50
21 7 0.22
22 9 0.28
ACGTcount: A:0.00, C:0.27, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTCTTTCTTTCTTTCTCTG
Found at i:8582093 original size:15 final size:15
Alignment explanation
Indices: 8582031--8582109 Score: 60
Period size: 15 Copynumber: 5.4 Consensus size: 15
8582021 TTTTTTCTCA
*
8582031 TTTCATTTCTTT-TTT
1 TTTC-TTTCTTTCTTC
8582046 TTTCTTT-TTT-TTC
1 TTTCTTTCTTTCTTC
* *
8582059 TTTCTTTCTTTCCTG
1 TTTCTTTCTTTCTTC
8582074 TTTCTTTCTTTCTT-
1 TTTCTTTCTTTCTTC
*
8582088 TCTTCTGTTC-CTCTTC
1 T-TTCT-TTCTTTCTTC
8582104 TTTCTT
1 TTTCTT
8582110 ACCATATTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
13 12 0.22
14 8 0.15
15 30 0.56
16 4 0.07
ACGTcount: A:0.01, C:0.23, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTCTTTCTTTCTTC
Found at i:8582938 original size:12 final size:12
Alignment explanation
Indices: 8582893--8582943 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
8582883 CTTTATAATA
*
8582893 ATTTTTTTATTT
1 ATTTTATTATTT
*
8582905 -TTTAATTA-TT
1 ATTTTATTATTT
*
8582915 ATTGTTAGTATTT
1 ATT-TTATTATTT
8582928 ATTTTATTATTT
1 ATTTTATTATTT
8582940 ATTT
1 ATTT
8582944 ATTTTATTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
10 2 0.06
11 8 0.26
12 16 0.52
13 5 0.16
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (12 bp):
ATTTTATTATTT
Found at i:8582942 original size:16 final size:16
Alignment explanation
Indices: 8582893--8582951 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
8582883 CTTTATAATA
*
8582893 ATTT-TTTTATTTTTT
1 ATTTATTTTATTATTT
* * *
8582908 AATTATTATTGTTA-GT
1 ATTTATT-TTATTATTT
8582924 ATTTATTTTATTATTT
1 ATTTATTTTATTATTT
8582940 ATTTATTTTATT
1 ATTTATTTTATT
8582952 TCCTTTAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
15 8 0.24
16 22 0.65
17 4 0.12
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
ATTTATTTTATTATTT
Found at i:8583334 original size:19 final size:18
Alignment explanation
Indices: 8583312--8583354 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
8583302 TTAATATTTT
8583312 AATATTATTTTATTCATAA
1 AATATTATTTTATTC-TAA
*
8583331 AATAATATTTTATTCTAA
1 AATATTATTTTATTCTAA
8583349 AATATT
1 AATATT
8583355 CTTCTTACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
AATATTATTTTATTCTAA
Found at i:8591513 original size:44 final size:44
Alignment explanation
Indices: 8591450--8591535 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 44
8591440 AGAATAGTTG
*
8591450 TCATTCTATTTTAAATTATTGTGGAGTCAGTTTTGCATTATCCA
1 TCATTATATTTTAAATTATTGTGGAGTCAGTTTTGCATTATCCA
*
8591494 TCATTATATTTTAAATTATTGTGGAGTTAGTTTTGCATTATC
1 TCATTATATTTTAAATTATTGTGGAGTCAGTTTTGCATTATC
8591536 TACAAGTTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (44 bp):
TCATTATATTTTAAATTATTGTGGAGTCAGTTTTGCATTATCCA
Found at i:8593103 original size:14 final size:14
Alignment explanation
Indices: 8593084--8593110 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8593074 CAAAATTTAT
8593084 TAATTAACTAAAAC
1 TAATTAACTAAAAC
8593098 TAATTAACTAAAA
1 TAATTAACTAAAA
8593111 TTAAAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATTAACTAAAAC
Found at i:8594700 original size:54 final size:54
Alignment explanation
Indices: 8594618--8594771 Score: 254
Period size: 54 Copynumber: 2.9 Consensus size: 54
8594608 ATGTGCATTT
*
8594618 CACCCAGCTCATGTGCATCATACCACATCGTGCACATAGCCGGACATCCCATCA
1 CACCCAGCTCATGTGCATCCTACCACATCGTGCACATAGCCGGACATCCCATCA
* * *
8594672 CACCCAACTTATGTGCATCCTACCACATCGTGCACATAGTCGGACATCCCATCA
1 CACCCAGCTCATGTGCATCCTACCACATCGTGCACATAGCCGGACATCCCATCA
* *
8594726 CACCTAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACA
1 CACCCAGCTCATGTGCATCCTACCACATCGTGCACATAGCCGGACA
8594772 GTATCACCAT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.27, C:0.38, G:0.15, T:0.19
Consensus pattern (54 bp):
CACCCAGCTCATGTGCATCCTACCACATCGTGCACATAGCCGGACATCCCATCA
Found at i:8602130 original size:14 final size:14
Alignment explanation
Indices: 8602094--8602136 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
8602084 ATTTACCATT
*
8602094 TATTTTTGAACAATTG
1 TATTTTT-AA-AATTA
*
8602110 TAATTTTAAAATTA
1 TATTTTTAAAATTA
8602124 TATTTTTAAAATT
1 TATTTTTAAAATT
8602137 TTGTTAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 16 0.67
15 2 0.08
16 6 0.25
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (14 bp):
TATTTTTAAAATTA
Found at i:8617170 original size:21 final size:21
Alignment explanation
Indices: 8617146--8617211 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
8617136 TATTACTTTA
8617146 AAATTTAAATAAATTAAATTT
1 AAATTTAAATAAATTAAATTT
* * **
8617167 AAATGT-AATTAATCTTTATTT
1 AAATTTAAATAAAT-TAAATTT
*
8617188 AAATTTAAACAAATTAAATTT
1 AAATTTAAATAAATTAAATTT
8617209 AAA
1 AAA
8617212 CATAATGAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
20 6 0.18
21 23 0.68
22 5 0.15
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (21 bp):
AAATTTAAATAAATTAAATTT
Found at i:8617176 original size:16 final size:15
Alignment explanation
Indices: 8617146--8617211 Score: 52
Period size: 15 Copynumber: 4.6 Consensus size: 15
8617136 TATTACTTTA
8617146 AAATTTAAATAAATT
1 AAATTTAAATAAATT
*
8617161 AAATTTAAATGTAATT
1 AAATTTAAAT-AAATT
*
8617177 -AATCTT---T-ATTT
1 AAAT-TTAAATAAATT
*
8617188 AAATTTAAACAAATT
1 AAATTTAAATAAATT
8617203 AAATTTAAA
1 AAATTTAAA
8617212 CATAATGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
11 5 0.12
12 3 0.08
13 1 0.03
15 25 0.62
16 6 0.15
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (15 bp):
AAATTTAAATAAATT
Found at i:8618753 original size:33 final size:33
Alignment explanation
Indices: 8618707--8618774 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
8618697 ACAACTTTAC
*
8618707 TCTAGATTCCTAAAATTCAAACAAGAAATAAAT
1 TCTACATTCCTAAAATTCAAACAAGAAATAAAT
8618740 TCTACATTCCTAAAATTCAAACAAGAAATAAAT
1 TCTACATTCCTAAAATTCAAACAAGAAATAAAT
8618773 TC
1 TC
8618775 ATTTACCAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.50, C:0.18, G:0.04, T:0.28
Consensus pattern (33 bp):
TCTACATTCCTAAAATTCAAACAAGAAATAAAT
Found at i:8620179 original size:61 final size:61
Alignment explanation
Indices: 8620079--8620300 Score: 282
Period size: 61 Copynumber: 3.6 Consensus size: 61
8620069 TGTGCACATC
* * * *
8620079 ACCGGCATGTGCACTGCCCACTCTGCATATGCGCGGTTGTAAATATAACGACAGCATCATT
1 ACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAAATATCACGACAGCATCATT
* * * * *
8620140 ACCGGCATGTGCACTGCCCACTCCGCACCTACACAGTTGTAAATATCACCATAGCATCATT
1 ACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAAATATCACGACAGCATCATT
* * * * ***
8620201 ACTGGCATGTGCACTGCCCACTCCGCACATGTATGGTTGTAATTATCACGACATTGTCATT
1 ACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAAATATCACGACAGCATCATT
8620262 CAACCGGCATGTGCACTGCCCACTCCGCACATGCACGGT
1 --ACCGGCATGTGCACTGCCCACTCCGCACATGCACGGT
8620301 CACACCAATT
Statistics
Matches: 135, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
61 101 0.75
63 34 0.25
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (61 bp):
ACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAAATATCACGACAGCATCATT
Found at i:8627090 original size:20 final size:21
Alignment explanation
Indices: 8627034--8627103 Score: 115
Period size: 21 Copynumber: 3.3 Consensus size: 21
8627024 TTTTACAATA
*
8627034 AATGCATCAGTCTTTGTTATG
1 AATGCATCAGTCTTTGTCATG
8627055 AATGCATCAGTCTTTGTCATG
1 AATGCATCAGTCTTTGTCATG
8627076 AATGCATCA-TCTTTGTCATG
1 AATGCATCAGTCTTTGTCATG
8627096 AATTGCAT
1 AA-TGCAT
8627104 GAACATATCC
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 13 0.28
21 34 0.72
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (21 bp):
AATGCATCAGTCTTTGTCATG
Found at i:8631622 original size:29 final size:28
Alignment explanation
Indices: 8631572--8631745 Score: 177
Period size: 29 Copynumber: 6.0 Consensus size: 28
8631562 TGGCAGTTTT
*
8631572 AACATGTTTGTCATAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
*
8631600 AACATCTTTGGTCTTAATTTAGACAAGAA
1 AACATGTTT-GTCTTAATTTAGACAAGAA
*
8631629 AATATGTTTGTCTTAATTTAAGACAAGAAA
1 AACATGTTTGTCTTAATTT-AGACAAG-AA
* * *
8631659 AATATTTTTTGTCTTAATCTAGACAAGAA
1 AACA-TGTTTGTCTTAATTTAGACAAGAA
* * *
8631688 AACATATTTGTCTCAATTTAAACAAGACAA
1 AACATGTTTGTCTTAATTTAGACAAG--AA
* * *
8631718 AATATTTTTGTCTTAATTAAAGACAAGA
1 AACATGTTTGTCTTAATT-TAGACAAGA
8631746 GTTGTCTTAA
Statistics
Matches: 123, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
28 36 0.29
29 38 0.31
30 30 0.24
31 19 0.15
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:8631685 original size:59 final size:59
Alignment explanation
Indices: 8631572--8631734 Score: 217
Period size: 59 Copynumber: 2.8 Consensus size: 59
8631562 TGGCAGTTTT
* * * * *
8631572 AACATGTTTGTCATAATTT-AGACAAG-AAAACATCTTTGGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAAGACAAGAAAAATATTTTTTGTCTTAATCTAGACAAGAA
*
8631629 AATATGTTTGTCTTAATTTAAGACAAGAAAAATATTTTTTGTCTTAATCTAGACAAGAA
1 AACATGTTTGTCTTAATTTAAGACAAGAAAAATATTTTTTGTCTTAATCTAGACAAGAA
* *
8631688 AACATATTTGTCTCAATTTAA-ACAAGACAAAATA-TTTTTGTCTTAAT
1 AACATGTTTGTCTTAATTTAAGACAAGA-AAAATATTTTTTGTCTTAAT
8631735 TAAAGACAAG
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
57 17 0.18
58 26 0.28
59 51 0.54
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (59 bp):
AACATGTTTGTCTTAATTTAAGACAAGAAAAATATTTTTTGTCTTAATCTAGACAAGAA
Found at i:8631712 original size:28 final size:28
Alignment explanation
Indices: 8631572--8631745 Score: 172
Period size: 28 Copynumber: 6.0 Consensus size: 28
8631562 TGGCAGTTTT
* *
8631572 AACATGTTTGTCATAATTTAGACAAGAA
1 AACATATTTGTCTTAATTTAGACAAGAA
*
8631600 AACATCTTTGGTCTTAATTTAGACAAGAA
1 AACATATTT-GTCTTAATTTAGACAAGAA
* *
8631629 AATATGTTTGTCTTAATTTAAGACAAGAA
1 AACATATTTGTCTTAATTT-AGACAAGAA
*
8631658 AA-ATATTTTTTGTCTTAATCTAGACAAGAA
1 AACATA---TTTGTCTTAATTTAGACAAGAA
* *
8631688 AACATATTTGTCTCAATTTAAACAAGACA
1 AACATATTTGTCTTAATTTAGACAAGA-A
*
8631717 AA-ATATTTTTGTCTTAATTAAAGACAAGA
1 AACATA--TTTGTCTTAATT-TAGACAAGA
8631746 GTTGTCTTAA
Statistics
Matches: 124, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
28 41 0.33
29 39 0.31
30 22 0.18
31 22 0.18
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (28 bp):
AACATATTTGTCTTAATTTAGACAAGAA
Found at i:8633261 original size:22 final size:21
Alignment explanation
Indices: 8633215--8633261 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
8633205 CCTAAGTGGA
**
8633215 AAAATTCAATGGAAAAGTGTG
1 AAAATTCAATGGAAAAGTGAC
8633236 AAAATTCAA-GGAAACAAGTGAC
1 AAAATTCAATGG-AA-AAGTGAC
8633258 AAAA
1 AAAA
8633262 GGTAAGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 11 0.50
22 9 0.41
ACGTcount: A:0.55, C:0.09, G:0.19, T:0.17
Consensus pattern (21 bp):
AAAATTCAATGGAAAAGTGAC
Found at i:8633481 original size:23 final size:23
Alignment explanation
Indices: 8633446--8633539 Score: 118
Period size: 23 Copynumber: 4.1 Consensus size: 23
8633436 AGTGATGTGN
8633446 AATAAATATTAATATTTAAATTA
1 AATAAATATTAATATTTAAATTA
* *
8633469 AATACATAATAATATTTAAATTA
1 AATAAATATTAATATTTAAATTA
* *
8633492 AATAAATGTTAATATTTAAA-TG
1 AATAAATATTAATATTTAAATTA
* * *
8633514 ATTAATTATTAATATTTTAATTA
1 AATAAATATTAATATTTAAATTA
8633537 AAT
1 AAT
8633540 TCTAGATTAT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
22 17 0.29
23 41 0.71
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (23 bp):
AATAAATATTAATATTTAAATTA
Found at i:8633933 original size:17 final size:17
Alignment explanation
Indices: 8633885--8633934 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
8633875 AATTTTTTTG
8633885 TTTTATAAACAAAATG-
1 TTTTATAAACAAAATGA
* **
8633901 TGATT-TAATGAAAATGA
1 T-TTTATAAACAAAATGA
8633918 TTTTATAAACAAAATGA
1 TTTTATAAACAAAATGA
8633935 AAATTGTCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 5
0.69 0.17 0.14
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.36
Consensus pattern (17 bp):
TTTTATAAACAAAATGA
Found at i:8638665 original size:20 final size:19
Alignment explanation
Indices: 8638637--8638709 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 19
8638627 ACACCGAAAC
*
8638637 TATCAATACATTCTTGAATG
1 TATCGATACATTCTT-AATG
* * *
8638657 TATCGATACTTTCATACATC
1 TATCGATACATTCTTA-ATG
* *
8638677 TATCGATACATTGGTAAAATG
1 TATCGATACATT-CT-TAATG
8638698 TATCGATACATT
1 TATCGATACATT
8638710 TCACACAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.02
20 25 0.61
21 14 0.34
22 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TATCGATACATTCTTAATG
Found at i:8639319 original size:68 final size:68
Alignment explanation
Indices: 8639159--8639425 Score: 252
Period size: 68 Copynumber: 3.9 Consensus size: 68
8639149 CACATATAAG
* * * *
8639159 CTTACTCATCTCATAAGGTACATGGAAAATACATCATATACATAATCTCATGGCATTCATCATGC
1 CTTAATCATCTCATATGGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGC
* *
8639224 TTT
66 ATA
* * * * * * *
8639227 CTCAGTAATCT--TATGGAGTGTATGGAATATACATCATATACATAATCTCATGGTATTTATCAC
1 CTTAATCATCTCATAT-G-GTATATGGAATATACATCATATACATAATCTCATGGCATTCATCAT
*
8639290 ACATA
64 GCATA
* * * * *
8639295 CTTAATCACCTCATATGGTATATGGAAT-TACATCATATACACAATCTTATAGCATACATCATGC
1 CTTAATCATCTCATATGGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGC
8639359 ATA
66 ATA
* * * ** * *
8639362 CTTAATTATCTCATAATGGTATATGGAATTTATATCATGCACAGAATCTTATGGCATTCATCAT
1 CTTAATCATCTCAT-ATGGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCAT
8639426 ACTAAACATG
Statistics
Matches: 159, Mismatches: 34, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
66 2 0.01
67 44 0.28
68 81 0.51
69 29 0.18
70 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (68 bp):
CTTAATCATCTCATATGGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGC
ATA
Found at i:8639362 original size:67 final size:68
Alignment explanation
Indices: 8639247--8639427 Score: 211
Period size: 67 Copynumber: 2.6 Consensus size: 68
8639237 TTATGGAGTG
* * * * *
8639247 TATGGAATATACATCATATACATAATCTCATGGTATTTATCACACATACTTAATCACCTCAT-AT
1 TATGGAAT-TACATCATATACACAATCTTATGGCATTCATCATACATACTTAATCACCTCATAAT
8639311 GGTA
65 GGTA
* * * * *
8639315 TATGGAATTACATCATATACACAATCTTATAGCATACATCATGCATACTTAATTATCTCATAATG
1 TATGGAATTACATCATATACACAATCTTATGGCATTCATCATACATACTTAATCACCTCATAATG
8639380 GTA
66 GTA
* ** *
8639383 TATGGAATTTATATCATGCACAGAATCTTATGGCATTCATCATAC
1 TATGGAA-TTACATCATATACACAATCTTATGGCATTCATCATAC
8639428 TAAACATGCA
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
67 43 0.46
68 21 0.22
69 30 0.32
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (68 bp):
TATGGAATTACATCATATACACAATCTTATGGCATTCATCATACATACTTAATCACCTCATAATG
GTA
Found at i:8639424 original size:69 final size:67
Alignment explanation
Indices: 8639291--8639425 Score: 180
Period size: 69 Copynumber: 2.0 Consensus size: 67
8639281 ATTTATCACA
*
8639291 CATACTTAATCACCTCATATGGTATATGGAATTACATCATATACACAATCTTATAGCATACATCA
1 CATACTTAATCACCTCATATGGTATATGGAATTACATCATACACACAATCTTATAGCATACATCA
8639356 TG
66 TG
* * * * * * *
8639358 CATACTTAATTATCTCATAATGGTATATGGAATTTATATCATGCACAGAATCTTATGGCATTCAT
1 CATACTTAATCACCTCAT-ATGGTATATGGAA-TTACATCATACACACAATCTTATAGCATACAT
8639423 CAT
64 CAT
8639426 ACTAAACATG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
67 16 0.28
68 13 0.22
69 29 0.50
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (67 bp):
CATACTTAATCACCTCATATGGTATATGGAATTACATCATACACACAATCTTATAGCATACATCA
TG
Found at i:8640662 original size:16 final size:16
Alignment explanation
Indices: 8640637--8640671 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
8640627 ATAAAACTAT
8640637 CAAAAAAATCAAAATC
1 CAAAAAAATCAAAATC
*
8640653 CAAAATAATCAAAATC
1 CAAAAAAATCAAAATC
8640669 CAA
1 CAA
8640672 TTTTTCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.66, C:0.20, G:0.00, T:0.14
Consensus pattern (16 bp):
CAAAAAAATCAAAATC
Found at i:8646732 original size:129 final size:129
Alignment explanation
Indices: 8646502--8646762 Score: 441
Period size: 129 Copynumber: 2.0 Consensus size: 129
8646492 GGTATATTAA
* * *
8646502 ACGGTCACTGCAGTGGTGGGGGTTTTCGTGGACTGCCTATGAGAGGGGCACAGTAACCCAATTAT
1 ACGGTCACTGCAGTGGTAGGGGTTTCCGTGGACTGCCTATGAAAGGGGCACAGTAACCCAATTAT
*
8646567 ATATTTACCTCTGGGGGGAGATGTTGGATGAAGTATCTCCTGAGGTAAGATTTGAATGCACCTC
66 ATATTTACCTCCGGGGGGAGATGTTGGATGAAGTATCTCCTGAGGTAAGATTTGAATGCACCTC
* *
8646631 ACGGTCACTGCAGTGGTAGGGGTTTCCGTGGACTGCCTATGAAAGGGGCACGGTAACTCAATTAT
1 ACGGTCACTGCAGTGGTAGGGGTTTCCGTGGACTGCCTATGAAAGGGGCACAGTAACCCAATTAT
* * *
8646696 ATATTTACCTCCGGGGGGAGATGTTGGGTGAAGTATCTCCTGAGGTATGATTTGAGTGCACCTC
66 ATATTTACCTCCGGGGGGAGATGTTGGATGAAGTATCTCCTGAGGTAAGATTTGAATGCACCTC
8646760 ACG
1 ACG
8646763 TTTGGGCCAC
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 123 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (129 bp):
ACGGTCACTGCAGTGGTAGGGGTTTCCGTGGACTGCCTATGAAAGGGGCACAGTAACCCAATTAT
ATATTTACCTCCGGGGGGAGATGTTGGATGAAGTATCTCCTGAGGTAAGATTTGAATGCACCTC
Found at i:8648441 original size:21 final size:21
Alignment explanation
Indices: 8648415--8648471 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
8648405 AAAACTATGT
8648415 AATGTATCGATACATCAGGCA
1 AATGTATCGATACATCAGGCA
8648436 AATGTATCGATACATCAGGCA
1 AATGTATCGATACATCAGGCA
8648457 AATGTATCGATACAT
1 AATGTATCGATACAT
8648472 TTTGTTCTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.26
Consensus pattern (21 bp):
AATGTATCGATACATCAGGCA
Found at i:8661510 original size:22 final size:22
Alignment explanation
Indices: 8661468--8661508 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8661458 TACCTTTTGT
*
8661468 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
8661490 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
8661509 TCCACCTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:8663682 original size:14 final size:14
Alignment explanation
Indices: 8663643--8663683 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
8663633 AAGCCTCCTT
*
8663643 AACATTCATCAATA
1 AACATTCATCATTA
8663657 AACATTCATCATTA
1 AACATTCATCATTA
*
8663671 AACATTTATCATT
1 AACATTCATCATT
8663684 GTGGAAGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (14 bp):
AACATTCATCATTA
Found at i:8667813 original size:40 final size:40
Alignment explanation
Indices: 8667754--8667839 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
8667744 AATATCATCA
* *
8667754 TCATCAGCTCATGTTCACTCCCACACCGCACATAGCTGGG
1 TCATCAGCTCATGTGCACTCCCACACCACACATAGCTGGG
* *
8667794 TCATCAGCTCATGTGCACTCCTACACCACACATAGTTGGG
1 TCATCAGCTCATGTGCACTCCCACACCACACATAGCTGGG
8667834 TCATCA
1 TCATCA
8667840 TTATCACACA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.24
Consensus pattern (40 bp):
TCATCAGCTCATGTGCACTCCCACACCACACATAGCTGGG
Found at i:8669107 original size:23 final size:23
Alignment explanation
Indices: 8669080--8669135 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
8669070 GAAGGTCGAG
8669080 GTTTCACAGTACGAGGGTACTAA
1 GTTTCACAGTACGAGGGTACTAA
*
8669103 GTTTCACAATACGAGGGTACTAA
1 GTTTCACAGTACGAGGGTACTAA
8669126 GTTTCACAGT
1 GTTTCACAGT
8669136 CTCCCCCACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (23 bp):
GTTTCACAGTACGAGGGTACTAA
Found at i:8672367 original size:41 final size:42
Alignment explanation
Indices: 8672264--8672368 Score: 158
Period size: 43 Copynumber: 2.5 Consensus size: 42
8672254 ACTCGCTACT
* *
8672264 CGCACATAGCTAGGTCATCATCAGCTCATGTGCACTCCCCCAT
1 CGCACATAGCTGGGTCATCATCAGCTCATGTGCACT-CCCCAC
*
8672307 CGCACATAGCTGGGTCATCATCAGCTCATGTGCACT-TCCAC
1 CGCACATAGCTGGGTCATCATCAGCTCATGTGCACTCCCCAC
*
8672348 CGTACATAGCTGGGTCATCAT
1 CGCACATAGCTGGGTCATCAT
8672369 TATCACACAG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 23 0.40
43 35 0.60
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (42 bp):
CGCACATAGCTGGGTCATCATCAGCTCATGTGCACTCCCCAC
Found at i:8673664 original size:38 final size:40
Alignment explanation
Indices: 8673577--8673682 Score: 144
Period size: 38 Copynumber: 2.7 Consensus size: 40
8673567 CTCATCCAGC
* *
8673577 TCATGTGCTTCCCCCCACATCGTGCACATAGTCGAAGTCA
1 TCATGTGCATCCCCCCACATCGTGCACATAGTAGAAGTCA
* * *
8673617 TCGTGTGCATCCCCCCACATCGTGCACA-ATTAG-TGTCA
1 TCATGTGCATCCCCCCACATCGTGCACATAGTAGAAGTCA
*
8673655 TCATGTGCATCCCCCCACATCATGCACA
1 TCATGTGCATCCCCCCACATCGTGCACA
8673683 CGGGCACTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 30 0.51
39 3 0.05
40 26 0.44
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.25
Consensus pattern (40 bp):
TCATGTGCATCCCCCCACATCGTGCACATAGTAGAAGTCA
Found at i:8673806 original size:2 final size:2
Alignment explanation
Indices: 8673799--8673824 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8673789 AATGCACAAC
8673799 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8673825 CAACATAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8678821 original size:43 final size:43
Alignment explanation
Indices: 8678760--8678891 Score: 210
Period size: 43 Copynumber: 3.1 Consensus size: 43
8678750 TGCAATATCA
* *
8678760 TCATCATCAACTCATGTGCACTCCTACATCGCACATAGCTGGG
1 TCATCATCAGCTCATGTGCACTCCTACACCGCACATAGCTGGG
* *
8678803 TCATCATCAGCTCATGTGCACTCCCACACCTCACATAGCTGGG
1 TCATCATCAGCTCATGTGCACTCCTACACCGCACATAGCTGGG
* *
8678846 TCATCTTCAGCTCATGTGCACTCTTACACCGCACATAGCTGGG
1 TCATCATCAGCTCATGTGCACTCCTACACCGCACATAGCTGGG
8678889 TCA
1 TCA
8678892 ATAAAACTAA
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (43 bp):
TCATCATCAGCTCATGTGCACTCCTACACCGCACATAGCTGGG
Found at i:8680146 original size:20 final size:21
Alignment explanation
Indices: 8680109--8680150 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8680099 AATTAATTAA
*
8680109 TTTAAATGAATCATATTCAAT
1 TTTAAATGAACCATATTCAAT
*
8680130 TTTAAATTAACCA-ATTCAAT
1 TTTAAATGAACCATATTCAAT
8680150 T
1 T
8680151 CTATAGACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (21 bp):
TTTAAATGAACCATATTCAAT
Found at i:8680237 original size:35 final size:35
Alignment explanation
Indices: 8680160--8680230 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
8680150 TCTATAGACC
*
8680160 AAGATTGGCATCTAACAATGCATCACGGCCACCCA
1 AAGATTAGCATCTAACAATGCATCACGGCCACCCA
** * *
8680195 AAGATTAGCATCTAGTAATGCATCATGGCCATCCA
1 AAGATTAGCATCTAACAATGCATCACGGCCACCCA
8680230 A
1 A
8680231 TTATTAGGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (35 bp):
AAGATTAGCATCTAACAATGCATCACGGCCACCCA
Found at i:8683514 original size:3 final size:3
Alignment explanation
Indices: 8683508--8683539 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8683498 AATTGAATCA
8683508 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8683540 AAGTATTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8683606 original size:19 final size:19
Alignment explanation
Indices: 8683563--8683608 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
8683553 CTGCAAAAAG
8683563 AAAAT-AAAAGTAATTAGT
1 AAAATGAAAAGTAATTAGT
* *
8683581 AATATGAAAAGTAA-TATT
1 AAAATGAAAAGTAATTAGT
8683599 AAAAATGAAA
1 -AAAATGAAA
8683609 TTAATATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (19 bp):
AAAATGAAAAGTAATTAGT
Found at i:8694666 original size:42 final size:42
Alignment explanation
Indices: 8694605--8694686 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
8694595 TGAGCCCATT
* *
8694605 AAGCCCAAGCAAGCCTATTTATGCAATTCTGATCATCATTCC
1 AAGCCCAAGCAAGCCTATTTATGCAATCCCGATCATCATTCC
*
8694647 AAGCCCAAGCAAGCTTATTTATGCAATCCCGATCATCATT
1 AAGCCCAAGCAAGCCTATTTATGCAATCCCGATCATCATT
8694687 TTAAACCATC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (42 bp):
AAGCCCAAGCAAGCCTATTTATGCAATCCCGATCATCATTCC
Found at i:8699367 original size:2 final size:2
Alignment explanation
Indices: 8699360--8699388 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8699350 CATATTCATA
8699360 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8699389 CACTACCNNN
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8699452 original size:2 final size:2
Alignment explanation
Indices: 8699445--8699481 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8699435 AACACAACAC
8699445 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8699482 CATACCGACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8724852 original size:5 final size:5
Alignment explanation
Indices: 8724844--8724869 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8724834 TATAAAATAA
8724844 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
8724870 CGTGAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:8726440 original size:29 final size:29
Alignment explanation
Indices: 8726383--8726440 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
8726373 NNNNNATATT
* *
8726383 AATATTAATAATGTTTAAATTATATATAA
1 AATATTAATAATGTTTAAATTACAAATAA
8726412 AATATTAAT-AT-TTTAAATTTTACAAATAA
1 AATATTAATAATGTTTAAA--TTACAAATAA
8726441 TTTTTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 6 0.24
28 2 0.08
29 17 0.68
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
AATATTAATAATGTTTAAATTACAAATAA
Found at i:8726779 original size:17 final size:18
Alignment explanation
Indices: 8726754--8726803 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
8726744 TTATAATTTA
8726754 AAAATAAAAAATAAAAAT
1 AAAATAAAAAATAAAAAT
*
8726772 AAAA-AAAAAGTAAAAAAATT
1 AAAATAAAAA--ATAAAAA-T
8726792 AAAATAAAAAAT
1 AAAATAAAAAAT
8726804 TATATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 7 0.27
20 5 0.19
21 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (18 bp):
AAAATAAAAAATAAAAAT
Found at i:8726804 original size:13 final size:13
Alignment explanation
Indices: 8726754--8726805 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
8726744 TTATAATTTA
*
8726754 AAAATAAAAAATA
1 AAAATAAAAAATT
8726767 AAAATAAAAAA--
1 AAAATAAAAAATT
*
8726778 AAAGTAAAAAAATT
1 AAAAT-AAAAAATT
8726792 AAAATAAAAAATT
1 AAAATAAAAAATT
8726805 A
1 A
8726806 TATTAATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 4 0.12
12 6 0.18
13 20 0.59
14 4 0.12
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (13 bp):
AAAATAAAAAATT
Found at i:8756324 original size:20 final size:20
Alignment explanation
Indices: 8756299--8756348 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
8756289 CTCTCTGCCT
8756299 GAAATCTATTGATAGATTTG
1 GAAATCTATTGATAGATTTG
8756319 GAAATCTATTGATAGATTTG
1 GAAATCTATTGATAGATTTG
8756339 GAAATCTATT
1 GAAATCTATT
8756349 AATACTTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (20 bp):
GAAATCTATTGATAGATTTG
Found at i:8765567 original size:15 final size:13
Alignment explanation
Indices: 8765556--8765585 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8765546 ATTTTATTGA
8765556 ATATTTTTTTATT
1 ATATTTTTTTATT
*
8765569 TTATTTTTTTATT
1 ATATTTTTTTATT
8765582 ATAT
1 ATAT
8765586 CCAAATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATATTTTTTTATT
Found at i:8770662 original size:96 final size:97
Alignment explanation
Indices: 8770552--8770743 Score: 332
Period size: 96 Copynumber: 2.0 Consensus size: 97
8770542 AAAAGAAATT
8770552 AAAATAAAAAATTATATTAATAATTCAATAATAAATTATTAATGTTTAAAATTTTAATAAAAGAT
1 AAAATAAAAAATTATATTAATAATTCAATAATAAATTATTAATGTTTAAAATTTTAATAAAAGAT
*
8770617 T-AAAAATGAAAATACAAATAGAGAAAAAAAC
66 TCAAAAATGAAAATACAAAGAGAGAAAAAAAC
* * * *
8770648 AAAATAAAAAATTATATTAATAGTTTAATAATAAATTATTTATGTTTAAATTTTTAATAAAAGAT
1 AAAATAAAAAATTATATTAATAATTCAATAATAAATTATTAATGTTTAAAATTTTAATAAAAGAT
8770713 TCAAAAATGAAAATACAAAGAGAGAAAAAAA
66 TCAAAAATGAAAATACAAAGAGAGAAAAAAA
8770744 AATGAAATTG
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
96 62 0.69
97 28 0.31
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (97 bp):
AAAATAAAAAATTATATTAATAATTCAATAATAAATTATTAATGTTTAAAATTTTAATAAAAGAT
TCAAAAATGAAAATACAAAGAGAGAAAAAAAC
Found at i:8771354 original size:41 final size:41
Alignment explanation
Indices: 8771295--8771379 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 41
8771285 GCTGACATCC
* * * *
8771295 TTGAAGTCGTTGCTTTTGCTGATGGCAGTCCTCACGCGTTA
1 TTGAAGTCGTTGCATTTGCTGAAGACAGTCCTCACACGTTA
* *
8771336 TTGAAGTTGTTGCATTTGCTGAAGACAGTCCTCGCACGTTA
1 TTGAAGTCGTTGCATTTGCTGAAGACAGTCCTCACACGTTA
8771377 TTG
1 TTG
8771380 CTGATGACTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (41 bp):
TTGAAGTCGTTGCATTTGCTGAAGACAGTCCTCACACGTTA
Found at i:8774936 original size:29 final size:28
Alignment explanation
Indices: 8774879--8774954 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 28
8774869 AGGAATTAAA
* * *
8774879 GTGTAACAAAAT-GTTTTTGAATATAGC
1 GTGTAACAAAATATTTTTTCAACATAGC
*
8774906 GTGTAACAATAATATTTTTTCAACATGGC
1 GTGTAACAA-AATATTTTTTCAACATAGC
8774935 GTGTAACAAAACTATTTTTT
1 GTGTAACAAAA-TATTTTTT
8774955 TTTAACATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 9 0.21
28 5 0.12
29 28 0.67
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (28 bp):
GTGTAACAAAATATTTTTTCAACATAGC
Found at i:8774962 original size:31 final size:30
Alignment explanation
Indices: 8774904--8774990 Score: 97
Period size: 31 Copynumber: 2.9 Consensus size: 30
8774894 TTTGAATATA
*
8774904 GCGTGTAACAATAATA--TTTTTTCAACATG
1 GCGTGTAACAA-AATATTTTTTTTTAACATG
*
8774933 GCGTGTAACAAAACTATTTTTTTTTAACATT
1 GCGTGTAACAAAA-TATTTTTTTTTAACATG
* *
8774964 GTGTGTAACAACAGTATTTTTTTTTAA
1 GCGTGTAACAA-AATATTTTTTTTTAA
8774991 TACATGATGT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.04
29 13 0.26
31 34 0.68
32 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (30 bp):
GCGTGTAACAAAATATTTTTTTTTAACATG
Found at i:8775007 original size:33 final size:31
Alignment explanation
Indices: 8774920--8775007 Score: 79
Period size: 31 Copynumber: 2.8 Consensus size: 31
8774910 AACAATAATA
* * * * * *
8774920 TTTTTTCAACATGGCGTGTAACAAAACTATT
1 TTTTTTTAACATTGTGTGCAACAACAGTATT
*
8774951 TTTTTTTAACATTGTGTGTAACAACAGTATT
1 TTTTTTTAACATTGTGTGCAACAACAGTATT
8774982 TTTTTTTAATACA-TGATGTGCAACAA
1 TTTTTTT-A-ACATTG-TGTGCAACAA
8775008 TATTTTTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
31 33 0.69
32 3 0.06
33 12 0.25
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (31 bp):
TTTTTTTAACATTGTGTGCAACAACAGTATT
Found at i:8775248 original size:24 final size:24
Alignment explanation
Indices: 8775096--8775242 Score: 177
Period size: 24 Copynumber: 6.1 Consensus size: 24
8775086 CAACCTAACA
* * *
8775096 ATGGCATGTCATATATTTTTGTAC
1 ATGGCGTGTCACATGTTTTTGTAC
8775120 ATGGCGTGTCACATGTTTTTGTAC
1 ATGGCGTGTCACATGTTTTTGTAC
* * *
8775144 ATGGCGTATTACATATTTTTGTAC
1 ATGGCGTGTCACATGTTTTTGTAC
** * *
8775168 ATTACGTGTCACATGTTTCTGTAT
1 ATGGCGTGTCACATGTTTTTGTAC
* *
8775192 ATGGCGTGTCACATGTTTCTGTAT
1 ATGGCGTGTCACATGTTTTTGTAC
*
8775216 ATGGTGTGTCACATGTTTTTGTAC
1 ATGGCGTGTCACATGTTTTTGTAC
8775240 ATG
1 ATG
8775243 ATGTGTAACA
Statistics
Matches: 105, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 105 1.00
ACGTcount: A:0.20, C:0.14, G:0.21, T:0.44
Consensus pattern (24 bp):
ATGGCGTGTCACATGTTTTTGTAC
Found at i:8775280 original size:45 final size:44
Alignment explanation
Indices: 8775221--8775341 Score: 152
Period size: 44 Copynumber: 2.7 Consensus size: 44
8775211 TGTATATGGT
* *
8775221 GTGTCACATGTTTTTGTACATGATGTGTAACAACCTAACCATGAC
1 GTGTCACATATTTTTGTACATG-TGTGTAACAACCTAACAATGAC
* * *
8775266 GTGTCACATATTTTTGCACATGTGTATAACAACCTAATAATGAC
1 GTGTCACATATTTTTGTACATGTGTGTAACAACCTAACAATGAC
* * *
8775310 ATGTAACATATTTTTGTGCATGGTGTGTAACA
1 GTGTCACATATTTTTGTACAT-GTGTGTAACA
8775342 TCATAGCGTG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 36 0.55
45 29 0.45
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (44 bp):
GTGTCACATATTTTTGTACATGTGTGTAACAACCTAACAATGAC
Found at i:8776941 original size:40 final size:40
Alignment explanation
Indices: 8776892--8776971 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
8776882 TTTTCTTTAG
*
8776892 TTTTTCCTGTCGTGCACTACTTTGAGTGATGTATTTTTCT
1 TTTTTCCTGTCCTGCACTACTTTGAGTGATGTATTTTTCT
8776932 TTTTTCCTGTCCTGCACTACTTTGAGTGATGTATTTTTCT
1 TTTTTCCTGTCCTGCACTACTTTGAGTGATGTATTTTTCT
8776972 AATTGTTTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.12, C:0.19, G:0.16, T:0.53
Consensus pattern (40 bp):
TTTTTCCTGTCCTGCACTACTTTGAGTGATGTATTTTTCT
Found at i:8782153 original size:42 final size:42
Alignment explanation
Indices: 8782098--8782238 Score: 201
Period size: 42 Copynumber: 3.4 Consensus size: 42
8782088 TGTTGATGTG
* *
8782098 GACCCAACTATGTGCGAGTAGGAGTGTGCATAAGTCGATGAT
1 GACCCAACTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
* * *
8782140 GACCCGACTATGTGCGAGTAGAAGTGCGCATAAGCCAATGAT
1 GACCCAACTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
* * *
8782182 GGCCCGACTATGTGCGAGTGGGAGTGCGCATAAGCCGATGAT
1 GACCCAACTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
*
8782224 GACCCAACCATGTGC
1 GACCCAACTATGTGC
8782239 TAATGGGGAG
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (42 bp):
GACCCAACTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
Found at i:8805125 original size:126 final size:125
Alignment explanation
Indices: 8804971--8805222 Score: 486
Period size: 126 Copynumber: 2.0 Consensus size: 125
8804961 GTAAGACTAA
8804971 ACTACTTGGTATTAGTATTAGTAAAAATTCTAGAAACAATTCTCTAGCAATGGCTCCAAAAACTT
1 ACTACTTGGTATTAGTATTAGTAAAAATTCTAGAAACAATTCTCTAGCAATGGCTCCAAAAACTT
8805036 GTCACTTAAAATTCTACTACGCCAGTATATGTATCCAATAAATAGTATATAAGCAAGCAG
66 GTCACTTAAAATTCTACTACGCCAGTATATGTATCCAATAAATAGTATATAAGCAAGCAG
8805096 NACTACTTGGTATTAGTATTAGTAAAAATTCTAGAAACAATTCTCTAGCAATGGCTCCAAAAACT
1 -ACTACTTGGTATTAGTATTAGTAAAAATTCTAGAAACAATTCTCTAGCAATGGCTCCAAAAACT
*
8805161 TGTCACTTAAAATTCTACTACGCCAGTATATGTATCGAATAAATAGTATATAAGCAAGCAG
65 TGTCACTTAAAATTCTACTACGCCAGTATATGTATCCAATAAATAGTATATAAGCAAGCAG
8805222 A
1 A
8805223 GTATCGATGC
Statistics
Matches: 125, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
125 1 0.01
126 124 0.99
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (125 bp):
ACTACTTGGTATTAGTATTAGTAAAAATTCTAGAAACAATTCTCTAGCAATGGCTCCAAAAACTT
GTCACTTAAAATTCTACTACGCCAGTATATGTATCCAATAAATAGTATATAAGCAAGCAG
Found at i:8816246 original size:39 final size:40
Alignment explanation
Indices: 8816168--8816248 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
8816158 AAATTCATTC
* *
8816168 TCGCTGCAGCGAGAAACTTTCTGTTTTCTGGGTTGCAATT
1 TCGCTGCAACGAGAAACTTTCTGTTTTCTGGGTTACAATT
8816208 TCGCTGCAACGAGAAACTTTCTG-TTTCTGGGTTACAATT
1 TCGCTGCAACGAGAAACTTTCTGTTTTCTGGGTTACAATT
8816247 TC
1 TC
8816249 ACTACAGCGA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 17 0.44
40 22 0.56
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (40 bp):
TCGCTGCAACGAGAAACTTTCTGTTTTCTGGGTTACAATT
Found at i:8816260 original size:39 final size:40
Alignment explanation
Indices: 8816174--8816260 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 40
8816164 ATTCTCGCTG
* * *
8816174 CAGCGAGAAACTTTCTGTTTTCTGGGTTGCAATTTCGCTG
1 CAGCGAGAAACTTTCTGTTTTCTGGGTTACAATTTCACTA
*
8816214 CAACGAGAAACTTTCTG-TTTCTGGGTTACAATTTCACTA
1 CAGCGAGAAACTTTCTGTTTTCTGGGTTACAATTTCACTA
8816253 CAGCGAGA
1 CAGCGAGA
8816261 TTGAATCTCG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 26 0.62
40 16 0.38
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (40 bp):
CAGCGAGAAACTTTCTGTTTTCTGGGTTACAATTTCACTA
Found at i:8818652 original size:38 final size:40
Alignment explanation
Indices: 8818601--8818703 Score: 138
Period size: 38 Copynumber: 2.6 Consensus size: 40
8818591 ATAGTGCCCG
* *
8818601 TGTGCACAATGTGGGGGGATGTACACGATGGC-ACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGCGACGGATA
* * * *
8818639 TGTGCACGATGTGGGGGGATGCATACGATGGCGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGCGACGGATA
8818679 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
8818704 TGAGTCGGGT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 29 0.53
39 3 0.05
40 23 0.42
ACGTcount: A:0.20, C:0.17, G:0.41, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGCGACGGATA
Found at i:8819069 original size:21 final size:22
Alignment explanation
Indices: 8819043--8819083 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8819033 TCACTGTAGC
*
8819043 ATCTCGTTGCAGCGA-AAACGA
1 ATCTCGCTGCAGCGAGAAACGA
8819064 ATCTCGCTGCAGCGAGAAAC
1 ATCTCGCTGCAGCGAGAAAC
8819084 TCTCTAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.32, C:0.27, G:0.24, T:0.17
Consensus pattern (22 bp):
ATCTCGCTGCAGCGAGAAACGA
Found at i:8821241 original size:38 final size:38
Alignment explanation
Indices: 8821143--8821248 Score: 140
Period size: 38 Copynumber: 2.7 Consensus size: 38
8821133 CACACCCGGC
* * *
8821143 TCATGTACATCCCCCCACATCGTGCACGTAGCCGGTATCA
1 TCATGTACATCCCCCCACATCGTGCAC--AACCAGTACCA
* * *
8821183 TCGTGTGCATCCCCCCACATCGTGCACAACCAGTGCCA
1 TCATGTACATCCCCCCACATCGTGCACAACCAGTACCA
8821221 TCATGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
8821249 CGGGCACTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 33 0.57
40 25 0.43
ACGTcount: A:0.23, C:0.41, G:0.16, T:0.21
Consensus pattern (38 bp):
TCATGTACATCCCCCCACATCGTGCACAACCAGTACCA
Found at i:8824102 original size:42 final size:42
Alignment explanation
Indices: 8824043--8824123 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
8824033 TTGTGTAATG
8824043 TTGCTGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGTCA
1 TTGCTGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGTCA
* *
8824085 TTGCTGACCCGGCTATGTGCTAGTAGGAGTGCGTATAAG
1 TTGCTGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAG
8824124 CCGTTGCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (42 bp):
TTGCTGACCCGGCTATGTGCAAGTAGGAGTGCGCATAAGTCA
Found at i:8828835 original size:2 final size:2
Alignment explanation
Indices: 8828828--8828852 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8828818 CGGAACGTTT
8828828 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8828853 TTGATTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8830202 original size:20 final size:20
Alignment explanation
Indices: 8830174--8830230 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
8830164 TTTTTGCAAT
* **
8830174 GAATCTATCAATACATTCTC
1 GAATCTATCGATACATTCAA
* *
8830194 GAATGTATCGATACTTTCAA
1 GAATCTATCGATACATTCAA
8830214 GAATCTATCGATACATT
1 GAATCTATCGATACATT
8830231 TGTGAAGTGC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (20 bp):
GAATCTATCGATACATTCAA
Found at i:8831313 original size:41 final size:41
Alignment explanation
Indices: 8831260--8831365 Score: 194
Period size: 41 Copynumber: 2.6 Consensus size: 41
8831250 ACCAAATCAA
*
8831260 GGGTTGGACCATGTTAACTACCAAACAAAGTCATATTAAAG
1 GGGTAGGACCATGTTAACTACCAAACAAAGTCATATTAAAG
8831301 GGGTAGGACCATGTTAACTACCAAACAAAGTCATATTAAAG
1 GGGTAGGACCATGTTAACTACCAAACAAAGTCATATTAAAG
*
8831342 GGGTAGGACCATGTCAACTACCAA
1 GGGTAGGACCATGTTAACTACCAA
8831366 CGAAACCAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.22
Consensus pattern (41 bp):
GGGTAGGACCATGTTAACTACCAAACAAAGTCATATTAAAG
Found at i:8838097 original size:19 final size:19
Alignment explanation
Indices: 8838073--8838114 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
8838063 TTCTATCCAA
8838073 CTTGTCTTAGAAAATGTAC
1 CTTGTCTTAGAAAATGTAC
8838092 CTTGTCTTAGAAAATGTAC
1 CTTGTCTTAGAAAATGTAC
8838111 CTTG
1 CTTG
8838115 GGAACAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (19 bp):
CTTGTCTTAGAAAATGTAC
Found at i:8838301 original size:42 final size:42
Alignment explanation
Indices: 8838242--8838360 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
8838232 TGTGGACCAA
* *
8838242 GCTATGTGCGAGTAGGAGCGCACATAAGCCATTGCTGACCCG
1 GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCG
*
8838284 GCTATGTACGAGTAGGAGTGCACATAAGCCGTTGCTGACCCG
1 GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCG
* * * *
8838326 ACTATGTGTGAGTGGGAGTGCTCATAAGCCGTTGC
1 GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGC
8838361 ATATGAGATG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (42 bp):
GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCG
Found at i:8838408 original size:2 final size:2
Alignment explanation
Indices: 8838401--8838425 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8838391 ATGATGATTG
8838401 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8838426 NNNNNNNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8838474 original size:2 final size:2
Alignment explanation
Indices: 8838467--8838521 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
8838457 AGTTAGATAG
8838467 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
8838509 TA TA TA CA TA TA T
1 TA TA TA TA TA TA T
8838522 GGTATATGGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Done.