Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 46 of 131
Found at i:15085983 original size:20 final size:20
Alignment explanation
Indices: 15085958--15086002 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
15085948 ATGTAGCTAG
15085958 TTTTAGGGTTTTAATTTAGT
1 TTTTAGGGTTTTAATTTAGT
15085978 TTTTAGGGTTTTAATTTAGT
1 TTTTAGGGTTTTAATTTAGT
15085998 TTTTA
1 TTTTA
15086003 CTTTATTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.18, T:0.62
Consensus pattern (20 bp):
TTTTAGGGTTTTAATTTAGT
Found at i:15091783 original size:40 final size:40
Alignment explanation
Indices: 15091739--15091969 Score: 225
Period size: 40 Copynumber: 5.8 Consensus size: 40
15091729 TAATTATTCT
* *
15091739 TTGAATGGACATACGTGCCCCTGTTTGTACTTCGATACCC
1 TTGAATGCACATACGTGCCCCTATTTGTACTTCGATACCC
* * * * *
15091779 TTGAATGCACATATGTGCTCCTGTTTTTACTTCGGTACCC
1 TTGAATGCACATACGTGCCCCTATTTGTACTTCGATACCC
* * * * ***
15091819 CTGAATTCACATACATTCCCCTATTTGTACTTC-AGTATTG
1 TTGAATGCACATACGTGCCCCTATTTGTACTTCGA-TACCC
* * * *
15091859 TTGAATGCACATACGTGCCTCTTTTTGTACTTTGGTACCC
1 TTGAATGCACATACGTGCCCCTATTTGTACTTCGATACCC
* *
15091899 CTGAATGCACATATGTGCCCCTATTTGTACTTC-AGTACCC
1 TTGAATGCACATACGTGCCCCTATTTGTACTTCGA-TACCC
* *
15091939 -TAAATGCACATATGTGCCCCTATTTGTACTT
1 TTGAATGCACATACGTGCCCCTATTTGTACTT
15091970 TGGTAACCGT
Statistics
Matches: 153, Mismatches: 35, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
39 30 0.20
40 123 0.80
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (40 bp):
TTGAATGCACATACGTGCCCCTATTTGTACTTCGATACCC
Found at i:15099178 original size:18 final size:18
Alignment explanation
Indices: 15099152--15099188 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
15099142 TCCTAGGAAG
15099152 ATTGACACCTCGTTATCT
1 ATTGACACCTCGTTATCT
*
15099170 ATTGGCACCTCGTTATCT
1 ATTGACACCTCGTTATCT
15099188 A
1 A
15099189 CTTTAAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.38
Consensus pattern (18 bp):
ATTGACACCTCGTTATCT
Found at i:15099957 original size:30 final size:31
Alignment explanation
Indices: 15099921--15099988 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
15099911 AGTCCTAAGA
** * **
15099921 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
15099951 GTAAATACAAAAAATTTGAAGGACCAATAGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
15099982 GTAAATA
1 GTAAATA
15099989 TTTTAAAGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (31 bp):
GTAAATACAAAAAATTTGAAGGACCAATAGT
Found at i:15105443 original size:27 final size:27
Alignment explanation
Indices: 15105396--15105449 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
15105386 GTGATTAAAT
15105396 AAAATCGACACAAGCAGAATTTAAAAGA
1 AAAATCGACACAAGCAGAA-TTAAAAGA
*
15105424 AAAATTGACAGCAAG-A-AATTAAAAGA
1 AAAATCGACA-CAAGCAGAATTAAAAGA
15105450 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 8 0.33
27 2 0.08
28 10 0.42
29 4 0.17
ACGTcount: A:0.59, C:0.11, G:0.15, T:0.15
Consensus pattern (27 bp):
AAAATCGACACAAGCAGAATTAAAAGA
Found at i:15113722 original size:40 final size:40
Alignment explanation
Indices: 15113667--15113912 Score: 278
Period size: 40 Copynumber: 6.2 Consensus size: 40
15113657 TAATTATTGT
* *
15113667 TTGAATGCACATACGTGCCTCTATTTCTACTTCGGTACCC
1 TTGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* *
15113707 TTGAATGCTCATACGTGCCCCTGTTTGTACTTCGGTACCC
1 TTGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* * * *
15113747 CTGAATGCACATACGTGCCCTTATTTTTACTTCGGTACCA
1 TTGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* *
15113787 TTGAATGCACATACGTACCCCTATTTGTACTTCGATACCC
1 TTGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* * * * * *
15113827 CTGAATGCACATATGTTCCCTTGTTTGTACTTCAGTACCAC
1 TTGAATGCACATACGTGCCCCTATTTGTACTTCGGTACC-C
* * * * *
15113868 -TGAATGCACGTACGTGCCCTTGTTTGTACTTTGGTAACC
1 TTGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCC
*
15113907 GTGAAT
1 TTGAAT
15113913 CAAATAATGA
Statistics
Matches: 175, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 173 0.99
41 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (40 bp):
TTGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCC
Found at i:15113801 original size:80 final size:80
Alignment explanation
Indices: 15113668--15113912 Score: 321
Period size: 80 Copynumber: 3.1 Consensus size: 80
15113658 AATTATTGTT
* *
15113668 TGAATGCACATACGTG-CCTCTATTTCTACTTCGGTACCCTTGAATGCTCATACGTGCCCCTGTT
1 TGAATGCACATACGTGCCCT-TATTTCTACTTCGGTACCATTGAATGCACATACGTGCCCCTGTT
15113732 TGTACTTCGGTACCCC
65 TGTACTTCGGTACCCC
* * *
15113748 TGAATGCACATACGTGCCCTTATTTTTACTTCGGTACCATTGAATGCACATACGTACCCCTATTT
1 TGAATGCACATACGTGCCCTTATTTCTACTTCGGTACCATTGAATGCACATACGTGCCCCTGTTT
*
15113813 GTACTTCGATACCCC
66 GTACTTCGGTACCCC
* * * * * * * *
15113828 TGAATGCACATATGTTCCCTTGTTTGTACTTCAGTACCACTGAATGCACGTACGTGCCCTTGTTT
1 TGAATGCACATACGTGCCCTTATTTCTACTTCGGTACCATTGAATGCACATACGTGCCCCTGTTT
* * *
15113893 GTACTTTGGTAACCG
66 GTACTTCGGTACCCC
15113908 TGAAT
1 TGAAT
15113913 CAAATAATGA
Statistics
Matches: 144, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
80 141 0.98
81 3 0.02
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (80 bp):
TGAATGCACATACGTGCCCTTATTTCTACTTCGGTACCATTGAATGCACATACGTGCCCCTGTTT
GTACTTCGGTACCCC
Found at i:15113882 original size:120 final size:120
Alignment explanation
Indices: 15113667--15113903 Score: 339
Period size: 120 Copynumber: 2.0 Consensus size: 120
15113657 TAATTATTGT
* * * * *
15113667 TTGAATGCACATACGTGCCTCTATTTCTACTTCGGTACCCTTGAATGCTCATACGTGCCCCTGTT
1 TTGAATGCACATACGTACCCCTATTTCTACTTCGATACCCCTGAATGCACATACGTGCCCCTGTT
* * *
15113732 TGTACTTCGGTACCCCTGAATGCACATACGTGCCCTTATTTTTACTTCGGTACCA
66 TGTACTTCAGTACCACTGAATGCACATACGTGCCCTTATTTGTACTTCGGTACCA
* * * *
15113787 TTGAATGCACATACGTACCCCTATTTGTACTTCGATACCCCTGAATGCACATATGTTCCCTTGTT
1 TTGAATGCACATACGTACCCCTATTTCTACTTCGATACCCCTGAATGCACATACGTGCCCCTGTT
* * *
15113852 TGTACTTCAGTACCACTGAATGCACGTACGTGCCCTTGTTTGTACTTTGGTA
66 TGTACTTCAGTACCACTGAATGCACATACGTGCCCTTATTTGTACTTCGGTA
15113904 ACCGTGAATC
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
120 102 1.00
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.35
Consensus pattern (120 bp):
TTGAATGCACATACGTACCCCTATTTCTACTTCGATACCCCTGAATGCACATACGTGCCCCTGTT
TGTACTTCAGTACCACTGAATGCACATACGTGCCCTTATTTGTACTTCGGTACCA
Found at i:15129691 original size:12 final size:12
Alignment explanation
Indices: 15129674--15129703 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
15129664 GATCCTAGTC
15129674 TATTTTATCCTT
1 TATTTTATCCTT
15129686 TATTTTATCCTT
1 TATTTTATCCTT
15129698 TATTTT
1 TATTTT
15129704 GCTATCCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (12 bp):
TATTTTATCCTT
Found at i:15129711 original size:15 final size:13
Alignment explanation
Indices: 15129676--15129716 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
15129666 TCCTAGTCTA
15129676 TTTTATCCTTTA-
1 TTTTATCCTTTAT
15129688 TTTTATCCTTTAT
1 TTTTATCCTTTAT
15129701 TTTGCTATCCTTTAT
1 TTT--TATCCTTTAT
15129716 T
1 T
15129717 CAAAATTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.46
13 3 0.12
15 11 0.42
ACGTcount: A:0.15, C:0.17, G:0.02, T:0.66
Consensus pattern (13 bp):
TTTTATCCTTTAT
Found at i:15134619 original size:29 final size:29
Alignment explanation
Indices: 15134573--15134926 Score: 492
Period size: 29 Copynumber: 12.2 Consensus size: 29
15134563 GTGTGCTAAA
*
15134573 CGATGGTCGAAACTATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* ** *
15134602 CGGTGGTCGTCACCATCCCTTTCCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
15134631 CGATGGTTGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
**
15134660 CGATGGTCGCCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* *
15134689 CAATGGTTGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
**
15134718 CGATGGTCGCCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* *
15134747 CAATGGTCGAAACCATCCTTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
**
15134776 CGATGGTCGCCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
15134805 CGATGGTCAAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
15134834 CGATGTTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* *
15134863 CGATGGTCAAAACCATCCTTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* ** *
15134892 CGATGATCGTCACTATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
15134921 CGATGG
1 CGATGG
15134927 GCATCAATAC
Statistics
Matches: 281, Mismatches: 44, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 281 1.00
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.36
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:15134643 original size:58 final size:58
Alignment explanation
Indices: 15134573--15134926 Score: 546
Period size: 58 Copynumber: 6.1 Consensus size: 58
15134563 GTGTGCTAAA
* * * *
15134573 CGATGGTCGAAACTATCCCTTTTCATATTCGGTGGTCGTCACCATCCCTTTCCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGCCACCATCCCTTTTCATATT
*
15134631 CGATGGTTGAAACCATCCCTTTTCATATTCGATGGTCGCCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGCCACCATCCCTTTTCATATT
* *
15134689 CAATGGTTGAAACCATCCCTTTTCATATTCGATGGTCGCCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGCCACCATCCCTTTTCATATT
* *
15134747 CAATGGTCGAAACCATCCTTTTTCATATTCGATGGTCGCCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGCCACCATCCCTTTTCATATT
* * **
15134805 CGATGGTCAAAACCATCCCTTTTCATATTCGATGTTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGCCACCATCCCTTTTCATATT
* * * * *
15134863 CGATGGTCAAAACCATCCTTTTTCATATTCGATGATCGTCACTATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGCCACCATCCCTTTTCATATT
15134921 CGATGG
1 CGATGG
15134927 GCATCAATAC
Statistics
Matches: 277, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 277 1.00
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.36
Consensus pattern (58 bp):
CGATGGTCGAAACCATCCCTTTTCATATTCGATGGTCGCCACCATCCCTTTTCATATT
Found at i:15147499 original size:43 final size:43
Alignment explanation
Indices: 15147433--15147572 Score: 162
Period size: 43 Copynumber: 3.3 Consensus size: 43
15147423 TTAGAGTAAA
*
15147433 CCAGTGGCAG--TTTATCTGCAAATATGATGTGCACCCACAGC
1 CCAGTGGCAGTTTTTATCTACAAATATGATGTGCACCCACAGC
* * * *
15147474 CCAGTGGCAGTTTTTATCTACAAATATGTTATGCACCCATAAC
1 CCAGTGGCAGTTTTTATCTACAAATATGATGTGCACCCACAGC
** *
15147517 TTAGTGGCAGTTTTTATC-AGCAAATAT-ATTGTGCATCCACAGC
1 CCAGTGGCAGTTTTTATCTA-CAAATATGA-TGTGCACCCACAGC
15147560 CCAGTGGCAGTTT
1 CCAGTGGCAGTTT
15147573 ATAAGGATGT
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 10 0.12
42 1 0.01
43 70 0.86
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (43 bp):
CCAGTGGCAGTTTTTATCTACAAATATGATGTGCACCCACAGC
Found at i:15151619 original size:50 final size:50
Alignment explanation
Indices: 15151560--15151804 Score: 319
Period size: 50 Copynumber: 4.9 Consensus size: 50
15151550 TATTGAGATT
* *
15151560 ATGAGAGGTCTCATGTAAGACCATGTATGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* *
15151610 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACTGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* *
15151660 ATGAGAGGTCCCATGTAAGACCATGTCTGGTACATGGAGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
** * * * *
15151710 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
** * ** * *
15151760 ATGAGAACTCTCATGTAAGACCATAACTGGGATATGGCATTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
15151805 ATACAAGAAA
Statistics
Matches: 171, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 171 1.00
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:15151839 original size:49 final size:50
Alignment explanation
Indices: 15151568--15151843 Score: 155
Period size: 50 Copynumber: 5.5 Consensus size: 50
15151558 TTATGAGAGG
* * * ** * * **
15151568 TCTCATGTAAGACCATGTATGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCTCATGTAAGACCATGTCTGGGACATGGCATGGGCACATACAAGAGAAC
* * * * * * **
15151618 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCAC-TGAGATGAGAGG
1 TCTCATGTAAGACCATGTCTGGGACATGGCATGGGCACAT-ACAAGAGAAC
* * * ** * * **
15151668 TCCCATGTAAGACCATGTCTGGTACATGG-AGTTGGCACCGAGATGAGAGG
1 TCTCATGTAAGACCATGTCTGGGACATGGCA-TGGGCACATACAAGAGAAC
* ** * * *
15151718 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCTCATGTAAGACCATGTCTGGGACATGGCATGGGCACATACAAGAGAAC
** * *
15151768 TCTCATGTAAGACCATAACTGGGATATGGCATTGGCA-ATACAAGA-AAC
1 TCTCATGTAAGACCATGTCTGGGACATGGCATGGGCACATACAAGAGAAC
* *
15151816 ATCTCATGTGAGACTATGTCTGGGACAT
1 -TCTCATGTAAGACCATGTCTGGGACAT
15151844 AGCTTTGGCA
Statistics
Matches: 191, Mismatches: 30, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
48 3 0.02
49 27 0.14
50 160 0.84
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
TCTCATGTAAGACCATGTCTGGGACATGGCATGGGCACATACAAGAGAAC
Found at i:15153161 original size:21 final size:22
Alignment explanation
Indices: 15153119--15153161 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15153109 TAAACGAAGT
* *
15153119 ACAATATTATTTAACTACATAA
1 ACAATATAATTTAACTAAATAA
15153141 ACAATATAATTT-ACTAAATAA
1 ACAATATAATTTAACTAAATAA
15153162 TTACATGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
ACAATATAATTTAACTAAATAA
Found at i:15153770 original size:30 final size:30
Alignment explanation
Indices: 15153734--15153794 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
15153724 TGTAGTTAAG
15153734 TATGTTATCATCTTCATGTTCCGATAATTT
1 TATGTTATCATCTTCATGTTCCGATAATTT
15153764 TATGTTATCATCTTCATGTTCCGATAATTT
1 TATGTTATCATCTTCATGTTCCGATAATTT
15153794 T
1 T
15153795 GAAAATTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.16, G:0.10, T:0.51
Consensus pattern (30 bp):
TATGTTATCATCTTCATGTTCCGATAATTT
Found at i:15157137 original size:46 final size:48
Alignment explanation
Indices: 15157044--15157139 Score: 160
Period size: 46 Copynumber: 2.0 Consensus size: 48
15157034 ATGACTAATA
*
15157044 TATATATATATATGCATTACTTAAATGAAACTAAACCTGCTAATAATGG
1 TATATATATATATGCATGACTT-AATGAAACTAAACCTGCTAATAATGG
15157093 TATATATATATATGCATGACTT-A-GAAACTAAACCTGCTAATAATGG
1 TATATATATATATGCATGACTTAATGAAACTAAACCTGCTAATAATGG
15157139 T
1 T
15157140 TAATTTAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
46 24 0.52
47 1 0.02
49 21 0.46
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (48 bp):
TATATATATATATGCATGACTTAATGAAACTAAACCTGCTAATAATGG
Found at i:15158876 original size:8 final size:8
Alignment explanation
Indices: 15158863--15158888 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
15158853 TTTACCAAAT
15158863 AAGACATC
1 AAGACATC
15158871 AAGACATC
1 AAGACATC
15158879 AAGACATC
1 AAGACATC
15158887 AA
1 AA
15158889 ACTAGAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.12
Consensus pattern (8 bp):
AAGACATC
Found at i:15171355 original size:29 final size:29
Alignment explanation
Indices: 15171313--15171373 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
15171303 CTCGAGGCCC
15171313 AAAATATACATTAGAAACAAGTAAGAACT
1 AAAATATACATTAGAAACAAGTAAGAACT
* *
15171342 AAAATATACATTAGAAACAAGTAGGGACT
1 AAAATATACATTAGAAACAAGTAAGAACT
15171371 AAA
1 AAA
15171374 CTGGGTACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.57, C:0.10, G:0.13, T:0.20
Consensus pattern (29 bp):
AAAATATACATTAGAAACAAGTAAGAACT
Found at i:15172653 original size:49 final size:50
Alignment explanation
Indices: 15172562--15172701 Score: 142
Period size: 49 Copynumber: 2.8 Consensus size: 50
15172552 CTCATACGAG
* * * *
15172562 CATGTAACGGGAAGCTCTTTCGAGCCATATAACAGGAAGCTCATGTGACC
1 CATGTAACGGGAAGCTCATACGAGCCATATAACAGGAAGCTCAAGAGACC
* *
15172612 CATGTAACGGGAAGCTCATACGAGCCATA-AA-TGAGAAGCTCAAGAGAGC
1 CATGTAACGGGAAGCTCATACGAGCCATATAACAG-GAAGCTCAAGAGACC
** * * * *
15172661 CAAATATCAGGAAGCTCATACGAGCCA-ATATCGGGAAGCTC
1 CATGTAACGGGAAGCTCATACGAGCCATATAACAGGAAGCTC
15172702 CGGAGAGCCA
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
48 2 0.03
49 45 0.60
50 28 0.37
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (50 bp):
CATGTAACGGGAAGCTCATACGAGCCATATAACAGGAAGCTCAAGAGACC
Found at i:15172672 original size:74 final size:73
Alignment explanation
Indices: 15172583--15172786 Score: 203
Period size: 74 Copynumber: 2.7 Consensus size: 73
15172573 AAGCTCTTTC
* * * * * *
15172583 GAGCCATATAACAGGAAGCTCATGTGACCCATGTAACGGGAAGCTCATACGAGCCATAAATGAG-
1 GAGCCAAATATCAGGAAGCTCATGCGAGCCA-ATAACGGGAAGCTCATA-GAGCCATAAATCAGA
15172647 AAGCTCAAGA
64 AAGCTCAAGA
* * ** *
15172657 GAGCCAAATATCAGGAAGCTCATACGAGCCAATATCGGGAAGCTCCGGAGAGCCATTAATCAGAA
1 GAGCCAAATATCAGGAAGCTCATGCGAGCCAATAACGGGAAGCT-CATAGAGCCATAAATCAGAA
*
15172722 AGCTCATGA
65 AGCTCAAGA
* * * * *
15172731 AAGCCAATTATCGGGAAGCTCGTGGGAGCCAAATAACGGGAAGCTCATGAGAGCCA
1 GAGCCAAATATCAGGAAGCTCATGCGAGCC-AATAACGGGAAGCTCAT-AGAGCCA
15172787 AATATCGGGA
Statistics
Matches: 105, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
73 23 0.22
74 62 0.59
75 20 0.19
ACGTcount: A:0.36, C:0.22, G:0.26, T:0.16
Consensus pattern (73 bp):
GAGCCAAATATCAGGAAGCTCATGCGAGCCAATAACGGGAAGCTCATAGAGCCATAAATCAGAAA
GCTCAAGA
Found at i:15172708 original size:49 final size:49
Alignment explanation
Indices: 15172621--15172801 Score: 165
Period size: 49 Copynumber: 3.7 Consensus size: 49
15172611 CCATGTAACG
* * **
15172621 GGAAGCTCAT-ACGAGCCATAAAT-GAGAAGCTCAAGAGAGCCAAATATCA
1 GGAAGCTCATGA-GAGCCA-ATATCGGGAAGCTCCGGAGAGCCAAATATCA
*
15172670 GGAAGCTCAT-ACGAGCCAATATCGGGAAGCTCCGGAGAGCC-ATTAATCA
1 GGAAGCTCATGA-GAGCCAATATCGGGAAGCTCCGGAGAGCCAAAT-ATCA
* * * * *
15172719 GAAAGCTCATGAAAGCCAATTATCGGGAAGCT-CGTGGGAGCCAAATAACG
1 GGAAGCTCATGAGAGCCAA-TATCGGGAAGCTCCG-GAGAGCCAAATATCA
*
15172769 GGAAGCTCATGAGAGCCAAATATCGGGATGCTC
1 GGAAGCTCATGAGAGCC-AATATCGGGAAGCTC
15172802 ATAAGAGCTG
Statistics
Matches: 110, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
48 5 0.05
49 54 0.49
50 47 0.43
51 4 0.04
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.16
Consensus pattern (49 bp):
GGAAGCTCATGAGAGCCAATATCGGGAAGCTCCGGAGAGCCAAATATCA
Found at i:15172749 original size:25 final size:25
Alignment explanation
Indices: 15172569--15172809 Score: 170
Period size: 25 Copynumber: 9.7 Consensus size: 25
15172559 GAGCATGTAA
* ** * *
15172569 CGGGAAGCTCTTTCGAGCCATATAA
1 CGGGAAGCTCATGAGAGCCAAATAT
* * * ** *
15172594 CAGGAAGCTCATGTGACCCATGTAA
1 CGGGAAGCTCATGAGAGCCAAATAT
15172619 CGGGAAGCTCAT-ACGAGCCATAA-AT
1 CGGGAAGCTCATGA-GAGCCA-AATAT
* *
15172644 -GAGAAGCTCAAGAGAGCCAAATAT
1 CGGGAAGCTCATGAGAGCCAAATAT
*
15172668 CAGGAAGCTCAT-ACGAGCC-AATAT
1 CGGGAAGCTCATGA-GAGCCAAATAT
** *
15172692 CGGGAAGCTCCGGAGAGCC-ATTAAT
1 CGGGAAGCTCATGAGAGCCAAAT-AT
* * * *
15172717 CAGAAAGCTCATGAAAGCCAATTAT
1 CGGGAAGCTCATGAGAGCCAAATAT
* * *
15172742 CGGGAAGCTCGTGGGAGCCAAATAA
1 CGGGAAGCTCATGAGAGCCAAATAT
15172767 CGGGAAGCTCATGAGAGCCAAATAT
1 CGGGAAGCTCATGAGAGCCAAATAT
* *
15172792 CGGGATGCTCATAAGAGC
1 CGGGAAGCTCATGAGAGC
15172810 TGTGGTGTGT
Statistics
Matches: 169, Mismatches: 38, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
23 2 0.01
24 39 0.23
25 125 0.74
26 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (25 bp):
CGGGAAGCTCATGAGAGCCAAATAT
Found at i:15173715 original size:17 final size:14
Alignment explanation
Indices: 15173679--15173708 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15173669 TATTAGTTAA
15173679 TTTA-TTTATCATC
1 TTTATTTTATCATC
15173692 TTTATTTTATCATC
1 TTTATTTTATCATC
15173706 TTT
1 TTT
15173709 CCAATTTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATTTTATCATC
Found at i:15177836 original size:18 final size:18
Alignment explanation
Indices: 15177800--15177838 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
15177790 ATTAATGTTT
* **
15177800 TATTGATTTTTCATGAAA
1 TATTGATTTTTAACAAAA
15177818 TATTGATTTTTAACAAAA
1 TATTGATTTTTAACAAAA
15177836 TAT
1 TAT
15177839 GGTATTAGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (18 bp):
TATTGATTTTTAACAAAA
Found at i:15178948 original size:45 final size:45
Alignment explanation
Indices: 15178894--15179020 Score: 166
Period size: 45 Copynumber: 2.8 Consensus size: 45
15178884 ACGCCTACAG
*
15178894 ATGAGTAAGACCATAGCTGAAAGACGCTATGACATCACGCTATAA
1 ATGAGTAAGACCATAGCTGAAAGACGCTATGACATCACGATATAA
* * ** * *
15178939 ATGAGTAAGACCATAGTTGAAAGATGCTACAACGTCATGATATAA
1 ATGAGTAAGACCATAGCTGAAAGACGCTATGACATCACGATATAA
*
15178984 ATGAGTAAAACCATAGCTGAAAGACG-TCATGACATCA
1 ATGAGTAAGACCATAGCTGAAAGACGCT-ATGACATCA
15179021 AGGTAAATGG
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
44 1 0.01
45 67 0.99
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (45 bp):
ATGAGTAAGACCATAGCTGAAAGACGCTATGACATCACGATATAA
Found at i:15181989 original size:15 final size:16
Alignment explanation
Indices: 15181969--15181998 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15181959 TGGTACCTTG
15181969 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
15181984 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
15181999 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:15182871 original size:12 final size:12
Alignment explanation
Indices: 15182854--15182878 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15182844 ATTAGCTGTT
15182854 ACACGACCTAGC
1 ACACGACCTAGC
15182866 ACACGACCTAGC
1 ACACGACCTAGC
15182878 A
1 A
15182879 TACGGGCGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.40, G:0.16, T:0.08
Consensus pattern (12 bp):
ACACGACCTAGC
Found at i:15219251 original size:25 final size:25
Alignment explanation
Indices: 15219222--15219308 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 25
15219212 ACGAGCTATA
*
15219222 AACGATAAGCTCCTCTGAGCTGAAT
1 AACGATAAGCTCCTCCGAGCTGAAT
* *
15219247 AACGATAAGCTCTTCCGAGCTGAGT
1 AACGATAAGCTCCTCCGAGCTGAAT
* * * *
15219272 AACGGTAAGCTCCTTCAAACTGAAT
1 AACGATAAGCTCCTCCGAGCTGAAT
* *
15219297 AATGGTAAGCTC
1 AACGATAAGCTC
15219309 ATACGAGATG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (25 bp):
AACGATAAGCTCCTCCGAGCTGAAT
Found at i:15219329 original size:25 final size:24
Alignment explanation
Indices: 15219301--15219353 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
15219291 CTGAATAATG
* *
15219301 GTAAGCTCATACGAGATGAGTATCA
1 GTAAGCTCATAAGAGATGA-AATCA
*
15219326 GTAAGCTCATAAGAGCTGAAATCA
1 GTAAGCTCATAAGAGATGAAATCA
15219350 GTAA
1 GTAA
15219354 CCCTAATGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (24 bp):
GTAAGCTCATAAGAGATGAAATCA
Found at i:15219345 original size:50 final size:52
Alignment explanation
Indices: 15219238--15219345 Score: 116
Period size: 50 Copynumber: 2.2 Consensus size: 52
15219228 AAGCTCCTCT
* * * * *
15219238 GAGCTGAATAACGATAAGCTCTTCCGAGCTGAGTAACGGTAAGCTCCTTCAA
1 GAGCTGAATAACGATAAGCTCATACGAGATGAGTAACAGTAAGCTCCATCAA
* * *
15219290 -A-CTGAATAATGGTAAGCTCATACGAGATGAGTATCAGTAAGCT-CAT-AA
1 GAGCTGAATAACGATAAGCTCATACGAGATGAGTAACAGTAAGCTCCATCAA
15219338 GAGCTGAA
1 GAGCTGAA
15219346 ATCAGTAACC
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
48 2 0.04
49 3 0.07
50 40 0.87
51 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (52 bp):
GAGCTGAATAACGATAAGCTCATACGAGATGAGTAACAGTAAGCTCCATCAA
Found at i:15224768 original size:30 final size:30
Alignment explanation
Indices: 15224732--15224790 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
15224722 GAGCCTTGGT
15224732 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
* * * *
15224762 GGGGCAAAATTGTAATTTTGCCAAAGTTT
1 GGGGCAAAAGTGTAAATATGCAAAAGTTT
15224791 GAGTTAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGCAAAAGTTTA
Found at i:15225254 original size:43 final size:43
Alignment explanation
Indices: 15225184--15225345 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 43
15225174 CCCCAAATTA
* * *
15225184 TTGATTCT-AAAGGTGGATGCTAAGTGCTGATTCCACCGTATAT
1 TTGATTGTGAAAGG-GGTTGCTATGTGCTGATTCCACCGTATAT
* *
15225227 TTGATTGTGAAAGGGGTTGTTATGTGCTGATTCC-TCGTATCA-
1 TTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCACCGTAT-AT
* * * * * *
15225269 CTGAATAT-AAAGATGGTTGCTAAGTGCTGATTCCACCGTATCT
1 TTGATTGTGAAAG-GGGTTGCTATGTGCTGATTCCACCGTATAT
*
15225312 TTGATTGTGAAAGGAGTTGCTATGTGCTGATTCC
1 TTGATTGTGAAAGGGGTTGCTATGTGCTGATTCC
15225346 TCGTATCACT
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
41 4 0.04
42 28 0.30
43 53 0.56
44 9 0.10
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.36
Consensus pattern (43 bp):
TTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCACCGTATAT
Found at i:15225296 original size:42 final size:40
Alignment explanation
Indices: 15225191--15225382 Score: 145
Period size: 43 Copynumber: 4.5 Consensus size: 40
15225181 TTATTGATTC
* * * *
15225191 TAAAGGTGGATGCTAAGTGCTGATTCCACCGTAT-ATTTGATT
1 TAAA-GTGGTTGCTAAGTGCTGATTCC-TCGTATCA-CTGAAT
* * *
15225233 GTGAAAGGGGTTGTTATGTGCTGATTCCTCGTATCACTGAAT
1 -T-AAAGTGGTTGCTAAGTGCTGATTCCTCGTATCACTGAAT
* ** *
15225275 ATAAAGATGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATT
1 -TAAAG-TGGTTGCTAAGTGCTGATTCC-TCGTATCACTGAAT
*
15225318 GTGAAAG-GAGTTGCTATGTGCTGATTCCTCGTATCACTGAATT
1 -T-AAAGTG-GTTGCTAAGTGCTGATTCCTCGTATCACTGAA-T
*
15225361 TAAGGTGGTTGCTAAGTGCTGA
1 TAAAGTGGTTGCTAAGTGCTGA
15225383 ATCCACCGAG
Statistics
Matches: 118, Mismatches: 23, Indels: 18
0.74 0.14 0.11
Matches are distributed among these distances:
41 21 0.18
42 40 0.34
43 50 0.42
44 7 0.06
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (40 bp):
TAAAGTGGTTGCTAAGTGCTGATTCCTCGTATCACTGAAT
Found at i:15225299 original size:85 final size:84
Alignment explanation
Indices: 15225191--15225390 Score: 328
Period size: 85 Copynumber: 2.4 Consensus size: 84
15225181 TTATTGATTC
* * *
15225191 TAAAGGTGGATGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGTTATGTGCTG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGAGTTGCTATGTGCTG
15225256 ATTCCTCGTATCACTGAAT
66 ATTCCTCGTATCACTGAAT
* *
15225275 ATAAAGATGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGGAGTTGCTATGTGCT
1 -TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGAGTTGCTATGTGCT
15225340 GATTCCTCGTATCACTGAAT
65 GATTCCTCGTATCACTGAAT
* *
15225360 TTAAGGTGGTTGCTAAGTGCTGAATCCACCG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCG
15225391 AGTAACGAAT
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 28 0.26
85 79 0.74
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (84 bp):
TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGAGTTGCTATGTGCTG
ATTCCTCGTATCACTGAAT
Found at i:15226949 original size:20 final size:20
Alignment explanation
Indices: 15226924--15226963 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
15226914 ATTCAACAAG
15226924 TAAGTGAAAATTTATAAATT
1 TAAGTGAAAATTTATAAATT
15226944 TAAGTGAAAATTTATAAATT
1 TAAGTGAAAATTTATAAATT
15226964 CATACGACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (20 bp):
TAAGTGAAAATTTATAAATT
Found at i:15228622 original size:25 final size:25
Alignment explanation
Indices: 15228593--15228720 Score: 127
Period size: 25 Copynumber: 5.2 Consensus size: 25
15228583 TAGGGACATT
15228593 GTAAGCTCCTTCGAGCTGAATAACG
1 GTAAGCTCCTTCGAGCTGAATAACG
* *
15228618 GTAAGCT-CTTCCGAGCTAAATAATG
1 GTAAGCTCCTT-CGAGCTGAATAACG
* * * *
15228643 GTAAGATCCTCCGAGCTAAATAACA
1 GTAAGCTCCTTCGAGCTGAATAACG
* *
15228668 GTAAGCTCATACGAGCTGAATAACG
1 GTAAGCTCCTTCGAGCTGAATAACG
* *
15228693 GTAAG-TCTTTACGAGCTGAA-ATCG
1 GTAAGCTCCTT-CGAGCTGAATAACG
15228717 GTAA
1 GTAA
15228721 CCCTAATGAC
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
24 13 0.15
25 71 0.83
26 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (25 bp):
GTAAGCTCCTTCGAGCTGAATAACG
Found at i:15233636 original size:45 final size:45
Alignment explanation
Indices: 15233568--15233661 Score: 125
Period size: 45 Copynumber: 2.1 Consensus size: 45
15233558 GACAAATACT
* *
15233568 CGGTGGATTCAGCACAAAACAACCACATTATTAATCAATGATGTC
1 CGGTGGAATCAGCACAAAACAACCACATTACTAATCAATGATGTC
* * * * *
15233613 CGGTGGAATCATCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACAAAACAACCACATTACTAATCAATGATGTC
15233658 CGGT
1 CGGT
15233662 TCACATAGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACAAAACAACCACATTACTAATCAATGATGTC
Found at i:15233732 original size:51 final size:50
Alignment explanation
Indices: 15233658--15233851 Score: 201
Period size: 51 Copynumber: 3.8 Consensus size: 50
15233648 CAATGATGTT
* * *
15233658 CGGTTCACATAGTAGCCTACACATAGTACTACACAGGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCA-TACCATC
* * * * * * *
15233709 CGATACACGTAGTAGGCTGCACATACTACTACACACGTGATCGAAACTATC
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCATACCATC
* * * * * *
15233760 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATACCA-TC
*
15233810 CGGTACACGTAGTAACCTACACATAGTACTACACACGTGACC
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACC
15233852 GTCACTTTTA
Statistics
Matches: 114, Mismatches: 27, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 71 0.62
52 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATACCATC
Found at i:15233845 original size:101 final size:101
Alignment explanation
Indices: 15233665--15233849 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
15233655 GTTCGGTTCA
* ** *
15233665 CATAGTAGCCTACACATAGTACTACACAGGTGACCATTACCATCCGATACACGTAGTAGGCTGCA
1 CATAGTAGCCTACACATAGTACTACACAGGCGACCA-TACCATCCGATACACGTAGTAACCTACA
15233730 CATACTACTACACACGTGATCGAAACTATCCGGTACG
65 CATACTACTACACACGTGATCGAAACTATCCGGTACG
* * * *
15233767 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAACCTACA
1 CATAGTAGCCTACACATAGTACTACACAGGCGACCATACCA-TCCGATACACGTAGTAACCTACA
*
15233831 CATAGTACTACACACGTGA
65 CATACTACTACACACGTGA
15233850 CCGTCACTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
100 4 0.05
101 37 0.51
102 32 0.44
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACAGGCGACCATACCATCCGATACACGTAGTAACCTACAC
ATACTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:15237775 original size:29 final size:29
Alignment explanation
Indices: 15237708--15237769 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
15237698 ATGCTAAACA
**
15237708 ATGGTCGAAACCATCCCTTTTCATATTCG
1 ATGGTCGTCACCATCCCTTTTCATATTCG
15237737 ATGGTCGTCACCATCCCTTTTCATATTCG
1 ATGGTCGTCACCATCCCTTTTCATATTCG
15237766 ATGG
1 ATGG
15237770 GTGTCAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.35
Consensus pattern (29 bp):
ATGGTCGTCACCATCCCTTTTCATATTCG
Found at i:15238467 original size:35 final size:35
Alignment explanation
Indices: 15238416--15238483 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
15238406 ATTAAAAATG
*
15238416 GGACGAAAACAGACTTACATGC-ACAAGGTAATGTT
1 GGACGAAAACACACTTACAT-CAACAAGGTAATGTT
15238451 GGACGAAAACACACTTACATCAACAAGGTAATG
1 GGACGAAAACACACTTACATCAACAAGGTAATG
15238484 ATGACTTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 1 0.03
35 30 0.97
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.18
Consensus pattern (35 bp):
GGACGAAAACACACTTACATCAACAAGGTAATGTT
Found at i:15253601 original size:46 final size:44
Alignment explanation
Indices: 15253548--15253641 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
15253538 GGTTCGTTGT
** * * *
15253548 AATGGAATAGAGGTGTAATAGGTAATCCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAACTATAATA-GT-ATCCTTGTATTTGGTTGAATGG
*
15253594 AATGGAATAGAACTATAATAGTATTCTTGTATTTGGTTGAATGG
1 AATGGAATAGAACTATAATAGTATCCTTGTATTTGGTTGAATGG
15253638 AATG
1 AATG
15253642 ATGTTGTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 23 0.55
45 2 0.05
46 17 0.40
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTATAATAGTATCCTTGTATTTGGTTGAATGG
Found at i:15255438 original size:47 final size:49
Alignment explanation
Indices: 15255348--15255450 Score: 147
Period size: 47 Copynumber: 2.1 Consensus size: 49
15255338 CTTAAGAAAA
* * * *
15255348 AAAATTAAAGTTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTAT
1 AAAATTAAAATTAAGTTTAATATCATGAATCAAAAGCTCAACACTGTAT
*
15255397 AAAATTAAAATTAAG-TTCA-ATCATGAATCAAAAGCTCAACACTGTAT
1 AAAATTAAAATTAAGTTTAATATCATGAATCAAAAGCTCAACACTGTAT
15255444 AAAATTA
1 AAAATTA
15255451 TAAAACATGA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
47 32 0.65
48 3 0.06
49 14 0.29
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.30
Consensus pattern (49 bp):
AAAATTAAAATTAAGTTTAATATCATGAATCAAAAGCTCAACACTGTAT
Found at i:15256467 original size:264 final size:263
Alignment explanation
Indices: 15255955--15256478 Score: 841
Period size: 263 Copynumber: 2.0 Consensus size: 263
15255945 TACTTGGATA
* *
15255955 ATAACCCTGACACCACTCATTCAAATGATATCATTGTCCTCTATAAGGTGTAAGAAATCCCTCAC
1 ATAACCCTGACACCACTCATTCAAATGATATCATTGTCCTCTAAAAGGTGCAAGAAATCCCTCAC
* *
15256020 AATTTTTGTATCCAGCATCAACTAGATAATAACAATCTATAAAAAAACTTTTTTAAAATGATTAA
66 AATTTGTGTATCCAGCATCAACTAGATAATAACAACCTATAAAAAAACTTTTTTAAAATGATTAA
* * *
15256085 TTCCTCAAAAATGTTTGATCTTAATGAATAATTCAAAGTCCTCTAACTTTCCACTTTACCATGAG
131 TTCCCCAAAAAAGTTTGATCTTAATGAATAATTCAAAGTCCTCTAACTATCCACTTTACCATGAG
* *
15256150 GAACTTTTAGTCCATGTCTCCTACTAATGGCATCTCGAAGAACCCGTCCATCAGCAACAGAACCT
196 GAACATTTAGTCCATGTCTCCTACTAATGGCATCTCGAAGAACCCATCCATCAGCAACAGAACCT
15256215 CTG
261 CTG
* * *
15256218 ATAACCTTGACGCCACTCATTCAAATGATATCGTTGTCCTCTAAAAGGTGCAAGAAATCCCTCAC
1 ATAACCCTGACACCACTCATTCAAATGATATCATTGTCCTCTAAAAGGTGCAAGAAATCCCTCAC
******
15256283 AATTTGTGTATCCAGCATCAACTAGATAATAACAACCTATAATTTTTTTTTTTTAAAATGATTAA
66 AATTTGTGTATCCAGCATCAACTAGATAATAACAACCTATAAAAAAACTTTTTTAAAATGATTAA
*
15256348 TTCCCCAAAAAAAGTTTGATCTTAATGAATAATTTAAAGTCCTCTAACTATCCACTTTACCATGA
131 TTCCCC-AAAAAAGTTTGATCTTAATGAATAATTCAAAGTCCTCTAACTATCCACTTTACCATGA
* * *
15256413 GGAACATTTAGTCCTTGTCTCCTACTAATGGCATCTTGGAGAACCCATCCATCAGCAACAGAACC
195 GGAACATTTAGTCCATGTCTCCTACTAATGGCATCTCGAAGAACCCATCCATCAGCAACAGAACC
15256478 T
260 T
15256479 TCCCAACTAG
Statistics
Matches: 238, Mismatches: 22, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
263 122 0.51
264 116 0.49
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (263 bp):
ATAACCCTGACACCACTCATTCAAATGATATCATTGTCCTCTAAAAGGTGCAAGAAATCCCTCAC
AATTTGTGTATCCAGCATCAACTAGATAATAACAACCTATAAAAAAACTTTTTTAAAATGATTAA
TTCCCCAAAAAAGTTTGATCTTAATGAATAATTCAAAGTCCTCTAACTATCCACTTTACCATGAG
GAACATTTAGTCCATGTCTCCTACTAATGGCATCTCGAAGAACCCATCCATCAGCAACAGAACCT
CTG
Found at i:15257861 original size:30 final size:30
Alignment explanation
Indices: 15257813--15257884 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
15257803 ATGTGCATAT
** * *
15257813 GGAGCTGAATTAATGCATGAATGTGTTTAA
1 GGAGCTGAATGGAGGCATGAATGTATTTAA
* *
15257843 GGAGCTGAATGGAGGCATGCATGTATTTAG
1 GGAGCTGAATGGAGGCATGAATGTATTTAA
15257873 GGAGCTGAATGG
1 GGAGCTGAATGG
15257885 GGATGCTAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.29, C:0.08, G:0.35, T:0.28
Consensus pattern (30 bp):
GGAGCTGAATGGAGGCATGAATGTATTTAA
Found at i:15261799 original size:35 final size:35
Alignment explanation
Indices: 15261753--15261819 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
15261743 TTAATACAGA
15261753 AAAACATGAACTTAACAGAAACCAAAACATGATCC
1 AAAACATGAACTTAACAGAAACCAAAACATGATCC
15261788 AAAACATGAACTTAACAGAAACCAAAACATGA
1 AAAACATGAACTTAACAGAAACCAAAACATGA
15261820 ACATAACAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.57, C:0.21, G:0.09, T:0.13
Consensus pattern (35 bp):
AAAACATGAACTTAACAGAAACCAAAACATGATCC
Found at i:15261804 original size:23 final size:23
Alignment explanation
Indices: 15261786--15261846 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
15261776 AAAACATGAT
*
15261786 CCAAAACATGAACTTAACAGAAA
1 CCAAAACATGAACATAACAGAAA
15261809 CCAAAACATGAACATAACAGAAA
1 CCAAAACATGAACATAACAGAAA
*
15261832 CTAAAACATGAACAT
1 CCAAAACATGAACAT
15261847 TATAACACAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.57, C:0.21, G:0.08, T:0.13
Consensus pattern (23 bp):
CCAAAACATGAACATAACAGAAA
Found at i:15263073 original size:35 final size:35
Alignment explanation
Indices: 15263027--15263093 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
15263017 TTAATACAGA
15263027 AAAACATGAACTTAACAGAAACCAAAACATGATCC
1 AAAACATGAACTTAACAGAAACCAAAACATGATCC
15263062 AAAACATGAACTTAACAGAAACCAAAACATGA
1 AAAACATGAACTTAACAGAAACCAAAACATGA
15263094 ACATAACAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.57, C:0.21, G:0.09, T:0.13
Consensus pattern (35 bp):
AAAACATGAACTTAACAGAAACCAAAACATGATCC
Found at i:15263078 original size:23 final size:23
Alignment explanation
Indices: 15263060--15263120 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
15263050 AAAACATGAT
*
15263060 CCAAAACATGAACTTAACAGAAA
1 CCAAAACATGAACATAACAGAAA
15263083 CCAAAACATGAACATAACAGAAA
1 CCAAAACATGAACATAACAGAAA
*
15263106 CTAAAACATGAACAT
1 CCAAAACATGAACAT
15263121 TATAACACAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.57, C:0.21, G:0.08, T:0.13
Consensus pattern (23 bp):
CCAAAACATGAACATAACAGAAA
Found at i:15264271 original size:14 final size:14
Alignment explanation
Indices: 15264252--15264279 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15264242 AGCAGAAATC
15264252 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
15264266 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
15264280 GAAATGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (14 bp):
TGGAGAAAAGAAAA
Found at i:15264292 original size:17 final size:18
Alignment explanation
Indices: 15264255--15264299 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
15264245 AGAAATCTGG
15264255 AGAAAAGAAAATGGAGAAA
1 AGAAAAG-AAATGGAGAAA
*
15264274 AGAAAAGAAAT-GTGAAA
1 AGAAAAGAAATGGAGAAA
15264291 AGAAAAGAA
1 AGAAAAGAA
15264300 GCGTACCGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 14 0.56
18 4 0.16
19 7 0.28
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAATGGAGAAA
Found at i:15268378 original size:45 final size:45
Alignment explanation
Indices: 15268322--15268413 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
15268312 TAAAGAAAAG
15268322 GTATATGTTATTGGAAAACTCCCACCTCCAATAACTGTAAAGGGT
1 GTATATGTTATTGGAAAACTCCCACCTCCAATAACTGTAAAGGGT
15268367 GTATATGTTATTGGAAAACTCCCACCTCCAATAACTGTAAAGGGT
1 GTATATGTTATTGGAAAACTCCCACCTCCAATAACTGTAAAGGGT
15268412 GT
1 GT
15268414 TAGGAGCTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (45 bp):
GTATATGTTATTGGAAAACTCCCACCTCCAATAACTGTAAAGGGT
Found at i:15275786 original size:13 final size:13
Alignment explanation
Indices: 15275770--15275804 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
15275760 TTTAAACAAA
*
15275770 TTAATTAACTTAT
1 TTAATTAACTAAT
15275783 TTAATTAACTAAT
1 TTAATTAACTAAT
*
15275796 TTAACTAAC
1 TTAATTAAC
15275805 AGCAACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATTAACTAAT
Found at i:15286941 original size:12 final size:12
Alignment explanation
Indices: 15286908--15286988 Score: 53
Period size: 12 Copynumber: 6.8 Consensus size: 12
15286898 TTTCCACTCG
15286908 ATTTC-TTTTCA
1 ATTTCTTTTTCA
** *
15286919 AGCTCTCTTTCA
1 ATTTCTTTTTCA
15286931 ATTTCTTTTTCCA
1 ATTTCTTTTT-CA
*
15286944 CTCTTTCTTTTTC-
1 --ATTTCTTTTTCA
*
15286957 --TTCTCTTTCA
1 ATTTCTTTTTCA
15286967 ATTTCTTTTTCA
1 ATTTCTTTTTCA
*
15286979 ATCTCTTTTT
1 ATTTCTTTTT
15286989 GCTTTTCACT
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
9 8 0.15
11 3 0.06
12 30 0.57
13 2 0.04
14 1 0.02
15 9 0.17
ACGTcount: A:0.12, C:0.25, G:0.01, T:0.62
Consensus pattern (12 bp):
ATTTCTTTTTCA
Found at i:15286949 original size:21 final size:20
Alignment explanation
Indices: 15286923--15286978 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 20
15286913 TTTTCAAGCT
15286923 CTCTTTCAATTTCTTTTTCCA
1 CTCTTTCAATTTCTTTTT-CA
*
15286944 CTCTTTC--TTT-TTCTT--
1 CTCTTTCAATTTCTTTTTCA
15286959 CTCTTTCAATTTCTTTTTCA
1 CTCTTTCAATTTCTTTTTCA
15286979 ATCTCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 11
0.68 0.05 0.27
Matches are distributed among these distances:
15 7 0.25
17 3 0.11
18 8 0.29
19 3 0.11
21 7 0.25
ACGTcount: A:0.11, C:0.27, G:0.00, T:0.62
Consensus pattern (20 bp):
CTCTTTCAATTTCTTTTTCA
Found at i:15287041 original size:15 final size:15
Alignment explanation
Indices: 15287018--15287064 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
15287008 TTTTGAAATC
15287018 TCATTTTCATATT-TT
1 TCATTTTCAT-TTCTT
*
15287033 TCTTTTTCATTTCTT
1 TCATTTTCATTTCTT
15287048 TCATTTTCATTTTCTT
1 TCATTTTCA-TTTCTT
15287064 T
1 T
15287065 ATTCTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 19 0.68
16 7 0.25
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (15 bp):
TCATTTTCATTTCTT
Found at i:15288123 original size:13 final size:14
Alignment explanation
Indices: 15288101--15288146 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
15288091 CTCGCAAGAC
*
15288101 TTTTCACTTCTTTT
1 TTTTTACTTCTTTT
15288115 TTTTT-CTTCTTTT
1 TTTTTACTTCTTTT
*
15288128 TTTTTACTCCTTTT
1 TTTTTACTTCTTTT
15288142 TTTTT
1 TTTTT
15288147 GCTCACTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 13 0.45
14 16 0.55
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTACTTCTTTT
Found at i:15289675 original size:20 final size:20
Alignment explanation
Indices: 15289650--15289696 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
15289640 GGGTTAAAAT
*
15289650 TGAGCTGAATTGATCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
15289670 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
15289690 TGAGCTG
1 TGAGCTG
15289697 GAAACGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:15294311 original size:14 final size:15
Alignment explanation
Indices: 15294289--15294329 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
15294279 GATATCAAGT
15294289 TGAAAAAAAAATTCG
1 TGAAAAAAAAATTCG
15294304 TGAAAAAAAAATTCG
1 TGAAAAAAAAATTCG
15294319 TGAAAAAAAAA
1 TGAAAAAAAAA
15294330 GAAGACGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.66, C:0.05, G:0.12, T:0.17
Consensus pattern (15 bp):
TGAAAAAAAAATTCG
Found at i:15298853 original size:50 final size:50
Alignment explanation
Indices: 15298720--15299016 Score: 301
Period size: 50 Copynumber: 5.8 Consensus size: 50
15298710 ATTTGGGCAA
*
15298720 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
* * *
15298776 ACAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
15298826 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACAGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * ** *
15298876 AGAGGTCCCCCGTAAGGCCATGTCTAGGACATGGCAAGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
15298926 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * * *
15298975 AAACATCCTATATAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
15299017 TGTTATTATC
Statistics
Matches: 205, Mismatches: 35, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.00
49 38 0.19
50 122 0.60
53 3 0.01
55 2 0.01
56 39 0.19
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:15303473 original size:25 final size:26
Alignment explanation
Indices: 15303413--15303473 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
15303403 CTCCTAAATT
*
15303413 TTAATTTAATTATCTAATTTTTCAAA
1 TTAATTAAATTATCTAATTTTTCAAA
* * *
15303439 TT-ATTGAATTAT-TAATTTTTTATA
1 TTAATTAAATTATCTAATTTTTCAAA
15303463 TTAATTAAATT
1 TTAATTAAATT
15303474 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 12 0.40
25 16 0.53
26 2 0.07
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (26 bp):
TTAATTAAATTATCTAATTTTTCAAA
Found at i:15306615 original size:14 final size:15
Alignment explanation
Indices: 15306591--15306620 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
15306581 AAAATGGTCT
15306591 AGTTGAACTGAACCG
1 AGTTGAACTGAACCG
15306606 AGTT-AACTGAACCG
1 AGTTGAACTGAACCG
15306620 A
1 A
15306621 CCAAGAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (15 bp):
AGTTGAACTGAACCG
Found at i:15312048 original size:54 final size:54
Alignment explanation
Indices: 15311984--15312105 Score: 208
Period size: 54 Copynumber: 2.3 Consensus size: 54
15311974 ATAAGTATTT
* * *
15311984 AGTTGTTGGAATAAATTACTCATCTTAGTTAATTGATTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
*
15312038 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTT
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
15312092 AGTTGCTGGAATAA
1 AGTTGCTGGAATAA
15312106 TTTATTGTTG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
Found at i:15312081 original size:19 final size:19
Alignment explanation
Indices: 15312057--15312095 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15312047 AATAAATTAC
15312057 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
15312076 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
15312095 T
1 T
15312096 GCTGGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:15312491 original size:24 final size:24
Alignment explanation
Indices: 15312412--15312493 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
15312402 AAGGGGCTGT
* *
15312412 TACATCAATTAAAGGAAAACATTA
1 TACATCATTTAAAGGAAAGCATTA
*
15312436 TACATCATTCAAAGG--AGC--TA
1 TACATCATTTAAAGGAAAGCATTA
*
15312456 TTACATTATTTAAAGGAAAGCATTA
1 -TACATCATTTAAAGGAAAGCATTA
*
15312481 TACATCCTTTAAA
1 TACATCATTTAAA
15312494 TTCAATAGCC
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 2 0.04
21 13 0.28
22 2 0.04
23 3 0.07
24 24 0.52
25 2 0.04
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (24 bp):
TACATCATTTAAAGGAAAGCATTA
Found at i:15315812 original size:22 final size:22
Alignment explanation
Indices: 15315786--15315850 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
15315776 TTACACAATA
15315786 ATCACATAACATTTAAGCATAT
1 ATCACATAACATTTAAGCATAT
*
15315808 ATCAC---A-A--TACGCATAT
1 ATCACATAACATTTAAGCATAT
15315824 AATCACATAACATTTAAGCATAT
1 -ATCACATAACATTTAAGCATAT
15315847 ATCA
1 ATCA
15315851 TAATTCTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
16 8 0.24
17 5 0.15
18 1 0.03
19 1 0.03
20 1 0.03
21 1 0.03
22 9 0.26
23 8 0.24
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.29
Consensus pattern (22 bp):
ATCACATAACATTTAAGCATAT
Found at i:15315837 original size:39 final size:39
Alignment explanation
Indices: 15315759--15315937 Score: 243
Period size: 39 Copynumber: 4.6 Consensus size: 39
15315749 TCAATTCACT
* * *
15315759 TTTAAACATATATCACATTACACA-ATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
15315797 TTTAAGCATATATCACAATACGCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
15315836 TTTAAGCATATATCATAATTCTCATATAATCACATAACG
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
15315875 TTTAAGCATATATTACAATACTCATATAACCACATAATA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
15315914 TTCAAACATATATCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
15315938 AAAACATGTT
Statistics
Matches: 124, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 21 0.17
39 103 0.83
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:15322106 original size:20 final size:20
Alignment explanation
Indices: 15322081--15322119 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
15322071 AATATACATT
15322081 TGAAACTTCTTCAATCAGAA
1 TGAAACTTCTTCAATCAGAA
15322101 TGAAACTTCTTCAATCAGA
1 TGAAACTTCTTCAATCAGA
15322120 GTTCACAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (20 bp):
TGAAACTTCTTCAATCAGAA
Found at i:15324772 original size:13 final size:14
Alignment explanation
Indices: 15324754--15324782 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15324744 TGCAAACGAT
15324754 AAAATTTTTTA-AC
1 AAAATTTTTTATAC
15324767 AAAATTTTTTATAC
1 AAAATTTTTTATAC
15324781 AA
1 AA
15324783 TGCTACTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (14 bp):
AAAATTTTTTATAC
Found at i:15326065 original size:38 final size:38
Alignment explanation
Indices: 15326014--15326091 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
15326004 TTATCACTGG
*
15326014 CTACAACAAACCAGAAGGCACCTGATGTTCAACTTTTA
1 CTACAACAAACCAGAAGGCACCTAATGTTCAACTTTTA
*
15326052 CTACAACAAACCAGAAGGCACCTAATGTTCAGCTTTTA
1 CTACAACAAACCAGAAGGCACCTAATGTTCAACTTTTA
15326090 CT
1 CT
15326092 TGCTGACATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (38 bp):
CTACAACAAACCAGAAGGCACCTAATGTTCAACTTTTA
Found at i:15349391 original size:13 final size:13
Alignment explanation
Indices: 15349373--15349397 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15349363 AGAAACATTT
15349373 AAAACATCATAGA
1 AAAACATCATAGA
15349386 AAAACATCATAG
1 AAAACATCATAG
15349398 GGCCGTGTGG
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAACATCATAGA
Found at i:15356470 original size:20 final size:20
Alignment explanation
Indices: 15356423--15356472 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
15356413 ATCATGGTCT
*
15356423 TTGCTTTCTTCTTTACTTAC
1 TTGCTTACTTCTTTACTTAC
* *
15356443 TCT-TTTACTTGTTTACTTAC
1 T-TGCTTACTTCTTTACTTAC
15356463 TTGCTTACTT
1 TTGCTTACTT
15356473 AAATAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.12, C:0.22, G:0.06, T:0.60
Consensus pattern (20 bp):
TTGCTTACTTCTTTACTTAC
Found at i:15356871 original size:50 final size:50
Alignment explanation
Indices: 15356765--15356916 Score: 160
Period size: 50 Copynumber: 3.0 Consensus size: 50
15356755 ACATAAGAGT
* * * * * * *
15356765 TCTCATATCGGTGCCCATGCCATGTCCCAGACATAGTCTTGCGGGGGACC
1 TCTCATCTCGGTACCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
15356815 TCTCATCTCGGTACCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
1 TCTCATCTCGGTACCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
** * * *
15356865 TCTCATCTCTATACTAACGCCAATATCATTCCAGACATGGTCTTACATGGGA
1 TCTCATCTCGGTACCAACGCC-ATGTC---CCAGACATGGTCTTACAGGGGA
15356917 TCTCATTCCC
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
50 61 0.71
51 4 0.05
54 21 0.24
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (50 bp):
TCTCATCTCGGTACCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
Found at i:15358189 original size:20 final size:20
Alignment explanation
Indices: 15358142--15358191 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
15358132 ATCATGGTCT
*
15358142 TTGCTTTCTTCTTTACTTAC
1 TTGCTTACTTCTTTACTTAC
* *
15358162 TCT-TTTACTTGTTTACTTAC
1 T-TGCTTACTTCTTTACTTAC
15358182 TTGCTTACTT
1 TTGCTTACTT
15358192 AAATAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.12, C:0.22, G:0.06, T:0.60
Consensus pattern (20 bp):
TTGCTTACTTCTTTACTTAC
Found at i:15358538 original size:50 final size:50
Alignment explanation
Indices: 15358484--15358640 Score: 197
Period size: 50 Copynumber: 3.1 Consensus size: 50
15358474 ACATAAGAGT
* * * * *
15358484 TCTCATATCGGTGCCCATGCCATGTCCCAGACATAGTCTTGCGGGGGACC
1 TCTCATATCGGTACCAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
* *
15358534 TCTCATCTCGGTACCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
1 TCTCATATCGGTACCAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
* ** * * *
15358584 TCTCATCTCTATACTAACGCCATGTCCTAGACATGGTCTTACGTGGGACC
1 TCTCATATCGGTACCAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
15358634 TCTCATA
1 TCTCATA
15358641 ACCTAAATAA
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 93 1.00
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (50 bp):
TCTCATATCGGTACCAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
Found at i:15360313 original size:39 final size:40
Alignment explanation
Indices: 15360229--15360313 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
15360219 ACTTAGTTTG
15360229 CCTTTCTTGCCAAATCTGAAAACTTTTTTCCACGGGGATA
1 CCTTTCTTGCCAAATCTGAAAACTTTTTTCCACGGGGATA
15360269 CCTTTCTTGCCAAATCTGAAAACTTTTTTCCACGGGGATA
1 CCTTTCTTGCCAAATCTGAAAACTTTTTTCCACGGGGATA
15360309 -CTTTC
1 CCTTTC
15360314 AAAAATACCC
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 5 0.11
40 40 0.89
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (40 bp):
CCTTTCTTGCCAAATCTGAAAACTTTTTTCCACGGGGATA
Found at i:15363487 original size:20 final size:20
Alignment explanation
Indices: 15363462--15363510 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
15363452 TGAGTTATTT
15363462 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
* *
15363482 AAGTAA-AAGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
15363502 AAG-AAGCAA
1 AAGTAAGCAA
15363511 ATACCATGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.59, C:0.06, G:0.22, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:15366806 original size:29 final size:29
Alignment explanation
Indices: 15366755--15366811 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
15366745 ATGGTCAAAG
*
15366755 CCATCCCTTTTCAAATTCTATGGTCGTCA
1 CCATCCCTTTTCAAATTCTATGGGCGTCA
*
15366784 CCATCCCTTTTCATATT-TGATGGGCGTC
1 CCATCCCTTTTCAAATTCT-ATGGGCGTC
15366812 GATACGTCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.18, C:0.30, G:0.14, T:0.39
Consensus pattern (29 bp):
CCATCCCTTTTCAAATTCTATGGGCGTCA
Found at i:15370837 original size:23 final size:23
Alignment explanation
Indices: 15370811--15370928 Score: 157
Period size: 23 Copynumber: 5.2 Consensus size: 23
15370801 ATAAGTGCCA
15370811 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
15370834 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
15370857 CACTGA-ATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
15370879 CACTAATATGTAGTCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
15370902 CACTGAAATGTAGCCAAAGGTAC
1 CACTGATATGTAGCCGAAGCTAC
15370925 CACT
1 CACT
15370929 AATCAATAAC
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
22 19 0.23
23 64 0.77
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:15370876 original size:45 final size:45
Alignment explanation
Indices: 15370811--15370931 Score: 179
Period size: 45 Copynumber: 2.6 Consensus size: 45
15370801 ATAAGTGCCA
*
15370811 CACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGA-ATGTAGCCGAAGCTACCACTAATATGTAGCCGTAGCTAC
* *
15370857 CACTGAATGTAGTCGAAGCTACCACTAATATGTAGTCGTAGCTAC
1 CACTGAATGTAGCCGAAGCTACCACTAATATGTAGCCGTAGCTAC
* *
15370902 CACTGAAATGTAGCCAAAGGTACCACTAAT
1 CACTG-AATGTAGCCGAAGCTACCACTAAT
15370932 CAATAACACT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 41 0.60
46 27 0.40
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (45 bp):
CACTGAATGTAGCCGAAGCTACCACTAATATGTAGCCGTAGCTAC
Found at i:15371183 original size:18 final size:17
Alignment explanation
Indices: 15371157--15371195 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
15371147 ATTTTCCTTC
15371157 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
15371174 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
15371192 CACA
1 CACA
15371196 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:15371811 original size:30 final size:29
Alignment explanation
Indices: 15371777--15371835 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
15371767 TCCTTGACTC
15371777 AAACTTTGGCAAAATTACAACTTTTCCCCT
1 AAACTTTGGCAAAATTAC-ACTTTTCCCCT
* * * *
15371807 AAACTTTTGCATACTTACACTTTTTCCCT
1 AAACTTTGGCAAAATTACACTTTTCCCCT
15371836 CTCGTAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.39
Consensus pattern (29 bp):
AAACTTTGGCAAAATTACACTTTTCCCCT
Found at i:15374053 original size:20 final size:19
Alignment explanation
Indices: 15374030--15374084 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
15374020 TCATGTTTTA
15374030 AATACTAAATTCTATCTACC
1 AATACTAAATTCTATCTA-C
*
15374050 AATAC-AACATT-TATTGTAC
1 AATACTAA-ATTCTA-TCTAC
15374069 AATACTAAATATCTAT
1 AATACTAAAT-TCTAT
15374085 GAAGATCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
19 12 0.41
20 15 0.52
21 2 0.07
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (19 bp):
AATACTAAATTCTATCTAC
Found at i:15376704 original size:45 final size:45
Alignment explanation
Indices: 15376635--15376721 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
15376625 TGTGAACCGA
* * *
15376635 ACATTATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCAG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCAG
15376680 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
15376722 TGAGTATCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCAG
Found at i:15381673 original size:43 final size:42
Alignment explanation
Indices: 15381597--15381747 Score: 146
Period size: 43 Copynumber: 3.6 Consensus size: 42
15381587 CAGTGATACA
* * ** * *
15381597 GGGAATCAGCACATAACAACCCCTTCCACAATCAAGGATACG
1 GGGAATCAGCACTTAGCAACCCCTTTTAGAATCAAGGATTCG
* * ** *
15381639 GTGGAATCAGCACGTAGCAACCACTTTTAGAATCAATAATTTG
1 G-GGAATCAGCACTTAGCAACCCCTTTTAGAATCAAGGATTCG
15381682 GGGAATCAGCACTTAGCAACCCCTCTTT-G-ATC-AGTGATTCG
1 GGGAATCAGCACTTAGCAACCCCT-TTTAGAATCAAG-GATTCG
*
15381723 GGGAATCTGCACTTAGCAACCCCTT
1 GGGAATCAGCACTTAGCAACCCCTT
15381748 ACATTCAATG
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
40 2 0.02
41 30 0.33
42 23 0.26
43 35 0.39
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (42 bp):
GGGAATCAGCACTTAGCAACCCCTTTTAGAATCAAGGATTCG
Found at i:15381699 original size:42 final size:41
Alignment explanation
Indices: 15381641--15381743 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
15381631 AGGATACGGT
* *
15381641 GGAATCAGCACGTAGCAACCACT-TTTAGAATCAATAATTTGG
1 GGAATCAGCACTTAGCAACCACTCTTT-G-ATCAATAATTCGG
* * *
15381683 GGAATCAGCACTTAGCAACCCCTCTTTGATCAGTGATTCGG
1 GGAATCAGCACTTAGCAACCACTCTTTGATCAATAATTCGG
*
15381724 GGAATCTGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
15381744 CCTTACATTC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
41 29 0.54
42 22 0.41
43 3 0.06
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCACTCTTTGATCAATAATTCGG
Found at i:15381818 original size:20 final size:18
Alignment explanation
Indices: 15381795--15381838 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
15381785 CGGGAACTTT
*
15381795 ATTTTTCAACATTTTACCAC
1 ATTTTTCAAC--TTAACCAC
*
15381815 ATTTCTCAACTTAACCAC
1 ATTTTTCAACTTAACCAC
15381833 ATTTTT
1 ATTTTT
15381839 ATAATCCACA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 12 0.57
20 9 0.43
ACGTcount: A:0.30, C:0.25, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTTTCAACTTAACCAC
Found at i:15384944 original size:101 final size:102
Alignment explanation
Indices: 15384828--15385012 Score: 277
Period size: 101 Copynumber: 1.8 Consensus size: 102
15384818 AAAGTGATGG
15384828 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTA-CCGAAATGAT-A-GGTCACATGTGTAG
1 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTATCCG--ATGATAATGGTCACATGTGTAG
*
15384890 TACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
64 CACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* * * * *
15384929 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCTGATGGTAATGGTCATATGTGTAGCA
1 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTATCCGATGATAATGGTCACATGTGTAGCA
15384994 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
15385013 TGATCCGAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 4 0.05
101 36 0.48
102 35 0.47
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTATCCGATGATAATGGTCACATGTGTAGCA
CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:15384958 original size:51 final size:50
Alignment explanation
Indices: 15384824--15385014 Score: 215
Period size: 51 Copynumber: 3.8 Consensus size: 50
15384814 AGTGAAAGTG
* * * * *
15384824 ATGGTCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCGA-AATG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGATAGTA
*
15384873 ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC-GATAGTA
* * * * *
15384924 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCTGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-CCGATAGTA
* *
15384976 ATGGTCATATGTGTAGCACTATGTGCAGGCTACTATGTG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
15385015 ATCCGAACAT
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
49 2 0.02
50 37 0.31
51 77 0.64
52 4 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGATAGTA
Found at i:15384963 original size:26 final size:26
Alignment explanation
Indices: 15384934--15385014 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
15384924 TTCGATCACG
15384934 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
*
15384960 TGTGTA-T-CTGATG-GTAATGG-T-CATA
1 TGTGTAGTACT-ATGTG-CA-GGCTAC-TA
*
15384985 TGTGTAGCACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
15385011 TGTG
1 TGTG
15385015 ATCCGAACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 18
0.67 0.05 0.28
Matches are distributed among these distances:
24 4 0.09
25 16 0.37
26 19 0.44
27 4 0.09
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.36
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:15398929 original size:20 final size:19
Alignment explanation
Indices: 15398906--15398967 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
15398896 AGCATATCTG
15398906 CATTACTGGTGGCTTGTCCA
1 CATTACTGGTGG-TTGTCCA
* * **
15398926 CATTGCTGGAAGGTTGTCTG
1 CATTACTGG-TGGTTGTCCA
*
15398946 CATTATTGGTGGTTTGTCCA
1 CATTACTGGTGG-TTGTCCA
15398966 CA
1 CA
15398968 AATTGGAGTG
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
19 2 0.06
20 27 0.87
21 2 0.06
ACGTcount: A:0.16, C:0.19, G:0.27, T:0.37
Consensus pattern (19 bp):
CATTACTGGTGGTTGTCCA
Found at i:15399069 original size:22 final size:23
Alignment explanation
Indices: 15399035--15399094 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
15399025 ATGGGTAGGA
15399035 TGTTTTATAAAAATTTACATGAT
1 TGTTTTATAAAAATTTACATGAT
* *
15399058 TTTTTTATAAAAATTTGCATGAT
1 TGTTTTATAAAAATTTACATGAT
15399081 TGTTTTATAAAAAT
1 TGTTTTATAAAAAT
15399095 CGCATTCTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.50
Consensus pattern (23 bp):
TGTTTTATAAAAATTTACATGAT
Found at i:15400836 original size:91 final size:91
Alignment explanation
Indices: 15400724--15400905 Score: 276
Period size: 91 Copynumber: 2.0 Consensus size: 91
15400714 GTTGGATTAA
* *
15400724 ATATTATATTACTTTAAATTTCATAAACTAACCTTCTCTTCGGTTTGTTGATCCAAAGCTAGTCG
1 ATATTATATAACTTTAAATTTCATAAACTAACCTCCTCTTCGGTTTGTTGATCCAAAGCTAGTCG
*
15400789 GATATC-CTTGAGCTCGGTCGGCATAC
66 GATATCAC-TGAGCTCGATCGGCATAC
* * * *
15400815 ATATTATATAACTTTAAATTTCATAATCTAACCTCCTCTTTGTTTTGTTGATCCAAAGCTAGTTG
1 ATATTATATAACTTTAAATTTCATAAACTAACCTCCTCTTCGGTTTGTTGATCCAAAGCTAGTCG
*
15400880 GATATCACTGAGCTCGATCGGTATAC
66 GATATCACTGAGCTCGATCGGCATAC
15400906 CTGTGTGTCT
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 81 0.99
92 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.38
Consensus pattern (91 bp):
ATATTATATAACTTTAAATTTCATAAACTAACCTCCTCTTCGGTTTGTTGATCCAAAGCTAGTCG
GATATCACTGAGCTCGATCGGCATAC
Found at i:15409838 original size:20 final size:19
Alignment explanation
Indices: 15409800--15409839 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
15409790 TTCATGTTAG
* *
15409800 TTAAGTTTGCATCATTAAA
1 TTAAGTTTGCATAAGTAAA
15409819 TTAAGTCTTGCATAAGTAAA
1 TTAAGT-TTGCATAAGTAAA
15409839 T
1 T
15409840 CATTTAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (19 bp):
TTAAGTTTGCATAAGTAAA
Found at i:15413800 original size:27 final size:27
Alignment explanation
Indices: 15413768--15414132 Score: 285
Period size: 27 Copynumber: 13.5 Consensus size: 27
15413758 CTGTAATGGG
**
15413768 ACCGAAATACCAACGAAGGGTAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
*
15413795 ATCGAAATACCCTCGAAGGGTAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
* *
15413822 ACCGAAA-ACTCTTGAAGGGTAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
* *
15413848 ACCAAAATACCCTTGAAGGGTAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
**
15413875 ACTAAAATACCC-CGAAAGGTAGTAAAATT
1 ACCGAAATACCCTCG-AAGG--GTAAAATT
* *
15413904 ATCGAAATACCCTCGAAGGATAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
* * * *
15413931 ACCAAAATATCCCT-GAATGGTGAAATG
1 ACCGAAATA-CCCTCGAAGGGTAAAATT
* *
15413958 ACCAAAATACCCCCGAAGGGTAAAATGT
1 ACCGAAATACCCTCGAAGGGTAAAAT-T
* * *
15413986 -CTGAAATACCCCCGAAGGGTAAAATG
1 ACCGAAATACCCTCGAAGGGTAAAATT
* * * *
15414012 ACTGAAATACCC-CTATAAGATAAAATT
1 ACCGAAATACCCTCGA-AGGGTAAAATT
* * * *
15414039 ACCAAAATATCCCT-AAATGGTAAAATG
1 ACCGAAATA-CCCTCGAAGGGTAAAATT
* * * *
15414066 ACCAAAACACCCCCGAAGGGTAAAATG
1 ACCGAAATACCCTCGAAGGGTAAAATT
* *
15414093 ACCGAAATACCC-CTATAGGGTAAAATG
1 ACCGAAATACCCTCGA-AGGGTAAAATT
**
15414120 ACCGTTATACCCT
1 ACCGAAATACCCT
15414133 TAGGAGATGA
Statistics
Matches: 277, Mismatches: 46, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
26 34 0.12
27 212 0.77
28 8 0.03
29 21 0.08
30 2 0.01
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
ACCGAAATACCCTCGAAGGGTAAAATT
Found at i:15414131 original size:108 final size:108
Alignment explanation
Indices: 15413767--15414123 Score: 348
Period size: 108 Copynumber: 3.3 Consensus size: 108
15413757 GCTGTAATGG
** * * * * * *
15413767 GACCGAAATACCAACGAAGGGTAAAATTATCGAAATACCCTCGA-AGGGTAAAATTACCGAAA-A
1 GACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCC-CTATAAGATAAAATTACCAAAATA
* * * * * **
15413830 -CTCTTGAAGGGTAAAATTACCAAAATACCCTTGAAGGGTAAAAT
65 TC-CCTAAATGGTAAAATGACCAAAACACCCCCGAAGGGTAAAAT
* ** * * * *
15413874 TACTAAAATA-CCCCGAAAGGTAGTAAAATTATCGAAATACCCTCGA-AGGATAAAATTACCAAA
1 GACCGAAATACCCCCG-AAGG--GTAAAATGACCGAAATACCC-CTATAAGATAAAATTACCAAA
* * *
15413937 ATATCCCTGAATGGTGAAATGACCAAAATACCCCCGAAGGGTAAAAT
62 ATATCCCTAAATGGTAAAATGACCAAAACACCCCCGAAGGGTAAAAT
* * *
15413984 GTCTGAAATACCCCCGAAGGGTAAAATGACTGAAATACCCCTATAAGATAAAATTACCAAAATAT
1 GACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCCTATAAGATAAAATTACCAAAATAT
15414049 CCCTAAATGGTAAAATGACCAAAACACCCCCGAAGGGTAAAAT
66 CCCTAAATGGTAAAATGACCAAAACACCCCCGAAGGGTAAAAT
*
15414092 GACCGAAATA-CCCCTATAGGGTAAAATGACCG
1 GACCGAAATACCCCCGA-AGGGTAAAATGACCG
15414124 TTATACCCTT
Statistics
Matches: 214, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
106 3 0.01
107 18 0.08
108 99 0.46
109 40 0.19
110 48 0.22
111 6 0.03
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (108 bp):
GACCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCCTATAAGATAAAATTACCAAAATAT
CCCTAAATGGTAAAATGACCAAAACACCCCCGAAGGGTAAAAT
Found at i:15414341 original size:26 final size:26
Alignment explanation
Indices: 15414286--15414388 Score: 100
Period size: 26 Copynumber: 4.0 Consensus size: 26
15414276 AGGGGAAGTA
* * **
15414286 TACTG-TACTGGTAGCTATGCCACAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
* *
15414311 ATACTGTTACTGGTAGCTTTGTTGCAT
1 -TACTGTTACTGGCAGCTTTGCTGCAT
*
15414338 TACTGTTACTCGCAGCTTTGCTGCAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
* * *
15414364 TATTATTACTAGCAGCTTTGCTGCA
1 TACTGTTACTGGCAGCTTTGCTGCA
15414389 AATTGGTGTG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
26 50 0.76
27 16 0.24
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCAT
Found at i:15414536 original size:28 final size:28
Alignment explanation
Indices: 15414505--15414576 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
15414495 TGATTACTGT
* *
15414505 CTAAGGCCCACATTGTTACTATATTGGG
1 CTAAGGCCCACACTGTTACTATAATGGG
* *
15414533 CTAAGGCCCATACTGTTACTGTAATGGG
1 CTAAGGCCCACACTGTTACTATAATGGG
15414561 CTAAGGCCCACACTGT
1 CTAAGGCCCACACTGT
15414577 ACTGGTACTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (28 bp):
CTAAGGCCCACACTGTTACTATAATGGG
Found at i:15419838 original size:35 final size:35
Alignment explanation
Indices: 15419799--15419867 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
15419789 CCTCATTTTA
*
15419799 CTTTCTTTTCTT-TTTCTTTT-TTCTTCTGGCCGAAC
1 CTTTCTTCTCTTCTTT-TTTTCTTCTT-TGGCCGAAC
15419834 CTTTCTTCTCTTCTTTTTTTCTTCTTTGGCCGAA
1 CTTTCTTCTCTTCTTTTTTTCTTCTTTGGCCGAA
15419868 TAATCTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 23 0.74
36 8 0.26
ACGTcount: A:0.06, C:0.26, G:0.09, T:0.59
Consensus pattern (35 bp):
CTTTCTTCTCTTCTTTTTTTCTTCTTTGGCCGAAC
Found at i:15420551 original size:27 final size:27
Alignment explanation
Indices: 15420519--15420737 Score: 228
Period size: 27 Copynumber: 8.1 Consensus size: 27
15420509 CCGTAATGGG
*
15420519 ACCGAAATACGCTCGAAGGGTAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
* *
15420546 ATCGAAATACCCTCAAAGGGTAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
* *
15420573 ACCGAAATACCCTCAAAAGGTAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
** *
15420600 ATTGAAATACCCTCGAAGGGTAAAATG
1 ACCGAAATACCCTCGAAGGGTAAAATT
* *
15420627 ATCGAAATACCCTCAAAGGGTAAAATT
1 ACCGAAATACCCTCGAAGGGTAAAATT
* * * **
15420654 ACCAAAATACCCCCGAATGGTAAAAGG
1 ACCGAAATACCCTCGAAGGGTAAAATT
*
15420681 ACCAAAATACCCT-GAAGGGTAAAATGT
1 ACCGAAATACCCTCGAAGGGTAAAAT-T
* * *
15420708 -CTGAAATACCC-CTATAGGGTAAAATG
1 ACCGAAATACCCTCGA-AGGGTAAAATT
15420734 ACCG
1 ACCG
15420738 TTATACCCCT
Statistics
Matches: 159, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 20 0.13
27 139 0.87
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (27 bp):
ACCGAAATACCCTCGAAGGGTAAAATT
Found at i:15420662 original size:81 final size:81
Alignment explanation
Indices: 15420517--15420732 Score: 285
Period size: 81 Copynumber: 2.7 Consensus size: 81
15420507 GGCCGTAATG
* * *
15420517 GGACCGAAATACGCTCGAAGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACCGAAATA
1 GGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCAAAGGGTAAAATTACCAAAATA
*
15420582 CCCTCAAAAGGTAAAA
66 CCCCCAAAAGGTAAAA
** **
15420598 TTATTGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCAAAGGGTAAAATTACCAAAATA
1 GGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCAAAGGGTAAAATTACCAAAATA
* *
15420663 CCCCCGAATGGTAAAA
66 CCCCCAAAAGGTAAAA
* *
15420679 GGACCAAAATACCCT-GAAGGGTAAAATG-TCTGAAATACCC-CTATAGGGTAAAAT
1 GGACCGAAATACCCTCGAAGGGTAAAATGATC-GAAATACCCTC-AAAGGGTAAAAT
15420733 GACCGTTATA
Statistics
Matches: 117, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
79 3 0.03
80 33 0.28
81 81 0.69
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.19
Consensus pattern (81 bp):
GGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCAAAGGGTAAAATTACCAAAATA
CCCCCAAAAGGTAAAA
Found at i:15421129 original size:28 final size:28
Alignment explanation
Indices: 15421081--15421168 Score: 122
Period size: 28 Copynumber: 3.1 Consensus size: 28
15421071 ACTGTGTTGT
*
15421081 ACTGATTACTGTATTGAGCTAAGGCCAAC
1 ACTG-TTACTGTATTGGGCTAAGGCCAAC
* *
15421110 ATTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCAAC
* *
15421138 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCAAC
15421166 ACT
1 ACT
15421169 ATACTGATAC
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 51 0.94
29 3 0.06
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCAAC
Found at i:15421189 original size:33 final size:30
Alignment explanation
Indices: 15421081--15421197 Score: 84
Period size: 28 Copynumber: 3.9 Consensus size: 30
15421071 ACTGTGTTGT
* *
15421081 ACTGATTACTGTATTGAGCTAAGG-CCA-AC
1 ACTGA-TACTGTATAGGGCTAAGGCCCACAC
* * *
15421110 ATTGTTACTGTATTGGGCTAAGG-CC-CAC
1 ACTGATACTGTATAGGGCTAAGGCCCACAC
*
15421138 ACTGTTACTGTA-ATGGGCTAAGGCCCACAC
1 ACTGATACTGTATA-GGGCTAAGGCCCACAC
15421168 TATACTGATACTGTATAGGGCTCAA-GCCCA
1 ---ACTGATACTGTATAGGGCT-AAGGCCCA
15421198 GACTGATTCT
Statistics
Matches: 73, Mismatches: 6, Indels: 14
0.78 0.06 0.15
Matches are distributed among these distances:
28 41 0.56
29 5 0.07
30 3 0.04
33 21 0.29
34 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (30 bp):
ACTGATACTGTATAGGGCTAAGGCCCACAC
Found at i:15431955 original size:17 final size:17
Alignment explanation
Indices: 15431933--15431966 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15431923 AGTGATAATC
*
15431933 CATCCAAGTGATTATTT
1 CATCCAAGTAATTATTT
15431950 CATCCAAGTAATTATTT
1 CATCCAAGTAATTATTT
15431967 AAACCAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (17 bp):
CATCCAAGTAATTATTT
Found at i:15434605 original size:83 final size:81
Alignment explanation
Indices: 15434466--15434632 Score: 244
Period size: 83 Copynumber: 2.0 Consensus size: 81
15434456 CTTTCATAGC
* * * *
15434466 CCATTAATAAGATAAGTTATATCAATCGTTTGAAAGGTTATCTTGAGAACTCTCATTGTTCTCTT
1 CCATTAATAAGATAAGTTATATCAACCCTTTGAAAGGTTATCTTGAGAACTCTCATTATCCTCTT
*
15434531 ATTTATTCCTATAGTATT
66 ATTTATTACTA-AGT-TT
* * *
15434549 CCATTAGTAAGATAAGTTATATCTACCCTTTGAAGGGTTATCTTGAGAACTCTCATTATCCTCTT
1 CCATTAATAAGATAAGTTATATCAACCCTTTGAAAGGTTATCTTGAGAACTCTCATTATCCTCTT
15434614 ATTTATTACTAAGTTT
66 ATTTATTACTAAGTTT
15434630 CCA
1 CCA
15434633 CTTCTAGTGG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
81 5 0.07
82 3 0.04
83 68 0.89
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (81 bp):
CCATTAATAAGATAAGTTATATCAACCCTTTGAAAGGTTATCTTGAGAACTCTCATTATCCTCTT
ATTTATTACTAAGTTT
Found at i:15438095 original size:36 final size:36
Alignment explanation
Indices: 15438055--15438180 Score: 116
Period size: 36 Copynumber: 3.6 Consensus size: 36
15438045 CTATTGTTGG
15438055 TTTATCC-AGCTAGCGCTGGGTGCAAAACATTGTCAA
1 TTTATCCGA-CTAGCGCTGGGTGCAAAACATTGTCAA
* * * * * *
15438091 TTTATCTGACTA-TGCAGGGT--AGACCTATTGTCGA
1 TTTATCCGACTAGCGCTGGGTGCAAAAC-ATTGTCAA
*
15438125 TTTATCCGACTAGCGCTGGGTGCAAAACATTGTCAG
1 TTTATCCGACTAGCGCTGGGTGCAAAACATTGTCAA
* * *
15438161 TTTACCCGACCAGTGCTGGG
1 TTTATCCGACTAGCGCTGGG
15438181 CACATCTATT
Statistics
Matches: 69, Mismatches: 16, Indels: 10
0.73 0.17 0.11
Matches are distributed among these distances:
33 3 0.04
34 18 0.26
35 12 0.17
36 32 0.46
37 4 0.06
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (36 bp):
TTTATCCGACTAGCGCTGGGTGCAAAACATTGTCAA
Found at i:15438129 original size:70 final size:71
Alignment explanation
Indices: 15438028--15438228 Score: 235
Period size: 70 Copynumber: 2.8 Consensus size: 71
15438018 GGTTTATCCA
* *
15438028 ACTAGTGCAGGGCACACCTATTGTTGGTTTATCC-AGCTAGCGCTGGGTGCAAAACATTGTCAAT
1 ACTAGTGCAGGGCACACCTATTGTCGATTTATCCGA-CTAGCGCTGGGTGCAAAACATTGTCAAT
15438092 TTATCTG
65 TTATCTG
* * *
15438099 ACTA-TGCAGGGTAGACCTATTGTCGATTTATCCGACTAGCGCTGGGTGCAAAACATTGTCAGTT
1 ACTAGTGCAGGGCACACCTATTGTCGATTTATCCGACTAGCGCTGGGTGCAAAACATTGTCAATT
* *
15438163 TACCCG
66 TATCTG
* * * * * * * **
15438169 ACCAGTGCTGGGCACATCTATTGTCGCTTAATCTGACTAACGCTGGGCACAAAACATTGT
1 ACTAGTGCAGGGCACACCTATTGTCGATTTATCCGACTAGCGCTGGGTGCAAAACATTGT
15438229 TACAGTTTAT
Statistics
Matches: 110, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
70 60 0.55
71 50 0.45
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (71 bp):
ACTAGTGCAGGGCACACCTATTGTCGATTTATCCGACTAGCGCTGGGTGCAAAACATTGTCAATT
TATCTG
Found at i:15443256 original size:18 final size:19
Alignment explanation
Indices: 15443233--15443279 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
15443223 AAATGATATT
15443233 GATACTAGAT-AAAGTATC
1 GATACTAGATCAAAGTATC
* *
15443251 GATACTTGAATCAAATTATC
1 GATACTAG-ATCAAAGTATC
*
15443271 GGTACTAGA
1 GATACTAGA
15443280 CCTCAAGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 7 0.30
19 3 0.13
20 13 0.57
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (19 bp):
GATACTAGATCAAAGTATC
Found at i:15443604 original size:17 final size:17
Alignment explanation
Indices: 15443565--15443658 Score: 64
Period size: 17 Copynumber: 5.5 Consensus size: 17
15443555 ACGAACTATT
15443565 TTTATATGCAAGCTGTG
1 TTTATATGCAAGCTGTG
* *
15443582 TATATATGCTAA-CTTTG
1 TTTATATGC-AAGCTGTG
* * *
15443599 TTTATATGCGAGATATG
1 TTTATATGCAAGCTGTG
* * **
15443616 ATTATATGCTAGCTGCA
1 TTTATATGCAAGCTGTG
* * *
15443633 TTTATAAGCAAGTTGGG
1 TTTATATGCAAGCTGTG
15443650 TTTATATGC
1 TTTATATGC
15443659 TTATTGAGTC
Statistics
Matches: 56, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
16 1 0.02
17 53 0.95
18 2 0.04
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (17 bp):
TTTATATGCAAGCTGTG
Found at i:15447335 original size:5 final size:5
Alignment explanation
Indices: 15447327--15447363 Score: 56
Period size: 5 Copynumber: 7.0 Consensus size: 5
15447317 ATCTAAAAGT
15447327 GAAAA GAAAA GAAAAA GAAAA GAAAAA GAAAA GAAAA
1 GAAAA GAAAA G-AAAA GAAAA G-AAAA GAAAA GAAAA
15447364 CCTAATCCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 20 0.67
6 10 0.33
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:15447344 original size:11 final size:11
Alignment explanation
Indices: 15447328--15447363 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
15447318 TCTAAAAGTG
15447328 AAAAGAAAAGA
1 AAAAGAAAAGA
15447339 AAAAGAAAAGA
1 AAAAGAAAAGA
15447350 AAAAGAAAAGA
1 AAAAGAAAAGA
15447361 AAA
1 AAA
15447364 CCTAATCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:15447348 original size:16 final size:16
Alignment explanation
Indices: 15447327--15447363 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
15447317 ATCTAAAAGT
15447327 GAAAAGAAAAGAAAAA
1 GAAAAGAAAAGAAAAA
15447343 GAAAAGAAAA-AGAAAA
1 GAAAAGAAAAGA-AAAA
15447359 GAAAA
1 GAAAA
15447364 CCTAATCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
GAAAAGAAAAGAAAAA
Found at i:15451491 original size:51 final size:50
Alignment explanation
Indices: 15451362--15451542 Score: 159
Period size: 51 Copynumber: 3.6 Consensus size: 50
15451352 AAAGTGATGG
* * *
15451362 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGATAGA
* * * * * *
15451412 TCGCATGTGTAGTACTATATGCAGGCTACTATGCGTACCGG-ATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAAT-G-ATAGA
* * * * *
15451463 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGG-ATGGTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGAT-A-GA
* * *
15451514 TCACATATGTAGTACTATGTGCAGACTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTAC
15451543 ATGTGAACCG
Statistics
Matches: 104, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
49 3 0.03
50 37 0.36
51 64 0.62
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGATAGA
Found at i:15451610 original size:45 final size:45
Alignment explanation
Indices: 15451549--15451643 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
15451539 CTACATGTGA
* * * *
15451549 ACCGAACATTATTGATTAGTAAGGTCTTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTCGTTGCTATGTGCTGAATCC
* *
15451594 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTCGTTGCTATGTGCTGAATCC
15451639 ACCGA
1 ACCGA
15451644 GTATCTATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTCGTTGCTATGTGCTGAATCC
Found at i:15470842 original size:131 final size:131
Alignment explanation
Indices: 15470608--15470870 Score: 499
Period size: 131 Copynumber: 2.0 Consensus size: 131
15470598 AAGAAAAAAA
*
15470608 TTCCTCAAGTCGTTGAGCTTCCCTTCTCTCAATTAGATGAAAGTTTGGGCTTCTACTCCAACTGC
1 TTCCTCAAGTCGTTGAGCTTCCCTTCTCTCAATTAGATGAAAGTTTGGGCTGCTACTCCAACTGC
*
15470673 TTGATCGGCTTTTGCTGGTCCAATTTGAGATTCTGCTTGCTCGAGTTCTACGCCCTCCTGCTCTG
66 TTGATCGGCTTTTGCTGGTCCAATCTGAGATTCTGCTTGCTCGAGTTCTACGCCCTCCTGCTCTG
15470738 T
131 T
*
15470739 TTCCTCAAGTCGTTGAGCTTCCCTTCTCTCAATTAGCTGAAAGTTTGGGCTGCTACTCCAACTGC
1 TTCCTCAAGTCGTTGAGCTTCCCTTCTCTCAATTAGATGAAAGTTTGGGCTGCTACTCCAACTGC
15470804 TTGATCGGCTTTTGCTGGTCCAATCTGAGATTCTGCTTGCTCGAGTTCTACGCCCTCCTGCTCTG
66 TTGATCGGCTTTTGCTGGTCCAATCTGAGATTCTGCTTGCTCGAGTTCTACGCCCTCCTGCTCTG
15470869 T
131 T
15470870 T
1 T
15470871 CTCTCTTTTT
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 129 1.00
ACGTcount: A:0.15, C:0.28, G:0.20, T:0.37
Consensus pattern (131 bp):
TTCCTCAAGTCGTTGAGCTTCCCTTCTCTCAATTAGATGAAAGTTTGGGCTGCTACTCCAACTGC
TTGATCGGCTTTTGCTGGTCCAATCTGAGATTCTGCTTGCTCGAGTTCTACGCCCTCCTGCTCTG
T
Found at i:15473103 original size:373 final size:373
Alignment explanation
Indices: 15472418--15473163 Score: 1492
Period size: 373 Copynumber: 2.0 Consensus size: 373
15472408 CTTCGACAAT
15472418 CACCTATCTTTTTATACCTTGTGAGTACTTAGTATTCTGCTAAAGATTCATGTTGGGGATCCCAG
1 CACCTATCTTTTTATACCTTGTGAGTACTTAGTATTCTGCTAAAGATTCATGTTGGGGATCCCAG
15472483 TTTTTCATTATCATATTTTATTTTATTATTTTCAAGTTATTGCATCGACAACTATTCTCACAATT
66 TTTTTCATTATCATATTTTATTTTATTATTTTCAAGTTATTGCATCGACAACTATTCTCACAATT
15472548 TATCTCGTTTCCATATTGTTGTTGCATTGACATTAATAGACAAAAGACTACCATCCTTGTGGGAT
131 TATCTCGTTTCCATATTGTTGTTGCATTGACATTAATAGACAAAAGACTACCATCCTTGTGGGAT
15472613 CGATATTCGATAGACTCATATTTGTCTACTATACTTGCATCGATAGTATATGCTTGCACATAATT
196 CGATATTCGATAGACTCATATTTGTCTACTATACTTGCATCGATAGTATATGCTTGCACATAATT
15472678 GCAGTGACATCAATCGACTGATCAGCCATTCACTCGTACTAATAATCGTTTAACATTTGGCCATC
261 GCAGTGACATCAATCGACTGATCAGCCATTCACTCGTACTAATAATCGTTTAACATTTGGCCATC
15472743 ATTCTAACTTAAGTAGACCTCCGTGGGGAGTTACTTAACTAGAAGATC
326 ATTCTAACTTAAGTAGACCTCCGTGGGGAGTTACTTAACTAGAAGATC
15472791 CACCTATCTTTTTATACCTTGTGAGTACTTAGTATTCTGCTAAAGATTCATGTTGGGGATCCCAG
1 CACCTATCTTTTTATACCTTGTGAGTACTTAGTATTCTGCTAAAGATTCATGTTGGGGATCCCAG
15472856 TTTTTCATTATCATATTTTATTTTATTATTTTCAAGTTATTGCATCGACAACTATTCTCACAATT
66 TTTTTCATTATCATATTTTATTTTATTATTTTCAAGTTATTGCATCGACAACTATTCTCACAATT
15472921 TATCTCGTTTCCATATTGTTGTTGCATTGACATTAATAGACAAAAGACTACCATCCTTGTGGGAT
131 TATCTCGTTTCCATATTGTTGTTGCATTGACATTAATAGACAAAAGACTACCATCCTTGTGGGAT
15472986 CGATATTCGATAGACTCATATTTGTCTACTATACTTGCATCGATAGTATATGCTTGCACATAATT
196 CGATATTCGATAGACTCATATTTGTCTACTATACTTGCATCGATAGTATATGCTTGCACATAATT
15473051 GCAGTGACATCAATCGACTGATCAGCCATTCACTCGTACTAATAATCGTTTAACATTTGGCCATC
261 GCAGTGACATCAATCGACTGATCAGCCATTCACTCGTACTAATAATCGTTTAACATTTGGCCATC
15473116 ATTCTAACTTAAGTAGACCTCCGTGGGGAGTTACTTAACTAGAAGATC
326 ATTCTAACTTAAGTAGACCTCCGTGGGGAGTTACTTAACTAGAAGATC
15473164 TCGAGTGTAT
Statistics
Matches: 373, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
373 373 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (373 bp):
CACCTATCTTTTTATACCTTGTGAGTACTTAGTATTCTGCTAAAGATTCATGTTGGGGATCCCAG
TTTTTCATTATCATATTTTATTTTATTATTTTCAAGTTATTGCATCGACAACTATTCTCACAATT
TATCTCGTTTCCATATTGTTGTTGCATTGACATTAATAGACAAAAGACTACCATCCTTGTGGGAT
CGATATTCGATAGACTCATATTTGTCTACTATACTTGCATCGATAGTATATGCTTGCACATAATT
GCAGTGACATCAATCGACTGATCAGCCATTCACTCGTACTAATAATCGTTTAACATTTGGCCATC
ATTCTAACTTAAGTAGACCTCCGTGGGGAGTTACTTAACTAGAAGATC
Found at i:15473527 original size:15 final size:14
Alignment explanation
Indices: 15473503--15473535 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
15473493 AACATGCAAT
15473503 GTTTTTAATTTTTG
1 GTTTTTAATTTTTG
15473517 GTTTTTGAATTTTTG
1 GTTTTT-AATTTTTG
15473532 GTTT
1 GTTT
15473536 CAATCATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.12, C:0.00, G:0.18, T:0.70
Consensus pattern (14 bp):
GTTTTTAATTTTTG
Found at i:15479369 original size:9 final size:9
Alignment explanation
Indices: 15479355--15479380 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
15479345 ATTCATTACT
15479355 TTTTAGTTA
1 TTTTAGTTA
15479364 TTTTAGTTA
1 TTTTAGTTA
15479373 TTTTAGTT
1 TTTTAGTT
15479381 TGTGTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (9 bp):
TTTTAGTTA
Done.