Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 17 of 135
Found at i:7026127 original size:16 final size:16
Alignment explanation
Indices: 7026106--7026160 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
7026096 GTTTGGTTTA
*
7026106 CTGTAATGGAATAAGG
1 CTGTAATAGAATAAGG
* *
7026122 CTGTAATTGAATAAAG
1 CTGTAATAGAATAAGG
*
7026138 TTGTAATAGAAT-AGAG
1 CTGTAATAGAATAAG-G
7026154 CTGTAAT
1 CTGTAAT
7026161 CAGTAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 1 0.03
16 31 0.97
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (16 bp):
CTGTAATAGAATAAGG
Found at i:7036406 original size:3 final size:3
Alignment explanation
Indices: 7036400--7036433 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
7036390 TGATGATGGC
* *
7036400 GGT GGT GAT GAT GGT GGT GGT GGT GGT GGT GGT G
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT G
7036434 ATGCTCTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.06, C:0.00, G:0.62, T:0.32
Consensus pattern (3 bp):
GGT
Found at i:7036407 original size:15 final size:15
Alignment explanation
Indices: 7036387--7036421 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
7036377 TTCCTCTCCA
7036387 TGGTGATGATGGCGG
1 TGGTGATGATGGCGG
*
7036402 TGGTGATGATGGTGG
1 TGGTGATGATGGCGG
7036417 TGGTG
1 TGGTG
7036422 GTGGTGGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.11, C:0.03, G:0.54, T:0.31
Consensus pattern (15 bp):
TGGTGATGATGGCGG
Found at i:7036408 original size:12 final size:12
Alignment explanation
Indices: 7036400--7036436 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
7036390 TGATGATGGC
*
7036400 GGTGGTGATGAT
1 GGTGGTGGTGAT
*
7036412 GGTGGTGGTGGT
1 GGTGGTGGTGAT
7036424 GGTGGTGGTGAT
1 GGTGGTGGTGAT
7036436 G
1 G
7036437 CTCTTCCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.08, C:0.00, G:0.59, T:0.32
Consensus pattern (12 bp):
GGTGGTGGTGAT
Found at i:7036485 original size:27 final size:27
Alignment explanation
Indices: 7036453--7036588 Score: 245
Period size: 27 Copynumber: 5.0 Consensus size: 27
7036443 CTCATGATCC
*
7036453 TCTTCATCATGGTGTTCGTGGTCATGG
1 TCTTCATCATGGTGCTCGTGGTCATGG
7036480 TCTTCATCATGGTGCTCGTGGTCATGG
1 TCTTCATCATGGTGCTCGTGGTCATGG
*
7036507 TCTTCATCATGGTGCTCCTGGTCATGG
1 TCTTCATCATGGTGCTCGTGGTCATGG
7036534 TCTTCATCATGGTGCTCGTGGTCATGG
1 TCTTCATCATGGTGCTCGTGGTCATGG
*
7036561 TCTTCATCATGGTGTTCGTGGTCATGG
1 TCTTCATCATGGTGCTCGTGGTCATGG
7036588 T
1 T
7036589 GGTCTGGCTT
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.11, C:0.21, G:0.29, T:0.39
Consensus pattern (27 bp):
TCTTCATCATGGTGCTCGTGGTCATGG
Found at i:7036491 original size:12 final size:12
Alignment explanation
Indices: 7036474--7036573 Score: 65
Period size: 12 Copynumber: 7.6 Consensus size: 12
7036464 GTGTTCGTGG
7036474 TCATGGTCTTCA
1 TCATGGTCTTCA
**
7036486 TCATGGTGCTCGTGG
1 TCATGGT-CT--TCA
7036501 TCATGGTCTTCA
1 TCATGGTCTTCA
**
7036513 TCATGGTGCTCCTGG
1 TCATGGT-CT--TCA
7036528 TCATGGTCTTCA
1 TCATGGTCTTCA
**
7036540 TCATGGTGCTCGTGG
1 TCATGGT-CT--TCA
7036555 TCATGGTCTTCA
1 TCATGGTCTTCA
7036567 TCATGGT
1 TCATGGT
7036574 GTTCGTGGTC
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
12 31 0.46
13 6 0.09
14 6 0.09
15 24 0.36
ACGTcount: A:0.12, C:0.23, G:0.27, T:0.38
Consensus pattern (12 bp):
TCATGGTCTTCA
Found at i:7039725 original size:48 final size:48
Alignment explanation
Indices: 7039657--7039828 Score: 227
Period size: 48 Copynumber: 3.6 Consensus size: 48
7039647 AACAGATTTC
* * * * * ** * *
7039657 TCGGTGGCCTACACACAGTCCGTACCACCTTTGTGTAATAACAGACTC
1 TCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGAATA
7039705 TCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGAATA
1 TCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGAATA
*
7039753 TTGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGAATA
1 TCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGAATA
* * *
7039801 TTGGTGGCCTGCACACAGTACGTGCCAC
1 TCGGTGGCCTGCACATAGTCCGTGCCAC
7039829 ATATGCGACC
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 112 1.00
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (48 bp):
TCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGAATA
Found at i:7045025 original size:21 final size:21
Alignment explanation
Indices: 7045001--7045041 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7044991 TTTCATTCAC
7045001 CGTCATCATCACCATCATCAT
1 CGTCATCATCACCATCATCAT
* * *
7045022 CGTCGTCGTCATCATCATCA
1 CGTCATCATCACCATCATCA
7045042 CTTTCTCGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.37, G:0.10, T:0.29
Consensus pattern (21 bp):
CGTCATCATCACCATCATCAT
Found at i:7053881 original size:18 final size:18
Alignment explanation
Indices: 7053858--7053893 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7053848 ATCTCTCTTT
7053858 ATTTTATAACAACATAGA
1 ATTTTATAACAACATAGA
7053876 ATTTTATAACAACATAGA
1 ATTTTATAACAACATAGA
7053894 CTTAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (18 bp):
ATTTTATAACAACATAGA
Found at i:7054039 original size:22 final size:23
Alignment explanation
Indices: 7053991--7054042 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
7053981 TGATTTAAAC
* *
7053991 AAATACTCATATTTATATAATTA
1 AAATATTCATAATTATATAATTA
7054014 AAATATTCATAATT-TATAA-TA
1 AAATATTCATAATTATATAATTA
7054035 TAAATATT
1 -AAATATT
7054043 TATTAGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 2 0.08
22 12 0.46
23 12 0.46
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATATTCATAATTATATAATTA
Found at i:7054731 original size:22 final size:22
Alignment explanation
Indices: 7054680--7054733 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
7054670 AAAATGTTAT
*
7054680 TATTATATATAAAAATTTAATA
1 TATTAAATATAAAAATTTAATA
* *
7054702 AATAAAATATAAAAATATTAA-A
1 TATTAAATATAAAAAT-TTAATA
7054724 TATTAAATAT
1 TATTAAATAT
7054734 TAAATTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TATTAAATATAAAAATTTAATA
Found at i:7058813 original size:18 final size:19
Alignment explanation
Indices: 7058792--7058831 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
7058782 TGATAGATGT
7058792 AAAAA-TGAAAGAAGAAAA
1 AAAAACTGAAAGAAGAAAA
7058810 AAAAACTGTGAAAGAAGAAAA
1 AAAAAC--TGAAAGAAGAAAA
7058831 A
1 A
7058832 GGAAACTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
21 14 0.74
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.07
Consensus pattern (19 bp):
AAAAACTGAAAGAAGAAAA
Found at i:7059751 original size:131 final size:132
Alignment explanation
Indices: 7059613--7059876 Score: 435
Period size: 131 Copynumber: 2.0 Consensus size: 132
7059603 TGTAATTTTC
7059613 AACCTACTCCACTGCTGCTCAGGGAGACAAGG-CTCGGTGGCTTAAATCTGCTT-CCTACTATCC
1 AACCTACTCCACTGCTGCTCAGGGAGACAAGGCCT-GGTGGCTTAAATCTGCTTGCC-ACTATCC
7059676 TGGAAAGAAAAGATTTGCCGTATTTGATCTGCTCCACTACTGCTT-GGGAGATAAGATCTGCTAT
64 TGGAAAGAAAAGATTTGCCGTATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTAT
7059740 CTTT
129 CTTT
* *
7059744 AACCTACTCCGCTGCTGCTCAGGGAGACAAGGCCTGGTGGCTTAAATCTGCTTGCCACTATCTTG
1 AACCTACTCCACTGCTGCTCAGGGAGACAAGGCCTGGTGGCTTAAATCTGCTTGCCACTATCCTG
* * * *
7059809 GAAAGACAAGATTTGCTGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCT
66 GAAAGAAAAGATTTGCCGTATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCT
7059874 TT
131 TT
7059876 A
1 A
7059877 CTGATCATTT
Statistics
Matches: 124, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
131 97 0.78
132 27 0.22
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (132 bp):
AACCTACTCCACTGCTGCTCAGGGAGACAAGGCCTGGTGGCTTAAATCTGCTTGCCACTATCCTG
GAAAGAAAAGATTTGCCGTATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCT
TT
Found at i:7059864 original size:44 final size:43
Alignment explanation
Indices: 7059702--7059876 Score: 129
Period size: 44 Copynumber: 4.0 Consensus size: 43
7059692 GCCGTATTTG
* *
7059702 ATCTGCTCCACTACTGCTTGGGAGATAAGATCTGCTATCTTTA
1 ATCTGCTCCACTACTGCTTGGGAGACAAGATCTGCTGTCTTTA
* * * * * ** * * *
7059745 ACCTACTCCGCTGCTGCTCAGGGAGACAAGGCCTGGTGGCTTAA
1 ATCTGCTCCACTACTGCT-TGGGAGACAAGATCTGCTGTCTTTA
* * *
7059789 ATCTGCTTGCCACTA-T-CTTGGAAAGACAAGATTTGCTGTCTTTG
1 ATCTGC-T-CCACTACTGCTTGG-GAGACAAGATCTGCTGTCTTTA
* * *
7059833 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTA
1 ATCTGCTCCACTACTGCTT-GGGAGACAAGATCTGCTGTCTTTA
7059877 CTGATCATTT
Statistics
Matches: 94, Mismatches: 31, Indels: 13
0.68 0.22 0.09
Matches are distributed among these distances:
42 6 0.06
43 18 0.19
44 62 0.66
45 4 0.04
46 4 0.04
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (43 bp):
ATCTGCTCCACTACTGCTTGGGAGACAAGATCTGCTGTCTTTA
Found at i:7073186 original size:22 final size:21
Alignment explanation
Indices: 7073146--7073192 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
7073136 ATGTAAAAAT
7073146 GAAAGAAGAAAAAAAAAACTGC
1 GAAAGAAGAAAAAAAAAACT-C
**
7073168 GAAAGAAGAAAAAGGAAACTC
1 GAAAGAAGAAAAAAAAAACTC
7073189 GAAA
1 GAAA
7073193 TCACCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.66, C:0.09, G:0.21, T:0.04
Consensus pattern (21 bp):
GAAAGAAGAAAAAAAAAACTC
Found at i:7077807 original size:8 final size:8
Alignment explanation
Indices: 7077794--7077826 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
7077784 ATTTAATATG
7077794 ATTAAATA
1 ATTAAATA
7077802 ATTAAATA
1 ATTAAATA
7077810 ATTAAATA
1 ATTAAATA
7077818 ATATAAATA
1 AT-TAAATA
7077827 GTACAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.75
9 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTAAATA
Found at i:7082781 original size:20 final size:20
Alignment explanation
Indices: 7082756--7082800 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7082746 GTAACTTATT
* * *
7082756 TATATTTATATGTGTATTTA
1 TATATTTACATATATATTTA
7082776 TATATTTACATATATATTTA
1 TATATTTACATATATATTTA
7082796 TATAT
1 TATAT
7082801 ATATTTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
TATATTTACATATATATTTA
Found at i:7082789 original size:12 final size:12
Alignment explanation
Indices: 7082774--7082826 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
7082764 TATGTGTATT
7082774 TATATATTTACA
1 TATATATTTACA
*
7082786 TATATATTTATA
1 TATATATTTACA
7082798 TATATATTTTA-A
1 TATATA-TTTACA
* *
7082810 TACATATCTACA
1 TATATATTTACA
7082822 TATAT
1 TATAT
7082827 CTAAATACCC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
11 3 0.09
12 28 0.80
13 4 0.11
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.51
Consensus pattern (12 bp):
TATATATTTACA
Found at i:7083397 original size:12 final size:12
Alignment explanation
Indices: 7083380--7083404 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7083370 AATTATACAC
7083380 TAACGTATTGGG
1 TAACGTATTGGG
7083392 TAACGTATTGGG
1 TAACGTATTGGG
7083404 T
1 T
7083405 TGCAATTCTT
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:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (12 bp):
TAACGTATTGGG
Found at i:7087896 original size:31 final size:30
Alignment explanation
Indices: 7087861--7087920 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
7087851 AATTAGTAAC
*
7087861 AATAA-AATTATAGTTTAATTTTCTTAAAAAT
1 AATAATAATT-TAATTTAATTTT-TTAAAAAT
7087892 AATAATAATTTAATTTAATTTTTTAAAAA
1 AATAATAATTTAATTTAATTTTTTAAAAA
7087921 CTATAAAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 7 0.26
31 16 0.59
32 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (30 bp):
AATAATAATTTAATTTAATTTTTTAAAAAT
Found at i:7088600 original size:3 final size:3
Alignment explanation
Indices: 7088592--7088619 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7088582 CGATATATAT
7088592 ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC A
7088620 AGGCATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:7088816 original size:153 final size:154
Alignment explanation
Indices: 7088586--7088900 Score: 544
Period size: 153 Copynumber: 2.1 Consensus size: 154
7088576 TACTCGCGAT
*
7088586 ATATATATCATCATCATCATCATCATCATCATCAAGGCATGTTTTGTTCACTCTCCTCCAAACCT
1 ATATATATCATCATCATCATCATCATCATCATCAAGGCATGTTTTGTTCAATCTCCTCCAAACCT
*
7088651 TCCAGCAGTACTGCTGGGGGGTAGTGTGTAGCATATTGCCGGAAGCGTTTGAGGGAGACTGAGCA
66 TCCAGCAGTACTGCTGGGGAGTAGTGTGTAGCATATTGCCGGAAGCGTTTGAGGGAGACTGAGCA
*
7088716 ACCAATTCCTTGTAAGCTTTAAAAA
131 ACCAATTCCTTCTAAGCTTT-AAAA
7088741 ATATATAT-AT-ATCATCATCATCATCATCATCAAGGCATGTTTTGTTCAATCTCCTCCAAACCT
1 ATATATATCATCATCATCATCATCATCATCATCAAGGCATGTTTTGTTCAATCTCCTCCAAACCT
* *
7088804 TCCAGCAGTACTGCTGGGGAGTAGTGTGTAGCATATTGCTGGAAGCGTTTGAGGGAGATTGAGCA
66 TCCAGCAGTACTGCTGGGGAGTAGTGTGTAGCATATTGCCGGAAGCGTTTGAGGGAGACTGAGCA
* *
7088869 ACCGATTCCTTCTAAGCTTTAATA
131 ACCAATTCCTTCTAAGCTTTAAAA
7088893 ATATATAT
1 ATATATAT
7088901 TCTTCTCTTG
Statistics
Matches: 153, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
152 11 0.07
153 132 0.86
154 2 0.01
155 8 0.05
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (154 bp):
ATATATATCATCATCATCATCATCATCATCATCAAGGCATGTTTTGTTCAATCTCCTCCAAACCT
TCCAGCAGTACTGCTGGGGAGTAGTGTGTAGCATATTGCCGGAAGCGTTTGAGGGAGACTGAGCA
ACCAATTCCTTCTAAGCTTTAAAA
Found at i:7090298 original size:8 final size:8
Alignment explanation
Indices: 7090266--7090306 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
7090256 TTAAATGAAA
7090266 AATATAAAT
1 AATA-AAAT
7090275 -ATAAATAT
1 AATAAA-AT
7090283 AA-AAAAT
1 AATAAAAT
7090290 AATAAAAT
1 AATAAAAT
7090298 AATAAAAT
1 AATAAAAT
7090306 A
1 A
7090307 TGATTTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 6 0.21
8 22 0.76
9 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AATAAAAT
Found at i:7090356 original size:21 final size:20
Alignment explanation
Indices: 7090328--7090368 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
7090318 TTAATGTGGT
7090328 AATATAATAAAAAATAAAAA
1 AATATAATAAAAAATAAAAA
*
7090348 AATACTAATAGAAAATAAAAA
1 AATA-TAATAAAAAATAAAAA
7090369 TATAATCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (20 bp):
AATATAATAAAAAATAAAAA
Found at i:7090374 original size:18 final size:19
Alignment explanation
Indices: 7090328--7090374 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
7090318 TTAATGTGGT
7090328 AATATAATAAAAAATAAAAA
1 AATATAATAAAAAAT-AAAA
*
7090348 AATACTAATAGAAAAT-AAA
1 AATA-TAATAAAAAATAAAA
7090367 AATATAAT
1 AATATAAT
7090375 CTTTCTCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 4 0.16
19 7 0.28
20 4 0.16
21 10 0.40
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (19 bp):
AATATAATAAAAAATAAAA
Found at i:7094121 original size:23 final size:23
Alignment explanation
Indices: 7094091--7094136 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7094081 GCTGAGCGCA
*
7094091 AACACCGACATATTATCGACATG
1 AACACCGACATATTATCAACATG
* *
7094114 AACACCGATATATTGTCAACATG
1 AACACCGACATATTATCAACATG
7094137 GGTCTTACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (23 bp):
AACACCGACATATTATCAACATG
Found at i:7094788 original size:48 final size:48
Alignment explanation
Indices: 7094722--7094819 Score: 153
Period size: 48 Copynumber: 2.0 Consensus size: 48
7094712 TATACCCATT
* *
7094722 AACACTCTAGCATTTCCTACTGTTCAGTCATCTCTTTTACCCCCAACA
1 AACACTCTAGCATTTCCTACTATTCAGTCATCTCCTTTACCCCCAACA
*
7094770 AACACTCTAGC-TTCTCCTACTATTCAGTCCTCTCCTTTACCCCCAACA
1 AACACTCTAGCATT-TCCTACTATTCAGTCATCTCCTTTACCCCCAACA
7094818 AA
1 AA
7094820 TACACATCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 2 0.04
48 44 0.96
ACGTcount: A:0.26, C:0.38, G:0.05, T:0.32
Consensus pattern (48 bp):
AACACTCTAGCATTTCCTACTATTCAGTCATCTCCTTTACCCCCAACA
Found at i:7098812 original size:50 final size:50
Alignment explanation
Indices: 7098725--7098856 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 50
7098715 GGTAAAGAGA
* * * * **
7098725 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGA-TGAGAGG
1 TCCCACGTAAGACCATATCTGGGACATGGCATGGGCACCGAGATTG-GAAC
* *
7098775 TCCCCCGTAAGACCATATCTGGGACATGGCATGGGCACCGATATTGGAAC
1 TCCCACGTAAGACCATATCTGGGACATGGCATGGGCACCGAGATTGGAAC
* * *
7098825 TCCTATGTAAGACCATATCTGGGATATGGCAT
1 TCCCACGTAAGACCATATCTGGGACATGGCAT
7098857 TCGCAGTACA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
50 67 0.97
51 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATATCTGGGACATGGCATGGGCACCGAGATTGGAAC
Found at i:7102716 original size:96 final size:96
Alignment explanation
Indices: 7102552--7102743 Score: 384
Period size: 96 Copynumber: 2.0 Consensus size: 96
7102542 AAAAGGAAAC
7102552 GATAGAGAGAAAAATGAAAGGAAAACAAAAAAAAAACGTAAAAAGGAGAGGAAGTTTTCCTTTGA
1 GATAGAGAGAAAAATGAAAGGAAAACAAAAAAAAAACGTAAAAAGGAGAGGAAGTTTTCCTTTGA
7102617 AAGAAACTTAGTTAATTTCAAAAAAAAAAAA
66 AAGAAACTTAGTTAATTTCAAAAAAAAAAAA
7102648 GATAGAGAGAAAAATGAAAGGAAAACAAAAAAAAAACGTAAAAAGGAGAGGAAGTTTTCCTTTGA
1 GATAGAGAGAAAAATGAAAGGAAAACAAAAAAAAAACGTAAAAAGGAGAGGAAGTTTTCCTTTGA
7102713 AAGAAACTTAGTTAATTTCAAAAAAAAAAAA
66 AAGAAACTTAGTTAATTTCAAAAAAAAAAAA
7102744 CTAGAAACTA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (96 bp):
GATAGAGAGAAAAATGAAAGGAAAACAAAAAAAAAACGTAAAAAGGAGAGGAAGTTTTCCTTTGA
AAGAAACTTAGTTAATTTCAAAAAAAAAAAA
Found at i:7104750 original size:12 final size:13
Alignment explanation
Indices: 7104733--7104765 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
7104723 TAATGGGGAT
7104733 GATGACAAAA-AA
1 GATGACAAAAGAA
7104745 GATGACAAAAGAA
1 GATGACAAAAGAA
*
7104758 GATCACAA
1 GATGACAA
7104766 GGATAACCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.61, C:0.12, G:0.18, T:0.09
Consensus pattern (13 bp):
GATGACAAAAGAA
Found at i:7105587 original size:13 final size:14
Alignment explanation
Indices: 7105569--7105597 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7105559 ATCAAATTAC
7105569 AAGAAT-ATTTAAT
1 AAGAATAATTTAAT
7105582 AAGAATAATTTAAT
1 AAGAATAATTTAAT
7105596 AA
1 AA
7105598 TCAAATCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
AAGAATAATTTAAT
Found at i:7105992 original size:14 final size:14
Alignment explanation
Indices: 7105975--7106001 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7105965 AAAGACAGAG
7105975 AATAAAGAACAAAT
1 AATAAAGAACAAAT
7105989 AATAAAGAACAAA
1 AATAAAGAACAAA
7106002 GAGAATGAGG
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:0.74, C:0.07, G:0.07, T:0.11
Consensus pattern (14 bp):
AATAAAGAACAAAT
Found at i:7117928 original size:35 final size:35
Alignment explanation
Indices: 7117876--7118017 Score: 167
Period size: 35 Copynumber: 4.1 Consensus size: 35
7117866 CATAACATGT
* *
7117876 CAATACTCATAAAAGCTAATCCAACCGAAACACGC
1 CAATGCTCATAAGAGCTAATCCAACCGAAACACGC
* * * * * **
7117911 CAGTGCTCACAATAGCTAATCCAATCGTAACACTT
1 CAATGCTCATAAGAGCTAATCCAACCGAAACACGC
* * *
7117946 CAATGCTCATAAGAGCTAATCCAACTGTAACACTC
1 CAATGCTCATAAGAGCTAATCCAACCGAAACACGC
*
7117981 TAATGCTCATAAGAGCTAATCCAACCGAAACACGC
1 CAATGCTCATAAGAGCTAATCCAACCGAAACACGC
7118016 CA
1 CA
7118018 GACAGAAAGT
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 88 1.00
ACGTcount: A:0.39, C:0.30, G:0.11, T:0.20
Consensus pattern (35 bp):
CAATGCTCATAAGAGCTAATCCAACCGAAACACGC
Found at i:7121081 original size:24 final size:25
Alignment explanation
Indices: 7121031--7121086 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
7121021 AAATATGAAT
7121031 AAAAATCATAATACAAAATTAATTA
1 AAAAATCATAATACAAAATTAATTA
* ** *
7121056 AAAAATCTTAATACAATTTTAATAA
1 AAAAATCATAATACAAAATTAATTA
7121081 AAAAAT
1 AAAAAT
7121087 GAGAGTGAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (25 bp):
AAAAATCATAATACAAAATTAATTA
Found at i:7121140 original size:11 final size:11
Alignment explanation
Indices: 7121111--7121185 Score: 62
Period size: 11 Copynumber: 6.8 Consensus size: 11
7121101 AGAATCAAGT
*
7121111 GAGAATTAAGA
1 GAGAATTGAGA
7121122 GAGAATTGAGA
1 GAGAATTGAGA
*
7121133 GAGGATTGAGA
1 GAGAATTGAGA
*
7121144 -ATGAATAGAGA
1 GA-GAATTGAGA
* *
7121155 GAGAGTTGAAA
1 GAGAATTGAGA
* *
7121166 GTGAATTGTGA
1 GAGAATTGAGA
*
7121177 GTGAATTGA
1 GAGAATTGA
7121186 AAAAGTGAGA
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
10 1 0.02
11 48 0.96
12 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.35, T:0.23
Consensus pattern (11 bp):
GAGAATTGAGA
Found at i:7121553 original size:26 final size:24
Alignment explanation
Indices: 7121497--7121554 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 24
7121487 AATTTTAAAG
* *
7121497 TAAATAAATTATTATATAATTGAA
1 TAAATAAATTATGAAATAATTGAA
7121521 TAGAAATAAATTAATGAAATAATATGAA
1 T--AAATAAATT-ATGAAATAAT-TGAA
7121549 TAAATA
1 TAAATA
7121555 TAAACTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 1 0.04
26 14 0.50
27 8 0.29
28 5 0.18
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (24 bp):
TAAATAAATTATGAAATAATTGAA
Found at i:7129255 original size:87 final size:86
Alignment explanation
Indices: 7129137--7129301 Score: 215
Period size: 87 Copynumber: 1.9 Consensus size: 86
7129127 TGTACATGCA
* * *
7129137 TAAGGTTGAGTTCTGAGTCTTAATGAATTCATATCCCACG-GTTTGAGTGTTCTTATTGACACAG
1 TAAGGTTGAGTTCTGACTCTTAATGAATTCATATCCCA-GAGTTTGAGTGGTCCTATTGACACAG
*
7129201 ACTTGATGAATTCATCGACATG
65 ACCTGATGAATTCATCGACATG
* * * * * *
7129223 TAAGGTTGATTTTCTTACTCTTAATGAGTTCATATCCTAGAGTTTGGGTGGTCCTATTGAGACAG
1 TAAGGTTGA-GTTCTGACTCTTAATGAATTCATATCCCAGAGTTTGAGTGGTCCTATTGACACAG
7129288 ACCTGATGAATTCA
65 ACCTGATGAATTCA
7129302 CCGAACATAA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 10 0.15
87 57 0.85
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (86 bp):
TAAGGTTGAGTTCTGACTCTTAATGAATTCATATCCCAGAGTTTGAGTGGTCCTATTGACACAGA
CCTGATGAATTCATCGACATG
Found at i:7137144 original size:18 final size:18
Alignment explanation
Indices: 7137097--7137141 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
7137087 AAAAATTATA
*
7137097 AAAAATTTTAAATTTTAG
1 AAAAATATTAAATTTTAG
*
7137115 AAAAATATTAAATTTTAAT
1 AAAAATATTAAATTTT-AG
7137134 AAAAATAT
1 AAAAATAT
7137142 AAAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AAAAATATTAAATTTTAG
Found at i:7137218 original size:20 final size:20
Alignment explanation
Indices: 7137170--7137221 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
7137160 TTAGAAATTT
7137170 TTTTATAAAAA-CTGTAAAA
1 TTTTATAAAAATCTGTAAAA
** * *
7137189 AATTAAAAAAATTTGTAAAA
1 TTTTATAAAAATCTGTAAAA
7137209 TTTTATAAAAATC
1 TTTTATAAAAATC
7137222 ATAAAAAATT
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (20 bp):
TTTTATAAAAATCTGTAAAA
Found at i:7137306 original size:19 final size:18
Alignment explanation
Indices: 7137283--7137334 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
7137273 ATTTCTATAT
7137283 ATTTTATAATTTTTTACGA
1 ATTTTATAATTTTTTAC-A
* **
7137302 TTTTTATAAAATTTTACA
1 ATTTTATAATTTTTTACA
*
7137320 ATTTTACAATTTTTT
1 ATTTTATAATTTTTT
7137335 TTCTAATTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTTATAATTTTTTACA
Found at i:7147607 original size:12 final size:12
Alignment explanation
Indices: 7147590--7147614 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7147580 AACGAGCAAC
7147590 ATAATATAAATG
1 ATAATATAAATG
7147602 ATAATATAAATG
1 ATAATATAAATG
7147614 A
1 A
7147615 AAGCACAAAT
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATAATATAAATG
Found at i:7147807 original size:12 final size:12
Alignment explanation
Indices: 7147790--7147814 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7147780 AAAACAAATT
7147790 AATATATAAAAA
1 AATATATAAAAA
7147802 AATATATAAAAA
1 AATATATAAAAA
7147814 A
1 A
7147815 CTAAAATTAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATATATAAAAA
Found at i:7149853 original size:15 final size:16
Alignment explanation
Indices: 7149833--7149866 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
7149823 TATTTTTCAA
7149833 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
7149848 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
7149864 AAA
1 AAA
7149867 ATTACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:7154179 original size:15 final size:15
Alignment explanation
Indices: 7154159--7154190 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7154149 CATTTCACTA
*
7154159 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
7154174 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
7154189 TT
1 TT
7154191 TGTATGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:7162512 original size:43 final size:42
Alignment explanation
Indices: 7162449--7162612 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 42
7162439 TACCGTAACA
* * *
7162449 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGACATGGTCTTACACGTAATCTCATATCG
* * * *
7162491 ATGCCAATATCCCAGCCATGGTCATACACGAAATCACATATCG
1 ATGCC-ATATCCCAGACATGGTCTTACACGTAATCTCATATCG
* * * *
7162534 ATGCCAATGTCCTAGCCATGGTCTTACACG-AATTCTCATAGCG
1 ATGCC-ATATCCCAGACATGGTCTTACACGTAA-TCTCATATCG
* * * *
7162577 ACGCCATATCCTAGATATGGTCTTACATGTAATCTC
1 ATGCCATATCCCAGACATGGTCTTACACGTAATCTC
7162613 GGTAACCCTA
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
42 31 0.30
43 71 0.70
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACACGTAATCTCATATCG
Found at i:7164448 original size:17 final size:17
Alignment explanation
Indices: 7164426--7164458 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7164416 TTAGTCACTA
7164426 TTAGGCGAATCCAAGTT
1 TTAGGCGAATCCAAGTT
7164443 TTAGGCGAATCCAAGT
1 TTAGGCGAATCCAAGT
7164459 CTCAGGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (17 bp):
TTAGGCGAATCCAAGTT
Found at i:7164465 original size:17 final size:17
Alignment explanation
Indices: 7164428--7164465 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
7164418 AGTCACTATT
* *
7164428 AGGCGAATCCAAGTTTT
1 AGGCGAATCCAAGTCTC
7164445 AGGCGAATCCAAGTCTC
1 AGGCGAATCCAAGTCTC
7164462 AGGC
1 AGGC
7164466 ATTAGCAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (17 bp):
AGGCGAATCCAAGTCTC
Found at i:7170192 original size:2 final size:2
Alignment explanation
Indices: 7170185--7170221 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
7170175 TACTATAGTG
*
7170185 TA TA TA TA TA TA TA TA TA TA TA TGA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
7170222 AACTTTTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7171002 original size:31 final size:31
Alignment explanation
Indices: 7170967--7171030 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
7170957 AAAATTTCAA
*
7170967 AATTCAAAAAGTACGGAG-ACTAAAATTGATC
1 AATTCAAAAAGTA-GAAGAACTAAAATTGATC
*
7170998 AATTCAAAAAGTATAAGAACTAAAATTGATC
1 AATTCAAAAAGTAGAAGAACTAAAATTGATC
7171029 AA
1 AA
7171031 ATTAAAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 28 0.93
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.23
Consensus pattern (31 bp):
AATTCAAAAAGTAGAAGAACTAAAATTGATC
Found at i:7171048 original size:29 final size:28
Alignment explanation
Indices: 7170983--7171050 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 28
7170973 AAAAGTACGG
7170983 AGACTAAAATTGATCAATTCAAAAAGTATA
1 AGACTAAAATTGATCAATT--AAAAGTATA
7171013 AGAACTAAAATTGATCAAATT-AAAGTATAA
1 AG-ACTAAAATTGATC-AATTAAAAGTAT-A
7171043 AGACTAAA
1 AGACTAAA
7171051 TCAACAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
29 13 0.37
30 5 0.14
31 13 0.37
32 4 0.11
ACGTcount: A:0.56, C:0.09, G:0.10, T:0.25
Consensus pattern (28 bp):
AGACTAAAATTGATCAATTAAAAGTATA
Found at i:7171713 original size:32 final size:32
Alignment explanation
Indices: 7171672--7171739 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
7171662 CTTTTGATAT
*
7171672 CTAAATTTGACACTTTTTTCCTAATTTGGTAC
1 CTAAATTTGACACTCTTTTCCTAATTTGGTAC
*
7171704 CTAAATTTGACTCTCTTTTCCTAATTTGGTAC
1 CTAAATTTGACACTCTTTTCCTAATTTGGTAC
7171736 CTAA
1 CTAA
7171740 TTTTATTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.46
Consensus pattern (32 bp):
CTAAATTTGACACTCTTTTCCTAATTTGGTAC
Found at i:7172149 original size:61 final size:59
Alignment explanation
Indices: 7172068--7172180 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
7172058 TTTGAACCTA
* *
7172068 AAAAAAGATTAGATATCAAATTAGAAAAAAAAATGCCAACTTCAGGTACCAAATTGGGCCC
1 AAAAAAGATTAGATACCAAATT--AAAAAAAAATGCCAACTTCAAGTACCAAATTGGGCCC
* * * * *
7172129 AAAAAAGTTTAGGTACCAAATTAAAAAAAAGTGTCAAGTTCAAGTACCAAAT
1 AAAAAAGATTAGATACCAAATTAAAAAAAAATGCCAACTTCAAGTACCAAAT
7172181 ATTATATTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
59 26 0.58
61 19 0.42
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (59 bp):
AAAAAAGATTAGATACCAAATTAAAAAAAAATGCCAACTTCAAGTACCAAATTGGGCCC
Found at i:7175771 original size:3 final size:3
Alignment explanation
Indices: 7175763--7175796 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7175753 ATAAAGAAGG
7175763 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7175797 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7178384 original size:132 final size:132
Alignment explanation
Indices: 7178143--7178858 Score: 1292
Period size: 132 Copynumber: 5.4 Consensus size: 132
7178133 AGAGAAATAT
* * * *
7178143 GATCTGTGATTTTCAATCTATTCCACTGCTGCCCAGGGGGATAGAACTACCGGCTTCAATGTACT
1 GATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACT
* * ** *
7178208 CCATTGTAATCTCATGG-AGGTAAAATCCGCCATCTTTGACCTGCTCCACTACTGCTTAGGGAGA
66 CCACTGTAATCTCA-GGAAGGTAAAATCCACCATCTTCAATCTGCTCCACTACTGCTTAGGGAGA
7178272 TAA
130 TAA
7178275 GATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAA-TCACCAGCTTCAATGTAC
1 GATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACT-ACCAGCTTCAATGTAC
7178339 TCCACTGTAATCTCAGGAAGGTAAAATCCACCATCTTCAATCTGCTCCACTACTGCTTAGGGAGA
65 TCCACTGTAATCTCAGGAAGGTAAAATCCACCATCTTCAATCTGCTCCACTACTGCTTAGGGAGA
7178404 TAA
130 TAA
7178407 GATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACT
1 GATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACT
* * *
7178472 CCACTGTAATCTTAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGAT
66 CCACTGTAATCTCAGGAAGGTAAAATCCACCATCTTCAATCTGCTCCACTACTGCTTAGGGAGAT
7178537 AA
131 AA
7178539 GATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACT
1 GATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACT
7178604 CCACTGTAATCTCAGGAAGGTAAAATCCACCATCTTCAATCTGCTCCACTACTGCTTAGGGAGAT
66 CCACTGTAATCTCAGGAAGGTAAAATCCACCATCTTCAATCTGCTCCACTACTGCTTAGGGAGAT
7178669 AA
131 AA
7178671 GATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACT
1 GATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACT
7178736 CCACTGTAATCTCAGGAAGGTAAAATCCACCATCTTCAATCTGCTCCACTACTGCTTAGGGAGAT
66 CCACTGTAATCTCAGGAAGGTAAAATCCACCATCTTCAATCTGCTCCACTACTGCTTAGGGAGAT
7178801 AA
131 AA
7178803 GATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCAGCTT
1 GATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCAGCTT
7178859 GGCAAGATCT
Statistics
Matches: 566, Mismatches: 15, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
131 3 0.01
132 562 0.99
133 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (132 bp):
GATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACT
CCACTGTAATCTCAGGAAGGTAAAATCCACCATCTTCAATCTGCTCCACTACTGCTTAGGGAGAT
AA
Found at i:7178401 original size:88 final size:89
Alignment explanation
Indices: 7178283--7178669 Score: 297
Period size: 88 Copynumber: 4.4 Consensus size: 89
7178273 AAGATCTGTA
* * ** *
7178283 ATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATC-ACCAGCTTCAATGTACTCCACTGT
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAGAATCTACCAGCTTCAATCTACTCCACTGT
*
7178347 AATCTCAGGAAGGTAAAATCCACC
66 AATCTCAGGAAGATAAAATCCACC
* *** * *
7178371 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATA-AGATCTGTAATCTTCAATCTATTCCACTG
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAGA-ATCTACCAGCTTCAATCTACTCCACTG
* * * * *
7178435 CT--GCCCAGGGAGATAGAA-CTACC
65 -TAATCTCAGGAAGATAAAATCCACC
* * * * * ** * *
7178458 AGCTTCAATGTACTCCACTGTAAT-CTTAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCAC-
1 ATCTTCAATCTACTCCAC--TACTGCTTAGGGAGATAGAATCTACCAGCTTCAATCTACTCCACT
* * * * ****
7178521 -TACTGCTTAGGGAGATAAGATCTGTA
64 GTAAT-CTCAGGAAGATAAAATCCACC
* * ** *
7178547 ATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAA-CTACCAGCTTCAATGTACTCCACTGT
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAGAATCTACCAGCTTCAATCTACTCCACTGT
*
7178611 AATCTCAGGAAGGTAAAATCCACC
66 AATCTCAGGAAGATAAAATCCACC
*
7178635 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATA
7178670 AGATCTGTAA
Statistics
Matches: 223, Mismatches: 63, Indels: 26
0.71 0.20 0.08
Matches are distributed among these distances:
85 1 0.00
87 40 0.18
88 140 0.63
89 41 0.18
90 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (89 bp):
ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAGAATCTACCAGCTTCAATCTACTCCACTGT
AATCTCAGGAAGATAAAATCCACC
Found at i:7179019 original size:87 final size:87
Alignment explanation
Indices: 7178859--7179227 Score: 659
Period size: 87 Copynumber: 4.3 Consensus size: 87
7178849 CTACCAGCTT
7178859 GGCAAGATCT-CTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATC
1 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATC
*
7178923 TGCTTCGCTGTTAATGCAGGAA
66 TGCTCCGCTGTTAATGCAGGAA
7178945 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATC
1 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATC
*
7179010 TGCTCCGCTGTTAATACAGGAA
66 TGCTCCGCTGTTAATGCAGGAA
7179032 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATC
1 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATC
* * *
7179097 TGTTTCGCTATTAATGCAGGAA
66 TGCTCCGCTGTTAATGCAGGAA
* * *
7179119 GGCAAGATATGCTATCTTTAACCAACTCCACTGCAACTGATGGAGGCAAGGTTTTGTTTTCGATC
1 GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATC
7179184 TGCTCCGCTGTTAATGCAGGAA
66 TGCTCCGCTGTTAATGCAGGAA
7179206 GGCAAGATCTGCTATCTTTAAC
1 GGCAAGATCTGCTATCTTTAAC
7179228 TGCAACCGAT
Statistics
Matches: 269, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
86 10 0.04
87 259 0.96
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (87 bp):
GGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATC
TGCTCCGCTGTTAATGCAGGAA
Found at i:7180229 original size:19 final size:17
Alignment explanation
Indices: 7180205--7180261 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
7180195 GGCCTCTCCT
7180205 TTTTCTTTTTTCGTTCTTC
1 TTTTCTTTTTTC-TT-TTC
7180224 TTTTCTTTTTTCTTTTC
1 TTTTCTTTTTTCTTTTC
*
7180241 TTTT-TGTGTTTCTTTT-
1 TTTTCT-TTTTTCTTTTC
7180257 TTTTC
1 TTTTC
7180262 AAGTGAAGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
16 5 0.14
17 16 0.46
18 2 0.06
19 12 0.34
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTCTTTTTTCTTTTC
Found at i:7180236 original size:12 final size:12
Alignment explanation
Indices: 7180221--7180258 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
7180211 TTTTTCGTTC
7180221 TTCTTTTCTTTT
1 TTCTTTTCTTTT
7180233 TTCTTTTCTTTT
1 TTCTTTTCTTTT
*
7180245 TGT-GTTTCTTTT
1 T-TCTTTTCTTTT
7180257 TT
1 TT
7180259 TTCAAGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (12 bp):
TTCTTTTCTTTT
Found at i:7180239 original size:24 final size:24
Alignment explanation
Indices: 7180203--7180258 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
7180193 TTGGCCTCTC
*
7180203 CTTTTTCTTTTTTCGTTCTTCT-TTT
1 CTTTTT-TCTTTTC-TTCTTCTGTTT
* *
7180228 CTTTTTTCTTTTCTTTTTGTGTTT
1 CTTTTTTCTTTTCTTCTTCTGTTT
7180252 CTTTTTT
1 CTTTTTT
7180259 TTCAAGTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 5 0.19
24 16 0.59
25 6 0.22
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (24 bp):
CTTTTTTCTTTTCTTCTTCTGTTT
Found at i:7185380 original size:18 final size:18
Alignment explanation
Indices: 7185357--7185401 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
7185347 TGGGCTATTA
7185357 GGTTTGGGCTTGAATTTG
1 GGTTTGGGCTTGAATTTG
7185375 GGTTTGGGCTTGAATTTG
1 GGTTTGGGCTTGAATTTG
7185393 GGTTTGGGC
1 GGTTTGGGC
7185402 ATTTTGGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.09, C:0.07, G:0.42, T:0.42
Consensus pattern (18 bp):
GGTTTGGGCTTGAATTTG
Found at i:7185512 original size:3 final size:3
Alignment explanation
Indices: 7185504--7185541 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
7185494 TGGGCCTTAC
7185504 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7185542 GATTAAAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7189217 original size:21 final size:21
Alignment explanation
Indices: 7189191--7189234 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
7189181 TTGGAAGTAT
7189191 TTTTCAACAATAGCTTTAAAC
1 TTTTCAACAATAGCTTTAAAC
7189212 TTTTCAACAATAGCTTTAAAC
1 TTTTCAACAATAGCTTTAAAC
7189233 TT
1 TT
7189235 AGGAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (21 bp):
TTTTCAACAATAGCTTTAAAC
Found at i:7189244 original size:21 final size:21
Alignment explanation
Indices: 7189199--7189244 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
7189189 ATTTTTCAAC
** *
7189199 AATAGCTTTAAACTTTTCAAC
1 AATAGCTTTAAACTTAGCAAA
*
7189220 AATAGCTTTAAACTTAGGAAA
1 AATAGCTTTAAACTTAGCAAA
7189241 AATA
1 AATA
7189245 TTAGAAACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.33
Consensus pattern (21 bp):
AATAGCTTTAAACTTAGCAAA
Found at i:7189650 original size:43 final size:42
Alignment explanation
Indices: 7189597--7189826 Score: 282
Period size: 43 Copynumber: 5.4 Consensus size: 42
7189587 GTTTTTAGAA
7189597 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCACC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTC-CC
*
7189640 ACAAACGCCGCTAAAGACCAAGAGCTTTAGCGGCGCTTTCACC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTC-CC
* * *
7189683 AAAAATGCCGCTAAAGACCAAGACCTTTAACGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTCCC
* * * **
7189726 ACAAACGCCGCTAAAGCCCATGACCTTTAGCGACGCTTTTTGTC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC--TTTCCC
* * *
7189770 ACAAACGCCGCTATAGATCAA-ACCTTTAGCGGCGCTTCTCGC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT-TCCC
*
7189812 AAAAACGCCGCTAAA
1 ACAAACGCCGCTAAA
7189827 AACATATCCT
Statistics
Matches: 162, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
41 2 0.01
42 15 0.09
43 119 0.73
44 26 0.16
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.19
Consensus pattern (42 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCC
Found at i:7189947 original size:133 final size:137
Alignment explanation
Indices: 7189794--7190063 Score: 512
Period size: 133 Copynumber: 2.0 Consensus size: 137
7189784 AGATCAAACC
7189794 TTTAGCGGCGCTTCTCGCAAAAACGCCGCTAAAAACATATCCTTTAAAAAAATTATTTTAATCAA
1 TTTAGCGGCGCTTCTCGCAAAAACGCCGCTAAAAACATATCCTTTAAAAAAATTATTTTAATCAA
7189859 ATTATATTATTTTTATGATAAATA-TTATATTATG-TTTT-TTTTCTAAATTTGAACTTTAAATA
66 ATTATATTATTTTTATGATAAATATTTATATTATGTTTTTATTTTCTAAATTTGAACTTTAAATA
7189921 TACTTTT
131 TACTTTT
7189928 TTTAGCGGCG-TTCTCGCAAAAACGCCGCTAAAAACATATCCTTTAAAAAAATTATTTTAATCAA
1 TTTAGCGGCGCTTCTCGCAAAAACGCCGCTAAAAACATATCCTTTAAAAAAATTATTTTAATCAA
7189992 ATTATATTATTTTTATGATAAATATTTATATTATGTTTTTATTTTCTAAATTTGAACTTTAAATA
66 ATTATATTATTTTTATGATAAATATTTATATTATGTTTTTATTTTCTAAATTTGAACTTTAAATA
7190057 TACTTTT
131 TACTTTT
7190064 AAGGNNNNNN
Statistics
Matches: 133, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
133 78 0.59
134 20 0.15
135 4 0.03
136 31 0.23
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (137 bp):
TTTAGCGGCGCTTCTCGCAAAAACGCCGCTAAAAACATATCCTTTAAAAAAATTATTTTAATCAA
ATTATATTATTTTTATGATAAATATTTATATTATGTTTTTATTTTCTAAATTTGAACTTTAAATA
TACTTTT
Found at i:7194777 original size:14 final size:15
Alignment explanation
Indices: 7194758--7194790 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
7194748 CTTAAACTAG
7194758 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
7194772 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
7194787 AATC
1 AATC
7194791 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:7195181 original size:41 final size:41
Alignment explanation
Indices: 7195135--7195366 Score: 401
Period size: 41 Copynumber: 5.7 Consensus size: 41
7195125 ATATTTTTGT
* *
7195135 GGCGCTTTTTCAAAAACGCTGCTAAAGATCTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATCAGC
** *
7195176 GGCGCTTTCACAAAAACGCTGCTAAAGATCTGAGCATCAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATCAGC
*
7195217 GGCGCTTTCTCAAAAACGCCGCTAAAGATCTGAGCATCAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATCAGC
*
7195258 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATCAGC
7195299 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATCAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATCAGC
7195340 GGCGCTTTTTCAAAAACGCCGCTAAAG
1 GGCGCTTTTTCAAAAACGCCGCTAAAG
7195367 CCCTGAAAGG
Statistics
Matches: 183, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 183 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (41 bp):
GGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATCAGC
Found at i:7195457 original size:40 final size:40
Alignment explanation
Indices: 7195396--7195489 Score: 152
Period size: 40 Copynumber: 2.4 Consensus size: 40
7195386 GGCTTAGGTT
* * *
7195396 TTTAGCGGCGTTTTTTTTAAAGCGCTGCTAATGCTCGATC
1 TTTAGCGGCGTTTTATGTAAAGCGCCGCTAATGCTCGATC
7195436 TTTAGCGGCGTTTTATGTAAAGCGCCGCTAATGCTCGATC
1 TTTAGCGGCGTTTTATGTAAAGCGCCGCTAATGCTCGATC
*
7195476 TTTAGCGGCATTTT
1 TTTAGCGGCGTTTT
7195490 TTGTCCAAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.38
Consensus pattern (40 bp):
TTTAGCGGCGTTTTATGTAAAGCGCCGCTAATGCTCGATC
Found at i:7196964 original size:11 final size:11
Alignment explanation
Indices: 7196940--7196988 Score: 71
Period size: 11 Copynumber: 4.4 Consensus size: 11
7196930 CACAAACTAA
7196940 TCCTCTCAAATT
1 TCCTCTC-AATT
*
7196952 TCCTCTTAATT
1 TCCTCTCAATT
*
7196963 TCCTCTCATTT
1 TCCTCTCAATT
7196974 TCCTCTCAATT
1 TCCTCTCAATT
7196985 TCCT
1 TCCT
7196989 TCCAAAATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
11 27 0.82
12 6 0.18
ACGTcount: A:0.16, C:0.35, G:0.00, T:0.49
Consensus pattern (11 bp):
TCCTCTCAATT
Found at i:7198571 original size:11 final size:11
Alignment explanation
Indices: 7198547--7198595 Score: 71
Period size: 11 Copynumber: 4.4 Consensus size: 11
7198537 CACAAACTAA
7198547 TCCTCTCAAATT
1 TCCTCTC-AATT
*
7198559 TCCTCTTAATT
1 TCCTCTCAATT
*
7198570 TCCTCTCATTT
1 TCCTCTCAATT
7198581 TCCTCTCAATT
1 TCCTCTCAATT
7198592 TCCT
1 TCCT
7198596 TCCAAAATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
11 27 0.82
12 6 0.18
ACGTcount: A:0.16, C:0.35, G:0.00, T:0.49
Consensus pattern (11 bp):
TCCTCTCAATT
Found at i:7198697 original size:13 final size:13
Alignment explanation
Indices: 7198681--7198708 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7198671 TTTTAAATAA
7198681 TTTTAAAATTTTT
1 TTTTAAAATTTTT
7198694 TTTTAAAATTTTT
1 TTTTAAAATTTTT
7198707 TT
1 TT
7198709 AAACCGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTAAAATTTTT
Found at i:7200307 original size:18 final size:18
Alignment explanation
Indices: 7200280--7200319 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
7200270 CAGGTGCTTT
*
7200280 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
7200298 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
7200316 TCCT
1 TCCT
7200320 TTTCCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:7200593 original size:15 final size:15
Alignment explanation
Indices: 7200573--7200606 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7200563 CAGATGCCGT
*
7200573 ACCGGAAGAACAACC
1 ACCGGAAGAACAACA
*
7200588 ACCGGAGGAACAACA
1 ACCGGAAGAACAACA
7200603 ACCG
1 ACCG
7200607 TCGCCGGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.32, G:0.24, T:0.00
Consensus pattern (15 bp):
ACCGGAAGAACAACA
Found at i:7200867 original size:25 final size:25
Alignment explanation
Indices: 7200839--7200984 Score: 258
Period size: 25 Copynumber: 5.8 Consensus size: 25
7200829 TATTTTGATA
7200839 TTTATTTGATGTAATAAAATAGAAG
1 TTTATTTGATGTAATAAAATAGAAG
*
7200864 TTTATTTGATGTAATAAAATAGAAA
1 TTTATTTGATGTAATAAAATAGAAG
*
7200889 TTTATTTGATGTAATAAGATAGAAG
1 TTTATTTGATGTAATAAAATAGAAG
7200914 TTTATTTGATGTAATAAAATAGATA-
1 TTTATTTGATGTAATAAAATAGA-AG
7200939 TTTATTTGATGTAATAAAATAGAAG
1 TTTATTTGATGTAATAAAATAGAAG
7200964 TTTATTTGATGTAATAAAATA
1 TTTATTTGATGTAATAAAATA
7200985 TAAATTTTTT
Statistics
Matches: 115, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
24 1 0.01
25 113 0.98
26 1 0.01
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (25 bp):
TTTATTTGATGTAATAAAATAGAAG
Found at i:7204446 original size:123 final size:124
Alignment explanation
Indices: 7204154--7204499 Score: 604
Period size: 123 Copynumber: 2.8 Consensus size: 124
7204144 CCCAAACATG
* * ** *
7204154 CTACTGTAGCAAAAACTCGTCCACGAGCTCGCGATTTCACAAATTATTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
7204219 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTGAAAAAAAATTATTTCATCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTGAAAAAAAATTATTTCATCCATGAC
7204278 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
7204343 TAGAAGCGATTTTATACTATTTGCTCAGAAACGT-CAAAAAAATTATTTCATCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTGAAAAAAAATTATTTCATCCATGAC
* *
7204401 CTATTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
7204466 TAGAAGCGATTTTATACTATTTGATCAGAAACGT
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGT
7204500 TAACTCGAAA
Statistics
Matches: 213, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
123 119 0.56
124 94 0.44
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTGAAAAAAAATTATTTCATCCATGAC
Found at i:7207788 original size:21 final size:22
Alignment explanation
Indices: 7207762--7207810 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
7207752 ATAATTACGT
7207762 TTATTTTCTTTAAATTAA-GAG
1 TTATTTTCTTTAAATTAATGAG
* * *
7207783 TTATTTTTTTTAACTTAATGAT
1 TTATTTTCTTTAAATTAATGAG
7207805 TTATTT
1 TTATTT
7207811 ATTTATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (22 bp):
TTATTTTCTTTAAATTAATGAG
Found at i:7217418 original size:9 final size:9
Alignment explanation
Indices: 7217384--7217485 Score: 52
Period size: 9 Copynumber: 11.2 Consensus size: 9
7217374 ATGACAAAAT
7217384 AATTATAAA
1 AATTATAAA
*
7217393 AA-AATAAA
1 AATTATAAA
*
7217401 AATCAATAAA
1 AAT-TATAAA
*
7217411 AGTTATAAA
1 AATTATAAA
*
7217420 AATTATTAA
1 AATTATAAA
7217429 AATT-TAATA
1 AATTATAA-A
7217438 AA-TA-AAA
1 AATTATAAA
7217445 ATATT-TAAA
1 A-ATTATAAA
*
7217454 ATTTACTAAA
1 AATTA-TAAA
* *
7217464 CATTAGAACA
1 AATTATAA-A
7217474 AATATATAAA
1 AAT-TATAAA
7217484 AA
1 AA
7217486 CAGTAGAAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
7 2 0.03
8 15 0.21
9 28 0.40
10 21 0.30
11 4 0.06
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (9 bp):
AATTATAAA
Found at i:7217442 original size:24 final size:24
Alignment explanation
Indices: 7217415--7217463 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
7217405 AATAAAAGTT
7217415 ATAAAAAT-TATTAAAATTTAATAA
1 ATAAAAATAT-TTAAAATTTAATAA
*
7217439 ATAAAAATATTTAAAATTTACTAA
1 ATAAAAATATTTAAAATTTAATAA
7217463 A
1 A
7217464 CATTAGAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAAAAATATTTAAAATTTAATAA
Found at i:7217811 original size:9 final size:9
Alignment explanation
Indices: 7217780--7217873 Score: 52
Period size: 9 Copynumber: 10.4 Consensus size: 9
7217770 CTTTATAAAA
7217780 TTTTATATAT
1 TTTTATA-AT
*
7217790 TTTTCT-AT
1 TTTTATAAT
7217798 ATTTTATAAT
1 -TTTTATAAT
* *
7217808 TTTTTTAGAA
1 TTTTATA-AT
7217818 TTTTATAA-
1 TTTTATAAT
**
7217826 ACTTATAAT
1 TTTTATAAT
*
7217835 TTTTATAAA
1 TTTTATAAT
*
7217844 TTTTATTGAT
1 TTTTA-TAAT
7217854 TTTTAT--T
1 TTTTATAAT
*
7217861 TTTTATCAT
1 TTTTATAAT
7217870 TTTT
1 TTTT
7217874 TACCACATGT
Statistics
Matches: 65, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
7 7 0.11
8 8 0.12
9 29 0.45
10 21 0.32
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:7217812 original size:19 final size:20
Alignment explanation
Indices: 7217778--7217825 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
7217768 GACTTTATAA
7217778 AATTTTAT-ATATTTTTCTA-
1 AATTTTATAATATTTTT-TAG
*
7217797 TATTTTATAAT-TTTTTTAG
1 AATTTTATAATATTTTTTAG
7217816 AATTTTATAA
1 AATTTTATAA
7217826 ACTTATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 2 0.08
19 21 0.84
20 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
AATTTTATAATATTTTTTAG
Found at i:7218414 original size:41 final size:41
Alignment explanation
Indices: 7218336--7218438 Score: 151
Period size: 41 Copynumber: 2.6 Consensus size: 41
7218326 TTCAAATCAA
*
7218336 AATGGATGCAATGACTATGAC----TTTTTTTTTGTCGTGG
1 AATGGATGCAATGACTATGACTTTTTTTTTTTTTGTAGTGG
7218373 AATGGATGCAATGACTATGACTTTTTTTTTTTTTGTAGTGG
1 AATGGATGCAATGACTATGACTTTTTTTTTTTTTGTAGTGG
* *
7218414 AATTGATGCAATGATTATGACTTTT
1 AATGGATGCAATGACTATGACTTTT
7218439 CTTTATCTCC
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
37 21 0.36
41 38 0.64
ACGTcount: A:0.24, C:0.09, G:0.21, T:0.46
Consensus pattern (41 bp):
AATGGATGCAATGACTATGACTTTTTTTTTTTTTGTAGTGG
Found at i:7219626 original size:3 final size:3
Alignment explanation
Indices: 7219613--7219721 Score: 127
Period size: 3 Copynumber: 37.3 Consensus size: 3
7219603 ATTAGCATTT
* **
7219613 TTA TT- TTA TTA TTA -TA GTCA TTA TTA TTA TT- TTA TTA CAA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
7219656 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
7219703 TTA ATA TTA CTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
7219722 CCATTGTTAT
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
2 7 0.08
3 81 0.91
4 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:7219804 original size:3 final size:3
Alignment explanation
Indices: 7219796--7219847 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
7219786 TTTGGTCCTT
7219796 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7219844 TTA T
1 TTA T
7219848 NNNNNNNNNN
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7223585 original size:26 final size:25
Alignment explanation
Indices: 7223549--7223600 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
7223539 GGCCACCGCG
7223549 GATGGCGGCGCAGTCGCCGGTGACT
1 GATGGCGGCGCAGTCGCCGGTGACT
* * *
7223574 GATGGCCGGCGCGGTGGCTGGTGACT
1 GATGG-CGGCGCAGTCGCCGGTGACT
7223600 G
1 G
7223601 GAGCCTGGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.10, C:0.25, G:0.48, T:0.17
Consensus pattern (25 bp):
GATGGCGGCGCAGTCGCCGGTGACT
Found at i:7224388 original size:27 final size:25
Alignment explanation
Indices: 7224330--7224385 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
7224320 ATAAGTATTA
*
7224330 TTATTATAATACTTTCATGTTTACT
1 TTATTATAATACTTCCATGTTTACT
*
7224355 TTATTATATATACATTCCATTTTTA-T
1 TTATTATA-ATAC-TTCCATGTTTACT
7224381 TTATT
1 TTATT
7224386 TATTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 10 0.37
27 9 0.33
ACGTcount: A:0.29, C:0.11, G:0.02, T:0.59
Consensus pattern (25 bp):
TTATTATAATACTTCCATGTTTACT
Found at i:7225329 original size:19 final size:18
Alignment explanation
Indices: 7225292--7225335 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
7225282 TTCGTTGCAT
7225292 TTCATTTTTATAGTTTGC
1 TTCATTTTTATAGTTTGC
7225310 TTCATTTTGCTATA-TTTGC
1 TTCATTTT--TATAGTTTGC
*
7225329 TTTATTT
1 TTCATTT
7225336 GTTCAAGTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 11 0.48
20 4 0.17
ACGTcount: A:0.16, C:0.11, G:0.09, T:0.64
Consensus pattern (18 bp):
TTCATTTTTATAGTTTGC
Found at i:7228705 original size:18 final size:18
Alignment explanation
Indices: 7228684--7228740 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
7228674 TCAAAATAAA
*
7228684 AAAATGAATGAAA-AAATG
1 AAAATG-ATGAAAGAAAAG
7228702 AAAATGATGAAAGAAAAG
1 AAAATGATGAAAGAAAAG
* *
7228720 AAAAAGA-GAAGGAAAAG
1 AAAATGATGAAAGAAAAG
7228737 AAAA
1 AAAA
7228741 AGAAAAAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
17 19 0.54
18 16 0.46
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (18 bp):
AAAATGATGAAAGAAAAG
Found at i:7228713 original size:17 final size:19
Alignment explanation
Indices: 7228684--7228752 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 19
7228674 TCAAAATAAA
*
7228684 AAAATGAATGAAA-AAATG
1 AAAATGAATGAAAGAAAAG
7228702 AAAATG-ATGAAAGAAAAG
1 AAAATGAATGAAAGAAAAG
* *
7228720 AAAAAG-A-GAAGGAAAAG
1 AAAATGAATGAAAGAAAAG
*
7228737 AAAAAGAA--AAAGAAAA
1 AAAATGAATGAAAGAAAA
7228753 AGGAGAGGCC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
17 28 0.62
18 17 0.38
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.07
Consensus pattern (19 bp):
AAAATGAATGAAAGAAAAG
Found at i:7228724 original size:6 final size:6
Alignment explanation
Indices: 7228711--7228754 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
7228701 GAAAATGATG
* *
7228711 AAAG-A AAAGAA AAAG-A GAAGGA AAAGAA AAAGAA AAAGAA AAAG
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG
7228755 GAGAGGCCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
5 8 0.24
6 26 0.76
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:7228890 original size:42 final size:41
Alignment explanation
Indices: 7228831--7228949 Score: 136
Period size: 42 Copynumber: 2.8 Consensus size: 41
7228821 AAAAGGGCGT
*
7228831 CTCAAATATT-GATCAGAATAGGGCATGAGGTGATCAGAGTAG
1 CTCAAAT-TTCGAACAGAATAGGGCATG-GGTGATCAGAGTAG
7228873 CTCAAATTTCGAACAGAA-AGGGGCATGGGATGATCAGAGTAG
1 CTCAAATTTCGAACAGAATA-GGGCATGGG-TGATCAGAGTAG
* *
7228915 CTCAAATTTC-AATCAGATTGGGGCATGTGGTGATC
1 CTCAAATTTCGAA-CAGAATAGGGCATG-GGTGATC
7228950 TTGTTATACT
Statistics
Matches: 68, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
41 7 0.10
42 59 0.87
43 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (41 bp):
CTCAAATTTCGAACAGAATAGGGCATGGGTGATCAGAGTAG
Found at i:7232045 original size:3 final size:3
Alignment explanation
Indices: 7232032--7232134 Score: 97
Period size: 3 Copynumber: 35.3 Consensus size: 3
7232022 ATTAGCATTT
* **
7232032 TTA TT- TTA TTA TTA -TA GTCA TTA TTA TTA TTA TT- TTA TTA CAA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
7232075 TTA TTA TAA GTA TTA TTA TTA TTA TTA CTA ATA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
7232122 TTA CTA TTA TTA T
1 TTA TTA TTA TTA T
7232135 CCATTGTTAT
Statistics
Matches: 80, Mismatches: 15, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
2 8 0.10
3 71 0.89
4 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:7232094 original size:53 final size:52
Alignment explanation
Indices: 7232033--7232134 Score: 136
Period size: 53 Copynumber: 1.9 Consensus size: 52
7232023 TTAGCATTTT
* *
7232033 TATTTTATTATTA-TAGTCATTATTATTATTATT-TTATTACAATTATTATAAG
1 TATTTTATTATTATTACT-AATATTATTATT-TTATTATTACAATTATTATAAG
*
7232085 TATTATTATTATTATTACTAATATTATTATTTTATTATTACTATTATTAT
1 TATT-TTATTATTATTACTAATATTATTATTTTATTATTACAATTATTAT
7232135 CCATTGTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
52 6 0.14
53 35 0.80
54 3 0.07
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (52 bp):
TATTTTATTATTATTACTAATATTATTATTTTATTATTACAATTATTATAAG
Found at i:7232217 original size:3 final size:3
Alignment explanation
Indices: 7232209--7232248 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
7232199 TTTGGTCCTT
7232209 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7232249 ACTTCCATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7232297 original size:27 final size:25
Alignment explanation
Indices: 7232239--7232294 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
7232229 ATTATTATTA
7232239 TTATTATTATACTTCCATGTTTACT
1 TTATTATTATACTTCCATGTTTACT
*
7232264 TTATTATATATACATTCCATTTTTA-T
1 TTATTAT-TATAC-TTCCATGTTTACT
7232290 TTATT
1 TTATT
7232295 TATTTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 7 0.25
26 11 0.39
27 10 0.36
ACGTcount: A:0.27, C:0.12, G:0.02, T:0.59
Consensus pattern (25 bp):
TTATTATTATACTTCCATGTTTACT
Found at i:7239434 original size:24 final size:21
Alignment explanation
Indices: 7239398--7239441 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
7239388 ATATTAAAAA
7239398 ATATATTTTTAATTAATATTTT
1 ATATATTTTTAATTAA-ATTTT
7239420 ATATATTTTTATAATTAAATTT
1 ATATA-TTTT-TAATTAAATTT
7239442 AAATAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 8 0.40
24 7 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATATATTTTTAATTAAATTTT
Found at i:7240459 original size:35 final size:33
Alignment explanation
Indices: 7240413--7240478 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 33
7240403 CAAACACCAG
7240413 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAG-AAATCATTTTAC-GAAAAGT
* *
7240448 AAAATATTTTCCCGAAATTATTTTACGAAAA
1 AAAATATTTTCCAGAAATCATTTTACGAAAA
7240479 ATATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 11 0.38
35 13 0.45
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (33 bp):
AAAATATTTTCCAGAAATCATTTTACGAAAAGT
Found at i:7243605 original size:86 final size:87
Alignment explanation
Indices: 7243488--7243661 Score: 341
Period size: 86 Copynumber: 2.0 Consensus size: 87
7243478 TACTTTAATT
7243488 TAATTATTTATTTCATTTCTATTTTAAAAAATAAATGTCAAACATGTTTTCATTATTTTCATCGT
1 TAATTATTTATTTCATTTCTATTTTAAAAAATAAATGTCAAACATGTTTTCATTATTTTCATCGT
7243553 TGAAAACAAATTTTTATTTTCA
66 TGAAAACAAATTTTTATTTTCA
7243575 TAATTATTTA-TTCATTTCTATTTTAAAAAATAAATGTCAAACATGTTTTCATTATTTTCATCGT
1 TAATTATTTATTTCATTTCTATTTTAAAAAATAAATGTCAAACATGTTTTCATTATTTTCATCGT
7243639 TGAAAACAAATTTTTATTTTCA
66 TGAAAACAAATTTTTATTTTCA
7243661 T
1 T
7243662 TTACCAAACA
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 77 0.89
87 10 0.11
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (87 bp):
TAATTATTTATTTCATTTCTATTTTAAAAAATAAATGTCAAACATGTTTTCATTATTTTCATCGT
TGAAAACAAATTTTTATTTTCA
Found at i:7244160 original size:15 final size:14
Alignment explanation
Indices: 7244136--7244165 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
7244126 GGGTTATGGG
7244136 AAACAGTAGAAGAA
1 AAACAGTAGAAGAA
7244150 AAACAAGTAGAAGAA
1 AAAC-AGTAGAAGAA
7244165 A
1 A
7244166 CCAAGAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.07, G:0.20, T:0.07
Consensus pattern (14 bp):
AAACAGTAGAAGAA
Found at i:7248533 original size:39 final size:40
Alignment explanation
Indices: 7248446--7248540 Score: 106
Period size: 39 Copynumber: 2.4 Consensus size: 40
7248436 TGTTGAATAA
7248446 AAAACGCCGCTAAAAATCGAGCATTAGCAGCGATTTTTTT
1 AAAACGCCGCTAAAAATCGAGCATTAGCAGCGATTTTTTT
* * * *
7248486 GAATCGCCGCTAAAAAT-GTGCATTA-CGGCG-TTTTTTT
1 AAAACGCCGCTAAAAATCGAGCATTAGCAGCGATTTTTTT
*
7248523 CCAAAACGCCGCAAAAAA
1 --AAAACGCCGCTAAAAA
7248541 ACCTAAGACC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
37 7 0.15
38 4 0.09
39 20 0.43
40 15 0.33
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCAGCGATTTTTTT
Found at i:7248659 original size:41 final size:41
Alignment explanation
Indices: 7248604--7248852 Score: 249
Period size: 41 Copynumber: 6.1 Consensus size: 41
7248594 AAAAAAACGT
*
7248604 CGCTAATGCCCAGATCTTTAGCGACGTTTTTGTAAAAGCGC
1 CGCTAATGCTCAGATCTTTAGCGACGTTTTTGTAAAAGCGC
* * *
7248645 CGCTAATGCTCAGATCTTTAGC-AGCGTTTTTTTGAGAAGCGT
1 CGCTAATGCTCAGATCTTTAGCGA-CGTTTTTGT-AAAAGCGC
* * *
7248687 C-CTAATGCTCAGATCTTTAGCGGCGTTTTTGGAGAAGCGC
1 CGCTAATGCTCAGATCTTTAGCGACGTTTTTGTAAAAGCGC
** * * *
7248727 CGCTAATGCTCAGATCTTTATTGGCGTTTTT-TCCAAAATCGT
1 CGCTAATGCTCAGATCTTTAGCGACGTTTTTGT--AAAAGCGC
* * *
7248769 CGC-AATACTCAAATCTTTAGC-AGCGTTTATAG-AAAAGCGC
1 CGCTAATGCTCAGATCTTTAGCGA-CGTTT-TTGTAAAAGCGC
* *
7248809 CGCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGC
1 CGCTAATGCTCAGATCTTTAGCGACGTTTTTGTAAAAGCGC
7248850 CGC
1 CGC
7248853 AAAAACATTT
Statistics
Matches: 170, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
40 20 0.12
41 134 0.79
42 16 0.09
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (41 bp):
CGCTAATGCTCAGATCTTTAGCGACGTTTTTGTAAAAGCGC
Found at i:7248701 original size:82 final size:82
Alignment explanation
Indices: 7248578--7248839 Score: 305
Period size: 82 Copynumber: 3.2 Consensus size: 82
7248568 CTTTCGGGGA
**** * *
7248578 TTTAGCGGCGTTTTAAAAAAAAACGTCGCTAATGCCCAGATCTTTAGCGACGTTTTTGTAAAAGC
1 TTTAGCGGCGTTTTTTCCAAAAGCGTCGCTAATGCTCAGATCTTTAGCGACGTTTTTG-AAAAGC
7248643 GCCGCTAATGCTCAGATC
65 GCCGCTAATGCTCAGATC
* ** * * *
7248661 TTTAGCAGCGTTTTTTTGAGAAGCGTC-CTAATGCTCAGATCTTTAGCGGCGTTTTTGGAGAAGC
1 TTTAGCGGCGTTTTTTCCAAAAGCGTCGCTAATGCTCAGATCTTTAGCGACGTTTTT-GAAAAGC
7248725 GCCGCTAATGCTCAGATC
65 GCCGCTAATGCTCAGATC
** * * * *
7248743 TTTATTGGCGTTTTTTCCAAAATCGTCGC-AATACTCAAATCTTTAGC-AGCGTTTATAGAAAAG
1 TTTAGCGGCGTTTTTTCCAAAAGCGTCGCTAATGCTCAGATCTTTAGCGA-CGTTT-TTGAAAAG
7248806 CGCCGCTAATGCTCAGATC
64 CGCCGCTAATGCTCAGATC
7248825 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
7248840 GAAAAAGCGC
Statistics
Matches: 151, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
82 128 0.85
83 23 0.15
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (82 bp):
TTTAGCGGCGTTTTTTCCAAAAGCGTCGCTAATGCTCAGATCTTTAGCGACGTTTTTGAAAAGCG
CCGCTAATGCTCAGATC
Found at i:7248815 original size:123 final size:123
Alignment explanation
Indices: 7248578--7248852 Score: 331
Period size: 123 Copynumber: 2.2 Consensus size: 123
7248568 CTTTCGGGGA
** * *
7248578 TTTAGCGGCGTTTTAAAAAAAAACGTCGCTAATGCCCAGATCTTTAGCGACGTTTTTGTAAAAGC
1 TTTAGCGGCGTTTT-TGAAAAAGCGCCGCTAATGCCCAGATCTTTAGCGACGTTTTTGTAAAAGC
* * * * * *
7248643 GCCGCTAATGCTCAGATCTTTAGCAGCGTTTTTTTGAGAAGCGTCCTAATGCTCAGATC
65 GCCGCTAATACTCAAATCTTTAGCAGCGTTTTATAGAAAAGCGCCCTAATGCTCAGATC
* * * ** * *
7248702 TTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGATCTTTATTGGCGTTTTT-TCCAAAAT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCCCAGATCTTTAGCGACGTTTTTGT--AAAAG
*
7248766 CGTCGC-AATACTCAAATCTTTAGCAGCG-TTTATAGAAAAGCGCCGCTAATGCTCAGATC
64 CGCCGCTAATACTCAAATCTTTAGCAGCGTTTTATAGAAAAGCGCC-CTAATGCTCAGATC
7248825 TTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGC
7248853 AAAAACATTT
Statistics
Matches: 128, Mismatches: 20, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
122 13 0.10
123 92 0.72
124 23 0.18
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (123 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCCCAGATCTTTAGCGACGTTTTTGTAAAAGCG
CCGCTAATACTCAAATCTTTAGCAGCGTTTTATAGAAAAGCGCCCTAATGCTCAGATC
Found at i:7249270 original size:14 final size:15
Alignment explanation
Indices: 7249239--7249271 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7249229 AAGGTTTATA
7249239 GATTATGGAATTAAG
1 GATTATGGAATTAAG
*
7249254 GATTATGG-ATTAGG
1 GATTATGGAATTAAG
7249268 GATT
1 GATT
7249272 CTGATTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAAG
Found at i:7249620 original size:8 final size:8
Alignment explanation
Indices: 7249592--7249660 Score: 81
Period size: 8 Copynumber: 8.9 Consensus size: 8
7249582 GGGATCGAGA
7249592 TTTAGGGG
1 TTTAGGGG
*
7249600 -TTAGAGG
1 TTTAGGGG
*
7249607 -TTAGGGA
1 TTTAGGGG
7249614 TTTAGGGG
1 TTTAGGGG
7249622 TTTAGGGG
1 TTTAGGGG
*
7249630 ATTTAGGTG
1 -TTTAGGGG
7249639 -TTAGGGG
1 TTTAGGGG
7249646 TTTAGGGG
1 TTTAGGGG
7249654 TTTAGGG
1 TTTAGGG
7249661 TGTCAAGGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
7 17 0.33
8 28 0.54
9 7 0.13
ACGTcount: A:0.17, C:0.00, G:0.46, T:0.36
Consensus pattern (8 bp):
TTTAGGGG
Found at i:7249670 original size:24 final size:24
Alignment explanation
Indices: 7249619--7249670 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
7249609 AGGGATTTAG
* *
7249619 GGGTTTAGGGGATTTAGGTGTTAG
1 GGGTTTAGGGGATTTAGGTGTCAA
7249643 GGGTTTAGGGG-TTTAGGGTGTCAA
1 GGGTTTAGGGGATTTA-GGTGTCAA
7249667 GGGT
1 GGGT
7249671 ACTCAAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.15, C:0.02, G:0.48, T:0.35
Consensus pattern (24 bp):
GGGTTTAGGGGATTTAGGTGTCAA
Found at i:7249864 original size:104 final size:104
Alignment explanation
Indices: 7249684--7249891 Score: 407
Period size: 104 Copynumber: 2.0 Consensus size: 104
7249674 CAAGTTAGGG
7249684 TTTAAGCTTAGATTAATTAGTTTTATTAATTAATTTATATATTAAATATGTTCTTAATAATAAAA
1 TTTAAGCTTAGATTAATTAGTTTTATTAATTAATTTATATATTAAATATGTTCTTAATAATAAAA
7249749 TAAATATATTTAAATTATGAGTATATATTACGCCTTATC
66 TAAATATATTTAAATTATGAGTATATATTACGCCTTATC
7249788 TTTAAGCTTAGATTAATTAGTTTTATTAATTAATTTATATATTAAATATGTTCTTAATAATAAAA
1 TTTAAGCTTAGATTAATTAGTTTTATTAATTAATTTATATATTAAATATGTTCTTAATAATAAAA
*
7249853 TAAATATATTTAAATTATGAGTATATATTATGCCTTATC
66 TAAATATATTTAAATTATGAGTATATATTACGCCTTATC
7249892 GACCTTGAGT
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (104 bp):
TTTAAGCTTAGATTAATTAGTTTTATTAATTAATTTATATATTAAATATGTTCTTAATAATAAAA
TAAATATATTTAAATTATGAGTATATATTACGCCTTATC
Found at i:7250213 original size:2 final size:2
Alignment explanation
Indices: 7250200--7250229 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
7250190 TATTTAAGAG
7250200 AT AT AGT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A
7250230 GATCACTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7250851 original size:10 final size:10
Alignment explanation
Indices: 7250836--7250867 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
7250826 GGACAGGACC
*
7250836 AAAATATAAG
1 AAAATATAAA
7250846 AAAATATAAA
1 AAAATATAAA
7250856 AAAATATAAA
1 AAAATATAAA
7250866 AA
1 AA
7250868 GGAAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (10 bp):
AAAATATAAA
Found at i:7250910 original size:21 final size:21
Alignment explanation
Indices: 7250886--7250952 Score: 50
Period size: 20 Copynumber: 3.2 Consensus size: 21
7250876 AAAACTAAAA
7250886 TTTATAATTTTA-TCAAAAACT
1 TTTATAATTTTACT-AAAAACT
* *
7250907 TTTA-AATATTACTTAAAACT
1 TTTATAATTTTACTAAAAACT
* *
7250927 TTAATAATTATTTACTTAAAA-T
1 TTTATAA-T-TTTACTAAAAACT
7250949 TTTA
1 TTTA
7250953 ATGAAACATA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 15 0.41
21 7 0.19
22 5 0.14
23 10 0.27
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTATAATTTTACTAAAAACT
Found at i:7253977 original size:25 final size:25
Alignment explanation
Indices: 7253942--7254011 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
7253932 NNNNNNNNNN
* *
7253942 AACTTAAATAACTTACATAATACAT
1 AACTTATATAACTTACATAATACAC
*
7253967 AACTT-TCATAACTTACATCATACAC
1 AACTTAT-ATAACTTACATAATACAC
7253992 AACTTATATAACTTACATAA
1 AACTTATATAACTTACATAA
7254012 CTTACATAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 38 0.97
26 1 0.03
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (25 bp):
AACTTATATAACTTACATAATACAC
Found at i:7254006 original size:9 final size:9
Alignment explanation
Indices: 7253942--7254024 Score: 84
Period size: 9 Copynumber: 9.7 Consensus size: 9
7253932 NNNNNNNNNN
*
7253942 AACTTAAAT
1 AACTTACAT
7253951 AACTTACAT
1 AACTTACAT
7253960 AA--TACAT
1 AACTTACAT
*
7253967 AACTTTCAT
1 AACTTACAT
7253976 AACTTACAT
1 AACTTACAT
* *
7253985 --CATACAC
1 AACTTACAT
*
7253992 AACTTATAT
1 AACTTACAT
7254001 AACTTACAT
1 AACTTACAT
7254010 AACTTACAT
1 AACTTACAT
*
7254019 AGCTTA
1 AACTTA
7254025 ATTATACTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
7 12 0.20
9 48 0.80
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:7260852 original size:26 final size:24
Alignment explanation
Indices: 7260757--7260853 Score: 81
Period size: 26 Copynumber: 3.9 Consensus size: 24
7260747 TCGAGCTATG
* *
7260757 ATCGGTAAGCTCATTCTGAGTTGAA
1 ATCGGTAAGCTCATAC-GAGCTGAA
*
7260782 GAACGGTAAGCTC-TATCGAGCTGAA
1 -ATCGGTAAGCTCATA-CGAGCTGAA
* **
7260807 AT-TGTAAGCTCATAAAAGCTGATA
1 ATCGGTAAGCTCATACGAGCTGA-A
7260831 TATCGGTAAGCTCATACGAGCTG
1 -ATCGGTAAGCTCATACGAGCTG
7260854 TGGTGAGTCC
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
23 14 0.25
24 4 0.07
25 10 0.18
26 28 0.50
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (24 bp):
ATCGGTAAGCTCATACGAGCTGAA
Found at i:7265326 original size:6 final size:7
Alignment explanation
Indices: 7265309--7265336 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
7265299 TTTTTAAGTT
7265309 TTTTTAA
1 TTTTTAA
7265316 TTTTTAA
1 TTTTTAA
7265323 TTTTTAA
1 TTTTTAA
7265330 TTTTTAA
1 TTTTTAA
7265337 GTATCAATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:7267230 original size:24 final size:24
Alignment explanation
Indices: 7267203--7267254 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
7267193 TTAGTAAGTC
*
7267203 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
7267227 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
7267251 AAAT
1 AAAT
7267255 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:7268935 original size:24 final size:24
Alignment explanation
Indices: 7268908--7268959 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
7268898 TTAGTAAGTC
*
7268908 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
7268932 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
7268956 AAAT
1 AAAT
7268960 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:7270436 original size:46 final size:44
Alignment explanation
Indices: 7270384--7270487 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 44
7270374 AGTAATTTAT
*
7270384 TTTTTATATTTTTAATAAAATAGAAATTCTTTTGAATAAGGCACTA
1 TTTTTATATTTTT-AT-AAATAGAAATTCTTTTGAATAAGGCAATA
* *
7270430 TTTTTATA--TTT-TAAATAGAAGTTCTTTTGAATAAGGTAATA
1 TTTTTATATTTTTATAAATAGAAATTCTTTTGAATAAGGCAATA
7270471 TTTTTAATATTTTTATA
1 TTTTT-ATATTTTTATA
7270488 TTTTTAATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
41 31 0.61
42 4 0.08
44 6 0.12
45 2 0.04
46 8 0.16
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.51
Consensus pattern (44 bp):
TTTTTATATTTTTATAAATAGAAATTCTTTTGAATAAGGCAATA
Found at i:7270483 original size:8 final size:9
Alignment explanation
Indices: 7270466--7270496 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
7270456 TTGAATAAGG
7270466 TAATATTTT
1 TAATATTTT
7270475 TAATATTTT
1 TAATATTTT
7270484 T-ATATTTT
1 TAATATTTT
7270492 TAATA
1 TAATA
7270497 AAATAGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TAATATTTT
Found at i:7273653 original size:126 final size:127
Alignment explanation
Indices: 7273425--7273696 Score: 381
Period size: 126 Copynumber: 2.1 Consensus size: 127
7273415 AAGGCCAAAC
*
7273425 AAGAACTACTGTAGAAAAAGAGCGTCCACATGAGAGCTTTTTTCCGTAATTTTGCTGACAGTGAA
1 AAGAACTACTGTAGAAAAAGAGCGTCCACATGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGAA
* * *
7273490 TCCTACTTGAAGCATTTTTAACACTATTTGTTTAGAACCGTCTTCTC-AAATTTATTTTTTT
66 TCCTACTTGAAACATTTTTAACACTATTTGTTCAGAACCGTCTTCTCAAAATTAATTTTTTT
* * *
7273551 AAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
1 AAGAACTACTGTAGAAAAAGAGCGTCCACATGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGAA
* * * * *
7273616 TCTTGA-TTGAAACGTTTTTTACATTATATT-TTCAGAACTGTCTTCTCAAAATTAATTTTTTT
66 TCCT-ACTTGAAACATTTTTAACACTAT-TTGTTCAGAACCGTCTTCTCAAAATTAATTTTTTT
7273678 -AGAAACTACTGTAGAAAAA
1 AAG-AACTACTGTAGAAAAA
7273697 AAAACAAAAG
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
126 98 0.75
127 32 0.25
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (127 bp):
AAGAACTACTGTAGAAAAAGAGCGTCCACATGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGAA
TCCTACTTGAAACATTTTTAACACTATTTGTTCAGAACCGTCTTCTCAAAATTAATTTTTTT
Found at i:7273808 original size:34 final size:33
Alignment explanation
Indices: 7273746--7273872 Score: 125
Period size: 34 Copynumber: 3.8 Consensus size: 33
7273736 CTAAACACAA
* *
7273746 AATTATTTAAAAAAC-TAAA-CCATAATTTAATT
1 AATTTTTTAAAAACCATAAATCC-TAATTTAATT
7273778 AATTTTCTTAAAAACCATAAATCCTAATTTAATT
1 AATTTT-TTAAAAACCATAAATCCTAATTTAATT
* *
7273812 AATTTATTTAAAACCCCAAAAAT-CTAATTTAATT
1 AATTT-TTTAAAA-ACCATAAATCCTAATTTAATT
* * *
7273846 AATTTTTAAAAAAACCCTAAACCCTAA
1 AATTTTT-TAAAAACCATAAATCCTAA
7273873 ACATACCAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
32 5 0.06
33 15 0.19
34 49 0.62
35 10 0.13
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (33 bp):
AATTTTTTAAAAACCATAAATCCTAATTTAATT
Found at i:7300728 original size:107 final size:108
Alignment explanation
Indices: 7300598--7300812 Score: 414
Period size: 107 Copynumber: 2.0 Consensus size: 108
7300588 ATTTTCATAA
7300598 ATATTTCAAAAAAATAATAAATTTTCAAAGGGAATAAAATATAAAACTTTTGTATGGTATTTTTT
1 ATATTTCAAAAAAATAATAAATTTTCAAAGGGAATAAAATATAAAACTTTTGTATGGTATTTTTT
*
7300663 GAAAACATTTTTATATAAAATTTTTAAGGTATTTTTACTATTT
66 GAAAACATTTTTATATAAAATTTTTAAGGTAATTTTACTATTT
7300706 ATATTTC-AAAAAATAATAAATTTTCAAAGGGAATAAAATATAAAACTTTTGTATGGTATTTTTT
1 ATATTTCAAAAAAATAATAAATTTTCAAAGGGAATAAAATATAAAACTTTTGTATGGTATTTTTT
7300770 GAAAACATTTTTATATAAAATTTTTAAGGTAATTTTACTATTT
66 GAAAACATTTTTATATAAAATTTTTAAGGTAATTTTACTATTT
7300813 TAAATATAAA
Statistics
Matches: 106, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
107 99 0.93
108 7 0.07
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (108 bp):
ATATTTCAAAAAAATAATAAATTTTCAAAGGGAATAAAATATAAAACTTTTGTATGGTATTTTTT
GAAAACATTTTTATATAAAATTTTTAAGGTAATTTTACTATTT
Done.