Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 18 of 93
Found at i:8087901 original size:66 final size:65
Alignment explanation
Indices: 8087817--8088005 Score: 225
Period size: 66 Copynumber: 2.9 Consensus size: 65
8087807 GATGTTGCAT
* * * *
8087817 TGAATCCAAGATTAGAAATCTTCCAAATTGTCATCGAGTTTTGTTATTGATCCATCTATAAACCC
1 TGAATCCAAGATTAGAAATC-TCCAAATTGACATCGAGTTTTGCTATCGATCCATCCATAAACCC
*
8087882 T
65 C
* * * * * *
8087883 TGGATCCAAGATTAGAAATCTCTAAACTTGACATCGAATTTTGCTATCAATTCATCCATGAACCC
1 TGAATCCAAGATTAGAAATCTCCAAA-TTGACATCGAGTTTTGCTATCGATCCATCCATAAACCC
8087948 C
65 C
* * *
8087949 TGAATGCAAGATTACAAATCTCCAGAATTGACATCGGGTTTTGCTATCGATCCATCC
1 TGAATCCAAGATTAGAAATCTCCA-AATTGACATCGAGTTTTGCTATCGATCCATCC
8088006 TTGAATCTTG
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
65 5 0.05
66 95 0.93
67 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (65 bp):
TGAATCCAAGATTAGAAATCTCCAAATTGACATCGAGTTTTGCTATCGATCCATCCATAAACCCC
Found at i:8089859 original size:56 final size:57
Alignment explanation
Indices: 8089786--8089897 Score: 138
Period size: 56 Copynumber: 2.0 Consensus size: 57
8089776 TAAATAATTA
* *
8089786 TCTTTAAATTATCATTATAACTATTATTTATAGTATT-TTTAAATTTCAAATTATTTC
1 TCTTTAAATTATCATTATAACTATTATTTATAATATTATGT-AATTTCAAATTATTTC
* * * * *
8089843 TCTTT-AATTATTATTATTATTTTTATTTATAATATTATGTAATTTTAAATTATTT
1 TCTTTAAATTATCATTATAACTATTATTTATAATATTATGTAATTTCAAATTATTT
8089898 TTAATAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
56 40 0.85
57 7 0.15
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (57 bp):
TCTTTAAATTATCATTATAACTATTATTTATAATATTATGTAATTTCAAATTATTTC
Found at i:8090725 original size:43 final size:43
Alignment explanation
Indices: 8090664--8090750 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
8090654 AGTTATTGTC
* *
8090664 CTTTGTAATTGCATTTGCACTCCAATTTCTGTTCACCTTTAAA
1 CTTTGTAATTGCATTTGCACTACAATTTCTGTTCACCTTAAAA
*
8090707 CTTTGTAATTGCATTTGCACTACAATTTCTTTTCACCTTAAAA
1 CTTTGTAATTGCATTTGCACTACAATTTCTGTTCACCTTAAAA
8090750 C
1 C
8090751 AAACTTAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.44
Consensus pattern (43 bp):
CTTTGTAATTGCATTTGCACTACAATTTCTGTTCACCTTAAAA
Found at i:8100313 original size:26 final size:26
Alignment explanation
Indices: 8100283--8100334 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
8100273 TAATTGAGTC
*
8100283 TTTGACAATAAACCGATATCAATAAA
1 TTTGACAATAAACCGAGATCAATAAA
*
8100309 TTTGACAATAAACCGAGATTAATAAA
1 TTTGACAATAAACCGAGATCAATAAA
8100335 GGCCGTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (26 bp):
TTTGACAATAAACCGAGATCAATAAA
Found at i:8101899 original size:23 final size:25
Alignment explanation
Indices: 8101848--8101907 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 25
8101838 TATTATTAAC
8101848 ATATAACTTATATCTATTAAAAAAA
1 ATATAACTTATATCTATTAAAAAAA
* *
8101873 ATATAACTTATATC-ATT-TAAAAT
1 ATATAACTTATATCTATTAAAAAAA
*
8101896 ATATAACCTATA
1 ATATAACTTATA
8101908 ATTACATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 15 0.47
24 3 0.09
25 14 0.44
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (25 bp):
ATATAACTTATATCTATTAAAAAAA
Found at i:8102536 original size:17 final size:16
Alignment explanation
Indices: 8102507--8102538 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
8102497 TTTAATAAAT
8102507 TTTTTATTTTTTATTA
1 TTTTTATTTTTTATTA
8102523 TTTTTATATTTTTATT
1 TTTTTAT-TTTTTATT
8102539 TTGAATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTATTTTTTATTA
Found at i:8103098 original size:26 final size:27
Alignment explanation
Indices: 8103059--8103113 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
8103049 TTTATATTAT
*
8103059 ATGACATTAACATGTTAACATGATATG
1 ATGACATTAACATGTTAACATGACATG
8103086 ATGACA-TAACATGTTAACATGACATG
1 ATGACATTAACATGTTAACATGACATG
8103112 AT
1 AT
8103114 AATATAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (27 bp):
ATGACATTAACATGTTAACATGACATG
Found at i:8103120 original size:26 final size:26
Alignment explanation
Indices: 8103066--8103121 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
8103056 TATATGACAT
* *
8103066 TAACATGTTAACATGATATGATGACA
1 TAACATGTTAACATGACATGATAACA
*
8103092 TAACATGTTAACATGACATGATAATA
1 TAACATGTTAACATGACATGATAACA
8103118 TAAC
1 TAAC
8103122 TATATGATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (26 bp):
TAACATGTTAACATGACATGATAACA
Found at i:8106770 original size:27 final size:27
Alignment explanation
Indices: 8106716--8106771 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
8106706 GAAATCTGAG
* **
8106716 TTTTATATCTTTACATGTTACCGTTGT
1 TTTTACATCTTTACATGTTACCCCTGT
8106743 TTTTACATCTTTACATGTTACCCCTGT
1 TTTTACATCTTTACATGTTACCCCTGT
8106770 TT
1 TT
8106772 ATGCAGAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.18, C:0.20, G:0.09, T:0.54
Consensus pattern (27 bp):
TTTTACATCTTTACATGTTACCCCTGT
Found at i:8110466 original size:22 final size:21
Alignment explanation
Indices: 8110424--8110483 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
8110414 AGAGAGTTTT
8110424 CAAAATAAAAAAAATAGAGAA
1 CAAAATAAAAAAAATAGAGAA
8110445 CAAAATGAAAAACAAAGTAGA-AA
1 CAAAAT-AAAAA-AAA-TAGAGAA
*
8110468 -AAAAAAAGAAAAAATA
1 CAAAATAA-AAAAAATA
8110484 ATACTTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
20 2 0.06
21 11 0.32
22 12 0.35
23 5 0.15
24 4 0.12
ACGTcount: A:0.77, C:0.05, G:0.10, T:0.08
Consensus pattern (21 bp):
CAAAATAAAAAAAATAGAGAA
Found at i:8110473 original size:24 final size:22
Alignment explanation
Indices: 8110425--8110486 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 22
8110415 GAGAGTTTTC
* *
8110425 AAAAT-AAAAAAAATAGAGAAC
1 AAAATGAAAAAAAATAGAAAAA
8110446 AAAATGAAAAACAAAGTAGAAAAA
1 AAAATGAAAAA-AAA-TAGAAAAA
*
8110470 AAAAAGAAAAAATAATA
1 AAAATGAAAAAA-AATA
8110487 CTTTAATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 5 0.15
22 5 0.15
23 6 0.18
24 18 0.53
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (22 bp):
AAAATGAAAAAAAATAGAAAAA
Found at i:8111509 original size:18 final size:18
Alignment explanation
Indices: 8111486--8111521 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8111476 AGAAGGTGGT
8111486 AGTGCATTAATTTATGTC
1 AGTGCATTAATTTATGTC
8111504 AGTGCATTAATTTATGTC
1 AGTGCATTAATTTATGTC
8111522 CTTACTTGAT
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:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (18 bp):
AGTGCATTAATTTATGTC
Found at i:8113821 original size:7 final size:7
Alignment explanation
Indices: 8113809--8113846 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
8113799 ATAGTTAACA
8113809 GCTGTGT
1 GCTGTGT
8113816 GCTGTGT
1 GCTGTGT
8113823 GCTGTGT
1 GCTGTGT
8113830 GCTGTGT
1 GCTGTGT
8113837 GCTGTGT
1 GCTGTGT
8113844 GCT
1 GCT
8113847 TTTATACAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.00, C:0.16, G:0.42, T:0.42
Consensus pattern (7 bp):
GCTGTGT
Found at i:8129572 original size:22 final size:22
Alignment explanation
Indices: 8129544--8129589 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
8129534 TTGAGTATGA
*
8129544 TAAAATTTATATCTATTCATAT
1 TAAAATTTAAATCTATTCATAT
8129566 TAAAATTTAAATCTATTCATAT
1 TAAAATTTAAATCTATTCATAT
8129588 TA
1 TA
8129590 TCTTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAAATTTAAATCTATTCATAT
Found at i:8134656 original size:29 final size:30
Alignment explanation
Indices: 8134610--8134670 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
8134600 TAAATTAGTT
*
8134610 AAGTTTTAAAAAATTAAATTATTTAATTTA
1 AAGTTTTAAAAAATTAAATTAGTTAATTTA
* *
8134640 AAGTTTTTATAAA-TAAATTAGTTAATTTA
1 AAGTTTTAAAAAATTAAATTAGTTAATTTA
8134669 AA
1 AA
8134671 TAACTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (30 bp):
AAGTTTTAAAAAATTAAATTAGTTAATTTA
Found at i:8137200 original size:22 final size:22
Alignment explanation
Indices: 8137175--8137218 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
8137165 ACACTTGTGG
*
8137175 CTTTTATATTTTTACTATTTAT
1 CTTTAATATTTTTACTATTTAT
* * *
8137197 CTTTAATTTTTTTTCTTTTTAT
1 CTTTAATATTTTTACTATTTAT
8137219 TCATTTTTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (22 bp):
CTTTAATATTTTTACTATTTAT
Found at i:8149520 original size:2 final size:2
Alignment explanation
Indices: 8149513--8149553 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
8149503 TTAAAGTCAG
8149513 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8149553 T
1 T
8149554 TTTTTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:8154092 original size:33 final size:33
Alignment explanation
Indices: 8154050--8154123 Score: 139
Period size: 33 Copynumber: 2.2 Consensus size: 33
8154040 ATATGAAGAA
8154050 TCAAGTAGCAGTGATTACAGGGATGTTGGTGAG
1 TCAAGTAGCAGTGATTACAGGGATGTTGGTGAG
8154083 TCAAGTAGCAGTGATTACAGGGATGTTGGTGAG
1 TCAAGTAGCAGTGATTACAGGGATGTTGGTGAG
*
8154116 TCAGGTAG
1 TCAAGTAG
8154124 ATCGTATCCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.27
Consensus pattern (33 bp):
TCAAGTAGCAGTGATTACAGGGATGTTGGTGAG
Found at i:8156077 original size:2 final size:2
Alignment explanation
Indices: 8156065--8156110 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
8156055 ACATACATAC
* * * *
8156065 AT AT CT AT AT AT AT AT AT AA AT AC AT AT CT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8156107 AT AT
1 AT AT
8156111 TTGTTTTATG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:8156089 original size:24 final size:24
Alignment explanation
Indices: 8156061--8156107 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
8156051 GCATACATAC
8156061 ATACATATCTATATATATATATAA
1 ATACATATCTATATATATATATAA
8156085 ATACATATCTATATATATATATA
1 ATACATATCTATATATATATATA
8156108 TATTTGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (24 bp):
ATACATATCTATATATATATATAA
Found at i:8161641 original size:20 final size:19
Alignment explanation
Indices: 8161612--8161664 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
8161602 ATTAGGTTAC
*
8161612 TTTTAAGTTAGTTATTTTAA
1 TTTTATGTTA-TTATTTTAA
*
8161632 TTTTATGTTATTTTTTTAA
1 TTTTATGTTATTATTTTAA
8161651 -TTTAT-TTATTATTT
1 TTTTATGTTATTATTT
8161665 ATTAGTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 8 0.27
18 5 0.17
19 8 0.27
20 9 0.30
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.70
Consensus pattern (19 bp):
TTTTATGTTATTATTTTAA
Found at i:8161650 original size:19 final size:20
Alignment explanation
Indices: 8161612--8161653 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
8161602 ATTAGGTTAC
8161612 TTTTAAGTTAGTTATTTTAA
1 TTTTAAGTTAGTTATTTTAA
* *
8161632 TTTTATGTTA-TTTTTTTAA
1 TTTTAAGTTAGTTATTTTAA
8161651 TTT
1 TTT
8161654 ATTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (20 bp):
TTTTAAGTTAGTTATTTTAA
Found at i:8161659 original size:17 final size:17
Alignment explanation
Indices: 8161626--8161683 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 17
8161616 AAGTTAGTTA
8161626 TTTTAATTTTATGTTATTT
1 TTTTAA-TTTAT-TTATTT
8161645 TTTTAATTTATTTATTAT
1 TTTTAATTTATTTATT-T
*
8161663 TTATTAGTTT-TTATATTT
1 TT-TTAATTTATT-TATTT
8161681 TTT
1 TTT
8161684 GTAAGATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 6 0.17
18 13 0.37
19 16 0.46
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTAATTTATTTATTT
Found at i:8162163 original size:20 final size:18
Alignment explanation
Indices: 8162138--8162176 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8162128 TATTATTTTG
8162138 TTTTCTTTCTTGACTTTTAA
1 TTTTC-TTCTT-ACTTTTAA
*
8162158 TTTTCTTGTTACTTTTAA
1 TTTTCTTCTTACTTTTAA
8162176 T
1 T
8162177 GGTTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 4 0.22
20 5 0.28
ACGTcount: A:0.15, C:0.13, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTCTTCTTACTTTTAA
Found at i:8162164 original size:16 final size:17
Alignment explanation
Indices: 8162143--8162176 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8162133 TTTTGTTTTC
8162143 TTTCTTG-ACTTTTAAT
1 TTTCTTGTACTTTTAAT
8162159 TTTCTTGTTACTTTTAAT
1 TTTCTTG-TACTTTTAAT
8162177 GGTTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTCTTGTACTTTTAAT
Found at i:8163191 original size:2 final size:2
Alignment explanation
Indices: 8163184--8163212 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8163174 ACCATCCATC
8163184 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8163213 AATACATGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8172331 original size:36 final size:36
Alignment explanation
Indices: 8172282--8172352 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
8172272 CTATCAGATG
*
8172282 ATAACAACTAATGCCTATAGCTTTGGGAATTGAAAT
1 ATAACAACCAATGCCTATAGCTTTGGGAATTGAAAT
8172318 ATAACAACCAATGCCTATAGCTTTGGGAATTGAAA
1 ATAACAACCAATGCCTATAGCTTTGGGAATTGAAA
8172353 AACCAATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (36 bp):
ATAACAACCAATGCCTATAGCTTTGGGAATTGAAAT
Found at i:8181625 original size:64 final size:64
Alignment explanation
Indices: 8181524--8181650 Score: 193
Period size: 64 Copynumber: 2.0 Consensus size: 64
8181514 GTGCACATTA
* * * *
8181524 GCAATAGGGGACAGCAGAACTCAACCAAAACACCTCACAACCCTTTGG-AGAGGCACTATTGATG
1 GCAATAAGGGACAGCACAACTCAACCAAAACACCTCACAACACTTGGGCA-AGGCACTATTGATG
*
8181588 GCAATAAGGGACAGCACAACTCAACCAAAGCACCTCACAACACTTGGGCAAGGCACTATTGAT
1 GCAATAAGGGACAGCACAACTCAACCAAAACACCTCACAACACTTGGGCAAGGCACTATTGAT
8181651 CAAGTGTTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 56 0.98
65 1 0.02
ACGTcount: A:0.37, C:0.28, G:0.20, T:0.15
Consensus pattern (64 bp):
GCAATAAGGGACAGCACAACTCAACCAAAACACCTCACAACACTTGGGCAAGGCACTATTGATG
Found at i:8184838 original size:12 final size:12
Alignment explanation
Indices: 8184798--8184840 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
8184788 CAGCTGCTGC
8184798 CTTCTTTTCCTT
1 CTTCTTTTCCTT
8184810 -TTCCTTTTCCTT
1 CTT-CTTTTCCTT
*
8184822 CTTCTTTTTCTT
1 CTTCTTTTCCTT
8184834 CTTCTTT
1 CTTCTTT
8184841 GCTGCAGCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 2 0.07
12 24 0.86
13 2 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (12 bp):
CTTCTTTTCCTT
Found at i:8189903 original size:4 final size:4
Alignment explanation
Indices: 8189896--8189920 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8189886 TATGTCTATC
8189896 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
8189921 TTGTAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:8198568 original size:47 final size:48
Alignment explanation
Indices: 8198517--8198612 Score: 140
Period size: 47 Copynumber: 2.0 Consensus size: 48
8198507 AAGCACAGTT
* * * *
8198517 AGAATTTGTTGTTTCCAAAAATAAACCAATAAACTGAAAACAC-ACAA
1 AGAATCTGTTGTTTCCAAAAACAAACCAACAAACTCAAAACACAACAA
*
8198564 AGAATCTGTTGTTTCCAAACACAAACCAACAAACTCAAAACACAACAA
1 AGAATCTGTTGTTTCCAAAAACAAACCAACAAACTCAAAACACAACAA
8198612 A
1 A
8198613 ACTAATTTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 38 0.88
48 5 0.12
ACGTcount: A:0.51, C:0.22, G:0.07, T:0.20
Consensus pattern (48 bp):
AGAATCTGTTGTTTCCAAAAACAAACCAACAAACTCAAAACACAACAA
Found at i:8200476 original size:28 final size:25
Alignment explanation
Indices: 8200438--8200493 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 25
8200428 GTCTTATTTT
* *
8200438 ATTTTTTAAATATTGATGATTTTATA
1 ATTTTTTAAATATTAAT-AATTTATA
8200464 ATTTATTTAAAATATTAATAATTTATA
1 ATTT-TTT-AAATATTAATAATTTATA
8200491 ATT
1 ATT
8200494 AATACATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 13 0.50
28 9 0.35
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
ATTTTTTAAATATTAATAATTTATA
Found at i:8204513 original size:3 final size:3
Alignment explanation
Indices: 8204505--8204530 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8204495 GAGTAAGGTT
8204505 GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GA
8204531 TGATGATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:8208415 original size:100 final size:100
Alignment explanation
Indices: 8208242--8208440 Score: 353
Period size: 100 Copynumber: 2.0 Consensus size: 100
8208232 GGTGGGGTGA
* * * *
8208242 GATAAAGCAGAAATCATCTTTTTGAGCAGTTTATCAGTCTATGTTGGAATTGAGGACTTCTGAAG
1 GATAAAGCAGAAAACATCTTTTTGAGCAGTTTATCAGTCTATGTTGGAATTCACGACTTCTAAAG
8208307 GAGGTTTAAAAGCTCCTCAGGGACCTCAAAGGATG
66 GAGGTTTAAAAGCTCCTCAGGGACCTCAAAGGATG
*
8208342 GATAAAGCAGAAAACATCTTTTTGAGCAGTTTATCAGTCTATGTTGGAATTCACGACTTTTAAAG
1 GATAAAGCAGAAAACATCTTTTTGAGCAGTTTATCAGTCTATGTTGGAATTCACGACTTCTAAAG
8208407 GAGGTTTAAAAGCTCCTCAGGGACCTCAAAGGAT
66 GAGGTTTAAAAGCTCCTCAGGGACCTCAAAGGAT
8208441 AGGTTAGTGT
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 94 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (100 bp):
GATAAAGCAGAAAACATCTTTTTGAGCAGTTTATCAGTCTATGTTGGAATTCACGACTTCTAAAG
GAGGTTTAAAAGCTCCTCAGGGACCTCAAAGGATG
Found at i:8211576 original size:19 final size:19
Alignment explanation
Indices: 8211549--8211588 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8211539 GCCATTAAGG
* *
8211549 TATTATATTTGCCTTTTAA
1 TATTATATTTACCTTTCAA
*
8211568 TATTTTATTTACCTTTCAA
1 TATTATATTTACCTTTCAA
8211587 TA
1 TA
8211589 GAATCACAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (19 bp):
TATTATATTTACCTTTCAA
Found at i:8215281 original size:22 final size:23
Alignment explanation
Indices: 8215256--8215301 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
8215246 AAGTTATCTT
*
8215256 GCTTTCACTGTATATA-AAAAAA
1 GCTTTCACTATATATATAAAAAA
8215278 GCTTTCACTATATATATAAAAAA
1 GCTTTCACTATATATATAAAAAA
8215301 G
1 G
8215302 TTATTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.33
Consensus pattern (23 bp):
GCTTTCACTATATATATAAAAAA
Found at i:8228457 original size:38 final size:37
Alignment explanation
Indices: 8228405--8228498 Score: 107
Period size: 38 Copynumber: 2.5 Consensus size: 37
8228395 CCAGTTTCCA
* * * *
8228405 AAAGAACAGCAAAAAGAAAACAAAAACATGAAAAAAG
1 AAAGAAAAGGAAAAAGAAAAAAAAAAAATGAAAAAAG
* * *
8228442 AAGGGAAAGGAAAAAAATAAAAAAAAAAATGAAAAAAG
1 AAAGAAAAGGAAAAAGA-AAAAAAAAAAATGAAAAAAG
*
8228480 AAAGAAAAGGACAAAGAAA
1 AAAGAAAAGGAAAAAGAAA
8228499 CACACAGTAA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
37 14 0.31
38 31 0.69
ACGTcount: A:0.74, C:0.05, G:0.17, T:0.03
Consensus pattern (37 bp):
AAAGAAAAGGAAAAAGAAAAAAAAAAAATGAAAAAAG
Found at i:8231859 original size:23 final size:22
Alignment explanation
Indices: 8231833--8231879 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
8231823 TTAATAAATT
* *
8231833 TAAAGATTTATAATCTTTAAAAA
1 TAAAGAATCATAAT-TTTAAAAA
*
8231856 TAAATAATCATAATTTTAAAAA
1 TAAAGAATCATAATTTTAAAAA
8231878 TA
1 TA
8231880 TTTATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAAGAATCATAATTTTAAAAA
Found at i:8232098 original size:21 final size:20
Alignment explanation
Indices: 8232074--8232113 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8232064 AGATATAAAA
8232074 AAAATTAAAATTAAATATTTT
1 AAAATTAAAA-TAAATATTTT
**
8232095 AAAATTTTAATAAATATTT
1 AAAATTAAAATAAATATTT
8232114 ATATGAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATTAAAATAAATATTTT
Found at i:8234991 original size:2 final size:2
Alignment explanation
Indices: 8234984--8235012 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8234974 TCAAATCCCA
8234984 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
8235013 GAATTGAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8235038 original size:19 final size:19
Alignment explanation
Indices: 8235014--8235076 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
8235004 ACACACACAG
8235014 AATTGAACTGGTAATCTTC
1 AATTGAACTGGTAATCTTC
* **
8235033 AATTGATA-TGTGCACA-C-AG
1 AATTGA-ACTG-GTA-ATCTTC
8235052 AATTGAACTGGTAATCTTC
1 AATTGAACTGGTAATCTTC
8235071 AATTGA
1 AATTGA
8235077 TATGTGCTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 1 0.03
18 4 0.12
19 22 0.69
20 4 0.12
21 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (19 bp):
AATTGAACTGGTAATCTTC
Found at i:8235058 original size:38 final size:38
Alignment explanation
Indices: 8235007--8235083 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
8234997 CACACACACA
8235007 CACACAGAATTGAACTGGTAATCTTCAATTGATATGTG
1 CACACAGAATTGAACTGGTAATCTTCAATTGATATGTG
8235045 CACACAGAATTGAACTGGTAATCTTCAATTGATATGTG
1 CACACAGAATTGAACTGGTAATCTTCAATTGATATGTG
8235083 C
1 C
8235084 TATATATGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (38 bp):
CACACAGAATTGAACTGGTAATCTTCAATTGATATGTG
Found at i:8237240 original size:15 final size:15
Alignment explanation
Indices: 8237220--8237250 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8237210 GCAATTGTTG
*
8237220 ATTCCTCATGAGATA
1 ATTCCTCATGACATA
8237235 ATTCCTCATGACATA
1 ATTCCTCATGACATA
8237250 A
1 A
8237251 ATTGTTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (15 bp):
ATTCCTCATGACATA
Found at i:8237299 original size:19 final size:19
Alignment explanation
Indices: 8237275--8237319 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
8237265 TTCTACATTA
*
8237275 AATTGTTAATAATTTCAAC
1 AATTGTAAATAATTTCAAC
8237294 AATTGTAAATAATTTCAAC
1 AATTGTAAATAATTTCAAC
8237313 AATTGTA
1 AATTGTA
8237320 CAGCAGATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (19 bp):
AATTGTAAATAATTTCAAC
Found at i:8237902 original size:57 final size:57
Alignment explanation
Indices: 8237830--8237944 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
8237820 TTCATAAAAA
*
8237830 GTGACACATTTAGACCTAGAGAATTCAACAGGGGAACAAGAGGTGGTGCAATCCCTT
1 GTGACACATTAAGACCTAGAGAATTCAACAGGGGAACAAGAGGTGGTGCAATCCCTT
8237887 GTGACACATTAAGACCTAGAGAATTCAACAGGGGAACAAGAGGTGGTGCAATCCCTT
1 GTGACACATTAAGACCTAGAGAATTCAACAGGGGAACAAGAGGTGGTGCAATCCCTT
8237944 G
1 G
8237945 AAAACTTGTA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (57 bp):
GTGACACATTAAGACCTAGAGAATTCAACAGGGGAACAAGAGGTGGTGCAATCCCTT
Found at i:8243757 original size:93 final size:92
Alignment explanation
Indices: 8243590--8243770 Score: 292
Period size: 93 Copynumber: 2.0 Consensus size: 92
8243580 TTTATAGAAA
* *
8243590 ACTTCTCCACCCAGATAAGCTACTAAGGCATGGTACACTGCAAAGTCATTGGTAAATGCAATGTC
1 ACTTCTCCACCCAGATAAGCTACCAAGGCATGGTAAACTGCAAAGTCATTGGTAAATGCAATGTC
8243655 CTTAATGATCAAGATCAAAGGGATCAG
66 CTTAATGATCAAGATCAAAGGGATCAG
*
8243682 ACTTCTCCACCCAGATAAGCTACCAAGGCATGG-AAACTGCAAAAAGTCATTGGTGAATGCAATG
1 ACTTCTCCACCCAGATAAGCTACCAAGGCATGGTAAACTGC--AAAGTCATTGGTAAATGCAATG
* *
8243746 TCCTTCATGATCTAGATCAAAGGGA
64 TCCTTAATGATCAAGATCAAAGGGA
8243771 GCTCATCCCA
Statistics
Matches: 82, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
91 6 0.07
92 32 0.39
93 44 0.54
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (92 bp):
ACTTCTCCACCCAGATAAGCTACCAAGGCATGGTAAACTGCAAAGTCATTGGTAAATGCAATGTC
CTTAATGATCAAGATCAAAGGGATCAG
Found at i:8248264 original size:58 final size:56
Alignment explanation
Indices: 8248187--8248295 Score: 191
Period size: 58 Copynumber: 1.9 Consensus size: 56
8248177 ATGGGAGCAA
8248187 GGAGGAAAGAGAGAAAAAAAGAAAGAAAAGAAGAAGAGCCCATCACCAGAGTGCGG
1 GGAGGAAAGAGAGAAAAAAAGAAAGAAAAGAAGAAGAGCCCATCACCAGAGTGCGG
*
8248243 GGAGGAAGGAGAGAAGTAAAAAGAAAGAAAAGAAGAAGAGCCCATCACCAGAG
1 GGAGGAAAGAGAGAA--AAAAAGAAAGAAAAGAAGAAGAGCCCATCACCAGAG
8248296 AGCAACAAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
56 14 0.28
58 36 0.72
ACGTcount: A:0.52, C:0.12, G:0.32, T:0.04
Consensus pattern (56 bp):
GGAGGAAAGAGAGAAAAAAAGAAAGAAAAGAAGAAGAGCCCATCACCAGAGTGCGG
Found at i:8248332 original size:58 final size:56
Alignment explanation
Indices: 8248196--8248341 Score: 170
Period size: 58 Copynumber: 2.6 Consensus size: 56
8248186 AGGAGGAAAG
* **** * *
8248196 AGAGAAAAAAAGAAAGAAAAGAAGAAGAGCCCATCACCAGAGTGCGGGGAGGAAGG
1 AGAGAAAAAAAGAAAGAAAAGAAGAAGAGCCCATCACCAGAGAGCAACAAAGAAGA
8248252 AGAGAAGTAAAAAGAAAGAAAAGAAGAAGAGCCCATCACCAGAGAGCAACAAAGAAGA
1 AGAGAA--AAAAAGAAAGAAAAGAAGAAGAGCCCATCACCAGAGAGCAACAAAGAAGA
**
8248310 AGAGAAAAAATAGTTA-AAAA-AAGAAGAGCCCA
1 AGAGAAAAAA-AGAAAGAAAAGAAGAAGAGCCCA
8248342 ATCAAAGGAC
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
55 12 0.15
56 14 0.18
57 3 0.04
58 49 0.63
ACGTcount: A:0.56, C:0.12, G:0.27, T:0.05
Consensus pattern (56 bp):
AGAGAAAAAAAGAAAGAAAAGAAGAAGAGCCCATCACCAGAGAGCAACAAAGAAGA
Found at i:8248813 original size:15 final size:15
Alignment explanation
Indices: 8248793--8248840 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
8248783 CAAGATTATT
*
8248793 TTCCCAACAATCACA
1 TTCCCAGCAATCACA
*
8248808 TTCCCAGCAATCATA
1 TTCCCAGCAATCACA
*
8248823 TTACCAGCAATCACA
1 TTCCCAGCAATCACA
8248838 TTC
1 TTC
8248841 TTACTAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.35, C:0.35, G:0.04, T:0.25
Consensus pattern (15 bp):
TTCCCAGCAATCACA
Found at i:8250463 original size:2 final size:2
Alignment explanation
Indices: 8250456--8250483 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8250446 AGATACGAGT
8250456 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8250484 TAATCTAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8251128 original size:30 final size:31
Alignment explanation
Indices: 8251077--8251135 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
8251067 ATCGGTCGGT
*
8251077 GATCGGTGCTCCCCAAAGGAAGGGAGCACTA
1 GATCAGTGCTCCCCAAAGGAAGGGAGCACTA
*
8251108 GATCAGTGCT-CCCAAGGGAAGGGAGCAC
1 GATCAGTGCTCCCCAAAGGAAGGGAGCAC
8251136 CGGTGCACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.29, C:0.25, G:0.34, T:0.12
Consensus pattern (31 bp):
GATCAGTGCTCCCCAAAGGAAGGGAGCACTA
Found at i:8251187 original size:47 final size:47
Alignment explanation
Indices: 8251129--8251219 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 47
8251119 CCAAGGGAAG
* *
8251129 GGAGCACCGGTGCACCCTTAAGAAGCTCGATTTGGGGCTC-CCAAAAA
1 GGAGCACCGGTGCACCCTTAAGAAGCCCGA-TCGGGGCTCACCAAAAA
* *
8251176 GGAGCACCGGTGCTCCCTTAAGGAGCCCGATCGGGGCTCACCAA
1 GGAGCACCGGTGCACCCTTAAGAAGCCCGATCGGGGCTCACCAA
8251220 GGGAGCTCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 8 0.21
47 31 0.79
ACGTcount: A:0.24, C:0.31, G:0.30, T:0.15
Consensus pattern (47 bp):
GGAGCACCGGTGCACCCTTAAGAAGCCCGATCGGGGCTCACCAAAAA
Found at i:8251626 original size:18 final size:20
Alignment explanation
Indices: 8251603--8251647 Score: 67
Period size: 18 Copynumber: 2.3 Consensus size: 20
8251593 TGATTAAAAT
8251603 ATTTTTATTATTT-TATAA-
1 ATTTTTATTATTTATATAAG
8251621 ATTTTTATTATTTAATATAAG
1 ATTTTTATTATTT-ATATAAG
8251642 ATTTTT
1 ATTTTT
8251648 TCACTTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.54
20 5 0.21
21 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
ATTTTTATTATTTATATAAG
Found at i:8258179 original size:2 final size:2
Alignment explanation
Indices: 8258174--8258202 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8258164 TTTTCCTAAT
8258174 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8258203 GTAAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8274879 original size:13 final size:14
Alignment explanation
Indices: 8274856--8274884 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8274846 CTGATAAGAC
8274856 ACGTCAACATGTTA
1 ACGTCAACATGTTA
8274870 ACGT-AACATGTTA
1 ACGTCAACATGTTA
8274883 AC
1 AC
8274885 ATGTCTAAAT
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:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (14 bp):
ACGTCAACATGTTA
Found at i:8276364 original size:4 final size:4
Alignment explanation
Indices: 8276355--8276379 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8276345 TTGATTCGAT
8276355 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
8276380 AGAAATTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:8278338 original size:26 final size:28
Alignment explanation
Indices: 8278284--8278342 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
8278274 AAATTTTCTA
* *
8278284 TAAATTTTTATTCTTTATTATGTTCAAT
1 TAAATTTTTATTATTTATTATGTTAAAT
*
8278312 TAAATTTTTA-TATTT-TTATTTTAAAT
1 TAAATTTTTATTATTTATTATGTTAAAT
8278338 TAAAT
1 TAAAT
8278343 AAATCTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 14 0.50
27 4 0.14
28 10 0.36
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (28 bp):
TAAATTTTTATTATTTATTATGTTAAAT
Found at i:8279800 original size:19 final size:19
Alignment explanation
Indices: 8279778--8279855 Score: 52
Period size: 19 Copynumber: 3.9 Consensus size: 19
8279768 AAAAAAGAGT
* *
8279778 AAAATAAAAATAAAAAAAC
1 AAAAGAAAAAGAAAAAAAC
*
8279797 AAAAGAAAGAGAAAAAAA-
1 AAAAGAAAAAGAAAAAAAC
*
8279815 AAGGAGAGAAAAAGGTAAAAATA-
1 AA--A-AGAAAAA-G-AAAAAAAC
8279838 AAAAGACAAAAGAAAAAA
1 AAAAGA-AAAAGAAAAAA
8279856 GAAAAAAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
18 2 0.04
19 20 0.43
20 5 0.11
21 11 0.23
22 1 0.02
23 8 0.17
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.05
Consensus pattern (19 bp):
AAAAGAAAAAGAAAAAAAC
Found at i:8280210 original size:29 final size:28
Alignment explanation
Indices: 8280178--8280264 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 28
8280168 TTAATAACAG
*
8280178 TTAATTAATTATTAAAAATAATAATTTAT
1 TTAATTAA-TAATAAAAATAATAATTTAT
*
8280207 TTAATTTAA-AAT-AAAATATATAAATTTAG
1 TTAA-TTAATAATAAAAATA-AT-AATTTAT
*
8280236 TTAAAT-ATAATAAAAATAATAATTTAT
1 TTAATTAATAATAAAAATAATAATTTAT
8280263 TT
1 TT
8280265 GAAAATTTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
27 15 0.31
28 10 0.20
29 20 0.41
30 4 0.08
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (28 bp):
TTAATTAATAATAAAAATAATAATTTAT
Found at i:8280604 original size:17 final size:18
Alignment explanation
Indices: 8280582--8280615 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8280572 AATTTTTTAT
8280582 TATATAATTCA-AAATAA
1 TATATAATTCATAAATAA
*
8280599 TATATATTTCATAAATA
1 TATATAATTCATAAATA
8280616 GAAAAACCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (18 bp):
TATATAATTCATAAATAA
Found at i:8286457 original size:2 final size:2
Alignment explanation
Indices: 8286450--8286486 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8286440 ATTTTTGCCA
8286450 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8286487 ACTAATATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:8294161 original size:2 final size:2
Alignment explanation
Indices: 8294148--8294180 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8294138 GACAAATTAA
*
8294148 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8294181 AAACAAACTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8294658 original size:34 final size:33
Alignment explanation
Indices: 8294610--8294685 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 33
8294600 ATTCGAGTTG
*
8294610 AAATTATTGATTAA-TTT-ATTTTAGTAATAATTAT
1 AAATT-TTTATTAATTTTAATTTTA--AATAATTAT
*
8294644 AATATTTTTATTAATTTTAATTTTAAATAATTTT
1 AA-ATTTTTATTAATTTTAATTTTAAATAATTAT
8294678 AAATTTTT
1 AAATTTTT
8294686 TTACTACAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
33 6 0.16
34 19 0.51
35 6 0.16
36 6 0.16
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (33 bp):
AAATTTTTATTAATTTTAATTTTAAATAATTAT
Found at i:8301140 original size:14 final size:13
Alignment explanation
Indices: 8301119--8301163 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
8301109 AATAGAATAA
8301119 AAATAATAAAAAT
1 AAATAATAAAAAT
8301132 AAATAAATAAAAAT
1 AAAT-AATAAAAAT
8301146 AAA-AATAATAATAT
1 AAATAATAA-AA-AT
8301160 AAAT
1 AAAT
8301164 TAAAAAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.18
13 6 0.21
14 17 0.61
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAATAAAAAT
Found at i:8301167 original size:29 final size:28
Alignment explanation
Indices: 8301114--8301171 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
8301104 GAACAAATAG
8301114 AATAAAAATAATAAAAATAAATAAATAAA
1 AATAAAAATAATAAAAATAAATAAA-AAA
* *
8301143 AATAAAAATAAT-AATATAAATTAAAAA
1 AATAAAAATAATAAAAATAAATAAAAAA
8301170 AA
1 AA
8301172 GTTTAAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 5 0.19
28 10 0.37
29 12 0.44
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (28 bp):
AATAAAAATAATAAAAATAAATAAAAAA
Found at i:8301169 original size:19 final size:20
Alignment explanation
Indices: 8301108--8301162 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
8301098 ACATATGAAC
*
8301108 AAATAGAATAAA-AATAATAA
1 AAATA-AATAAATAAAAATAA
8301128 AAATAAATAAATAAAAATAA
1 AAATAAATAAATAAAAATAA
8301148 AAAT-AATAATATAAA
1 AAATAAATAA-ATAAA
8301163 TTAAAAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 11 0.34
20 21 0.66
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (20 bp):
AAATAAATAAATAAAAATAA
Found at i:8305502 original size:10 final size:11
Alignment explanation
Indices: 8305480--8305508 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
8305470 ATCAGTTGTC
8305480 ATTTTCATATA
1 ATTTTCATATA
8305491 ATTTTC-TATA
1 ATTTTCATATA
8305501 ATTTTCAT
1 ATTTTCAT
8305509 TCTAGTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTTTCATATA
Found at i:8310386 original size:28 final size:28
Alignment explanation
Indices: 8310343--8310410 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
8310333 ATGAATATTT
*
8310343 ATCTAAAAAT-TCACTTATTTTAATTAA
1 ATCTAATAATCTCACTTATTTTAATTAA
8310370 ATCTAATAATCTCACTTATTTTAATTAA
1 ATCTAATAATCTCACTTATTTTAATTAA
*
8310398 ATCTAATTATCTC
1 ATCTAATAATCTC
8310411 GTGACAGTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 9 0.24
28 29 0.76
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (28 bp):
ATCTAATAATCTCACTTATTTTAATTAA
Found at i:8311461 original size:9 final size:8
Alignment explanation
Indices: 8311443--8311486 Score: 54
Period size: 9 Copynumber: 5.2 Consensus size: 8
8311433 TTATTTATTG
8311443 CTTTTGTTT
1 CTTTT-TTT
8311452 CTTTTATTT
1 CTTTT-TTT
8311461 CTTCTTTTT
1 CTT-TTTTT
8311470 -TTTTTTT
1 CTTTTTTT
8311477 CTTTTTTT
1 CTTTTTTT
8311485 CT
1 CT
8311487 CTCTCCTCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
7 5 0.16
8 11 0.34
9 14 0.44
10 2 0.06
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (8 bp):
CTTTTTTT
Found at i:8315390 original size:99 final size:99
Alignment explanation
Indices: 8315219--8315416 Score: 342
Period size: 99 Copynumber: 2.0 Consensus size: 99
8315209 CCTTGATCAG
* *
8315219 CTCATCAATTAAACCTTCCATTACAATATTCACACCATAAACTGTTGCATACATTTACCCTCTCA
1 CTCATAAACTAAACCTTCCATTACAATATTCACACCATAAACTGTTGCATACATTTACCCTCTCA
* *
8315284 ATATGATATTAGCCATTCGCATAGCCTCCAAGAA
66 ATATGATATTAACCATTCCCATAGCCTCCAAGAA
* *
8315318 CTCATAAACTAAACCTTCCATTACAATGTTCACACCATAAACTGTTGCATACTTTTACCCTCTCA
1 CTCATAAACTAAACCTTCCATTACAATATTCACACCATAAACTGTTGCATACATTTACCCTCTCA
8315383 ATATGATATTAACCATTCCCATAGCCTCCAAGAA
66 ATATGATATTAACCATTCCCATAGCCTCCAAGAA
8315417 AACCTACCCA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.34, C:0.29, G:0.07, T:0.30
Consensus pattern (99 bp):
CTCATAAACTAAACCTTCCATTACAATATTCACACCATAAACTGTTGCATACATTTACCCTCTCA
ATATGATATTAACCATTCCCATAGCCTCCAAGAA
Found at i:8328814 original size:19 final size:20
Alignment explanation
Indices: 8328792--8328841 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
8328782 TATTTCATGG
8328792 TATCTAATATATC-TTTTTA
1 TATCTAATATATCTTTTTTA
8328811 TATCTAAT-TCA-CTTTTTTA
1 TATCTAATAT-ATCTTTTTTA
8328830 TATCTAATATAT
1 TATCTAATATAT
8328842 ATATTTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 2 0.07
19 24 0.89
20 1 0.04
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (20 bp):
TATCTAATATATCTTTTTTA
Found at i:8331515 original size:13 final size:13
Alignment explanation
Indices: 8331497--8331521 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8331487 TTCCAGAAAA
8331497 TTTATAAAATCAT
1 TTTATAAAATCAT
8331510 TTTATAAAATCA
1 TTTATAAAATCA
8331522 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:8339035 original size:51 final size:52
Alignment explanation
Indices: 8338959--8339063 Score: 187
Period size: 51 Copynumber: 2.0 Consensus size: 52
8338949 TGGCTATGAA
8338959 TAACCTTATTTTGAGATCATGCAAATGT-AAC-TTTGGTATCCATGTTGTAT
1 TAACCTTATTTTGAGATCATGCAAATGTAAACTTTTGGTATCCATGTTGTAT
8339009 NTAACCTTATTTTGAGATCATGCAAATGTAAACTTTTGGTATCCATGTTGTAT
1 -TAACCTTATTTTGAGATCATGCAAATGTAAACTTTTGGTATCCATGTTGTAT
8339062 TA
1 TA
8339064 TGAAAATACG
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
51 28 0.54
52 5 0.10
53 19 0.37
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (52 bp):
TAACCTTATTTTGAGATCATGCAAATGTAAACTTTTGGTATCCATGTTGTAT
Found at i:8349885 original size:2 final size:2
Alignment explanation
Indices: 8349868--8349929 Score: 90
Period size: 2 Copynumber: 31.0 Consensus size: 2
8349858 CCAATCCCTG
*
8349868 TA TA GA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
8349911 T- TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
8349930 AACCATATCT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
1 1 0.02
2 51 0.94
3 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8350552 original size:33 final size:34
Alignment explanation
Indices: 8350515--8350579 Score: 105
Period size: 33 Copynumber: 1.9 Consensus size: 34
8350505 GAATTATGAG
8350515 ATATTAACAAAACACAGATTTTTCTTT-ATTTAA
1 ATATTAACAAAACACAGATTTTTCTTTCATTTAA
* *
8350548 ATATTAACAAAACATAGATTTTTGTTTCATTT
1 ATATTAACAAAACACAGATTTTTCTTTCATTT
8350580 CAAAATTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.45
Consensus pattern (34 bp):
ATATTAACAAAACACAGATTTTTCTTTCATTTAA
Found at i:8351368 original size:170 final size:170
Alignment explanation
Indices: 8351075--8351416 Score: 567
Period size: 170 Copynumber: 2.0 Consensus size: 170
8351065 AAGTATAACT
* * *
8351075 AAGTATCTTTACAAGTCTGAACATATTACAATCAAGCTCAAACACTTTTTCTAGATTTGGAATGT
1 AAGTACCTTTACAAGTCTGAACAAATTACAATCAAGCTCAAACACTTTTTCTAGATATGGAATGT
*
8351140 AAGACAAGTGTTTTTGGTGAAGAATACTTGACTTTTTTACTCAAAGTAGCTATTTTCTCTTCTAA
66 AAGACAAGTGTTTTTGGTGAAGAATACTTGACTTTTTTACTCAAAGTAGCTATTTTCTCTTCCAA
* * *
8351205 TCTGTTTTCTTTAATCGTTGGAGCTTCATTTAATACTTGA
131 TCTGTCTTCTTTAACCGTTGAAGCTTCATTTAATACTTGA
* *
8351245 AAGTACCTTTACAAGTCTGGACAAATTACAATCAAGCTCAAATACTTTTTCTAGATATGGAATGT
1 AAGTACCTTTACAAGTCTGAACAAATTACAATCAAGCTCAAACACTTTTTCTAGATATGGAATGT
* *
8351310 AAGACAAGTGTTTTTGGTGAAGAATATTTGACTTTTTTACTCAAAGTAGCTCTTTTCTCTTCCAA
66 AAGACAAGTGTTTTTGGTGAAGAATACTTGACTTTTTTACTCAAAGTAGCTATTTTCTCTTCCAA
* *
8351375 TCTGTCTTCTTTAACCGTTGAAGCTTCTTTTTATACTTGA
131 TCTGTCTTCTTTAACCGTTGAAGCTTCATTTAATACTTGA
8351415 AA
1 AA
8351417 AGTCTAATTT
Statistics
Matches: 159, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
170 159 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (170 bp):
AAGTACCTTTACAAGTCTGAACAAATTACAATCAAGCTCAAACACTTTTTCTAGATATGGAATGT
AAGACAAGTGTTTTTGGTGAAGAATACTTGACTTTTTTACTCAAAGTAGCTATTTTCTCTTCCAA
TCTGTCTTCTTTAACCGTTGAAGCTTCATTTAATACTTGA
Found at i:8359868 original size:25 final size:25
Alignment explanation
Indices: 8359840--8359895 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
8359830 AATAAACGTG
8359840 ATTATAGGAATTAGAAATCACCATA
1 ATTATAGGAATTAGAAATCACCATA
* * * *
8359865 ATTATAGGGATTGGGAATCATCATA
1 ATTATAGGAATTAGAAATCACCATA
8359890 ATTATA
1 ATTATA
8359896 AAGATTTTAT
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:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (25 bp):
ATTATAGGAATTAGAAATCACCATA
Found at i:8364395 original size:25 final size:25
Alignment explanation
Indices: 8364367--8364420 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
8364357 AATAAACGTG
8364367 ATTATA-AGAATTAGAAATCACCATA
1 ATTATAGA-AATTAGAAATCACCATA
* * *
8364392 ATTATAGAAATTGGGAATCATCATA
1 ATTATAGAAATTAGAAATCACCATA
8364417 ATTA
1 ATTA
8364421 CAGAGATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.31
Consensus pattern (25 bp):
ATTATAGAAATTAGAAATCACCATA
Found at i:8368380 original size:525 final size:524
Alignment explanation
Indices: 8367390--8368700 Score: 2250
Period size: 525 Copynumber: 2.5 Consensus size: 524
8367380 AATTATCAAT
* * *
8367390 ACCTAAAGAGTAAATCAAAGGCATCAAGCATATCAGATTTAAAGAATTTCCAGGGCAATTTTATG
1 ACCTAAAGAGTAAAACAAAGGCATCAAGCATATCAGATTAAAAGAATTT-CAAGGCAATTTTATG
* * *
8367455 GAAAGAAATGAACAAAAGTTGACGTACCTATGGTTGAAGGCATCAAGGTTGACAATTTTCCATCC
65 GAAAGAAATGAACAAAAGTTGATGTACCTATGGTCGAAGGCATCAAGGTTGACAATTTTCCATCT
* *
8367520 AAAGCTCTATCACTAGGAATATCTGAAGTTCCCTTGAGAGTTGATACCAGTGAGCTATCACTTTC
130 AAAGCTGTATCACTAGGAATATCTGAAGTTCCCTTGAGAGTTGATACCAGTGAGCTATCATTTTC
* *
8367585 CTGTTTATCATCCGGAATATCTTGTGGTGCAGTTTCAAGTTCTATTTCTTCTGCAATAACATTTG
195 CTGTTTATCATCCGGAAAATCTTGTGGTGCAGTTTCAAGTACTATTTCTTCTGCAATAACATTTG
8367650 GTAACGGATTAACTTTTATATCAATAAGAATGAATGAAAGTTTGCAAACTTTTTCTGGTTATTCA
260 GTAACGGATTAACTTTTATATCAATAAGAATGAATGAAAGTTTGCAAACTTTTTCTGGTTATTCA
* * *
8367715 AATAAAAAAATGGACAGAGGTTTCAATGACAATTTCTATGATTAAGGCATTTCTTAAACAGAACA
325 AATAAAAAAATGGACAGAGGTTTCAATGACAATTTCTATGATTAAGACATTTCATAAACACAACA
* * *
8367780 TGACTTGGTCGGAAAATGAGTGATATATAAACAAGGATAAAAGAAAAATAAAAATATATATATCT
390 TAACTTGATCGGAAAATGAGTAATATATAAACAAGGATAAAAGAAAAATAAAAATATATATATCT
8367845 ATTTTATTTTAACAAATTTATTAACTTTAATTATCTATCCTGTACATTGCATGGGGTCAAATCAA
455 ATTTTATTTTAACAAATTTATTAACTTTAATTATCTATCCTGTACATTGCATGGGGTCAAATCAA
8367910 ATATA
520 ATATA
*
8367915 ACCTAAAGAGTAAAACAAAAGGCATCAAGTATATCAGATTAAAAGAATTTCAAGGCAATTTTATG
1 ACCTAAAGAGTAAAAC-AAAGGCATCAAGCATATCAGATTAAAAGAATTTCAAGGCAATTTTATG
*
8367980 GAAAGAAATGAACAAAAGTTGATGTACCTATGGTCGAAGGCATCAAGCTTGACAATTTTCCATCT
65 GAAAGAAATGAACAAAAGTTGATGTACCTATGGTCGAAGGCATCAAGGTTGACAATTTTCCATCT
*
8368045 AAAGCTGTATCACGAGGAATATCTGAAGTTCCCTTGAGAGTTGATACCAGTGAGCTATCATTTTC
130 AAAGCTGTATCACTAGGAATATCTGAAGTTCCCTTGAGAGTTGATACCAGTGAGCTATCATTTTC
8368110 CTGTTTATCATCCGGAAAATCTTGTGGTGCAGTTTCAAGTACTATTTCTTCTGCAATAACATTTG
195 CTGTTTATCATCCGGAAAATCTTGTGGTGCAGTTTCAAGTACTATTTCTTCTGCAATAACATTTG
*
8368175 GTAACGGATTAACTTTTATATCAATAAGAATGAATGAAAGTTTGCAAACTTTTTTTGGTTATTCA
260 GTAACGGATTAACTTTTATATCAATAAGAATGAATGAAAGTTTGCAAACTTTTTCTGGTTATTCA
* * *
8368240 AATAAAAAAATGGACATAGGTTTCAATGACAATTTCTATGATTAAGACATTTCCATAAAGACAAT
325 AATAAAAAAATGGACAGAGGTTTCAATGACAATTTCTATGATTAAGACATTT-CATAAACACAAC
* *
8368305 GTAACTTGATGGGAAAATGAGTAATATATAAACAAGGATAAAAGAAAAATAAAAA-ATATATATC
389 ATAACTTGATCGGAAAATGAGTAATATATAAACAAGGATAAAAGAAAAATAAAAATATATATATC
8368369 TATTTTATTTTAACAAATTTATTAACTTTAATTATCTATCCTGTACATTGCATGGGGTCAAATCA
454 TATTTTATTTTAACAAATTTATTAACTTTAATTATCTATCCTGTACATTGCATGGGGTCAAATCA
*
8368434 AATGTA
519 AATATA
* *
8368440 ACCTAAAGAGTAAAACAAAGCCATCAAGCATATCAGATTAAAAGAATTTCAAGGGCAATTTTAAG
1 ACCTAAAGAGTAAAACAAAGGCATCAAGCATATCAGATTAAAAGAATTTCAA-GGCAATTTTATG
* *
8368505 GAAAGAAATGAACAAAAGTTGATGTACCTATAGTCGAAGGCATCAAGGTTGACAATTTTCCACCT
65 GAAAGAAATGAACAAAAGTTGATGTACCTATGGTCGAAGGCATCAAGGTTGACAATTTTCCATCT
* *
8368570 AAAGCTGTATCACTAGGAATATCTGAAGTTCCCTTGAGAGTTGACACCAGTGAGTTATCATTTTC
130 AAAGCTGTATCACTAGGAATATCTGAAGTTCCCTTGAGAGTTGATACCAGTGAGCTATCATTTTC
*
8368635 CTGTTCATCA-CCTGGAAAATCTTGTGGTGCAGTTTCAA-TATCTATTTCTTCTGCAATAACATT
195 CTGTTTATCATCC-GGAAAATCTTGTGGTGCAGTTTCAAGTA-CTATTTCTTCTGCAATAACATT
8368698 TGG
258 TGG
8368701 AACCTCAAGC
Statistics
Matches: 745, Mismatches: 36, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
524 38 0.05
525 618 0.83
526 89 0.12
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (524 bp):
ACCTAAAGAGTAAAACAAAGGCATCAAGCATATCAGATTAAAAGAATTTCAAGGCAATTTTATGG
AAAGAAATGAACAAAAGTTGATGTACCTATGGTCGAAGGCATCAAGGTTGACAATTTTCCATCTA
AAGCTGTATCACTAGGAATATCTGAAGTTCCCTTGAGAGTTGATACCAGTGAGCTATCATTTTCC
TGTTTATCATCCGGAAAATCTTGTGGTGCAGTTTCAAGTACTATTTCTTCTGCAATAACATTTGG
TAACGGATTAACTTTTATATCAATAAGAATGAATGAAAGTTTGCAAACTTTTTCTGGTTATTCAA
ATAAAAAAATGGACAGAGGTTTCAATGACAATTTCTATGATTAAGACATTTCATAAACACAACAT
AACTTGATCGGAAAATGAGTAATATATAAACAAGGATAAAAGAAAAATAAAAATATATATATCTA
TTTTATTTTAACAAATTTATTAACTTTAATTATCTATCCTGTACATTGCATGGGGTCAAATCAAA
TATA
Found at i:8370196 original size:22 final size:22
Alignment explanation
Indices: 8370154--8370196 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8370144 TTAATCTATA
**
8370154 TTCTTTCCTTTTTAATTATTTG
1 TTCTTTCCTTTTTAACCATTTG
8370176 TTCTTTCCTTTTTAACCATTT
1 TTCTTTCCTTTTTAACCATTT
8370197 TTAATGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.19, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTCCTTTTTAACCATTTG
Found at i:8377158 original size:3 final size:3
Alignment explanation
Indices: 8377139--8377173 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
8377129 CTCTTTCATA
* *
8377139 AAT AAC AAT AGT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8377174 GGGTAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:8388421 original size:42 final size:42
Alignment explanation
Indices: 8388375--8388455 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
8388365 AGACAATTGA
* * *
8388375 CAATTGATTTTAAGTTTGATATCATTTAAAATTTAACATAAC
1 CAATTGATTTTAAATTAGATATCATCTAAAATTTAACATAAC
*
8388417 CAATTGATTTTAAATTAGATATCATCTAAAGTTTAACAT
1 CAATTGATTTTAAATTAGATATCATCTAAAATTTAACAT
8388456 GATATCAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (42 bp):
CAATTGATTTTAAATTAGATATCATCTAAAATTTAACATAAC
Found at i:8388688 original size:29 final size:30
Alignment explanation
Indices: 8388655--8388713 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
8388645 AATAAATTTT
**
8388655 TTTTTATATTTTTATTTTAAATCAAATAAA
1 TTTTTATACATTTATTTTAAATCAAATAAA
* *
8388685 TTTTTGTACATTTATTTTAAGTCAAATAA
1 TTTTTATACATTTATTTTAAATCAAATAA
8388714 GCTTAAATAA
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:0.05, G:0.03, T:0.54
Consensus pattern (30 bp):
TTTTTATACATTTATTTTAAATCAAATAAA
Found at i:8394017 original size:12 final size:12
Alignment explanation
Indices: 8394000--8394024 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8393990 TATTTTTCTT
8394000 AAATTAATAAAA
1 AAATTAATAAAA
8394012 AAATTAATAAAA
1 AAATTAATAAAA
8394024 A
1 A
8394025 TTATATAATA
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):
AAATTAATAAAA
Found at i:8394402 original size:425 final size:416
Alignment explanation
Indices: 8393672--8394503 Score: 1187
Period size: 425 Copynumber: 2.0 Consensus size: 416
8393662 CTCTGCTCAC
*
8393672 GACGAAGAATCCTAAGAGGCTAGGATTCTTGACCAATAATTTAAAAAGGATAAAATATTTGAACA
1 GACGAAGAATCCTAAGAGGCTAGGATTCTTGACCAATAATTTAAAAAGGATAAAATACTTGAACA
* * *
8393737 CTTTTAAGCATTTTAAATTTTAATTAAAATTTTAAGTTGATTTAATATTTATTAATTCTTAAAAT
66 CTTTTAAGCATTTTAAATTTTAATTAAAATTTAAAGTTGATTCAATAGTTATTAATTCTTAAAAT
* * * * *
8393802 AAATATTTTGTTTTAAAAGTGTAAATACTATTAATAGAGATTATAAAAGATTAAATATTATTTTG
131 AAATATTTTATTTGAAAAGTATAAATACTATTAATAGAGATTATAAAAAATTAAATATTATCTTG
* * *
8393867 TTATAAATTAAAAAAATAATTATTATATTCTTTTAAAATAAAATAAAAATAAATAGCATTCAACT
196 TTATAAATT---AAAATAATTATTATATTATATTAAAATAAAATAAAAATAAAGAGCATTCAACT
* * *
8393932 CTTCGAGAAAGGAGAGCACCGAGAAGGGAGCATGGATCTCTCTCGAAAAGCATAGTACTATTTTT
258 CCTCGAGAAAGGAGAGCACCAAGAAGGGAGCATGGATCTCTCTCGAAAAGCATACTACTATTTTT
8393997 CTTAAATTAATAAAAAAATTAATAAAAATTATATAATAATTTTTAAAA-TTATTAAAAAAATTAT
323 CTTAAATTAAT--AAAAA-T--T----ATTATATAATAA-TTTTAAAATTTATT-AAAAAATTAT
*
8394061 CATTTCATCAAACTAATG-AAAATTTCAACAGTTGATTAAT
377 CATTTAATCAAACTAA-GAAAAATTTCAACAGTTGATTAAT
*
8394101 GACGAAGAATCCTAAGAGGTTAGGATTCTTGACCAATAATTTAAAAAGGATAAAATACTTGAACA
1 GACGAAGAATCCTAAGAGGCTAGGATTCTTGACCAATAATTTAAAAAGGATAAAATACTTGAACA
* * *
8394166 C-TTTAAGTATTTTAAATTTTAATTGAAATTTAAAGTTGATTCAATAGTTATTAATTTTTAAAAT
66 CTTTTAAGCATTTTAAATTTTAATTAAAATTTAAAGTTGATTCAATAGTTATTAATTCTTAAAAT
*
8394230 AAATATTTTATTTGAAGAGTATAAATACTATTAATAGTAGAGATTATAAAAAATTGAAATATTAT
131 AAATATTTTATTTGAAAAGTATAAATACTATT-A-A-TAGAGATTATAAAAAATT-AAATATTAT
8394295 CTT-TTATAAA-T-AAATAATTATTATTATTATATT-AAA-AAAATAAAAA-AAGAGAGCATTCA
192 CTTGTTATAAATTAAAATAATTATTA-TATTATATTAAAATAAAATAAAAATAA-AGAGCATTCA
*
8394354 ACTCCTCGAGAAAGGAGAGCACCAAGAAGGGAGCATGGATCTCTCTCGAAAAGCATACTACTCTT
255 ACTCCTCGAGAAAGGAGAGCACCAAGAAGGGAGCATGGATCTCTCTCGAAAAGCATACTACTATT
*
8394419 TTTTTTAAATTAATAAAAATTATTATATAATAATTTTAAAATTTATTAAAAAATTATCATTTAAT
320 TTTCTTAAATTAATAAAAATTATTATATAATAATTTTAAAATTTATTAAAAAATTATCATTTAAT
* *
8394484 CATATTAAGAAAAATTTCAA
385 CAAACTAAGAAAAATTTCAA
8394504 TGGTTGACTA
Statistics
Matches: 370, Mismatches: 25, Indels: 30
0.87 0.06 0.07
Matches are distributed among these distances:
414 1 0.00
415 41 0.11
416 17 0.05
420 1 0.00
422 1 0.00
423 5 0.01
424 2 0.01
425 93 0.25
426 15 0.04
427 7 0.02
428 85 0.23
429 65 0.18
430 2 0.01
431 24 0.06
432 11 0.03
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.36
Consensus pattern (416 bp):
GACGAAGAATCCTAAGAGGCTAGGATTCTTGACCAATAATTTAAAAAGGATAAAATACTTGAACA
CTTTTAAGCATTTTAAATTTTAATTAAAATTTAAAGTTGATTCAATAGTTATTAATTCTTAAAAT
AAATATTTTATTTGAAAAGTATAAATACTATTAATAGAGATTATAAAAAATTAAATATTATCTTG
TTATAAATTAAAATAATTATTATATTATATTAAAATAAAATAAAAATAAAGAGCATTCAACTCCT
CGAGAAAGGAGAGCACCAAGAAGGGAGCATGGATCTCTCTCGAAAAGCATACTACTATTTTTCTT
AAATTAATAAAAATTATTATATAATAATTTTAAAATTTATTAAAAAATTATCATTTAATCAAACT
AAGAAAAATTTCAACAGTTGATTAAT
Found at i:8406975 original size:15 final size:15
Alignment explanation
Indices: 8406956--8406993 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
8406946 TCATTATATA
8406956 TTTTTCTTTATTT-T
1 TTTTTCTTTATTTAT
*
8406970 TCTTTTCCTTATTTAT
1 T-TTTTCTTTATTTAT
8406986 TTTTTCTT
1 TTTTTCTT
8406994 AAATATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 1 0.05
15 17 0.85
16 2 0.10
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTCTTTATTTAT
Found at i:8407905 original size:20 final size:21
Alignment explanation
Indices: 8407866--8407905 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8407856 TGACTTATAT
*
8407866 TTTACAATTATATTTTTGATA
1 TTTACAATTATATTTATGATA
*
8407887 TTTATAATT-TATTTATGAT
1 TTTACAATTATATTTATGAT
8407906 TTATCAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTACAATTATATTTATGATA
Found at i:8408535 original size:72 final size:73
Alignment explanation
Indices: 8408438--8408577 Score: 203
Period size: 72 Copynumber: 1.9 Consensus size: 73
8408428 TTATATATAG
* * * *
8408438 GAAATAAAATAGTTGTTGAAAATCATTAAATACATCTTACCGTTAGTTGATTGAAAATA-AAAGA
1 GAAATAAAATAATTATTGAAAATCATTAAATACATATTACCGTTAATTGATTGAAAATAGAAA-A
8408502 AATATGTGA
65 AATATGTGA
**
8408511 GAAA-AAAATAATTATTGAAAATCATTAAATACATATTATTGTTAATTGATTGAAAATAGAAAAA
1 GAAATAAAATAATTATTGAAAATCATTAAATACATATTACCGTTAATTGATTGAAAATAGAAAAA
8408575 ATA
66 ATA
8408578 GTTGATAATT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 53 0.88
73 7 0.12
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (73 bp):
GAAATAAAATAATTATTGAAAATCATTAAATACATATTACCGTTAATTGATTGAAAATAGAAAAA
ATATGTGA
Found at i:8419501 original size:2 final size:2
Alignment explanation
Indices: 8419490--8419529 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
8419480 AGTGACANAA
*
8419490 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8419530 ATGTCTGTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:8424567 original size:4 final size:4
Alignment explanation
Indices: 8424560--8424587 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
8424550 GGAGGTGTGA
8424560 CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT
8424588 TAAATGAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:8431077 original size:8 final size:8
Alignment explanation
Indices: 8431061--8431096 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
8431051 AAGCCTTACA
8431061 TGTGTGCG
1 TGTGTGCG
*
8431069 TGCGTGCG
1 TGTGTGCG
*
8431077 TGTGTGTG
1 TGTGTGCG
8431085 TGTGTGCG
1 TGTGTGCG
8431093 TGTG
1 TGTG
8431097 CGCGCACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.00, C:0.11, G:0.50, T:0.39
Consensus pattern (8 bp):
TGTGTGCG
Found at i:8438304 original size:15 final size:15
Alignment explanation
Indices: 8438268--8438319 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
8438258 TTATAATTTT
8438268 AATTATTTTTAATAAAAA
1 AATTATTTTTAAT---AA
8438286 AATTAATTTTT-ATAA
1 AATT-ATTTTTAATAA
8438301 AATTATTTTTAATAA
1 AATTATTTTTAATAA
8438316 AATT
1 AATT
8438320 GACTCATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.19
15 14 0.44
18 6 0.19
19 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTATTTTTAATAA
Found at i:8438467 original size:51 final size:54
Alignment explanation
Indices: 8438412--8438551 Score: 151
Period size: 60 Copynumber: 2.5 Consensus size: 54
8438402 TCTTATTAAA
*
8438412 AAGAAAAACGTTTAAGCATTTTGAACATTTTGAAG-T-A-ATTTTTGATACACG
1 AAGAAAAACCTTTAAGCATTTTGAACATTTTGAAGTTGATATTTTTGATACACG
** * * *
8438463 AAGAAAAATTTTTGAGCGTTTTGAACATTTTTAAGTATTTTGGAATATTTTTGATACACG
1 AAGAAAAACCTTTAAGCATTTTGAACATTTTGAAG----TT-G-ATATTTTTGATACACG
8438523 AAGAAAAACCTTTAAGCATTTTGAACATT
1 AAGAAAAACCTTTAAGCATTTTGAACATT
8438552 CTTCGTCAAG
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
51 30 0.42
56 1 0.01
59 1 0.01
60 39 0.55
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (54 bp):
AAGAAAAACCTTTAAGCATTTTGAACATTTTGAAGTTGATATTTTTGATACACG
Found at i:8438493 original size:60 final size:60
Alignment explanation
Indices: 8438428--8438551 Score: 162
Period size: 60 Copynumber: 2.1 Consensus size: 60
8438418 AACGTTTAAG
** * *
8438428 CATTTTGAA-CATTTT-GAAGTAATTTTTGATACACGAAGAAAAATTTTTGAGCGTTTTGAA
1 CATTTTGAAGCATTTTGGAA-T-ATTTTTGATACACGAAGAAAAACCTTTAAGCATTTTGAA
* *
8438488 CATTTTTAAGTATTTTGGAATATTTTTGATACACGAAGAAAAACCTTTAAGCATTTTGAA
1 CATTTTGAAGCATTTTGGAATATTTTTGATACACGAAGAAAAACCTTTAAGCATTTTGAA
8438548 CATT
1 CATT
8438552 CTTCGTCAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
60 47 0.84
61 6 0.11
62 3 0.05
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (60 bp):
CATTTTGAAGCATTTTGGAATATTTTTGATACACGAAGAAAAACCTTTAAGCATTTTGAA
Found at i:8438723 original size:22 final size:22
Alignment explanation
Indices: 8438654--8438769 Score: 108
Period size: 22 Copynumber: 5.3 Consensus size: 22
8438644 GTTTTGGTGG
* *
8438654 TTTTTAGGTATTTCGTAATTGA
1 TTTTTAGGTATTACGTAATTAA
* * * *
8438676 TTTTT-GGATATTATGTGACTAG
1 TTTTTAGG-TATTACGTAATTAA
*
8438698 TTTTTAGGTATTACGTTATTAA
1 TTTTTAGGTATTACGTAATTAA
** * *
8438720 TTTTTAGACATTACATGATTAA
1 TTTTTAGGTATTACGTAATTAA
*
8438742 TTTTTAAGTATTACGTAATTAA
1 TTTTTAGGTATTACGTAATTAA
8438764 TTTTTA
1 TTTTTA
8438770 AACATTATGT
Statistics
Matches: 73, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
21 2 0.03
22 69 0.95
23 2 0.03
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (22 bp):
TTTTTAGGTATTACGTAATTAA
Found at i:8438723 original size:44 final size:44
Alignment explanation
Indices: 8438653--8438793 Score: 183
Period size: 44 Copynumber: 3.2 Consensus size: 44
8438643 AGTTTTGGTG
* * * *
8438653 GTTTTTAGGTATTTCGTAATTGATTTTTGGATATTATGTGACTA
1 GTTTTTAGGTATTACGTAATTAATTTTTAGACATTATGTGACTA
* ** *
8438697 GTTTTTAGGTATTACGTTATTAATTTTTAGACATTACATGATTA
1 GTTTTTAGGTATTACGTAATTAATTTTTAGACATTATGTGACTA
* * *
8438741 ATTTTTAAGTATTACGTAATTAATTTTTAAACATTATGTGACTA
1 GTTTTTAGGTATTACGTAATTAATTTTTAGACATTATGTGACTA
8438785 GTTTTTAGG
1 GTTTTTAGG
8438794 CATTGCGTGA
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 80 1.00
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (44 bp):
GTTTTTAGGTATTACGTAATTAATTTTTAGACATTATGTGACTA
Found at i:8438789 original size:22 final size:22
Alignment explanation
Indices: 8438685--8438809 Score: 70
Period size: 22 Copynumber: 5.7 Consensus size: 22
8438675 ATTTTTGGAT
* ***
8438685 ATTATGTGACTAGTTTTTAGGT
1 ATTACGTGACTAGTTTTTAAAC
* * * *
8438707 ATTACGTTATTAATTTTTAGAC
1 ATTACGTGACTAGTTTTTAAAC
* * * **
8438729 ATTACATGATTAATTTTTAAGT
1 ATTACGTGACTAGTTTTTAAAC
* * *
8438751 ATTACGTAATTAATTTTTAAAC
1 ATTACGTGACTAGTTTTTAAAC
* **
8438773 ATTATGTGACTAGTTTTTAGGC
1 ATTACGTGACTAGTTTTTAAAC
*
8438795 ATTGCGTGACTAGTT
1 ATTACGTGACTAGTT
8438810 GATATGGTAT
Statistics
Matches: 80, Mismatches: 23, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 80 1.00
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (22 bp):
ATTACGTGACTAGTTTTTAAAC
Found at i:8438825 original size:23 final size:23
Alignment explanation
Indices: 8438778--8438896 Score: 100
Period size: 23 Copynumber: 5.3 Consensus size: 23
8438768 TAAACATTAT
**
8438778 GTGACTAGTTTTTA-GGCATTGC
1 GTGACTAGTTGATATGGCATTGC
*
8438800 GTGACTAGTTGATATGGTATTGC
1 GTGACTAGTTGATATGGCATTGC
* * * *
8438823 GTGATTGGTTAATATGGCATTAC
1 GTGACTAGTTGATATGGCATTGC
*
8438846 GTGACTAGTTGATA-AGCATTGC
1 GTGACTAGTTGATATGGCATTGC
* * * *
8438868 ATGACTGGTT-AGTAAGGCATTGT
1 GTGACTAGTTGA-TATGGCATTGC
8438891 GTGACT
1 GTGACT
8438897 TAGGCATTGC
Statistics
Matches: 76, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
21 1 0.01
22 28 0.37
23 47 0.62
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.37
Consensus pattern (23 bp):
GTGACTAGTTGATATGGCATTGC
Found at i:8438895 original size:45 final size:46
Alignment explanation
Indices: 8438791--8438896 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 46
8438781 ACTAGTTTTT
* * * *
8438791 AGGCATTGCGTGACTAGTTGATATGGTATTGCGTGATTGGTTAATA
1 AGGCATTGCGTGACTAGTTGATATAGCATTGCATGACTGGTTAATA
* * *
8438837 TGGCATTACGTGACTAGTTGATA-AGCATTGCATGACTGGTTAGTA
1 AGGCATTGCGTGACTAGTTGATATAGCATTGCATGACTGGTTAATA
*
8438882 AGGCATTGTGTGACT
1 AGGCATTGCGTGACT
8438897 TAGGCATTGC
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
45 29 0.58
46 21 0.42
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.35
Consensus pattern (46 bp):
AGGCATTGCGTGACTAGTTGATATAGCATTGCATGACTGGTTAATA
Found at i:8439029 original size:22 final size:21
Alignment explanation
Indices: 8438962--8439030 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 21
8438952 TAAGTCACGT
* *
8438962 AATGCCTAAAAACTAATCTCAC
1 AATGCCTAAAAACTAGTAT-AC
* * * *
8438984 AATACTTAAAAACCAGTGACAC
1 AATGCCTAAAAACTAGT-ATAC
8439006 AATGCCTAAAAACTAGTAATAC
1 AATGCCTAAAAACTAGT-ATAC
8439028 AAT
1 AAT
8439031 ATCTAATAAC
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.49, C:0.22, G:0.07, T:0.22
Consensus pattern (21 bp):
AATGCCTAAAAACTAGTATAC
Found at i:8441877 original size:22 final size:23
Alignment explanation
Indices: 8441762--8442180 Score: 129
Period size: 22 Copynumber: 18.7 Consensus size: 23
8441752 CTGATAGGGG
8441762 ATTGCGTGA-TCGATTTTTAG-GC
1 ATTGCGTGACT-GATTTTTAGAGC
* * * *
8441784 ATTGCATGATTGGTTTTTAG-TC
1 ATTGCGTGACTGATTTTTAGAGC
* * * *
8441806 ATTGTGTGAAT-AGTTTATAGGGC
1 ATTGCGTGACTGA-TTTTTAGAGC
* * ** *
8441829 ATTGCATGACTGGTTGATAG-GT
1 ATTGCGTGACTGATTTTTAGAGC
* *
8441851 GTTGCGTGACTGATTTTTA-ATC
1 ATTGCGTGACTGATTTTTAGAGC
* * * *
8441873 ATTGCGTGGCTGGTTTGTAGGGC
1 ATTGCGTGACTGATTTTTAGAGC
* *
8441896 ATTCCATGACTGATTTTTAG-GC
1 ATTGCGTGACTGATTTTTAGAGC
* **
8441918 ATTGCGTGATTGATTGATAGAGC
1 ATTGCGTGACTGATTTTTAGAGC
* * *
8441941 ATTGTGTGATTGATTTTTAG-TC
1 ATTGCGTGACTGATTTTTAGAGC
* * * * * *
8441963 ACTACATCACT-AGTTTGTAGGGC
1 ATTGCGTGACTGA-TTTTTAGAGC
** * *
8441986 ATTGTATGACTAATTTTGAG-GC
1 ATTGCGTGACTGATTTTTAGAGC
** **
8442008 ATTATGTGACTGATTTTT-CTGC
1 ATTGCGTGACTGATTTTTAGAGC
*
8442030 ATTACGTGACT-AGTTTTTA-AGC
1 ATTGCGTGACTGA-TTTTTAGAGC
* **
8442052 ATTGCGTGACTGCTTGATA-AGGC
1 ATTGCGTGACTGATTTTTAGA-GC
* * * **
8442075 ATTGCATGACAGGTTGATAGAGC
1 ATTGCGTGACTGATTTTTAGAGC
**
8442098 ATTGCGTGACT-AGTTGATAG-GC
1 ATTGCGTGACTGA-TTTTTAGAGC
*
8442120 ATTGTGTGACTGATTTTTAG-GC
1 ATTGCGTGACTGATTTTTAGAGC
* * *
8442142 ATTGCGTGATTG-TTTGATAGGGC
1 ATTGCGTGACTGATTT-TTAGAGC
*
8442165 ATTGCATGACTG-TTTT
1 ATTGCGTGACTGATTTT
8442181 CTAGTCATCA
Statistics
Matches: 295, Mismatches: 82, Indels: 40
0.71 0.20 0.10
Matches are distributed among these distances:
21 5 0.02
22 172 0.58
23 116 0.39
24 2 0.01
ACGTcount: A:0.21, C:0.12, G:0.27, T:0.40
Consensus pattern (23 bp):
ATTGCGTGACTGATTTTTAGAGC
Found at i:8441943 original size:45 final size:45
Alignment explanation
Indices: 8441826--8442180 Score: 188
Period size: 45 Copynumber: 8.0 Consensus size: 45
8441816 TAGTTTATAG
* * * *
8441826 GGCATTGCATGACTGGTTGATAGGTG--TTGCGTGACTGATTTTTA
1 GGCATTGCGTGATTGATTGATAGG-GCATTGCATGACTGATTTTTA
** * * * *
8441870 ATCATTGCGTGGCTGGTTTG-TAGGGCATTCCATGACTGATTTTTA
1 GGCATTGCGT-GATTGATTGATAGGGCATTGCATGACTGATTTTTA
* ** *
8441915 GGCATTGCGTGATTGATTGATAGAGCATTGTGTGATTGATTTTTA
1 GGCATTGCGTGATTGATTGATAGGGCATTGCATGACTGATTTTTA
* * * * * * * * * *
8441960 GTCACTACATCACTAGTTTG-TAGGGCATTGTATGACTAATTTTGA
1 GGCATTGCGTGA-TTGATTGATAGGGCATTGCATGACTGATTTTTA
** * * *** * *
8442005 GGCATTATGTGACTGATT-TTTCTGCATTACGTGACT-AGTTTTTA
1 GGCATTGCGTGATTGATTGATAGGGCATTGCATGACTGA-TTTTTA
* * * * * * **
8442049 AGCATTGCGTGACTGCTTGATAAGGCATTGCATGACAGGTTGATA
1 GGCATTGCGTGATTGATTGATAGGGCATTGCATGACTGATTTTTA
* **
8442094 GAGCATTGCGTGACT-AGTTGATA-GGCATTGTGTGACTGATTTTTA
1 G-GCATTGCGTGATTGA-TTGATAGGGCATTGCATGACTGATTTTTA
*
8442139 GGCATTGCGTGATTGTTTGATAGGGCATTGCATGACTG-TTTT
1 GGCATTGCGTGATTGATTGATAGGGCATTGCATGACTGATTTT
8442181 CTAGTCATCA
Statistics
Matches: 226, Mismatches: 72, Indels: 26
0.70 0.22 0.08
Matches are distributed among these distances:
43 2 0.01
44 72 0.32
45 128 0.57
46 24 0.11
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.39
Consensus pattern (45 bp):
GGCATTGCGTGATTGATTGATAGGGCATTGCATGACTGATTTTTA
Found at i:8442024 original size:112 final size:113
Alignment explanation
Indices: 8441902--8442176 Score: 263
Period size: 112 Copynumber: 2.5 Consensus size: 113
8441892 GGGCATTCCA
* * * * *
8441902 TGACTGATTTTTAGGCATTGCGTGATTGATTGATAGAGCATTGTGTGATTGATT-TTTAGTCACT
1 TGACTGATTTTTAGGCATTGCGTGATTGATTGATAGAGCATTGCGTGACTGATTGATAAGGCACT
* * * *
8441966 ACATCACTAGTTTG-TAGGGCATTGTATGACTAATT-TTGAGGCATTATG
66 ACATCAC-AGGTTGATAGAGCATTGCATGACTAATTGAT-AGGCATTATG
** * * ** * *
8442014 TGACTGATTTTTCTGCATTACGTGACT-AGTTTTTA-AGCATTGCGTGACTGCTTGATAAGGCAT
1 TGACTGATTTTTAGGCATTGCGTGATTGA-TTGATAGAGCATTGCGTGACTGATTGATAAGGCAC
* * * * *
8442077 TGCATGACAGGTTGATAGAGCATTGCGTGACTAGTTGATAGGCATTGTG
65 TACATCACAGGTTGATAGAGCATTGCATGACTAATTGATAGGCATTATG
* * *
8442126 TGACTGATTTTTAGGCATTGCGTGATTGTTTGATAGGGCATTGCATGACTG
1 TGACTGATTTTTAGGCATTGCGTGATTGATTGATAGAGCATTGCGTGACTG
8442177 TTTTCTAGTC
Statistics
Matches: 126, Mismatches: 31, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
111 21 0.17
112 91 0.72
113 14 0.11
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (113 bp):
TGACTGATTTTTAGGCATTGCGTGATTGATTGATAGAGCATTGCGTGACTGATTGATAAGGCACT
ACATCACAGGTTGATAGAGCATTGCATGACTAATTGATAGGCATTATG
Found at i:8442175 original size:67 final size:66
Alignment explanation
Indices: 8441779--8442175 Score: 208
Period size: 67 Copynumber: 5.9 Consensus size: 66
8441769 GATCGATTTT
* * * * * * *
8441779 TAGGCATTGCATGATTGGTTTTTAGTCATTGTGTGAATAGTTTATAGGGCATTGCATGACTGGTT
1 TAGGCATTGCGTGACTGATTTTTAGGCATTGCGTG-ATTGTTTATAGGGCATTGCATGACTAGTT
8441844 GA
65 GA
** ** * * * *
8441846 TAGGTGTTGCGTGACTGATTTTTAATCATTGCGTGGCTGGTTTGTAGGGCATTCCATGACT-GAT
1 TAGGCATTGCGTGACTGATTTTTAGGCATTGCGT-GATTGTTTATAGGGCATTGCATGACTAG-T
**
8441910 TTT
64 TGA
* ** * * * * * *
8441913 TAGGCATTGCGTGATTGATTGATAGAGCATTGTGTGATTGATTTTTA-GTCACTACATCACTAGT
1 TAGGCATTGCGTGACTGATTTTTAG-GCATTGCGTGATTG-TTTATAGGGCATTGCATGACTAG-
8441977 TTG-
63 TTGA
** * * ** * *** * *
8441980 TAGGGCATTGTATGACTAATTTTGAGGCATTATGTGACTGATTT-TTCTGCATTACGTGACTAGT
1 TA-GGCATTGCGTGACTGATTTTTAGGCATTGCGTGATTG-TTTATAGGGCATTGCATGACTAGT
**
8442044 TTT
64 TGA
* * * * * ** * * *
8442047 TAAGCATTGCGTGACTGCTTGATAAGGCATTGCATGACAGGTTGATAGAGCATTGCGTGACTAGT
1 TAGGCATTGCGTGACTGATT-TTTAGGCATTGCGTGA-TTGTTTATAGGGCATTGCATGACTAGT
8442112 TGA
64 TGA
*
8442115 TAGGCATTGTGTGACTGATTTTTAGGCATTGCGTGATTGTTTGATAGGGCATTGCATGACT
1 TAGGCATTGCGTGACTGATTTTTAGGCATTGCGTGATTGTTT-ATAGGGCATTGCATGACT
8442176 GTTTTCTAGT
Statistics
Matches: 242, Mismatches: 76, Indels: 24
0.71 0.22 0.07
Matches are distributed among these distances:
66 20 0.08
67 155 0.64
68 67 0.28
ACGTcount: A:0.22, C:0.12, G:0.27, T:0.39
Consensus pattern (66 bp):
TAGGCATTGCGTGACTGATTTTTAGGCATTGCGTGATTGTTTATAGGGCATTGCATGACTAGTTG
A
Found at i:8442179 original size:23 final size:22
Alignment explanation
Indices: 8442028--8442179 Score: 130
Period size: 23 Copynumber: 6.8 Consensus size: 22
8442018 TGATTTTTCT
* * *
8442028 GCATTACGTGACTAGTTT-TTAA
1 GCATTGCGTGACT-GTTTGATAG
*
8442050 GCATTGCGTGACTGCTTGATAAG
1 GCATTGCGTGACTGTTTGAT-AG
* * *
8442073 GCATTGCATGACAGGTTGATAG
1 GCATTGCGTGACTGTTTGATAG
8442095 AGCATTGCGTGACTAG-TTGATAG
1 -GCATTGCGTGACT-GTTTGATAG
* *
8442118 GCATTGTGTGACTGATTT-TTAG
1 GCATTGCGTGACTG-TTTGATAG
*
8442140 GCATTGCGTGATTGTTTGATAGG
1 GCATTGCGTGACTGTTTGATA-G
*
8442163 GCATTGCATGACTGTTT
1 GCATTGCGTGACTGTTT
8442180 TCTAGTCATC
Statistics
Matches: 106, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
21 7 0.07
22 44 0.42
23 54 0.51
24 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.28, T:0.36
Consensus pattern (22 bp):
GCATTGCGTGACTGTTTGATAG
Found at i:8446367 original size:22 final size:21
Alignment explanation
Indices: 8446316--8446395 Score: 97
Period size: 21 Copynumber: 3.8 Consensus size: 21
8446306 CAATACTTCG
*
8446316 GTCATGCAATACCTAAAACCA
1 GTCACGCAATACCTAAAACCA
* *
8446337 GTCATGCAATCCCTAATAACCA
1 GTCACGCAATACCTAA-AACCA
* *
8446359 ATCACGCAATACCTACAACCA
1 GTCACGCAATACCTAAAACCA
*
8446380 GTCACGCAATGCCTAA
1 GTCACGCAATACCTAA
8446396 GTTCTAGAGA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
21 33 0.66
22 17 0.34
ACGTcount: A:0.39, C:0.33, G:0.10, T:0.19
Consensus pattern (21 bp):
GTCACGCAATACCTAAAACCA
Found at i:8446447 original size:22 final size:22
Alignment explanation
Indices: 8446417--8446477 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
8446407 GCAATGATTA
* * * *
8446417 AGTCACGCAATACCTACAAGTT
1 AGTCTCGCAATGCCTAAAAGCT
8446439 AGTCTCGCAATGCCTAAAAGCT
1 AGTCTCGCAATGCCTAAAAGCT
*
8446461 AGTCTCACAATGCCTAA
1 AGTCTCGCAATGCCTAA
8446478 GTCACGCAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (22 bp):
AGTCTCGCAATGCCTAAAAGCT
Found at i:8446928 original size:22 final size:22
Alignment explanation
Indices: 8446900--8446947 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
8446890 AAAAATTGGG
8446900 TAAGAACCAGTCACGCAATGCC
1 TAAGAACCAGTCACGCAATGCC
* ***
8446922 TAAGAACTAGTTGTGCAATGCC
1 TAAGAACCAGTCACGCAATGCC
8446944 TAAG
1 TAAG
8446948 TTCTAGAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (22 bp):
TAAGAACCAGTCACGCAATGCC
Found at i:8446993 original size:22 final size:22
Alignment explanation
Indices: 8446970--8447058 Score: 81
Period size: 22 Copynumber: 4.0 Consensus size: 22
8446960 AATGATTAAG
*
8446970 TCACACAATGCCTAAAAACTAG
1 TCACACAATGCCTAAAAACTAA
* ** *
8446992 TCTCGGAATGCCTAAAAATTAA
1 TCACACAATGCCTAAAAACTAA
* **
8447014 TCTCGTAATGCCTAAAAA-TCAA
1 TCACACAATGCCTAAAAACT-AA
*
8447036 TGACACAATGCCTAAAAACTAA
1 TCACACAATGCCTAAAAACTAA
8447058 T
1 T
8447059 AACGCAACAC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
21 1 0.02
22 53 0.96
23 1 0.02
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.24
Consensus pattern (22 bp):
TCACACAATGCCTAAAAACTAA
Found at i:8447487 original size:21 final size:22
Alignment explanation
Indices: 8447420--8447488 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 22
8447410 AAAAATTGGG
8447420 TAAGAACCAGTCATGCAATGCC
1 TAAGAACCAGTCATGCAATGCC
* *
8447442 TAAGAACCAATCATGCAATACC
1 TAAGAACCAGTCATGCAATGCC
* *
8447464 TAA-AACCAGTCACGCAATGTC
1 TAAGAACCAGTCATGCAATGCC
8447485 TAAG
1 TAAG
8447489 TTCTAGAGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
21 17 0.43
22 23 0.57
ACGTcount: A:0.41, C:0.26, G:0.14, T:0.19
Consensus pattern (22 bp):
TAAGAACCAGTCATGCAATGCC
Found at i:8447542 original size:22 final size:22
Alignment explanation
Indices: 8447508--8447570 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
8447498 CGTAATGATN
*
8447508 AGTCACGCAATGCTTAAAAACC
1 AGTCACGCAATGCCTAAAAACC
** *
8447530 AGTCACGTGATGCCTAAAAATC
1 AGTCACGCAATGCCTAAAAACC
* * *
8447552 AATGACACAATGCCTAAAA
1 AGTCACGCAATGCCTAAAA
8447571 CTAATAACGC
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.43, C:0.24, G:0.14, T:0.19
Consensus pattern (22 bp):
AGTCACGCAATGCCTAAAAACC
Found at i:8447692 original size:517 final size:517
Alignment explanation
Indices: 8446477--8448494 Score: 2225
Period size: 513 Copynumber: 3.8 Consensus size: 517
8446467 ACAATGCCTA
* ** * *
8446477 AGTCACGCAATGCCTAAATATTAGTCTCGTAATGTCTAAAAATCAATGACACAATGCCTAAAAAC
1 AGTCACGCAATGCCTAAAAACCAGTCACGTAATGCCTAAAAATCAATGACACAATGCCTAAAAAC
* * * * * *
8446542 TAATAACGTAAAATTTAATAACTAATTGATTTACCTGCTCACAACTAAATTTAAGTTGCCAAAGT
66 TAATAACGCAACACTTAATAACTAATTGATTTACCTGCTCACAGCTAAGTTTAAGTTACCAAAGT
* * *
8446607 CATATAGTGTTCTAATTTACAAATATGTCTAACCAATTTCAACCCCTCAACTTTGGGGTGT-TAT
131 CATACAATATTCTAATTTACAAATATGTCTAACCAATTTCAACCCCTCAACTTTGGGGT-TCTAT
* *
8446671 TCTATGAATATAAACCAATAAATCCAACAACCCAAAACACATATTTTGATGTCATCTCTGCTCTT
195 TCTATGAATATAAACCAATAAATCCAACAACCCAAAACACATACTTTGATGTCATCTCTACTCTT
* * * * *
8446736 TGGGATGGTGAGAGAGAATTAGATGGAGAGATAAAC---A----GTAAGAGAGAAATAGAAATTT
260 TGGGATGGTGAGAGAGAACTAGATAGAGAGATAAACAATATTTGGCAAGAGAGAAATGGAGATTT
* * * * * *
8446794 AATTTTGAAATTTTAGTTTAGAGGGCGGGATAGAGAAAATCGAGACCATTTAATTTGTTTGAAAT
325 AATTTTGGAATTTTAGTTTAGAGGGCGAGATAGAGAAAACCGGGACCATTTAATTTGTCTAAAAT
* * *
8446859 TATTTAAAGGGTATTGTTATCAAATGATGCCAAAAATTGGGTAAGAACCAGTCACGCAATGCCTA
390 TATTTAAAGGATATTGTTATCAAATCATGCCAAAAATTGGGTAAGAACCAGTCATGCAATGCCTA
* ** * ** * ** * * * **
8446924 AGAACTAGTTGTGCAATGCCTAAGTTCTAGAGATGCAATGAT-TAAGTCACACAATG-CCTAAAA
455 AGAACCAGTCATGCAATACCTAA-AACCAGTCACGCAATG-TCTAAGTC-TA-AA-GACGTAATG
8446987 ACT
515 ACT
* * ** * *
8446990 AGTCTCGGAATGCCTAAAAATTAATCTCGTAATGCCTAAAAATCAATGACACAATGCCTAAAAAC
1 AGTCACGCAATGCCTAAAAACCAGTCACGTAATGCCTAAAAATCAATGACACAATGCCTAAAAAC
* *
8447055 TAATAACGCAACACTTAAAAACTAATTGA-TTAGCTTGCTCACAGCTAAGTTTAAGTTACCAAAG
66 TAATAACGCAACACTTAATAACTAATTGATTTA-CCTGCTCACAGCTAAGTTTAAGTTACCAAAG
* *
8447119 TCATACAATATTCTAATTTACAAATATGTCTAACAAATTTCAACCCATCAACTTTGGGGTTCTAT
130 TCATACAATATTCTAATTTACAAATATGTCTAACCAATTTCAACCCCTCAACTTTGGGGTTCTAT
* *
8447184 TTTATGAATATAAACCAATAAATCCAACAATCCAAAACACATACTTTGATGTCATCTCTACTCTT
195 TCTATGAATATAAACCAATAAATCCAACAACCCAAAACACATACTTTGATGTCATCTCTACTCTT
* * * *
8447249 TGGGATGGGGAGAGAGAACTAGATAGAGAGATAAACAGTATTTGGCAAGAGAAAAATGGGGATTT
260 TGGGATGGTGAGAGAGAACTAGATAGAGAGATAAACAATATTTGGCAAGAGAGAAATGGAGATTT
* * * *
8447314 GATTTTGGAATTTTAGTCTAGAGGGCGAGACAGAGAAAGCCGGGACCATTTAATTTGTCTAAAAT
325 AATTTTGGAATTTTAGTTTAGAGGGCGAGATAGAGAAAACCGGGACCATTTAATTTGTCTAAAAT
*
8447379 TATTTAAAGGATATTGTTACCAAATCATGCCAAAAATTGGGTAAGAACCAGTCATGCAATGCCTA
390 TATTTAAAGGATATTGTTATCAAATCATGCCAAAAATTGGGTAAGAACCAGTCATGCAATGCCTA
* *
8447444 AGAACCAATCATGCAATACCTAAAACCAGTCACGCAATGTCTAAGTTCTAGAGACGTAATGA-T
455 AGAACCAGTCATGCAATACCTAAAACCAGTCACGCAATGTCTAAG-TCTAAAGACGTAATGACT
* *
8447507 NAGTCACGCAATGCTTAAAAACCAGTCACGTGATGCCTAAAAATCAATGACACAATGCCT-AAAA
1 -AGTCACGCAATGCCTAAAAACCAGTCACGTAATGCCTAAAAATCAATGACACAATGCCTAAAAA
**
8447571 CTAATAACGCAACACTTAATAACTAATTGATTTACCTGCTCACAGCTAAGTTTAAGTTGTCAAAG
65 CTAATAACGCAACACTTAATAACTAATTGATTTACCTGCTCACAGCTAAGTTTAAGTTACCAAAG
* * *
8447636 TCATACAATATTCTAGTTTACAAATATGTCTAACCAATTTTAACCCCTCAACTTTGGGGTTTTAT
130 TCATACAATATTCTAATTTACAAATATGTCTAACCAATTTCAACCCCTCAACTTTGGGGTTCTAT
* **
8447701 TTTATGAATATAAACCAATAAATTTAACAACCCAAAACACATACTTTGATGTCATCTCTACT-TT
195 TCTATGAATATAAACCAATAAATCCAACAACCCAAAACACATACTTTGATGTCATCTCTACTCTT
* * * * *
8447765 TGGGACGGTGAGAGAAAACTAGATTGAGAGATAAACAATATTTGGCAAAAGAGAAATGGGGATTT
260 TGGGATGGTGAGAGAGAACTAGATAGAGAGATAAACAATATTTGGCAAGAGAGAAATGGAGATTT
* * *
8447830 AATTTTGGAATTTTAGTTTGGAGGGCAAGATAGAGAAAACCGGGACCATTTAATTTATCTAAAAT
325 AATTTTGGAATTTTAGTTTAGAGGGCGAGATAGAGAAAACCGGGACCATTTAATTTGTCTAAAAT
* * * ** * * *
8447895 TGTTTAGAGGGTATTGTTATCAAATCATGCCAAAAATTAAGTAAAAACCCAATCATGAAATGCCT
390 TATTTAAAGGATATTGTTATCAAATCATGCCAAAAATTGGGTAAGAA-CCAGTCATGCAATGCCT
* * * * *
8447960 AAAAATCAGTCACGCAATACCTAAAACCAGTTC-CGCAATG-CTTAAGCTCTAAAGATGCAATGA
454 AAGAACCAGTCATGCAATACCTAAAACCAG-TCACGCAATGTC-TAAG-TCTAAAGACGTAATGA
*
8448023 TT
516 CT
* * * * *
8448025 AAGTTATGCAATGCCTAAAAACTAATCTTGTAATGCCGAAGTCACGATGCCTAAAAATTAGTATC
1 -AGTCACGCAATGCCTAAAAAC----C-----A-GTC-ACGT-A--ATGCCTAAAAATCA--AT-
* * * * *
8448090 GTAATACCTAAAAATCAATGACAC-AATACCTAAAAACTAATAACGCAACCCTTAATAAGTAATT
48 G----A-C-----A-CAATG-C-CTAAAAACT-AATA--A----CGCAACACTTAATAACTAATT
** * * * *
8448154 GATTGGCTTGCTCATAGTTAAGTTTAAGTTACCAAAGTCATACAGTATTCTAATTTACAAATATG
93 GATTTACCTGCTCACAGCTAAGTTTAAGTTACCAAAGTCATACAATATTCTAATTTACAAATATG
* * *
8448219 TCTAACCGATTTCAATCCCTCAACTTTGGGGTTCTATTCTATGAATATAAACCAATAAATCTAAC
158 TCTAACCAATTTCAACCCCTCAACTTTGGGGTTCTATTCTATGAATATAAACCAATAAATCCAAC
* * * * *
8448284 AACTCAAAACACATACTTTGATGTCATCTATGCTCTTTGGGATGGTAAAAGAGAACTAGATAGAG
223 AACCCAAAACACATACTTTGATGTCATCTCTACTCTTTGGGATGGTGAGAGAGAACTAGATAGAG
* * * * * * *
8448349 AGATAAACAATATTTAGTAAGAGAGAAATGGAGATTTAATTTTAGAATTTTAGTTTGGAGCGTGG
288 AGATAAACAATATTTGGCAAGAGAGAAATGGAGATTTAATTTTGGAATTTTAGTTTAGAGGGCGA
* * * * * *
8448414 GATAGAGAAAACTGGGACCACTTAATTTGTCTGAAATTGTTTAAAGAATATTGTTATCAAACCAT
353 GATAGAGAAAACCGGGACCATTTAATTTGTCTAAAATTATTTAAAGGATATTGTTATCAAATCAT
*
8448479 GCCAAAAAATGGGTAA
418 GCCAAAAATTGGGTAA
8448495 AAACAGTTAA
Statistics
Matches: 1281, Mismatches: 167, Indels: 71
0.84 0.11 0.05
Matches are distributed among these distances:
512 4 0.00
513 264 0.21
516 160 0.12
517 247 0.19
518 82 0.06
519 15 0.01
520 152 0.12
522 1 0.00
527 1 0.00
528 2 0.00
529 3 0.00
532 13 0.01
534 2 0.00
535 1 0.00
539 1 0.00
540 1 0.00
545 1 0.00
546 5 0.00
547 1 0.00
548 5 0.00
549 3 0.00
551 1 0.00
555 165 0.13
556 151 0.12
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (517 bp):
AGTCACGCAATGCCTAAAAACCAGTCACGTAATGCCTAAAAATCAATGACACAATGCCTAAAAAC
TAATAACGCAACACTTAATAACTAATTGATTTACCTGCTCACAGCTAAGTTTAAGTTACCAAAGT
CATACAATATTCTAATTTACAAATATGTCTAACCAATTTCAACCCCTCAACTTTGGGGTTCTATT
CTATGAATATAAACCAATAAATCCAACAACCCAAAACACATACTTTGATGTCATCTCTACTCTTT
GGGATGGTGAGAGAGAACTAGATAGAGAGATAAACAATATTTGGCAAGAGAGAAATGGAGATTTA
ATTTTGGAATTTTAGTTTAGAGGGCGAGATAGAGAAAACCGGGACCATTTAATTTGTCTAAAATT
ATTTAAAGGATATTGTTATCAAATCATGCCAAAAATTGGGTAAGAACCAGTCATGCAATGCCTAA
GAACCAGTCATGCAATACCTAAAACCAGTCACGCAATGTCTAAGTCTAAAGACGTAATGACT
Found at i:8451364 original size:24 final size:24
Alignment explanation
Indices: 8451343--8451523 Score: 117
Period size: 24 Copynumber: 7.8 Consensus size: 24
8451333 GTTACACACT
8451343 ATGTACAGAAACATGTGACACATC
1 ATGTACAGAAACATGTGACACATC
* *
8451367 ATGTACAGAAATATGTGACACGTC
1 ATGTACAGAAACATGTGACACATC
* * * *
8451391 ATGGT-TAG--A-TTGTTACACACC
1 AT-GTACAGAAACATGTGACACATC
* *
8451412 ATGTACAGAAGCATGTGACACGTC
1 ATGTACAGAAACATGTGACACATC
* **
8451436 ATGTACAAAAACATGTGACACGCC
1 ATGTACAGAAACATGTGACACATC
* * * *
8451460 ATGCT-TAG--A-TTGTTACACACC
1 ATG-TACAGAAACATGTGACACATC
* *
8451481 ATGTGCAGAAACATGTGACACGTC
1 ATGTACAGAAACATGTGACACATC
* *
8451505 ATGTACAAAAATATGTGAC
1 ATGTACAGAAACATGTGAC
8451524 CATAGTTAGG
Statistics
Matches: 118, Mismatches: 29, Indels: 20
0.71 0.17 0.12
Matches are distributed among these distances:
20 3 0.03
21 26 0.22
22 2 0.02
23 1 0.01
24 83 0.70
25 3 0.03
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (24 bp):
ATGTACAGAAACATGTGACACATC
Found at i:8451395 original size:69 final size:69
Alignment explanation
Indices: 8451297--8451523 Score: 328
Period size: 69 Copynumber: 3.3 Consensus size: 69
8451287 TGTTAAACGC
* * * * * * *
8451297 CATGTGCAAAAACATATGGCACGCTATGGTTAGGTTGTTACACACTATGTACAGAAACATGTGAC
1 CATGTACAAAAATATGTGACACGCCATGGTTAGATTGTTACACACCATGTACAGAAACATGTGAC
*
8451362 ACAT
66 ACGT
* * *
8451366 CATGTACAGAAATATGTGACACGTCATGGTTAGATTGTTACACACCATGTACAGAAGCATGTGAC
1 CATGTACAAAAATATGTGACACGCCATGGTTAGATTGTTACACACCATGTACAGAAACATGTGAC
8451431 ACGT
66 ACGT
* * *
8451435 CATGTACAAAAACATGTGACACGCCATGCTTAGATTGTTACACACCATGTGCAGAAACATGTGAC
1 CATGTACAAAAATATGTGACACGCCATGGTTAGATTGTTACACACCATGTACAGAAACATGTGAC
8451500 ACGT
66 ACGT
8451504 CATGTACAAAAATATGTGAC
1 CATGTACAAAAATATGTGAC
8451524 CATAGTTAGG
Statistics
Matches: 140, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 140 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (69 bp):
CATGTACAAAAATATGTGACACGCCATGGTTAGATTGTTACACACCATGTACAGAAACATGTGAC
ACGT
Found at i:8451566 original size:29 final size:29
Alignment explanation
Indices: 8451533--8451686 Score: 135
Period size: 29 Copynumber: 5.3 Consensus size: 29
8451523 CCATAGTTAG
8451533 GTTGTTACA-GTCATGTTGAAAAAAATATT
1 GTTGTTACACGTCATGTT-AAAAAAATATT
*
8451562 GTTGTTACACGTCATGGTT--AAAAA-A-G
1 GTTGTTACACGTCAT-GTTAAAAAAATATT
*
8451588 GTTGTTACACG-CTATGTTGAAAAAAAAATACT
1 GTTGTTACACGTC-ATGTT---AAAAAAATATT
*
8451620 GTTGTTACACGCCATGTTAAAAAAATATT
1 GTTGTTACACGTCATGTTAAAAAAATATT
* * *
8451649 ATTGTTATACGTCATAATT-AAAAAATATT
1 GTTGTTACACGTCAT-GTTAAAAAAATATT
8451678 -TTGTTACAC
1 GTTGTTACAC
8451687 TTTAATGTCT
Statistics
Matches: 105, Mismatches: 8, Indels: 25
0.76 0.06 0.18
Matches are distributed among these distances:
25 4 0.04
26 13 0.12
27 1 0.01
28 13 0.12
29 41 0.39
30 12 0.11
31 4 0.04
32 16 0.15
33 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (29 bp):
GTTGTTACACGTCATGTTAAAAAAATATT
Found at i:8451644 original size:58 final size:55
Alignment explanation
Indices: 8451531--8451643 Score: 158
Period size: 58 Copynumber: 2.0 Consensus size: 55
8451521 GACCATAGTT
* *
8451531 AGGTTGTTACAGTCATGTTGAAAAAAATATTGTTGTTACACGTCATGGTTAAAAA
1 AGGTTGTTACAGTCATGTTGAAAAAAATACTGTTGTTACACGCCATGGTTAAAAA
8451586 AGGTTGTTACACG-CTATGTTGAAAAAAAAATACTGTTGTTACACGCCAT-GTTAAAAA
1 AGGTTGTTACA-GTC-ATGTTG--AAAAAAATACTGTTGTTACACGCCATGGTTAAAAA
8451643 A
1 A
8451644 ATATTATTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
55 12 0.23
56 7 0.13
57 9 0.17
58 24 0.46
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.32
Consensus pattern (55 bp):
AGGTTGTTACAGTCATGTTGAAAAAAATACTGTTGTTACACGCCATGGTTAAAAA
Found at i:8460430 original size:17 final size:17
Alignment explanation
Indices: 8460408--8460444 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
8460398 ATTATATCAT
8460408 ATAAATATA-AAATATTA
1 ATAAATATATAAATA-TA
8460425 ATAAATATATAAATATA
1 ATAAATATATAAATATA
8460442 ATA
1 ATA
8460445 TAATTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAATATATAAATATA
Found at i:8460768 original size:8 final size:8
Alignment explanation
Indices: 8460755--8460781 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
8460745 AAAAAAAGAG
8460755 CAACAAAA
1 CAACAAAA
8460763 CAACAAAA
1 CAACAAAA
8460771 CAACAAAA
1 CAACAAAA
8460779 CAA
1 CAA
8460782 AGTTTTGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.26, G:0.00, T:0.00
Consensus pattern (8 bp):
CAACAAAA
Found at i:8486598 original size:22 final size:21
Alignment explanation
Indices: 8486573--8486644 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 21
8486563 TAGTTATTAT
8486573 GCATTGCATTATTGATTTTTAG
1 GCATTG-ATTATTGATTTTTAG
* *
8486595 GCATTGTATCACT-AGTTTTTAG
1 GCATTG-ATTATTGA-TTTTTAG
* *
8486617 GCATTGTTATATTGGTTTTTAG
1 GCATTGAT-TATTGATTTTTAG
*
8486639 GTATTG
1 GCATTG
8486645 TGTGACGTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
21 2 0.05
22 37 0.95
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.50
Consensus pattern (21 bp):
GCATTGATTATTGATTTTTAG
Found at i:8486645 original size:22 final size:22
Alignment explanation
Indices: 8486582--8486645 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
8486572 TGCATTGCAT
*
8486582 TATTGATTTTTAGGCATTG-TA
1 TATTGGTTTTTAGGCATTGTTA
* *
8486603 TCACTAGTTTTTAGGCATTGTTA
1 T-ATTGGTTTTTAGGCATTGTTA
*
8486626 TATTGGTTTTTAGGTATTGT
1 TATTGGTTTTTAGGCATTGT
8486646 GTGACGTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
21 1 0.03
22 31 0.89
23 3 0.09
ACGTcount: A:0.20, C:0.06, G:0.20, T:0.53
Consensus pattern (22 bp):
TATTGGTTTTTAGGCATTGTTA
Done.