Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 108 of 290
Found at i:36860093 original size:33 final size:33
Alignment explanation
Indices: 36860056--36860143 Score: 131
Period size: 33 Copynumber: 2.7 Consensus size: 33
36860046 GACCTAGGAA
*
36860056 GAGTGAAGTACTGCGGTGGATATGGGCCTAGAG
1 GAGTGAAGTACTGCGGTGGATATGAGCCTAGAG
*
36860089 GAGTGAAGTACTGCGATGGATATGAGCCTAGAG
1 GAGTGAAGTACTGCGGTGGATATGAGCCTAGAG
** *
36860122 GAGTGTTGTACTGCGGTTGATA
1 GAGTGAAGTACTGCGGTGGATA
36860144 CGGCCCAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.25, C:0.11, G:0.39, T:0.25
Consensus pattern (33 bp):
GAGTGAAGTACTGCGGTGGATATGAGCCTAGAG
Found at i:36862044 original size:18 final size:17
Alignment explanation
Indices: 36862023--36862059 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
36862013 AGAGATACTA
36862023 TTTTGGTATTTTATTATT
1 TTTTGGTATTTTATT-TT
36862041 TTTTGGTATTTTATTTT
1 TTTTGGTATTTTATTTT
36862058 TT
1 TT
36862060 CATAAATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.76
Consensus pattern (17 bp):
TTTTGGTATTTTATTTT
Found at i:36862058 original size:50 final size:50
Alignment explanation
Indices: 36861984--36862092 Score: 175
Period size: 50 Copynumber: 2.2 Consensus size: 50
36861974 CCTAAAATGA
*
36861984 ATTATTATTTTGGTATTTTATTTTTTCATAGAGATACTATTTTGGTATTTT
1 ATTATT-TTTTGGTATTTTATTTTTTCATAAAGATACTATTTTGGTATTTT
* *
36862035 ATTATTTTTTGGTATTTTATTTTTTCATAAATATGCTATTTTGGTATTTT
1 ATTATTTTTTGGTATTTTATTTTTTCATAAAGATACTATTTTGGTATTTT
36862085 ATT-TTTTT
1 ATTATTTTT
36862093 ATAATATATT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
49 5 0.09
50 44 0.80
51 6 0.11
ACGTcount: A:0.22, C:0.04, G:0.10, T:0.64
Consensus pattern (50 bp):
ATTATTTTTTGGTATTTTATTTTTTCATAAAGATACTATTTTGGTATTTT
Found at i:36884043 original size:12 final size:12
Alignment explanation
Indices: 36884026--36884059 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
36884016 TGGCCCGCCC
36884026 ATATTAATTTTT
1 ATATTAATTTTT
*
36884038 ATATTATTTTTT
1 ATATTAATTTTT
36884050 ATA-TAATTTT
1 ATATTAATTTT
36884060 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:36884216 original size:30 final size:30
Alignment explanation
Indices: 36884180--36884237 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
36884170 CAATTTAACA
*
36884180 AGCAAATGCCTCTAAAATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAAATT
*
36884210 AGCAAATGTCTCTAAAATAATAAAAAAA
1 AGCAAATGCCTCTAAAATAATAAAAAAA
36884238 ATTAACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.22
Consensus pattern (30 bp):
AGCAAATGCCTCTAAAATAATAAAAAAATT
Found at i:36886484 original size:24 final size:25
Alignment explanation
Indices: 36886448--36886508 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
36886438 GGTCTCTATA
36886448 TTTTTTTCGTTTT-GAGCCATTTAAT
1 TTTTTTTC-TTTTAGAGCCATTTAAT
* ** *
36886473 TTTTTTTCTTTTATATTCTTTTAAT
1 TTTTTTTCTTTTAGAGCCATTTAAT
36886498 TTTTTTTCTTT
1 TTTTTTTCTTT
36886509 ATTTTCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 4 0.13
25 27 0.87
ACGTcount: A:0.13, C:0.10, G:0.05, T:0.72
Consensus pattern (25 bp):
TTTTTTTCTTTTAGAGCCATTTAAT
Found at i:36888140 original size:31 final size:29
Alignment explanation
Indices: 36888095--36888161 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
36888085 TCAAAATTAT
* *
36888095 ACATAAACTTTAATTCAATGTACAATTAGAC
1 ACATGAACTATAATTCAATGT--AATTAGAC
** *
36888126 ACATGAACTATAATTTGATGTAATTATAC
1 ACATGAACTATAATTCAATGTAATTAGAC
36888155 ACATGAA
1 ACATGAA
36888162 ATTTTGATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 14 0.45
31 17 0.55
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (29 bp):
ACATGAACTATAATTCAATGTAATTAGAC
Found at i:36888422 original size:31 final size:31
Alignment explanation
Indices: 36888375--36888451 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
36888365 TGCACAAAAT
* *
36888375 TAAAGTTCATGAATAAAATTGCATATTAGAC
1 TAAAGTTTATGTATAAAATTGCATATTAGAC
*
36888406 TAAAGTTTATGTATAAAATTGTATATTAGAC
1 TAAAGTTTATGTATAAAATTGCATATTAGAC
36888437 TAAAGTTTATGTATA
1 TAAAGTTTATGTATA
36888452 CTTTTAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (31 bp):
TAAAGTTTATGTATAAAATTGCATATTAGAC
Found at i:36892578 original size:75 final size:76
Alignment explanation
Indices: 36892442--36892594 Score: 290
Period size: 75 Copynumber: 2.0 Consensus size: 76
36892432 ATTTATTAGA
36892442 TAACCATACCTTAAAAAACTGAAACTATTTCAAATGTTTTTTTTTATAGTTACCTCTAGATTGAC
1 TAACCATACCTTAAAAAACTGAAACTATTTCAAATGTTTTTTTTTATAGTTACCTCTAGATTGAC
36892507 CAACAGAGGTC
66 CAACAGAGGTC
*
36892518 TAACCATACCTTAAAAAATTGAAACTATTTCAAATG-TTTTTTTTATAGTTACCTCTAGATTGAC
1 TAACCATACCTTAAAAAACTGAAACTATTTCAAATGTTTTTTTTTATAGTTACCTCTAGATTGAC
36892582 CAACAGAGGTC
66 CAACAGAGGTC
36892593 TA
1 TA
36892595 TGATCCGACT
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 41 0.54
76 35 0.46
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (76 bp):
TAACCATACCTTAAAAAACTGAAACTATTTCAAATGTTTTTTTTTATAGTTACCTCTAGATTGAC
CAACAGAGGTC
Found at i:36895423 original size:13 final size:13
Alignment explanation
Indices: 36895405--36895446 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
36895395 ATTTACTTTA
*
36895405 TATAACAATTTCG
1 TATAACCATTTCG
* *
36895418 TATAACCATCTCA
1 TATAACCATTTCG
36895431 TATAACCATTTCG
1 TATAACCATTTCG
36895444 TAT
1 TAT
36895447 TATACATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (13 bp):
TATAACCATTTCG
Found at i:36907178 original size:34 final size:34
Alignment explanation
Indices: 36907113--36907178 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
36907103 ACCCAAAATA
* * **
36907113 TCAATACCGTATTAATTAAATTATTTTATCAGTT
1 TCAATACCGTATTAATCAAATCATTCAATCAGTT
* *
36907147 TCAATACCTTATTAATCAAGTCATTCAATCAG
1 TCAATACCGTATTAATCAAATCATTCAATCAG
36907179 CCTCACTAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.41
Consensus pattern (34 bp):
TCAATACCGTATTAATCAAATCATTCAATCAGTT
Found at i:36909689 original size:17 final size:19
Alignment explanation
Indices: 36909658--36909695 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
36909648 AATTAAATTT
36909658 AATTATAATAAATAA-TAA
1 AATTATAATAAATAACTAA
*
36909676 AATT-TAATATATAACTAA
1 AATTATAATAAATAACTAA
36909694 AA
1 AA
36909696 AGTCAAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
AATTATAATAAATAACTAA
Found at i:36909709 original size:65 final size:65
Alignment explanation
Indices: 36909612--36909748 Score: 256
Period size: 65 Copynumber: 2.1 Consensus size: 65
36909602 TTAATATCGC
*
36909612 ATTTAATATATAACTAAAAAGTCAATCTGTAAATTTAATTAAATTTAATTATAATAAATAATAAA
1 ATTTAATATATAACTAAAAAGTCAAGCTGTAAATTTAATTAAATTTAATTATAATAAATAATAAA
36909677 ATTTAATATATAACTAAAAAGTCAAGCTGTAAATTTAATTAAATTTAATTATAATAAATAATAAA
1 ATTTAATATATAACTAAAAAGTCAAGCTGTAAATTTAATTAAATTTAATTATAATAAATAATAAA
*
36909742 ATATAAT
1 ATTTAAT
36909749 CCTTACTTAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 70 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (65 bp):
ATTTAATATATAACTAAAAAGTCAAGCTGTAAATTTAATTAAATTTAATTATAATAAATAATAAA
Found at i:36909715 original size:32 final size:31
Alignment explanation
Indices: 36909612--36909715 Score: 88
Period size: 32 Copynumber: 3.2 Consensus size: 31
36909602 TTAATATCGC
36909612 ATTTAATATATAACTAAAAAGTCAATCTGTAA
1 ATTTAATATATAACTAAAAAGTCAA-CTGTAA
* * * *
36909644 ATTTAATTAAATTTAATTATAATAAAT-AA-T-AAA
1 ATTTAA-T--ATATAACTA-AA-AAGTCAACTGTAA
36909677 ATTTAATATATAACTAAAAAGTCAAGCTGTAA
1 ATTTAATATATAACTAAAAAGTCAA-CTGTAA
36909709 ATTTAAT
1 ATTTAAT
36909716 TAAATTTAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
28 3 0.05
29 4 0.07
30 7 0.13
31 1 0.02
32 16 0.29
33 9 0.16
34 1 0.02
35 7 0.13
36 4 0.07
37 3 0.05
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.38
Consensus pattern (31 bp):
ATTTAATATATAACTAAAAAGTCAACTGTAA
Found at i:36914390 original size:47 final size:48
Alignment explanation
Indices: 36914084--36914395 Score: 190
Period size: 47 Copynumber: 6.6 Consensus size: 48
36914074 TGTGTGTGCT
*
36914084 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCACATT-ATGAAATGA--C
1 AGTGTAAGACCATGTCTGGGACATGGCATCG---AC-TTGATGAGATGAGCC
*
36914131 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGA-GACGA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATGA-GATGAGCC
* * * * **
36914177 AGTGTAAGA-CATGTCTGGGACAT-GTATCGGC-TG-CGAGATGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGAGATGAGCC
* * * * * * *
36914221 AGTATAAGACCATGTCTAGGACATGACACCTGCAC-AGATATGTGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTG--ATGAGATGAGCC
* * * * ** *
36914271 AGTGTATGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA-TGAGATGAGCC
*
36914320 AGTATAAGACCATGTCTGGGACATGGCATCGACTTGATG-GATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGAGATGAGCC
36914367 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
36914396 TGGCATTATA
Statistics
Matches: 210, Mismatches: 38, Indels: 34
0.74 0.13 0.12
Matches are distributed among these distances:
43 2 0.01
44 22 0.10
45 15 0.07
46 36 0.17
47 62 0.30
48 8 0.04
49 33 0.16
50 29 0.14
51 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGAGATGAGCC
Found at i:36914393 original size:96 final size:93
Alignment explanation
Indices: 36914084--36914391 Score: 265
Period size: 96 Copynumber: 3.3 Consensus size: 93
36914074 TGTGTGTGCT
* * * * *
36914084 AGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATTATGAAATGACAGTGTAAGA-CATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATT-TGATA-GTCAGTATAAGACCATGTCT
*
36914147 GGGACAT-GCATCGGCATTGA-GACGAGAGCC
64 GGGACATGGCATCGAC-TTGATGA-GAGAGCC
* ** * *
36914177 AGTGTAAGACATGTCTGGGACATGTATCGG-CTGCGAGATG-T-GTTAGTATAAGACCATGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGATTTGATAGTCAGTATAAGACCATGTCTG
* * * * *
36914239 GGACATGACACCTGCAC-AGATATGTGAGAGCT
65 GGACATGGCATC-G-ACTTG--ATGAGAGAGCC
* *
36914271 AGTGTATGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGATAGTCAGTATAAGACCATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGATTT-GATAGTCAGTATAAGACCATGTC
36914336 TGGGACATGGCATCGACTTGATG-GATGAGCC
63 TGGGACATGGCATCGACTTGATGAGA-GAGCC
36914367 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
36914392 GCATTGGCAT
Statistics
Matches: 170, Mismatches: 28, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
90 9 0.05
91 13 0.08
92 5 0.03
93 32 0.19
94 17 0.10
95 18 0.11
96 39 0.23
97 5 0.03
98 3 0.02
99 29 0.17
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATTTGATAGTCAGTATAAGACCATGTCTGG
GACATGGCATCGACTTGATGAGAGAGCC
Found at i:36918841 original size:11 final size:11
Alignment explanation
Indices: 36918825--36918849 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36918815 AAAGAGCGAG
36918825 AAACGGGCCGA
1 AAACGGGCCGA
36918836 AAACGGGCCGA
1 AAACGGGCCGA
36918847 AAA
1 AAA
36918850 TGGAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.24, G:0.32, T:0.00
Consensus pattern (11 bp):
AAACGGGCCGA
Found at i:36926145 original size:97 final size:97
Alignment explanation
Indices: 36925979--36926172 Score: 370
Period size: 97 Copynumber: 2.0 Consensus size: 97
36925969 CCTCCAGTAC
36925979 GTGGACAAACCACTTTCAGTACTTCCTCCGTCAATATCCCAATCCCATGCATCAGATAATAACAA
1 GTGGACAAACCACTTTCAGTACTTCCTCCGTCAATATCCCAATCCCATGCATCAGATAATAACAA
36926044 CATGGCATGCAGTAAATAAAAACAGTCAAACA
66 CATGGCATGCAGTAAATAAAAACAGTCAAACA
*
36926076 GTGGACAAGCCACTTTCAGTACTTCCTCCGTCAATATCCCAATCCCATGCATCAGATAATAACAA
1 GTGGACAAACCACTTTCAGTACTTCCTCCGTCAATATCCCAATCCCATGCATCAGATAATAACAA
*
36926141 CATGGCATGCAGTAAATAACAACAGTCAAACA
66 CATGGCATGCAGTAAATAAAAACAGTCAAACA
36926173 TGCATTTAGG
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.22
Consensus pattern (97 bp):
GTGGACAAACCACTTTCAGTACTTCCTCCGTCAATATCCCAATCCCATGCATCAGATAATAACAA
CATGGCATGCAGTAAATAAAAACAGTCAAACA
Found at i:36926213 original size:25 final size:27
Alignment explanation
Indices: 36926176--36926228 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
36926166 TCAAACATGC
36926176 ATTTAGGTCAATTTA-ATACTAGGGGT
1 ATTTAGGTCAATTTATATACTAGGGGT
* *
36926202 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTATATACTAGGGGT
36926228 A
1 A
36926229 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTATATACTAGGGGT
Found at i:36927750 original size:26 final size:26
Alignment explanation
Indices: 36927714--36927797 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
36927704 CATGAAATTC
36927714 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
36927740 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
36927766 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
36927792 TTATCA
1 TTATCA
36927798 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:36933382 original size:28 final size:29
Alignment explanation
Indices: 36933346--36933403 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
36933336 AAAGTGATTT
*
36933346 TTGACAAAAATGTCAATT-AGGGATTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
* * *
36933374 TTGAGAAAATTGTAAATTGAGGGGTTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
36933403 T
1 T
36933404 GTGTGAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.31
Consensus pattern (29 bp):
TTGACAAAAATGTAAATTGAGGGATTAAA
Found at i:36938474 original size:36 final size:36
Alignment explanation
Indices: 36938434--36938505 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
36938424 AAATGCCATG
*
36938434 TTTATTCAGATCATAAGAGTTTGAAGTATTTGATGA
1 TTTATTCAGATCACAAGAGTTTGAAGTATTTGATGA
*
36938470 TTTATTCAGGTCACAAGAGTTTGAAGTATTTGATGA
1 TTTATTCAGATCACAAGAGTTTGAAGTATTTGATGA
36938506 CACAGAACGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (36 bp):
TTTATTCAGATCACAAGAGTTTGAAGTATTTGATGA
Found at i:36941500 original size:47 final size:47
Alignment explanation
Indices: 36941431--36941560 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
36941421 GTGCGAATAA
* * * * **
36941431 TACCTTGATTTAGCTATGGGCCATGATATAGGTATTTTGAGA-AGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGATA-AGT
*
36941478 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCCGAGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGATAAGT
36941525 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
36941561 TATCGATTGT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 73 0.99
48 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGATAAGT
Found at i:36943079 original size:53 final size:50
Alignment explanation
Indices: 36942998--36943145 Score: 176
Period size: 47 Copynumber: 3.0 Consensus size: 50
36942988 AACATGTGAG
* * * *
36942998 ATGTGCTCCCGTATAAGACCATAGTTGGGCTATGGCATCAGTGGGATTCGATT
1 ATGTGCTTCCGTATAAGACCATATTTGGGATATGGCATCAGTGTGATT--A-T
*
36943051 ATGTGCTTCCGTATAAGACCTTATTTGGGATATGGCATC-G-GTGA-TAT
1 ATGTGCTTCCGTATAAGACCATATTTGGGATATGGCATCAGTGTGATTAT
* * *
36943098 ATGTGCTTCTGTGTAAGACCATATCTGGGATATGGCATCAGTGTGATT
1 ATGTGCTTCCGTATAAGACCATATTTGGGATATGGCATCAGTGTGATT
36943146 TGTGATCTGT
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
47 36 0.43
48 2 0.02
49 4 0.05
50 2 0.02
51 3 0.04
52 1 0.01
53 35 0.42
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (50 bp):
ATGTGCTTCCGTATAAGACCATATTTGGGATATGGCATCAGTGTGATTAT
Found at i:36943127 original size:47 final size:48
Alignment explanation
Indices: 36943011--36943188 Score: 159
Period size: 47 Copynumber: 3.7 Consensus size: 48
36943001 TGCTCCCGTA
* * *
36943011 TAAGACCATAGT-TGGGCTATGGCATCAGTGGGATTCGATTATGTGCTTCCGTA
1 TAAGACCATA-TCTGGGATATGGCATCAGT--G--T-GATTATGTGCTTCTGTG
* *
36943064 TAAGACCTTATTTGGGATATGGCATC-G-GTGATATATGTGCTTCTGTG
1 TAAGACCATATCTGGGATATGGCATCAGTGTGAT-TATGTGCTTCTGTG
*
36943111 TAAGACCATATCTGGGATATGGCATCAGTGTGATT-TGTG-ATCTGTG
1 TAAGACCATATCTGGGATATGGCATCAGTGTGATTATGTGCTTCTGTG
** * * *
36943157 TAAGACCATGGCTGGGCTATGACTTCAGTGTG
1 TAAGACCATATCTGGGATATGGCATCAGTGTG
36943189 TGACATGTGA
Statistics
Matches: 109, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
46 36 0.33
47 41 0.38
48 2 0.02
49 6 0.06
52 2 0.02
53 22 0.20
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (48 bp):
TAAGACCATATCTGGGATATGGCATCAGTGTGATTATGTGCTTCTGTG
Found at i:36944644 original size:16 final size:16
Alignment explanation
Indices: 36944619--36944651 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36944609 TTGAATTGCT
36944619 TAAGTATGAA-CTTAC
1 TAAGTATGAAGCTTAC
36944634 TAAGCTATGAAGCTTAC
1 TAAG-TATGAAGCTTAC
36944651 T
1 T
36944652 GTGTGTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 6 0.38
17 6 0.38
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (16 bp):
TAAGTATGAAGCTTAC
Found at i:36945516 original size:15 final size:16
Alignment explanation
Indices: 36945475--36945521 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 16
36945465 GTCTGGTGGT
36945475 CGTGTGAAACACACGG
1 CGTGTGAAACACACGG
* **
36945491 CTTGT-TCACACA-GG
1 CGTGTGAAACACACGG
36945505 CGTGTGAAACACACGG
1 CGTGTGAAACACACGG
36945521 C
1 C
36945522 ATTTCATGAA
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
14 6 0.26
15 10 0.43
16 7 0.30
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (16 bp):
CGTGTGAAACACACGG
Found at i:36945963 original size:44 final size:44
Alignment explanation
Indices: 36945866--36945963 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
36945856 CTTTGTGGGC
* * * * *
36945866 AGACCGTGTACAATTCAAATATAGGGTTACACGGCCGTGTCGTT
1 AGACCATGTACAATTCAAATATAGGGTCACACGACCATGTCGCT
* * * *
36945910 AGGCTATGTACAATTCGAATATATGGTCACACGACCATGTCGCT
1 AGACCATGTACAATTCAAATATAGGGTCACACGACCATGTCGCT
36945954 AGACCATGTA
1 AGACCATGTA
36945964 ACTCCTTAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
AGACCATGTACAATTCAAATATAGGGTCACACGACCATGTCGCT
Found at i:36948574 original size:20 final size:20
Alignment explanation
Indices: 36948536--36948583 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
36948526 TAAATTCTAA
* **
36948536 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
36948556 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
36948576 AAA-ATAAA
1 AAAGATAAA
36948584 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:36948608 original size:27 final size:26
Alignment explanation
Indices: 36948578--36948639 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
36948568 AGATAATTAA
36948578 AATAAAATCCTAAAT-TTGAATAATCCT
1 AATAAAAT-CTAAATATT-AATAATCCT
* * *
36948605 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCTAAATATTAATAATCCT
36948632 AATAAAAT
1 AATAAAAT
36948640 GGAGTCTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (26 bp):
AATAAAATCTAAATATTAATAATCCT
Found at i:36954253 original size:3 final size:3
Alignment explanation
Indices: 36954224--36954270 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
36954214 AGAATTTTAT
36954224 TAA T-A TAA TAA -AA TAA -AA TAA -ATA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
36954266 TAA TA
1 TAA TA
36954271 GAAATAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 7 0.18
3 31 0.79
4 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:36954276 original size:6 final size:5
Alignment explanation
Indices: 36954225--36954280 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
36954215 GAATTTTATT
* *
36954225 AATAT AATAA AATAA AAT-A AATAT AATAA TAATAA TAATAA TAATAGA
1 AATAA AATAA AATAA AATAA AATAA AATAA -AATAA -AATAA -AATA-A
36954273 AATAA AAT
1 AATAA AAT
36954281 TTAAAATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.09
5 20 0.44
6 20 0.44
7 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (5 bp):
AATAA
Found at i:36960714 original size:10 final size:10
Alignment explanation
Indices: 36960699--36960730 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
36960689 TAAATACATT
36960699 TAATTAAAGA
1 TAATTAAAGA
36960709 TAATTAAAGA
1 TAATTAAAGA
36960719 TAATTAAA-A
1 TAATTAAAGA
36960728 TAA
1 TAA
36960731 AATCCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:36960756 original size:27 final size:26
Alignment explanation
Indices: 36960726--36960787 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
36960716 AGATAATTAA
36960726 AATAAAATCCTAAAT-TTGAATAATCCT
1 AATAAAAT-CTAAATATT-AATAATCCT
* * *
36960753 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCTAAATATTAATAATCCT
36960780 AATAAAAT
1 AATAAAAT
36960788 GGAGTCTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (26 bp):
AATAAAATCTAAATATTAATAATCCT
Found at i:36964103 original size:7 final size:7
Alignment explanation
Indices: 36964088--36964118 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
36964078 ATTTAAATTT
36964088 AATATAA
1 AATATAA
*
36964095 AACATAA
1 AATATAA
36964102 AATATAA
1 AATATAA
36964109 AATATAA
1 AATATAA
36964116 AAT
1 AAT
36964119 TATTAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (7 bp):
AATATAA
Found at i:36965445 original size:24 final size:23
Alignment explanation
Indices: 36965378--36965445 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 23
36965368 ATTATTTGCT
* *
36965378 TTCTTTGAAAATAAATTTCTTTCC
1 TTCTTTGAAAATCAATTT-TTCCC
*
36965402 TTCCTTTGAAAATCAGTTTTTCCC
1 TT-CTTTGAAAATCAATTTTTCCC
*
36965426 TTCTTTGTAAACTCAATTTT
1 TTCTTTG-AAAATCAATTTT
36965446 ACCTGACATG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 5 0.14
24 18 0.49
25 14 0.38
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (23 bp):
TTCTTTGAAAATCAATTTTTCCC
Found at i:36968351 original size:31 final size:31
Alignment explanation
Indices: 36968291--36968374 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 31
36968281 AAGTTATGGA
* * *
36968291 TTTAGTCCTTATA-TTTT-AATTTGATCAAT
1 TTTAGTCCCTATACTTTTAAAATTGGTCAAT
* * * *
36968320 TTTAGTTCTTTTACTTTTCAAATTGGTCAAT
1 TTTAGTCCCTATACTTTTAAAATTGGTCAAT
36968351 TTTAGTCCCTATACTTTTAAAATT
1 TTTAGTCCCTATACTTTTAAAATT
36968375 TTGAACTCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
29 11 0.24
30 4 0.09
31 30 0.67
ACGTcount: A:0.26, C:0.13, G:0.07, T:0.54
Consensus pattern (31 bp):
TTTAGTCCCTATACTTTTAAAATTGGTCAAT
Found at i:36969184 original size:19 final size:20
Alignment explanation
Indices: 36969162--36969201 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
36969152 TTAAAATTAT
36969162 AAAAACA-TAAAAATATAAA
1 AAAAACATTAAAAATATAAA
* *
36969181 AAAATCATTAAAATTATAAA
1 AAAAACATTAAAAATATAAA
36969201 A
1 A
36969202 TATATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAACATTAAAAATATAAA
Found at i:36969193 original size:27 final size:29
Alignment explanation
Indices: 36969154--36969211 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 29
36969144 ATTACATTTT
*
36969154 AAAATTATAAAAA-CATAAAA-ATATAAA
1 AAAATCATAAAAATCATAAAATATATAAA
* *
36969181 AAAATCATTAAAATTATAAAATATATAAA
1 AAAATCATAAAAATCATAAAATATATAAA
36969210 AA
1 AA
36969212 TTACTAGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 11 0.42
28 6 0.23
29 9 0.35
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (29 bp):
AAAATCATAAAAATCATAAAATATATAAA
Found at i:36979416 original size:19 final size:19
Alignment explanation
Indices: 36979378--36979436 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
36979368 GTTTGTGGTT
* *
36979378 TTATTATTTTTCTTTATTA
1 TTATTAATTTTCATTATTA
*
36979397 TTATTAATTTTCATTCTTA
1 TTATTAATTTTCATTATTA
* * * *
36979416 TTCTTTAGTTTCATTACTA
1 TTATTAATTTTCATTATTA
36979435 TT
1 TT
36979437 CTTTTTTATG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (19 bp):
TTATTAATTTTCATTATTA
Found at i:36983712 original size:17 final size:17
Alignment explanation
Indices: 36983690--36983725 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
36983680 TTAAATTAGT
36983690 AAATTTAGATTAAAAAC
1 AAATTTAGATTAAAAAC
36983707 AAATTTAGATTAAAAAC
1 AAATTTAGATTAAAAAC
36983724 AA
1 AA
36983726 TCACTTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (17 bp):
AAATTTAGATTAAAAAC
Found at i:36984998 original size:19 final size:19
Alignment explanation
Indices: 36984974--36985043 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 19
36984964 ATCATCGGGC
36984974 GAAGAAACAAAAGGGCAAA
1 GAAGAAACAAAAGGGCAAA
*
36984993 GAAGAAAAAAATTGATCGGGC---
1 GAAGAAACAAA---A--GGGCAAA
36985014 GAAGAAACAAAAGGGCAAA
1 GAAGAAACAAAAGGGCAAA
36985033 GAAGAAA-AAAA
1 GAAGAAACAAAA
36985044 TTGATTTGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 17
0.68 0.03 0.28
Matches are distributed among these distances:
16 4 0.10
18 5 0.12
19 17 0.41
21 10 0.24
22 1 0.02
24 4 0.10
ACGTcount: A:0.61, C:0.09, G:0.26, T:0.04
Consensus pattern (19 bp):
GAAGAAACAAAAGGGCAAA
Found at i:36985012 original size:40 final size:40
Alignment explanation
Indices: 36984967--36985048 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
36984957 TACATTCATC
36984967 ATCGGGCGAAGAAACAAAAGGGCAAAGAAGAAAAAAATTG
1 ATCGGGCGAAGAAACAAAAGGGCAAAGAAGAAAAAAATTG
36985007 ATCGGGCGAAGAAACAAAAGGGCAAAGAAGAAAAAAATTG
1 ATCGGGCGAAGAAACAAAAGGGCAAAGAAGAAAAAAATTG
36985047 AT
1 AT
36985049 TTGTACTTGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.55, C:0.10, G:0.27, T:0.09
Consensus pattern (40 bp):
ATCGGGCGAAGAAACAAAAGGGCAAAGAAGAAAAAAATTG
Found at i:36988207 original size:14 final size:14
Alignment explanation
Indices: 36988188--36988216 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36988178 AGAGATGAAG
36988188 ATAAACTAAATAGA
1 ATAAACTAAATAGA
36988202 ATAAACTAAATAGA
1 ATAAACTAAATAGA
36988216 A
1 A
36988217 AAAAATCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (14 bp):
ATAAACTAAATAGA
Found at i:36992269 original size:3 final size:3
Alignment explanation
Indices: 36992261--36992294 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
36992251 AAAGGTGGTC
36992261 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
36992295 GTTTTATGCA
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:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:36992738 original size:31 final size:32
Alignment explanation
Indices: 36992693--36992754 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 32
36992683 TAATTGAATT
*
36992693 ATTTTATTTTATTTTTATTTTGAATCAAATAA
1 ATTTTATTTTATTTTTATTTTGAACCAAATAA
36992725 ATTTTA-TTTATTTTTATTTTGAACCAAATA
1 ATTTTATTTTATTTTTATTTTGAACCAAATA
36992755 TTTTTTTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 23 0.79
32 6 0.21
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (32 bp):
ATTTTATTTTATTTTTATTTTGAACCAAATAA
Found at i:36993737 original size:35 final size:35
Alignment explanation
Indices: 36993697--36993767 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
36993687 ATTAATGACT
36993697 AAAGAGACGTGCTATTGGTTCTCTTGTAATTAAAG
1 AAAGAGACGTGCTATTGGTTCTCTTGTAATTAAAG
36993732 AAAGAGACGTGCTATTGGTTCTCTTGTAATTAAAG
1 AAAGAGACGTGCTATTGGTTCTCTTGTAATTAAAG
36993767 A
1 A
36993768 CTTATTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (35 bp):
AAAGAGACGTGCTATTGGTTCTCTTGTAATTAAAG
Found at i:36998253 original size:29 final size:28
Alignment explanation
Indices: 36998220--36998281 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
36998210 CTTCGGGTAC
36998220 GATATAAACCGATTTGGCTTCGGGCCAT
1 GATATAAACCGATTTGGCTTCGGGCCAT
*** * *
36998248 GCATATCGGCTGATTTGGCTTTGGGCCAT
1 G-ATATAAACCGATTTGGCTTCGGGCCAT
36998277 GATAT
1 GATAT
36998282 CAGAGTTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.32
Consensus pattern (28 bp):
GATATAAACCGATTTGGCTTCGGGCCAT
Found at i:36999918 original size:29 final size:29
Alignment explanation
Indices: 36999876--36999949 Score: 121
Period size: 29 Copynumber: 2.6 Consensus size: 29
36999866 CACGGCCTGA
36999876 CACACAGGCATGTGTGGCCATTTTTAGGG
1 CACACAGGCATGTGTGGCCATTTTTAGGG
* *
36999905 CACATAGGCATGTGTGGGCATTTTTAGGG
1 CACACAGGCATGTGTGGCCATTTTTAGGG
*
36999934 CACACAGGCGTGTGTG
1 CACACAGGCATGTGTG
36999950 TTGGCAGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.27
Consensus pattern (29 bp):
CACACAGGCATGTGTGGCCATTTTTAGGG
Found at i:37002873 original size:47 final size:47
Alignment explanation
Indices: 37002764--37002874 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
37002754 CCGGGATAAG
* * *
37002764 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
37002811 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
37002858 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
37002875 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:37012098 original size:47 final size:47
Alignment explanation
Indices: 37011990--37012099 Score: 143
Period size: 47 Copynumber: 2.3 Consensus size: 47
37011980 CGGGATAACT
* *
37011990 ACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTAC
1 ACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTAC
* * *
37012037 ACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-AC
1 ACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTAC
37012084 ACATAGTG-TCTCATCG
1 ACATAGTGCT-TCATCG
37012100 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (47 bp):
ACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTAC
Found at i:37013021 original size:44 final size:44
Alignment explanation
Indices: 37012958--37013046 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
37012948 ATTACATGTA
*
37012958 TCGCATCCATTATGAACTCGGACCAACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGC
*
37013002 TCGCATCTATAATGAACTCGGACCAACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGC
37013046 T
1 T
37013047 TCACATATAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (44 bp):
TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGC
Found at i:37013137 original size:45 final size:44
Alignment explanation
Indices: 37012971--37013133 Score: 168
Period size: 45 Copynumber: 3.7 Consensus size: 44
37012961 CATCCATTAT
* * *
37012971 GAACTCGGACCAACTCAACGAGCTCGGATGCTCGCATCTATAAT
1 GAACTCGGACCAACTCAACGAGCTCGGATGCTCACATATATAAC
**
37013015 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATACCAC
1 GAACTCGGACCAACTCAACGAGCTCGGATGC-TCACATATATAAC
* * * *
37013060 GAACTTGAACCAACTCAACAAG-T-GTTGATTTCTCACATATATAAC
1 GAACTCGGACCAACTCAACGAGCTCG--GA-TGCTCACATATATAAC
* * *
37013105 GAACTTGGGCCAACTCAACGAGCTAGGAT
1 GAACTCGGACCAACTCAACGAGCTCGGAT
37013134 TTCTTAATTC
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 33 0.33
45 61 0.62
46 3 0.03
47 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (44 bp):
GAACTCGGACCAACTCAACGAGCTCGGATGCTCACATATATAAC
Found at i:37015934 original size:15 final size:15
Alignment explanation
Indices: 37015909--37015977 Score: 77
Period size: 15 Copynumber: 4.6 Consensus size: 15
37015899 GAGATGACAT
*
37015909 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* *
37015924 GAAGTCCAAGACAAA
1 GAAATCCAAGATAAA
* *
37015939 GAAATCCTAGATAAT
1 GAAATCCAAGATAAA
37015954 GAAATCCAAGATACAA
1 GAAATCCAAGATA-AA
37015970 -AAATCCAA
1 GAAATCCAA
37015978 AATACAATAT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
15 43 0.98
16 1 0.02
ACGTcount: A:0.57, C:0.17, G:0.13, T:0.13
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:37015982 original size:15 final size:15
Alignment explanation
Indices: 37015955--37015984 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37015945 CTAGATAATG
*
37015955 AAATCCAAGATACAA
1 AAATCCAAAATACAA
37015970 AAATCCAAAATACAA
1 AAATCCAAAATACAA
37015985 TATCATAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.20, G:0.03, T:0.13
Consensus pattern (15 bp):
AAATCCAAAATACAA
Found at i:37017300 original size:696 final size:697
Alignment explanation
Indices: 37016054--37017444 Score: 2649
Period size: 696 Copynumber: 2.0 Consensus size: 697
37016044 CAGAGAAAAC
37016054 AAATCCAGAAGAATACATCAATCCAACCCACTGGAATTAAATGCAACAAGGATAATATACCTTCC
1 AAATCCAGAAGAATACATCAATCCAACCCACTGGAATTAAATGCAACAAGGATAATATACCTTCC
37016119 CATATATGTATCAAACAGATCATCAATTAGAAGAAACAGAATCATAACATCATGTGTATTACCTC
66 CATATATGTATCAAACAGATCATCAATTAGAAGAAACAGAATCATAACATCATGTGTATTACCTC
* *
37016184 ATAAAGTCCCAATAGATGAAATATAATAGAATGTTAGAGGGAAATATGGTAATACAAATTATATA
131 ATAAAGTCCCAATAGATGAAATATAATAGAATGCTAGAGGGAAATAGGGTAATACAAATTATATA
37016249 CCAGACAGGATATCAATACTTTCGTTTATACATCATCATTAGAAAACATTCCCATAGAACAAGGA
196 CCAGACAGGATATCAATACTTTCGTTTATACATCATCATTAGAAAACATTCCCATAGAACAAGGA
*
37016314 TTTTATCAGAAGAATAATAGCCATGGGAATAATCTCCAGAATAATTAAACATATAGAATACCTCA
261 TTTTATCAGAAGAATAATAGCCATGGGAATAATCCCCAGAATAATTAAACATATAGAATACCTCA
*
37016379 GAAGAAGCCGCTGAAATCTGTTCAATCATAACTGTCATACTCAGATATCTTACCTTTCAAATATT
326 GAAGAAGCCGCCGAAATCTGTTCAATCATAACTGTCATACTCAGATATCTTACCTTTCAAATATT
* *
37016444 ATTCTCTCAACTATTTCTGTCATCACAAATCCCATATTATGATTCTCATTGAAAAAAAGATCGGT
391 ATTCCCTCAACTATTTCTGTCATCACAAATCCCATATTATGATTCTCATTGAAAAAAAGATCAGT
37016509 TCTGAAGAAATTTCAGTTAATACATTTCTCGACATCGCACCTTACTAGTTCTATCTTTACTTATC
456 TCTGAAGAAATTTCAGTTAATACATTTCTCGACATCGCACCTTACTAGTTCTATCTTTACTTATC
37016574 AATCCAATTTAATCTCTAATCATATTTATAATCACTCTATAGTCGAACTCTTTAGCCTCATACTT
521 AATCCAATTTAATCTCTAATCATATTTATAATCACTCTATAGTCGAACTCTTTAGCCTCATACTT
*
37016639 GTGAGCTTATTCAACACTGATCTCATAAAATCCTTTACAAAACACCACTCTGGTAA-GGGGGTCG
586 GAGAGCTTATTCAACACTGATCTCATAAAATCCTTTACAAAACACCACTCTGGTAAGGGGGGTCG
*
37016703 TAAGGTCCCTAACTCGTCTCTCATACACATATACATATGACACTAAG
651 TAAGGTCCCTAACTCGACTCTCATACACATATACATATGACACTAAG
37016750 AAATCCAGAAGAATACATCAATCCAACCCACTGGAATTAAATGCAACAAGGATAATATACCTTCC
1 AAATCCAGAAGAATACATCAATCCAACCCACTGGAATTAAATGCAACAAGGATAATATACCTTCC
*
37016815 CATATATGTATCAAATAGATCATCAATTAGAAGAAACAGAATCATAACATCATGTGTATTACCTC
66 CATATATGTATCAAACAGATCATCAATTAGAAGAAACAGAATCATAACATCATGTGTATTACCTC
*
37016880 ATAAAGTCCCAATAGATGAAATGTAATAGAATGCTAGAGGGAAATAGGGTAATACAAATTATATA
131 ATAAAGTCCCAATAGATGAAATATAATAGAATGCTAGAGGGAAATAGGGTAATACAAATTATATA
*
37016945 CCAGACAGGATATCAATACTTTCGTTTATACATCATCATTAGAAAACATTCCCATAGAACAATGA
196 CCAGACAGGATATCAATACTTTCGTTTATACATCATCATTAGAAAACATTCCCATAGAACAAGGA
37017010 TTTTATCAGAAGAATAATAGCCATGGGAATAATCCCCAGAATAATTAAACATATAGAATACCTCA
261 TTTTATCAGAAGAATAATAGCCATGGGAATAATCCCCAGAATAATTAAACATATAGAATACCTCA
*
37017075 GAAGAAGCTGCCGAAATCTGTTCAATCATAACTGTCATACTCAGATATCTTACCTTTCAAATATT
326 GAAGAAGCCGCCGAAATCTGTTCAATCATAACTGTCATACTCAGATATCTTACCTTTCAAATATT
37017140 ATTCCCTCAACTATTTCTGTCATCACAAATCCCATATTATGATTCTCATTGAAAAAAAGATCAGT
391 ATTCCCTCAACTATTTCTGTCATCACAAATCCCATATTATGATTCTCATTGAAAAAAAGATCAGT
* *
37017205 TTTGAAGAAATTTCAGTTAATACATTTCTCGATATCGCACCTTACTAGTTCTATCTTTACTTATC
456 TCTGAAGAAATTTCAGTTAATACATTTCTCGACATCGCACCTTACTAGTTCTATCTTTACTTATC
37017270 AATCCAATTTAATCTCTAATCATATTTATAATCACTCTATAGTCGAACTCTTTAGCCTCATACTT
521 AATCCAATTTAATCTCTAATCATATTTATAATCACTCTATAGTCGAACTCTTTAGCCTCATACTT
37017335 GAGAGCTTATTCAACACTGATCTCATAAAATCCTTTACAAAACACCACTCTGGTAAGGGGGGTCG
586 GAGAGCTTATTCAACACTGATCTCATAAAATCCTTTACAAAACACCACTCTGGTAAGGGGGGTCG
37017400 TAAGGTCCCTAACTCGACTCTCATACACATATACATATGACACTA
651 TAAGGTCCCTAACTCGACTCTCATACACATATACATATGACACTA
37017445 TTTCATTATC
Statistics
Matches: 680, Mismatches: 14, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
696 628 0.92
697 52 0.08
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (697 bp):
AAATCCAGAAGAATACATCAATCCAACCCACTGGAATTAAATGCAACAAGGATAATATACCTTCC
CATATATGTATCAAACAGATCATCAATTAGAAGAAACAGAATCATAACATCATGTGTATTACCTC
ATAAAGTCCCAATAGATGAAATATAATAGAATGCTAGAGGGAAATAGGGTAATACAAATTATATA
CCAGACAGGATATCAATACTTTCGTTTATACATCATCATTAGAAAACATTCCCATAGAACAAGGA
TTTTATCAGAAGAATAATAGCCATGGGAATAATCCCCAGAATAATTAAACATATAGAATACCTCA
GAAGAAGCCGCCGAAATCTGTTCAATCATAACTGTCATACTCAGATATCTTACCTTTCAAATATT
ATTCCCTCAACTATTTCTGTCATCACAAATCCCATATTATGATTCTCATTGAAAAAAAGATCAGT
TCTGAAGAAATTTCAGTTAATACATTTCTCGACATCGCACCTTACTAGTTCTATCTTTACTTATC
AATCCAATTTAATCTCTAATCATATTTATAATCACTCTATAGTCGAACTCTTTAGCCTCATACTT
GAGAGCTTATTCAACACTGATCTCATAAAATCCTTTACAAAACACCACTCTGGTAAGGGGGGTCG
TAAGGTCCCTAACTCGACTCTCATACACATATACATATGACACTAAG
Found at i:37020579 original size:45 final size:45
Alignment explanation
Indices: 37020498--37020620 Score: 151
Period size: 45 Copynumber: 2.7 Consensus size: 45
37020488 CATCCATTAT
*
37020498 GAACTCGGACCAACTCAACGAGCTCGGA-TGCTTCACA-TATACCAC
1 GAACTCGGACCAACTCAACGAGCTCGGATTTC-TCACATTA-ACCAC
* * * * *
37020543 GAACTTGGACCAACTCAACAAGTTCAGATTTCTCACATTAATCAC
1 GAACTCGGACCAACTCAACGAGCTCGGATTTCTCACATTAACCAC
*
37020588 GAACTCAGACCAACTCAACGAGCTCGGATTTCT
1 GAACTCGGACCAACTCAACGAGCTCGGATTTCT
37020621 TAATTCCTGG
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
45 61 0.94
46 4 0.06
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (45 bp):
GAACTCGGACCAACTCAACGAGCTCGGATTTCTCACATTAACCAC
Found at i:37022724 original size:30 final size:30
Alignment explanation
Indices: 37022690--37022749 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
37022680 ACTTAACAAG
37022690 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
37022720 CAAATGCTTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
37022750 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:37032903 original size:13 final size:13
Alignment explanation
Indices: 37032885--37032912 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37032875 TGAAAATTCG
37032885 TTAATGGTACATT
1 TTAATGGTACATT
37032898 TTAATGGTACATT
1 TTAATGGTACATT
37032911 TT
1 TT
37032913 CCCCTATATT
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:0.07, G:0.14, T:0.50
Consensus pattern (13 bp):
TTAATGGTACATT
Found at i:37042842 original size:21 final size:21
Alignment explanation
Indices: 37042818--37042861 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
37042808 GAATCTTTAG
*
37042818 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
37042839 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
37042860 TA
1 TA
37042862 ATTAGGTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:37048154 original size:18 final size:18
Alignment explanation
Indices: 37048133--37048214 Score: 128
Period size: 18 Copynumber: 4.6 Consensus size: 18
37048123 TTGATGGTAT
37048133 CGATATTGATGATAGTGA
1 CGATATTGATGATAGTGA
*
37048151 CGATATTGATGCTAGTGA
1 CGATATTGATGATAGTGA
*
37048169 CGATATTGATGCTAGTGA
1 CGATATTGATGATAGTGA
*
37048187 CGCTATTGATGATAGTGA
1 CGATATTGATGATAGTGA
*
37048205 CGCTATTGAT
1 CGATATTGAT
37048215 CGTGACCTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (18 bp):
CGATATTGATGATAGTGA
Found at i:37058885 original size:20 final size:20
Alignment explanation
Indices: 37058862--37058907 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
37058852 ACTTTGGTCT
*
37058862 CTCTGTTTGCACTTCGATGC
1 CTCTGTCTGCACTTCGATGC
37058882 CTCTGTCTGCACTTCGATGC
1 CTCTGTCTGCACTTCGATGC
37058902 CTCTGT
1 CTCTGT
37058908 AACATCCCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.09, C:0.33, G:0.20, T:0.39
Consensus pattern (20 bp):
CTCTGTCTGCACTTCGATGC
Found at i:37060226 original size:50 final size:50
Alignment explanation
Indices: 37060115--37060299 Score: 183
Period size: 50 Copynumber: 3.6 Consensus size: 50
37060105 ATTTGGGTAA
* **
37060115 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTG-GCATCATTAAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TGAGCA-C--CGA-G--ATG
* * *
37060171 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTAGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGAGCACCGAGATG
** * *
37060221 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGAGCACCGAGATG
** *
37060271 AGAACTCCCATGTAAGACCATATCTGGGA
1 AGAGGTCCCATGTAAGACCATGTCTGGGA
37060300 TATGACATTG
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
50 70 0.64
52 1 0.01
53 1 0.01
55 2 0.02
56 36 0.33
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGAGCACCGAGATG
Found at i:37060456 original size:43 final size:43
Alignment explanation
Indices: 37060395--37060480 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
37060385 AAGTATCCTT
37060395 ATTATTCTAATGTGGCTCAACGGGCGAGAAAACAGATTATGTC
1 ATTATTCTAATGTGGCTCAACGGGCGAGAAAACAGATTATGTC
37060438 ATTATTCTAATGTGGCTCAACGGGCGAGAAAACAGATTATGTC
1 ATTATTCTAATGTGGCTCAACGGGCGAGAAAACAGATTATGTC
37060481 CTATGGAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (43 bp):
ATTATTCTAATGTGGCTCAACGGGCGAGAAAACAGATTATGTC
Found at i:37063894 original size:278 final size:278
Alignment explanation
Indices: 37063392--37063954 Score: 1000
Period size: 278 Copynumber: 2.0 Consensus size: 278
37063382 ATGAACATGC
37063392 CTATAGAATCCACTGAATTTGTAATTAAAGTATCAAATCCATTAGGCCAGTATGTGTTAGTAGAT
1 CTAT-GAATCCACTGAATTTGTAATTAAAGTATCAAATCCATTAGGCCAGTATGTGTTAGTAGAT
* * *
37063457 AAAGTATGTAAGAGTTGCCCTTTGATGATTAGAGGTCATTGTTTTTCGGCCAATCTCATGCTATT
65 AAAGTATGTAAGAGTTACCCTTTGATGATTAGAGGTCATTATTTTTCGACCAATCTCATGCTATT
*
37063522 GCCGTTTGATGAGTTTAATGTGATTCTTGGTATGGATTGGTTGACTGCCCATGATGTGATAGTAA
130 GCCATTTGATGAGTTTAATGTGATTCTTGGTATGGATTGGTTGACTGCCCATGATGTGATAGTAA
** * * *
37063587 ATTGTGGAAATAAATACATTGAGTTGAAATGTGAAAATGGTGATATTATCCGGGTTGATTCAGAT
195 ATTGCAGAAAGAAATACATGGAGTTGAAATGTGAAAATGGTGATATTATCCGGGTTGATTCAAAT
37063652 GAGTCAGATGGTTCTCTCT
260 GAGTCAGATGGTTCTCTCT
37063671 CTATGAATCCACTGAATTTGTAATTAAAGTATCAAATCCATTAGGCCAGTATGTGTTAGTAGATA
1 CTATGAATCCACTGAATTTGTAATTAAAGTATCAAATCCATTAGGCCAGTATGTGTTAGTAGATA
* *
37063736 AAGTATGTAAGAGTTACCCTTTGATGATTAGAGGTCATTATTTTTCGACCGATCTCTTGCTATTG
66 AAGTATGTAAGAGTTACCCTTTGATGATTAGAGGTCATTATTTTTCGACCAATCTCATGCTATTG
* *
37063801 TCATTTGATGAGTTTGATGTGATTCTTGGTATGGATTGGTTGACTGCCCATGATGTGATAGTAAA
131 CCATTTGATGAGTTTAATGTGATTCTTGGTATGGATTGGTTGACTGCCCATGATGTGATAGTAAA
37063866 TTGCAGAAAGAAATACATGGAGTTGAAATGTGAAAATGGTGATATTATCCGGGTTGATTCAAATG
196 TTGCAGAAAGAAATACATGGAGTTGAAATGTGAAAATGGTGATATTATCCGGGTTGATTCAAATG
37063931 AGTCAGATGGTTCTCTCT
261 AGTCAGATGGTTCTCTCT
37063949 CTATGA
1 CTATGA
37063955 TTTCTGTTAT
Statistics
Matches: 271, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
278 267 0.99
279 4 0.01
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (278 bp):
CTATGAATCCACTGAATTTGTAATTAAAGTATCAAATCCATTAGGCCAGTATGTGTTAGTAGATA
AAGTATGTAAGAGTTACCCTTTGATGATTAGAGGTCATTATTTTTCGACCAATCTCATGCTATTG
CCATTTGATGAGTTTAATGTGATTCTTGGTATGGATTGGTTGACTGCCCATGATGTGATAGTAAA
TTGCAGAAAGAAATACATGGAGTTGAAATGTGAAAATGGTGATATTATCCGGGTTGATTCAAATG
AGTCAGATGGTTCTCTCT
Found at i:37068261 original size:50 final size:50
Alignment explanation
Indices: 37068150--37068347 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 50
37068140 ATTTGGGTAA
* *
37068150 AGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA-C--CGA-G--ATG
*
37068206 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATG
* * * * * * *
37068256 AGAGGTCCCCTGTAAGACCATCTCTAGGACATGACATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATG
** * * *
37068306 AGAACTCCCATGTAAGACCATATTTGGGATATGACATTGGCA
1 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA
37068348 GTACAAGAAA
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 79 0.64
52 1 0.01
53 2 0.02
55 1 0.01
56 40 0.33
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATG
Found at i:37069774 original size:20 final size:19
Alignment explanation
Indices: 37069711--37069779 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 19
37069701 TTGGTCTCTT
37069711 TGTTTGCACTTCGGTGCCTC
1 TGTTTGCACTTC-GTGCCTC
* * *
37069731 TGATCGCACGTTCGTGCCTT
1 TGTTTGCAC-TTCGTGCCTC
37069751 TGTTTGCACTTCAGTGCCTC
1 TGTTTGCACTTC-GTGCCTC
37069771 TGTTATGCA
1 TGTT-TGCA
37069780 TCTATGATGC
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 3 0.08
20 30 0.75
21 7 0.17
ACGTcount: A:0.10, C:0.28, G:0.23, T:0.39
Consensus pattern (19 bp):
TGTTTGCACTTCGTGCCTC
Found at i:37080106 original size:21 final size:21
Alignment explanation
Indices: 37080080--37080141 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
37080070 TAAAAAATTT
*
37080080 AAATTTTTAAATTTTTAAAAA
1 AAATTTTTAAATTTATAAAAA
* *
37080101 AAATTTATAAATTTGT-AAAA
1 AAATTTTTAAATTTATAAAAA
* *
37080121 AAATATTAAAATTTATAAAAA
1 AAATTTTTAAATTTATAAAAA
37080142 TATTAAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 16 0.47
21 18 0.53
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
AAATTTTTAAATTTATAAAAA
Found at i:37080122 original size:20 final size:20
Alignment explanation
Indices: 37080080--37080160 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
37080070 TAAAAAATTT
* *
37080080 AAATTTTTAAATTTTTAAAAA
1 AAATTTATAAATTTAT-AAAA
*
37080101 AAATTTATAAATTTGTAAAA
1 AAATTTATAAATTTATAAAA
37080121 AAATATTA-AAATTTATAAAA
1 AAAT-TTATAAATTTATAAAA
* *
37080141 ATATTAAATAAATTTA-AAAA
1 AAATT-TATAAATTTATAAAA
37080161 TAATAAAATC
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
19 1 0.02
20 27 0.52
21 24 0.46
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (20 bp):
AAATTTATAAATTTATAAAA
Found at i:37080158 original size:19 final size:19
Alignment explanation
Indices: 37080119--37080168 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
37080109 AAATTTGTAA
*
37080119 AAAAATATT-AAAATTTAT
1 AAAAATATTAAAAAATTAT
37080137 AAAAATATTAAATAAATT-T
1 AAAAATATTAAA-AAATTAT
*
37080156 AAAAATAATAAAA
1 AAAAATATTAAAA
37080169 TCGATTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 10 0.36
19 14 0.50
20 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATATTAAAAAATTAT
Found at i:37089454 original size:3 final size:3
Alignment explanation
Indices: 37089448--37089495 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
37089438 AAAAAAAAAG
* * * *
37089448 TAA TAA TAA TAA TAA TGA TAA TAA TAT TAA TAA TAA CAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
37089496 AAAAATCTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:37093137 original size:16 final size:16
Alignment explanation
Indices: 37093100--37093141 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
37093090 TTAATCATAT
*
37093100 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
37093116 TT-AAATATATTATAA
1 TTAAAATATATTATAA
37093131 TTAAAATATAT
1 TTAAAATATAT
37093142 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:37093148 original size:14 final size:15
Alignment explanation
Indices: 37093109--37093270 Score: 58
Period size: 15 Copynumber: 10.9 Consensus size: 15
37093099 TTTAAACATA
*
37093109 ATTATTATTAAATAT
1 ATTATAATTAAATAT
37093124 ATTATAATTAAAATAT
1 ATTATAATT-AAATAT
* *
37093140 ATAATTTAATAAAAT-T
1 AT--TATAATTAAATAT
*
37093156 CTTAATAATT-AATATT
1 ATT-ATAATTAAATA-T
* *
37093172 CTTAT-ATT-AATTT
1 ATTATAATTAAATAT
* *
37093185 ACTGA-AATCATAATAT
1 A-TTATAATTA-AATAT
* *
37093201 ATAATACTGTAAA-AT
1 ATTATAAT-TAAATAT
37093216 A-TA-AATTAACATA-
1 ATTATAATTAA-ATAT
*
37093229 ATTATTATTAAATAT
1 ATTATAATTAAATAT
37093244 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
37093258 A-TATAATTTAATA
1 ATTATAATTAAATA
37093271 AAATTCTTAA
Statistics
Matches: 110, Mismatches: 19, Indels: 37
0.66 0.11 0.22
Matches are distributed among these distances:
12 3 0.03
13 14 0.13
14 25 0.23
15 35 0.32
16 23 0.21
17 5 0.05
18 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:37093238 original size:120 final size:120
Alignment explanation
Indices: 37093103--37093321 Score: 420
Period size: 120 Copynumber: 1.8 Consensus size: 120
37093093 ATCATATTTA
37093103 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
37093168 TATTCTTATATTAATTTACTGAAATCATAATATATAATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATAATACTGTAAAATATAAATT
37093223 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
37093288 TATTCTTATATGAATTTACTCAAATCATAATATA
66 TATTCTTATATGAATTTACTCAAATCATAATATA
37093322 AAATCGTGTT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 97 1.00
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATAATACTGTAAAATATAAATT
Found at i:37110359 original size:25 final size:25
Alignment explanation
Indices: 37110331--37110380 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
37110321 TTTAAAATTC
37110331 AAAATA-TTTATAAAAATTTCAAAAA
1 AAAATATTTTA-AAAAATTTCAAAAA
*
37110356 AAAATATTTTAAAAAATTTTAAAAA
1 AAAATATTTTAAAAAATTTCAAAAA
37110381 TTCTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
AAAATATTTTAAAAAATTTCAAAAA
Found at i:37110380 original size:26 final size:26
Alignment explanation
Indices: 37110317--37110380 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
37110307 AATTCAAAAT
**
37110317 AAATTTTAAAATTCAAAATATTTATAA
1 AAATTTTAAAA-AAAAAATATTTATAA
*
37110344 AAA-TTTCAAAAAAAAATATTT-TAAA
1 AAATTTTAAAAAAAAAATATTTAT-AA
37110369 AAATTTTAAAAA
1 AAATTTTAAAAA
37110381 TTCTAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
24 1 0.03
25 14 0.45
26 13 0.42
27 3 0.10
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (26 bp):
AAATTTTAAAAAAAAAATATTTATAA
Found at i:37110389 original size:19 final size:19
Alignment explanation
Indices: 37110307--37110391 Score: 58
Period size: 19 Copynumber: 4.7 Consensus size: 19
37110297 ATTACAAAAT
*
37110307 AATTCAAAATAAATTTT-AA
1 AATTCTAAA-AAATTTTAAA
*
37110326 AATTC-AAAATATTTATAAA
1 AATTCTAAAAAATTT-TAAA
37110345 AATT-TCAAAAAA----AAA
1 AATTCT-AAAAAATTTTAAA
* *
37110360 TATTTTAAAAAATTTTAAA
1 AATTCTAAAAAATTTTAAA
37110379 AATTCTAAAAAAT
1 AATTCTAAAAAAT
37110392 AAATAAAGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
15 12 0.23
16 1 0.02
17 5 0.10
18 4 0.08
19 25 0.48
20 5 0.10
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
AATTCTAAAAAATTTTAAA
Found at i:37110410 original size:29 final size:28
Alignment explanation
Indices: 37110377--37110445 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
37110367 AAAAATTTTA
37110377 AAAATTCTAAAAAATAAATAAAGAAAGTT
1 AAAATTCTAAAAAATAAAT-AAGAAAGTT
* * **
37110406 AAAATTCTACAAATTTGATAAGAAAGTT
1 AAAATTCTAAAAAATAAATAAGAAAGTT
37110434 AAAATTCTAAAA
1 AAAATTCTAAAA
37110446 TTTTCTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 20 0.57
29 15 0.43
ACGTcount: A:0.59, C:0.06, G:0.07, T:0.28
Consensus pattern (28 bp):
AAAATTCTAAAAAATAAATAAGAAAGTT
Found at i:37110635 original size:23 final size:23
Alignment explanation
Indices: 37110592--37110637 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
37110582 TGTAACAATA
**
37110592 TTTTAATTTAACATGTTTAATTT
1 TTTTAATTTAACATGAATAATTT
37110615 TTTTAATTTAAC-TAGAATAATTT
1 TTTTAATTTAACAT-GAATAATTT
37110638 CACTCGAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTTAATTTAACATGAATAATTT
Found at i:37116947 original size:26 final size:26
Alignment explanation
Indices: 37116912--37116977 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 26
37116902 TACCGAGCTA
37116912 CTAACACTAGCTTCAAATC-AGGGTTG
1 CTAACACTAGCTTCAAATCGA-GGTTG
** *
37116938 CTAACACTAGCTT-AGTTCGATGTTG
1 CTAACACTAGCTTCAAATCGAGGTTG
37116963 CTAACACTAGCTTCA
1 CTAACACTAGCTTCA
37116978 GAGAATCGAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 20 0.57
26 15 0.43
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (26 bp):
CTAACACTAGCTTCAAATCGAGGTTG
Found at i:37118319 original size:23 final size:23
Alignment explanation
Indices: 37118272--37118319 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
37118262 AATAGTATAG
*
37118272 TTGCTATTTTAACCTTGAATTAA
1 TTGCTATTTTAACCTTGAATCAA
*
37118295 TTGCTATTTTAATCCTTTAA-CAA
1 TTGCTATTTTAA-CCTTGAATCAA
37118318 TT
1 TT
37118320 ATAACATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (23 bp):
TTGCTATTTTAACCTTGAATCAA
Found at i:37120955 original size:14 final size:14
Alignment explanation
Indices: 37120917--37120957 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
37120907 TTTCTGTGCT
* *
37120917 AGAGACAGAGAGAG
1 AGAGACAGAGGGGG
37120931 AGAGACAGAGGGGG
1 AGAGACAGAGGGGG
*
37120945 AGAGAGAGAGGGG
1 AGAGACAGAGGGG
37120958 TGGGGGAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.54, T:0.00
Consensus pattern (14 bp):
AGAGACAGAGGGGG
Found at i:37139533 original size:16 final size:17
Alignment explanation
Indices: 37139512--37139543 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37139502 TTATTTAATT
37139512 ATATGT-TTTGGGATTA
1 ATATGTGTTTGGGATTA
37139528 ATATGTGTTTGGGATT
1 ATATGTGTTTGGGATT
37139544 TTAAATTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (17 bp):
ATATGTGTTTGGGATTA
Found at i:37146107 original size:40 final size:40
Alignment explanation
Indices: 37146052--37146129 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
37146042 TGCAGTACCT
* *
37146052 TATGGTGTGTAGGGTTGGATGGGTTAATTATATCCCCATA
1 TATGGTGTGCAGGGTTGGATGGGTCAATTATATCCCCATA
* *
37146092 TATGGTGTGCAGGGTTGGGTGGGTCAATTTTATCCCCA
1 TATGGTGTGCAGGGTTGGATGGGTCAATTATATCCCCA
37146130 CATGGTGTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.19, C:0.13, G:0.32, T:0.36
Consensus pattern (40 bp):
TATGGTGTGCAGGGTTGGATGGGTCAATTATATCCCCATA
Found at i:37146145 original size:38 final size:39
Alignment explanation
Indices: 37146053--37146145 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 39
37146043 GCAGTACCTT
* *
37146053 ATGGTGTG-TAGGGTTGGATGGGTTAATTATATCCCCATAT
1 ATGGTGTGAT-GGGTTGGATGGGTCAATTATATCCCCA-AC
* *
37146093 ATGGTGTGCA-GGGTTGGGTGGGTCAATTTTATCCCC-AC
1 ATGGTGTG-ATGGGTTGGATGGGTCAATTATATCCCCAAC
37146131 ATGGTGTGATGGGTT
1 ATGGTGTGATGGGTT
37146146 AGACGAAGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
37 1 0.02
38 14 0.30
40 31 0.67
ACGTcount: A:0.18, C:0.12, G:0.34, T:0.35
Consensus pattern (39 bp):
ATGGTGTGATGGGTTGGATGGGTCAATTATATCCCCAAC
Found at i:37148912 original size:37 final size:37
Alignment explanation
Indices: 37148862--37148935 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
37148852 AATTACTTCA
37148862 TCAAATCCTTAAATATTTTAGTCCTATACACTTTAGT
1 TCAAATCCTTAAATATTTTAGTCCTATACACTTTAGT
37148899 TCAAATCCTTAAATATTTTAGTCCTATACACTTTAGT
1 TCAAATCCTTAAATATTTTAGTCCTATACACTTTAGT
37148936 CCAGTGTCGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.43
Consensus pattern (37 bp):
TCAAATCCTTAAATATTTTAGTCCTATACACTTTAGT
Found at i:37158680 original size:13 final size:14
Alignment explanation
Indices: 37158647--37158684 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
37158637 GTTTGCCAGT
* *
37158647 AAAATGTTTTCTGG
1 AAAATGATTTATGG
37158661 AAAATGATTTATGG
1 AAAATGATTTATGG
37158675 -AAATGATTTA
1 AAAATGATTTA
37158685 CTTTTCTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (14 bp):
AAAATGATTTATGG
Found at i:37158696 original size:19 final size:19
Alignment explanation
Indices: 37158672--37158711 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
37158662 AAATGATTTA
37158672 TGGAAATGATTTACTTTTC
1 TGGAAATGATTTACTTTTC
37158691 TGGAAATGATTTACTTTTC
1 TGGAAATGATTTACTTTTC
37158710 TG
1 TG
37158712 ATGTTTGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.47
Consensus pattern (19 bp):
TGGAAATGATTTACTTTTC
Found at i:37160183 original size:32 final size:32
Alignment explanation
Indices: 37160137--37160218 Score: 119
Period size: 32 Copynumber: 2.6 Consensus size: 32
37160127 TATTAATTGT
* *
37160137 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAACTTAAAACATAATAAA
* *
37160169 TTCAATATCTAACAAATTTAAAACATAATAAT
1 TTCAATATCTAACAAACTTAAAACATAATAAA
*
37160201 TTCAAAATCTAACAAACT
1 TTCAATATCTAACAAACT
37160219 AATTTCAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.29
Consensus pattern (32 bp):
TTCAATATCTAACAAACTTAAAACATAATAAA
Found at i:37161680 original size:21 final size:21
Alignment explanation
Indices: 37161640--37161681 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37161630 ACACAAAAAT
*
37161640 TTACAAATTAATATGCAATTA
1 TTACAAATCAATATGCAATTA
* *
37161661 TTACAAATCAATGTGTAATTA
1 TTACAAATCAATATGCAATTA
37161682 ATTTGAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (21 bp):
TTACAAATCAATATGCAATTA
Found at i:37170981 original size:19 final size:18
Alignment explanation
Indices: 37170944--37170990 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
37170934 TTTTTGTCAT
*
37170944 TTATCATTTA-TCAGGCA
1 TTATCATTTATTCAGACA
37170961 TTATCATTTATTTCAGACA
1 TTATCATTTA-TTCAGACA
*
37170980 TTATCACTTAT
1 TTATCATTTAT
37170991 CGGGCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 10 0.38
18 1 0.04
19 15 0.58
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (18 bp):
TTATCATTTATTCAGACA
Found at i:37177896 original size:28 final size:27
Alignment explanation
Indices: 37177838--37177897 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 27
37177828 TATTCAGTAT
*
37177838 CAGTACAGTCTGGGCCTAAGCCCTTAAA
1 CAGTACAGTCTGAGCCTAAGCCC-TAAA
*
37177866 CAGTAACAGTGTGAGCCTAAGCCC-AATA
1 CAGT-ACAGTCTGAGCCTAAGCCCTAA-A
37177894 CAGT
1 CAGT
37177898 CTCAGTATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 2 0.07
28 9 0.32
29 17 0.61
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.20
Consensus pattern (27 bp):
CAGTACAGTCTGAGCCTAAGCCCTAAA
Found at i:37183622 original size:27 final size:26
Alignment explanation
Indices: 37183586--37184058 Score: 126
Period size: 27 Copynumber: 17.5 Consensus size: 26
37183576 ATATCCTCAG
*
37183586 TTGTAAAATTACCAAAGTACCCTCGGT
1 TTGTAAAATTACCAAA-TACCCTCGAT
* * *
37183613 TTATAAAATTACCCAAATATCCTTGAT
1 TTGTAAAATTA-CCAAATACCCTCGAT
* *
37183640 TTGCAAAATTATCGAAATACCCTC-AGT
1 TTGTAAAATTA-CCAAATACCCTCGA-T
* *
37183667 TTGTAAAATTACTAAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGAT
* * *
37183694 ATGTAAAATTATCAAAGTAACCTCGAT
1 TTGTAAAATTACCAAA-TACCCTCGAT
** **
37183721 TTACAAAATTACCATTTTACCCTCGAT
1 TTGTAAAATTACCA-AATACCCTCGAT
** * ****
37183748 TTACAGAATTACTGTTTTACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGAT
** * **
37183775 TTACAAAATTACTATTTTACCCTCGAT
1 TTGTAAAATTACCA-AATACCCTCGAT
** * * * ** * *
37183802 TTACAGAGTTACTATTTTACCCTTGAA
1 TTGTAAAATTACCA-AATACCCTCGAT
** * **
37183829 TTACAAAATTACTATTTTACCCTCGAT
1 TTGTAAAATTACCA-AATACCCTCGAT
** * ***
37183856 TTACAGAATTACCGTTCTACCCTCGAT
1 TTGTAAAATTACC-AAATACCCTCGAT
* * **
37183883 TTATAGAATTACCATTTTACCCTCGAT
1 TTGTAAAATTACCA-AATACCCTCGAT
* **
37183910 TTAG-AGAATTACCATTTTACCCTCGAT
1 TT-GTAAAATTACCA-AATACCCTCGAT
* *
37183937 TTAG-AAAATTACTAAAATACCC-CTGGT
1 TT-GTAAAATTAC-CAAATACCCTC-GAT
* *
37183964 TTGTAAAATTACTAAAATACCCCCTGAT
1 TTGTAAAATTAC-CAAATACCCTC-GAT
* *
37183992 TTGTAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGAT
* * *
37184019 TGGTAAAAATTACCAAAGTACCTTTGAT
1 TTGT-AAAATTACCAAA-TACCCTCGAT
* *
37184047 TTATAGAATTAC
1 TTGTAAAATTAC
37184059 TGTTTTACCC
Statistics
Matches: 365, Mismatches: 64, Indels: 34
0.79 0.14 0.07
Matches are distributed among these distances:
26 7 0.02
27 308 0.84
28 50 0.14
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGAT
Found at i:37183701 original size:81 final size:80
Alignment explanation
Indices: 37183559--37183731 Score: 204
Period size: 81 Copynumber: 2.1 Consensus size: 80
37183549 AATACTTTAG
* * * * ***
37183559 TTTACCAAATTATTGAAATATCCTCAGTTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTA
1 TTTACAAAATTATCGAAATACCCTCAGTTGTAAAATTACCAAAATACCCTCGACATATAAAATTA
* *
37183624 CCCAAA-TATCCTTGA
66 -CCAAAGTAACCTCGA
* * *
37183639 TTTGCAAAATTATCGAAATACCCTCAGTTTGTAAAATTACTAAAATACCCTCGACATGTAAAATT
1 TTTACAAAATTATCGAAATACCCTCAG-TTGTAAAATTACCAAAATACCCTCGACATATAAAATT
*
37183704 ATCAAAGTAACCTCGA
65 ACCAAAGTAACCTCGA
37183720 TTTACAAAATTA
1 TTTACAAAATTA
37183732 CCATTTTACC
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 27 0.35
81 50 0.65
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (80 bp):
TTTACAAAATTATCGAAATACCCTCAGTTGTAAAATTACCAAAATACCCTCGACATATAAAATTA
CCAAAGTAACCTCGA
Found at i:37183702 original size:54 final size:55
Alignment explanation
Indices: 37183587--37183734 Score: 151
Period size: 54 Copynumber: 2.7 Consensus size: 55
37183577 TATCCTCAGT
* * * * **
37183587 TGTAAAATTA-CCAAAGTACCCTCGGTTTATAAAATTACCCAAATATCCTTGATT
1 TGTAAAATTATCCAAAGTACCCTCAGTTTATAAAATTACCAAAATACCCTCGACA
* * * *
37183641 TGCAAAATTATCGAAA-TACCCTCAGTTTGTAAAATTACTAAAATACCCTCGACA
1 TGTAAAATTATCCAAAGTACCCTCAGTTTATAAAATTACCAAAATACCCTCGACA
* *
37183695 TGTAAAATTAT-CAAAGTAACCTC-GATTTACAAAATTACCA
1 TGTAAAATTATCCAAAGTACCCTCAG-TTTATAAAATTACCA
37183735 TTTTACCCTC
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
53 4 0.05
54 67 0.89
55 4 0.05
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (55 bp):
TGTAAAATTATCCAAAGTACCCTCAGTTTATAAAATTACCAAAATACCCTCGACA
Found at i:37183769 original size:81 final size:80
Alignment explanation
Indices: 37183684--37184096 Score: 253
Period size: 81 Copynumber: 5.1 Consensus size: 80
37183674 ATTACTAAAA
* * *
37183684 TACCCTCGACATGTAAAATTATCAAAGTAACCTCGATTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCGACATGTAAAATTA-CAAAGTAACCTCGATTTATAGAATTACTATTTTACCCTCGATT
37183749 TACAGAATTACTGTTT
65 TACAGAATTACTGTTT
** ** *** * * * * *
37183765 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAGTTACTATTTTACCCTTGAAT
1 TACCCTCGACATGTAAAATTAC-AAAGTAACCTCGATTTATAGAATTACTATTTTACCCTCGATT
* *
37183830 TACAAAATTACTATTT
65 TACAGAATTACTGTTT
* **** * *
37183846 TACCCTCG--ATTTACAGAATTACCGTTCTACCCTCGATTTATAGAATTACCATTTTACCCTCGA
1 TACCCTCGACATGTA-A-AATTA-CAAAGTAACCTCGATTTATAGAATTACTATTTTACCCTCGA
* **
37183909 TTTAGAGAATTACCATTT
63 TTTACAGAATTACTGTTT
** * * * * * *** *
37183927 TACCCTCGATTTAG-AAAATTACTAAAAT-ACCCCTGGTTTGTAAAATTACTAAAATACCCCCTG
1 TACCCTCGACAT-GTAAAATTAC-AAAGTAACCTC-GATTTATAGAATTACTATTTTACCCTC-G
** * ***
37183990 ATTTGTAAAATTACTGAAA
62 ATTTACAGAATTACTGTTT
* *
37184009 TACCCTCGAC-TGGTAAAAATTACCAAAGT-ACCTTTGATTTATAGAATTACTGTTTTACCCTCG
1 TACCCTCGACAT-GT-AAAATTA-CAAAGTAACC-TCGATTTATAGAATTACTATTTTACCCTCG
37184072 ATTTACAGAATTACTGTTT
62 ATTTACAGAATTACTGTTT
37184091 TACCCT
1 TACCCT
37184097 TGATTTACAA
Statistics
Matches: 247, Mismatches: 71, Indels: 27
0.72 0.21 0.08
Matches are distributed among these distances:
79 2 0.01
80 6 0.02
81 160 0.65
82 43 0.17
83 35 0.14
84 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (80 bp):
TACCCTCGACATGTAAAATTACAAAGTAACCTCGATTTATAGAATTACTATTTTACCCTCGATTT
ACAGAATTACTGTTT
Found at i:37183958 original size:54 final size:54
Alignment explanation
Indices: 37183714--37184128 Score: 361
Period size: 54 Copynumber: 7.6 Consensus size: 54
37183704 ATCAAAGTAA
* **
37183714 CCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTAC
1 CCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTAC
* *
37183768 CCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAGTTACTATTTTAC
1 CCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTAC
* * * *
37183822 CCTTGAATTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTCTAC
1 CCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTAC
* * * *
37183876 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTAGAGAATTACCATTTTAC
1 CCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTAC
* *** * * * ***
37183930 CCTCGATTTAGAAAATTACTAAAATACCCCTGGTTTGTA-A-AATTACTAAAATAC
1 CCTCGATTTACAAAATTACTATTTTA-CCCTCGATT-TACAGAATTACCATTTTAC
* ** ** * * ***
37183984 CCCCTGATTTGTAAAATTACTGA-AATACCCTCGACTGGTA-AAAATTACCAAAGTAC
1 CCTC-GATTTACAAAATTACT-ATTTTACCCTCGA-T-TTACAGAATTACCATTTTAC
* * * * * **
37184040 CTTTGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACTGTTTTAC
1 CCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTAC
* **
37184094 CCTTGATTTACAAAATTACCGTTTTACCCTCGATT
1 CCTCGATTTACAAAATTACTATTTTACCCTCGATT
37184129 GTGAAATTAC
Statistics
Matches: 296, Mismatches: 56, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
53 2 0.01
54 225 0.76
55 53 0.18
56 16 0.05
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (54 bp):
CCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTAC
Found at i:37183996 original size:28 final size:28
Alignment explanation
Indices: 37183941--37184013 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 28
37183931 CTCGATTTAG
*
37183941 AAAATTACTAAAATA-CCCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
37183968 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
*
37183996 AAAATTACTGAAATACCC
1 AAAATTACTAAAATACCC
37184014 TCGACTGGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
27 15 0.35
28 28 0.65
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTGATTTGT
Found at i:37184027 original size:28 final size:28
Alignment explanation
Indices: 37183941--37184040 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
37183931 CTCGATTTAG
** *
37183941 AAAATTACTAAAATA-CCCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTGACTGGT
* *
37183968 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATACCCCCTGACTGGT
* *
37183996 AAAATTACTGAAATACCCTC-GACTGGT
1 AAAATTACTAAAATACCCCCTGACTGGT
* *
37184023 AAAAATTACCAAAGTACC
1 -AAAATTACTAAAATACC
37184041 TTTGATTTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 20 0.32
28 43 0.68
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTGACTGGT
Found at i:37184067 original size:27 final size:27
Alignment explanation
Indices: 37184037--37184128 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
37184027 ATTACCAAAG
* *
37184037 TACCTTTGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAGAATTACTGTTT
*
37184064 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAGAATTACTGTTT
* *
37184091 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTTGATTTACAGAATTACTGTTT
*
37184118 TACCCTCGATT
1 TACCCTTGATT
37184129 GTGAAATTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (27 bp):
TACCCTTGATTTACAGAATTACTGTTT
Found at i:37184163 original size:27 final size:27
Alignment explanation
Indices: 37184133--37184407 Score: 274
Period size: 27 Copynumber: 10.2 Consensus size: 27
37184123 TCGATTGTGA
*
37184133 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
37184160 AATTAC-CAAA-ACACCCT-TAGTTTGTAA
1 AATTACTGAAATAC-CCCTGTAG--GGTAG
** *
37184187 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
37184214 AATTACTAAAATA-CCCTAGTAAGGTAG
1 AATTACTGAAATACCCCT-GTAGGGTAG
*
37184241 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
37184268 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
37184295 AATTA-TCGCAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
37184322 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
37184349 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
37184376 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
37184402 AATTAC
1 AATTAC
37184408 CATTTTGCCC
Statistics
Matches: 209, Mismatches: 29, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
25 5 0.02
26 25 0.12
27 163 0.78
28 11 0.05
29 5 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:37184246 original size:81 final size:80
Alignment explanation
Indices: 37184133--37184390 Score: 326
Period size: 81 Copynumber: 3.2 Consensus size: 80
37184123 TCGATTGTGA
* *
37184133 AATTACTGAAATACCCCTATAGGGTAGAATTACCAAA-ACACCCT-TAGTTTGTAAAATTACCAA
1 AATTACTGAAATACCCCTATAGGGTAGAATTACCAAATAC-CCCTGTAG--GGTAGAATTACCAA
*
37184196 AATACCCTTGTAGGGTAG
63 AATACCCCTGTAGGGTAG
* *
37184214 AATTACTAAAATA-CCCTAGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCAAA
1 AATTACTGAAATACCCCTA-TAGGGTAGAATTACC-AAATACCCCTGTAGGGTAGAATTACCAAA
37184278 ATACCCCTGTAGGGTAG
64 ATACCCCTGTAGGGTAG
* * *
37184295 AATTA-TCGCAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACTAAA
1 AATTACT-GAAATACCCCTATAGGGTAGAATTAC-CAAATACCCCTGTAGGGTAGAATTACCAAA
*
37184359 ATACCCCTGTAGGGTGG
64 ATACCCCTGTAGGGTAG
* *
37184376 AATTACCGAGATACC
1 AATTACTGAAATACC
37184391 TTGTGGGGTA
Statistics
Matches: 155, Mismatches: 14, Indels: 16
0.84 0.08 0.09
Matches are distributed among these distances:
80 6 0.04
81 132 0.85
82 12 0.08
83 5 0.03
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (80 bp):
AATTACTGAAATACCCCTATAGGGTAGAATTACCAAATACCCCTGTAGGGTAGAATTACCAAAAT
ACCCCTGTAGGGTAG
Found at i:37184691 original size:27 final size:26
Alignment explanation
Indices: 37184653--37184704 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
37184643 CTCGCTGCAA
*
37184653 TCTGGTGGCTTCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
37184680 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACTTCGCCACAATATCTG
37184705 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:37184742 original size:67 final size:67
Alignment explanation
Indices: 37184634--37184854 Score: 433
Period size: 67 Copynumber: 3.3 Consensus size: 67
37184624 GAGGAAGCGT
*
37184634 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACGTATATCTGTTCTGGTGACTTCGTCACAA
37184699 TA
66 TA
37184701 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACGTATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACGTATATCTGTTCTGGTGACTTCGTCACAA
37184766 TA
66 TA
37184768 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACGTATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACGTATATCTGTTCTGGTGACTTCGTCACAA
37184833 TA
66 TA
37184835 TCTGGCAGCCTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
37184855 TTCTGTGGTG
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 153 1.00
ACGTcount: A:0.17, C:0.29, G:0.24, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACGTATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:37184966 original size:6 final size:6
Alignment explanation
Indices: 37184957--37185035 Score: 90
Period size: 6 Copynumber: 12.8 Consensus size: 6
37184947 TTGCATTCAT
* *
37184957 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
37185007 ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
37185036 AGTTATGATA
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
5 4 0.06
6 51 0.81
7 5 0.08
8 3 0.05
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:37184988 original size:25 final size:25
Alignment explanation
Indices: 37184960--37185024 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
37184950 CATTCATATT
*
37184960 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
37184985 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
37185010 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
37185025 ATTCTGATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:37184992 original size:31 final size:31
Alignment explanation
Indices: 37184957--37185045 Score: 105
Period size: 31 Copynumber: 2.9 Consensus size: 31
37184947 TTGCATTCAT
37184957 ATTCTGATTCTGATTCT-GTTACCTGATACTG
1 ATTCTGATTCTGATTCTAGTTA-CTGATACTG
* *
37184988 ATTCTGATTCTG-TTACCTAATT-CTGATTCTG
1 ATTCTGATTCTGATT--CTAGTTACTGATACTG
37185019 ATTCTGATTCTGATTCTAGTTA-TGATA
1 ATTCTGATTCTGATTCTAGTTACTGATA
37185046 ATGTTTCTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
30 11 0.22
31 32 0.65
32 4 0.08
33 2 0.04
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTAGTTACTGATACTG
Found at i:37185044 original size:18 final size:17
Alignment explanation
Indices: 37184986--37185044 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 17
37184976 TACCTGATAC
37184986 TGATTCTGATTCTGTTA
1 TGATTCTGATTCTGTTA
* *
37185003 CCTAATTCTGATTCTGATTC
1 --TGATTCTGATTCTG-TTA
37185023 TGATTCTGATTCTAGTTA
1 TGATTCTGATTCT-GTTA
37185041 TGAT
1 TGAT
37185045 AATGTTTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
18 18 0.53
19 14 0.41
20 2 0.06
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.49
Consensus pattern (17 bp):
TGATTCTGATTCTGTTA
Found at i:37187597 original size:12 final size:12
Alignment explanation
Indices: 37187580--37187608 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
37187570 TATATAAATA
37187580 TTTTTTTCA-CT
1 TTTTTTTCACCT
37187591 TTTTTTTCACCT
1 TTTTTTTCACCT
37187603 TTTTTT
1 TTTTTT
37187609 AGAACAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTTCACCT
Found at i:37188616 original size:18 final size:18
Alignment explanation
Indices: 37188567--37188632 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 18
37188557 TGAAGAGAAA
*
37188567 AAAAAATAAAACAACTAA-
1 AAAAAATAAAAGAA-TAAT
37188585 AACAAAATTAAAAAGAA-AGAT
1 AA-AAAA-T-AAAAGAATA-AT
*
37188606 AAAAAATAAAATAATAAT
1 AAAAAATAAAAGAATAAT
37188624 AAAAAATAA
1 AAAAAATAA
37188633 TAATAAACTC
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
18 19 0.47
19 7 0.17
20 6 0.15
21 8 0.20
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAAAATAAAAGAATAAT
Found at i:37188629 original size:13 final size:13
Alignment explanation
Indices: 37188613--37188639 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37188603 GATAAAAAAT
37188613 AAAATAATAATAA
1 AAAATAATAATAA
37188626 AAAATAATAATAA
1 AAAATAATAATAA
37188639 A
1 A
37188640 CTCAATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAATAATAATAA
Found at i:37188699 original size:8 final size:8
Alignment explanation
Indices: 37188686--37188783 Score: 56
Period size: 8 Copynumber: 12.0 Consensus size: 8
37188676 TGATAATAGT
37188686 AAAAATAA
1 AAAAATAA
37188694 AAAAATATA
1 AAAAATA-A
37188703 AAAAA-AGA
1 AAAAATA-A
*
37188711 AAAAA-AT
1 AAAAATAA
* *
37188718 AGAAATAG
1 AAAAATAA
*
37188726 CAAAATAA
1 AAAAATAA
37188734 AAATAATAA
1 AAA-AATAA
**
37188743 AAGTATATA
1 AAAAATA-A
* *
37188752 AAAATTTA
1 AAAAATAA
*
37188760 AAATATAA
1 AAAAATAA
37188768 AAAAATAA
1 AAAAATAA
*
37188776 AAATATAA
1 AAAAATAA
37188784 GTATAAGAAT
Statistics
Matches: 67, Mismatches: 19, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
7 4 0.06
8 46 0.69
9 17 0.25
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (8 bp):
AAAAATAA
Found at i:37188752 original size:19 final size:18
Alignment explanation
Indices: 37188730--37188775 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
37188720 AAATAGCAAA
37188730 ATAAAAATAATAAAAGTAT
1 ATAAAAATAATAAAA-TAT
*
37188749 ATAAAAAT-TTAAAATAT
1 ATAAAAATAATAAAATAT
*
37188766 AAAAAAATAA
1 ATAAAAATAA
37188776 AAATATAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 10 0.43
18 5 0.22
19 8 0.35
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
ATAAAAATAATAAAATAT
Found at i:37188872 original size:22 final size:20
Alignment explanation
Indices: 37188816--37188942 Score: 88
Period size: 22 Copynumber: 6.3 Consensus size: 20
37188806 AATTAATTAT
37188816 TAAAATAAAAATAAATAATA
1 TAAAATAAAAATAAATAATA
37188836 TAACAATTAAAAATAAATAA-A
1 TAA-AA-TAAAAATAAATAATA
* *
37188857 T---ATAAATAT-AAGAATA
1 TAAAATAAAAATAAATAATA
* * *
37188873 CT-AAAT-TAATTAATTAATTA
1 -TAAAATAAAAATAAATAA-TA
37188893 GTAAAATAAAAATAAATAATA
1 -TAAAATAAAAATAAATAATA
*
37188914 TAACAATTAAAAATAAATAAAA
1 TAA-AA-TAAAAATAAATAATA
37188936 TAAAATA
1 TAAAATA
37188943 GAATTAGGGT
Statistics
Matches: 83, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
15 4 0.05
16 7 0.08
17 2 0.02
18 2 0.02
19 5 0.06
20 11 0.13
21 14 0.17
22 38 0.46
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (20 bp):
TAAAATAAAAATAAATAATA
Found at i:37188880 original size:78 final size:78
Alignment explanation
Indices: 37188768--37188946 Score: 287
Period size: 78 Copynumber: 2.4 Consensus size: 78
37188758 TAAAATATAA
* * *
37188768 AAAAAT-AA-AAATATAAGTATAAGAATAATTAATTAATTAATTAATTATTAAAATAAAAATAAA
1 AAAAATAAATAAATATAAATATAAGAATAATAAATTAATTAATTAATTAGTAAAATAAAAATAAA
37188831 TAATATAACAATT
66 TAATATAACAATT
*
37188844 AAAAATAAATAAATATAAATATAAGAATACTAAATTAATTAATTAATTAGTAAAATAAAAATAAA
1 AAAAATAAATAAATATAAATATAAGAATAATAAATTAATTAATTAATTAGTAAAATAAAAATAAA
37188909 TAATATAACAATT
66 TAATATAACAATT
37188922 AAAAATAAATAAA-ATAAA-AT-AGAAT
1 AAAAATAAATAAATATAAATATAAGAAT
37188947 TAGGGTGATT
Statistics
Matches: 97, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
75 5 0.05
76 8 0.08
77 7 0.07
78 77 0.79
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (78 bp):
AAAAATAAATAAATATAAATATAAGAATAATAAATTAATTAATTAATTAGTAAAATAAAAATAAA
TAATATAACAATT
Found at i:37192965 original size:26 final size:26
Alignment explanation
Indices: 37192936--37193004 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
37192926 CCAACACACC
37192936 AATATCGCAGCAAAGCTGCCAGAAAT
1 AATATCGCAGCAAAGCTGCCAGAAAT
* * *
37192962 AATATCACAACAAAGCTGCCAGTAAT
1 AATATCGCAGCAAAGCTGCCAGAAAT
* *
37192988 AGTAACGCAGCAAAGCT
1 AATATCGCAGCAAAGCT
37193005 CCCACTATCA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.16
Consensus pattern (26 bp):
AATATCGCAGCAAAGCTGCCAGAAAT
Found at i:37193065 original size:27 final size:26
Alignment explanation
Indices: 37193013--37193070 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
37193003 CTCCCACTAT
*
37193013 CAGTATATGTGGCAAAGCCACAAGTAA
1 CAGTATATGTGGCAAAACCACAAGT-A
*
37193040 CAGTATATGTGGTAAAACCATC-AGTA
1 CAGTATATGTGGCAAAACCA-CAAGTA
37193066 CAGTA
1 CAGTA
37193071 CACTTTCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 6 0.21
27 21 0.75
28 1 0.04
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (26 bp):
CAGTATATGTGGCAAAACCACAAGTA
Found at i:37198308 original size:26 final size:27
Alignment explanation
Indices: 37198279--37198351 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
37198269 ATAATATAGC
*
37198279 AGCAAAGTTACCAGTAACAGTA-ACGT
1 AGCAAAGCTACCAGTAACAGTACACGT
* * *
37198305 AGCAAAGCTGCCAGTATCAGTACATGT
1 AGCAAAGCTACCAGTAACAGTACACGT
* *
37198332 GGCAAAGCCACCAGTAACAG
1 AGCAAAGCTACCAGTAACAG
37198352 AATATGTGGC
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 19 0.50
27 19 0.50
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (27 bp):
AGCAAAGCTACCAGTAACAGTACACGT
Found at i:37198345 original size:27 final size:27
Alignment explanation
Indices: 37198288--37198382 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 27
37198278 CAGCAAAGTT
* * *
37198288 ACCAGTAACAGTA-ACGTAGCAAAGCT
1 ACCAGTAACAGTACATGTGGCAAAGCC
* *
37198314 GCCAGTATCAGTACATGTGGCAAAGCC
1 ACCAGTAACAGTACATGTGGCAAAGCC
* *
37198341 ACCAGTAACAGAATATGTGGCAAAGCC
1 ACCAGTAACAGTACATGTGGCAAAGCC
*
37198368 ACTAGT-ACAGTACAT
1 ACCAGTAACAGTACAT
37198383 TTCCTTCTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 18 0.32
27 38 0.68
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (27 bp):
ACCAGTAACAGTACATGTGGCAAAGCC
Found at i:37198534 original size:27 final size:27
Alignment explanation
Indices: 37198484--37198535 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
37198474 ATCACAGCAT
*
37198484 AAATCAGTCATTTACCCTCGAGGGGTA
1 AAATCAGTCATTTACCCTAGAGGGGTA
*
37198511 AAAT-AGTCATTTTACCCTATAGGGG
1 AAATCAGTCA-TTTACCCTAGAGGGG
37198536 ATTTTGGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTAGAGGGGTA
Done.