Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 9 of 45
Found at i:1687200 original size:106 final size:108
Alignment explanation
Indices: 1687015--1687261 Score: 322
Period size: 106 Copynumber: 2.3 Consensus size: 108
1687005 ATTACGCATT
* * *
1687015 TAGAAACTGATTTCAAACATTTAAACTAATTACGCATTTTGAAACTTCTTTTACAGAAACTGAAT
1 TAGAAACCGAATTCAAACATTTAAACTAATTACGCATTTTGAAACTTCTTTTACAAAAACTGAAT
* * * **
1687080 TCAAACATTTAAACTAATTACG-CATTTTGAA-ACTT-TTTTTA
66 TCAAACAATTAAACTAATTACGACAATATGAATA-TTGTGCTTA
* *
1687121 TAGAAACCGAATTCAAACATTTAAACTAATTACGCATTTTGAAATTTTTTTTACAAAAA-TCGAA
1 TAGAAACCGAATTCAAACATTTAAACTAATTACGCATTTTGAAACTTCTTTTACAAAAACT-GAA
*
1687185 TTCAAACAATTAAACTAATTACGTAGAATATGAATATTGTGCTTA
65 TTCAAACAATTAAACTAATTACG-ACAATATGAATATTGTGCTTA
* *
1687230 TAAAAATCGAATTCAAACATTTAAACTAATTA
1 TAGAAACCGAATTCAAACATTTAAACTAATTA
1687262 ACTTCTTTTA
Statistics
Matches: 123, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
105 1 0.01
106 79 0.64
108 8 0.07
109 35 0.28
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.36
Consensus pattern (108 bp):
TAGAAACCGAATTCAAACATTTAAACTAATTACGCATTTTGAAACTTCTTTTACAAAAACTGAAT
TCAAACAATTAAACTAATTACGACAATATGAATATTGTGCTTA
Found at i:1687245 original size:56 final size:53
Alignment explanation
Indices: 1687026--1687261 Score: 219
Period size: 53 Copynumber: 4.4 Consensus size: 53
1687016 AGAAACTGAT
* * * *
1687026 TTCAAACATTTAAACTAATTACGCATTTTGAAACT-T-CTTTTACAGAAA-CTGAA
1 TTCAAACATTTAAACTAATTACGCAATATGAAATTGTGCTTATA-A-AAATC-GAA
* * ** * *
1687079 TTCAAACATTTAAACTAATTACGCATTTTGAAACTT-TTTTTATAGAAACCGAA
1 TTCAAACATTTAAACTAATTACGCAATATGAAA-TTGTGCTTATAAAAATCGAA
* * * ** *
1687132 TTCAAACATTTAAACTAATTACGCATTTTGAAATTTTTTTTACAAAAATCGAA
1 TTCAAACATTTAAACTAATTACGCAATATGAAATTGTGCTTATAAAAATCGAA
* *
1687185 TTCAAACAATTAAACTAATTACGTAGAATATGAATATTGTGCTTATAAAAATCGAA
1 TTCAAACATTTAAACTAATTACG--CAATATGAA-ATTGTGCTTATAAAAATCGAA
1687241 TTCAAACATTTAAACTAATTA
1 TTCAAACATTTAAACTAATTA
1687262 ACTTCTTTTA
Statistics
Matches: 160, Mismatches: 16, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
52 2 0.01
53 108 0.68
54 3 0.02
55 10 0.06
56 37 0.23
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.36
Consensus pattern (53 bp):
TTCAAACATTTAAACTAATTACGCAATATGAAATTGTGCTTATAAAAATCGAA
Found at i:1687402 original size:150 final size:151
Alignment explanation
Indices: 1687123--1687412 Score: 402
Period size: 150 Copynumber: 1.9 Consensus size: 151
1687113 TTTTTTTATA
* **
1687123 GAAACCGAATTCAAACATTTAAACTAATTACGCATTTTGAAATTTTTTTTACAAAAATCGAATTC
1 GAAACCGAATTCAAACATTTAAACTAATTACGCATTTTGAAAATTTTTTTACAAAAATAAAATTC
** * * * * *
1687188 AAACAATTAAACTAATTACGTAGAATATGAATATTGTGCTTATAAAAATCGAATTCAAACATTTA
66 AAACAATTAAACTAATTACACAAAATATAAATATTATACTTACAAAAATCGAATTCAAACATTTA
1687253 AACTAATTAACTTCTTTTACG
131 AACTAATTAACTTCTTTTACG
* * * * *
1687274 GAAACTGAATTCAAACATTTAAATTAATTACGTATTTT-AAAATTTTTTTATAAAAATAAAATTT
1 GAAACCGAATTCAAACATTTAAACTAATTACGCATTTTGAAAATTTTTTTACAAAAATAAAATTC
* * *
1687338 AAATATTTAAACTAATTACACAAAATATAAATATTATACTTACAAAAATCGAATTCAAATATTTA
66 AAACAATTAAACTAATTACACAAAATATAAATATTATACTTACAAAAATCGAATTCAAACATTTA
*
1687403 ATCTAATTAA
131 AACTAATTAA
1687413 GCAGAACATC
Statistics
Matches: 120, Mismatches: 19, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
150 85 0.71
151 35 0.29
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.37
Consensus pattern (151 bp):
GAAACCGAATTCAAACATTTAAACTAATTACGCATTTTGAAAATTTTTTTACAAAAATAAAATTC
AAACAATTAAACTAATTACACAAAATATAAATATTATACTTACAAAAATCGAATTCAAACATTTA
AACTAATTAACTTCTTTTACG
Found at i:1689003 original size:34 final size:33
Alignment explanation
Indices: 1688955--1689175 Score: 257
Period size: 34 Copynumber: 6.5 Consensus size: 33
1688945 TGGTAAAAAC
*
1688955 CACCATTTAATCAACAATGGCAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
1688988 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* *
1689022 CACCGATTTAATCAATAATGGTAAGCTACCAAAT
1 CACC-ATTTAATCAACAATGGTAACCTACCAAAT
** * *
1689056 TTCTCATTTAATCAACAATAGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * *
1689090 CTCCCATTTAGTCAACAATGGCAAACC-ACCAAAT
1 C-ACCATTTAATCAACAATGG-TAACCTACCAAAT
*
1689124 CACCTATTTAATCAACAATGGTAAACTACCAAAT
1 CACC-ATTTAATCAACAATGGTAACCTACCAAAT
1689158 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
1689176 TCTCCCACTT
Statistics
Matches: 160, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
33 24 0.15
34 129 0.81
35 7 0.04
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:1689134 original size:102 final size:101
Alignment explanation
Indices: 1688955--1689175 Score: 334
Period size: 102 Copynumber: 2.2 Consensus size: 101
1688945 TGGTAAAAAC
* * *
1688955 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATAGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
* *
1689020 ATCACCGATTTAATCAATAATGGTAAGCTACCAAAT
66 ATCACCGATTTAATCAACAATGGTAAACTACCAAAT
** * * *
1689056 TTCTCATTTAATCAACAATAGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCA
1 CAC-CATTTAATCAACAATAGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCA
*
1689121 AATCACCTATTTAATCAACAATGGTAAACTACCAAAT
65 AATCACCGATTTAATCAACAATGGTAAACTACCAAAT
1689158 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
1689176 TCTCCCACTT
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
101 16 0.15
102 90 0.85
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATAGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
ATCACCGATTTAATCAACAATGGTAAACTACCAAAT
Found at i:1693602 original size:34 final size:34
Alignment explanation
Indices: 1693559--1693779 Score: 249
Period size: 34 Copynumber: 6.5 Consensus size: 34
1693549 TTGGTAAAAA
*
1693559 CTACCATTTAATCAACAATGGCAACCTACCAAAT
1 CTACCATTTAATCAACAATGGTAACCTACCAAAT
*
1693593 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 CTACCATTTAATCAACAATGGTAA-CCTACCAAAT
* **
1693627 C-ACCCATTTAATCAATAATGGTAAGTTACCAAAT
1 CTA-CCATTTAATCAACAATGGTAACCTACCAAAT
* *
1693661 -TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CTAC-CATTTAATCAACAATGGTAACCTACCAAAT
* *
1693695 CT-CTCATTTAGTCAACAATGGCAAACC-ACCAAAT
1 CTAC-CATTTAATCAACAATGG-TAACCTACCAAAT
*
1693729 C-ACCTATTTAATCAACAATGGTAAACTACCAAAT
1 CTACC-ATTTAATCAACAATGGTAACCTACCAAAT
1693763 C-ACCATTTAATCAACAA
1 CTACCATTTAATCAACAA
1693780 GTTTAACGTT
Statistics
Matches: 162, Mismatches: 15, Indels: 21
0.82 0.08 0.11
Matches are distributed among these distances:
33 19 0.12
34 137 0.85
35 6 0.04
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (34 bp):
CTACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:1693676 original size:68 final size:67
Alignment explanation
Indices: 1693562--1693779 Score: 276
Period size: 68 Copynumber: 3.2 Consensus size: 67
1693552 GTAAAAACTA
* * *
1693562 CCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAAT-TACCATTTAATCAACAATGGTAAGCTACCAAAT
1693627 CAC
65 CAC
* * ** *
1693630 CCATTTAATCAATAATGGTAAGTTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTAC-CATTTAATCAACAATGGTAAGCTACCAAAT
*
1693695 CTC
65 CAC
* * * * *
1693698 TCATTTAGTCAACAATGGCAAACCACCAAATCACCTATTTAATCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTACC-ATTTAATCAACAATGGTAAGCTACCAAAT
1693763 CA-
65 CAC
1693765 CCATTTAATCAACAA
1 CCATTTAATCAACAA
1693780 GTTTAACGTT
Statistics
Matches: 127, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
67 16 0.13
68 111 0.87
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (67 bp):
CCATTTAATCAACAATGGCAAACTACCAAATTACCATTTAATCAACAATGGTAAGCTACCAAATC
AC
Found at i:1693704 original size:102 final size:101
Alignment explanation
Indices: 1693561--1693779 Score: 323
Period size: 102 Copynumber: 2.2 Consensus size: 101
1693551 GGTAAAAACT
* *
1693561 ACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAA
1 ACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAAA
* ** *
1693626 TCACCCATTTAATCAATAATGGTAAGTTACCAAATT
66 TCACCCATTTAATCAACAATGGTAAACTACCAAATC
* * *
1693662 TCTCATTTAATCAACAATGGTAAGCTACCAAATCT-CTCATTTAGTCAACAATGGCAAACCACCA
1 AC-CATTTAATCAACAATGGCAACCTACCAAATCTAC-CATTTAGTCAACAATGGCAAACCACCA
*
1693726 AATCACCTATTTAATCAACAATGGTAAACTACCAAATC
64 AATCACCCATTTAATCAACAATGGTAAACTACCAAATC
1693764 ACCATTTAATCAACAA
1 ACCATTTAATCAACAA
1693780 GTTTAACGTT
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
101 16 0.15
102 89 0.85
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (101 bp):
ACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAAA
TCACCCATTTAATCAACAATGGTAAACTACCAAATC
Found at i:1704048 original size:4 final size:4
Alignment explanation
Indices: 1704039--1704072 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
1704029 TCCGATCATT
1704039 TTAA TTAA TTAAA TTAA TTAA TTAA TTTAA TTAA
1 TTAA TTAA TT-AA TTAA TTAA TTAA -TTAA TTAA
1704073 AAATAATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:1704055 original size:9 final size:8
Alignment explanation
Indices: 1704039--1704072 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
1704029 TCCGATCATT
1704039 TTAATTAA
1 TTAATTAA
1704047 TTAAATTAA
1 TT-AATTAA
1704056 TTAATTAA
1 TTAATTAA
1704064 TTTAATTAA
1 -TTAATTAA
1704073 AAATAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TTAATTAA
Found at i:1704057 original size:13 final size:13
Alignment explanation
Indices: 1704039--1704072 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
1704029 TCCGATCATT
1704039 TTAATTAATTAAA
1 TTAATTAATTAAA
*
1704052 TTAATTAATTAAT
1 TTAATTAATTAAA
1704065 TTAATTAA
1 TTAATTAA
1704073 AAATAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAATTAATTAAA
Found at i:1704484 original size:20 final size:20
Alignment explanation
Indices: 1704460--1704507 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1704450 TTGAAATTTT
*
1704460 ATTTTTTT-AAAAAAGAGTA
1 ATTTTTTTAAAAAAAAAGTA
1704479 ATTTTTTTAAAAAAAAAGTA
1 ATTTTTTTAAAAAAAAAGTA
*
1704499 ATTTCTTTA
1 ATTTTTTTA
1704508 GTAGTTACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (20 bp):
ATTTTTTTAAAAAAAAAGTA
Found at i:1705183 original size:20 final size:20
Alignment explanation
Indices: 1705129--1705188 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 20
1705119 CTTAATTTTT
** *
1705129 TTTTTAAATTTAAAAATTAA
1 TTTTTAAATAAAAAAAGTAA
* *
1705149 TTTATATATATAAAAAAGTAA
1 TTTTTAAATA-AAAAAAGTAA
*
1705170 TTTTTAAATAAAAATAGTA
1 TTTTTAAATAAAAAAAGTA
1705189 CGATTTGCTA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (20 bp):
TTTTTAAATAAAAAAAGTAA
Found at i:1707756 original size:107 final size:107
Alignment explanation
Indices: 1707570--1707778 Score: 382
Period size: 107 Copynumber: 2.0 Consensus size: 107
1707560 GCATTCGGAG
* *
1707570 CTAAGCTTCCAAATCTGCCTAATTGCTTGTACTTTGGACCAAAAACCTGGATTGGTAAAAGAGGC
1 CTAAGCCTCCAAACCTGCCTAATTGCTTGTACTTTGGACCAAAAACCTGGATTGGTAAAAGAGGC
*
1707635 TGTGATTTTATCAATTTCATATTATAGAGCACGGTTTAGGAA
66 TGTGATTTTATCAATTTCATATTATAGAGCAAGGTTTAGGAA
*
1707677 CTAAGCCTCCAAACCTGCCTAATTGCTTGTACTTTGGACCAAAAACCTGGATTGGTAAACGAGGC
1 CTAAGCCTCCAAACCTGCCTAATTGCTTGTACTTTGGACCAAAAACCTGGATTGGTAAAAGAGGC
1707742 TGTGATTTTATCAATTTCATATTATAGAGCAAGGTTT
66 TGTGATTTTATCAATTTCATATTATAGAGCAAGGTTT
1707779 GCCTGTGGCT
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 98 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (107 bp):
CTAAGCCTCCAAACCTGCCTAATTGCTTGTACTTTGGACCAAAAACCTGGATTGGTAAAAGAGGC
TGTGATTTTATCAATTTCATATTATAGAGCAAGGTTTAGGAA
Found at i:1708426 original size:36 final size:36
Alignment explanation
Indices: 1708385--1708457 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
1708375 AAAAGAAGCC
*
1708385 CATATGGAAACCGAGACAAGGAAAGGGTAAAAGCAG
1 CATATGAAAACCGAGACAAGGAAAGGGTAAAAGCAG
1708421 CATATGAAAACCGAGACAAGGAAAGGGTAAAAGCAG
1 CATATGAAAACCGAGACAAGGAAAGGGTAAAAGCAG
1708457 C
1 C
1708458 CAGAGAATCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.48, C:0.15, G:0.29, T:0.08
Consensus pattern (36 bp):
CATATGAAAACCGAGACAAGGAAAGGGTAAAAGCAG
Found at i:1711956 original size:35 final size:35
Alignment explanation
Indices: 1711912--1711989 Score: 140
Period size: 35 Copynumber: 2.3 Consensus size: 35
1711902 AATTACGTAT
1711912 TTTGAAACTTCTTTTACAGAAATCGAATTCAAACA
1 TTTGAAACTTCTTTTACAGAAATCGAATTCAAACA
*
1711947 TTTGGAACTTCTTTTACAGAAATCGAATTCAAACA
1 TTTGAAACTTCTTTTACAGAAATCGAATTCAAACA
1711982 TTT-AAACT
1 TTTGAAACT
1711990 AATTACGCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 4 0.10
35 37 0.90
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (35 bp):
TTTGAAACTTCTTTTACAGAAATCGAATTCAAACA
Found at i:1712009 original size:88 final size:88
Alignment explanation
Indices: 1711859--1712037 Score: 297
Period size: 88 Copynumber: 2.0 Consensus size: 88
1711849 TCTTTTTTGT
* * *
1711859 TTTGGAACTTCTTTTACAGAAACCGAATTCAAATATTTAAATTAATTACGTATTTTGAAACTTCT
1 TTTGGAACTTCTTTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCATTTTGAAACTTCT
1711924 TTTACAGAAA-TCGAATTCAAACA
66 TTTACAGAAACT-GAATTCAAACA
* *
1711947 TTTGGAACTTCTTTTACAGAAATCGAATTCAAACATTTAAACTAATTACGCATTTTGGAACTTCT
1 TTTGGAACTTCTTTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCATTTTGAAACTTCT
1712012 TTTACAGAAACTGAATTCAAACA
66 TTTACAGAAACTGAATTCAAACA
1712035 TTT
1 TTT
1712038 AAACTAATTA
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
88 84 0.99
89 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (88 bp):
TTTGGAACTTCTTTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCATTTTGAAACTTCT
TTTACAGAAACTGAATTCAAACA
Found at i:1712099 original size:56 final size:53
Alignment explanation
Indices: 1711949--1712718 Score: 433
Period size: 56 Copynumber: 14.9 Consensus size: 53
1711939 TTCAAACATT
* * * *
1711949 TGGAACTTCTTTTACAGAAATCGAATTCAAACATTTAAACTAATTACGCATTT
1 TGGAACTTCTCTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAATA
* *
1712002 TGGAACTTCTTTTACAGAAACTGAATTCAAACATTTAAACTAATTACGCAGAATA
1 TGGAACTTCTCTTACAGAAACCGAATTCAAACATTTAAACTAATTACGC--AATA
* * *
1712057 T-GAATGTTGTGCTTACAGAAACCGAACTCAAACATTTAAAC----T----AAT-
1 TGGAA-CTTCT-CTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAATA
* * *
1712102 T--AACTTCTTTTACAGAAACCGAATTCAAATATTTAAACTAATTACGTAGAATA
1 TGGAACTTCTCTTACAGAAACCGAATTCAAACATTTAAACTAATTACG--CAATA
* * *
1712155 T-GAATGTTGTGCTTACAGAAACCGAATTCAAATATTTAAACTAATTACGCAGAATA
1 TGGAA-CTTCT-CTTACAGAAACCGAATTCAAACATTTAAACTAATTACGC--AATA
* * * * *
1712211 T-TAATGTTGTGCTTACAGAAATCGAATTCAAATATTTAAAC----T----AAT-
1 TGGAA-CTTCT-CTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAATA
* *
1712256 T--AACTTCTTTTACAGAAACAGAATTCAAACATTTAAACTAATTACGCAGAATA
1 TGGAACTTCTCTTACAGAAACCGAATTCAAACATTTAAACTAATTACGC--AATA
* * *
1712309 T-GAATGTTGTACTTACAGAAATCGAATTCAAACATTTAAAC----T----AAT-
1 TGGAA-CTTCT-CTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAATA
* *
1712354 T--AACTTCTTTTACAGAAACAGAATTCAAACATTTAAACTAATTACGCAGAATA
1 TGGAACTTCTCTTACAGAAACCGAATTCAAACATTTAAACTAATTACGC--AATA
* *
1712407 T-GAATATTGTGCTTACAGAAACCGAATTCAAACATTTAAAC----T----AAT-
1 TGGAA-CTTCT-CTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAATA
*
1712452 T--AACTTCTTTTACAGAAACCGAATTCAAACATTTAAACTAA-TACGCTGAATA
1 TGGAACTTCTCTTACAGAAACCGAATTCAAACATTTAAACTAATTACGC--AATA
* * * *
1712504 T-GAATGTTGTGCTTACAGAAACCGAATTCAAACATTTAAATTAATTACACAGAATA
1 TGGAA-CTTCT-CTTACAGAAACCGAATTCAAACATTTAAACTAATTACGC--AATA
* *
1712560 T-GAATGTTGTGCTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATA
1 TGGAA-CTTCT-CTTACAGAAACCGAATTCAAACATTTAAACTAATTACGC--AATA
* * * *
1712616 T-GAATGTTATGCTTACAGGAACCGAATTCAAACATTTAAACTAATTATGCAGAATA
1 TGGAA-CTTCT-CTTACAGAAACCGAATTCAAACATTTAAACTAATTACGC--AATA
* * * * *
1712672 T-GAATGTTGTGCTTACAGAAATCGAATTTAAATATTTAAACTAATTA
1 TGGAA-CTTCT-CTTACAGAAACCGAATTCAAACATTTAAACTAATTA
1712719 ACTTTTTTTA
Statistics
Matches: 596, Mismatches: 59, Indels: 121
0.77 0.08 0.16
Matches are distributed among these distances:
42 109 0.18
43 12 0.02
44 8 0.01
45 5 0.01
46 15 0.03
51 3 0.01
52 14 0.02
53 52 0.09
54 12 0.02
55 46 0.08
56 320 0.54
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (53 bp):
TGGAACTTCTCTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAATA
Found at i:1712174 original size:98 final size:98
Alignment explanation
Indices: 1712005--1712201 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
1711995 CGCATTTTGG
*
1712005 AACTTCTTTTACAGAAACTGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCT
1 AACTTCTTTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCT
1712070 TACAGAAACCGAACTCAAACATTTAAACTAATT
66 TACAGAAACCGAACTCAAACATTTAAACTAATT
* *
1712103 AACTTCTTTTACAGAAACCGAATTCAAATATTTAAACTAATTACGTAGAATATGAATGTTGTGCT
1 AACTTCTTTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCT
* *
1712168 TACAGAAACCGAATTCAAATATTTAAACTAATT
66 TACAGAAACCGAACTCAAACATTTAAACTAATT
1712201 A
1 A
1712202 CGCAGAATAT
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (98 bp):
AACTTCTTTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCT
TACAGAAACCGAACTCAAACATTTAAACTAATT
Found at i:1712229 original size:154 final size:154
Alignment explanation
Indices: 1711952--1712816 Score: 834
Period size: 154 Copynumber: 5.6 Consensus size: 154
1711942 AAACATTTGG
* * * * * * *
1711952 AACTTCTTTTACAGAAATCGAATTCAAACATTTAAACTAATTACG--CATTTTGGAA-CTTCT-T
1 AACTTCTTTTACAGAAACCGAATTCAAACATTTAAACTAATTACGTAGAATAT-GAATGTTGTGC
*
1712013 TTACAGAAACTGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCTTACAGAAA
65 TTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCTTACAGAAA
*
1712078 CCGAACTCAAACATTTAAACTAATT
130 CCGAATTCAAACATTTAAACTAATT
*
1712103 AACTTCTTTTACAGAAACCGAATTCAAATATTTAAACTAATTACGTAGAATATGAATGTTGTGCT
1 AACTTCTTTTACAGAAACCGAATTCAAACATTTAAACTAATTACGTAGAATATGAATGTTGTGCT
* * *
1712168 TACAGAAACCGAATTCAAATATTTAAACTAATTACGCAGAATATTAATGTTGTGCTTACAGAAAT
66 TACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCTTACAGAAAC
*
1712233 CGAATTCAAATATTTAAACTAATT
131 CGAATTCAAACATTTAAACTAATT
* * *
1712257 AACTTCTTTTACAGAAACAGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTACT
1 AACTTCTTTTACAGAAACCGAATTCAAACATTTAAACTAATTACGTAGAATATGAATGTTGTGCT
* * * * **
1712322 TACAGAAATCGAATTCAAACATTTAAACTAATT----A-ACT-T--CT-TT-TACAGAAACAGAA
66 TACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGC--TTACAGAA
* ** * * ** *
1712377 TTCAAACATTTAAACTAATTACGCAGAATAT
129 -ACCGA-ATTCAAAC-ATTTAAAC-TAAT-T
* * * * *
1712408 GAATATTGTGCTTACAGAAACCGAATTCAAACATTTAAACTAA-T---T--AA-CT---T-CT-T
1 -AA-CTTCT-TTTACAGAAACCGAATTCAAACATTTAAACTAATTACGTAGAATATGAATGTTGT
*
1712461 --TTACAGAAACCGAATTCAAACATTTAAACTAA-TACGCTGAATATGAATGTTGTGCTTACAGA
63 GCTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCTTACAGA
*
1712523 AACCGAATTCAAACATTTAAATTAATT
128 AACCGAATTCAAACATTTAAACTAATT
* *
1712550 ACACAGAATATGAATGTTGTGCTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAAT
1 A-AC------T---T-CT-T--TTACAGAAACCGAATTCAAACATTTAAACTAATTACGTAGAAT
* * *
1712615 ATGAATGTTATGCTTACAGGAACCGAATTCAAACATTTAAACTAATTATGCAGAATATGAATGTT
52 ATGAATGTTGTGCTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTT
* * *
1712680 GTGCTTACAGAAATCGAATTTAAATATTTAAACTAATT
117 GTGCTTACAGAAACCGAATTCAAACATTTAAACTAATT
* * *
1712718 AACTTTTTTTACAGGAACTGAATTCAAACATTTAAACTAATTACGTAGAATATGAATGTTGTGCT
1 AACTTCTTTTACAGAAACCGAATTCAAACATTTAAACTAATTACGTAGAATATGAATGTTGTGCT
***
1712783 TACAGAAATTAAATTCAAACATTTAAACTAATTA
66 TACAGAAACCGAATTCAAACATTTAAACTAATTA
1712817 ACTTCTTTTA
Statistics
Matches: 583, Mismatches: 79, Indels: 101
0.76 0.10 0.13
Matches are distributed among these distances:
139 1 0.00
140 31 0.05
141 1 0.00
142 3 0.01
143 4 0.01
144 9 0.02
145 10 0.02
146 9 0.02
147 10 0.02
148 11 0.02
149 9 0.02
150 5 0.01
151 46 0.08
152 5 0.01
153 42 0.07
154 291 0.50
156 1 0.00
157 2 0.00
158 1 0.00
159 2 0.00
160 1 0.00
161 1 0.00
163 1 0.00
164 1 0.00
165 1 0.00
167 33 0.06
168 52 0.09
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (154 bp):
AACTTCTTTTACAGAAACCGAATTCAAACATTTAAACTAATTACGTAGAATATGAATGTTGTGCT
TACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCTTACAGAAAC
CGAATTCAAACATTTAAACTAATT
Found at i:1712269 original size:98 final size:98
Alignment explanation
Indices: 1712167--1712662 Score: 733
Period size: 98 Copynumber: 4.9 Consensus size: 98
1712157 AATGTTGTGC
* *
1712167 TTACAGAAACCGAATTCAAATATTTAAACTAATTACGCAGAATATTAATGTTGTGCTTACAGAAA
1 TTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCTTACAGAAA
* *
1712232 TCGAATTCAAATATTTAAACTAATTAACTTCTT
66 CCGAATTCAAACATTTAAACTAATTAACTTCTT
* *
1712265 TTACAGAAACAGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTACTTACAGAAA
1 TTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCTTACAGAAA
*
1712330 TCGAATTCAAACATTTAAACTAATTAACTTCTT
66 CCGAATTCAAACATTTAAACTAATTAACTTCTT
* *
1712363 TTACAGAAACAGAATTCAAACATTTAAACTAATTACGCAGAATATGAATATTGTGCTTACAGAAA
1 TTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCTTACAGAAA
1712428 CCGAATTCAAACATTTAAACTAATTAACTTCTT
66 CCGAATTCAAACATTTAAACTAATTAACTTCTT
*
1712461 TTACAGAAACCGAATTCAAACATTTAAACTAA-TACGCTGAATATGAATGTTGTGCTTACAGAAA
1 TTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCTTACAGAAA
* *
1712525 CCGAATTCAAACATTTAAATTAATTACACAGAATATGAATGTTGT
66 CCGAATTCAAACATTTAAACTAATTA-AC------T---T-CT-T
* *
1712570 GCTTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTATGCTTACAGG
1 --TTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCTTACAGA
1712635 AACCGAATTCAAACATTTAAACTAATTA
64 AACCGAATTCAAACATTTAAACTAATTA
1712663 TGCAGAATAT
Statistics
Matches: 366, Mismatches: 17, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
97 55 0.15
98 221 0.60
104 1 0.00
107 1 0.00
108 1 0.00
109 1 0.00
111 32 0.09
112 54 0.15
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (98 bp):
TTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCTTACAGAAA
CCGAATTCAAACATTTAAACTAATTAACTTCTT
Found at i:1712661 original size:112 final size:110
Alignment explanation
Indices: 1712461--1712816 Score: 468
Period size: 112 Copynumber: 3.3 Consensus size: 110
1712451 TTAACTTCTT
*
1712461 TTACAGAAACCGAATTCAAACATTTAAACTAA-TACGCTGAATATGAATGTTGTGCTTACAGAAA
1 TTACAGAAACCGAATTCAAACATTTAAACTAATTACGC-GAATATGAATGTT-TGCTTACAGGAA
* *
1712525 CCGAATTCAAACATTTAAATTAATTACACAGAATATGAATGTTGTGC
64 CCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGC
1712572 TTACAGAAACCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTATGCTTACAGGAA
1 TTACAGAAACCGAATTCAAACATTTAAACTAATTACGC-GAATATGAATGTT-TGCTTACAGGAA
*
1712637 CCGAATTCAAACATTTAAACTAATTATGCAGAATATGAATGTTGTGC
64 CCGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGC
* * * * *
1712684 TTACAGAAATCGAATTTAAATATTTAAACTAATT-----AA-CT---T-TTT--TTACAGGAACT
1 TTACAGAAACCGAATTCAAACATTTAAACTAATTACGCGAATATGAATGTTTGCTTACAGGAACC
*
1712737 GAATTCAAACATTTAAACTAATTACGTAGAATATGAATGTTGTGC
66 GAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGC
***
1712782 TTACAGAAATTAAATTCAAACATTTAAACTAATTA
1 TTACAGAAACCGAATTCAAACATTTAAACTAATTA
1712817 ACTTCTTTTA
Statistics
Matches: 226, Mismatches: 17, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
98 83 0.37
100 1 0.00
101 2 0.01
102 1 0.00
105 1 0.00
106 2 0.01
111 32 0.14
112 104 0.46
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (110 bp):
TTACAGAAACCGAATTCAAACATTTAAACTAATTACGCGAATATGAATGTTTGCTTACAGGAACC
GAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGC
Found at i:1712807 original size:98 final size:98
Alignment explanation
Indices: 1712628--1712859 Score: 347
Period size: 98 Copynumber: 2.4 Consensus size: 98
1712618 AATGTTATGC
* *
1712628 TTACAGGAACCGAATTCAAACATTTAAACTAATTATGCAGAATATGAATGTTGTGCTTACAGAAA
1 TTACAGGAACTGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCTTACAGAAA
* * * *
1712693 TCGAATTTAAATATTTAAACTAATTAACTTTTT
66 TCAAATTCAAACATTTAAACTAATTAACTTCTT
*
1712726 TTACAGGAACTGAATTCAAACATTTAAACTAATTACGTAGAATATGAATGTTGTGCTTACAGAAA
1 TTACAGGAACTGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCTTACAGAAA
*
1712791 TTAAATTCAAACATTTAAACTAATTAACTTCTT
66 TCAAATTCAAACATTTAAACTAATTAACTTCTT
** * * *
1712824 TTACAAAAATTTAATTCAAACATTTAAATTAATTAC
1 TTACAGGAACTGAATTCAAACATTTAAACTAATTAC
1712860 ATATTTTAAA
Statistics
Matches: 121, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 121 1.00
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (98 bp):
TTACAGGAACTGAATTCAAACATTTAAACTAATTACGCAGAATATGAATGTTGTGCTTACAGAAA
TCAAATTCAAACATTTAAACTAATTAACTTCTT
Found at i:1712959 original size:57 final size:53
Alignment explanation
Indices: 1712823--1712961 Score: 134
Period size: 53 Copynumber: 2.5 Consensus size: 53
1712813 ATTAACTTCT
** * * * * *
1712823 TTTACAAAAATTTAATTCAAACATTTAAATTAATTACATATTTTAAAATTTTT
1 TTTACAAAAATAAAATTCAAACATTTAAATTAATTACAAAATATAAAATTATA
* * *
1712876 TTTACAGAAATAAAATTTAAATATTTAAATTAATTACAAAAAAATATAAATATTATA
1 TTTACAAAAATAAAATTCAAACATTTAAATTAATTAC---AAAATATAAA-ATTATA
**
1712933 TTTACAAAAATCGAATTCAAACATTTAAA
1 TTTACAAAAATAAAATTCAAACATTTAAA
1712962 CTAACTAACC
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
53 32 0.48
56 7 0.10
57 28 0.42
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (53 bp):
TTTACAAAAATAAAATTCAAACATTTAAATTAATTACAAAATATAAAATTATA
Found at i:1713673 original size:2 final size:2
Alignment explanation
Indices: 1713666--1713690 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1713656 ATGAAAGACG
1713666 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1713691 TTTTTCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1716038 original size:2 final size:2
Alignment explanation
Indices: 1716033--1716060 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1716023 TTTAGTGTAA
1716033 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1716061 TTGAAAGTTT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1716213 original size:13 final size:13
Alignment explanation
Indices: 1716195--1716219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1716185 AAAATAAATT
1716195 ATTTTAAAATTTA
1 ATTTTAAAATTTA
1716208 ATTTTAAAATTT
1 ATTTTAAAATTT
1716220 TATGTAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTTAAAATTTA
Found at i:1717419 original size:2 final size:2
Alignment explanation
Indices: 1717412--1717450 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1717402 TATTTACCAT
1717412 TA TA TA TA TA 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 TA TA TA TA TA T
1717451 TATCTTCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1718894 original size:38 final size:40
Alignment explanation
Indices: 1718839--1718920 Score: 107
Period size: 38 Copynumber: 2.1 Consensus size: 40
1718829 AAATTATATT
* * *
1718839 TAAAATATAATATTTTAA-GTTTTAATTTAATTTTAATTAA
1 TAAAATATAATATTTTAATATTTTAATAT-ATTTTAAATAA
1718879 TAAAAT-TAATA-TTTAATATTTTAATATATTTTAAATAA
1 TAAAATATAATATTTTAATATTTTAATATATTTTAAATAA
1718917 TAAA
1 TAAA
1718921 TAAATTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 19 0.50
39 13 0.34
40 6 0.16
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (40 bp):
TAAAATATAATATTTTAATATTTTAATATATTTTAAATAA
Found at i:1720440 original size:2 final size:2
Alignment explanation
Indices: 1720433--1720484 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
1720423 AGAAAAGAAG
* *
1720433 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1720475 AT AT AT AT AT
1 AT AT AT AT AT
1720485 GCAAAAGCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1730125 original size:2 final size:2
Alignment explanation
Indices: 1730120--1730154 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1730110 AAAAAAAAAA
1730120 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1730155 AGCATGTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1730747 original size:23 final size:21
Alignment explanation
Indices: 1730712--1730753 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
1730702 ATTCAAATAA
1730712 TTTTTTTAATATTATTAATTAT
1 TTTTTTTAATATTA-TAATTAT
*
1730734 TTTTTTTACTTATTATAATT
1 TTTTTTTA-ATATTATAATT
1730754 TTAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTTTAATATTATAATTAT
Found at i:1733043 original size:17 final size:16
Alignment explanation
Indices: 1733021--1733055 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1733011 AATAATCGAT
1733021 TTCTTTTAAAAAATAAA
1 TTCTTTTAAAAAA-AAA
*
1733038 TTCTTTTACAAAAAAA
1 TTCTTTTAAAAAAAAA
1733054 TT
1 TT
1733056 GATGCTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (16 bp):
TTCTTTTAAAAAAAAA
Found at i:1733656 original size:20 final size:20
Alignment explanation
Indices: 1733607--1733657 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
1733597 ATTAAATAAT
1733607 AATTTAAATCAAATAAAATTA
1 AATTTAAAT-AAATAAAATTA
*
1733628 AATTATAAAT-AATAATATTTA
1 AATT-TAAATAAATAA-AATTA
1733649 AATTTAAAT
1 AATTTAAAT
1733658 CAAGTTAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 10 0.37
21 12 0.44
22 5 0.19
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTTAAATAAATAAAATTA
Found at i:1734201 original size:17 final size:16
Alignment explanation
Indices: 1734175--1734225 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
1734165 ATTATATTTT
1734175 TATT-TAATTTTAATA
1 TATTATAATTTTAATA
*
1734190 TATTAATAATTTATATTA
1 TATT-ATAATTT-TAATA
1734208 TA-TA-AATTTTAATA
1 TATTATAATTTTAATA
1734222 TATT
1 TATT
1734226 TATATTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 6 0.20
15 10 0.33
16 1 0.03
17 7 0.23
18 6 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTATAATTTTAATA
Found at i:1734241 original size:32 final size:31
Alignment explanation
Indices: 1734163--1734242 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 31
1734153 TATATTTAAA
*
1734163 ATATTATATTTTTAT-TTAATTTTAATATATT
1 ATATTAT-TTTTTATATAAATTTTAATATATT
*
1734194 A-ATAATTTATATTATATAAATTTTAATATATTT
1 ATATTATTT-T-TTATATAAATTTTAATATA-TT
1734227 ATATTATTTTTTATAT
1 ATATTATTTTTTATAT
1734243 TTTATTTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
29 2 0.05
30 5 0.12
31 5 0.12
32 19 0.46
33 4 0.10
34 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (31 bp):
ATATTATTTTTTATATAAATTTTAATATATT
Found at i:1734434 original size:4 final size:4
Alignment explanation
Indices: 1734419--1734453 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
1734409 TTTTTACATT
*
1734419 ATTA AATA ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
1734454 CGGGCTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:1736813 original size:18 final size:18
Alignment explanation
Indices: 1736790--1736835 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1736780 TAGTGTCTAA
1736790 TAATAAGAAAATTTTAA-T
1 TAATAA-AAAATTTTAATT
**
1736808 TAATAAATTATTTTAATT
1 TAATAAAAAATTTTAATT
1736826 TAATAAAAAA
1 TAATAAAAAA
1736836 AAGTAAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
TAATAAAAAATTTTAATT
Found at i:1736969 original size:63 final size:63
Alignment explanation
Indices: 1736887--1737008 Score: 190
Period size: 63 Copynumber: 1.9 Consensus size: 63
1736877 TTAATCAATG
* * * * *
1736887 CTATGGTCATCTTTTAAAATTATTTTTACTATGCACCCGTTATCAGTCGTTGAATTTAAATTA
1 CTATAGTCATCTTTTAAAATTAATTTTACTATACACCCATTATCAGCCGTTGAATTTAAATTA
*
1736950 CTATAGTCATCTTTTAAAATTAATTTTACTATACACTCATTATCAGCCGTTGAATTTAA
1 CTATAGTCATCTTTTAAAATTAATTTTACTATACACCCATTATCAGCCGTTGAATTTAA
1737009 GTTGATTATT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.43
Consensus pattern (63 bp):
CTATAGTCATCTTTTAAAATTAATTTTACTATACACCCATTATCAGCCGTTGAATTTAAATTA
Found at i:1737600 original size:32 final size:32
Alignment explanation
Indices: 1737559--1737625 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
1737549 TTGTTTTTGG
1737559 TTTTCCATTTTAGCAGATTAGTGTACCAAAGC
1 TTTTCCATTTTAGCAGATTAGTGTACCAAAGC
1737591 TTTTCCATTTTAGCAGATTAGTGTACCAAAGC
1 TTTTCCATTTTAGCAGATTAGTGTACCAAAGC
1737623 TTT
1 TTT
1737626 GAACTTTGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (32 bp):
TTTTCCATTTTAGCAGATTAGTGTACCAAAGC
Found at i:1738744 original size:17 final size:18
Alignment explanation
Indices: 1738709--1738746 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1738699 AATGAACTTT
* *
1738709 TTTTTTTGTTATTTATGC
1 TTTTTTTCTCATTTATGC
1738727 TTTTTTTCTCATTT-TGC
1 TTTTTTTCTCATTTATGC
1738744 TTT
1 TTT
1738747 CTTCTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.08, C:0.11, G:0.08, T:0.74
Consensus pattern (18 bp):
TTTTTTTCTCATTTATGC
Found at i:1739195 original size:85 final size:85
Alignment explanation
Indices: 1739051--1739230 Score: 315
Period size: 85 Copynumber: 2.1 Consensus size: 85
1739041 TTTACAGTGC
*
1739051 TGGTAGAAAAACAGTACTATATTTTTCAGTTTTAATCCATCATCTTTGCAAATTTAGTTTGTATG
1 TGGTAG-AAAACAGTACTATATTTTTCAGTTTTAATCCATCATCTTTGCAAATTTAGTTTGGATG
*
1739116 ATGTCTTAAATATGATTATAA
65 ATGTCTTAAATATGATGATAA
*
1739137 TGGTAGAAAACAGTACTATATTTTTCAGTTTTAGTCCATCATCTTTGCAAATTTAGTTTGGATGA
1 TGGTAGAAAACAGTACTATATTTTTCAGTTTTAATCCATCATCTTTGCAAATTTAGTTTGGATGA
1739202 TGTCTTAAATATGATGATAA
66 TGTCTTAAATATGATGATAA
*
1739222 TGGTTGAAA
1 TGGTAGAAA
1739231 GGGGATGGTG
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
85 84 0.93
86 6 0.07
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.42
Consensus pattern (85 bp):
TGGTAGAAAACAGTACTATATTTTTCAGTTTTAATCCATCATCTTTGCAAATTTAGTTTGGATGA
TGTCTTAAATATGATGATAA
Found at i:1742474 original size:13 final size:13
Alignment explanation
Indices: 1742458--1742486 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1742448 TGATGTATGA
1742458 AAAAGATGCTTTG
1 AAAAGATGCTTTG
1742471 AAAAGATGCTTTG
1 AAAAGATGCTTTG
1742484 AAA
1 AAA
1742487 CACTCCTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (13 bp):
AAAAGATGCTTTG
Found at i:1742659 original size:2 final size:2
Alignment explanation
Indices: 1742654--1742682 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1742644 TAACTCTAGA
1742654 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1742683 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1742687 original size:2 final size:2
Alignment explanation
Indices: 1742682--1742708 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1742672 ATATATATAT
1742682 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1742709 TAGTTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1743027 original size:2 final size:2
Alignment explanation
Indices: 1743020--1743045 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1743010 AGCCAGTAAA
1743020 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1743046 TTAGAGCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1745979 original size:25 final size:25
Alignment explanation
Indices: 1745933--1745980 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1745923 TATAACAATT
* *
1745933 TTAAAAAATATTTTAGACAAATTCG
1 TTAAAAAATATTTTAAAAAAATTCG
1745958 TTAAAAAAT-TTTATAAAAAAATT
1 TTAAAAAATATTT-TAAAAAAATT
1745981 GGTAAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (25 bp):
TTAAAAAATATTTTAAAAAAATTCG
Found at i:1747956 original size:17 final size:17
Alignment explanation
Indices: 1747934--1747967 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1747924 TTATTTTTAT
*
1747934 ATTTTATTTAAAAATTA
1 ATTTTATATAAAAATTA
*
1747951 ATTTTATATAAATATTA
1 ATTTTATATAAAAATTA
1747968 TAAAAATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTATATAAAAATTA
Found at i:1750032 original size:21 final size:21
Alignment explanation
Indices: 1750006--1750049 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1749996 ATAAAATGTA
*
1750006 TTTAAA-AAATACTTAATTTTT
1 TTTAAATAAATA-TCAATTTTT
*
1750027 TTTAAATAACTATCAATTTTT
1 TTTAAATAAATATCAATTTTT
1750048 TT
1 TT
1750050 AATAAGTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTAAATAAATATCAATTTTT
Found at i:1753118 original size:9 final size:9
Alignment explanation
Indices: 1753104--1753129 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1753094 CGAAGAGTAT
1753104 GAGGAAGAA
1 GAGGAAGAA
1753113 GAGGAAGAA
1 GAGGAAGAA
1753122 GAGGAAGA
1 GAGGAAGA
1753130 GGCTTAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (9 bp):
GAGGAAGAA
Found at i:1761721 original size:31 final size:31
Alignment explanation
Indices: 1761677--1761768 Score: 100
Period size: 31 Copynumber: 3.0 Consensus size: 31
1761667 ACTAATTGGA
1761677 ACAAAAA-TCACTATTTTTAATCGGTGGCACG
1 ACAAAAACT-ACTATTTTTAATCGGTGGCACG
** *
1761708 GTAAAAACTACTATTCTT-ATCCGGTGGCACG
1 ACAAAAACTACTATTTTTAAT-CGGTGGCACG
*
1761739 ACAAAAACTACT-TTTCTTAATTGGTGGCAC
1 ACAAAAACTACTATTT-TTAATCGGTGGCAC
1761769 AGTTTGAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
30 4 0.08
31 43 0.86
32 3 0.06
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (31 bp):
ACAAAAACTACTATTTTTAATCGGTGGCACG
Found at i:1770097 original size:5 final size:5
Alignment explanation
Indices: 1770057--1770095 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
1770047 TCAAACCTCA
1770057 AAAAC AAAAAC AAAAC AAAAC AAAAC AAAAC AAAA- AAAA
1 AAAAC -AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
1770096 AAGAGTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 24 0.73
6 5 0.15
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:1771515 original size:12 final size:12
Alignment explanation
Indices: 1771498--1771523 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1771488 AGAGAAACGG
1771498 AAGAAAAAAAAA
1 AAGAAAAAAAAA
1771510 AAGAAAAAAAAA
1 AAGAAAAAAAAA
1771522 AA
1 AA
1771524 AGCGAGTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:1771519 original size:13 final size:13
Alignment explanation
Indices: 1771501--1771525 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1771491 GAAACGGAAG
1771501 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
1771514 AAAAAAAAAAAG
1 AAAAAAAAAAAG
1771526 CGAGTTTCGT
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Found at i:1777474 original size:2 final size:2
Alignment explanation
Indices: 1777467--1777506 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1777457 TTCCGCTAAA
1777467 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1777507 GTAAAATGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1777899 original size:3 final size:3
Alignment explanation
Indices: 1777893--1777923 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1777883 ATAATAATAA
1777893 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1777924 TGTTGCCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1779319 original size:17 final size:17
Alignment explanation
Indices: 1779297--1779330 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1779287 TAGACTTGAT
1779297 AATTTTGAATACAATAC
1 AATTTTGAATACAATAC
1779314 AATTTTGAATACAATAC
1 AATTTTGAATACAATAC
1779331 GAAAATAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (17 bp):
AATTTTGAATACAATAC
Found at i:1784069 original size:2 final size:2
Alignment explanation
Indices: 1784062--1784093 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1784052 CTACTTAAAG
1784062 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1784094 TAATTAGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1785007 original size:32 final size:30
Alignment explanation
Indices: 1784952--1785012 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
1784942 TGGATGAAAG
*
1784952 AAAAAATTATATAAAAAATATTTTGAAAAT
1 AAAAAATTATATAAAAAATATTTTAAAAAT
1784982 AAAAAATTATTGATAAACAAA-ATTTTAAAAA
1 AAAAAATTA-T-ATAAA-AAATATTTTAAAAA
1785013 ATATTCGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 9 0.33
31 1 0.04
32 14 0.52
33 3 0.11
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (30 bp):
AAAAAATTATATAAAAAATATTTTAAAAAT
Found at i:1786109 original size:20 final size:20
Alignment explanation
Indices: 1786084--1786134 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
1786074 ATAAAATAAT
*
1786084 TATTTT-TTATAATTTAAATC
1 TATTTTATT-TAATTAAAATC
1786104 TATTTTATTTAATTAAAA--
1 TATTTTATTTAATTAAAATC
1786122 T-TTTTATTTAATT
1 TATTTTATTTAATT
1786135 TATAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 12 0.41
18 1 0.03
20 14 0.48
21 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTTTATTTAATTAAAATC
Found at i:1790337 original size:14 final size:14
Alignment explanation
Indices: 1790304--1790338 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
1790294 TAATTTCTAG
*
1790304 ATATTTATAAATAT
1 ATATTTAAAAATAT
1790318 -TATTTAAAAATAT
1 ATATTTAAAAATAT
1790331 ATATTTAA
1 ATATTTAA
1790339 TGTATATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATTTAAAAATAT
Found at i:1791653 original size:5 final size:5
Alignment explanation
Indices: 1791643--1791676 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
1791633 TTTTAAAACA
1791643 TAATT TAATT TAATT TAATT TAA-T TAATT TAATT
1 TAATT TAATT TAATT TAATT TAATT TAATT TAATT
1791677 GACAGTTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TAATT
Found at i:1791671 original size:9 final size:9
Alignment explanation
Indices: 1791647--1791676 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
1791637 AAAACATAAT
1791647 TTAATTTAA
1 TTAATTTAA
1791656 TTTAATTTAA
1 -TTAATTTAA
1791666 TTAATTTAA
1 TTAATTTAA
1791675 TT
1 TT
1791677 GACAGTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTAATTTAA
Found at i:1796541 original size:15 final size:15
Alignment explanation
Indices: 1796521--1796557 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1796511 TTTTTTTTGT
1796521 AATATTTATATTTAA
1 AATATTTATATTTAA
*
1796536 AATATTTGTATTTAA
1 AATATTTATATTTAA
*
1796551 TATATTT
1 AATATTT
1796558 TTAAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
AATATTTATATTTAA
Found at i:1798458 original size:21 final size:21
Alignment explanation
Indices: 1798419--1798458 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1798409 TATAATAAAT
* * *
1798419 AATTTTAATATATAGATTTTA
1 AATTTTAAAATAAAAATTTTA
1798440 AATTTTAAAATAAAAATTT
1 AATTTTAAAATAAAAATTT
1798459 GTATTCATCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
AATTTTAAAATAAAAATTTTA
Found at i:1808017 original size:22 final size:22
Alignment explanation
Indices: 1807975--1808051 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
1807965 TGTTTTCACT
*
1807975 TTTTTAATAAAAATTAAATTTAA
1 TTTTTAATAAAAATT-TATTTAA
* *
1807998 TTTTTATTAAAAATTTATTTCA
1 TTTTTAATAAAAATTTATTTAA
* *
1808020 TCTTTAATAATAAAATT-TTTAA
1 TTTTTAATAA-AAATTTATTTAA
*
1808042 ATTTT-ATAAA
1 TTTTTAATAAA
1808052 TAAAATAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
20 1 0.02
21 4 0.09
22 20 0.45
23 19 0.43
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTTAATAAAAATTTATTTAA
Found at i:1808447 original size:14 final size:15
Alignment explanation
Indices: 1808420--1808452 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1808410 ATAAAATAAT
*
1808420 ATAAAATATATATTC
1 ATAAAATATATATTA
1808435 ATAAAAT-TATATTA
1 ATAAAATATATATTA
1808449 ATAA
1 ATAA
1808453 TTTAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAAAATATATATTA
Found at i:1808909 original size:16 final size:16
Alignment explanation
Indices: 1808890--1808971 Score: 75
Period size: 16 Copynumber: 5.2 Consensus size: 16
1808880 ATGATAAAAA
1808890 TATATAATATAAAATT
1 TATATAATATAAAATT
1808906 TATAT-A-ATAAAATT
1 TATATAATATAAAATT
*
1808920 TATATAAATTTAAAATAT
1 TATAT-AATATAAAAT-T
* *
1808938 T-TAAAATAT-AATTAT
1 TATATAATATAAAAT-T
1808953 TATATAATAT-AAATT
1 TATATAATATAAAATT
1808968 TATA
1 TATA
1808972 AATTAATTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
14 13 0.24
15 12 0.22
16 20 0.36
17 8 0.15
18 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATATAATATAAAATT
Found at i:1809317 original size:32 final size:30
Alignment explanation
Indices: 1809260--1809321 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 30
1809250 TCAATGTTGA
1809260 ATTTAAATTATTATTAAATAAATAAATTTT
1 ATTTAAATTATTATTAAATAAATAAATTTT
*
1809290 ATTTAAATTTAATT-TTAAAATATATAAATTTT
1 ATTTAAA-TT-ATTATT-AAATAAATAAATTTT
1809322 TAATATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 7 0.25
31 4 0.14
32 17 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
ATTTAAATTATTATTAAATAAATAAATTTT
Found at i:1813305 original size:26 final size:26
Alignment explanation
Indices: 1813276--1813336 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
1813266 TGTCTTATAT
**
1813276 ATATATATATGTATATACTTATAGAA
1 ATATATATATGTATATAAGTATAGAA
* * * *
1813302 ATATTTATATGTCTATAAGTATATAC
1 ATATATATATGTATATAAGTATAGAA
1813328 ATATATATA
1 ATATATATA
1813337 CAGATCTATA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (26 bp):
ATATATATATGTATATAAGTATAGAA
Found at i:1821219 original size:20 final size:20
Alignment explanation
Indices: 1821194--1821232 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1821184 GATGCATTGG
1821194 ATTAATTTTATT-TATAAATT
1 ATTAA-TTTATTATATAAATT
1821214 ATTAATTTATTATATAAAT
1 ATTAATTTATTATATAAAT
1821233 ACGGATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTAATTTATTATATAAATT
Found at i:1822096 original size:2 final size:2
Alignment explanation
Indices: 1822084--1822143 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
1822074 TAAATTTTGC
* *
1822084 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1822126 TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
1822144 CATGTATATG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1822151 original size:8 final size:8
Alignment explanation
Indices: 1822089--1822152 Score: 69
Period size: 8 Copynumber: 8.2 Consensus size: 8
1822079 TTTGCTATAC
*
1822089 ATATATAT
1 ATATGTAT
*
1822097 ATATATAT
1 ATATGTAT
*
1822105 ATATATAT
1 ATATGTAT
1822113 ATATGTAT
1 ATATGTAT
*
1822121 ATATATAT
1 ATATGTAT
1822129 ATATGTAT
1 ATATGTAT
1822137 ATA--TAT
1 ATATGTAT
*
1822143 ACATGTAT
1 ATATGTAT
1822151 AT
1 AT
1822153 GCATATGTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
6 5 0.10
8 44 0.90
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (8 bp):
ATATGTAT
Found at i:1828788 original size:23 final size:24
Alignment explanation
Indices: 1828762--1828812 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 24
1828752 ATCAAACAAA
1828762 GTTAAAAATA-CATGGGCTGATAT
1 GTTAAAAATAGCATGGGCTGATAT
1828785 GTT---AATAGCATGGGCTGATAT
1 GTTAAAAATAGCATGGGCTGATAT
*
1828806 CTTAAAA
1 GTTAAAA
1828813 TAATCATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
20 4 0.17
21 15 0.65
23 3 0.13
24 1 0.04
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (24 bp):
GTTAAAAATAGCATGGGCTGATAT
Found at i:1828797 original size:21 final size:20
Alignment explanation
Indices: 1828768--1828810 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
1828758 CAAAGTTAAA
*
1828768 AATACATGGGCTGATATGTT
1 AATACATGGGCTGATATCTT
1828788 AATAGCATGGGCTGATATCTT
1 AATA-CATGGGCTGATATCTT
1828809 AA
1 AA
1828811 AATAATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (20 bp):
AATACATGGGCTGATATCTT
Found at i:1829021 original size:11 final size:13
Alignment explanation
Indices: 1828993--1829060 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 13
1828983 TCGATAATTT
1828993 TAAATATAATATA
1 TAAATATAATATA
*
1829006 AAAATATAA-A-A
1 TAAATATAATATA
1829017 TAAATATAATACATACGA
1 TAAATATAAT--AT---A
1829035 TAAATATAATATGA
1 TAAATATAATAT-A
*
1829049 TTAATATAATAT
1 TAAATATAATAT
1829061 TTTATTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
11 9 0.20
12 1 0.02
13 8 0.18
14 14 0.31
16 2 0.04
18 11 0.24
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (13 bp):
TAAATATAATATA
Found at i:1832540 original size:45 final size:45
Alignment explanation
Indices: 1832476--1832565 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
1832466 TTTACAATCA
*
1832476 ACAGATTCACATGTTTTTAGATAAGTTGGCGATGCTTGATTTCAT
1 ACAGATTCACATGTTTTTAGATAAGTTAGCGATGCTTGATTTCAT
1832521 ACAGATTCACATGTTTTTAGATAAGTTAGCGATGCTTGATTTCAT
1 ACAGATTCACATGTTTTTAGATAAGTTAGCGATGCTTGATTTCAT
1832566 GCCAAAACGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (45 bp):
ACAGATTCACATGTTTTTAGATAAGTTAGCGATGCTTGATTTCAT
Found at i:1841051 original size:26 final size:26
Alignment explanation
Indices: 1840993--1841053 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
1840983 ACATTATATA
1840993 ATTATATAATATATTAAAAAATAATT
1 ATTATATAATATATTAAAAAATAATT
**
1841019 AAAATATAATATATTAAAAAAATAATT
1 ATTATATAATATATT-AAAAAATAATT
1841046 -TTATATAA
1 ATTATATAA
1841054 ACTCTATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
ATTATATAATATATTAAAAAATAATT
Found at i:1841963 original size:20 final size:18
Alignment explanation
Indices: 1841940--1841988 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 18
1841930 TAATTTACAC
1841940 AAAAAAAAATTACATAAAAT
1 AAAAAAAAA--ACATAAAAT
1841960 AAAATAAAGAAACATAAAAT
1 AAAA-AAA-AAACATAAAAT
1841980 AATAAAAAA
1 AA-AAAAAA
1841989 GAAAATAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 1 0.04
20 18 0.69
21 5 0.19
22 2 0.08
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (18 bp):
AAAAAAAAAACATAAAAT
Found at i:1841976 original size:15 final size:15
Alignment explanation
Indices: 1841955--1841999 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
1841945 AAAATTACAT
1841955 AAAATAAAATAAAGA
1 AAAATAAAATAAAGA
*
1841970 AACATAAAATAATA-A
1 AAAATAAAATAA-AGA
*
1841985 AAAAGAAAATAAAGA
1 AAAATAAAATAAAGA
1842000 CAACCCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAATAAAATAAAGA
Found at i:1841996 original size:20 final size:20
Alignment explanation
Indices: 1841951--1841997 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1841941 AAAAAAAATT
*
1841951 ACATAAAATAAAATAAAGAA
1 ACATAAAATAAAAAAAAGAA
1841971 ACATAAAATAATAAAAAAGAA
1 ACATAAAATAA-AAAAAAGAA
1841992 A-ATAAA
1 ACATAAA
1841998 GACAACCCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (20 bp):
ACATAAAATAAAAAAAAGAA
Found at i:1862192 original size:19 final size:17
Alignment explanation
Indices: 1862144--1862197 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 17
1862134 TTATATAAAA
* *
1862144 TAAATTATTTTTTATATA
1 TAAATT-TTTATTATATT
1862162 TAAATTTTTATTATATT
1 TAAATTTTTATTATATT
1862179 TAAATATTTATATTATATT
1 TAAAT-TTT-TATTATATT
1862198 ATATTTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 14 0.44
18 9 0.28
19 9 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TAAATTTTTATTATATT
Found at i:1862197 original size:24 final size:22
Alignment explanation
Indices: 1862166--1862220 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 22
1862156 TATATATAAA
1862166 TTTT-TATTATATTTAAATATT
1 TTTTATATTATATTTAAATATT
*
1862187 TATATTATATTATATTTAATTATT
1 T-T-TTATATTATATTTAAATATT
1862211 TTTTATATTA
1 TTTTATATTA
1862221 GATGATTGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 1 0.03
22 9 0.30
23 3 0.10
24 17 0.57
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTATATTATATTTAAATATT
Found at i:1862218 original size:17 final size:17
Alignment explanation
Indices: 1862146--1862219 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 17
1862136 ATATAAAATA
*
1862146 AATTATTTTTTATATATA
1 AATTATTTTTTATAT-TT
*
1862164 AATT-TTTATTATATTT
1 AATTATTTTTTATATTT
1862180 AAATATTTATATTATATTATATTT
1 --A-A-TTAT-TT-T-TTATATTT
1862204 AATTATTTTTTATATT
1 AATTATTTTTTATATT
1862220 AGATGATTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 17
0.69 0.05 0.26
Matches are distributed among these distances:
16 1 0.02
17 16 0.36
18 6 0.13
19 3 0.07
20 6 0.13
21 2 0.04
22 3 0.07
24 8 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTATTTTTTATATTT
Found at i:1864155 original size:2 final size:2
Alignment explanation
Indices: 1864148--1864179 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1864138 TGCAACATCA
1864148 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1864180 TTGAGCATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1865170 original size:20 final size:20
Alignment explanation
Indices: 1865145--1865201 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
1865135 TATAAATTTT
1865145 TATTATAATTATATTTAAAA
1 TATTATAATTATATTTAAAA
*
1865165 TATTATAATTTATATTATATAA
1 TATTATAA-TTATATT-TAAAA
*
1865187 T-TTTTAA-TATATTTA
1 TATTATAATTATATTTA
1865202 TATAGTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 2 0.06
19 6 0.18
20 8 0.24
21 12 0.36
22 5 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTATAATTATATTTAAAA
Found at i:1865181 original size:12 final size:12
Alignment explanation
Indices: 1865139--1865250 Score: 51
Period size: 11 Copynumber: 9.5 Consensus size: 12
1865129 TATTCATATA
*
1865139 AATTTTTATTAT
1 AATTTATATTAT
1865151 AA-TTATATT-T
1 AATTTATATTAT
*
1865161 AA--AATATTAT
1 AATTTATATTAT
1865171 AATTTATATTATAT
1 AATTTATA-T-TAT
* *
1865185 AATTTTTAATAT
1 AATTTATATTAT
1865197 -ATTTATA-TAGTT
1 AATTTATATTA--T
* *
1865209 ATTTTATATTCT
1 AATTTATATTAT
1865221 -ATTATATATTAT
1 AATT-TATATTAT
*
1865233 ATAATTATATTAT
1 A-ATTTATATTAT
1865246 -ATTTA
1 AATTTA
1865251 AAATTCTTTG
Statistics
Matches: 76, Mismatches: 12, Indels: 25
0.67 0.11 0.22
Matches are distributed among these distances:
9 5 0.07
10 8 0.11
11 18 0.24
12 17 0.22
13 15 0.20
14 13 0.17
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (12 bp):
AATTTATATTAT
Found at i:1865245 original size:20 final size:20
Alignment explanation
Indices: 1865148--1865247 Score: 71
Period size: 20 Copynumber: 4.8 Consensus size: 20
1865138 AAATTTTTAT
*
1865148 TATAATTATATTTAAAATATTA
1 TATAATTATA-TT-ATATATTA
*
1865170 TA-ATTTATATTATATAATT-
1 TATAATTATATTATAT-ATTA
*
1865189 TTTAA-TATATTTATATAGTTA
1 TATAATTATA-TTATATA-TTA
* *
1865210 TTTTATATTCTATTATATATTA
1 -TATA-ATTATATTATATATTA
1865232 TATAATTATATTATAT
1 TATAATTATATTATAT
1865248 TTAAAATTCT
Statistics
Matches: 63, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
19 9 0.14
20 25 0.40
21 9 0.14
22 9 0.14
23 8 0.13
24 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (20 bp):
TATAATTATATTATATATTA
Found at i:1868943 original size:2 final size:2
Alignment explanation
Indices: 1868938--1868988 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1868928 GAGCGCGCGC
1868938 GA GA GA GA GA GA GA 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 GA GA GA GA GA GA GA
1868980 GA GA GA GA G
1 GA GA GA GA G
1868989 TTATCAACCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1870953 original size:2 final size:2
Alignment explanation
Indices: 1870948--1870978 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1870938 GTACAAAAAA
*
1870948 AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1870979 TGACTGATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1876153 original size:14 final size:15
Alignment explanation
Indices: 1876132--1876192 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
1876122 TTATACATTG
*
1876132 TAATATTTTTATTAA
1 TAATATTTTAATTAA
1876147 T-ATATTTTAATATAA
1 TAATATTTTAAT-TAA
*
1876162 TAATATTATT-ATAAA
1 TAATATT-TTAATTAA
*
1876177 TAATATATTAATTAA
1 TAATATTTTAATTAA
1876192 T
1 T
1876193 TTAAAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 11 0.29
15 18 0.47
16 7 0.18
17 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATATTTTAATTAA
Found at i:1876166 original size:30 final size:30
Alignment explanation
Indices: 1876132--1876192 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
1876122 TTATACATTG
* * *
1876132 TAATATTTTTATTAAT-ATATTTTAATATAA
1 TAATATTATTATAAATAATATATTAAT-TAA
1876162 TAATATTATTATAAATAATATATTAATTAA
1 TAATATTATTATAAATAATATATTAATTAA
1876192 T
1 T
1876193 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TAATATTATTATAAATAATATATTAATTAA
Found at i:1882055 original size:20 final size:21
Alignment explanation
Indices: 1882006--1882058 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
1881996 GTTTGATTGG
*
1882006 ATAAA-TATTTTATTTTAACTT
1 ATAAATTA-TTTATTTTAAATT
*
1882027 ATTAATTATTTATTTTAAATT
1 ATAAATTATTTATTTTAAATT
1882048 -TAAATTATTTA
1 ATAAATTATTTA
1882059 AATAATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.36
21 16 0.57
22 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
ATAAATTATTTATTTTAAATT
Found at i:1882077 original size:32 final size:31
Alignment explanation
Indices: 1882041--1882127 Score: 81
Period size: 33 Copynumber: 2.8 Consensus size: 31
1882031 ATTATTTATT
*
1882041 TTAAATTTAAATTATTTAAATAATAATTTAAA
1 TTAAATTTAAATTATTTAAATAATAATAT-AA
* * * *
1882073 TTAAATTTTAAATTGTTCAAGTAA-AATATAG
1 TTAAA-TTTAAATTATTTAAATAATAATATAA
*
1882104 TAAAATTTAAA-TATTTAAA-AATAA
1 TTAAATTTAAATTATTTAAATAATAA
1882128 AATTTAATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
28 2 0.05
29 7 0.16
30 6 0.14
31 5 0.11
32 9 0.20
33 15 0.34
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (31 bp):
TTAAATTTAAATTATTTAAATAATAATATAA
Found at i:1885872 original size:16 final size:16
Alignment explanation
Indices: 1885851--1885881 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1885841 CAAAAGAAAC
1885851 ATTTTTAATTAATTAT
1 ATTTTTAATTAATTAT
*
1885867 ATTTTTATTTAATTA
1 ATTTTTAATTAATTA
1885882 AATATCGCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTTAATTAATTAT
Found at i:1886320 original size:17 final size:18
Alignment explanation
Indices: 1886286--1886322 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
1886276 ATATTTTAAA
1886286 ATTAATATAATAAAAATT
1 ATTAATATAATAAAAATT
*
1886304 ATTAATAT-ATTAAAATT
1 ATTAATATAATAAAAATT
1886321 AT
1 AT
1886323 ATTTATGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTAATATAATAAAAATT
Found at i:1886781 original size:2 final size:2
Alignment explanation
Indices: 1886776--1886809 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1886766 AACATATATA
*
1886776 TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1886810 AGAGAGAGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:1887647 original size:61 final size:61
Alignment explanation
Indices: 1887572--1887690 Score: 202
Period size: 61 Copynumber: 2.0 Consensus size: 61
1887562 TATGCTCACA
* *
1887572 TTTTGAGATAATTTTTGGATTTTCTGCATCATACTCTGCAGAAAAGAACGGAAAAAAAAGG
1 TTTTGAGATAATTTTTGGATATTCTGCATCATACTCTGCAGAAAAGAACCGAAAAAAAAGG
* *
1887633 TTTTGAGATAATTTTTGGATATTCTGCATCCTACTCTGCAGGAAAGAACCGAAAAAAA
1 TTTTGAGATAATTTTTGGATATTCTGCATCATACTCTGCAGAAAAGAACCGAAAAAAA
1887691 GGGTCTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.31
Consensus pattern (61 bp):
TTTTGAGATAATTTTTGGATATTCTGCATCATACTCTGCAGAAAAGAACCGAAAAAAAAGG
Found at i:1887844 original size:3 final size:3
Alignment explanation
Indices: 1887830--1887862 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1887820 GGGACAAATA
*
1887830 TCC TCA TCC TCC TCC TCC TCC TCC TCC TCC TCC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
1887863 GCCGCCTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.03, C:0.64, G:0.00, T:0.33
Consensus pattern (3 bp):
TCC
Found at i:1888373 original size:46 final size:46
Alignment explanation
Indices: 1888306--1888399 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
1888296 GATAACAAAA
*
1888306 ATGCATTCAAGATGATAAGCAATTAGCTCAACATAGTTACCTTTGG
1 ATGCATTCAAGATGAGAAGCAATTAGCTCAACATAGTTACCTTTGG
* *
1888352 ATGCATTCAAGATGAGAAGCAATTAGTTCAACTTAGTTACCTTTGG
1 ATGCATTCAAGATGAGAAGCAATTAGCTCAACATAGTTACCTTTGG
1888398 AT
1 AT
1888400 AAGGATTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (46 bp):
ATGCATTCAAGATGAGAAGCAATTAGCTCAACATAGTTACCTTTGG
Found at i:1888603 original size:36 final size:36
Alignment explanation
Indices: 1888541--1888623 Score: 123
Period size: 36 Copynumber: 2.3 Consensus size: 36
1888531 GCAGAAACAA
*
1888541 TCATGAACAAC-TAGTAATGGTTATCAGATCATGAC
1 TCATGAACAACTTAGTAATGGTGATCAGATCATGAC
* *
1888576 TCATGAACAACTTTGTAATGGTGATCAGATCATGAT
1 TCATGAACAACTTAGTAATGGTGATCAGATCATGAC
*
1888612 TCATGAGCAACT
1 TCATGAACAACT
1888624 CAGCAAGGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
35 11 0.26
36 32 0.74
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (36 bp):
TCATGAACAACTTAGTAATGGTGATCAGATCATGAC
Found at i:1890655 original size:18 final size:18
Alignment explanation
Indices: 1890634--1890668 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1890624 AGATATTTTA
1890634 TATAAATTTTAATATATT
1 TATAAATTTTAATATATT
* *
1890652 TATAATTTTTATTATAT
1 TATAAATTTTAATATAT
1890669 AAATAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATAAATTTTAATATATT
Found at i:1890667 original size:32 final size:33
Alignment explanation
Indices: 1890604--1890733 Score: 95
Period size: 32 Copynumber: 3.9 Consensus size: 33
1890594 TATATTTTTT
* *
1890604 ATTTT-ATATAATTATATATAAGATATTTTATATAA
1 ATTTTAATATATTTATATATTA-ATA--TTATATAA
**
1890639 ATTTTAATATATTTATA-ATTTTTATTATATAA
1 ATTTTAATATATTTATATATTAATATTATATAA
** * *
1890671 ATAATAAAATATTTATATATTAATATTATATTAT
1 ATTTTAATATATTTATATATTAATATTATA-TAA
* * *
1890705 ATTTTATATATAATTACAT-TTAACATTAT
1 ATTTTA-ATATATTTATATATTAATATTAT
1890734 CACATCTAAA
Statistics
Matches: 75, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
32 22 0.29
33 10 0.13
34 17 0.23
35 16 0.21
36 10 0.13
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.53
Consensus pattern (33 bp):
ATTTTAATATATTTATATATTAATATTATATAA
Found at i:1896378 original size:16 final size:17
Alignment explanation
Indices: 1896339--1896378 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
1896329 AAAAAATAAA
1896339 AAATATATAAATATTAT
1 AAATATATAAATATTAT
* *
1896356 AATTATAT-AATATTTT
1 AAATATATAAATATTAT
1896372 AAATATA
1 AAATATA
1896379 ATTGTAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATATATAAATATTAT
Found at i:1898020 original size:29 final size:29
Alignment explanation
Indices: 1897987--1898069 Score: 72
Period size: 29 Copynumber: 3.0 Consensus size: 29
1897977 GATATCATGT
1897987 AAAATAAAAATAATTTTATTATATATTTA
1 AAAATAAAAATAATTTTATTATATATTTA
*
1898016 AAAAT----ATAA-TTTATT-TAT-TTAA
1 AAAATAAAAATAATTTTATTATATATTTA
1898038 AAAATAATTAATATAATTTTATTAATATATTT
1 AAAATAA--AA-ATAATTTTATT-ATATATTT
1898070 TATTATCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 18
0.67 0.03 0.30
Matches are distributed among these distances:
22 8 0.20
23 3 0.07
24 6 0.15
25 4 0.10
29 9 0.22
30 6 0.15
32 3 0.07
33 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AAAATAAAAATAATTTTATTATATATTTA
Found at i:1898021 original size:23 final size:21
Alignment explanation
Indices: 1897991--1898046 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 21
1897981 TCATGTAAAA
1897991 TAAAAATAATTTTATTATATATT
1 TAAAAATAATTTTATT-TAT-TT
*
1898014 TAAAAATATAATTTATTTATTT
1 TAAAAATA-ATTTTATTTATTT
*
1898036 AAAAAATAATT
1 TAAAAATAATT
1898047 AATATAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 2 0.07
22 9 0.31
23 11 0.38
24 7 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAAAAATAATTTTATTTATTT
Found at i:1898044 original size:20 final size:21
Alignment explanation
Indices: 1898005--1898052 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
1897995 AATAATTTTA
1898005 TTATATATTTAAAAATATAAT
1 TTATATATTTAAAAATATAAT
*
1898026 TTATTTATTTAAAAA-ATAAT
1 TTATATATTTAAAAATATAAT
*
1898046 TAATATA
1 TTATATA
1898053 ATTTTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATATATTTAAAAATATAAT
Found at i:1898056 original size:25 final size:24
Alignment explanation
Indices: 1897991--1898056 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 24
1897981 TCATGTAAAA
* *
1897991 TAAAAATAATT-TTATTATATATT
1 TAAAAATAATTAATATTATTTATT
1898014 TAAAAAT-A-TAAT-TTATTTATT
1 TAAAAATAATTAATATTATTTATT
*
1898035 TAAAAAATAATTAATATAATTT
1 T-AAAAATAATTAATATTATTT
1898057 TATTAATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
21 10 0.29
22 8 0.23
23 8 0.23
24 4 0.11
25 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAAAAATAATTAATATTATTTATT
Found at i:1898071 original size:13 final size:14
Alignment explanation
Indices: 1898044--1898074 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
1898034 TTAAAAAATA
1898044 ATTAATATAATTTT
1 ATTAATATAATTTT
1898058 ATTAATAT-ATTTT
1 ATTAATATAATTTT
1898071 ATTA
1 ATTA
1898075 TCAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTAATATAATTTT
Found at i:1898867 original size:14 final size:15
Alignment explanation
Indices: 1898845--1898873 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1898835 TGGATGTTTG
1898845 TTTTGTTTTTTTTTC
1 TTTTGTTTTTTTTTC
1898860 TTTT-TTTTTTTTTC
1 TTTTGTTTTTTTTTC
1898874 AGAGCAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (15 bp):
TTTTGTTTTTTTTTC
Found at i:1900265 original size:18 final size:18
Alignment explanation
Indices: 1900244--1900288 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
1900234 ATGTGTATTA
1900244 AAAATAATAATATATTTT
1 AAAATAATAATATATTTT
* *
1900262 AAAATTAT-ATTTATTTT
1 AAAATAATAATATATTTT
1900279 -AAATAATAAT
1 AAAATAATAAT
1900289 TAAAAATTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 6 0.26
17 10 0.43
18 7 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAATAATAATATATTTT
Found at i:1900265 original size:19 final size:18
Alignment explanation
Indices: 1900241--1900288 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
1900231 TATATGTGTA
1900241 TTAAAAATAATAATATATT
1 TTAAAAATAAT-ATATATT
* *
1900260 TT-AAAATTATATTTATT
1 TTAAAAATAATATATATT
1900277 TTAAATAATAAT
1 TTAAA-AATAAT
1900289 TAAAAATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 8 0.33
18 9 0.38
19 7 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTAAAAATAATATATATT
Found at i:1900276 original size:17 final size:17
Alignment explanation
Indices: 1900224--1900281 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
1900214 TTTAAAATGA
1900224 TTAAAATTATATGTGTA-T
1 TTAAAATTATAT-T-TATT
* * *
1900242 TAAAAATAATAATATATT
1 TTAAAATTAT-ATTTATT
1900260 TTAAAATTATATTTATT
1 TTAAAATTATATTTATT
1900277 TTAAA
1 TTAAA
1900282 TAATAATTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
17 13 0.41
18 17 0.53
19 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TTAAAATTATATTTATT
Found at i:1913313 original size:2 final size:2
Alignment explanation
Indices: 1913308--1913337 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1913298 GTGTGTGTGT
*
1913308 GA GA GA GA CA 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 GA
1913338 TAAACGAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1917087 original size:15 final size:15
Alignment explanation
Indices: 1917067--1917095 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1917057 GTACTTCCTC
1917067 TTCTTTTTTTTTTTT
1 TTCTTTTTTTTTTTT
1917082 TTCTTTTTTTTTTT
1 TTCTTTTTTTTTTT
1917096 AGCTTTGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (15 bp):
TTCTTTTTTTTTTTT
Found at i:1922073 original size:2 final size:2
Alignment explanation
Indices: 1922066--1922156 Score: 83
Period size: 2 Copynumber: 45.5 Consensus size: 2
1922056 ACATTCATCT
* * * *
1922066 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TT TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
1922108 TG TT TG TA TG TG TG TG TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1922150 TA TA TA T
1 TA TA TA T
1922157 TCTGGTTTTA
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1930932 original size:18 final size:18
Alignment explanation
Indices: 1930911--1930945 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1930901 TAAGCCAAAG
*
1930911 AAAAAAACAAACAGAAAA
1 AAAAAAAAAAACAGAAAA
*
1930929 AAAAAAAAAAAGAGAAA
1 AAAAAAAAAAACAGAAA
1930946 GCGAATAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.86, C:0.06, G:0.09, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAACAGAAAA
Found at i:1932050 original size:21 final size:21
Alignment explanation
Indices: 1932030--1932083 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
1932020 ATTTTGAATA
1932030 AAATAAA-ATTATAAATAAAT
1 AAATAAATATTATAAATAAAT
*
1932050 AAATAAATATTTTAAACGT-AAT
1 AAATAAATATTATAAA--TAAAT
1932072 AAATTAAATATT
1 AAA-TAAATATT
1932084 TTCGCTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 7 0.24
21 7 0.24
22 6 0.21
23 9 0.31
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATAAATATTATAAATAAAT
Found at i:1933855 original size:2 final size:2
Alignment explanation
Indices: 1933848--1933872 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1933838 ACAGCAGTTT
1933848 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 T
1933873 ATACACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1933880 original size:2 final size:2
Alignment explanation
Indices: 1933875--1933909 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
1933865 CTCTCTCTAT
* *
1933875 AC AC AC AC AC GC AC AT 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 AC AC AC A
1933910 AAACACATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.46, G:0.03, T:0.03
Consensus pattern (2 bp):
AC
Done.