Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008185.1 Hibiscus syriacus cultivar Beakdansim tig00110788_pilon, whole genome shotgun sequence
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: 3563405
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 16
Found at i:1671789 original size:18 final size:17
Alignment explanation
Indices: 1671735--1671783 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1671725 TTGGACTCCT
* *
1671735 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
1671753 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
1671771 AGTGCATTCGATG
1 AGTGCA-TCGATG
1671784 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:1671932 original size:64 final size:62
Alignment explanation
Indices: 1671752--1671943 Score: 217
Period size: 64 Copynumber: 3.0 Consensus size: 62
1671742 CGGTGCACTA
* *
1671752 AGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAAAAATAGCCTGGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT--CATGGTGCATCGATGCATGG
*** * *
1671816 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAATAT-TTCGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAA-ATCAT-G-GTGCATCGATGCATGG
* *
1671880 AGAGTGCATCGGTGCATGAAATGCATTCGATG-TTCAATTAAATCATAGGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAA--AAATCAT-GGTGCATCGATGCATGG
1671944 TTTGATGCAT
Statistics
Matches: 108, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
62 1 0.01
63 5 0.05
64 96 0.89
65 6 0.06
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (62 bp):
AGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATCATGGTGCATCGATGCATGG
Found at i:1677809 original size:16 final size:16
Alignment explanation
Indices: 1677774--1677810 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1677764 TAAGGATTTG
1677774 ATTA-AAAAAAATATT
1 ATTATAAAAAAATATT
*
1677789 A-TATAAAAGAATATT
1 ATTATAAAAAAATATT
1677804 ATTATAA
1 ATTATAA
1677811 TTATCCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 2 0.11
15 12 0.63
16 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTATAAAAAAATATT
Found at i:1678313 original size:15 final size:15
Alignment explanation
Indices: 1678295--1678324 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1678285 AAAAAAAATT
1678295 GGCATAATGTTAAAA
1 GGCATAATGTTAAAA
*
1678310 GGCATCATGTTAAAA
1 GGCATAATGTTAAAA
1678325 TTAGCCCCTC
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:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (15 bp):
GGCATAATGTTAAAA
Found at i:1710845 original size:2 final size:2
Alignment explanation
Indices: 1710838--1710864 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1710828 CTATTTTATC
1710838 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 A
1710865 ATTTAGGGTC
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1717696 original size:2 final size:2
Alignment explanation
Indices: 1717689--1717717 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1717679 AAAAATCAGT
1717689 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1717718 GAAAATCACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1723396 original size:16 final size:16
Alignment explanation
Indices: 1723375--1723405 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1723365 TAATTTATTA
1723375 TTTTTTTAT-TAATTT
1 TTTTTTTATATAATTT
1723390 TTTTTTTATATAATTT
1 TTTTTTTATATAATTT
1723406 CATAATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTTATATAATTT
Found at i:1723525 original size:12 final size:11
Alignment explanation
Indices: 1723510--1723561 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
1723500 AATTGAAATT
1723510 TTAATTTGAAAA
1 TTAATTT-AAAA
*
1723522 TTAATATAAAA
1 TTAATTTAAAA
1723533 TTAA-TT-AAA
1 TTAATTTAAAA
1723542 -T--TTTAAAA
1 TTAATTTAAAA
1723550 TTAATTTAAAA
1 TTAATTTAAAA
1723561 T
1 T
1723562 ATAAATTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
7 2 0.06
8 4 0.12
9 4 0.12
10 1 0.03
11 16 0.48
12 6 0.18
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (11 bp):
TTAATTTAAAA
Found at i:1723544 original size:28 final size:31
Alignment explanation
Indices: 1723505--1723575 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 31
1723495 ACATAAATTG
*
1723505 AAATTTTAATTTGAAAATTAATATAAAAT-T
1 AAATTATAATTTGAAAATTAATATAAAATAT
* *
1723535 -AATTA-AATTTTAAAATTAATTTAAAATAT
1 AAATTATAATTTGAAAATTAATATAAAATAT
1723564 AAATTATAATTT
1 AAATTATAATTT
1723576 AAATACACGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 20 0.57
29 5 0.14
30 5 0.14
31 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (31 bp):
AAATTATAATTTGAAAATTAATATAAAATAT
Found at i:1723567 original size:17 final size:17
Alignment explanation
Indices: 1723524--1723580 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
1723514 TTTGAAAATT
1723524 AATATAAAATTAATTAA
1 AATATAAAATTAATTAA
* *
1723541 ATTTTAAAATTAATTTAA
1 AATATAAAATTAA-TTAA
* *
1723559 AATATAAATTATAATTTA
1 AATATAAAAT-TAATTAA
1723577 AATA
1 AATA
1723581 CACGATGTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 11 0.34
18 18 0.56
19 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATAAAATTAATTAA
Found at i:1723871 original size:17 final size:17
Alignment explanation
Indices: 1723851--1723889 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
1723841 CTACAACGTT
1723851 GCTGCTGCTGCTACCAA
1 GCTGCTGCTGCTACCAA
1723868 GCTGCTGCTGCTACCAA
1 GCTGCTGCTGCTACCAA
1723885 GCTGC
1 GCTGC
1723890 AACCAGTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.36, G:0.26, T:0.23
Consensus pattern (17 bp):
GCTGCTGCTGCTACCAA
Found at i:1724835 original size:23 final size:23
Alignment explanation
Indices: 1724696--1724825 Score: 206
Period size: 23 Copynumber: 5.7 Consensus size: 23
1724686 CTCGTATAAA
1724696 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
1724719 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
1724742 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
1724765 TGCACCGAAGTGCCGCGTAAAAT
1 TGCACCGAAGTGCCACGTAGAAT
* * *
1724788 TGCCCCGTAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
1724811 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
1724826 TATAAGATTG
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 100 1.00
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:1724853 original size:46 final size:45
Alignment explanation
Indices: 1724703--1724854 Score: 166
Period size: 46 Copynumber: 3.3 Consensus size: 45
1724693 AAATGCACCG
*
1724703 AAGTGCCACGTAGAATTGCACCGAAGTGCCACGT-AGAATTGCACCG
1 AAGTGCCACGTAGAATTGCACCGAAGTGCCACGTAAG-ATTGC-CCT
* *
1724749 AAGTGCCACGTAGAATTGCACCGAAGTGCCGCGTAAAATTGCCCCGT
1 AAGTGCCACGTAGAATTGCACCGAAGTGCCACGTAAGATTG-CCC-T
* * **
1724796 -AGTGCCGCGTAGAATTGCACCGTAGTGCCATATAAGATTGTCCCT
1 AAGTGCCACGTAGAATTGCACCGAAGTGCCACGTAAGATTG-CCCT
1724841 AAG-GACCACGTAGA
1 AAGTG-CCACGTAGA
1724855 TAATTCCTTA
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
45 2 0.02
46 86 0.96
47 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.20
Consensus pattern (45 bp):
AAGTGCCACGTAGAATTGCACCGAAGTGCCACGTAAGATTGCCCT
Found at i:1725575 original size:63 final size:65
Alignment explanation
Indices: 1725466--1725627 Score: 179
Period size: 63 Copynumber: 2.5 Consensus size: 65
1725456 ATCCCTTGAC
* ** *
1725466 GGGTGCATCGATGCACTA-TCTATGCATCGATACA-TAAATCTTATTCGATGTTTGTA-TTTAAG
1 GGGTGCATCGATGCACTACT-TGTGCATCGATACACTAAATCGCATTCGATGTTTGTATTTTAAA
1725528 G
65 G
* * *
1725529 GGGTGCATCGATGCACTACTTGTGCATCGATACACT-GATGGCATTCGATGTTTGTATTTTAAAT
1 GGGTGCATCGATGCACTACTTGTGCATCGATACACTAAATCGCATTCGATGTTTGTATTTTAAAG
** * * *
1725593 TAGTGCATTGATGCACTCCATGTGCATCGATACAC
1 GGGTGCATCGATGCACTACTTGTGCATCGATACAC
1725628 CTTGAACAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
63 47 0.56
64 37 0.44
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (65 bp):
GGGTGCATCGATGCACTACTTGTGCATCGATACACTAAATCGCATTCGATGTTTGTATTTTAAAG
Found at i:1730692 original size:6 final size:6
Alignment explanation
Indices: 1730681--1730747 Score: 55
Period size: 6 Copynumber: 11.2 Consensus size: 6
1730671 ATCAAATAAA
* * * *
1730681 AAAAAT AAAAAT AAAACT AAAACA- AAAAGT AAAAAT ATAAAT ATAAAT
1 AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT
* * *
1730729 ATAAAT ATAAAT ATAAAT A
1 AAAAAT AAAAAT AAAAAT A
1730748 TAACGGAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:1730748 original size:6 final size:6
Alignment explanation
Indices: 1730713--1730750 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
1730703 CAAAAAGTAA
1730713 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AA
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AA
1730751 CGGAATTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATAT
Found at i:1734047 original size:23 final size:23
Alignment explanation
Indices: 1734021--1734065 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1734011 CACCACAGCT
* *
1734021 CGTATAAATGCACTGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
*
1734044 CGTAGAATTGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1734066 GCATAGAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:1734088 original size:23 final size:23
Alignment explanation
Indices: 1734029--1734078 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
1734019 CTCGTATAAA
* *
1734029 TGCACTGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
1734052 TGCACCGAAGTGCCGCATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
1734075 TGCA
1 TGCA
1734079 TTGTAGTGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:1734883 original size:64 final size:63
Alignment explanation
Indices: 1734770--1734889 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 63
1734760 CATAAATCCT
* *
1734770 ATTCGATGTTTGTATTTAAGGGTGTACATCGATGCACTACTTGTGCATCGATACACTGATGGC
1 ATTCGATGTTTGTATTTAAGAGTGTACATCGATGCACTACATGTGCATCGATACACTGATGGC
* * *
1734833 ATTCGATGTTTGTATTTTAA-ATTAGTGCATCGATGCACTTCATGTGCATCGATACAC
1 ATTCGATGTTTGTA-TTTAAGAGT-GTACATCGATGCACTACATGTGCATCGATACAC
1734890 CTTGAACAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
63 15 0.30
64 35 0.70
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (63 bp):
ATTCGATGTTTGTATTTAAGAGTGTACATCGATGCACTACATGTGCATCGATACACTGATGGC
Found at i:1735828 original size:43 final size:43
Alignment explanation
Indices: 1735780--1735883 Score: 124
Period size: 43 Copynumber: 2.4 Consensus size: 43
1735770 TATTTGCATA
*
1735780 GAAGACGCCAAGCA-ATCCAAGT-TTGCATGGAAAATTTTTG-AAT
1 GAAGACGCCAAG-AGATCCAA-TAATGCATGG-AAATTTTTGTAAT
* **
1735823 GAAGACGCCGAGAGATCCAATAATGCATGGAAATTTTTGTGTT
1 GAAGACGCCAAGAGATCCAATAATGCATGGAAATTTTTGTAAT
1735866 GAAGACGCCAAGAGATCC
1 GAAGACGCCAAGAGATCC
1735884 TTTGAACGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
42 11 0.21
43 42 0.79
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (43 bp):
GAAGACGCCAAGAGATCCAATAATGCATGGAAATTTTTGTAAT
Found at i:1736485 original size:21 final size:20
Alignment explanation
Indices: 1736427--1736561 Score: 132
Period size: 20 Copynumber: 6.7 Consensus size: 20
1736417 AAATGACCAA
* **
1736427 CAAATTCACAACGCGAACTC
1 CAAATTCGCAACGCGATTTC
* *
1736447 CAATTTCGCAACAC-ATTTTC
1 CAAATTCGCAACGCGA-TTTC
1736467 CAAATTCGCAACGCGATTTTC
1 CAAATTCGCAACGCGA-TTTC
*
1736488 CAAATTCGTAACGCGATTTC
1 CAAATTCGCAACGCGATTTC
*
1736508 C-AATTCGCAACACTGAATTT-
1 CAAATTCGCAACGC-G-ATTTC
*
1736528 CAAATTCGCAACTCGATTTC
1 CAAATTCGCAACGCGATTTC
*
1736548 TAAATTCGCAACGC
1 CAAATTCGCAACGC
1736562 AAATTTTGTT
Statistics
Matches: 96, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
19 15 0.16
20 45 0.47
21 36 0.38
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.27
Consensus pattern (20 bp):
CAAATTCGCAACGCGATTTC
Found at i:1736567 original size:40 final size:40
Alignment explanation
Indices: 1736428--1736619 Score: 138
Period size: 40 Copynumber: 4.8 Consensus size: 40
1736418 AATGACCAAC
* * * * *
1736428 AAATTCACAACGCGAACTCCAATTTCGCAACAC-ATTTTCC
1 AAATTCGCAACGCGAATTTCAATTTCGCAACTCGA-TTTCT
* * * *
1736468 AAATTCGCAACGCGATTTTCCAAATTCGTAACGCGATTTC-
1 AAATTCGCAACGCGAATTT-CAATTTCGCAACTCGATTTCT
* * *
1736508 CAATTCGCAACACTGAATTTCAAATTCGCAACTCGATTTCT
1 AAATTCGCAACGC-GAATTTCAATTTCGCAACTCGATTTCT
* *** *
1736549 AAATTCGCAACGCAAATTTTGTTTTCGCAACTCGATTTTT
1 AAATTCGCAACGCGAATTTCAATTTCGCAACTCGATTTCT
* * * *
1736589 GAAATT-ACAACACAAATTTTAATTTCGCAAC
1 -AAATTCGCAACGCGAATTTCAATTTCGCAAC
1736620 AGGTTTTATT
Statistics
Matches: 123, Mismatches: 24, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
40 86 0.70
41 36 0.29
42 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.31
Consensus pattern (40 bp):
AAATTCGCAACGCGAATTTCAATTTCGCAACTCGATTTCT
Found at i:1736619 original size:20 final size:20
Alignment explanation
Indices: 1736509--1736620 Score: 66
Period size: 20 Copynumber: 5.5 Consensus size: 20
1736499 CGCGATTTCC
* *
1736509 AATTCGCAACACTGAATTTCA
1 AATTCGCAACAC-AAATTTTA
* *
1736530 AATTCGCAACTC-GATTTCTA
1 AATTCGCAACACAAATTT-TA
* *
1736550 AATTCGCAACGCAAATTTTG
1 AATTCGCAACACAAATTTTA
** * * *
1736570 TTTTCGCAACTCGATTTTTGA
1 AATTCGCAACACAAATTTT-A
*
1736591 AATT-ACAACACAAATTTTA
1 AATTCGCAACACAAATTTTA
*
1736610 ATTTCGCAACA
1 AATTCGCAACA
1736621 GGTTTTATTT
Statistics
Matches: 67, Mismatches: 20, Indels: 9
0.70 0.21 0.09
Matches are distributed among these distances:
19 8 0.12
20 42 0.63
21 17 0.25
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
AATTCGCAACACAAATTTTA
Found at i:1736806 original size:16 final size:17
Alignment explanation
Indices: 1736776--1736810 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1736766 TCTCCATCTC
1736776 TATTTTTTTACATAATTT
1 TATTTTTTTA-ATAATTT
1736794 TATTTTTTT-ATAATTT
1 TATTTTTTTAATAATTT
1736810 T
1 T
1736811 TCAATGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTTTTAATAATTT
Found at i:1739879 original size:14 final size:14
Alignment explanation
Indices: 1739860--1740372 Score: 290
Period size: 14 Copynumber: 35.4 Consensus size: 14
1739850 TTTACTATTA
1739860 TTAAATCATTAAAT
1 TTAAATCATTAAAT
*
1739874 TTAAATCATTAAAG
1 TTAAATCATTAAAT
* * *
1739888 TTAACTAATT-ACT
1 TTAAATCATTAAAT
* *
1739901 ATTAAATTATTAAAA
1 -TTAAATCATTAAAT
* *
1739916 TTAAATTATTAAAG
1 TTAAATCATTAAAT
* * *
1739930 TTAAGTAATT-ATT
1 TTAAATCATTAAAT
1739943 ATTAAATCATTAAAT
1 -TTAAATCATTAAAT
* *
1739958 TTAAATAAATAATTATT
1 TTAAATCATTAA--A-T
*
1739975 ATTAAATCATTAAAG
1 -TTAAATCATTAAAT
1739990 TTAAATCATTAAAAT
1 TTAAATCATT-AAAT
*
1740005 TAAGTAATTATTATTAAAT
1 T---TAA--ATCATTAAAT
* *
1740024 TTAAATTATTAAAA
1 TTAAATCATTAAAT
* * *
1740038 TTAAGTAATT-ATT
1 TTAAATCATTAAAT
1740051 ATTAAATCATTAAAT
1 -TTAAATCATTAAAT
*
1740066 TTAAATCATTAAAG
1 TTAAATCATTAAAT
* * *
1740080 TTAAGTAATT-ATT
1 TTAAATCATTAAAT
* *
1740093 ATTAAATTATTAAAG
1 -TTAAATCATTAAAT
*
1740108 TTAAATCATTAAAG
1 TTAAATCATTAAAT
* *
1740122 TTAAATAATT-ATT
1 TTAAATCATTAAAT
*
1740135 ATTAAATCATTAAAG
1 -TTAAATCATTAAAT
* *
1740150 TTAAATAATT-ATT
1 TTAAATCATTAAAT
*
1740163 ATTAAATTATTAAAT
1 -TTAAATCATTAAAT
* *
1740178 TTAAATTATTAAAG
1 TTAAATCATTAAAT
*
1740192 TT-AATCATT-ATT
1 TTAAATCATTAAAT
*
1740204 GTTAAATTATTAAAT
1 -TTAAATCATTAAAT
1740219 TTAAATCATTAAAT
1 TTAAATCATTAAAT
* *
1740233 AATTAAAATTAAGTAATTATT
1 --TT-AAA-TCATTAA--A-T
1740254 ATTAAATCATTAAAT
1 -TTAAATCATTAAAT
*
1740269 TTAAATCATTAAAG
1 TTAAATCATTAAAT
* *
1740283 TTAAATAATT-ATT
1 TTAAATCATTAAAT
1740296 ATTAAATCATTAAAT
1 -TTAAATCATTAAAT
* *
1740311 TTAAATTATTAAAG
1 TTAAATCATTAAAT
* *
1740325 TTAAATAATT-ATT
1 TTAAATCATTAAAT
1740338 ATTAAATCATTAAAT
1 -TTAAATCATTAAAT
*
1740353 TTAAATCATTAAAG
1 TTAAATCATTAAAT
1740367 TTAAAT
1 TTAAAT
1740373 GTATGCTCTG
Statistics
Matches: 385, Mismatches: 78, Indels: 72
0.72 0.15 0.13
Matches are distributed among these distances:
12 1 0.00
13 16 0.04
14 295 0.77
15 20 0.05
16 8 0.02
17 4 0.01
18 23 0.06
19 8 0.02
20 9 0.02
21 1 0.00
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (14 bp):
TTAAATCATTAAAT
Found at i:1739913 original size:42 final size:42
Alignment explanation
Indices: 1739855--1740372 Score: 561
Period size: 42 Copynumber: 12.9 Consensus size: 42
1739845 ATATCTTTAC
*
1739855 TATTATTAAATCATTAAATTTAAATCATTAAAGTTAACTAAT
1 TATTATTAAATCATTAAATTTAAATCATTAAAGTTAAATAAT
* * * * *
1739897 TACTATTAAATTATTAAAATTAAATTATTAAAGTTAAGTAAT
1 TATTATTAAATCATTAAATTTAAATCATTAAAGTTAAATAAT
1739939 TATTATTAAATC-----A-TTAAAT--TTAAA--TAAATAAT
1 TATTATTAAATCATTAAATTTAAATCATTAAAGTTAAATAAT
* * *
1739971 TATTATTAAATCATTAAAGTTAAATCATTAAAATTAAGTAAT
1 TATTATTAAATCATTAAATTTAAATCATTAAAGTTAAATAAT
* *
1740013 TATTATTAAAT--TTAAA--T---T-ATTAAAATTAAGTAAT
1 TATTATTAAATCATTAAATTTAAATCATTAAAGTTAAATAAT
*
1740047 TATTATTAAATCATTAAATTTAAATCATTAAAGTTAAGTAAT
1 TATTATTAAATCATTAAATTTAAATCATTAAAGTTAAATAAT
* *
1740089 TATTATTAAATTATTAAAGTTAAATCATTAAAGTTAAATAAT
1 TATTATTAAATCATTAAATTTAAATCATTAAAGTTAAATAAT
* * * *
1740131 TATTATTAAATCATTAAAGTTAAATAATTATTA-TTAAATTAT
1 TATTATTAAATCATTAAATTTAAATCATTA-AAGTTAAATAAT
* * * ** *
1740173 TA-AATTTAAATTATTAAAGTT-AATCATTATTGTTAAATTAT
1 TATTA-TTAAATCATTAAATTTAAATCATTAAAGTTAAATAAT
* * *
1740214 TA-AATTTAAATCATTAAA--T--A--ATTAAAATTAAGTAAT
1 TATTA-TTAAATCATTAAATTTAAATCATTAAAGTTAAATAAT
1740250 TATTATTAAATCATTAAATTTAAATCATTAAAGTTAAATAAT
1 TATTATTAAATCATTAAATTTAAATCATTAAAGTTAAATAAT
*
1740292 TATTATTAAATCATTAAATTTAAATTATTAAAGTTAAATAAT
1 TATTATTAAATCATTAAATTTAAATCATTAAAGTTAAATAAT
1740334 TATTATTAAATCATTAAATTTAAATCATTAAAGTTAAAT
1 TATTATTAAATCATTAAATTTAAATCATTAAAGTTAAAT
1740373 GTATGCTCTG
Statistics
Matches: 416, Mismatches: 32, Indels: 56
0.83 0.06 0.11
Matches are distributed among these distances:
32 19 0.05
34 32 0.08
35 1 0.00
36 37 0.09
37 3 0.01
38 10 0.02
39 1 0.00
40 12 0.03
41 35 0.08
42 265 0.64
43 1 0.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (42 bp):
TATTATTAAATCATTAAATTTAAATCATTAAAGTTAAATAAT
Found at i:1739918 original size:9 final size:8
Alignment explanation
Indices: 1739856--1740365 Score: 141
Period size: 8 Copynumber: 61.1 Consensus size: 8
1739846 TATCTTTACT
1739856 ATTATTAA
1 ATTATTAA
*
1739864 ATCATTAA
1 ATTATTAA
1739872 A-T-TTAA
1 ATTATTAA
*
1739878 ATCATTAA
1 ATTATTAA
*
1739886 AGTTAACTAA
1 A-TT-ATTAA
*
1739896 TTACTATTAA
1 --ATTATTAA
1739906 ATTATTAA
1 ATTATTAA
1739914 A--ATTAA
1 ATTATTAA
1739920 ATTATTAA
1 ATTATTAA
*
1739928 AGTTAAGTAA
1 A-TT-ATTAA
1739938 TTATTATTAA
1 --ATTATTAA
*
1739948 ATCATTAA
1 ATTATTAA
1739956 A-T-TTAA
1 ATTATTAA
* *
1739962 ATAAATAA
1 ATTATTAA
1739970 TTATTATTAA
1 --ATTATTAA
*
1739980 ATCATTAA
1 ATTATTAA
*
1739988 A--GTTAA
1 ATTATTAA
*
1739994 ATCATTAAA
1 ATTATT-AA
*
1740003 ATTAAGTAA
1 ATT-ATTAA
1740012 TTATTATTAA
1 --ATTATTAA
1740022 A-T-TTAA
1 ATTATTAA
1740028 ATTATTAAA
1 ATTATT-AA
*
1740037 ATTAAGTAA
1 ATT-ATTAA
1740046 TTATTATTAA
1 --ATTATTAA
*
1740056 ATCATTAA
1 ATTATTAA
1740064 A-T-TTAA
1 ATTATTAA
*
1740070 ATCATTAA
1 ATTATTAA
*
1740078 AGTTAAGTAA
1 A-TT-ATTAA
1740088 TTATTATTAA
1 --ATTATTAA
1740098 ATTATTAA
1 ATTATTAA
*
1740106 A--GTTAA
1 ATTATTAA
*
1740112 ATCATTAA
1 ATTATTAA
*
1740120 AGTTAAATAA
1 A-TT-ATTAA
1740130 TTATTATTAA
1 --ATTATTAA
*
1740140 ATCATTAA
1 ATTATTAA
*
1740148 AGTTAAATAA
1 A-TT-ATTAA
1740158 TTATTATTAA
1 --ATTATTAA
1740168 ATTATTAA
1 ATTATTAA
1740176 A-T-TTAA
1 ATTATTAA
1740182 ATTATTAA
1 ATTATTAA
* *
1740190 AGTTAATCATT
1 A-TT-ATTA-A
*
1740201 ATTGTTAA
1 ATTATTAA
1740209 ATTATTAA
1 ATTATTAA
1740217 A-T-TTAA
1 ATTATTAA
*
1740223 ATCATTAA
1 ATTATTAA
*
1740231 ATAATTAAA
1 ATTATT-AA
*
1740240 ATTAAGTAA
1 ATT-ATTAA
1740249 TTATTATTAA
1 --ATTATTAA
*
1740259 ATCATTAA
1 ATTATTAA
1740267 A-T-TTAA
1 ATTATTAA
*
1740273 ATCATTAA
1 ATTATTAA
*
1740281 AGTTAAATAA
1 A-TT-ATTAA
1740291 TTATTATTAA
1 --ATTATTAA
*
1740301 ATCATTAA
1 ATTATTAA
1740309 A-T-TTAA
1 ATTATTAA
1740315 ATTATTAA
1 ATTATTAA
*
1740323 AGTTAAATAA
1 A-TT-ATTAA
1740333 TTATTATTAA
1 --ATTATTAA
*
1740343 ATCATTAA
1 ATTATTAA
1740351 A-T-TTAA
1 ATTATTAA
*
1740357 ATCATTAA
1 ATTATTAA
1740365 A
1 A
1740366 GTTAAATGTA
Statistics
Matches: 370, Mismatches: 63, Indels: 138
0.65 0.11 0.24
Matches are distributed among these distances:
6 61 0.16
7 6 0.02
8 156 0.42
9 32 0.09
10 85 0.23
11 23 0.06
12 7 0.02
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (8 bp):
ATTATTAA
Found at i:1746538 original size:32 final size:32
Alignment explanation
Indices: 1746476--1746538 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
1746466 ACTTTTAAAA
* * *
1746476 GTTATAAAATGATCATCAACTTTATGGAATTT
1 GTTATAAAATGATCATCAAATGTATCGAATTT
* *
1746508 GTTATAAAATGTTCATTAAATGTATCGAATT
1 GTTATAAAATGATCATCAAATGTATCGAATT
1746539 ATTATAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (32 bp):
GTTATAAAATGATCATCAAATGTATCGAATTT
Found at i:1749375 original size:60 final size:60
Alignment explanation
Indices: 1749264--1749378 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
1749254 TAGTCAAGTG
* * *
1749264 ATCATTTTATAACTTTTGATAGTCGAGAGACTCAACAAAATAATGTCCTATAATCGGAAA
1 ATCATTTTATAACTTTTAATAGTAGAGAGACTCAACAAAATAACGTCCTATAATCGGAAA
* * * *
1749324 ATCATTTTGTAACTTTTAATAGTTAGAG-GACTCAACAAAGTAGCGTTCTATAATC
1 ATCATTTTATAACTTTTAATAG-TAGAGAGACTCAACAAAATAACGTCCTATAATC
1749379 AGGGGACCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 43 0.91
61 4 0.09
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (60 bp):
ATCATTTTATAACTTTTAATAGTAGAGAGACTCAACAAAATAACGTCCTATAATCGGAAA
Found at i:1751142 original size:43 final size:43
Alignment explanation
Indices: 1751095--1751218 Score: 167
Period size: 43 Copynumber: 2.9 Consensus size: 43
1751085 TATAGGACCC
*
1751095 CTAATTTTTTCAATCTTATTTTTTATCTTTATGATTGAAGTCT
1 CTAATTTTTTCAATCTTATTTTTTATCTTTATAATTGAAGTCT
* * *
1751138 CTAATTTTTTTAATTTTATTTTTTATCTTTATAATTGATGTCT
1 CTAATTTTTTCAATCTTATTTTTTATCTTTATAATTGAAGTCT
* * * * *
1751181 CTAATTTTTCCAGTCTCACTTTTTATATTTATAATTGA
1 CTAATTTTTTCAATCTTATTTTTTATCTTTATAATTGA
1751219 CAATATCACT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.24, C:0.11, G:0.06, T:0.59
Consensus pattern (43 bp):
CTAATTTTTTCAATCTTATTTTTTATCTTTATAATTGAAGTCT
Found at i:1751228 original size:28 final size:28
Alignment explanation
Indices: 1751196--1751274 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
1751186 TTTTCCAGTC
* *
1751196 TCACTTTTTATATTTATAATTGACAATA
1 TCACTTTATATCTTTATAATTGACAATA
* *
1751224 TCACTTTCTACCTTTATAATTGACAATA
1 TCACTTTATATCTTTATAATTGACAATA
*
1751252 TCACTTTATATCTTTATAGTTGA
1 TCACTTTATATCTTTATAATTGA
1751275 TGCCCCTAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.48
Consensus pattern (28 bp):
TCACTTTATATCTTTATAATTGACAATA
Found at i:1751299 original size:42 final size:42
Alignment explanation
Indices: 1751247--1751378 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 42
1751237 TTATAATTGA
* * * *
1751247 CAATATCACTTTATATCTTTATAGTTGATGCCCCTAGTTTTTT
1 CAATCTCACTTTTTATCTTTATAATTGA-GCCCCTAATTTTTT
* * *
1751290 -AATCTCACTTTTTATATTTATAATTAAGTCCTCTAATTTTTT
1 CAATCTCACTTTTTATCTTTATAATTGAG-CCCCTAATTTTTT
* * * *
1751332 CGATCTCACTTTTTACCTTTATAATTGAGCCCTTTATTTTTTT
1 CAATCTCACTTTTTATCTTTATAATTGAGCCC-CTAATTTTTT
1751375 CAAT
1 CAAT
1751379 TACTAATCCC
Statistics
Matches: 71, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
41 1 0.01
42 35 0.49
43 35 0.49
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (42 bp):
CAATCTCACTTTTTATCTTTATAATTGAGCCCCTAATTTTTT
Found at i:1751342 original size:43 final size:43
Alignment explanation
Indices: 1751291--1751375 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
1751281 TAGTTTTTTA
* *
1751291 ATCTCACTTTTTATATTTATAATTAAGTCCTCTAATTTTTTCG
1 ATCTCACTTTTTACATTTATAATTAAGCCCTCTAATTTTTTCG
* * * *
1751334 ATCTCACTTTTTACCTTTATAATTGAGCCCTTTATTTTTTTC
1 ATCTCACTTTTTACATTTATAATTAAGCCCTCTAATTTTTTC
1751376 AATTACTAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.05, T:0.54
Consensus pattern (43 bp):
ATCTCACTTTTTACATTTATAATTAAGCCCTCTAATTTTTTCG
Found at i:1752019 original size:38 final size:38
Alignment explanation
Indices: 1751977--1752066 Score: 180
Period size: 38 Copynumber: 2.4 Consensus size: 38
1751967 AAACAAATTG
1751977 ATAAAGTAAGCTTATACTTATAATTTTTAATAAAGAAA
1 ATAAAGTAAGCTTATACTTATAATTTTTAATAAAGAAA
1752015 ATAAAGTAAGCTTATACTTATAATTTTTAATAAAGAAA
1 ATAAAGTAAGCTTATACTTATAATTTTTAATAAAGAAA
1752053 ATAAAGTAAGCTTA
1 ATAAAGTAAGCTTA
1752067 CAGTCCCCAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.36
Consensus pattern (38 bp):
ATAAAGTAAGCTTATACTTATAATTTTTAATAAAGAAA
Found at i:1752082 original size:38 final size:38
Alignment explanation
Indices: 1751977--1752082 Score: 113
Period size: 38 Copynumber: 2.8 Consensus size: 38
1751967 AAACAAATTG
* * * *
1751977 ATAAAGTAAGCTTATACTTATAATTTTTAATAAAGAAA
1 ATAAAGTAAGCTTACACTCACAATATTTAATAAAGAAA
* * * *
1752015 ATAAAGTAAGCTTATACTTATAATTTTTAATAAAGAAA
1 ATAAAGTAAGCTTACACTCACAATATTTAATAAAGAAA
* * *
1752053 ATAAAGTAAGCTTACAGTCCCCATATTTAA
1 ATAAAGTAAGCTTACACTCACAATATTTAA
1752083 AAGCAATAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.35
Consensus pattern (38 bp):
ATAAAGTAAGCTTACACTCACAATATTTAATAAAGAAA
Found at i:1758976 original size:21 final size:22
Alignment explanation
Indices: 1758932--1758982 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
1758922 GTAGACTAAC
1758932 GGTAGCTGGATGTAACTGGGAG
1 GGTAGCTGGATGTAACTGGGAG
*
1758954 GGTAGTTGGATGTAACT-GGAG
1 GGTAGCTGGATGTAACTGGGAG
1758975 GGTAGCTG
1 GGTAGCTG
1758983 AGGAGTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.22, C:0.08, G:0.45, T:0.25
Consensus pattern (22 bp):
GGTAGCTGGATGTAACTGGGAG
Found at i:1760208 original size:259 final size:255
Alignment explanation
Indices: 1759733--1760244 Score: 744
Period size: 259 Copynumber: 2.0 Consensus size: 255
1759723 ATTTTTATTT
* *
1759733 AATATATGAATTAGAAACCCGACCCGACATAACACAAATAATAAAAAATTATTTTTATTCAATAA
1 AATATATGAATTAGAAACCCGACCCGACACAACACAAATAATAAAAAAATATTTTTATTCAATAA
* *
1759798 AAACATTGACTTAATTGAAAAAAATTATATATAGAGGGGTATTATTATAATTATTTCTAAATATA
66 AAACAGTGACTTAATTGAAAAAAA-TATATATAGAGGGGTATTATTATAATTATTCCTAAATATA
* * *
1759863 TAAGGTAAAATTATATATTTTTTCGGGTCGGTCCAGTTTTTTTCACCCTAAACCCAAACCCGACT
130 TAAGGTAAAATTATATATATTTTCGGGTCGG--C-GTATTTTTCACCCTAAACCCAAACCCGACC
*
1759928 CGAATATCACACTTAAAAAAACCCGACCCGACCCGAACAAAATAAAGTTTCACCCGACCCAACCC
192 CGAATATCACACTTAAAAAAA-CCGA-CCGACCCGAACAAAATAAAGTTTCACCAGACCCAACCC
1759993 G
255 G
* * * *
1759994 AATATATGAATTAGAAATCCGACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATA
1 AATATATGAATTAGAAACCCGACCCGACACAACAC-AAATAATAAAAAAATATTTTTATTCAATA
*
1760059 AAAACAGTGACTTAATTG-AAAAAA-ATATATAGAGGGGTATTATTGTAATTATTCCTAAATATA
65 AAAACAGTGACTTAATTGAAAAAAATATATATAGAGGGGTATTATTATAATTATTCCTAAATATA
**
1760122 TAAGGTAAAATTATATATATTTTCGGGTCGG-GTATTTTTCACCCTAAACTTGAACTCGACCCGA
130 TAAGGTAAAATTATATATATTTTCGGGTCGGCGTATTTTTCACCCTAAAC-CCAA----ACCCGA
*
1760186 CCCGAATATCACACTT-AAAAAACCGACCGACCCGACCAAAATAAAGTTTCACCAGACCC
190 CCCGAATATCACACTTAAAAAAACCGACCGACCCGAACAAAATAAAGTTTCACCAGACCC
1760245 GAAACAATAA
Statistics
Matches: 229, Mismatches: 16, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
255 17 0.07
256 2 0.01
257 31 0.14
258 4 0.02
259 73 0.32
260 21 0.09
261 36 0.16
262 45 0.20
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.28
Consensus pattern (255 bp):
AATATATGAATTAGAAACCCGACCCGACACAACACAAATAATAAAAAAATATTTTTATTCAATAA
AAACAGTGACTTAATTGAAAAAAATATATATAGAGGGGTATTATTATAATTATTCCTAAATATAT
AAGGTAAAATTATATATATTTTCGGGTCGGCGTATTTTTCACCCTAAACCCAAACCCGACCCGAA
TATCACACTTAAAAAAACCGACCGACCCGAACAAAATAAAGTTTCACCAGACCCAACCCG
Found at i:1766012 original size:26 final size:26
Alignment explanation
Indices: 1765963--1766013 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
1765953 TTTGTTTGTC
*
1765963 TTTTCTTATTATTTGAAGATTTATTA
1 TTTTCTTATTATTTGAAAATTTATTA
*
1765989 TTTTC-TATTATTTTAAAATATTATT
1 TTTTCTTATTATTTGAAAAT-TTATT
1766014 TCTGTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTTCTTATTATTTGAAAATTTATTA
Found at i:1773167 original size:26 final size:26
Alignment explanation
Indices: 1773127--1773180 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
1773117 GTAAGTTTGC
1773127 GAAAGAACCAGCCAGTCAGACACGGG
1 GAAAGAACCAGCCAGTCAGACACGGG
1773153 GAAAGAACC-GACCAGTCAGACACGGG
1 GAAAGAACCAG-CCAGTCAGACACGGG
1773179 GA
1 GA
1773181 TCATCAGCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.39, C:0.26, G:0.31, T:0.04
Consensus pattern (26 bp):
GAAAGAACCAGCCAGTCAGACACGGG
Found at i:1775434 original size:6 final size:6
Alignment explanation
Indices: 1775419--1775449 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1775409 AATTATGATA
*
1775419 TTTAAC TTTAAT TTTAAT TTTAAT TTTAAT T
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT T
1775450 ATACAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTAAT
Found at i:1779434 original size:23 final size:23
Alignment explanation
Indices: 1779408--1779455 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1779398 ATAAAGTACA
* *
1779408 ATAACATACTAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
1779431 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1779454 AT
1 AT
1779456 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1779908 original size:23 final size:23
Alignment explanation
Indices: 1779882--1779944 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1779872 ATATAACCAC
1779882 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
1779905 TACCTATTACATTACATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1779928 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1779945 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1780332 original size:23 final size:23
Alignment explanation
Indices: 1780306--1780368 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
1780296 ATATAACCAC
1780306 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
*
1780329 TACCTATTACATTATATAAACGC
1 TACCTATTACATTATATAAACGA
*
1780352 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1780369 TTTTACCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1780762 original size:23 final size:23
Alignment explanation
Indices: 1780736--1780798 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1780726 ATATAACCAC
1780736 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1780759 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1780782 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1780799 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1780817 original size:430 final size:429
Alignment explanation
Indices: 1779522--1781000 Score: 2702
Period size: 430 Copynumber: 3.5 Consensus size: 429
1779512 TATTACATTA
*
1779522 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
* *
1779587 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTATAATATTAATTTAATAATTTC
66 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
1779652 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
130 ATTTACACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
1779717 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
195 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
*
1779782 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTT
260 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
1779847 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
325 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
*
1779912 TACATTACATAAGCGCTACCTATTACATCATATTTTTACC
390 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
1779952 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1780017 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA-TTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
*
1780081 TTTGCACAAAAAATTATTTGATTA-TTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
131 TTTACACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
*
1780145 TAATAATATATATCGTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
196 TAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
1780210 T-AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTTT
261 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTT
1780273 TAT-AAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
326 TATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
*
1780337 ACATTATATAAACGCTACCTATTACATCATATTTTTACC
391 ACATTATATAAGCGCTACCTATTACATCATATTTTTACC
1780376 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1780441 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
1780506 ATTTACACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
130 ATTTACACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
1780571 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACTAAATTAATATC
195 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
*
1780636 TTAAAACTCACTTAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
260 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
1780701 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
325 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
*
1780766 TACATTATATAAGCGCTACCTATTACATCATATGTTTACC
390 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
1780806 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAA
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTT-AAAGTTATGTAA
*
1780871 TTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
65 TTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
* * * * *
1780936 ATTTACAC-AAAATTTATTTGATTGTTTTGATATTTTATAAAATAATATTTATAA-TTTAAATTT
130 ATTTACACAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
1780999 AA
194 AA
1781001 CAACATTAAC
Statistics
Matches: 1021, Mismatches: 20, Indels: 17
0.97 0.02 0.02
Matches are distributed among these distances:
424 174 0.17
425 70 0.07
426 70 0.07
427 209 0.20
428 71 0.07
429 92 0.09
430 311 0.30
431 24 0.02
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (429 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTACACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
TAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTT
TATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
ACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:1781274 original size:39 final size:39
Alignment explanation
Indices: 1781220--1781305 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
1781210 CAAGTTGTAG
*
1781220 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
1781259 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
1781298 ATTTTGAT
1 ATTTTGAT
1781306 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:1781588 original size:18 final size:18
Alignment explanation
Indices: 1781565--1781601 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1781555 CGAAATATAT
1781565 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1781583 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1781601 A
1 A
1781602 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1782065 original size:23 final size:23
Alignment explanation
Indices: 1782039--1782101 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1782029 ATATAACCAC
1782039 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1782062 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1782085 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1782102 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1782500 original size:25 final size:25
Alignment explanation
Indices: 1782443--1782507 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
1782433 TACTCAAAAG
*
1782443 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
1782468 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
1782493 TTGTACATACCTAAA
1 ATGTACATACCTAAA
1782508 ATTAATGATA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:1785500 original size:183 final size:182
Alignment explanation
Indices: 1784976--1785466 Score: 849
Period size: 183 Copynumber: 2.7 Consensus size: 182
1784966 TTAAAATTAC
*
1784976 CGACACTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
1 CGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
* * *
1785041 TTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTA
66 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTTA
* * *
1785106 TATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 TATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* *
1785158 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACAC-TTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1785223 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTT
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTT
1785288 ATATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130 ATATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
1785341 CGACACTTTTTAACAAT-GTATCGACACATTTTTTTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTT-A-AATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
*
1785405 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACC
64 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACC
1785467 GATAGCATTG
Statistics
Matches: 293, Mismatches: 13, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
182 10 0.03
183 280 0.96
184 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (182 bp):
CGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTTA
TATTACAAATTTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:1786977 original size:3 final size:3
Alignment explanation
Indices: 1786969--1787049 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
1786959 ACTTGTTTGG
* * * **
1786969 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
1787017 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1787050 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:1786986 original size:12 final size:12
Alignment explanation
Indices: 1786973--1787061 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
1786963 GTTTGGATCA
* *
1786973 TCATCTTCATCA
1 TCATCGTCATCT
* *
1786985 TCATCATCATCA
1 TCATCGTCATCT
* *
1786997 TCGTCATCATCT
1 TCATCGTCATCT
* *
1787009 TCATCGCCAGCT
1 TCATCGTCATCT
*
1787021 TCATCGTCATCA
1 TCATCGTCATCT
1787033 TCATCGTCATCT
1 TCATCGTCATCT
*
1787045 TCATCGTCAGCT
1 TCATCGTCATCT
1787057 TCATC
1 TCATC
1787062 TTCTGCGACC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:1786992 original size:18 final size:18
Alignment explanation
Indices: 1786973--1787064 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
1786963 GTTTGGATCA
* *
1786973 TCATCTTCATCATCATCA
1 TCATCATCATCATCATCT
*
1786991 TCATCATCGTCATCATCT
1 TCATCATCATCATCATCT
** * * *
1787009 TCATCGCCAGCTTCATCG
1 TCATCATCATCATCATCT
*
1787027 TCATCATCATCGTCATCT
1 TCATCATCATCATCATCT
* * *
1787045 TCATCGTCAGCTTCATCT
1 TCATCATCATCATCATCT
1787063 TC
1 TC
1787065 TGCGACCGCT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (18 bp):
TCATCATCATCATCATCT
Found at i:1787025 original size:36 final size:36
Alignment explanation
Indices: 1786985--1787061 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
1786975 ATCTTCATCA
*
1786985 TCATCATCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
* * *
1787021 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
1787057 TCATC
1 TCATC
1787062 TTCTGCGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:1787064 original size:6 final size:6
Alignment explanation
Indices: 1786973--1787064 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
1786963 GTTTGGATCA
* * * * * * * *
1786973 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
1787021 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
1787065 TGCGACCGCT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:1788885 original size:199 final size:200
Alignment explanation
Indices: 1788526--1792373 Score: 5146
Period size: 198 Copynumber: 19.9 Consensus size: 200
1788516 TTTAAATTAG
*
1788526 TATCGACACAAACTAAA--ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTAAATTA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAA
* *
1788589 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGG
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGG
1788653 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
130 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
1788718 CAAAAA
195 CAAAAA
1788724 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
1788789 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
1788853 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
1788918 AAAAA
196 AAAAA
* *
1788923 TATTGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* * ** *
1788988 CTTGTACTGGTTAGATTGAAAAATTAC--ATT-CGA-T-GA-TTTTGG-GATCGATACTTTTTAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTAC-ATTATACTTTTGGTTTTCG--A-TGTTT-T
* * * *
1789046 ATATGGATCGACAC----T-T-TATGG-TTGCACCCTGTT-T---T----CC---ATT-CATTC-
126 -T-GGGATCGACACTTTTTATATATGGATCG-ACACT-TTATGGGTGCACCCTGTTTTCCATTCA
* *
1789091 -T-GGAACA-AAAATA
187 TTCTGGA-ACAAAA-A
* *
1789104 TCGA-C-ACA-AAC-TAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCAGTA
1 T--ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
*
1789165 AACTTGTACCGGTTAGATTGAAAAATTACATATTACAATATACTTTTGGTTTTCGATGTTTTTGG
64 AACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGG
* * *** * ** *** **
1789230 GATCGACAC----T-T-TATGGGT-GCACCCTGTT-TCCATTCATTCTG--GAACA-AAATATC-
129 GATCGACACTTTTTATATATGGATCG-ACACT-TTATGGGTGCACCCTGTTTTCCATTCAT-TCT
1789283 -GACACAAACTAA
191 GGA-ACAAA--AA
* *** * * * * * * * ** ** *
1789295 -ATTAGTGTC-GAC-ACATTA-TTTAGACATATTCTCT---CATAAAAC-C-GGTAAACTTGCCG
1 TA-TCGACACAAACTAAATTAGTGTCGACACATTATTTAGACAT-ATTCTCTCATAAA---ACCG
* * * * * *** *
1789351 GTTAGA-TTG-A-----AAAATT-ACATATTACAT-TATAC-TT-TTGGTTT--TC---GATGTT
61 G-TAAACTTGTACCGGTTAGATTGAAAAATTACATAT-TACATTATACTTTTGGTTTTCGATGTT
*
1789400 TTTGGGATCGAAACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATT
124 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATT
1789465 CTGGAACAAAAA
189 CTGGAACAAAAA
*
1789477 TATCGACACAAACTAAATTAGTTTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1789542 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1789607 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
1789672 AAAAA
196 AAAAA
*
1789677 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1789742 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* * * * *
1789807 TCGACAC----T-T-TATGGGT-GCACCCTGTT-T---T----CC---ATT-CATTC--T-GGAA
131 TCGACACTTTTTATATATGGATCG-ACACT-TTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
1789850 CA-AAAATA
194 -ACAAAA-A
*
1789858 TCGA-C-ACA-AAC-TAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GTA
1 T--ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1789918 AACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGG
64 AACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGG
1789983 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
129 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
1790048 ACAAAAA
194 ACAAAAA
1790055 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
1790120 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
1790184 TCGACACTTTTTATATATGAATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
1790249 AAAAA
196 AAAAA
*
1790254 TATTGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1790319 CTTG--CCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
1790382 TCAACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
1790447 AAAAA
196 AAAAA
*
1790452 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1790517 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* * * * *
1790582 TCGACAC----T-T-TATGGGT-GCACCCTGTT-T---T----CC---ATT-CATTC--T-GGAA
131 TCGACACTTTTTATATATGGATCG-ACACT-TTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
1790625 CA-AAAATA
194 -ACAAAA-A
*
1790633 TCGA-C-ACA-AAC-TAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 T--ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1790694 AACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGG
64 AACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGG
1790758 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
129 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
1790823 ACAAAAA
194 ACAAAAA
1790830 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
*
1790895 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG--TTCGATGATTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
1790958 TCGACAC-TTTT-TATATGAATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
1791021 AAAAA
196 AAAAA
*
1791026 TATTGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1791091 CTTG--CCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
1791154 TCAACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTTATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
1791219 AAAAA
196 AAAAA
1791224 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1791289 CTTGT--CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1791352 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
1791417 AAAAA
196 AAAAA
*
1791422 TATCTACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
*
1791487 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGATTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1791552 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
1791617 AAAAA
196 AAAAA
1791622 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1791687 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* * * * *
1791752 TCGACAC----T-T-TATGGGT-GCACCCTGTT-T---T----CC---ATT-CATTC--T-GGAA
131 TCGACACTTTTTATATATGGATCG-ACACT-TTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
1791795 CA-AAAATA
194 -ACAAAA-A
*
1791803 TCGA-C-ACA-AAC-TAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 T--ATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1791864 AACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGG
64 AACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGG
*
1791929 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTACATTCATTCTGGA
129 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
1791994 AC-AAAA
194 ACAAAAA
1792000 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
1792065 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
1792129 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCGCCCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
1792194 -AAAA
196 AAAAA
*
1792198 TATCGACACAAACTAAATTAGTGTCGACACATT-TTTTGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1792262 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* * *
1792327 TTGACACTTTTTATATATGGATCGACACTTTATGGTTGCATCCTGTT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
1792374 GGCCATATTG
Statistics
Matches: 3276, Mismatches: 173, Indels: 402
0.85 0.04 0.10
Matches are distributed among these distances:
175 19 0.01
178 93 0.03
179 381 0.12
180 41 0.01
181 52 0.02
182 30 0.01
183 44 0.01
184 51 0.02
185 33 0.01
186 13 0.00
187 17 0.01
188 11 0.00
189 13 0.00
190 18 0.01
191 14 0.00
192 7 0.00
193 17 0.01
194 101 0.03
195 32 0.01
196 160 0.05
197 160 0.05
198 697 0.21
199 665 0.20
200 607 0.19
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (200 bp):
TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
AAAAA
Found at i:1789137 original size:179 final size:178
Alignment explanation
Indices: 1788837--1790724 Score: 898
Period size: 200 Copynumber: 10.0 Consensus size: 178
1788827 TACTTTTGGG
1788837 TTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTT
1 TTCGATGATTTTGGGATCGA-ACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTT
*
1788902 CCATTCATTCTGGAACAAAAATATTGACACAAACTAAATTAGTGTCGACACATTATTTAGACATA
65 CCATTCATTCTGGAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATA
* *
1788967 TTCTCTCATAAAACTGGTAAACTTGTACTGGTTAGATTGAAAAATTACA
130 TTCTCTCATAAAACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACA
1789016 TTCGATGATTTTGGGATCGATACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTT
1 TTCGATGATTTTGGGATCGA-ACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTT
1789081 CCATTCATTCTGGAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATA
65 CCATTCATTCTGGAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATA
*
1789146 TTCTCTCATAAAACCAGTAAACTTGTACCGGTTAGATTGAAAAATTACATA
130 TTCTCTCATAAAACCGGTAAACTTGTACCGGTTAGATTGAAAAATTAC--A
* * ** * * *
1789197 TTACAATATACTTTTGGTTTTCG-A-TGTTT-T-T-GGGATCGACACTTTATGGGTGCACCCTG-
1 TT-CGAT-GA-TTTTGG-GATCGAACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGT
1789256 TTTCCATTCATTCTGGAAC-AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGAC
62 TTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGAC
1789320 ATATTCTCTCATAAAACCGGTAAACTTG--CCGGTTAGATTGAAAAATTACATA
127 ATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTAGATTGAAAAATTAC--A
* ** * * * *
1789372 TTAC-ATTATACTTTTGGTTTTCG-A-TGTTT-T-T-GGGATCGAAACTTTTTAT-ATATGGATC
1 TT-CGA-T-GA-TTTTGG-GATCGAACTTTTTATATATGGATCGACAC--TTTATGGT-T-G--C
* * ***** *
1789430 GACACT-TTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAA
55 -ACCCTGTT-T---T----CC---ATT-CATTC-TGGAACAAAAA---TATCGACACAAACTAAA
*
1789494 TTAGTTTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTAGATT
103 TTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTAGATT
1789559 GAAAAATTACATA
168 GAAAAATTAC--A
* ** * * *
1789572 TTAC-ATTATACTTTTGGTTTTCG-A-TGTTT-T-T-GGGATCGACACTTTTTAT-ATATGGATC
1 TT-CGA-T-GA-TTTTGG-GATCGAACTTTTTATATATGGATCGACAC--TTTATGGT-T-G--C
* * ***** *
1789630 GACACT-TTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAA
55 -ACCCTGTT-T---T----CC---ATT-CATTC-TGGAACAAAAA---TATCGACACAAACTAAA
*
1789694 TTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGGTAAACTTGTACCGGTTAGATT
103 TTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTAGATT
1789759 GAAAAATTACATA
168 GAAAAATTAC--A
* ** * * *
1789772 TTAC-ATTATACTTTTGGTTTTCG-A-TGTTT-T-T-GGGATCGACACTTTATGGGTGCACCCTG
1 TT-CGA-T-GA-TTTTGG-GATCGAACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTG
1789831 TTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGA
61 TTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGA
1789896 CATATTCTCTCATAAAACC-GTAAACTTGTACCGGTTAGATTGAAAAATTACATA
126 CATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTAGATTGAAAAATTAC--A
* ** * * *
1789950 TTAC-ATTATACTTTTGGTTTTCG-A-TGTTT-T-T-GGGATCGACACTTTTTAT-ATATGGATC
1 TT-CGA-T-GA-TTTTGG-GATCGAACTTTTTATATATGGATCGACAC--TTTATGGT-T-G--C
* * ***** *
1790008 GACACT-TTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAA
55 -ACCCTGTT-T---T----CC---ATT-CATTC-TGGAACAAAAA---TATCGACACAAACTAAA
1790072 TTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTAGATT
103 TTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTAGATT
1790137 GAAAAATTACATA
168 GAAAAATTAC--A
* * ** * *
1790150 TTAC-ATTATACTTTTGGGTTCG-A-TGATT-T-T-GGGATCGACACTTTTTAT-ATATGAATCG
1 TT-CGA-T-GA-TTTTGGGATCGAACTTTTTATATATGGATCGACAC--TTTATGGT-TG---C-
* * ***** * *
1790208 ACACT-TTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATTGACACAAACTAAAT
55 ACCCTGTT-T---T----CC---ATT-CATTC-TGGAACAAAAA---TATCGACACAAACTAAAT
1790272 TAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTG--CCGGTTAGATTG
104 TAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTAGATTG
1790335 AAAAATTACATA
169 AAAAATTAC--A
* ** * * * *
1790347 TTAC-ATTATACTTTTGGTTTTCG-A-TGTTT-T-T-GGGATCAACACTTTTTAT-ATATGGATC
1 TT-CGA-T-GA-TTTTGG-GATCGAACTTTTTATATATGGATCGACAC--TTTATGGT-T-G--C
* * ***** *
1790405 GACACT-TTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAA
55 -ACCCTGTT-T---T----CC---ATT-CATTC-TGGAACAAAAA---TATCGACACAAACTAAA
*
1790469 TTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGGTAAACTTGTACCGGTTAGATT
103 TTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTAGATT
1790534 GAAAAATTACATA
168 GAAAAATTAC--A
* ** * * *
1790547 TTAC-ATTATACTTTTGGTTTTCG-A-TGTTT-T-T-GGGATCGACACTTTATGGGTGCACCCTG
1 TT-CGA-T-GA-TTTTGG-GATCGAACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTG
1790606 TTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGA
61 TTTTCCATTCATTCTGGAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGA
1790671 CATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACA
126 CATATTCTCTCATAAAACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACA
1790724 T
1 T
1790725 ATTACATTAT
Statistics
Matches: 1573, Mismatches: 69, Indels: 136
0.88 0.04 0.08
Matches are distributed among these distances:
174 1 0.00
175 63 0.04
177 80 0.05
178 97 0.06
179 348 0.22
180 8 0.01
181 10 0.01
182 18 0.01
183 15 0.01
184 15 0.01
185 4 0.00
187 5 0.00
189 2 0.00
191 4 0.00
192 2 0.00
193 5 0.00
194 13 0.01
195 14 0.01
196 5 0.00
197 43 0.03
198 230 0.15
199 211 0.13
200 380 0.24
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (178 bp):
TTCGATGATTTTGGGATCGAACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTC
CATTCATTCTGGAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATAT
TCTCTCATAAAACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACA
Found at i:1790410 original size:775 final size:779
Alignment explanation
Indices: 1788526--1792373 Score: 6398
Period size: 775 Copynumber: 5.0 Consensus size: 779
1788516 TTTAAATTAG
*
1788526 TATCGACACAAACTAAA--ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTAAATTA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAA
1788589 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
1788654 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
1788719 AAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
195 AAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
* *
1788784 GTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTT
260 GTAAACTTG-ACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
*
1788848 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
324 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT
*
1788913 GGAACAAAAATATTGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAA
389 GGAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAA
* * * **
1788978 AACTGGTAAACTTGTACTGGTTAGATTGAAAAATTAC--ATT-CGA-T-GA-TTTTGG-GATCGA
454 AACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTAC-ATTATACTTTTGGTTTTCG-
* * *
1789036 TACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAA
517 -A-TGTTT-TATAGGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAA
*
1789101 ATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCAGTAA
579 ATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAA
*
1789166 ACTTGTACCGGTTAGATTGAAAAATTACATATTACAATATACTTTTGGTTTTCGATG-TTTT---
644 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGG
1789227 -T-G---------------GGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAA
709 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
1789274 C-AAAA
774 CAAAAA
1789279 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
1789344 CTTG--CCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
1789407 TCGAAACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAC
*
1789472 AAAAATATCGACACAAACTAAATTAGTTTCGACACATTATTTAGACATATTCTCTCATAAAACCG
195 AAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
1789537 GTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
260 GTAAACTTG-ACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
1789602 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT
324 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT
1789667 GGAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAA
389 GGAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAA
*
1789732 AATCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGAT
454 AACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGAT
1789797 GTTTT-T-GGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATC
519 GTTTTATAGGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATC
1789860 GACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC-GTAAACTTG
584 GACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTG
1789924 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGA
649 TACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGA
1789989 CACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAA
714 CACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAA
1790054 A
779 A
1790055 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1790120 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1790185 CGACACTTTTTATATATGAATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
*
1790250 AAAATATTGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
1790315 TAAACTTG-CCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
261 TAAACTTGACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
*
1790379 GGATCAACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
1790444 AACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
391 AACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
*
1790509 TCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGT
456 CCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGT
1790574 TTT-T-GGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGA
521 TTTATAGGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGA
1790637 CACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTA
586 CACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTA
1790702 CCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGATCGACA
651 CCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACA
1790766 CTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAA
716 CTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAA
1790830 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1790895 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTT-GGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1790959 CGACAC-TTTT-TATATGAATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
*
1791022 AAAATATTGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
1791087 TAAACTTG-CCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
261 TAAACTTGACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
* *
1791151 GGATCAACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTTATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
1791216 AACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
391 AACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
1791281 CCGGTAAACTTGT--CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGT
456 CCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTC-----
*
1791344 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
516 ------GAT-G------TTT-TATAGGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
*
1791409 TCTGGAACAAAAATATCTACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCA
567 TCTGGAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCA
*
1791474 TAAAACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGATTTTC
632 TAAAACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTC
1791539 GATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCA
697 GATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCA
1791604 TTCATTCTGGAACAAAAA
762 TTCATTCTGGAACAAAAA
1791622 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1791687 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC--TT---TT-G--G--TTT----T
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
1791738 CG--A-TGTTT-T-T-GGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
1791797 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
1791862 TAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
261 TAAACTTG-ACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
*
1791927 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTACATTCATTCTG
325 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
1791992 GAAC-AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
390 GAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
1792056 ACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
455 ACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC--TT---TT-G--G-
* * * *
1792121 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCGCCCTGTTTTCCATTCAT
511 -TTT----TCG--A-TGTTT-TATAGGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
*
1792186 TCTGGAAC-AAAATATCGACACAAACTAAATTAGTGTCGACACATT-TTTTGACATATTCTCTCA
567 TCTGGAACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCA
1792249 TAAAACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTC
632 TAAAACCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTC
* * *
1792314 GATGTTTTTGGGATTGACACTTTTTATATATGGATCGACACTTTATGGTTGCATCCTGTT
697 GATGTTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
1792374 GGCCATATTG
Statistics
Matches: 2967, Mismatches: 47, Indels: 140
0.94 0.01 0.04
Matches are distributed among these distances:
752 41 0.01
753 272 0.09
754 334 0.11
755 2 0.00
756 5 0.00
757 6 0.00
758 3 0.00
759 7 0.00
760 3 0.00
770 45 0.02
772 323 0.11
773 4 0.00
774 52 0.02
775 830 0.28
776 245 0.08
777 330 0.11
778 75 0.03
779 3 0.00
780 2 0.00
781 4 0.00
782 1 0.00
783 6 0.00
784 2 0.00
785 1 0.00
786 1 0.00
787 1 0.00
788 8 0.00
789 1 0.00
790 3 0.00
791 171 0.06
792 186 0.06
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (779 bp):
TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TAAACTTGACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
AACAAAAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
CCGGTAAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGT
TTTATAGGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGA
CACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAACTTGTA
CCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACA
CTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAACAAAAA
Found at i:1792534 original size:19 final size:19
Alignment explanation
Indices: 1792488--1792536 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1792478 TTATATTCAC
*
1792488 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
1792507 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1792526 ATACAAAATTA
1 ATACAAAATTA
1792537 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1794362 original size:33 final size:33
Alignment explanation
Indices: 1794325--1794390 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1794315 CATCTTAATA
*
1794325 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
1794358 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
1794391 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:1794449 original size:21 final size:21
Alignment explanation
Indices: 1794424--1794467 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1794414 CCCCTTATGC
1794424 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
1794445 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
1794466 CT
1 CT
1794468 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:1797552 original size:227 final size:228
Alignment explanation
Indices: 1796958--1797899 Score: 1793
Period size: 228 Copynumber: 4.1 Consensus size: 228
1796948 ACTTTTATAC
1796958 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA--T
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1797021 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
66 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
*
1797086 TATTTGATTATTTGATATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATTAACCAAAG
131 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
1797151 ATAATAATAAATATGTTTTCCACAGTGAAATAA
196 ATAATAATAAATATGTTTTCCACAGTGAAATAA
1797184 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
1797249 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAAAAAAAAT
66 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
1797314 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
131 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
1797379 ATAATAATAAATATGTTTTCCACAGTGAAATAA
196 ATAATAATAAATATGTTTTCCACAGTGAAATAA
1797412 GTATGGACACTTTTAT-AAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1797476 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
66 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
1797541 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
131 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
*
1797606 ATAATAATAAATATGTTTTCCACATTGAAATAA
196 ATAATAATAAATATGTTTTCCACAGTGAAATAA
1797639 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
1797704 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAAT
66 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
1797769 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
131 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
*
1797834 ATAATAATAAATATATTTT-CACAGTGAAATAA
196 ATAATAATAAATATGTTTTCCACAGTGAAATAA
* *
1797866 GTATGGACACTTTTATAAAAAGGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
1797900 ACAGTATAAC
Statistics
Matches: 704, Mismatches: 9, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
226 62 0.09
227 269 0.38
228 373 0.53
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (228 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
ATAATAATAAATATGTTTTCCACAGTGAAATAA
Found at i:1797899 original size:455 final size:454
Alignment explanation
Indices: 1796958--1797899 Score: 1789
Period size: 455 Copynumber: 2.1 Consensus size: 454
1796948 ACTTTTATAC
1796958 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1797023 TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTA
66 TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTA
1797088 TTTGATTATTTGATATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATTAACCAAAGAT
131 TTTGATTATTTGATATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATTAACCAAAGAT
1797153 AATAATAAATATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATACTTT
196 AATAATAAATATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATACTTT
1797218 TTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATA
261 TTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATA
1797283 TTAATTTAATAATTTCATTTACAAAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATT
326 TTAATTTAATAATTTCATTTACAAAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATT
*
1797348 TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTTTTCCACAGTGAAATAA
391 TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCCACAGTGAAATAA
1797412 GTATGGACACTTTTAT-AAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA--T
1797476 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
64 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
*
1797541 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
129 TATTTGATTATTTGATATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATTAACCAAAG
*
1797606 ATAATAATAAATATGTTTTCCACATTGAAATAAGTATGGACACTTTTATAAAAATGATATATACT
194 ATAATAATAAATATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATACT
1797671 TTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAA
259 TTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAA
* *
1797736 TATTAATTTAATAATTTCATTTACACACAAAATTATTTGATTATTTGATATTTTATAAAATATTA
324 TATTAATTTAATAATTTCATTTACAAAAAAAATTATTTGATTATTTGATATTTTATAAAATATTA
1797801 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTT-CACAGTGAAATA
389 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCCACAGTGAAATA
1797865 A
454 A
* *
1797866 GTATGGACACTTTTATAAAAAGGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
1797900 ACAGTATAAC
Statistics
Matches: 478, Mismatches: 7, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
453 45 0.09
454 45 0.09
455 388 0.81
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (454 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTA
TTTGATTATTTGATATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATTAACCAAAGAT
AATAATAAATATGTTTTCCACAGTGAAATAAGTATGGACACTTTTATAAAAATGATATATACTTT
TTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTCATTTACAAAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATT
TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCCACAGTGAAATAA
Found at i:1801206 original size:32 final size:31
Alignment explanation
Indices: 1801133--1801208 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
1801123 CTAATGTGAC
* *
1801133 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
** * **
1801164 TCTCGGGTAGGCCCTGCGGGCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-CAT
1801196 TCTTAGGTAGGCC
1 TCTTAGGTAGGCC
1801209 ACGTGGCCCC
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.66
32 12 0.34
ACGTcount: A:0.14, C:0.25, G:0.33, T:0.28
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
Found at i:1806448 original size:32 final size:31
Alignment explanation
Indices: 1806375--1806450 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
1806365 CTAATGTGAC
* * *
1806375 TCTTAGGTAGGCTCTGTGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
** **
1806406 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-CAT
1806438 TCTTAGGTAGGCC
1 TCTTAGGTAGGCC
1806451 ACGTGGCCCC
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.66
32 12 0.34
ACGTcount: A:0.14, C:0.25, G:0.32, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
Found at i:1809601 original size:33 final size:33
Alignment explanation
Indices: 1809554--1809630 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 33
1809544 CTGCATGGAA
1809554 CATGCACGTCCCCAACACCCCAACACAGGTCGC
1 CATGCACGTCCCCAACACCCCAACACAGGTCGC
* *
1809587 CATGTACGTCCCCAACACCCCAACACAGGTCGT
1 CATGCACGTCCCCAACACCCCAACACAGGTCGC
1809620 CATGCAC-TCCC
1 CATGCACGTCCC
1809631 AGTGACCTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 4 0.10
33 37 0.90
ACGTcount: A:0.26, C:0.47, G:0.14, T:0.13
Consensus pattern (33 bp):
CATGCACGTCCCCAACACCCCAACACAGGTCGC
Found at i:1809656 original size:29 final size:29
Alignment explanation
Indices: 1809613--1809724 Score: 134
Period size: 29 Copynumber: 3.9 Consensus size: 29
1809603 ACCCCAACAC
* *
1809613 AGGTCGTCATGCACTCCCAGTGACCTACA
1 AGGTCGCCATGCACTCCCAGCGACCTACA
*
1809642 AGGTCGCCATTCACTCCCAGCGACCTACA
1 AGGTCGCCATGCACTCCCAGCGACCTACA
* ***
1809671 AGGTCACCATGCACTCCCAGCGACCTTGT
1 AGGTCGCCATGCACTCCCAGCGACCTACA
* * *
1809700 AGGTCGCCAAGCAATCCCGGCGACC
1 AGGTCGCCATGCACTCCCAGCGACC
1809725 AAGCTCTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.23, C:0.38, G:0.21, T:0.17
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCAGCGACCTACA
Found at i:1809839 original size:22 final size:22
Alignment explanation
Indices: 1809811--1809856 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
1809801 CCTGGTCGCT
*
1809811 CTGGCGACCAAACTTATCCCTG
1 CTGGCGACCAAACTTAACCCTG
1809833 CTGGCGACCAAACTTAACCCTG
1 CTGGCGACCAAACTTAACCCTG
1809855 CT
1 CT
1809857 CCCTCGTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.22
Consensus pattern (22 bp):
CTGGCGACCAAACTTAACCCTG
Found at i:1809902 original size:23 final size:23
Alignment explanation
Indices: 1809872--1809915 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
1809862 GTGCATGGGT
1809872 TGCATCCATAGCTGGGAGATTCC
1 TGCATCCATAGCTGGGAGATTCC
1809895 TGCATCCATAGCTGGGAGATT
1 TGCATCCATAGCTGGGAGATT
1809916 GTAGCCACGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (23 bp):
TGCATCCATAGCTGGGAGATTCC
Found at i:1810383 original size:28 final size:30
Alignment explanation
Indices: 1810341--1810402 Score: 101
Period size: 28 Copynumber: 2.1 Consensus size: 30
1810331 AATTTAGTTA
*
1810341 ATTAGTTTGTTAGTTTAAG-T-TATATTAT
1 ATTAGTTTGTCAGTTTAAGTTATATATTAT
1810369 ATTAGTTTGTCAGTTTAAGTTATATATTAT
1 ATTAGTTTGTCAGTTTAAGTTATATATTAT
1810399 ATTA
1 ATTA
1810403 TATAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 18 0.58
29 1 0.03
30 12 0.39
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.55
Consensus pattern (30 bp):
ATTAGTTTGTCAGTTTAAGTTATATATTAT
Found at i:1810462 original size:44 final size:48
Alignment explanation
Indices: 1810362--1810463 Score: 117
Period size: 48 Copynumber: 2.2 Consensus size: 48
1810352 AGTTTAAGTT
*
1810362 ATATTATATTAGTTTGTCAGTTTAAGTTATATATTATATTATATAAAAAA
1 ATATTA-ATTAGTTTCTCAGTTTAAGTTATATA-TATATTATATAAAAAA
*
1810412 AT-TTAATTAGTTTCTTAGTTTAAGTTAT-TA-A-A-TATA-AAAAAA
1 ATATTAATTAGTTTCTCAGTTTAAGTTATATATATATTATATAAAAAA
1810454 ATAATTAATT
1 AT-ATTAATT
1810464 TGTTAGTATC
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
42 8 0.17
43 4 0.08
44 7 0.15
45 1 0.02
47 2 0.04
48 21 0.44
49 3 0.06
50 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (48 bp):
ATATTAATTAGTTTCTCAGTTTAAGTTATATATATATTATATAAAAAA
Found at i:1814264 original size:26 final size:24
Alignment explanation
Indices: 1814234--1814308 Score: 82
Period size: 23 Copynumber: 3.1 Consensus size: 24
1814224 ATGATTTAGT
*
1814234 ATGATATATATAATCATTATAATG
1 ATGATATATATAATCATTATAATA
*
1814258 AT-TTGATAT-TAATCATTATAATA
1 ATGAT-ATATATAATCATTATAATA
*
1814281 ATGATTTAGTAATAATCATTATAATA
1 ATGATATA-T-ATAATCATTATAATA
1814307 AT
1 AT
1814309 ATTTAATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
23 18 0.43
24 8 0.19
26 16 0.38
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (24 bp):
ATGATATATATAATCATTATAATA
Found at i:1814320 original size:113 final size:115
Alignment explanation
Indices: 1814177--1814394 Score: 306
Period size: 114 Copynumber: 1.9 Consensus size: 115
1814167 AAAATGATGA
*
1814177 TAATAATCATTAAATGATTAATAATGAATTT-AATATTTAATGATTTGATGATTTAGT-ATGA-T
1 TAATAATCATTAAATAATTAATAATGAATTTAAATATTT-ATGA-TTGATGATTTAGTAATGATT
* *
1814239 -ATATATAATCATTATA-ATGATTTGATATTAATCATTATAATAATGATTTAG
64 GATA-ATAATCATTATATATGATTTAATAATAATCATTATAATAATGATTTAG
*
1814290 TAATAATCATTATAATAA-TATTTAAT-AATTTAAATATTTATGATTGATGATTTAGTAATGATT
1 TAATAATCATTA-AATAATTA-ATAATGAATTTAAATATTTATGATTGATGATTTAGTAATGATT
1814353 GATAATAATCATTATATATGATTTAATAATAATCATTATAAT
64 GATAATAATCATTATATATGATTTAATAATAATCATTATAAT
1814395 CATTATAATA
Statistics
Matches: 94, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
112 13 0.14
113 27 0.29
114 28 0.30
115 26 0.28
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (115 bp):
TAATAATCATTAAATAATTAATAATGAATTTAAATATTTATGATTGATGATTTAGTAATGATTGA
TAATAATCATTATATATGATTTAATAATAATCATTATAATAATGATTTAG
Found at i:1814388 original size:89 final size:91
Alignment explanation
Indices: 1814253--1814450 Score: 248
Period size: 89 Copynumber: 2.2 Consensus size: 91
1814243 ATAATCATTA
* * *
1814253 TAATGATTTGATATTAATCATTATAATAATGATTTAGTAATAATCATTATAATAATATTTAATAA
1 TAATGA-TTGATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAAT-TATAATAA
1814318 T-TTAAATATTTATGA-TTGAT-G-ATTTAG
64 TATTAAATA---ATGATTTGATAGTATTTAG
*
1814345 TAATGATTGATAATAATCATTAT-AT-ATGATTTAATAATAATCATTATAATCATTATAATAATA
1 TAATGATTGATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATTATAATAATA
*
1814408 TTTAATAATGATTTGATAGTATTTAG
66 TTAAATAATGATTTGATAGTATTTAG
1814434 TAATGATT-AGTAATAAT
1 TAATGATTGA-TAATAAT
1814451 GAAATTATTA
Statistics
Matches: 96, Mismatches: 5, Indels: 13
0.84 0.04 0.11
Matches are distributed among these distances:
86 4 0.04
87 5 0.05
88 10 0.10
89 53 0.55
90 2 0.02
91 16 0.17
92 6 0.06
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (91 bp):
TAATGATTGATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATTATAATAATA
TTAAATAATGATTTGATAGTATTTAG
Found at i:1814402 original size:21 final size:22
Alignment explanation
Indices: 1814243--1814420 Score: 91
Period size: 24 Copynumber: 7.8 Consensus size: 22
1814233 TATGATATAT
*
1814243 ATAATCATTATAATGATTTGATA
1 ATAATCATTATAATGA-TTAATA
* *
1814266 TTAATCATTATAATAATGATTTAGTA
1 ATAATCA-T-T-ATAATGA-TTAATA
* *
1814292 ATAATCATTATAAT-AATATTTA
1 ATAATCATTATAATGATTA-ATA
*
1814314 ATAAT--TTA-AAT-ATTTATGA
1 ATAATCATTATAATGATTAAT-A
* * * *
1814333 TTGATGATTTAGTAATGATTGATA
1 ATAATCA-TTA-TAATGATTAATA
1814357 ATAATCATTATATATGATTTAATA
1 ATAATCATTATA-ATGA-TTAATA
*
1814381 ATAATCATTATAATCATT-ATA
1 ATAATCATTATAATGATTAATA
1814402 ATAAT-ATTTAATAATGATT
1 ATAATCA-TT-ATAATGATT
1814421 TGATAGTATT
Statistics
Matches: 122, Mismatches: 18, Indels: 31
0.71 0.11 0.18
Matches are distributed among these distances:
18 1 0.01
19 9 0.07
20 4 0.03
21 12 0.10
22 23 0.19
23 21 0.17
24 27 0.22
25 7 0.06
26 18 0.15
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (22 bp):
ATAATCATTATAATGATTAATA
Found at i:1814407 original size:113 final size:112
Alignment explanation
Indices: 1814176--1814407 Score: 287
Period size: 113 Copynumber: 2.1 Consensus size: 112
1814166 AAAAATGATG
*
1814176 ATAATAATCATTAAATGATTAATAATGAATTTAATATTTAATGATTTGATGATTTAGTATGATAT
1 ATAATAATCATTAAATAATTAATAATGAATTTAATATTTAATGATTTGATGATTTAGTATGATAT
* * *
1814241 ATATAATCATTATAATGATTTGATATTAATCATTATAATAATGATTTA
66 ATATAATCATTATAATGATTTAATAATAATCATTATAATAAT-ATATA
* *
1814289 GTAATAATCATTATAATAA-TATTTAAT-AATTTAAATATTT-ATGA-TTGATGATTTAGTAATG
1 ATAATAATCATTA-AATAATTA-ATAATGAATTT-AATATTTAATGATTTGATGATTTAGT-ATG
*
1814350 AT-TGATAATAATCATTATATATGATTTAATAATAATCATTATAATCAT-TATA
62 ATAT-AT-ATAATCATTATA-ATGATTTAATAATAATCATTATAATAATATATA
1814402 ATAATA
1 ATAATA
1814408 TTTAATAATG
Statistics
Matches: 104, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
112 14 0.13
113 38 0.37
114 27 0.26
115 25 0.24
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (112 bp):
ATAATAATCATTAAATAATTAATAATGAATTTAATATTTAATGATTTGATGATTTAGTATGATAT
ATATAATCATTATAATGATTTAATAATAATCATTATAATAATATATA
Found at i:1814482 original size:13 final size:13
Alignment explanation
Indices: 1814464--1814488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1814454 ATTATTATTA
1814464 ATATTAATGATTG
1 ATATTAATGATTG
1814477 ATATTAATGATT
1 ATATTAATGATT
1814489 AGTAATAATG
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:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
ATATTAATGATTG
Found at i:1814540 original size:10 final size:10
Alignment explanation
Indices: 1814527--1814553 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1814517 AATGATTTGA
1814527 TAGTAATGAT
1 TAGTAATGAT
1814537 TAGTAATGAT
1 TAGTAATGAT
1814547 TAGTAAT
1 TAGTAAT
1814554 AATAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:1814587 original size:44 final size:45
Alignment explanation
Indices: 1814530--1814626 Score: 180
Period size: 44 Copynumber: 2.2 Consensus size: 45
1814520 GATTTGATAG
1814530 TAATGA-TTAGTAATGATTAGTAATAATAATTTATT-TTAATATT
1 TAATGATTTAGTAATGATTAGTAATAATAATTTATTATTAATATT
1814573 TAATGATTTAGTAATGATTAGTAATAATAATTTATTATTAATATT
1 TAATGATTTAGTAATGATTAGTAATAATAATTTATTATTAATATT
1814618 TAATGATTT
1 TAATGATTT
1814627 GATACTAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 6 0.12
44 29 0.56
45 17 0.33
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.49
Consensus pattern (45 bp):
TAATGATTTAGTAATGATTAGTAATAATAATTTATTATTAATATT
Found at i:1814602 original size:106 final size:107
Alignment explanation
Indices: 1814413--1814852 Score: 665
Period size: 109 Copynumber: 4.2 Consensus size: 107
1814403 TAATATTTAA
1814413 TAATGATTTGATAG---T-ATTTAGTAATGATTAGTAATAATGAAATTATTATTAATA-TTAATG
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
* *
1814473 ATTGATATTAATGATTAGTAATAATGAAATTATTATTAATTTT
66 ATT-ATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
*
1814516 TAATGATTTGATAGTAATGA-TTAGTAATGATTAGTAATAAT-AATTTATT-TTAATATTTAATG
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
*
1814578 ATT-TAGTAATGATTAGTAATAAT-AATTTATTATTAATATT
66 ATTATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
* * *
1814618 TAATGATTTGATACTAATAATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
1814683 ATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
66 A-TT-ATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
* *
1814727 TAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATG
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
*
1814792 ATT-TAGTAATTATTAGTAATAATGAAATTATTATTAATATT
66 ATTATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1814833 TAATGA-TT--TAGTAATGATTT
1 TAATGATTTGATAGTAATGATTT
1814853 GTTAAGGTTT
Statistics
Matches: 310, Mismatches: 15, Indels: 24
0.89 0.04 0.07
Matches are distributed among these distances:
102 33 0.11
103 64 0.21
104 13 0.04
105 32 0.10
106 67 0.22
107 1 0.00
108 22 0.07
109 78 0.25
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (107 bp):
TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
ATTATAGTAATGATTAGTAATAATGAAATTATTATTAATATT
Found at i:1814665 original size:162 final size:165
Alignment explanation
Indices: 1814481--1814795 Score: 496
Period size: 162 Copynumber: 1.9 Consensus size: 165
1814471 TGATTGATAT
*
1814481 TAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAG-TAATG
1 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGATAATG
*
1814545 -ATTAGTAATAATAATTT-AT-TTTAATATTTAATGATTTAGTAATGATTAGTAATAAT-AATTT
66 AATTAGTAATAAT-ATTTAATATTTAATA-TTAATGATTTAGTAATGATTAGTAATAATAAAATT
1814606 ATTATTAATATTTAATGATTTGATACTAATAATTTAA
129 ATTATTAATATTTAATGATTTGATACTAATAATTTAA
1814643 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAATAA
1 TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAG--ATAA
* * *
1814708 TGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAATAAAA
64 TG-AATTAGTAATAATATTTAAT-ATTTAATATTAATGATTTAGTAATGATTAGTAATAATAAAA
1814773 TTATTATTAATATTTAATGATTT
127 TTATTATTAATATTTAATGATTT
1814796 AGTAATTATT
Statistics
Matches: 139, Mismatches: 5, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
162 58 0.42
165 5 0.04
166 4 0.03
167 12 0.09
168 29 0.21
169 31 0.22
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (165 bp):
TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGATAATG
AATTAGTAATAATATTTAATATTTAATATTAATGATTTAGTAATGATTAGTAATAATAAAATTAT
TATTAATATTTAATGATTTGATACTAATAATTTAA
Found at i:1814675 original size:60 final size:59
Alignment explanation
Indices: 1814573--1814710 Score: 213
Period size: 60 Copynumber: 2.3 Consensus size: 59
1814563 TTTTAATATT
* *
1814573 TAATGATTTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATAC
1 TAATGATTTAATAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAC
* *
1814632 TAATAATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAG
1 TAATGATTTAATAATGATTAGTAATAAT-AAATTATTATTAATATTTAATGATTTGATAC
1814692 TAATGATTAGTAATAATGA
1 TAATGATT--TAATAATGA
1814711 AATTATTATT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
59 26 0.37
60 36 0.51
62 9 0.13
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.45
Consensus pattern (59 bp):
TAATGATTTAATAATGATTAGTAATAATAAATTATTATTAATATTTAATGATTTGATAC
Found at i:1814748 original size:49 final size:49
Alignment explanation
Indices: 1814431--1814648 Score: 245
Period size: 47 Copynumber: 4.4 Consensus size: 49
1814421 TGATAGTATT
1814431 TAGTAATGATTAGTAATAATGAAATTATTATTAATA-TTAATGA-TTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* *
1814478 TATTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* *
1814527 TAGTAATGATTAGTAATGATTAGTAATAATAATTTATTTTAATATTTAATGA-TT--
1 TAGTAATGATTAGTAAT-A--A-TGA-AATTA-TTA--TTAATATTTAATGATTTGA
*
1814581 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* *
1814629 TACTAATAATT--TAATAATGA
1 TAGTAATGATTAGTAATAATGA
1814649 TTAGTAATAA
Statistics
Matches: 147, Mismatches: 10, Indels: 28
0.79 0.05 0.15
Matches are distributed among these distances:
45 14 0.10
46 9 0.06
47 38 0.26
48 19 0.13
49 21 0.14
50 2 0.01
51 1 0.01
52 1 0.01
53 3 0.02
54 21 0.14
55 3 0.02
56 2 0.01
57 13 0.09
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:1814795 original size:46 final size:46
Alignment explanation
Indices: 1814740--1814851 Score: 206
Period size: 46 Copynumber: 2.4 Consensus size: 46
1814730 TGATTTGATA
1814740 TTAATGATTTAGTAATGATTAGTAATAATAAAATTATTATTAATAT
1 TTAATGATTTAGTAATGATTAGTAATAATAAAATTATTATTAATAT
* *
1814786 TTAATGATTTAGTAATTATTAGTAATAATGAAATTATTATTAATAT
1 TTAATGATTTAGTAATGATTAGTAATAATAAAATTATTATTAATAT
1814832 TTAATGATTTAGTAATGATT
1 TTAATGATTTAGTAATGATT
1814852 TGTTAAGGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (46 bp):
TTAATGATTTAGTAATGATTAGTAATAATAAAATTATTATTAATAT
Found at i:1817136 original size:64 final size:65
Alignment explanation
Indices: 1817068--1817231 Score: 199
Period size: 64 Copynumber: 2.5 Consensus size: 65
1817058 AAATAGCCTG
* *
1817068 GTGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAA-TTAAATCA-G
1 GTGCATCGATGCATGGATTGTGCATCGGTGCATCAAATGCATTCGATGTTTCAACTT-AATCATG
1817131 A
65 A
** ** * *
1817132 GTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTTGATGTTTCAACTTATTCATTG
1 GTGCATCGATGCATGGATTGTGCATCGGTGCATCAAATGCATTCGATGTTTCAACTTAATCA-TG
1817197 A
65 A
1817198 -TGCATCGATGCATGGTATTGATGCATCGGTGCAT
1 GTGCATCGATGCATGG-ATTG-TGCATCGGTGCAT
1817232 ACCTTTGAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
64 51 0.60
65 17 0.20
66 4 0.05
67 13 0.15
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (65 bp):
GTGCATCGATGCATGGATTGTGCATCGGTGCATCAAATGCATTCGATGTTTCAACTTAATCATGA
Found at i:1817153 original size:19 final size:19
Alignment explanation
Indices: 1817129--1817167 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1817119 TAATTAAATC
1817129 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
1817148 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
1817167 A
1 A
1817168 ATGCATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.38, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:1819398 original size:19 final size:17
Alignment explanation
Indices: 1819358--1819400 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
1819348 GAAATCCAAT
*
1819358 AAAAATT-TTTTTTTTG
1 AAAAATTGTTTTTTTGG
1819374 AAAAATTGTTTGTTTTGG
1 AAAAATTGTTT-TTTTGG
1819392 AAGAAATTG
1 AA-AAATTG
1819401 GCAGTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 3 0.13
18 7 0.30
19 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (17 bp):
AAAAATTGTTTTTTTGG
Found at i:1819830 original size:24 final size:23
Alignment explanation
Indices: 1819759--1819838 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
1819749 CATGATCTTG
* *
1819759 TGCATCAATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGGGA
* *
1819782 TGCATCGGTG--CA-TCATGAGGA
1 TGCATCGATGCACATTCAAG-GGA
1819803 TGCATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGGA
1819827 TGCATCGATGCA
1 TGCATCGATGCA
1819839 TTGTTAAGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 4 0.09
21 13 0.28
23 10 0.22
24 17 0.37
25 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:1819851 original size:44 final size:43
Alignment explanation
Indices: 1819737--1819858 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 43
1819727 AAACCCGACC
* *
1819737 GATGCATCGATGCA-TGATCT-TGTGCATCAATGCACATTCAAGG
1 GATGCATCGATGCATTG-T-TAAGTGCATCGATGCACATTCAAGG
* * ** * *
1819780 CATGCATCGGTGCATCATGAGGATGCATCGATGCACATTCAAAGG
1 GATGCATCGATGCATTGTTAAG-TGCATCGATGCACATTC-AAGG
*
1819825 GATGCATCGATGCATTGTTAAGTGCATCGGTGCA
1 GATGCATCGATGCATTGTTAAGTGCATCGATGCA
1819859 TTAAGCACAA
Statistics
Matches: 61, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
43 14 0.23
44 27 0.44
45 20 0.33
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (43 bp):
GATGCATCGATGCATTGTTAAGTGCATCGATGCACATTCAAGG
Found at i:1825668 original size:18 final size:17
Alignment explanation
Indices: 1825614--1825662 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1825604 TTGGACTCCT
* *
1825614 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
1825632 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
1825650 AGTGCATTCGATG
1 AGTGCA-TCGATG
1825663 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:1825747 original size:64 final size:62
Alignment explanation
Indices: 1825614--1825775 Score: 175
Period size: 64 Copynumber: 2.5 Consensus size: 62
1825604 TTGGACTCCT
* * * *
1825614 AGTGCATCGGTGCACT-AAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAAAAATAGCC
1 AGTGCATCGATGCA-TGGAGAGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAG-C
* ** *
1825677 TGGTGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCAG
1 -AGTGCATCGATGCATGGAGAGTGCATCGATGCATCAAATGCATTCGATGTTTGAA--AAAT-AG
1825742 -
62 C
*
1825742 AGTGCATCGATGCATGGAGAGTGCATCGGTGCAT
1 AGTGCATCGATGCATGGAGAGTGCATCGATGCAT
1825776 GGAGAGTGCA
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
63 1 0.01
64 75 0.91
66 4 0.05
67 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (62 bp):
AGTGCATCGATGCATGGAGAGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGC
Found at i:1825764 original size:19 final size:19
Alignment explanation
Indices: 1825740--1825809 Score: 99
Period size: 19 Copynumber: 3.7 Consensus size: 19
1825730 TAATTAAATC
1825740 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
1825759 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
*
1825778 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
1825797 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
1825810 TTTCAACTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
17 4 0.08
18 6 0.12
19 38 0.79
ACGTcount: A:0.24, C:0.16, G:0.37, T:0.23
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:1825775 original size:83 final size:85
Alignment explanation
Indices: 1825679--1825862 Score: 225
Period size: 83 Copynumber: 2.2 Consensus size: 85
1825669 AAATAGCCTG
* ** *
1825679 GTGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAA-TTAAATCA-G
1 GTGCATCGGTGCATGGAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAACTT-AATCATG
1825742 AGTGCATCGATGCATGG-A-GA
65 A-TGCATCGATGCATGGTATGA
* ** *
1825762 GTGCATCGGTGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTTTCAACTTATTCATTG
1 GTGCATCGGTGCATGGAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAACTTAATCA-TG
1825827 ATGCATCGATGCATGGTATTGA
65 ATGCATCGATGCATGGTA-TGA
1825849 -TGCATCGGTGCATG
1 GTGCATCGGTGCATG
1825863 CCTTTGAAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
83 51 0.59
84 17 0.20
85 3 0.03
86 14 0.16
87 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (85 bp):
GTGCATCGGTGCATGGAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAACTTAATCATGA
TGCATCGATGCATGGTATGA
Found at i:1825847 original size:21 final size:21
Alignment explanation
Indices: 1825823--1825862 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1825813 CAACTTATTC
1825823 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
1825844 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
1825863 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:1826790 original size:15 final size:16
Alignment explanation
Indices: 1826770--1826803 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
1826760 CAAAAAAATT
1826770 TAATATAAT-AACTTA
1 TAATATAATAAACTTA
1826785 TAATATAATAAACTTA
1 TAATATAATAAACTTA
1826801 TAA
1 TAA
1826804 AGTAACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATAATAAACTTA
Found at i:1827090 original size:17 final size:17
Alignment explanation
Indices: 1827068--1827100 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1827058 ATTTTTTACC
1827068 CTAACCCTAAACTAACT
1 CTAACCCTAAACTAACT
1827085 CTAACCCTAAACTAAC
1 CTAACCCTAAACTAAC
1827101 AAACTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.21
Consensus pattern (17 bp):
CTAACCCTAAACTAACT
Found at i:1827439 original size:22 final size:22
Alignment explanation
Indices: 1827409--1827462 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
1827399 GGTGCATGGA
1827409 GCAGC-GGGAGAAGGCGAGCAT
1 GCAGCGGGGAGAAGGCGAGCAT
* *
1827430 GCAGTGGGGAGCAGGCGAGCAT
1 GCAGCGGGGAGAAGGCGAGCAT
1827452 GCAGCGGGGAG
1 GCAGCGGGGAG
1827463 TAGGGCCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 4 0.14
22 25 0.86
ACGTcount: A:0.24, C:0.19, G:0.52, T:0.06
Consensus pattern (22 bp):
GCAGCGGGGAGAAGGCGAGCAT
Found at i:1827521 original size:29 final size:29
Alignment explanation
Indices: 1827486--1827589 Score: 129
Period size: 29 Copynumber: 3.6 Consensus size: 29
1827476 AAGGTCGCGG
*
1827486 GGCGTGCATGGCGACCTACCAT-GTCGCCT
1 GGCGTGCATGGCGACCT-CCATGGTCGCCC
*
1827515 GGCGTGCATGGCGACCTCCTTGGTCGCCC
1 GGCGTGCATGGCGACCTCCATGGTCGCCC
* *
1827544 GGAGTGCATGGCGACCTCCTTGGTCGCCC
1 GGCGTGCATGGCGACCTCCATGGTCGCCC
* * *
1827573 AGAGGGCATGGCGACCT
1 GGCGTGCATGGCGACCT
1827590 ATGTTTTGGG
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.12, C:0.34, G:0.35, T:0.19
Consensus pattern (29 bp):
GGCGTGCATGGCGACCTCCATGGTCGCCC
Found at i:1827638 original size:20 final size:20
Alignment explanation
Indices: 1827613--1827650 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1827603 TGCATGTCCC
1827613 ATGCAACGTTAATTCATGCG
1 ATGCAACGTTAATTCATGCG
1827633 ATGCAACGTTAATTCATG
1 ATGCAACGTTAATTCATG
1827651 TGACGTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (20 bp):
ATGCAACGTTAATTCATGCG
Found at i:1835159 original size:41 final size:41
Alignment explanation
Indices: 1835132--1835209 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
1835122 GCAAATTGGG
* * *
1835132 AAAATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAC
*
1835173 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATA
1835210 CTGACTTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAC
Found at i:1835160 original size:20 final size:20
Alignment explanation
Indices: 1835135--1835228 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
1835125 AATTGGGAAA
*
1835135 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
1835155 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
1835176 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
1835196 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
1835216 TTCGCAACGCGAT
1 ATCGCAACGCGAT
1835229 TTACATAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:1835291 original size:9 final size:9
Alignment explanation
Indices: 1835277--1835305 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
1835267 ATCCTGGCCA
1835277 AGTATTGGC
1 AGTATTGGC
1835286 AGTATTGGC
1 AGTATTGGC
1835295 AGTATTGGC
1 AGTATTGGC
1835304 AG
1 AG
1835306 CAATCGAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.24, C:0.10, G:0.34, T:0.31
Consensus pattern (9 bp):
AGTATTGGC
Found at i:1835818 original size:20 final size:20
Alignment explanation
Indices: 1835725--1835818 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
1835715 CGCTATGTAA
* *
1835725 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTAAGT
*
1835745 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
* * * *
1835765 ATCTCGTTACGATTTTGT-ATT
1 ATCGCGTTGCGA--TAGTAAGT
*
1835786 ATCGCATTGCGATAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
*
1835806 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
1835819 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.73
21 11 0.18
22 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTAAGT
Found at i:1835836 original size:21 final size:21
Alignment explanation
Indices: 1835807--1835882 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1835797 ATAGTAAGTA
1835807 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
1835828 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
1835848 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
*
1835869 TCGCGTTGCGATTT
1 TCGCATTGCGATTT
1835883 ACTTATTCGC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:1835837 original size:41 final size:41
Alignment explanation
Indices: 1835746--1835880 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
1835736 AAAGTCAGTA
* * * * ** *
1835746 TCGCGTTGCGAAAGTAAGTATCTCGTTACGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
1835786 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
1835828 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
1835869 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1835881 TTACTTATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:1835851 original size:20 final size:20
Alignment explanation
Indices: 1835826--1835892 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
1835816 GATTTTCCCA
1835826 ATTCGCGTTGCGATTTACTT
1 ATTCGCGTTGCGATTTACTT
* * **
1835846 ATTCGCATTGCGATTTTCCCA
1 ATTCGCGTTGCGA-TTTACTT
1835867 ATTCGCGTTGCGATTTACTT
1 ATTCGCGTTGCGATTTACTT
1835887 ATTCGC
1 ATTCGC
1835893 ATCGCGAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (20 bp):
ATTCGCGTTGCGATTTACTT
Found at i:1835881 original size:41 final size:41
Alignment explanation
Indices: 1835807--1835899 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
1835797 ATAGTAAGTA
1835807 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1835848 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
*
1835889 TCGCATCGCGA
1 TCGCATTGCGA
1835900 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.39
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:1835899 original size:20 final size:20
Alignment explanation
Indices: 1835807--1835899 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
1835797 ATAGTAAGTA
* **
1835807 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
1835828 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
1835848 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
1835869 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
*
1835889 TCGCATCGCGA
1 TCGCATTGCGA
1835900 ATTGGGAAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.54
21 26 0.46
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:1836696 original size:20 final size:20
Alignment explanation
Indices: 1836671--1836723 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1836661 TGGTTTACGG
*
1836671 AATGTAAGATTGTC-AGTGAA
1 AATGTAAGATT-ACGAGTGAA
* *
1836691 AATGTAAAATTACGAGTGGA
1 AATGTAAGATTACGAGTGAA
1836711 AATGTAAGATTAC
1 AATGTAAGATTAC
1836724 CAGGGAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.43, C:0.06, G:0.23, T:0.28
Consensus pattern (20 bp):
AATGTAAGATTACGAGTGAA
Found at i:1836930 original size:2 final size:2
Alignment explanation
Indices: 1836923--1836959 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1836913 TCATAAAATT
1836923 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 T
1836960 GCCATGGCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1850968 original size:7 final size:7
Alignment explanation
Indices: 1850956--1850984 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
1850946 ATAAGGCAAT
1850956 GCTTCGA
1 GCTTCGA
1850963 GCTTCGA
1 GCTTCGA
1850970 GCTTCGA
1 GCTTCGA
1850977 GCTTCGA
1 GCTTCGA
1850984 G
1 G
1850985 AACTACACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.31, T:0.28
Consensus pattern (7 bp):
GCTTCGA
Found at i:1861681 original size:13 final size:14
Alignment explanation
Indices: 1861663--1861692 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1861653 AGTTGGACAA
1861663 TCTTCATATGCA-G
1 TCTTCATATGCATG
1861676 TCTTCATATGCATG
1 TCTTCATATGCATG
1861690 TCT
1 TCT
1861693 GTAATGGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.43
Consensus pattern (14 bp):
TCTTCATATGCATG
Found at i:1862137 original size:22 final size:23
Alignment explanation
Indices: 1862081--1862138 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
1862071 AGTCTGCTTG
*
1862081 TATGACACATTTTCCTTTGTCTT
1 TATGACACATTTTCCTTTATCTT
1862104 TATGACACATTTT-CTTCTATCTT
1 TATGACACATTTTCCTT-TATCTT
*
1862127 T-TGGCACATTTT
1 TATGACACATTTT
1862139 TTGCCCGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.19, C:0.21, G:0.09, T:0.52
Consensus pattern (23 bp):
TATGACACATTTTCCTTTATCTT
Found at i:1869089 original size:85 final size:85
Alignment explanation
Indices: 1868946--1869118 Score: 346
Period size: 85 Copynumber: 2.0 Consensus size: 85
1868936 TCTCCACCAA
1868946 TAACAAGAGAAGGGTATGAAATATTCTCCCTACTCACCCATCTATCTTTTACGTTATTATGGAGG
1 TAACAAGAGAAGGGTATGAAATATTCTCCCTACTCACCCATCTATCTTTTACGTTATTATGGAGG
1869011 TAGAAGACTTTGGCACAAAT
66 TAGAAGACTTTGGCACAAAT
1869031 TAACAAGAGAAGGGTATGAAATATTCTCCCTACTCACCCATCTATCTTTTACGTTATTATGGAGG
1 TAACAAGAGAAGGGTATGAAATATTCTCCCTACTCACCCATCTATCTTTTACGTTATTATGGAGG
1869096 TAGAAGACTTTGGCACAAAT
66 TAGAAGACTTTGGCACAAAT
1869116 TAA
1 TAA
1869119 TTGGTCCTCC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 88 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (85 bp):
TAACAAGAGAAGGGTATGAAATATTCTCCCTACTCACCCATCTATCTTTTACGTTATTATGGAGG
TAGAAGACTTTGGCACAAAT
Found at i:1872644 original size:2 final size:2
Alignment explanation
Indices: 1872637--1872697 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
1872627 CAATCACAAC
1872637 AT 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 AT
1872679 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
1872698 ATAATTAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1874834 original size:16 final size:17
Alignment explanation
Indices: 1874813--1874846 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1874803 ATTAATTTTA
*
1874813 TATTTATA-ACTTTAGT
1 TATTTATATAATTTAGT
1874829 TATTTATATAATTTAGT
1 TATTTATATAATTTAGT
1874846 T
1 T
1874847 TAAATATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
TATTTATATAATTTAGT
Found at i:1879677 original size:19 final size:19
Alignment explanation
Indices: 1879635--1879671 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1879625 GGTCGGGTCG
1879635 GGTT-AGACCAGTCAAACC
1 GGTTCAGACCAGTCAAACC
1879653 GGTTCAGACCAGTCGAAAC
1 GGTTCAGACCAGTC-AAAC
1879672 TGTTCAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.32, C:0.27, G:0.24, T:0.16
Consensus pattern (19 bp):
GGTTCAGACCAGTCAAACC
Found at i:1886806 original size:7 final size:7
Alignment explanation
Indices: 1886794--1886837 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
1886784 GTCAAAGGAA
1886794 GTCAACG
1 GTCAACG
1886801 GTCAACG
1 GTCAACG
1886808 GTC-ACG
1 GTCAACG
1886814 GTCAACG
1 GTCAACG
*
1886821 ATCAACG
1 GTCAACG
*
1886828 CTCAACG
1 GTCAACG
1886835 GTC
1 GTC
1886838 GGGTCGGGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.27, C:0.32, G:0.25, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:1886844 original size:5 final size:5
Alignment explanation
Indices: 1886834--1886871 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
1886824 AACGCTCAAC
*
1886834 GGTCG GGTCG GGTCG GGTAG GGTC- GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
1886872 AGACCGGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.03, C:0.18, G:0.58, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:1886879 original size:19 final size:19
Alignment explanation
Indices: 1886839--1886880 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1886829 TCAACGGTCG
**
1886839 GGTCGGGTCGGGTAGGGTC
1 GGTCGGGTCGGGTAGGACC
1886858 GGTCGGGTCGGGTCA-GACC
1 GGTCGGGTCGGGT-AGGACC
1886877 GGTC
1 GGTC
1886881 AAACCGGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.07, C:0.21, G:0.52, T:0.19
Consensus pattern (19 bp):
GGTCGGGTCGGGTAGGACC
Done.