Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 15 of 82
Found at i:4926553 original size:19 final size:19
Alignment explanation
Indices: 4926529--4926627 Score: 74
Period size: 19 Copynumber: 5.1 Consensus size: 19
4926519 TGCTCGTGTG
4926529 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
**** *
4926548 CACGATG-GCACTGATTGTG
1 CACGATGTGGGGGGA-TGTA
*
4926567 CACGATGTGGGGGGATGCA
1 CACGATGTGGGGGGATGTA
* ** *
4926586 CACGATGGTGCCGGCTATGTG
1 CACGAT-GTG-GGGGGATGTA
4926607 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
4926626 CA
1 CA
4926628 TGAGCCGGGT
Statistics
Matches: 56, Mismatches: 20, Indels: 8
0.67 0.24 0.10
Matches are distributed among these distances:
18 3 0.05
19 33 0.59
20 9 0.16
21 11 0.20
ACGTcount: A:0.20, C:0.17, G:0.41, T:0.21
Consensus pattern (19 bp):
CACGATGTGGGGGGATGTA
Found at i:4926567 original size:38 final size:40
Alignment explanation
Indices: 4926525--4926627 Score: 149
Period size: 38 Copynumber: 2.6 Consensus size: 40
4926515 ATAGTGCTCG
*
4926525 TGTGCACGATGTGGGGGGATGTACACGAT-G-GCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGC-CGGATA
* *
4926563 TGTGCACGATGTGGGGGGATGCACACGATGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
4926603 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
4926628 TGAGCCGGGT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
38 28 0.48
39 4 0.07
40 26 0.45
ACGTcount: A:0.19, C:0.17, G:0.42, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
Found at i:4931653 original size:13 final size:13
Alignment explanation
Indices: 4931635--4931660 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4931625 TTAACATTGG
4931635 TATAAAGATAGGA
1 TATAAAGATAGGA
4931648 TATAAAGATAGGA
1 TATAAAGATAGGA
4931661 GTGAAATCGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (13 bp):
TATAAAGATAGGA
Found at i:4938414 original size:67 final size:67
Alignment explanation
Indices: 4938290--4938464 Score: 239
Period size: 67 Copynumber: 2.6 Consensus size: 67
4938280 GCTTAGCCAA
* *
4938290 AACCTTTCACAATAGTTTTT-ACTGGGATCAA-CTAAACCCAAAATGGTTTTTCAAAGGCTCAAC
1 AACCTTTCACAATGGTTTTTCA-TGGGATCAACCAAAACCCAAAATGGTTTTTCAAAGGCTCAAC
4938353 CAC
65 CAC
* * *
4938356 AACCTTTCACAATGGTTTTTCATGGGCTAAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCATGGGATCAACCAAAACCCAAAATGGTTTTTCAAAGGCTCAACC
4938421 AC
66 AC
* * *
4938423 AACC-TACAATAATGGTTTTTCACGGGATCAACCAAAACCCAA
1 AACCTTTC-ACAATGGTTTTTCATGGGATCAACCAAAACCCAA
4938465 CAACTAACTT
Statistics
Matches: 96, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
66 28 0.29
67 68 0.71
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.26
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCATGGGATCAACCAAAACCCAAAATGGTTTTTCAAAGGCTCAACC
AC
Found at i:4938454 original size:35 final size:32
Alignment explanation
Indices: 4938323--4938464 Score: 140
Period size: 35 Copynumber: 4.2 Consensus size: 32
4938313 GGGATCAACT
*
4938323 AAACCCAAAATGGTTTTTCAAAGGCTCAACCA
1 AAACCCAAAATGGTTTTTCAAGGGCTCAACCA
* * * *
4938355 CAACCTTTCACAATGGTTTTTCATGGGCTAAACCA
1 AAACC---CAAAATGGTTTTTCAAGGGCTCAACCA
* *
4938390 AAACCCAAAGTGGTTTTTCAAAGGCTCAACCA
1 AAACCCAAAATGGTTTTTCAAGGGCTCAACCA
* * *
4938422 CAACCTACAATAATGGTTTTTCACGGGATCAACCA
1 AAACC--CAA-AATGGTTTTTCAAGGGCTCAACCA
4938457 AAACCCAA
1 AAACCCAA
4938465 CAACTAACTT
Statistics
Matches: 87, Mismatches: 17, Indels: 11
0.76 0.15 0.10
Matches are distributed among these distances:
32 30 0.34
33 3 0.03
34 3 0.03
35 51 0.59
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (32 bp):
AAACCCAAAATGGTTTTTCAAGGGCTCAACCA
Found at i:4938940 original size:73 final size:73
Alignment explanation
Indices: 4938853--4939045 Score: 191
Period size: 73 Copynumber: 2.6 Consensus size: 73
4938843 GCAGAATGAT
*
4938853 CTTAGTTGACTAACTGCGCTT-TTAGTCGACTAAGTCGTTTCTGTCCTCTG-A-TCCCAG-TTTC
1 CTTAGTCGACTAACTGC-CTTCTTAGTCGACTAAGTCGTTTCTGT-CT-TGAAGT-CCAGATTTC
4938914 TGGCAGT-GAGCA
62 TGGCAGTAG-GCA
* * *
4938926 CTTAGTCGACTAACTTCCTTCTTAGTCGATTAAGTTGTTTCTGTCTTGAAGTCCAGATTTCTGGC
1 CTTAGTCGACTAACTGCCTTCTTAGTCGACTAAGTCGTTTCTGTCTTGAAGTCCAGATTTCTGGC
*
4938991 AGTAGGCT
66 AGTAGGCA
* * *** *
4938999 TTTAGTCGACTAATTTAGTTCTTGGTCGACTAAGTC-TTCTCTGTCTT
1 CTTAGTCGACTAACTGCCTTCTTAGTCGACTAAGTCGTT-TCTGTCTT
4939046 TCAATGCTCT
Statistics
Matches: 102, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
71 2 0.02
72 12 0.12
73 87 0.85
74 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (73 bp):
CTTAGTCGACTAACTGCCTTCTTAGTCGACTAAGTCGTTTCTGTCTTGAAGTCCAGATTTCTGGC
AGTAGGCA
Found at i:4941238 original size:27 final size:27
Alignment explanation
Indices: 4941182--4941238 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
4941172 TTTAACGAGT
* * *
4941182 ATTCTTCCAAATCATTTTCAAGCTGAC
1 ATTCATCCAAATCATTTTAAAGCTAAC
*
4941209 ATTCATCCAAGTCATTTTAAAG-TAAGC
1 ATTCATCCAAATCATTTTAAAGCTAA-C
4941236 ATT
1 ATT
4941239 GCAAGATGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (27 bp):
ATTCATCCAAATCATTTTAAAGCTAAC
Found at i:4945817 original size:35 final size:32
Alignment explanation
Indices: 4945773--4945909 Score: 114
Period size: 35 Copynumber: 4.1 Consensus size: 32
4945763 AACTAAAACA
* *
4945773 CAAAGTGGTTTTTCAAAGGCTTAACCACAACTTTT
1 CAAAGTGGTTTTTCAAAGGCTCAACCACAAC---C
** *
4945808 CACAA-TGGTTTTTCACGGGCTCAACCAAAACC
1 CA-AAGTGGTTTTTCAAAGGCTCAACCACAACC
4945840 CAAAGTGGTTTTTCAAAGGCTCAACCACAACC
1 CAAAGTGGTTTTTCAAAGGCTCAACCACAACC
* ** * *
4945872 TACAATAATGGTTTTTCACGGGATCAACCAAAACC
1 --CAA-AGTGGTTTTTCAAAGGCTCAACCACAACC
4945907 CAA
1 CAA
4945910 CAACTAACTT
Statistics
Matches: 84, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
31 2 0.02
32 26 0.31
33 3 0.04
34 3 0.04
35 48 0.57
36 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (32 bp):
CAAAGTGGTTTTTCAAAGGCTCAACCACAACC
Found at i:4945854 original size:32 final size:33
Alignment explanation
Indices: 4945811--4945909 Score: 128
Period size: 32 Copynumber: 3.0 Consensus size: 33
4945801 AACTTTTCAC
4945811 AATGGTTTTTCACGGGCTCAACCAAAACCCAA-
1 AATGGTTTTTCACGGGCTCAACCAAAACCCAAT
* ** *
4945843 AGTGGTTTTTCAAAGGCTCAACCACAACCTACAAT
1 AATGGTTTTTCACGGGCTCAACCAAAACC--CAAT
*
4945878 AATGGTTTTTCACGGGATCAACCAAAACCCAA
1 AATGGTTTTTCACGGGCTCAACCAAAACCCAA
4945910 CAACTAACTT
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
32 25 0.45
33 3 0.05
34 3 0.05
35 24 0.44
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.23
Consensus pattern (33 bp):
AATGGTTTTTCACGGGCTCAACCAAAACCCAAT
Found at i:4945906 original size:67 final size:67
Alignment explanation
Indices: 4945741--4945909 Score: 225
Period size: 67 Copynumber: 2.5 Consensus size: 67
4945731 CTAAACCTTT
* * * * *
4945741 CACAATAGTTTTT-ACCAGGATCAACTAAAACACAAAGTGGTTTTTCAAAGGCTTAACCACAACT
1 CACAATGGTTTTTCA-CGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACT
* *
4945805 TTT
65 CTA
*
4945808 CACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAAC-C
1 CACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACTC
4945872 TA
66 TA
*
4945874 CAATAATGGTTTTTCACGGGATCAACCAAAACCCAA
1 C-ACAATGGTTTTTCACGGGATCAACCAAAACCCAA
4945910 CAACTAACTT
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
66 2 0.02
67 87 0.97
68 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (67 bp):
CACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACTC
TA
Found at i:4950615 original size:12 final size:12
Alignment explanation
Indices: 4950598--4950622 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4950588 TTTCTATTAC
4950598 ATAAATATATAT
1 ATAAATATATAT
4950610 ATAAATATATAT
1 ATAAATATATAT
4950622 A
1 A
4950623 CATATATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAATATATAT
Found at i:4950752 original size:37 final size:37
Alignment explanation
Indices: 4950703--4950793 Score: 155
Period size: 37 Copynumber: 2.5 Consensus size: 37
4950693 GGAGTCATCA
* * *
4950703 TGTGCATTCCCCACATCGTGCACAGCTAATATCGTCG
1 TGTGCATCCCCCACATCGTGCACAGCTAATACCGCCG
4950740 TGTGCATCCCCCACATCGTGCACAGCTAATACCGCCG
1 TGTGCATCCCCCACATCGTGCACAGCTAATACCGCCG
4950777 TGTGCATCCCCCACATC
1 TGTGCATCCCCCACATC
4950794 ACTCACAAGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.23
Consensus pattern (37 bp):
TGTGCATCCCCCACATCGTGCACAGCTAATACCGCCG
Found at i:4957732 original size:22 final size:22
Alignment explanation
Indices: 4957704--4957747 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4957694 CTCACGTTTC
4957704 TTTAAAACCTCCATGAAAGCTT
1 TTTAAAACCTCCATGAAAGCTT
*
4957726 TTTAAAACCTCCATGGAAGCTT
1 TTTAAAACCTCCATGAAAGCTT
4957748 GATATGGAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (22 bp):
TTTAAAACCTCCATGAAAGCTT
Found at i:4958935 original size:21 final size:21
Alignment explanation
Indices: 4958906--4958947 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4958896 TTCATTAGCT
* *
4958906 GAATTTCGCTGCAGTGAGAAA
1 GAATCTCGCTGCAGCGAGAAA
4958927 GAATCTCGCTGCAGCGAGAAA
1 GAATCTCGCTGCAGCGAGAAA
4958948 CATTCTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (21 bp):
GAATCTCGCTGCAGCGAGAAA
Found at i:4960479 original size:60 final size:60
Alignment explanation
Indices: 4960381--4960520 Score: 199
Period size: 60 Copynumber: 2.3 Consensus size: 60
4960371 ATAAGAGACC
* * *
4960381 AAAACAGAAAGTTTTTCGCTGCAGGGAGATTCGATCTCGCTGCAGCAAAATTTCTACCCA
1 AAAACAGAAAGTTTCTCGCTACAGGGAGATTCGATCTCGCTGCAGCAAAATTGCTACCCA
* * * **
4960441 AAAATAGAATGTTTCTCGCTACAGTGAGATTCTTTCTCGCTGCAGCAAAATTGCTACCCA
1 AAAACAGAAAGTTTCTCGCTACAGGGAGATTCGATCTCGCTGCAGCAAAATTGCTACCCA
*
4960501 GAAACAGAAAGTTTCTCGCT
1 AAAACAGAAAGTTTCTCGCT
4960521 GCAACGAGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 69 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (60 bp):
AAAACAGAAAGTTTCTCGCTACAGGGAGATTCGATCTCGCTGCAGCAAAATTGCTACCCA
Found at i:4960543 original size:60 final size:60
Alignment explanation
Indices: 4960381--4960546 Score: 167
Period size: 60 Copynumber: 2.8 Consensus size: 60
4960371 ATAAGAGACC
* * * * * *
4960381 AAAACAGAAAGTTTTTCGCTGCAGGGAGATTCG-ATCTCGCTGCAGCAAAATTTCTACCCA
1 AAAACAGAAAGTTTCTCGCTGCAGCGAGAAT-GTATTTTGCTGCAGCAAAATTGCTACCCA
* * * * *
4960441 AAAATAGAATGTTTCTCGCTACAGTGAG-AT-TCTTTCTCGCTGCAGCAAAATTGCTACCCA
1 AAAACAGAAAGTTTCTCGCTGCAGCGAGAATGTATTT-T-GCTGCAGCAAAATTGCTACCCA
* *
4960501 GAAACAGAAAGTTTCTCGCTGCAACGAGAATGTATTTTGCTGCAGC
1 AAAACAGAAAGTTTCTCGCTGCAGCGAGAATGTATTTTGCTGCAGC
4960547 GAGAAGCTAC
Statistics
Matches: 84, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
58 2 0.02
59 1 0.01
60 74 0.88
61 3 0.04
62 4 0.05
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (60 bp):
AAAACAGAAAGTTTCTCGCTGCAGCGAGAATGTATTTTGCTGCAGCAAAATTGCTACCCA
Found at i:4960831 original size:2 final size:2
Alignment explanation
Indices: 4960826--4960875 Score: 91
Period size: 2 Copynumber: 24.5 Consensus size: 2
4960816 ACATATTTAC
4960826 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
4960868 AT ACT AT A
1 AT A-T AT A
4960876 NNNNNNNNNN
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 45 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4965312 original size:20 final size:20
Alignment explanation
Indices: 4965287--4965332 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
4965277 CTTCTAAACC
4965287 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
4965307 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
4965327 TCAAAT
1 TCAAAT
4965333 GGGGCCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:4967162 original size:139 final size:140
Alignment explanation
Indices: 4966912--4967194 Score: 471
Period size: 139 Copynumber: 2.0 Consensus size: 140
4966902 GCTAGTTGAT
* * * *
4966912 GAAAAATGTGGAAAAGATGAAATGTAGAGAAAAAATGTAAAATTTTTGTGAAGCATTCATCCCAC
1 GAAAAACGTGGAAAAGATGAAATGTAGAGAAAAAAGGCAAAATTTTTGTGAAGCATTAATCCCAC
*
4966977 TACCAATAAAAGAAACAAGTTTAGGGGTGTTGAATTAAGAAGAAAAAAAATTGTTTGATGAATGA
66 TACCAATAAAAGAAACAAGTTTAGGGGTGTTGAATTAAGAAGAAAAAAAATTGTTTGATCAATGA
4967042 AAAGTG-AAA
131 AAAGTGAAAA
4967051 GAAAAACGTGG-AAAGCATGAAATGTAGAGAAAAAAGGCAAAATTTTTGTGAAGCATTAATCCCA
1 GAAAAACGTGGAAAAG-ATGAAATGTAGAGAAAAAAGGCAAAATTTTTGTGAAGCATTAATCCCA
* * *
4967115 CTACCAATAAAAGAAATAAGTTTGGGGGTGTTGAATTAAGAAGAAAAAAATTTGTTTGATCAATG
65 CTACCAATAAAAGAAACAAGTTTAGGGGTGTTGAATTAAGAAGAAAAAAAATTGTTTGATCAATG
4967180 AAAAGTGAAAA
130 AAAAGTGAAAA
4967191 GAAA
1 GAAA
4967195 GGAAAAAGGT
Statistics
Matches: 134, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
138 4 0.03
139 123 0.92
140 7 0.05
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (140 bp):
GAAAAACGTGGAAAAGATGAAATGTAGAGAAAAAAGGCAAAATTTTTGTGAAGCATTAATCCCAC
TACCAATAAAAGAAACAAGTTTAGGGGTGTTGAATTAAGAAGAAAAAAAATTGTTTGATCAATGA
AAAGTGAAAA
Found at i:4967878 original size:21 final size:21
Alignment explanation
Indices: 4967829--4967875 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
4967819 TACAAGTTGA
*
4967829 TTAGTTTGA-TTTAAGTTATT
1 TTAGTTTAATTTTAAGTTATT
*
4967849 TTAGTTTAATTTTATGTTATT
1 TTAGTTTAATTTTAAGTTATT
4967870 TT-GTTT
1 TTAGTTT
4967876 TAAATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (21 bp):
TTAGTTTAATTTTAAGTTATT
Found at i:4972925 original size:110 final size:108
Alignment explanation
Indices: 4972573--4973011 Score: 404
Period size: 111 Copynumber: 4.0 Consensus size: 108
4972563 TGGGAGTTCG
* * *
4972573 CCGATGACTCATTCCAGGTGATGAATCAACACCCTTGGA-GGGGAAGTAGAAATACACCAATATT
1 CCGATGACTCTTTCGA-GTGATGAATCAACA-CCTTTGATGGGG-AGTAGAAATACACCAATATT
* * * * *
4972637 ACCCTTGGTGGGGGAGTAAAAATACACTAGTGATTCCAAGAGTCCA
63 ACCCTTGATGAGGGAGTAAAAATACACCAATGATTTCAAGAGTCCA
* * * * * * *
4972683 CCTAATGACTCATTCCGAGTCATGAATTAACACCCTTGGTAGGGGAGTAGAAAAACACCAATATT
1 CC-GATGACTC-TTTCGAGTGATGAATCAACACCTTTGAT-GGGGAGTAGAAATACACCAATATT
* * *
4972748 ACCCTTGATG-GGGAAGTAAATATACATCAATGA-TTCTAGGAGTCCA
63 ACCCTTGATGAGGG-AGTAAAAATACACCAATGATTTC-AAGAGTCCA
* * * *
4972794 CCCGATGACTCTTTCCAAGTGATGAATCAACACCTTTAATGGGGAAGGAGAAATACGCCAATATT
1 -CCGATGACTCTTT-CGAGTGATGAATCAACACCTTTGATGGGG-AGTAGAAATACACCAATATT
* * *
4972859 ACCTTTGAT-AGGGAGTAAAAATACACCAGTGATTTCGAGAGTCCA
63 ACCCTTGATGAGGGAGTAAAAATACACCAATGATTTCAAGAGTCCA
* **
4972904 TCCGATGACTCGTTTCGAGTGATGAGT-ACACACCTTTGATGAGGGAGTCA-AAATATGCCAATA
1 -CCGATGACTC-TTTCGAGTGATGAATCA-ACACCTTTGATG-GGGAGT-AGAAATACACCAATA
* * * *
4972967 TTACCCTAGGTGAGGGAGTAGAAATACACCAACGATTTCAAGAGT
61 TTACCCTTGATGAGGGAGTAAAAATACACCAATGATTTCAAGAGT
4973012 TTGCCCAATG
Statistics
Matches: 266, Mismatches: 47, Indels: 31
0.77 0.14 0.09
Matches are distributed among these distances:
109 1 0.00
110 93 0.35
111 163 0.61
112 9 0.03
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (108 bp):
CCGATGACTCTTTCGAGTGATGAATCAACACCTTTGATGGGGAGTAGAAATACACCAATATTACC
CTTGATGAGGGAGTAAAAATACACCAATGATTTCAAGAGTCCA
Found at i:4974415 original size:10 final size:9
Alignment explanation
Indices: 4974401--4974444 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
4974391 GGAAAACTAA
4974401 TTTTCTTTC
1 TTTTCTTTC
4974410 ATTTTCTTTC
1 -TTTTCTTTC
4974420 TTTGT-TTTC
1 TTT-TCTTTC
4974429 TTTTCATTTC
1 TTTTC-TTTC
4974439 TTTTCT
1 TTTTCT
4974445 CTTCGTGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.03
9 11 0.35
10 19 0.61
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:4975710 original size:42 final size:42
Alignment explanation
Indices: 4975648--4975770 Score: 167
Period size: 42 Copynumber: 2.9 Consensus size: 42
4975638 GTGATAATTA
* *
4975648 TGACCCAGCCATGTGCGGTGTAGGAGTGCGCATGAGCTGTGC
1 TGACCTAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGC
* *
4975690 TGACCTAGCCATGTGTGGTGTATGAGTGCACATGAGCTGTGC
1 TGACCTAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGC
* * *
4975732 TGACCTGGCTATGTGCGGTGT-GGTAGTGCACATAAGCTG
1 TGACCTAGCCATGTGCGGTGTAGG-AGTGCACATGAGCTG
4975771 AGACAGAGTT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 1 0.01
42 70 0.99
ACGTcount: A:0.18, C:0.20, G:0.36, T:0.26
Consensus pattern (42 bp):
TGACCTAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGTGC
Found at i:4975806 original size:2 final size:2
Alignment explanation
Indices: 4975799--4975849 Score: 75
Period size: 2 Copynumber: 25.0 Consensus size: 2
4975789 AGCCGGTGGT
* *
4975799 TA TA TA TA TG TT TA TA TA TGA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
4975842 TA TA TA TA
1 TA TA TA TA
4975850 GAGAGAGAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
2 43 0.96
3 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4987002 original size:22 final size:21
Alignment explanation
Indices: 4986977--4987018 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
4986967 GTTCAAGCAA
4986977 GAAAAATCAATTGTTGGAAGAG
1 GAAAAATCAATT-TTGGAAGAG
* *
4986999 GAAACATCAATTTTTGAAGA
1 GAAAAATCAATTTTGGAAGA
4987019 TACAAAAGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (21 bp):
GAAAAATCAATTTTGGAAGAG
Found at i:4987362 original size:63 final size:63
Alignment explanation
Indices: 4987262--4987408 Score: 181
Period size: 63 Copynumber: 2.3 Consensus size: 63
4987252 AATTAATGGT
** * * * * *
4987262 TCAAGAATGCAAAGATTGATTCCTAGCAAATAGAAAGCTCTTA-AGACACAAAGAATTGATTTC
1 TCAAGAATGCATTGATTGATTCCTACCAAACAAAAAGCT-TTAGAGACACAAAAAATTGACTTC
*
4987325 TCAAGAATGCATTGATTGATTCCTTCCAAACAAAAAGCTTTAGAGACACAAAAAATTGACTTC
1 TCAAGAATGCATTGATTGATTCCTACCAAACAAAAAGCTTTAGAGACACAAAAAATTGACTTC
*
4987388 TACAA-AATGCATTGATCGATT
1 T-CAAGAATGCATTGATTGATT
4987409 ATTTTAAGAC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
62 3 0.04
63 67 0.92
64 3 0.04
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (63 bp):
TCAAGAATGCATTGATTGATTCCTACCAAACAAAAAGCTTTAGAGACACAAAAAATTGACTTC
Found at i:4989201 original size:21 final size:21
Alignment explanation
Indices: 4989177--4989218 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4989167 CACATAATGT
4989177 ACATTTGACATCATATTATGC
1 ACATTTGACATCATATTATGC
4989198 ACATTTGACATCATATTATGC
1 ACATTTGACATCATATTATGC
4989219 TTTCATACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (21 bp):
ACATTTGACATCATATTATGC
Found at i:4998078 original size:28 final size:28
Alignment explanation
Indices: 4998023--4998078 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
4998013 CGGAGTATAA
* * *
4998023 GGGCAAAATCGTAAATTTTTCTCTCCAG
1 GGGCAAAATCGTAAAATTTTCACCCCAG
4998051 GGGC-AAATCGGTAAAATTTTCACCCCAG
1 GGGCAAAATC-GTAAAATTTTCACCCCAG
4998079 CACTTGTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (28 bp):
GGGCAAAATCGTAAAATTTTCACCCCAG
Found at i:5005660 original size:64 final size:64
Alignment explanation
Indices: 5005559--5005715 Score: 242
Period size: 64 Copynumber: 2.5 Consensus size: 64
5005549 CTAAAGCTTT
* **
5005559 CACACAGTGTGAGGTAACATTCCACACGTGGTGAATTGCGTTTAGTATGATGATGATAGCACTC
1 CACACAGTGTGAGGTAACATTCCACATGTGGTGAATTGCGCCTAGTATGATGATGATAGCACTC
* * *
5005623 CACACAGTGTGAGGTAACATTCCACATGTGGTGAATTGCGCCTAGTATGATGATGATAGTATTT
1 CACACAGTGTGAGGTAACATTCCACATGTGGTGAATTGCGCCTAGTATGATGATGATAGCACTC
* *
5005687 CACACGGTGTGAGGTAACATTCTACATGT
1 CACACAGTGTGAGGTAACATTCCACATGT
5005716 AGTGCCAACG
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 85 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (64 bp):
CACACAGTGTGAGGTAACATTCCACATGTGGTGAATTGCGCCTAGTATGATGATGATAGCACTC
Found at i:5008722 original size:18 final size:18
Alignment explanation
Indices: 5008699--5008735 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5008689 AGATTTCAAC
5008699 TTTTTGAGTTTCTTTATT
1 TTTTTGAGTTTCTTTATT
**
5008717 TTTTTGTTTTTCTTTATT
1 TTTTTGAGTTTCTTTATT
5008735 T
1 T
5008736 AGTTTCAATG
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:0.08, C:0.05, G:0.08, T:0.78
Consensus pattern (18 bp):
TTTTTGAGTTTCTTTATT
Found at i:5015353 original size:74 final size:74
Alignment explanation
Indices: 5015226--5015373 Score: 190
Period size: 74 Copynumber: 2.0 Consensus size: 74
5015216 AAGTAAAACA
* * * *
5015226 GATTGCGAGACAGAGAAGACTTAATCGACTAAGAAGCATGGTTAGCCAACTAAAAACTCACTGTT
1 GATTGCGAGACAGAGAAAACATAATCGACTAAGAAGCATGGGTAGCCAACTAAAAACACACTGTT
5015291 AGAGAATTT
66 AGAGAATTT
* * ** *
5015300 GATTGCGGGACAGAGAAAACATAATCGCCTAAGAAGTTTGGGTAG-CAAGCTAAAAGCACACTGT
1 GATTGCGAGACAGAGAAAACATAATCGACTAAGAAGCATGGGTAGCCAA-CTAAAAACACACTGT
*
5015364 TTGAGAATTT
65 TAGAGAATTT
5015374 AAATTTGAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
73 3 0.05
74 60 0.95
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.23
Consensus pattern (74 bp):
GATTGCGAGACAGAGAAAACATAATCGACTAAGAAGCATGGGTAGCCAACTAAAAACACACTGTT
AGAGAATTT
Found at i:5023359 original size:2 final size:2
Alignment explanation
Indices: 5023352--5023389 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
5023342 AATCATCTCC
5023352 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
5023390 GTATGTCCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5029845 original size:58 final size:57
Alignment explanation
Indices: 5029770--5029879 Score: 157
Period size: 58 Copynumber: 1.9 Consensus size: 57
5029760 GGACCAACAT
* * * *
5029770 GCATGTGATAGATTTATTTTATGCGATTTTATAAATGCTATGCAATGCAAAATAGTAA
1 GCATGTGATAGACTTATTTTATACGATTTAATAAATACTATGC-ATGCAAAATAGTAA
* *
5029828 GCATGTTATAGACTTATTTTATACGATTTAATAAATACTATGCATGTAAAAT
1 GCATGTGATAGACTTATTTTATACGATTTAATAAATACTATGCATGCAAAAT
5029880 GAGACCTTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 8 0.17
58 38 0.83
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (57 bp):
GCATGTGATAGACTTATTTTATACGATTTAATAAATACTATGCATGCAAAATAGTAA
Found at i:5073552 original size:42 final size:42
Alignment explanation
Indices: 5073491--5073668 Score: 169
Period size: 42 Copynumber: 4.2 Consensus size: 42
5073481 GTGGACCTCG
* * * * *
5073491 CTATGTGCAAGTAAGAGTGCACATATGTCGATGATGACTCGA
1 CTATGTGCGAGTAGGAGTGCACATAAGCCGATGATGACCCGA
* * * * *
5073533 CTATATGCTAGTAGGAGTGCACATACGCCTATGATGA-CCTA
1 CTATGTGCGAGTAGGAGTGCACATAAGCCGATGATGACCCGA
* * ** * *
5073574 GTTATGTGCGAGTCGGAGTGTGCATAAGCCGTTGATGACCCAA
1 -CTATGTGCGAGTAGGAGTGCACATAAGCCGATGATGACCCGA
* *
5073617 CTATGTGCGAGTGGGAGTGCACATAAGCCGATGATGACCCGG
1 CTATGTGCGAGTAGGAGTGCACATAAGCCGATGATGACCCGA
*
5073659 CTATATGCGA
1 CTATGTGCGA
5073669 CGCATAAGCC
Statistics
Matches: 108, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
41 2 0.02
42 103 0.95
43 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (42 bp):
CTATGTGCGAGTAGGAGTGCACATAAGCCGATGATGACCCGA
Found at i:5073580 original size:84 final size:84
Alignment explanation
Indices: 5073492--5073655 Score: 193
Period size: 84 Copynumber: 2.0 Consensus size: 84
5073482 TGGACCTCGC
* * * * *
5073492 TATGTGCAAGTAAGAGTGCACATATGTCGATGATGACTCGACTATATGCTAGTAGGAGTGCACAT
1 TATGTGCAAGTAAGAGTGCACATAAGCCGATGATGACCCAACTATATGCGAGTAGGAGTGCACAT
* *
5073557 ACGCCTATGATGACCTAGT
66 AAGCCGATGATGACCTAGT
* ** ** * * *
5073576 TATGTGCGAGTCGGAGTGTGCATAAGCCGTTGATGACCCAACTATGTGCGAGTGGGAGTGCACAT
1 TATGTGCAAGTAAGAGTGCACATAAGCCGATGATGACCCAACTATATGCGAGTAGGAGTGCACAT
5073641 AAGCCGATGATGACC
66 AAGCCGATGATGACC
5073656 CGGCTATATG
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
84 65 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (84 bp):
TATGTGCAAGTAAGAGTGCACATAAGCCGATGATGACCCAACTATATGCGAGTAGGAGTGCACAT
AAGCCGATGATGACCTAGT
Found at i:5073701 original size:33 final size:33
Alignment explanation
Indices: 5073638--5073701 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
5073628 TGGGAGTGCA
* *
5073638 CATAAGCCGATGATGACCCGGCTATATGCGACG
1 CATAAGCCGATGATGACCCAGCCATATGCGACG
*
5073671 CATAAGCCGATGATGACCCAGCCATGTGCGA
1 CATAAGCCGATGATGACCCAGCCATATGCGA
5073702 GTGGGGAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (33 bp):
CATAAGCCGATGATGACCCAGCCATATGCGACG
Found at i:5095926 original size:2 final size:2
Alignment explanation
Indices: 5095919--5095950 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
5095909 ATGATGATTG
*
5095919 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5095951 GGTATATGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5103969 original size:38 final size:39
Alignment explanation
Indices: 5103868--5103971 Score: 131
Period size: 38 Copynumber: 2.7 Consensus size: 39
5103858 TCCCCAGCTT
5103868 ATGTGCATCCCCCCACATCGTGCACATAGCTAGAGTCATC
1 ATGTGCATCCCCCCACATCGTGCACATA-CTAGAGTCATC
* * *
5103908 GTGTGCATCCCCCCACATTGTGCACAT-CTA-ATGTCGTC
1 ATGTGCATCCCCCCACATCGTGCACATACTAGA-GTCATC
* *
5103946 ATGTACATCCCCTCACATCGTGCACA
1 ATGTGCATCCCCCCACATCGTGCACA
5103972 CGGGCAATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
37 1 0.02
38 30 0.54
40 25 0.45
ACGTcount: A:0.23, C:0.36, G:0.16, T:0.25
Consensus pattern (39 bp):
ATGTGCATCCCCCCACATCGTGCACATACTAGAGTCATC
Found at i:5109769 original size:35 final size:35
Alignment explanation
Indices: 5109699--5109887 Score: 206
Period size: 35 Copynumber: 5.4 Consensus size: 35
5109689 CACTTGATTA
* *
5109699 AAATTGTTTAATTAAG---TTGTGCCTAATTAACT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
5109731 AAATTGTTTAATTGAA-TCATTGGGCCTAATTAATT
1 AAATTGTTTAATT-AAGTCATTGGGCCTAATTAATT
* *
5109766 AAATTATTTAATTAAGTTATTGGGCCTAATTAATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
**** * *
5109801 AAATTAAACAATTAAGTTATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
* * *
5109836 AAATTTGTTTAATTAAGTCATTAGGCCTAGTTGATT
1 AAA-TTGTTTAATTAAGTCATTGGGCCTAATTAATT
5109872 AAAATTGTTTAATTAA
1 -AAATTGTTTAATTAA
5109888 ATTGTTTAAT
Statistics
Matches: 135, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
32 13 0.10
33 2 0.01
34 2 0.01
35 78 0.58
36 37 0.27
37 3 0.02
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTCATTGGGCCTAATTAATT
Found at i:5109891 original size:13 final size:13
Alignment explanation
Indices: 5109873--5109900 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5109863 TAGTTGATTA
5109873 AAATTGTTTAATT
1 AAATTGTTTAATT
5109886 AAATTGTTTAATT
1 AAATTGTTTAATT
5109899 AA
1 AA
5109901 GTTATTGGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (13 bp):
AAATTGTTTAATT
Found at i:5110868 original size:35 final size:34
Alignment explanation
Indices: 5110808--5110988 Score: 157
Period size: 35 Copynumber: 5.2 Consensus size: 34
5110798 TATAATAGAT
* * * *
5110808 TAATCAAGCCCATCGTGGGGTTAAGAATACCGCA
1 TAATAAAGCCCATCATGGGGATAAGAATACCACA
*
5110842 TACATAAAGCCCATCATGAGGATAAGAATACCACA
1 TA-ATAAAGCCCATCATGGGGATAAGAATACCACA
* * ** *
5110877 TTAATTAAGCTCATTGTGGGGATAAGAATGCCACA
1 -TAATAAAGCCCATCATGGGGATAAGAATACCACA
* * * *
5110912 TGAATTAAGCCTATCATGGGGGTAAAAATACCACA
1 T-AATAAAGCCCATCATGGGGATAAGAATACCACA
* *
5110947 TACATAAAGCCCATCAT-GGCAGTAAAAATACCACA
1 TA-ATAAAGCCCATCATGGGGA-TAAGAATACCACA
5110982 TGAATAA
1 T-AATAA
5110989 GCCTACTATA
Statistics
Matches: 119, Mismatches: 22, Indels: 11
0.78 0.14 0.07
Matches are distributed among these distances:
34 6 0.05
35 110 0.92
36 3 0.03
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (34 bp):
TAATAAAGCCCATCATGGGGATAAGAATACCACA
Found at i:5110903 original size:70 final size:70
Alignment explanation
Indices: 5110806--5110988 Score: 183
Period size: 70 Copynumber: 2.6 Consensus size: 70
5110796 ATTATAATAG
* * *
5110806 ATTAATCAAGCCCATCGTGGGGTTAAGAATACCGCAT-ACATAAAGCCCATCATGAGGATAAGAA
1 ATTAATCAAGCCCATCGTGGGGATAAGAATACCACATGA-ATAAAGCCCATCATGAGGATAAAAA
5110870 TACCAC
65 TACCAC
* * * * * * * *
5110876 ATTAATTAAGCTCATTGTGGGGATAAGAATGCCACATGAATTAAGCCTATCATGGGGGTAAAAAT
1 ATTAATCAAGCCCATCGTGGGGATAAGAATACCACATGAATAAAGCCCATCATGAGGATAAAAAT
5110941 ACCAC
66 ACCAC
* * * *
5110946 A-TACATAAAGCCCATCAT-GGCAGTAAAAATACCACATGAATAA
1 ATTA-ATCAAGCCCATCGTGGGGA-TAAGAATACCACATGAATAA
5110989 GCCTACTATA
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
69 5 0.05
70 85 0.93
71 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (70 bp):
ATTAATCAAGCCCATCGTGGGGATAAGAATACCACATGAATAAAGCCCATCATGAGGATAAAAAT
ACCAC
Found at i:5134349 original size:53 final size:53
Alignment explanation
Indices: 5134269--5134375 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
5134259 GAGGCGCCAT
5134269 AGCATTTTCAGAACTCGTGTTCTTTGATGTAATTTTCTATAGCAGGTGAATGG
1 AGCATTTTCAGAACTCGTGTTCTTTGATGTAATTTTCTATAGCAGGTGAATGG
5134322 AGCATTTTCAGAACTCGTGTTCTTTGATGTAATTTTCTATAGCAGGTGAATGG
1 AGCATTTTCAGAACTCGTGTTCTTTGATGTAATTTTCTATAGCAGGTGAATGG
5134375 A
1 A
5134376 AAATGTTATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.39
Consensus pattern (53 bp):
AGCATTTTCAGAACTCGTGTTCTTTGATGTAATTTTCTATAGCAGGTGAATGG
Found at i:5137719 original size:87 final size:86
Alignment explanation
Indices: 5137549--5137721 Score: 301
Period size: 87 Copynumber: 2.0 Consensus size: 86
5137539 ATTTACACAA
* * *
5137549 GCTTTAGAGTCCACTAAGAAGAATCATCAAAGTGTCTAACATCTTATAAGTATTCTTCCTGTTTC
1 GCTTTAGAGTACACTAAGAAGAATCATCAAAGTGTCTAACACCTTATAAGTATTCTTCCTGTTGC
5137614 ACCTTGGACATAGAATGAAAT
66 ACCTTGGACATAGAATGAAAT
5137635 GCTTTAGAGTACACTAAGAAGAATCATCAAAGTGTCTAACCACCTTATAAGTATTCTTCCTGTTG
1 GCTTTAGAGTACACTAAGAAGAATCATCAAAGTGTCTAA-CACCTTATAAGTATTCTTCCTGTTG
*
5137700 CCCCTTGGACATAGAATGAAAT
65 CACCTTGGACATAGAATGAAAT
5137722 TATCACTATT
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
86 38 0.46
87 44 0.54
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (86 bp):
GCTTTAGAGTACACTAAGAAGAATCATCAAAGTGTCTAACACCTTATAAGTATTCTTCCTGTTGC
ACCTTGGACATAGAATGAAAT
Found at i:5144330 original size:48 final size:48
Alignment explanation
Indices: 5144259--5144355 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
5144249 TTATCCATAA
5144259 ACCAACTACATACTTTACGTATAGTTTTCCATGCAACAGCTTAGTCAT
1 ACCAACTACATACTTTACGTATAGTTTTCCATGCAACAGCTTAGTCAT
5144307 ACCAACTACATACTTTACGTATAGTTTTCCATGCAACAGCTTAGTCAT
1 ACCAACTACATACTTTACGTATAGTTTTCCATGCAACAGCTTAGTCAT
5144355 A
1 A
5144356 TTATGTTAAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (48 bp):
ACCAACTACATACTTTACGTATAGTTTTCCATGCAACAGCTTAGTCAT
Found at i:5146427 original size:47 final size:47
Alignment explanation
Indices: 5146376--5146819 Score: 452
Period size: 47 Copynumber: 9.4 Consensus size: 47
5146366 GGCACCGCTC
* * *
5146376 AGAGTTGGTGAGATGCCATGGAGGGAATTTGTGAGACGCTAGAGTTA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * *
5146423 AGAGTTGGTGACACGCCATGGTGGGAATCTGTGACACAGC-A-ACTTTC
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACAC-GCTAGA-GTTA
* * *
5146470 AGAGTTGGTGAGACGCCATGGAAGGAATCTGTGACATGCCAGCA-TTCA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAG-AGTT-A
* * *
5146518 A-AGTTTGTGAGACGCCATGGAGGGAATCTGTGACACGCCA-ACATTCA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGA-GTT-A
* * *
5146565 A-AGTTGGTGAGACACCATGGAGGAAATTTGTGACACGCTAGAGTTA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * * * * *
5146611 AGAGCTGGTGACACGCCATAGAGGGAATCTATGACAAGCCA-ACGTTC
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGA-GTTA
* * * * *
5146658 AGAGTTCGTGAGAGGCCATGGAGGGAATCTATGACACGCTAGCGTTT
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* *
5146705 AGAGTTCGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTC
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * *
5146752 AGAGTTGGTGACACGCCATGGAGGGAAGCTGTGACATGCTAGAGTTC
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* *
5146799 AGAGTTAGTGACACGCCATGG
1 AGAGTTGGTGAGACGCCATGG
5146820 TCATGATTTA
Statistics
Matches: 336, Mismatches: 49, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
45 1 0.00
46 6 0.02
47 324 0.96
48 4 0.01
49 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (47 bp):
AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
Found at i:5146503 original size:23 final size:23
Alignment explanation
Indices: 5146477--5146557 Score: 56
Period size: 23 Copynumber: 3.5 Consensus size: 23
5146467 TTCAGAGTTG
*
5146477 GTGAGACGCCATGGAAGGAATCT
1 GTGACACGCCATGGAAGGAATCT
* * *** *
5146500 GTGACATGCCA-GCATTCAAAGTTT
1 GTGACACGCCATGGA-AGGAA-TCT
* *
5146524 GTGAGACGCCATGGAGGGAATCT
1 GTGACACGCCATGGAAGGAATCT
5146547 GTGACACGCCA
1 GTGACACGCCA
5146558 ACATTCAAAG
Statistics
Matches: 40, Mismatches: 15, Indels: 6
0.66 0.25 0.10
Matches are distributed among these distances:
22 2 0.05
23 23 0.57
24 13 0.32
25 2 0.05
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (23 bp):
GTGACACGCCATGGAAGGAATCT
Found at i:5146533 original size:94 final size:92
Alignment explanation
Indices: 5146327--5146819 Score: 513
Period size: 94 Copynumber: 5.2 Consensus size: 92
5146317 AAGACAGGGT
* * * ** * * * *
5146327 TTAAAGTTTGTGAAACGTCATGTTGGGAATGTGTGACACGGCACCGCTCAGAGTTGGTGAGATGC
1 TTAAAGTTGGTGACACGCCATGGAGGGAATCTGTGACAC-GCAACGTTCAGAGTTGGTGAGACGC
* *
5146392 CATGGAGGGAATTTGTGAGACGCTAGAG
65 CATGGAGGGAATCTGTGACACGCTAGAG
* *
5146420 TTAAGAGTTGGTGACACGCCATGGTGGGAATCTGTGACACAGCAACTTTCAGAGTTGGTGAGACG
1 TTAA-AGTTGGTGACACGCCATGGAGGGAATCTGTGACAC-GCAACGTTCAGAGTTGGTGAGACG
* * *
5146485 CCATGGAAGGAATCTGTGACATGCCAGCA-
64 CCATGGAGGGAATCTGTGACACGCTAG-AG
* * * * *
5146514 TTCAAAGTTTGTGAGACGCCATGGAGGGAATCTGTGACACGCCAACATTCAAAGTTGGTGAGACA
1 TT-AAAGTTGGTGACACGCCATGGAGGGAATCTGTGACACG-CAACGTTCAGAGTTGGTGAGACG
* *
5146579 CCATGGAGGAAATTTGTGACACGCTAGAG
64 CCATGGAGGGAATCTGTGACACGCTAGAG
* * * * * *
5146608 TTAAGAGCTGGTGACACGCCATAGAGGGAATCTATGACAAGCCAACGTTCAGAGTTCGTGAGAGG
1 TTAA-AGTTGGTGACACGCCATGGAGGGAATCTGTGACACG-CAACGTTCAGAGTTGGTGAGACG
* *
5146673 CCATGGAGGGAATCTATGACACGCTAGCG
64 CCATGGAGGGAATCTGTGACACGCTAGAG
* * * *
5146702 TTTAGAGTTCGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGA-GTTCAGAGTTGGTGACAC
1 -TTAAAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGC-A-ACGTTCAGAGTTGGTGAGAC
* *
5146766 GCCATGGAGGGAAGCTGTGACATGCTAGAG
63 GCCATGGAGGGAATCTGTGACACGCTAGAG
* *
5146796 TTCAGAGTTAGTGACACGCCATGG
1 TT-AAAGTTGGTGACACGCCATGG
5146820 TCATGATTTA
Statistics
Matches: 333, Mismatches: 57, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
93 11 0.03
94 315 0.95
95 7 0.02
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.23
Consensus pattern (92 bp):
TTAAAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCAACGTTCAGAGTTGGTGAGACGCC
ATGGAGGGAATCTGTGACACGCTAGAG
Found at i:5146620 original size:141 final size:140
Alignment explanation
Indices: 5146374--5146819 Score: 513
Period size: 141 Copynumber: 3.2 Consensus size: 140
5146364 ACGGCACCGC
* * * * *
5146374 TCAGAGTTGGTGAGATGCCATGGAGGGAATTTGTGAGACGCTAGA-GTTAAGAGTTGGTGACACG
1 TCAGAGTTAGTGAGACGCCATGGAGGGAATCTGTGACACGCTA-ACGTTAA-AGTTGGTGAGACG
* * * *
5146438 CCATGGTGGGAATCTGTGACACAGC-A-ACTTTCAGAGTTGGTGAGACGCCATGGAAGGAATCTG
64 CCATGGAGGGAATCTGTGACAC-GCTAGA-GTTCAGAGTTGGTGACACGCCATGGAGGGAATCTG
5146501 TGACATGCCAGCAT
127 TGACATGCCAGCAT
* * * * *
5146515 TCAAAGTTTGTGAGACGCCATGGAGGGAATCTGTGACACGCCAACATTCAAAGTTGGTGAGACAC
1 TCAGAGTTAGTGAGACGCCATGGAGGGAATCTGTGACACGCTAACGTT-AAAGTTGGTGAGACGC
* * * * * *
5146580 CATGGAGGAAATTTGTGACACGCTAGAGTTAAGAGCTGGTGACACGCCATAGAGGGAATCTATGA
65 CATGGAGGGAATCTGTGACACGCTAGAGTTCAGAGTTGGTGACACGCCATGGAGGGAATCTGTGA
* * *
5146645 CAAGCCAACGT
130 CATGCCAGCAT
* * * * * *
5146656 TCAGAGTTCGTGAGAGGCCATGGAGGGAATCTATGACACGCTAGCGTTTAGAGTTCGTGAGACGC
1 TCAGAGTTAGTGAGACGCCATGGAGGGAATCTGTGACACGCTAACG-TTAAAGTTGGTGAGACGC
*
5146721 CATGGAGGGAATCTGTGACACGCTAGAGTTCAGAGTTGGTGACACGCCATGGAGGGAAGCTGTGA
65 CATGGAGGGAATCTGTGACACGCTAGAGTTCAGAGTTGGTGACACGCCATGGAGGGAATCTGTGA
*
5146786 CATGCTAG-AGT
130 CATGCCAGCA-T
*
5146797 TCAGAGTTAGTGACACGCCATGG
1 TCAGAGTTAGTGAGACGCCATGG
5146820 TCATGATTTA
Statistics
Matches: 253, Mismatches: 46, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
140 3 0.01
141 245 0.97
142 5 0.02
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (140 bp):
TCAGAGTTAGTGAGACGCCATGGAGGGAATCTGTGACACGCTAACGTTAAAGTTGGTGAGACGCC
ATGGAGGGAATCTGTGACACGCTAGAGTTCAGAGTTGGTGACACGCCATGGAGGGAATCTGTGAC
ATGCCAGCAT
Found at i:5146661 original size:188 final size:188
Alignment explanation
Indices: 5146329--5146817 Score: 622
Period size: 188 Copynumber: 2.6 Consensus size: 188
5146319 GACAGGGTTT
* * ** * * * * *
5146329 AAAGTTTGTGAAACGTCATGTTGGGAATGTGTGACACGGCACCGCTCAGAGTTGGTGAGATGCCA
1 AAAGTTTGTGAGACGCCATGGAGGGAATCTGTGACACGCCAACGTTCAGAGTTGGTGAGACGCCA
* * * *
5146394 TGGAGGGAATTTGTGAGACGCTAGAGTTAAGAGTTGGTGACACGCCATGGTGGGAATCTGTGACA
66 TGGAGGGAATTTGTGACACGCTAGAGTTAAGAGTTGGTGACACGCCATAGAGGGAATCTATGACA
* * * *
5146459 CAGCAACTTTCAGAGTTGGTGAGACGCCATGGAAGGAATCTGTGACATGCCAGCATTC
131 CAGCAACGTTCAGAGTTCGTGAGACGCCATGGAAGGAATCTATGACACGCCAGCATTC
* * *
5146517 AAAGTTTGTGAGACGCCATGGAGGGAATCTGTGACACGCCAACATTCAAAGTTGGTGAGACACCA
1 AAAGTTTGTGAGACGCCATGGAGGGAATCTGTGACACGCCAACGTTCAGAGTTGGTGAGACGCCA
* *
5146582 TGGAGGAAATTTGTGACACGCTAGAGTTAAGAGCTGGTGACACGCCATAGAGGGAATCTATGACA
66 TGGAGGGAATTTGTGACACGCTAGAGTTAAGAGTTGGTGACACGCCATAGAGGGAATCTATGACA
* * * * *
5146647 -AGCCAACGTTCAGAGTTCGTGAGAGGCCATGGAGGGAATCTATGACACGCTAGCGTTT
131 CAG-CAACGTTCAGAGTTCGTGAGACGCCATGGAAGGAATCTATGACACGCCAGCATTC
* * * *
5146705 AGAGTTCGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGA-GTTCAGAGTTGGTGACACGCC
1 AAAGTTTGTGAGACGCCATGGAGGGAATCTGTGACACGCCA-ACGTTCAGAGTTGGTGAGACGCC
** * * *
5146769 ATGGAGGGAAGCTGTGACATGCTAGAGTTCAGAGTTAGTGACACGCCAT
65 ATGGAGGGAATTTGTGACACGCTAGAGTTAAGAGTTGGTGACACGCCAT
5146818 GGTCATGATT
Statistics
Matches: 258, Mismatches: 41, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
187 2 0.01
188 255 0.99
189 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (188 bp):
AAAGTTTGTGAGACGCCATGGAGGGAATCTGTGACACGCCAACGTTCAGAGTTGGTGAGACGCCA
TGGAGGGAATTTGTGACACGCTAGAGTTAAGAGTTGGTGACACGCCATAGAGGGAATCTATGACA
CAGCAACGTTCAGAGTTCGTGAGACGCCATGGAAGGAATCTATGACACGCCAGCATTC
Found at i:5146762 original size:24 final size:23
Alignment explanation
Indices: 5146734--5146814 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 23
5146724 GGAGGGAATC
5146734 TGTGACACGCTAGAGTTCAGAGT
1 TGTGACACGCTAGAGTTCAGAGT
* ** *
5146757 TGGTGACACGCCATGGAG-GGA-AGC
1 T-GTGACACG-C-TAGAGTTCAGAGT
*
5146781 TGTGACATGCTAGAGTTCAGAGT
1 TGTGACACGCTAGAGTTCAGAGT
5146804 TAGTGACACGC
1 T-GTGACACGC
5146815 CATGGTCATG
Statistics
Matches: 42, Mismatches: 10, Indels: 11
0.67 0.16 0.17
Matches are distributed among these distances:
21 4 0.10
22 2 0.05
23 11 0.26
24 19 0.45
25 2 0.05
26 4 0.10
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (23 bp):
TGTGACACGCTAGAGTTCAGAGT
Found at i:5147590 original size:31 final size:31
Alignment explanation
Indices: 5147353--5147605 Score: 303
Period size: 31 Copynumber: 8.2 Consensus size: 31
5147343 CTTGTGACAG
** * * *
5147353 CATTTTACTTAATATGCATGGTGTGTGACAG
1 CATTTTACTTGTTATGCATGGCGTGTCACAA
* * *
5147384 CATTTTACTT-TATATGCATGGCATGTGACAG
1 CATTTTACTTGT-TATGCATGGCGTGTCACAA
* *
5147415 CATTTTACTT-TATATGCATGGCGTGTGACAG
1 CATTTTACTTGT-TATGCATGGCGTGTCACAA
* *
5147446 CATTTTACTTGATATGCATGGCATGTCACAA
1 CATTTTACTTGTTATGCATGGCGTGTCACAA
*
5147477 CATTTAACTTGTTATGCATGGCGTGTCACAA
1 CATTTTACTTGTTATGCATGGCGTGTCACAA
*
5147508 CATTTTACTTGTTATGCATGGCATGTCACAA
1 CATTTTACTTGTTATGCATGGCGTGTCACAA
*
5147539 CATTTTACTTGTTATGCATGACGTGTCACAA
1 CATTTTACTTGTTATGCATGGCGTGTCACAA
* ** *
5147570 CATTTTGCTTGCAATGCATGACGTGTCACAA
1 CATTTTACTTGTTATGCATGGCGTGTCACAA
5147601 CATTT
1 CATTT
5147606 ATTCCTTATT
Statistics
Matches: 202, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
31 202 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (31 bp):
CATTTTACTTGTTATGCATGGCGTGTCACAA
Found at i:5149520 original size:156 final size:156
Alignment explanation
Indices: 5149265--5149589 Score: 402
Period size: 156 Copynumber: 2.1 Consensus size: 156
5149255 CAGTAATTTC
* ** * *
5149265 TGTAATTCCAGTTTACGGAAGCGACGATTGGTCCTCAAGCATAGATCAGTCCGGCTCAACCGCAG
1 TGTAATTGCAGTTTACGGAAGCGACGACAGGTCCTCAAGCACAGATCAGTCCAGCTCAACCGCAG
* *
5149330 ACAGCTAACGAGCCGACGGTAAGGATATTAAAGTTGTAATGGTTAATGTTCAACAATTTCATACA
66 ACAGCTAACGAGCCGACGGTAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACA
**
5149395 TGAATATTGAATAACACCGTTATATA
131 TGAATATTGAATAACACAATTATATA
* * * ** * *
5149421 TGTAATTGCAGTTTACGGAAGTGACGACAGGTCCTCAAGCACCGATCGGTTTAGCTCTATCGCAG
1 TGTAATTGCAGTTTACGGAAGCGACGACAGGTCCTCAAGCACAGATCAGTCCAGCTCAACCGCAG
* * * *
5149486 ACTGTTAATGAGTC-ACCGGTTAA-GATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATA
66 ACAGCTAACGAGCCGA-CGG-TAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATA
* * *
5149549 TATGATTATTGAATAACACAATTATATT
129 CATGAATATTGAATAACACAATTATATA
*
5149577 TGTTATTGCAGTT
1 TGTAATTGCAGTT
5149590 GACTCAGTCG
Statistics
Matches: 143, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
155 1 0.01
156 139 0.97
157 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (156 bp):
TGTAATTGCAGTTTACGGAAGCGACGACAGGTCCTCAAGCACAGATCAGTCCAGCTCAACCGCAG
ACAGCTAACGAGCCGACGGTAAGGATATTAAAGTTGTAACGGTTAATGTTCAACAATTCCATACA
TGAATATTGAATAACACAATTATATA
Found at i:5149996 original size:31 final size:31
Alignment explanation
Indices: 5149944--5150271 Score: 363
Period size: 31 Copynumber: 10.6 Consensus size: 31
5149934 GTTAGCCTTA
* * *
5149944 GCGTGTGACAACATTTGACTTGATATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* ** *
5149975 ACGTGTCACAATGTTTTACTTGTTATTCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * *
5150006 GCGTGTCACAACGTTTGATTTGATATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * * * *
5150037 GCTTGTTAGAACATTTTGCTTGTTATCCTTG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
5150068 GCGTGTCACAACAATTTGCTTGTTATAG-ATG
1 GCGTGTCACAACATTTTACTTGTTAT-GCATG
*
5150099 GCGTGTCACAACATTTAACTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
5150130 GCGTGTCACAACATTTTACTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
5150161 GCATGTCACAA-AGTTTATCTTGTTATGCATG
1 GCGTGTCACAACATTTTA-CTTGTTATGCATG
* * * *
5150192 GTGTGTCACAATATTTTACTTGTTTTGTATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * *
5150223 GCGTGTGACAACATTTTACTTGATATGCACG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
5150254 GCGTGTCACAACATTTTA
1 GCGTGTCACAACATTTTA
5150272 GTGTTTATGG
Statistics
Matches: 245, Mismatches: 48, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
30 6 0.02
31 234 0.96
32 5 0.02
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (31 bp):
GCGTGTCACAACATTTTACTTGTTATGCATG
Found at i:5151825 original size:17 final size:16
Alignment explanation
Indices: 5151807--5151885 Score: 81
Period size: 17 Copynumber: 4.9 Consensus size: 16
5151797 TTGTTTGTAT
*
5151807 AATTTTTTTGTATACAT
1 AATTTTTTT-TATACAC
5151824 AATTTTTTTTAT--AC
1 AATTTTTTTTATACAC
**
5151838 AATTAATTTTATACAC
1 AATTTTTTTTATACAC
*
5151854 AAATTTTTTGTATACAC
1 -AATTTTTTTTATACAC
*
5151871 AATTTATTTTATACA
1 AATTTTTTTTATACA
5151886 ATTCATTGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
14 11 0.22
16 18 0.35
17 22 0.43
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (16 bp):
AATTTTTTTTATACAC
Found at i:5155493 original size:31 final size:31
Alignment explanation
Indices: 5155451--5155532 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
5155441 TTGTCAGTCG
*
5155451 TGTTGTTACACGCCATGCATATAAAGTAAAA
1 TGTTGTAACACGCCATGCATATAAAGTAAAA
* *
5155482 TGTTGTAACACGCCATGCATATCAAGTCAAA
1 TGTTGTAACACGCCATGCATATAAAGTAAAA
*
5155513 TGTTGTGACACGCCATGCAT
1 TGTTGTAACACGCCATGCAT
5155533 CACTATCATG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (31 bp):
TGTTGTAACACGCCATGCATATAAAGTAAAA
Found at i:5155551 original size:23 final size:23
Alignment explanation
Indices: 5155517--5155591 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
5155507 GTCAAATGTT
*
5155517 GTGACACGCCATGCATCACTATC
1 GTGACACACCATGCATCACTATC
* *
5155540 ATGACACACCATGCATCACTGTC
1 GTGACACACCATGCATCACTATC
*
5155563 GTGACACTCCATGCATCACTATC
1 GTGACACACCATGCATCACTATC
5155586 GTGACA
1 GTGACA
5155592 TGCCAATCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (23 bp):
GTGACACACCATGCATCACTATC
Found at i:5156082 original size:63 final size:63
Alignment explanation
Indices: 5155964--5156083 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 63
5155954 CAGCCCGATG
* * * *
5155964 ACGATGGTGCTTAACAGAGAGTTGACAAAGCTCATACAGTTCAGAGATCTTAGAGAGCTGACA
1 ACGATGGTGCTCAACAGAGACTTGACAAAGCTCAGACAGTTCAGAGATCTGAGAGAGCTGACA
* * * *
5156027 ACGATGGTGCTCAACAGAGACTTGCCAGAGTTGAGACAGTTCAGAGAGT-TGAGAGAG
1 ACGATGGTGCTCAACAGAGACTTGACAAAGCTCAGACAGTTCAGAGA-TCTGAGAGAG
5156084 AAAGATGACC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 47 0.98
64 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (63 bp):
ACGATGGTGCTCAACAGAGACTTGACAAAGCTCAGACAGTTCAGAGATCTGAGAGAGCTGACA
Found at i:5157209 original size:34 final size:35
Alignment explanation
Indices: 5157131--5157197 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
5157121 AAGAACAAAG
** *
5157131 GTTGTGCTTGATCCTTATGAAAAGGTATTGTGAAA
1 GTTGTGCTTGATCCTTATGAAAAGACATGGTGAAA
*
5157166 GTTGTGCTTGATCCTTGT-AAAAGACATGGTGA
1 GTTGTGCTTGATCCTTATGAAAAGACATGGTGA
5157198 GGATTGTGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 11 0.39
35 17 0.61
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.36
Consensus pattern (35 bp):
GTTGTGCTTGATCCTTATGAAAAGACATGGTGAAA
Found at i:5162375 original size:2 final size:2
Alignment explanation
Indices: 5162368--5162416 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
5162358 NNNNNNNNNN
5162368 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5162410 TA TA TA T
1 TA TA TA T
5162417 GTTGTGCATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5166093 original size:31 final size:31
Alignment explanation
Indices: 5166052--5166112 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
5166042 CTTCTCCATT
* * *
5166052 TTTCCTATTGGGCTAAGCCCATTTATTTTTA
1 TTTCCCATTGGGCCAAGCCCACTTATTTTTA
*
5166083 TTTCCCATTGGGCCATGCCCACTTATTTTT
1 TTTCCCATTGGGCCAAGCCCACTTATTTTT
5166113 TATTGGGTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.16, C:0.25, G:0.13, T:0.46
Consensus pattern (31 bp):
TTTCCCATTGGGCCAAGCCCACTTATTTTTA
Found at i:5166136 original size:25 final size:25
Alignment explanation
Indices: 5166080--5166141 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
5166070 CCATTTATTT
* *
5166080 TTATTTCCCATTGGGCCATGCCCAC
1 TTATTTTCTATTGGGCCATGCCCAC
* * *
5166105 TTATTTTTTATTGGGTCATGCCCAT
1 TTATTTTCTATTGGGCCATGCCCAC
5166130 TTATTTTCTATT
1 TTATTTTCTATT
5166142 TCTTTTCTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.16, C:0.23, G:0.13, T:0.48
Consensus pattern (25 bp):
TTATTTTCTATTGGGCCATGCCCAC
Found at i:5166234 original size:22 final size:22
Alignment explanation
Indices: 5166206--5166248 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
5166196 CGTCACTCCC
5166206 TTCACCATCATGGCTTCCTCTT
1 TTCACCATCATGGCTTCCTCTT
*
5166228 TTCACCATCGTGGCTTCCTCT
1 TTCACCATCATGGCTTCCTCT
5166249 ATTCCTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.37, G:0.12, T:0.40
Consensus pattern (22 bp):
TTCACCATCATGGCTTCCTCTT
Found at i:5166825 original size:32 final size:34
Alignment explanation
Indices: 5166763--5166825 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 34
5166753 TTTCTCTCCC
*
5166763 TTTTTCTCTTCATTTCTTTCTTCCTCTCCCAGGG
1 TTTTTCTCTTCATTTATTTCTTCCTCTCCCAGGG
* *
5166797 TTTTTCT-TTCCTTTATTT-TTCTTCTCCCA
1 TTTTTCTCTTCATTTATTTCTTCCTCTCCCA
5166826 TTCTCAACCG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 10 0.38
33 9 0.35
34 7 0.27
ACGTcount: A:0.06, C:0.30, G:0.05, T:0.59
Consensus pattern (34 bp):
TTTTTCTCTTCATTTATTTCTTCCTCTCCCAGGG
Found at i:5166938 original size:21 final size:21
Alignment explanation
Indices: 5166885--5166938 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
5166875 CCCGCCATCA
* *
5166885 TTTCTTCATTATTCTCTTTGT
1 TTTCTTCCTTTTTCTCTTTGT
*
5166906 TTTCTTTGCTTTTTCT-TTTGT
1 TTTC-TTCCTTTTTCTCTTTGT
5166927 CTTTCTTCCTTT
1 -TTTCTTCCTTT
5166939 GATTTTTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.04, C:0.20, G:0.06, T:0.70
Consensus pattern (21 bp):
TTTCTTCCTTTTTCTCTTTGT
Found at i:5173202 original size:20 final size:20
Alignment explanation
Indices: 5173176--5173221 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
5173166 AATCTTACCT
* *
5173176 TTTTTCACTTGTTTCCTTGAA
1 TTTTACACTT-TTCCCTTGAA
5173197 TTTTCACACTTTTCCCTTGAA
1 TTTT-ACACTTTTCCCTTGAA
5173218 TTTT
1 TTTT
5173222 TCCACCTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTACACTTTTCCCTTGAA
Found at i:5173223 original size:22 final size:22
Alignment explanation
Indices: 5173181--5173221 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
5173171 TACCTTTTTT
*
5173181 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
5173203 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
5173222 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:5174893 original size:13 final size:13
Alignment explanation
Indices: 5174875--5174899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5174865 GGAAAATGGG
5174875 ATTTTATAAAATA
1 ATTTTATAAAATA
5174888 ATTTTATAAAAT
1 ATTTTATAAAAT
5174900 TTTTGAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:5175852 original size:5 final size:5
Alignment explanation
Indices: 5175842--5175868 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
5175832 TAATTACTAT
5175842 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
5175869 ATTCAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:5187459 original size:21 final size:21
Alignment explanation
Indices: 5187434--5187473 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5187424 TTCTGAATGA
*
5187434 TGGCACCATTCTTTGTCATAT
1 TGGCACCAGTCTTTGTCATAT
*
5187455 TGGCATCAGTCTTTGTCAT
1 TGGCACCAGTCTTTGTCAT
5187474 GAATTGCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (21 bp):
TGGCACCAGTCTTTGTCATAT
Found at i:5198491 original size:31 final size:31
Alignment explanation
Indices: 5198456--5198519 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
5198446 TCAAATTGTT
5198456 TACGAATCTACTATGTATGTAAATATGCTAC
1 TACGAATCTACTATGTATGTAAATATGCTAC
5198487 TACGAATCTACTATGTATGTAAATATGCTAC
1 TACGAATCTACTATGTATGTAAATATGCTAC
5198518 TA
1 TA
5198520 TGTACTAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (31 bp):
TACGAATCTACTATGTATGTAAATATGCTAC
Found at i:5199962 original size:26 final size:23
Alignment explanation
Indices: 5199901--5199960 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
5199891 TATACGTATA
*
5199901 CCCATCATCATCATGCACACCAT
1 CCCATCATCATCATACACACCAT
5199924 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
*
5199947 CACATCATCATCAT
1 CCCATCATCATCAT
5199961 CACCAGCTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.33, C:0.42, G:0.02, T:0.23
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:5200057 original size:43 final size:43
Alignment explanation
Indices: 5199957--5200087 Score: 160
Period size: 43 Copynumber: 3.1 Consensus size: 43
5199947 CACATCATCA
* * * **
5199957 TCATCACCAGCTCATGCGCACTCTCTACTCGCACAT-GGTGGG
1 TCATCACCAGGTTATGCGCACTCCCTACTCGCACATAGCCGGG
*
5199999 TCATCACCAGGTTATGCGCACTCCCTACTCGCACATAACCGGG
1 TCATCACCAGGTTATGCGCACTCCCTACTCGCACATAGCCGGG
*
5200042 TCATC-CTC-GGCTTATGCACACTCCCTACTCGCACATAGCCGGG
1 TCATCAC-CAGG-TTATGCGCACTCCCTACTCGCACATAGCCGGG
5200085 TCA
1 TCA
5200088 CTATAATTAC
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
42 36 0.46
43 42 0.54
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (43 bp):
TCATCACCAGGTTATGCGCACTCCCTACTCGCACATAGCCGGG
Found at i:5200134 original size:16 final size:16
Alignment explanation
Indices: 5200113--5200145 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5200103 ATTATATTCA
5200113 AACATATATGTA-TATC
1 AACATA-ATGTAGTATC
5200129 AACATAATGTAGTATC
1 AACATAATGTAGTATC
5200145 A
1 A
5200146 TAGGGATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (16 bp):
AACATAATGTAGTATC
Found at i:5201575 original size:80 final size:80
Alignment explanation
Indices: 5201305--5201563 Score: 439
Period size: 80 Copynumber: 3.2 Consensus size: 80
5201295 AGGTCTCACA
*
5201305 GTTAAGCATA-TCATATACATTATGGGCTAAGCATGTAAGTGATTTATGAGGTTATGAAATGTAT
1 GTTAAG-ATAGTCATATACACTATGGGCTAAGCATGTAAGTGATTTATGAGGTTATGAAATGTAT
5201369 GCCATGAGATGTATGT
65 GCCATGAGATGTATGT
* * * *
5201385 GTTGAGATAGTCATATACACTATAGGCAAAGCATGCAAGTGATTTATGAGGTTATGAAATGTATG
1 GTTAAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGATTTATGAGGTTATGAAATGTATG
5201450 CCATGAGATGTATGT
66 CCATGAGATGTATGT
* *
5201465 GTTAAGATAGTCATATATACTATGGGCTAAGCATTTAAGTGATTTATGAGGTTATGAAATGTATG
1 GTTAAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGATTTATGAGGTTATGAAATGTATG
5201530 CCATGAGATGTATGT
66 CCATGAGATGTATGT
5201545 GTTAAGATAGTCATATACA
1 GTTAAGATAGTCATATACA
5201564 TTGTTGGCTA
Statistics
Matches: 166, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
79 3 0.02
80 163 0.98
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.34
Consensus pattern (80 bp):
GTTAAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGATTTATGAGGTTATGAAATGTATG
CCATGAGATGTATGT
Found at i:5202331 original size:17 final size:17
Alignment explanation
Indices: 5202309--5202343 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5202299 GATTTAAAGA
5202309 GGTTTTTAA-GATTATAT
1 GGTTTTTAATGATT-TAT
5202326 GGTTTTTAATGATTTAT
1 GGTTTTTAATGATTTAT
5202343 G
1 G
5202344 CAAAGATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.20, T:0.54
Consensus pattern (17 bp):
GGTTTTTAATGATTTAT
Found at i:5231528 original size:18 final size:19
Alignment explanation
Indices: 5231505--5231544 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
5231495 CAAGTGAAAA
5231505 ATTTTA-GAAAAAAATAAT
1 ATTTTATGAAAAAAATAAT
* *
5231523 ATTTTATTAATAAAATAAT
1 ATTTTATGAAAAAAATAAT
5231542 ATT
1 ATT
5231545 AAAATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
ATTTTATGAAAAAAATAAT
Found at i:5232013 original size:19 final size:19
Alignment explanation
Indices: 5231963--5232018 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
5231953 CCTTCATGCT
5231963 CCCAATGCCATTTTCACCCA
1 CCCAATGCCATTTTCA-CCA
*
5231983 CCCAACGCCATTTTCA-CA
1 CCCAATGCCATTTTCACCA
*
5232001 CTCCTATGCCA-TTTCACC
1 C-CCAATGCCATTTTCACC
5232019 TTCCCACCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 8 0.26
19 8 0.26
20 15 0.48
ACGTcount: A:0.23, C:0.45, G:0.05, T:0.27
Consensus pattern (19 bp):
CCCAATGCCATTTTCACCA
Found at i:5234489 original size:20 final size:21
Alignment explanation
Indices: 5234437--5234490 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
5234427 ATACTTAAAG
5234437 TAATTTAAAAC-AAAATAACGT
1 TAATTT-AAACTAAAATAACGT
* * *
5234458 AAAATAAAACTAAAATAAC-T
1 TAATTTAAACTAAAATAACGT
5234478 TAATTTAAACTAA
1 TAATTTAAACTAA
5234491 TCAAAATATA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (21 bp):
TAATTTAAACTAAAATAACGT
Found at i:5235424 original size:20 final size:20
Alignment explanation
Indices: 5235399--5235446 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
5235389 TTCAAATAAA
*
5235399 GAAAAAATCTATATTAACCT
1 GAAAAAAGCTATATTAACCT
5235419 GAAAAAAGCTATATTAACCT
1 GAAAAAAGCTATATTAACCT
*
5235439 TAAAAAAG
1 GAAAAAAG
5235447 TTAAACTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.54, C:0.12, G:0.08, T:0.25
Consensus pattern (20 bp):
GAAAAAAGCTATATTAACCT
Found at i:5238083 original size:11 final size:11
Alignment explanation
Indices: 5238064--5238110 Score: 71
Period size: 11 Copynumber: 4.5 Consensus size: 11
5238054 GCTCCATCCG
*
5238064 AGAGGAAGAAA
1 AGAGAAAGAAA
5238075 AGAGAAAGAAA
1 AGAGAAAGAAA
5238086 AGAGAAA-AAA
1 AGAGAAAGAAA
5238096 AGAG-AAGAAA
1 AGAGAAAGAAA
5238106 AGAGA
1 AGAGA
5238111 GGAAATGGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
9 2 0.06
10 14 0.42
11 17 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AGAGAAAGAAA
Found at i:5238115 original size:10 final size:10
Alignment explanation
Indices: 5238068--5238115 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
5238058 CATCCGAGAG
5238068 GAAGAAAAGA
1 GAAGAAAAGA
5238078 GAAAGAAAAGA
1 G-AAGAAAAGA
*
5238089 GAAAAAAAGA
1 GAAGAAAAGA
5238099 GAAGAAAAGA
1 GAAGAAAAGA
*
5238109 GAGGAAA
1 GAAGAAA
5238116 TGGAGGAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
10 24 0.71
11 10 0.29
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
GAAGAAAAGA
Found at i:5239246 original size:2 final size:2
Alignment explanation
Indices: 5239230--5239265 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
5239220 GTTGTTTGTG
*
5239230 TA TA -A TA TA TG 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
5239266 GTAAAGTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5239728 original size:25 final size:25
Alignment explanation
Indices: 5239675--5239733 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
5239665 GATTTGTGAT
*
5239675 TATACGTGGCAAAGCCACAGGTTGT
1 TATACGTGGCAAAGCCACAGGTTGA
*
5239700 TATACGTGGCAAGGCCAC-GAGTTGA
1 TATACGTGGCAAAGCCACAG-GTTGA
*
5239725 TATATGTGG
1 TATACGTGG
5239734 TTGCAACCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (25 bp):
TATACGTGGCAAAGCCACAGGTTGA
Found at i:5251406 original size:21 final size:21
Alignment explanation
Indices: 5251382--5251424 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
5251372 TTGAAGTAAG
5251382 ACTAAATTGCTTGGTATTAGT
1 ACTAAATTGCTTGGTATTAGT
5251403 ACTAAATTGCTTGGTATTAGT
1 ACTAAATTGCTTGGTATTAGT
5251424 A
1 A
5251425 TTAGTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (21 bp):
ACTAAATTGCTTGGTATTAGT
Found at i:5255834 original size:21 final size:21
Alignment explanation
Indices: 5255804--5255858 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
5255794 ATGGCATCAT
* * *
5255804 TCTTTATCATGTAGGCTTTAG
1 TCTTTGTCATGAAGGCCTTAG
5255825 T-TTCTGTCATGAAGGCCTTAG
1 TCTT-TGTCATGAAGGCCTTAG
5255846 TCTTTGTCATGAA
1 TCTTTGTCATGAA
5255859 TTGCATGAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (21 bp):
TCTTTGTCATGAAGGCCTTAG
Found at i:5262536 original size:44 final size:44
Alignment explanation
Indices: 5262486--5262574 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
5262476 TTGCTCCTAC
* * *
5262486 AAGTGATTGTATTGTAATACTCCTTCTGTTTTGGAATTAGGTTT
1 AAGTGATTGCATTGCAATACTCCTTCTCTTTTGGAATTAGGTTT
5262530 AAGTGATTGCATTGCAATACTCCTTCTCTTTTGGAATTAGGTTT
1 AAGTGATTGCATTGCAATACTCCTTCTCTTTTGGAATTAGGTTT
5262574 A
1 A
5262575 GTATCACTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (44 bp):
AAGTGATTGCATTGCAATACTCCTTCTCTTTTGGAATTAGGTTT
Found at i:5268504 original size:12 final size:12
Alignment explanation
Indices: 5268487--5268520 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5268477 AAGCTCCACT
5268487 AAAAAAAATTCA
1 AAAAAAAATTCA
* *
5268499 AAAAAACATTTA
1 AAAAAAAATTCA
5268511 AAAAAAAATT
1 AAAAAAAATT
5268521 AGGGGAAGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:5275550 original size:2 final size:2
Alignment explanation
Indices: 5275543--5275573 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5275533 AATAATTGTT
5275543 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 T
5275574 GATTTTGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5277091 original size:25 final size:23
Alignment explanation
Indices: 5277054--5277122 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 23
5277044 AATGTTGTTT
* * *
5277054 TTACAAGCTATGTTCAAAAACGTTG
1 TTACAAACCATGTTCAAAAA--ATG
**
5277079 TTACAAACCATGTAGAAAAAATG
1 TTACAAACCATGTTCAAAAAATG
* *
5277102 TTACACACCATATTCAAAAAA
1 TTACAAACCATGTTCAAAAAA
5277123 ATTTTGCTGC
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 19 0.54
25 16 0.46
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.26
Consensus pattern (23 bp):
TTACAAACCATGTTCAAAAAATG
Found at i:5277138 original size:27 final size:27
Alignment explanation
Indices: 5277105--5277177 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
5277095 AAAAATGTTA
*
5277105 CACACCATATTCAAAAAAATTTTGCTG
1 CACACCATATTCAAAAAAAGTTTGCTG
* *
5277132 CACACCATGTTCAAAAATAGTTTGCTG
1 CACACCATATTCAAAAAAAGTTTGCTG
* ** *
5277159 TATGCCATTTTCAAAAAAA
1 CACACCATATTCAAAAAAA
5277178 AAAAAATTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
CACACCATATTCAAAAAAAGTTTGCTG
Found at i:5277262 original size:26 final size:27
Alignment explanation
Indices: 5277225--5277300 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 27
5277215 CACCATGTTT
*
5277225 ACAATGTTACTACACGCCATGTACAGA
1 ACAATATTACTACACGCCATGTACAGA
* *
5277252 CCAAT-TTACTACACGCCATGTTCAGA
1 ACAATATTACTACACGCCATGTACAGA
*
5277278 AAAATATTGA-TACACGCCATGTA
1 ACAATATT-ACTACACGCCATGTA
5277301 TAAAAACATG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 23 0.55
27 18 0.43
28 1 0.02
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (27 bp):
ACAATATTACTACACGCCATGTACAGA
Found at i:5278055 original size:21 final size:21
Alignment explanation
Indices: 5278029--5278085 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
5278019 TGCTTTAGTA
*
5278029 ATCCTTGAACTTATTTGAGTG
1 ATCCTTGAACTTATTTGAATG
5278050 ATCCTTGAACTTGA-TTGAATG
1 ATCCTTGAACTT-ATTTGAATG
* *
5278071 ATTCTTGAAGTTATT
1 ATCCTTGAACTTATT
5278086 AAAATCTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (21 bp):
ATCCTTGAACTTATTTGAATG
Found at i:5281347 original size:60 final size:60
Alignment explanation
Indices: 5281251--5281417 Score: 199
Period size: 60 Copynumber: 2.8 Consensus size: 60
5281241 TTGTAGCTTC
* ** * * * *
5281251 TCGCTGCAGCGAAATACATTCTCGCTGCAACGAGAAACTTTCTGTTTCTGGGTTGCAATT
1 TCGCTGCAGCGAGATTGAATCTCGCTACAGCGAGAAACTTTCTGTTTCTGGGTTACAATT
* * ** *
5281311 TCGCTGCAGCGAGATTGAATTTTGCTGTAGCGAGAAACATTCTGTTTCTGGGTTACAATT
1 TCGCTGCAGCGAGATTGAATCTCGCTACAGCGAGAAACTTTCTGTTTCTGGGTTACAATT
* * *
5281371 TCGTTGCAGGGAGATTGAATCTCGCTACAGCGAAAAACTTTCTGTTT
1 TCGCTGCAGCGAGATTGAATCTCGCTACAGCGAGAAACTTTCTGTTT
5281418 TGGTCTCTTA
Statistics
Matches: 89, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 89 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (60 bp):
TCGCTGCAGCGAGATTGAATCTCGCTACAGCGAGAAACTTTCTGTTTCTGGGTTACAATT
Found at i:5283408 original size:253 final size:252
Alignment explanation
Indices: 5282504--5284124 Score: 1051
Period size: 251 Copynumber: 6.5 Consensus size: 252
5282494 TTGTTTAACC
* * * *
5282504 TTTATAAGTTTTTACATTAATTCTTTCAAATTTACGTTAAGGTTTTTCAATT-TTAAATTTCCAA
1 TTTATAATTTTTTACATTAATTCTTACAAATTTATG-TAAGGTTTTTCAATTGTT-AATTTTCAA
* * * * * **
5282568 TACAATTATTTTTATCCTTACTGTTATTCATTAATAAATTAAAATTTGTAAACCGTT-AATA---
64 TATAATTATTTTTATCATTATTATTATTCATTTATAAATTAAAATTTGTAAATTGTTAAATATTT
* * *
5282629 CTGGCTTGATG-ATATAAATTTAAATA-TTTACTTTTCT-CAAAAATTATATTTATTTTGACTTA
129 TTAGCTTGA-GAATATAAATTTAAA-AGTTTAATTTT-TACAAAAATTATATTTATTTTGACTTA
* * * * * * *
5282691 ATTGACTTGCTACGTTAAATCTCACACA-TTAAAGTAAATATGTTAACCATGTTTTTTCC-TCAT
191 ATTGACTTGTTACGTTAAATCTCACACATTTACA-TCAATATTTTAACAATGCTTGTTCCAT--T
* * * * *
5282754 TTTATAATTTTTTATATTAATTCTTACAAGTTTAAAT-TAAGGTTTCGT-AGTAGTTAATTTTCA
1 TTTATAATTTTTTACATTAATTCTTACAAATTT--ATGTAAGGTTT-TTCAATTGTTAATTTTCA
* * * * *
5282817 CTATAATTA-TTTTATCCA-TATAATTATTCATTTTTAAATTAAAATTCGTAAATTGTTAAGTAT
63 ATATAATTATTTTTAT-CATTATTATTATTCATTTATAAATTAAAATTTGTAAATTGTTAAATAT
* ** * ** * * * *
5282880 TTTTGGCACAGGGAA-ATAAATTTAACTGCTTAATTTTCAC-AAAATTATATTTATTTTTACCTA
127 TTTTAGC-TTGAGAATATAAATTTAAAAGTTTAATTTTTACAAAAATTATATTTATTTTGACTTA
* * * * * * *
5282943 ATTAACTTATAACGTTAAATCTTATACATTTACATCAATATTTTAATAATACTTGTTCCATT
191 ATTGACTTGTTACGTTAAATCTCACACATTTACATCAATATTTTAACAATGCTTGTTCCATT
* * ** * * * **
5283005 TTTATAATTTTTCACATTAATTCTTATAGGTTTA-GTCAA-GATTTTGAATTGTTAATTTACTCT
1 TTTATAATTTTTTACATTAATTCTTACAAATTTATGT-AAGGTTTTTCAATTGTTAATTTTCAAT
* * * * * * *
5283068 ATAATTATTTTTAACTTTATTATAATTCATTTATAAATTAAAATGTATAAACTATTAAATATTTT
65 ATAATTATTTTTATCATTATTATTATTCATTTATAAATTAAAATTTGTAAATTGTTAAATATTTT
* * *
5283133 TAG-TTCGATAATATAAATTTAAAAGTTTAATTTTTACAAATATTATACTTATTTTGACTTAATT
130 TAGCTT-GAGAATATAAATTTAAAAGTTTAATTTTTACAAAAATTATATTTATTTTGACTTAATT
* * * *
5283197 GACTTGTTATGTTAAATCTCACACATTTACATTAATATTTTAACAATGCGTATT-CATTT
194 GACTTGTTACGTTAAATCTCACACATTTACATCAATATTTTAACAATGCTTGTTCCA-TT
*** * *
5283256 TTTATAATTTTTTATGCTAATTCTTACATATTTATGTAATGGTTTTTCAGTTGTTAATTTTCAAT
1 TTTATAATTTTTTACATTAATTCTTACAAATTTATGTAA-GGTTTTTCAATTGTTAATTTTCAAT
*
5283321 ATAATTATTTTTATCATTATTATTATTTC-TTTATAAATTAAAATTTGTAAATTGTCAAATATTT
65 ATAATTATTTTTATCATTATTATTA-TTCATTTATAAATTAAAATTTGTAAATTGTTAAATATTT
* * * * * * *
5283385 TTAGCTTGAGAATATACATTTAAATGTTTAATTTTCAAAAAAATTAGATTTATTTGGAATTAATT
129 TTAGCTTGAGAATATAAATTTAAAAGTTTAATTTTTACAAAAATTATATTTATTTTGACTTAATT
* * * * * * **
5283450 GAGTTATTACGTTAAATTTTACACATTTACATCAATATTTTAACAATTCTTGTTGCACA
194 GACTTGTTACGTTAAATCTCACACATTTACATCAATATTTTAACAATGCTTGTTCCATT
* * ** * ** **
5283509 TTTATAATGTTTTACGTTAATTCTTTTAAATTTACTTTAA-AATTTTCAATTACTAATTTTC---
1 TTTATAATTTTTTACATTAATTCTTACAAATTTA-TGTAAGGTTTTTCAATTGTTAATTTTCAAT
* * * * *
5283570 ---ACT-TTTTTATCTTTATTATTACTCCTTTATAAATTAAAATTTGTAAATAGTTAAATATTTT
65 ATAATTATTTTTATCATTATTATTATTCATTTATAAATTAAAATTTGTAAATTGTTAAATATTTT
* *
5283631 TAG-TTGAAGAATATAAATTTAAATA-TTT-ATTTTTCAAAAAAATTAGATTTATTTTGACTTAA
130 TAGCTTG-AGAATATAAATTTAAA-AGTTTAATTTTT-ACAAAAATTATATTTATTTTGACTTAA
* * * * * * ** * * * ** **
5283693 GTAACTTGTTACGTTAACTCT-ATAGAATTATGTAAATATTTTAATAATACTTGTTTTACC
192 TTGACTTGTTACGTTAAATCTCACACATTTACATCAATATTTTAACAATGCTTGTTCCATT
* * * * * **** *
5283753 TTTATGATTTTTTATATTCATTCTTATAAATTTATGTCAA-GATTTT-AAACAATAACTTTTCAT
1 TTTATAATTTTTTACATTAATTCTTACAAATTTATGT-AAGGTTTTTCAATTGTTAA-TTTTCAA
* * ** *
5283816 TGTAATTATTTTTAT-ACTTGTTATTATTTGTTTATAAGTTAAAATTTGTAAATAT-TTAAATAT
64 TATAATTATTTTTATCA-TTATTATTATTCATTTATAAATTAAAATTTGTAAAT-TGTTAAATAT
** ** * * * * * * * *
5283879 TTTTAAATAAAAAATATAGATGTAAATGATTAA-TTTAAAAAAAATTATATTTATTTTG-TTTAA
127 TTTTAGCTTGAGAATATAAATTTAAAAGTTTAATTTTTACAAAAATTATATTTATTTTGACTT-A
* * ** * * * **
5283942 ATTGACTTTTTA--TTAGAACTCTCA-ATAATTTATGTTAATATTTTAACAATGTTTGTTTCAAC
191 ATTGACTTGTTACGTTA-AA-TCTCACA-CATTTACATCAATATTTTAACAATGCTTGTTCCATT
* * * * * * ** * * * * * * *
5284004 TTAATGATTGTTTACGTTTATTCTTATAAATTTACCTCAAGATTTATAAATAGCTACTTTTCACT
1 TTTATAATTTTTTACATTAATTCTTACAAATTTATGT-AAGGTTTTTCAATTGTTAATTTTCAAT
* * * * *
5284069 ATAATTA-TTTTATCCTTATTATTATTCATGTATAAATTTAAACTTGTAAATGGTTA
65 ATAATTATTTTTATCATTATTATTATTCATTTATAAATTAAAATTTGTAAATTGTTA
5284125 TTTTTTTTTT
Statistics
Matches: 1073, Mismatches: 240, Indels: 115
0.75 0.17 0.08
Matches are distributed among these distances:
243 8 0.01
244 78 0.07
245 112 0.10
246 2 0.00
248 4 0.00
249 69 0.06
250 164 0.15
251 298 0.28
252 98 0.09
253 227 0.21
254 13 0.01
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (252 bp):
TTTATAATTTTTTACATTAATTCTTACAAATTTATGTAAGGTTTTTCAATTGTTAATTTTCAATA
TAATTATTTTTATCATTATTATTATTCATTTATAAATTAAAATTTGTAAATTGTTAAATATTTTT
AGCTTGAGAATATAAATTTAAAAGTTTAATTTTTACAAAAATTATATTTATTTTGACTTAATTGA
CTTGTTACGTTAAATCTCACACATTTACATCAATATTTTAACAATGCTTGTTCCATT
Found at i:5283418 original size:503 final size:497
Alignment explanation
Indices: 5282640--5283709 Score: 1200
Period size: 503 Copynumber: 2.1 Consensus size: 497
5282630 TGGCTTGATG
* *
5282640 ATATAAATTTAAATATTTACTTTTCT-CAAAAATTATATTTATTTTGACTTAATTGACTTGCTAC
1 ATATAAATTTAAATATTTAATTTT-TACAAAAATTATATTTATTTTGACTTAATTGACTTGTTAC
* ** * *
5282704 GTTAAATCTCACACATTAAAGTAAATATGTTAACCATGTTTTTTCCTCATTTTATAATTTTTTAT
65 GTTAAATCTCACACATTAAAGTAAATATGTTAACAATGCGTATTCATCATTTTATAATTTTTTAT
* *
5282769 ATTAATTCTTACAAGTTTAAATTAAGGTTTCGTAGTAGTTAATTTTCACTATAATTATTTTATCC
130 ACTAATTCTTACAAGTTT-AATTAAGGTTTCGTAGTAGTTAATTTTCAATATAATTATTTTATCC
* * * * *
5282834 ATATAATTATTCATTTTTAAATTAAAATTCGTAAATTGTTAAGTATTTTTGGCACAGGGAAATAA
194 ATATAATTATTCATTTATAAATTAAAATTCGTAAATTGTCAAATATTTTTAGCACAGAGAAATAA
* * * ** *
5282899 ATTTAACTGCTTAATTTTC-ACAAAATTATATTTATTTTTACCTAATTAACTTATAACGTTAAAT
259 ATTTAAATGCTTAATTTTCAAAAAAATTAGATTTATTTGGAACTAATTAACTTATAACGTTAAAT
* * **
5282963 CTTATACATTTACATCAATATTTTAATAATACTTGTTCCATTTTTATAAT-TTTTCACATTAATT
324 CTTACACATTTACATCAATATTTTAACAATACTTGTTCCACATTTATAATGTTTT-ACATTAATT
** * * ** *
5283027 CTTATAGGTTTA-GTCAAGATTTTGAATTGTTAATTTACTCTATAATTATTTTTAACTTTATTAT
388 CTTATAAATTTACGTCAAAATTTTCAATTACTAATTT--TC----ACT-TTTTTAACTTTATTAT
* *
5283091 AATTCATTTATAAATTAAAATGTATAAACTA-TTAAATATTTTTAGTTCG-ATA
446 AACTCATTTATAAATTAAAATGTATAAA-TAGTTAAATATTTTTAGTT-GAAGA
* * *
5283143 ATATAAATTTAAA-AGTTTAATTTTTACAAATATTATACTTATTTTGACTTAATTGACTTGTTAT
1 ATATAAATTTAAATA-TTTAATTTTTACAAAAATTATATTTATTTTGACTTAATTGACTTGTTAC
* * * *
5283207 GTTAAATCTCACACATTTACA-TTAATATTTTAACAATGCGTATTCAT-TTTTTATAATTTTTTA
65 GTTAAATCTCACACA-TTAAAGTAAATATGTTAACAATGCGTATTCATCATTTTATAATTTTTTA
* * *
5283270 TGCTAATTCTTACATA-TTT-ATGTAATGGTTT-TTCAGTTGTTAATTTTCAATATAATTATTTT
129 TACTAATTCTTACA-AGTTTAAT-TAA-GGTTTCGT-AGTAGTTAATTTTCAATATAATTA-TTT
* * **
5283332 TAT-CATTATTATTATTTC-TTTATAAATTAAAATTTGTAAATTGTCAAATATTTTTAGC-TTGA
189 TATCCA-TATAATTA-TTCATTTATAAATTAAAATTCGTAAATTGTCAAATATTTTTAGCACAGA
* * * * * *
5283394 GAATATACATTTAAATGTTTAATTTTCAAAAAAATTAGATTTATTTGGAATTAATTGAGTTATTA
252 GAA-ATAAATTTAAATGCTTAATTTTCAAAAAAATTAGATTTATTTGGAACTAATTAACTTATAA
* * *
5283459 CGTTAAATTTTACACATTTACATCAATATTTTAACAATTCTTGTTGCACATTTATAATGTTTTAC
316 CGTTAAATCTTACACATTTACATCAATATTTTAACAATACTTGTTCCACATTTATAATGTTTTAC
* * * * *
5283524 GTTAATTCTTTTAAATTTACTTTAAAATTTTCAATTACTAATTTTCACTTTTTTATCTTTATTAT
381 ATTAATTCTTATAAATTTACGTCAAAATTTTCAATTACTAATTTTCACTTTTTTAACTTTATTAT
* * * *
5283589 TACTCCTTTATAAATTAAAATTTGTAAATAGTTAAATATTTTTAGTTGAAGA
446 AACTCATTTATAAATTAAAATGTATAAATAGTTAAATATTTTTAGTTGAAGA
* * * *
5283641 ATATAAATTTAAATATTT-ATTTTTCAAAAAAATTAGATTTATTTTGACTTAAGTAACTTGTTAC
1 ATATAAATTTAAATATTTAATTTTT-ACAAAAATTATATTTATTTTGACTTAATTGACTTGTTAC
5283705 GTTAA
65 GTTAA
5283710 CTCTATAGAA
Statistics
Matches: 477, Mismatches: 72, Indels: 41
0.81 0.12 0.07
Matches are distributed among these distances:
497 9 0.02
498 109 0.23
499 3 0.01
500 2 0.00
501 4 0.01
502 65 0.14
503 160 0.34
504 103 0.22
505 22 0.05
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (497 bp):
ATATAAATTTAAATATTTAATTTTTACAAAAATTATATTTATTTTGACTTAATTGACTTGTTACG
TTAAATCTCACACATTAAAGTAAATATGTTAACAATGCGTATTCATCATTTTATAATTTTTTATA
CTAATTCTTACAAGTTTAATTAAGGTTTCGTAGTAGTTAATTTTCAATATAATTATTTTATCCAT
ATAATTATTCATTTATAAATTAAAATTCGTAAATTGTCAAATATTTTTAGCACAGAGAAATAAAT
TTAAATGCTTAATTTTCAAAAAAATTAGATTTATTTGGAACTAATTAACTTATAACGTTAAATCT
TACACATTTACATCAATATTTTAACAATACTTGTTCCACATTTATAATGTTTTACATTAATTCTT
ATAAATTTACGTCAAAATTTTCAATTACTAATTTTCACTTTTTTAACTTTATTATAACTCATTTA
TAAATTAAAATGTATAAATAGTTAAATATTTTTAGTTGAAGA
Found at i:5283880 original size:18 final size:17
Alignment explanation
Indices: 5283854--5283887 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5283844 TGTTTATAAG
5283854 TTAAAATTTGTAAATAT
1 TTAAAATTTGTAAATAT
*
5283871 TTAAATATTTTTAAATA
1 TTAAA-ATTTGTAAATA
5283888 AAAAATATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTAAAATTTGTAAATAT
Found at i:5298050 original size:54 final size:55
Alignment explanation
Indices: 5297968--5298074 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 55
5297958 ATTCATATAC
5297968 CACCCCATCGCACCCAGCTCATGTGCAT-CCCCCCACATCATGCACATAGCCGGA
1 CACCCCATCGCACCCAGCTCATGTGCATCCCCCCCACATCATGCACATAGCCGGA
* **
5298022 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCCACATTGTGCACATAGCCG
1 CACCCCATCGCACCCAGCTCATGTGCATCCCCCCCACATCATGCACATAGCCG
5298075 AAGTCATCGT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
54 27 0.55
55 22 0.45
ACGTcount: A:0.22, C:0.47, G:0.14, T:0.17
Consensus pattern (55 bp):
CACCCCATCGCACCCAGCTCATGTGCATCCCCCCCACATCATGCACATAGCCGGA
Found at i:5300234 original size:2 final size:2
Alignment explanation
Indices: 5300153--5300225 Score: 92
Period size: 2 Copynumber: 36.5 Consensus size: 2
5300143 TATTATGTTG
* * *
5300153 AT AT AT AT AT AG AT AT AT AT AT AT AT AG AT AT AT AG 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
* * *
5300195 AG AT AT CT AT AT AT CT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5300226 CGAATATATG
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (2 bp):
AT
Found at i:5300234 original size:16 final size:16
Alignment explanation
Indices: 5300153--5300225 Score: 110
Period size: 16 Copynumber: 4.6 Consensus size: 16
5300143 TATTATGTTG
5300153 ATATATATATAGATAT
1 ATATATATATAGATAT
5300169 ATATATATATAGATAT
1 ATATATATATAGATAT
*
5300185 ATAGATATATAGATAT
1 ATATATATATAGATAT
* * *
5300201 CTATATATCTATATAT
1 ATATATATATAGATAT
5300217 ATATATATA
1 ATATATATA
5300226 CGAATATATG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (16 bp):
ATATATATATAGATAT
Found at i:5300267 original size:20 final size:21
Alignment explanation
Indices: 5300227--5300267 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
5300217 ATATATATAC
*
5300227 GAATATATGTTGTGCATTGAT
1 GAATATATGTTGTGCAATGAT
*
5300248 GAATA-ATGTTGTGTAATGAT
1 GAATATATGTTGTGCAATGAT
5300268 ATTGACCCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.32, C:0.02, G:0.24, T:0.41
Consensus pattern (21 bp):
GAATATATGTTGTGCAATGAT
Found at i:5300324 original size:42 final size:42
Alignment explanation
Indices: 5300277--5300395 Score: 177
Period size: 42 Copynumber: 2.8 Consensus size: 42
5300267 TATTGACCCA
*
5300277 GCTATGTGCAAGTAGGAGTGTGCATAAGCCGATGCTGACTCG
1 GCTATGTGCGAGTAGGAGTGTGCATAAGCCGATGCTGACTCG
*
5300319 GCTATGTGCGAGT-GAGAGTGTGCATAAGCCGATGTTGACTCG
1 GCTATGTGCGAGTAG-GAGTGTGCATAAGCCGATGCTGACTCG
* *
5300361 GCTATGTACGAGTAGGGAGTGCGCATAAGCCGATG
1 GCTATGTGCGAGTA-GGAGTGTGCATAAGCCGATG
5300396 ATGATGATGA
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
41 1 0.01
42 50 0.71
43 18 0.26
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.24
Consensus pattern (42 bp):
GCTATGTGCGAGTAGGAGTGTGCATAAGCCGATGCTGACTCG
Found at i:5302195 original size:33 final size:33
Alignment explanation
Indices: 5302153--5302215 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
5302143 GCATCGCGGC
* *
5302153 GCTAAAATGTTTTGTCCGAATCTGTTTTTCGGT
1 GCTAAAATGTTTTATCCGAATATGTTTTTCGGT
*
5302186 GCTAAAATGTTTTATTCGAATATGTTTTTC
1 GCTAAAATGTTTTATCCGAATATGTTTTTC
5302216 TAGCACAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (33 bp):
GCTAAAATGTTTTATCCGAATATGTTTTTCGGT
Found at i:5306266 original size:13 final size:13
Alignment explanation
Indices: 5306248--5306272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5306238 GGAGAAATTG
5306248 TGATTTTATAAAA
1 TGATTTTATAAAA
5306261 TGATTTTATAAA
1 TGATTTTATAAA
5306273 TTTTATGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:5319344 original size:2 final size:2
Alignment explanation
Indices: 5319339--5319396 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
5319329 TGTGTGTATG
*
5319339 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5319381 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
5319397 NNNNNNNNNN
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5319815 original size:2 final size:2
Alignment explanation
Indices: 5319810--5319861 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
5319800 TTTCAGAGAG
5319810 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
5319852 AT AT AT AT AT
1 AT AT AT AT AT
5319862 GATTGCCTAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5322279 original size:28 final size:29
Alignment explanation
Indices: 5322234--5322298 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
5322224 TGGCAGCTTT
* * *
5322234 AACATTTTTATCTTAATTTAGACAAGA-A
1 AACATATTTATCTCAATTTAAACAAGATA
*
5322262 AACATATTTGTCTCAATTTAAACAAGATA
1 AACATATTTATCTCAATTTAAACAAGATA
5322291 AA-ATATTT
1 AACATATTT
5322299 TTTTTGTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 29 0.91
29 3 0.09
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (29 bp):
AACATATTTATCTCAATTTAAACAAGATA
Found at i:5324289 original size:43 final size:43
Alignment explanation
Indices: 5324228--5324375 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 43
5324218 TTGACTCGGC
* *
5324228 TATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCCGAT
1 TATGTACGAGTAGGGAGTGCGCATAACCCGAGGATGACCCGAT
* * * *
5324271 TATGTATGAGTAGGGAGTGCGCATAACCCAATGATGACCCGGT
1 TATGTACGAGTAGGGAGTGCGCATAACCCGAGGATGACCCGAT
* * * *
5324314 TATGTGCGAGTAGAGAGTGTGCATAACCCG-GTGATGACCC-AGC
1 TATGTACGAGTAGGGAGTGCGCATAACCCGAG-GATGACCCGA-T
* *
5324357 CATGTGCGAGTAGGGAGTG
1 TATGTACGAGTAGGGAGTG
5324376 ATCATGAGCT
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.26, C:0.18, G:0.35, T:0.21
Consensus pattern (43 bp):
TATGTACGAGTAGGGAGTGCGCATAACCCGAGGATGACCCGAT
Found at i:5324402 original size:20 final size:20
Alignment explanation
Indices: 5324374--5324441 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
5324364 GAGTAGGGAG
* *
5324374 TGATCATGAGCTGGTGATGA
1 TGATGATGAGTTGGTGATGA
*
5324394 TGATGATGAATTGGTGATGA
1 TGATGATGAGTTGGTGATGA
*
5324414 TGATGATGGGTTGGTGA-GA
1 TGATGATGAGTTGGTGATGA
5324433 TGATGATGA
1 TGATGATGA
5324442 TGGGTATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 10 0.24
20 32 0.76
ACGTcount: A:0.26, C:0.03, G:0.38, T:0.32
Consensus pattern (20 bp):
TGATGATGAGTTGGTGATGA
Found at i:5324463 original size:12 final size:12
Alignment explanation
Indices: 5324446--5324479 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5324436 TGATGATGGG
5324446 TATATATGTATA
1 TATATATGTATA
*
5324458 TATATACGTATA
1 TATATATGTATA
*
5324470 TACATATGTA
1 TATATATGTA
5324480 AATGTGTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (12 bp):
TATATATGTATA
Found at i:5330911 original size:28 final size:28
Alignment explanation
Indices: 5330870--5330925 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
5330860 CGGAGTAAAA
*
5330870 GGGCAAAATCGTAATTTTTTCACCCCAG
1 GGGCAAAATCGTAAATTTTTCACCCCAG
*
5330898 GGGC-AAATCGGTAAATTTTTCGCCCCAG
1 GGGCAAAATC-GTAAATTTTTCACCCCAG
5330926 CACTTGTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (28 bp):
GGGCAAAATCGTAAATTTTTCACCCCAG
Found at i:5332238 original size:43 final size:43
Alignment explanation
Indices: 5332168--5332286 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
5332158 GTAATTATGT
* *
5332168 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
5332211 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
5332254 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
5332287 GAGCTGGTGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.22, C:0.21, G:0.38, T:0.19
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:5332296 original size:43 final size:43
Alignment explanation
Indices: 5332178--5332299 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
5332168 TGACTCGGCT
* **
5332178 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
5332221 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
5332264 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
5332300 TGATGATGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:5332310 original size:20 final size:20
Alignment explanation
Indices: 5332285--5332347 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
5332275 GGGAGTGCGC
5332285 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
5332305 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
5332325 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
5332344 ATGA
1 ATGA
5332348 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:5335871 original size:43 final size:42
Alignment explanation
Indices: 5335755--5335872 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 42
5335745 TGTGCGAGTA
* * * **
5335755 GCGAGTAGCGAGTGCGCATAGGTCGATGATGACCCGGTTATGT
1 GCGAGTAGGGAGTGCGCATAGCT-GATGATGACCCAGCCATGT
* * * *
5335798 GCGATTAGGGAGTGCGCATAACCCGGTGATGACCCAGCCATGT
1 GCGAGTAGGGAGTGCGCAT-AGCTGATGATGACCCAGCCATGT
5335841 GCGAGTAGGGAGTGCGCATGAGCTGATGATGA
1 GCGAGTAGGGAGTGCGCAT-AGCTGATGATGA
5335873 TGAAACGGTG
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
43 59 0.98
44 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.20
Consensus pattern (42 bp):
GCGAGTAGGGAGTGCGCATAGCTGATGATGACCCAGCCATGT
Found at i:5335894 original size:23 final size:23
Alignment explanation
Indices: 5335864--5335921 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
5335854 GCGCATGAGC
* *
5335864 TGATGATGATGAAACGGTGTGCA
1 TGATGATGATGAAACGCTGTACA
** *
5335887 TGATGATGATGGGATGCTGTACA
1 TGATGATGATGAAACGCTGTACA
5335910 TGATGATGATGA
1 TGATGATGATGA
5335922 GTATATGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.29, C:0.07, G:0.34, T:0.29
Consensus pattern (23 bp):
TGATGATGATGAAACGCTGTACA
Found at i:5341557 original size:43 final size:43
Alignment explanation
Indices: 5341466--5341584 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 43
5341456 GTATTTATAT
* * * * **
5341466 TGACTCGGTTATGTGCGAGTAGAGAGTACACATAGGCCGATGA
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
* * *
5341509 AGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGG
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
* **
5341552 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCAT
5341585 GAGCTGGTGA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.24, C:0.20, G:0.36, T:0.20
Consensus pattern (43 bp):
TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
Found at i:5341627 original size:23 final size:23
Alignment explanation
Indices: 5341592--5341647 Score: 96
Period size: 23 Copynumber: 2.4 Consensus size: 23
5341582 CATGAGCTGG
5341592 TGATGATGAGATGGTGTGCATGA
1 TGATGATGAGATGGTGTGCATGA
5341615 TGATGATCG-GATGGTGTGCATGA
1 TGATGAT-GAGATGGTGTGCATGA
5341638 TGATGATGAG
1 TGATGATGAG
5341648 TATATGTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 1 0.03
23 29 0.94
24 1 0.03
ACGTcount: A:0.25, C:0.05, G:0.39, T:0.30
Consensus pattern (23 bp):
TGATGATGAGATGGTGTGCATGA
Found at i:5345944 original size:18 final size:18
Alignment explanation
Indices: 5345921--5345955 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5345911 CTAAACATAA
* *
5345921 ATGAAAGCAATTTAAATG
1 ATGAAAACAAGTTAAATG
5345939 ATGAAAACAAGTTAAAT
1 ATGAAAACAAGTTAAAT
5345956 AAATAAACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (18 bp):
ATGAAAACAAGTTAAATG
Found at i:5346464 original size:21 final size:21
Alignment explanation
Indices: 5346427--5346468 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5346417 TTGTTCAACA
5346427 CTTTATTTTCTCCTTTTTTTT
1 CTTTATTTTCTCCTTTTTTTT
*
5346448 CTTT-TTTTCATCTTTTTTTTT
1 CTTTATTTTC-TCCTTTTTTTT
5346469 TCACAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (21 bp):
CTTTATTTTCTCCTTTTTTTT
Done.