Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold601
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1259944
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.29
Warning! 136746 characters in sequence are not A, C, G, or T
File 2 of 5
Found at i:1665 original size:10 final size:11
Alignment explanation
Indices: 1636--1668 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1626 GTGTTTTCTT
*
1636 TCTGAGTTTAC
1 TCTGGGTTTAC
1647 TCTGGGTTTAC
1 TCTGGGTTTAC
1658 TC-GGGTTTAC
1 TCTGGGTTTAC
1668 T
1 T
1669 AGAATGGACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.45
Consensus pattern (11 bp):
TCTGGGTTTAC
Found at i:1692 original size:11 final size:11
Alignment explanation
Indices: 1676--1717 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
1666 ACTAGAATGG
1676 ACCCAGAGTAA
1 ACCCAGAGTAA
1687 ACCCAGAGTAA
1 ACCCAGAGTAA
* *
1698 ACCCAAAGCAA
1 ACCCAGAGTAA
1709 ACCCAGAGT
1 ACCCAGAGT
1718 GGACATATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.45, C:0.31, G:0.17, T:0.07
Consensus pattern (11 bp):
ACCCAGAGTAA
Found at i:1914 original size:11 final size:11
Alignment explanation
Indices: 1884--1908 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1874 GCAATTCCCG
1884 AGTAAACCCCA
1 AGTAAACCCCA
1895 AGTAAACCCCA
1 AGTAAACCCCA
1906 AGT
1 AGT
1909 GGACCCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.32, G:0.12, T:0.12
Consensus pattern (11 bp):
AGTAAACCCCA
Found at i:1943 original size:11 final size:11
Alignment explanation
Indices: 1927--1960 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
1917 ATTTTCAAAA
1927 AGTAAACCCAG
1 AGTAAACCCAG
*
1938 AGTAAACCCAA
1 AGTAAACCCAG
1949 AGTAAACCCAG
1 AGTAAACCCAG
1960 A
1 A
1961 AAATAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.50, C:0.26, G:0.15, T:0.09
Consensus pattern (11 bp):
AGTAAACCCAG
Found at i:6325 original size:57 final size:56
Alignment explanation
Indices: 6264--6372 Score: 193
Period size: 57 Copynumber: 1.9 Consensus size: 56
6254 TCTGTGCCAA
6264 ATTTAACAACATTTTTTCTGGCTGTTCTAGAG-AAGAATAATTCTAAAGACCCCCCC
1 ATTTAACAACATTTTTTCTGGCTGTTCTAGAGAAAG-ATAATTCTAAAGACCCCCCC
6320 NATTTAACAACATTTTTTCTGGCTGTTCTAGAGAAAGATAATTCTAAAGACCC
1 -ATTTAACAACATTTTTTCTGGCTGTTCTAGAGAAAGATAATTCTAAAGACCC
6373 ACCCTCCCCT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
57 48 0.94
58 3 0.06
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (56 bp):
ATTTAACAACATTTTTTCTGGCTGTTCTAGAGAAAGATAATTCTAAAGACCCCCCC
Found at i:11254 original size:21 final size:21
Alignment explanation
Indices: 11225--11265 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11215 GGTTTTGTTT
* *
11225 GGTTCGCTTTTTGAATGGTAC
1 GGTTCGCTTTGTGAACGGTAC
*
11246 GGTTTGCTTTGTGAACGGTA
1 GGTTCGCTTTGTGAACGGTA
11266 ATTATGACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.32, T:0.41
Consensus pattern (21 bp):
GGTTCGCTTTGTGAACGGTAC
Found at i:20543 original size:28 final size:31
Alignment explanation
Indices: 20495--20552 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
20485 AACTTATCAG
*
20495 TTTGTAATTTTTGTTGTAACAAA-TTACTAC
1 TTTGTAATTTGTGTTGTAACAAATTTACTAC
20525 TTTGTAATTTGTG-T-TAACAAATTTACTA
1 TTTGTAATTTGTGTTGTAACAAATTTACTA
20553 ATTTTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.27
29 7 0.27
30 12 0.46
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.50
Consensus pattern (31 bp):
TTTGTAATTTGTGTTGTAACAAATTTACTAC
Found at i:20825 original size:12 final size:12
Alignment explanation
Indices: 20808--20847 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
20798 ACACACACAC
20808 AAAAAACAAAAA
1 AAAAAACAAAAA
*
20820 AAAAAACAAAACC
1 AAAAAACAAAA-A
20833 AAAAAACAACAAA
1 AAAAAACAA-AAA
20846 AA
1 AA
20848 CAATGCCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.46
13 11 0.46
14 2 0.08
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAACAAAAA
Found at i:20836 original size:13 final size:12
Alignment explanation
Indices: 20806--20841 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
20796 ACACACACAC
20806 ACAAAAAACAAA
1 ACAAAAAACAAA
*
20818 AAAAAAAACAAA
1 ACAAAAAACAAA
20830 ACCAAAAAACAA
1 A-CAAAAAACAA
20842 CAAAAACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (12 bp):
ACAAAAAACAAA
Found at i:23818 original size:29 final size:29
Alignment explanation
Indices: 23742--23986 Score: 259
Period size: 29 Copynumber: 8.4 Consensus size: 29
23732 AACAATGCCT
* * *
23742 AGATAAATATCTCAGGACTTGCAGAGCTTC
1 AGATAAATATCTTAGGAGTTGCAGTGC-TC
* * *
23772 -GATAGATATC-TGGAGAGTTTG-AGTGGTC
1 AGATAAATATCTTAG-GAG-TTGCAGTGCTC
*
23800 TGATAAATATCTTAGGAGTTGCAGTGCTC
1 AGATAAATATCTTAGGAGTTGCAGTGCTC
*
23829 AGATAAATATCGTAGGAGTTGCAGTGCTC
1 AGATAAATATCTTAGGAGTTGCAGTGCTC
*
23858 AGAT-AATCATCTTAAGAGTTGCAGTGCTC
1 AGATAAAT-ATCTTAGGAGTTGCAGTGCTC
* *
23887 AGACAATTATCTTAGGAGTTGCAGTGCTC
1 AGATAAATATCTTAGGAGTTGCAGTGCTC
* *
23916 AGATAATTATCTTAGGAGTTGCAGTGCTA
1 AGATAAATATCTTAGGAGTTGCAGTGCTC
* *
23945 AGATAATTATCTT-GAGAATTGCAGTGCTC
1 AGATAAATATCTTAG-GAGTTGCAGTGCTC
23974 AGA-AAATTATCTT
1 AGATAAA-TATCTT
23987 TCAGAGAAAT
Statistics
Matches: 185, Mismatches: 21, Indels: 19
0.82 0.09 0.08
Matches are distributed among these distances:
28 12 0.06
29 166 0.90
30 7 0.04
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (29 bp):
AGATAAATATCTTAGGAGTTGCAGTGCTC
Found at i:23898 original size:87 final size:87
Alignment explanation
Indices: 23807--23986 Score: 297
Period size: 87 Copynumber: 2.1 Consensus size: 87
23797 GTCTGATAAA
*
23807 TATCTTAGGAGTTGCAGTGCTCAGATAAATATCGTAGGAGTTGCAGTGCTCAGATAATCATCTTA
1 TATCTTAGGAGTTGCAGTGCTCAGATAAATATCGTAGGAGTTGCAGTGCTAAGATAATCATCTTA
* *
23872 AGAGTTGCAGTGCTCAGACAAT
66 AGAATTGCAGTGCTCAGAAAAT
* * * *
23894 TATCTTAGGAGTTGCAGTGCTCAGATAATTATCTTAGGAGTTGCAGTGCTAAGATAATTATCTTG
1 TATCTTAGGAGTTGCAGTGCTCAGATAAATATCGTAGGAGTTGCAGTGCTAAGATAATCATCTTA
23959 AGAATTGCAGTGCTCAGAAAAT
66 AGAATTGCAGTGCTCAGAAAAT
23981 TATCTT
1 TATCTT
23987 TCAGAGAAAT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (87 bp):
TATCTTAGGAGTTGCAGTGCTCAGATAAATATCGTAGGAGTTGCAGTGCTAAGATAATCATCTTA
AGAATTGCAGTGCTCAGAAAAT
Found at i:24831 original size:353 final size:352
Alignment explanation
Indices: 24185--24890 Score: 1340
Period size: 353 Copynumber: 2.0 Consensus size: 352
24175 GAAGGCCTTT
24185 TTTAACAAGGAGAAAAATTCGCTGGATGGACCTGACAAAAAAGATAAAATAAACGTACAGGAAAA
1 TTTAACAAGGAGAAAAATTCGCTGGATGGACCTGACAAAAAAGATAAAATAAACGTACAGGAAAA
*
24250 ATCCCATTGAAAATTAAAAACCCCCACTGTTGATATAAATGAATTACTAATGAATCTCGCGCATT
66 ATCCCATTGAAAATTAAAAAACCCCACTGTTGATATAAATGAATTACTAATGAATCTCGCGCATT
24315 AAGGATGATTAAGACTTACATCTGTCTTCAATACTACAGTGATATTTTAAATATTGCTTTCCTTA
131 AAGGATGATTAAGACTTACATCTGTCTTCAATACTACAGTGATATTTTAAATATTGCTTTCCTTA
24380 CCGTACGAAATCTTTTCGTCGTTCTCCATGAACCTCTTATCTCGAAATCTCTTTTCACGGAACCA
196 CCGTACGAAATCTTTTCGTCGTTCTCCATGAACCTCTTATCTCGAAATCTCTTTTCACGGAACCA
*
24445 AGTCTGGATAGTGTCTATCCGGAGCCCTGTTTCCGATCTCAGCTCTCGGCATTTGGTCAGAGACG
261 AGTCTGGATAGTGTCTATCCGGAGACCTGTTTCCGATCTCAGCTCTCGGCATTTGGTCAGAGACG
24510 GCGTGGGGTTGTTCGCGTATGTTTGAC
326 GCGTGGGGTTGTTCGCGTATGTTTGAC
* *
24537 NTTTAACATGGAGAAAAATTCGTTGGATGGACCTGACAAAAAAGATAAAATAAACGTACAGGAAA
1 -TTTAACAAGGAGAAAAATTCGCTGGATGGACCTGACAAAAAAGATAAAATAAACGTACAGGAAA
* * *
24602 AATCCCATTGAAAATTAAAAAACCCCACTTTTGATATAAATGAATTACTGATGAATCTCGCGTAT
65 AATCCCATTGAAAATTAAAAAACCCCACTGTTGATATAAATGAATTACTAATGAATCTCGCGCAT
24667 TAAGGATGATTAAGACTTACATCTGTCTTCAATACTACAGTGATATTTTAAATATTGCTTTCCTT
130 TAAGGATGATTAAGACTTACATCTGTCTTCAATACTACAGTGATATTTTAAATATTGCTTTCCTT
24732 ACCGTACGAAATCTTTTCGTCGTTCTCCATGAACCTCTTATCTCGAAATCTCTTTTCACGGAACC
195 ACCGTACGAAATCTTTTCGTCGTTCTCCATGAACCTCTTATCTCGAAATCTCTTTTCACGGAACC
24797 AAGTCTGGATAGTGTCTATCCGGAGACCTGTTTCCGATCTCAGCTCTCGGCATTTGGTCAGAGAC
260 AAGTCTGGATAGTGTCTATCCGGAGACCTGTTTCCGATCTCAGCTCTCGGCATTTGGTCAGAGAC
24862 GGCGTGGGGTTGTTCGCGTATGTTTGAC
325 GGCGTGGGGTTGTTCGCGTATGTTTGAC
24890 T
1 T
24891 CAGAATGTCC
Statistics
Matches: 346, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
352 1 0.00
353 345 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (352 bp):
TTTAACAAGGAGAAAAATTCGCTGGATGGACCTGACAAAAAAGATAAAATAAACGTACAGGAAAA
ATCCCATTGAAAATTAAAAAACCCCACTGTTGATATAAATGAATTACTAATGAATCTCGCGCATT
AAGGATGATTAAGACTTACATCTGTCTTCAATACTACAGTGATATTTTAAATATTGCTTTCCTTA
CCGTACGAAATCTTTTCGTCGTTCTCCATGAACCTCTTATCTCGAAATCTCTTTTCACGGAACCA
AGTCTGGATAGTGTCTATCCGGAGACCTGTTTCCGATCTCAGCTCTCGGCATTTGGTCAGAGACG
GCGTGGGGTTGTTCGCGTATGTTTGAC
Found at i:29439 original size:14 final size:14
Alignment explanation
Indices: 29420--29447 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29410 AAAGATTTAT
29420 TACTTCTATAATAA
1 TACTTCTATAATAA
29434 TACTTCTATAATAA
1 TACTTCTATAATAA
29448 AATACTGCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (14 bp):
TACTTCTATAATAA
Found at i:37558 original size:17 final size:18
Alignment explanation
Indices: 37521--37561 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
37511 GATACCATAC
*
37521 CGGTATTTTTGAAATGATA
1 CGGTATTTTT-AAACGATA
37540 CGGTATTTTT-AACGATA
1 CGGTATTTTTAAACGATA
37557 CGGTA
1 CGGTA
37562 CTAGACCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.52
19 10 0.48
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (18 bp):
CGGTATTTTTAAACGATA
Found at i:40365 original size:21 final size:22
Alignment explanation
Indices: 40323--40365 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
40313 TGGGTAGCTA
*
40323 TAAATAAATGTACTTTTGGTAGG
1 TAAATAAATGTAC-TCTGGTAGG
40346 TAAATAAATGTAC-CTGGTAG
1 TAAATAAATGTACTCTGGTAG
40366 ATAATGTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
23 13 0.68
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (22 bp):
TAAATAAATGTACTCTGGTAGG
Found at i:41973 original size:14 final size:14
Alignment explanation
Indices: 41954--42059 Score: 108
Period size: 14 Copynumber: 7.4 Consensus size: 14
41944 AACCGGCAAA
41954 AGGACAGACCAATC
1 AGGACAGACCAATC
41968 AGGACAGACCAATC
1 AGGACAGACCAATC
41982 AGGACAGACCAATC
1 AGGACAGACCAATC
** *
41996 AGGACA-ATTGTAGTC
1 AGGACAGA--CCAATC
42011 AGGACAGACCAATC
1 AGGACAGACCAATC
** *
42025 AGGACA-ATTGTAGTC
1 AGGACAGA--CCAATC
42040 AGGACAGACCAATC
1 AGGACAGACCAATC
42054 AGGACA
1 AGGACA
42060 ATTGTAGTCA
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
13 2 0.03
14 52 0.70
15 18 0.24
16 2 0.03
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.12
Consensus pattern (14 bp):
AGGACAGACCAATC
Found at i:42014 original size:15 final size:15
Alignment explanation
Indices: 41994--42071 Score: 56
Period size: 15 Copynumber: 5.3 Consensus size: 15
41984 GACAGACCAA
41994 TCAGGACAATTGTAG
1 TCAGGACAATTGTAG
** *
42009 TCAGGACAGA--CCAA
1 TCAGGACA-ATTGTAG
42023 TCAGGACAATTGTAG
1 TCAGGACAATTGTAG
** *
42038 TCAGGACAGA--CCAA
1 TCAGGACA-ATTGTAG
42052 TCAGGACAATTGTAG
1 TCAGGACAATTGTAG
42067 TCAGG
1 TCAGG
42072 TCACTAATTT
Statistics
Matches: 45, Mismatches: 12, Indels: 12
0.65 0.17 0.17
Matches are distributed among these distances:
13 2 0.04
14 18 0.40
15 23 0.51
16 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (15 bp):
TCAGGACAATTGTAG
Found at i:42022 original size:29 final size:29
Alignment explanation
Indices: 41954--42071 Score: 186
Period size: 29 Copynumber: 4.1 Consensus size: 29
41944 AACCGGCAAA
** *
41954 AGGACAGACCAATCAGGACAGA--CCAATC
1 AGGACAGACCAATCAGGACA-ATTGTAGTC
41982 AGGACAGACCAATCAGGACAATTGTAGTC
1 AGGACAGACCAATCAGGACAATTGTAGTC
42011 AGGACAGACCAATCAGGACAATTGTAGTC
1 AGGACAGACCAATCAGGACAATTGTAGTC
42040 AGGACAGACCAATCAGGACAATTGTAGTC
1 AGGACAGACCAATCAGGACAATTGTAGTC
42069 AGG
1 AGG
42072 TCACTAATTT
Statistics
Matches: 85, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
27 1 0.01
28 20 0.24
29 64 0.75
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.14
Consensus pattern (29 bp):
AGGACAGACCAATCAGGACAATTGTAGTC
Found at i:42056 original size:43 final size:42
Alignment explanation
Indices: 41954--42059 Score: 108
Period size: 43 Copynumber: 2.5 Consensus size: 42
41944 AACCGGCAAA
41954 AGGACAGACCAATCAGGACAGACCAATCAGGACAGACCAATC
1 AGGACAGACCAATCAGGACAGACCAATCAGGACAGACCAATC
** * ** *
41996 AGGACA-ATTGTAGTCAGGACAGACCAATCAGGACA-ATTGTAGTC
1 AGGACAGA--CCAATCAGGACAGACCAATCAGGACAGA--CCAATC
42040 AGGACAGACCAATCAGGACA
1 AGGACAGACCAATCAGGACA
42060 ATTGTAGTCA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
41 1 0.02
42 7 0.14
43 32 0.64
44 9 0.18
45 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.12
Consensus pattern (42 bp):
AGGACAGACCAATCAGGACAGACCAATCAGGACAGACCAATC
Found at i:49879 original size:2 final size:2
Alignment explanation
Indices: 49874--49927 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
49864 AAAAATAAAA
49874 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
49916 AG AG AG AG AG AG
1 AG AG AG AG AG AG
49928 TTTCTAGTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:50938 original size:63 final size:63
Alignment explanation
Indices: 50839--50970 Score: 246
Period size: 63 Copynumber: 2.1 Consensus size: 63
50829 AAAAGAATAA
50839 TAATAATAGAGGAAAAGAAACAAAGCAAAAACAATAAGATCTTCCGTTTCCAACGGAAAACCT
1 TAATAATAGAGGAAAAGAAACAAAGCAAAAACAATAAGATCTTCCGTTTCCAACGGAAAACCT
* *
50902 TAATAATAGAGGAAAAGAAACAAAGCAAAAACAATAAGGTCTTCCGTTTCCAACGGAAGACCT
1 TAATAATAGAGGAAAAGAAACAAAGCAAAAACAATAAGATCTTCCGTTTCCAACGGAAAACCT
50965 TAATAA
1 TAATAA
50971 AAAAAATTTA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.18
Consensus pattern (63 bp):
TAATAATAGAGGAAAAGAAACAAAGCAAAAACAATAAGATCTTCCGTTTCCAACGGAAAACCT
Found at i:53267 original size:2 final size:2
Alignment explanation
Indices: 53260--53304 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
53250 CGTTTCAGGG
53260 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
53302 TC T
1 TC T
53305 ATATATATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:56217 original size:22 final size:22
Alignment explanation
Indices: 56176--56218 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
56166 TGACAATCTC
56176 ATGTCTTTCCGTGTCATCCCCT
1 ATGTCTTTCCGTGTCATCCCCT
* *
56198 ATGT-TTTCCTTGTCATTCCCT
1 ATGTCTTTCCGTGTCATCCCCT
56219 GTGTACCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.09, C:0.33, G:0.12, T:0.47
Consensus pattern (22 bp):
ATGTCTTTCCGTGTCATCCCCT
Found at i:57760 original size:23 final size:23
Alignment explanation
Indices: 57691--57762 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
57681 ACAGTGGCAC
*
57691 ACAGGGGATGTGTACAGTGGCTG
1 ACAGGGGATGTGTACAGGGGCTG
57714 ACAGGGGAT-TG--CA-GGG-TG
1 ACAGGGGATGTGTACAGGGGCTG
*
57732 TACAGGGAATGTGTACAGGGGCTG
1 -ACAGGGGATGTGTACAGGGGCTG
57756 ACAGGGG
1 ACAGGGG
57763 GTGCAAAGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
18 2 0.05
19 10 0.25
20 4 0.10
22 4 0.10
23 18 0.45
24 2 0.05
ACGTcount: A:0.24, C:0.12, G:0.46, T:0.18
Consensus pattern (23 bp):
ACAGGGGATGTGTACAGGGGCTG
Found at i:58429 original size:53 final size:53
Alignment explanation
Indices: 58355--58462 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
58345 TCATGTTTTA
58355 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATAGTTTTCGTACTGTTTC
1 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATAGTTTTCGTACTGTTTC
*
58408 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTGTTTC
1 TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATAGTTTTCGTACTGTTTC
58461 TT
1 TT
58463 CTTCTTATTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.44
Consensus pattern (53 bp):
TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATAGTTTTCGTACTGTTTC
Found at i:59853 original size:53 final size:53
Alignment explanation
Indices: 59724--59831 Score: 162
Period size: 53 Copynumber: 2.0 Consensus size: 53
59714 TCGTATGTAG
* * * **
59724 TTATTATTAAGGTCTTCCGTTTCAAACGGAAGACCTTATTGTTTTCGAACTGT
1 TTATTATTAAGGTCTTCCTTTTCCAGCATAAGACCTTATTGTTTTCGAACTGT
*
59777 TTATTATTAAGGTCTTCCTTTTCCAGCATAAGACCTTATTGTTTTCGTACTGT
1 TTATTATTAAGGTCTTCCTTTTCCAGCATAAGACCTTATTGTTTTCGAACTGT
59830 TT
1 TT
59832 CTTTTTGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (53 bp):
TTATTATTAAGGTCTTCCTTTTCCAGCATAAGACCTTATTGTTTTCGAACTGT
Found at i:60944 original size:298 final size:298
Alignment explanation
Indices: 60405--60997 Score: 1044
Period size: 298 Copynumber: 2.0 Consensus size: 298
60395 TAAATAAAAC
* *
60405 CTAGATGCTGTCATTAGACAGTAATACCCGCACCAAGTGTTTGCCCCTAAATAACACTGCTTTGT
1 CTAGATGCTGTCATTAGACAGTAATAACCGCACCAAGCGTTTGCCCCTAAATAACACTGCTTTGT
60470 ACCAGTCTAATTAAAAATGAAGGCAACATGCAAGCTCCGGTAATACATTTAAAAATTATAATTTT
66 ACCAGTCTAATTAAAAATGAAGGCAACATGCAAGCTCCGGTAATACATTTAAAAATTATAATTTT
* *
60535 CATAACTGAATGATAAAATCCCTTCCCATATGATAATACACATGAGCAGCACTTTATGTGCAATT
131 CATAACTGAAGGATAAAATCCCTTCCCATAAGATAATACACATGAGCAGCACTTTATGTGCAATT
*
60600 TGGGGTTGAAATGTTTCCAGTGAATTTTCAGTTAATCAAAAATCTTAACAATTCATGTCATAGAA
196 TGGGGTTGAAATGTTTCCAGTGAATTTTCAGTTAATCAAAAATCTTAACAATTCATATCATAGAA
*
60665 AGTATAACGGTCTATATAATTATTACTAACAAAATAAA
261 AGTATAACGGTCTATATAATTATTACAAACAAAATAAA
*
60703 CTAGATGCTGTCATTAGACAGTAATAACCGCACCAAGCGTTTGCCCCTAAATAACACTGTTTTGT
1 CTAGATGCTGTCATTAGACAGTAATAACCGCACCAAGCGTTTGCCCCTAAATAACACTGCTTTGT
60768 ACCAGT-TAAATTAAAAATGAAGGCAACATGCAAGCTCCGGTAATACATTTAAAAATTATAATTT
66 ACCAGTCT-AATTAAAAATGAAGGCAACATGCAAGCTCCGGTAATACATTTAAAAATTATAATTT
* *
60832 TCATAACTGAAGGATGAGATCCCTTCCCATAAGATAATACACATGAGCAGCACTTTATGTGCAAT
130 TCATAACTGAAGGATAAAATCCCTTCCCATAAGATAATACACATGAGCAGCACTTTATGTGCAAT
* * * *
60897 TTGGGGTTGAACTGTTTGCAGTGAATTTTCAGTTAATCAATAATCTTAACATTTCATATCATAGA
195 TTGGGGTTGAAATGTTTCCAGTGAATTTTCAGTTAATCAAAAATCTTAACAATTCATATCATAGA
*
60962 AAGTATAATGGTCTATATAATTATTACAAACAAAAT
260 AAGTATAACGGTCTATATAATTATTACAAACAAAAT
60998 TAAAAATTAA
Statistics
Matches: 280, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
297 1 0.00
298 279 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (298 bp):
CTAGATGCTGTCATTAGACAGTAATAACCGCACCAAGCGTTTGCCCCTAAATAACACTGCTTTGT
ACCAGTCTAATTAAAAATGAAGGCAACATGCAAGCTCCGGTAATACATTTAAAAATTATAATTTT
CATAACTGAAGGATAAAATCCCTTCCCATAAGATAATACACATGAGCAGCACTTTATGTGCAATT
TGGGGTTGAAATGTTTCCAGTGAATTTTCAGTTAATCAAAAATCTTAACAATTCATATCATAGAA
AGTATAACGGTCTATATAATTATTACAAACAAAATAAA
Found at i:63577 original size:134 final size:135
Alignment explanation
Indices: 63398--63695 Score: 358
Period size: 134 Copynumber: 2.2 Consensus size: 135
63388 TATAATCATG
* * * * *
63398 ACCCTTAAACCATATATATTCATGTTTC-TGATGTCAAGGGGCATCAAATGTTATGTAGGTCATG
1 ACCCTTAAACCATATATATTCTTGTTCCTTGATGTCAAGGGGCATCAAACGATATGTAGGTCATA
* * *
63462 GGCCCTGTGGG-TGGTCCCGACCCC-CTCAAACAGCAAGT-CCCTTAATATCTTCG-AAACAGTT
66 GGCCC-G-GGGTTGGTCACGACCCCACTCAAACAGCAAGTACAC-GAATATC-TCGAAAACAGTT
*
63523 GAGATCCCT
127 GAGATCCCC
*
63532 ACCCTTAAACCATAGATATTCTTGTTCCTTG-TGTCAAGGGGCATCAAACGATATGTAGGTCATA
1 ACCCTTAAACCATATATATTCTTGTTCCTTGATGTCAAGGGGCATCAAACGATATGTAGGTCATA
* * * *
63596 GGCCCGGGGTTGGTCATGACCCCACTCGAACAGGAAGTACACGAATATCTCGAAAACGGTTGAGA
66 GGCCCGGGGTTGGTCACGACCCCACTCAAACAGCAAGTACACGAATATCTCGAAAACAGTTGAGA
63661 TCCCC
131 TCCCC
* *
63666 ACCCCTT-AACCATATATAGTCTTGATCCTT
1 A-CCCTTAAACCATATATATTCTTGTTCCTT
63696 AAAGGGCATC
Statistics
Matches: 141, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
132 3 0.02
133 15 0.11
134 114 0.81
135 9 0.06
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (135 bp):
ACCCTTAAACCATATATATTCTTGTTCCTTGATGTCAAGGGGCATCAAACGATATGTAGGTCATA
GGCCCGGGGTTGGTCACGACCCCACTCAAACAGCAAGTACACGAATATCTCGAAAACAGTTGAGA
TCCCC
Found at i:64130 original size:164 final size:163
Alignment explanation
Indices: 63794--64139 Score: 516
Period size: 164 Copynumber: 2.1 Consensus size: 163
63784 AACAGTTCCT
63794 ATCATATCCCAAGATATGATGTGTCTATCCATTAAATCATAAAAGGAGTTCTAGGATCTATGTTT
1 ATCATATCCCAAGATATGATGTGTCTATCCATTAAATCATAAAAGGAGTTCTAGGATCTATGTTT
* *
63859 TTTCTGAAGTGATAAACGGCAATTTTCTGCTACTTTTTGACTCCCTGGATGACATTTAAATTTTT
66 TTTCTGAAGTGATAAACGGCAATTTTCTGCTACTTTTTGACTCCCTAGATGAAATTTAAATTTTT
* *
63924 AAAACCTTACTGCACATCTATAGAACAGTCCCT
131 AAAACCTTACTGCACATCTATAGAACAGCCCCA
* * *
63957 ATCATATCCCAAGATATGATGTGTCTATCCTTTAAATCATAAGAGGAGTTCTGGGATCTATGGTT
1 ATCATATCCCAAGATATGATGTGTCTATCCATTAAATCATAAAAGGAGTTCTAGGATCTAT-G-T
* * *
64022 TTTTTTTG-AGTGATAAACGTCAATTTTCTGCTACTTTTAT-ACTCCCTAGATGAAATTTAGATT
64 TTTTTCTGAAGTGATAAACGGCAATTTTCTGCTACTTTT-TGACTCCCTAGATGAAATTTAAATT
* * *
64085 TTTAAAATCTTATTGCACATCTATAGGACAGCCCCA
128 TTTAAAACCTTACTGCACATCTATAGAACAGCCCCA
* *
64121 ATTATATCCCAAGAGATGA
1 ATCATATCCCAAGATATGA
64140 CGTAGCTACC
Statistics
Matches: 165, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
163 58 0.35
164 98 0.59
165 9 0.05
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (163 bp):
ATCATATCCCAAGATATGATGTGTCTATCCATTAAATCATAAAAGGAGTTCTAGGATCTATGTTT
TTTCTGAAGTGATAAACGGCAATTTTCTGCTACTTTTTGACTCCCTAGATGAAATTTAAATTTTT
AAAACCTTACTGCACATCTATAGAACAGCCCCA
Found at i:64682 original size:4 final size:4
Alignment explanation
Indices: 64673--64706 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
64663 AAACGTGACA
*
64673 GACG GACG GACG GACA GACG GACG GACG GACG GA
1 GACG GACG GACG GACG GACG GACG GACG GACG GA
64707 ACAGAGTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.29, C:0.24, G:0.47, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:64690 original size:16 final size:16
Alignment explanation
Indices: 64669--64703 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
64659 AGTAAAACGT
64669 GACAGACGGACGGACG
1 GACAGACGGACGGACG
64685 GACAGACGGACGGACG
1 GACAGACGGACGGACG
64701 GAC
1 GAC
64704 GGAACAGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.43, T:0.00
Consensus pattern (16 bp):
GACAGACGGACGGACG
Found at i:66273 original size:30 final size:30
Alignment explanation
Indices: 66239--66342 Score: 145
Period size: 30 Copynumber: 3.5 Consensus size: 30
66229 AATATGTTGC
*
66239 CGGTCCAATAGATCGAAGTCTATTGACCGG
1 CGGTCCAATAGATCGCAGTCTATTGACCGG
*
66269 CGGTCCAATAGATCGCAGTTTATTGACCGG
1 CGGTCCAATAGATCGCAGTCTATTGACCGG
* * *
66299 CGGTCTAATAGTTCGCAGTCTATTGACTGG
1 CGGTCCAATAGATCGCAGTCTATTGACCGG
* *
66329 CAGTTCAATAGATC
1 CGGTCCAATAGATC
66343 ACTTTCAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (30 bp):
CGGTCCAATAGATCGCAGTCTATTGACCGG
Found at i:68378 original size:161 final size:161
Alignment explanation
Indices: 68114--68620 Score: 829
Period size: 161 Copynumber: 3.2 Consensus size: 161
68104 TTTTTTTTAA
* *
68114 GTCCAAGGGCCATAACTCTGTTGAAAATGGCTCGATCGTACCCAATATCAATC-TGACCTAGATA
1 GTCCAAGGGCCATAACTCTGTCGAAAATGGCTCGATCGTACCCAATATCAAACTTGACCTAGATA
** * * ** **
68178 TTATCATGATAAACCTGTATACTTAATTTCATTTCAATATGTTCAACCTCTGCGAAGGAAATGAG
66 TTATCATGATAAACCTGTATACCAAATTTCATTTCAATATGTTCATCCCCTGCTCATTAAATGAG
68243 CGGAAACTGCAAATAACTGGAATTTTTCT-C
131 CGGAAACTGCAAATAACTGGAATTTTTCTAC
*
68273 TGTCCAAGGCCCATAACTCTGTCGAAAATGGCTCGATCGTACCCAATATCAAACTTGACCTAGAT
1 -GTCCAAGGGCCATAACTCTGTCGAAAATGGCTCGATCGTACCCAATATCAAACTTGACCTAGAT
68338 ATTATCATGATAAACCTGTATACCAAATTTCATTTCAATATGTTCATCCCCTGCTCATTAAATGA
65 ATTATCATGATAAACCTGTATACCAAATTTCATTTCAATATGTTCATCCCCTGCTCATTAAATGA
68403 GCGGAAACTGCAAATAACTGGAATTTTTCTAC
130 GCGGAAACTGCAAATAACTGGAATTTTTCTAC
*
68435 GTCCAAGGGCCATAACTCTGTCGAAAATGGCTCGATCGTATCCAATATCAAACTTGACCTAGATA
1 GTCCAAGGGCCATAACTCTGTCGAAAATGGCTCGATCGTACCCAATATCAAACTTGACCTAGATA
* * *
68500 TTATCATGATAAACCTGTACACCAAATTTCATTTCAATATGTTCATCCCCTGTTCATTAAATTAG
66 TTATCATGATAAACCTGTATACCAAATTTCATTTCAATATGTTCATCCCCTGCTCATTAAATGAG
*
68565 CAGAAACTGCAAATAACTGGAATTTTTCTAC
131 CGGAAACTGCAAATAACTGGAATTTTTCTAC
* *
68596 ATCCAGGGGCCATAACTCTGTCGAA
1 GTCCAAGGGCCATAACTCTGTCGAA
68621 CATAGGTAAT
Statistics
Matches: 326, Mismatches: 19, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
160 50 0.15
161 275 0.84
162 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (161 bp):
GTCCAAGGGCCATAACTCTGTCGAAAATGGCTCGATCGTACCCAATATCAAACTTGACCTAGATA
TTATCATGATAAACCTGTATACCAAATTTCATTTCAATATGTTCATCCCCTGCTCATTAAATGAG
CGGAAACTGCAAATAACTGGAATTTTTCTAC
Found at i:69855 original size:2 final size:2
Alignment explanation
Indices: 69848--69898 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
69838 ATTTTGAGCG
69848 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
69890 CT CT CT CT C
1 CT CT CT CT C
69899 ATATTTTTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:75193 original size:2 final size:2
Alignment explanation
Indices: 75186--75241 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
75176 TAAAACTCCT
75186 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
75228 TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC
75242 ATTATTAAAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:77641 original size:73 final size:73
Alignment explanation
Indices: 77522--77664 Score: 277
Period size: 73 Copynumber: 2.0 Consensus size: 73
77512 AACAAGTAAA
*
77522 CATTAATTTGAAGGCATAAAGTACGAAGTTTAAAGGTAAGAAATTATTGACAACTTCAAAAAATC
1 CATTAATTTGAAGGCATAAAGTACGAAGTTTAAAGGTAAGAAATTATTGAAAACTTCAAAAAATC
77587 CTGTTATT
66 CTGTTATT
77595 CATTAATTTGAAGGCATAAAGTACGAAGTTTAAAGGTAAGAAATTATTGAAAACTTCAAAAAATC
1 CATTAATTTGAAGGCATAAAGTACGAAGTTTAAAGGTAAGAAATTATTGAAAACTTCAAAAAATC
77660 CTGTT
66 CTGTT
77665 GGGTAGACAC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.31
Consensus pattern (73 bp):
CATTAATTTGAAGGCATAAAGTACGAAGTTTAAAGGTAAGAAATTATTGAAAACTTCAAAAAATC
CTGTTATT
Found at i:79956 original size:19 final size:19
Alignment explanation
Indices: 79932--79977 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
79922 AAGTGCATAA
79932 ATTTGAGGTCAAACTTCAG
1 ATTTGAGGTCAAACTTCAG
79951 ATTTGAGGTCAAACTTCAG
1 ATTTGAGGTCAAACTTCAG
79970 ATTTGAGG
1 ATTTGAGG
79978 CTGAGTATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (19 bp):
ATTTGAGGTCAAACTTCAG
Found at i:85236 original size:180 final size:179
Alignment explanation
Indices: 85028--85353 Score: 431
Period size: 180 Copynumber: 1.8 Consensus size: 179
85018 AAAGCTTGAC
* * * *
85028 TATTTCTTTGTTTTAATATAATAAAAGAT-AATTTAGAGTGTGAGGATAAATTCAAAAAGATTTA
1 TATTTCTTTGTATTAATACAATAAAAGATAAATTAAGA-TGTGAGGATAAATTCAAAAAGATTAA
* * * * * *
85092 GCATGTTTCGTTA-GTAATTAACTGTACTGATAATTTAACGATAAACGCAAAATTATGGGTTCTT
65 GCAGGTATC-CTAGGTAATTAACTATACTGATAATTTAACGATAAACGCAAAATTAAGGGTTCCT
85156 TCATGGGGGTGTAATTCTATAACATAAGATTTATAATTTAACTAAATCTAAT
129 TCAT-GGGGTGTAATTCTATAACATAAGATTTATAATTTAACTAAATCTAAT
* * * *
85208 TATTTCTTTGTATTAATACCATAAAAGATAAATTAAGATGTGAGGGTAAATTGAAATAGATTAAG
1 TATTTCTTTGTATTAATACAATAAAAGATAAATTAAGATGTGAGGATAAATTCAAAAAGATTAAG
* * ** * *
85273 GAGGTATCCTAGGTGATTATTTATAGTGATAATTTAACGATAAACTCAAAATTAAGGGTTCCTTC
66 CAGGTATCCTAGGTAATTAACTATACTGATAATTTAACGATAAACGCAAAATTAAGGGTTCCTTC
85338 ATGGGGTGTAATTCTA
131 ATGGGGTGTAATTCTA
85354 AGAGAAAAGG
Statistics
Matches: 124, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
179 16 0.13
180 101 0.81
181 7 0.06
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (179 bp):
TATTTCTTTGTATTAATACAATAAAAGATAAATTAAGATGTGAGGATAAATTCAAAAAGATTAAG
CAGGTATCCTAGGTAATTAACTATACTGATAATTTAACGATAAACGCAAAATTAAGGGTTCCTTC
ATGGGGTGTAATTCTATAACATAAGATTTATAATTTAACTAAATCTAAT
Found at i:86294 original size:6 final size:6
Alignment explanation
Indices: 86280--86315 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
86270 TTTTGCACCC
* *
86280 TTAGCG TTAGGG TTAGGG TTAGGG TTAGGG TAAGGG
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG
86316 CACTTTGACG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.19, C:0.03, G:0.47, T:0.31
Consensus pattern (6 bp):
TTAGGG
Found at i:86807 original size:11 final size:11
Alignment explanation
Indices: 86792--87006 Score: 254
Period size: 11 Copynumber: 19.4 Consensus size: 11
86782 GATACACCTT
* *
86792 GGGTATACTCT
1 GGGTATACCCA
*
86803 GGGTATACCTA
1 GGGTATACCCA
* *
86814 GGATATACCCT
1 GGGTATACCCA
*
86825 GGGTATAACCA
1 GGGTATACCCA
*
86836 GGGTATACCCT
1 GGGTATACCCA
*
86847 GAGTATACCCA
1 GGGTATACCCA
*
86858 GGGAATACCCA
1 GGGTATACCCA
86869 GGGTATACCCA
1 GGGTATACCCA
*
86880 AGGTATACCCA
1 GGGTATACCCA
86891 GGGTATACCCA
1 GGGTATACCCA
86902 GGGTATACCCTA
1 GGGTATACCC-A
86914 -GGTATACCCA
1 GGGTATACCCA
86924 GGGTATACCCA
1 GGGTATACCCA
*
86935 AGGTATACCCA
1 GGGTATACCCA
*
86946 GGGTATACCTAA
1 GGGTATACC-CA
86958 GGGTATACCCA
1 GGGTATACCCA
*
86969 GAGTATACCTCA
1 GGGTATACC-CA
86981 -GGTATACCCAA
1 GGGTATACCC-A
*
86992 GGGTATACCCT
1 GGGTATACCCA
87003 GGGT
1 GGGT
87007 TTCTTTAATA
Statistics
Matches: 173, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
10 2 0.01
11 149 0.86
12 22 0.13
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (11 bp):
GGGTATACCCA
Found at i:90185 original size:12 final size:12
Alignment explanation
Indices: 90164--90195 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
90154 TTCAGATGAC
*
90164 GAGGAGGAGGAG
1 GAGGACGAGGAG
90176 GAGGACGAGGAG
1 GAGGACGAGGAG
90188 GAGGACGA
1 GAGGACGA
90196 AACCAGCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.06, G:0.59, T:0.00
Consensus pattern (12 bp):
GAGGACGAGGAG
Found at i:92492 original size:149 final size:149
Alignment explanation
Indices: 92239--92953 Score: 1205
Period size: 149 Copynumber: 4.8 Consensus size: 149
92229 ATTTGAATAG
92239 CCTCTGTACAACATTATCCCCGAATATCAAGGTCTGGGATTAGATTTTAGATGATAAACCCGGGA
1 CCTCTGTACAACATTATCCCCGAATATCAAGGTCTGGGATTAGATTTTAGATGATAAACCCGGGA
* *
92304 TGACCCTAAAAATCAGGGTTAGATCGGGGTTAGCCCTTAAACTTCCGGGTTGGGGAAGGGTTGAT
66 TGACCCTAAAAATCAGGGTTAGCTCGGGGTTAGCCCTTAAACTTCCGGGTTGGGGAAGGGTTGGT
92369 GGATATTTCATGTGACCTA
131 GGATATTTCATGTGACCTA
* * * *
92388 CCTCTGTACAATATCATCCCCGAATATCAACGTCTGGGATTACATTTTAGATGATAAACCCGGGA
1 CCTCTGTACAACATTATCCCCGAATATCAAGGTCTGGGATTAGATTTTAGATGATAAACCCGGGA
* * *
92453 TGACCCTTAATATCAGGGTTAGCTCGGGGTTAGACCTTAAACTTCCGGGTTGGGGAAGGGTTGGT
66 TGACCCTAAAAATCAGGGTTAGCTCGGGGTTAGCCCTTAAACTTCCGGGTTGGGGAAGGGTTGGT
92518 GGATATTTCATGTGACCTA
131 GGATATTTCATGTGACCTA
** * *
92537 CCTCTGTACAACATTATCCCCGAATATCAAGGTCTGATATTGGATTTTAGATGATACACCCGGGA
1 CCTCTGTACAACATTATCCCCGAATATCAAGGTCTGGGATTAGATTTTAGATGATAAACCCGGGA
* * *
92602 TGACCCTAAAATTCAGGGTTAGCACGGGGTTAGCCCTTAAACTTCCGGGTTTGGGAAGGGTTGGT
66 TGACCCTAAAAATCAGGGTTAGCTCGGGGTTAGCCCTTAAACTTCCGGGTTGGGGAAGGGTTGGT
*
92667 GGATATTTCATGTAACCTA
131 GGATATTTCATGTGACCTA
** *
92686 CCTCTGTACAACATTATCCCCGAATATCATTGTCTGGGATTAGATTTTAGATGATACACCCGGGA
1 CCTCTGTACAACATTATCCCCGAATATCAAGGTCTGGGATTAGATTTTAGATGATAAACCCGGGA
* *
92751 TGACCCTAAAAATCAGGGTTAGTTCGGGGTTAGCCCTGAAACTTCCGGGTTGGGGAAGGGTTGGT
66 TGACCCTAAAAATCAGGGTTAGCTCGGGGTTAGCCCTTAAACTTCCGGGTTGGGGAAGGGTTGGT
92816 GGATATTTCATGTGACCTA
131 GGATATTTCATGTGACCTA
**
92835 CCTCTGTACAACATTATCCCCGAATATCAAGGTCTGGGATTAGAAATTAGATGATAAACCCGGGA
1 CCTCTGTACAACATTATCCCCGAATATCAAGGTCTGGGATTAGATTTTAGATGATAAACCCGGGA
*
92900 TGACCCTAAAAATCAGGGTTAGCTCGGGGTTAGACCTTAAACTTCCGGGTTGGG
66 TGACCCTAAAAATCAGGGTTAGCTCGGGGTTAGCCCTTAAACTTCCGGGTTGGG
92954 TAGGGTTAGG
Statistics
Matches: 523, Mismatches: 43, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
149 523 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (149 bp):
CCTCTGTACAACATTATCCCCGAATATCAAGGTCTGGGATTAGATTTTAGATGATAAACCCGGGA
TGACCCTAAAAATCAGGGTTAGCTCGGGGTTAGCCCTTAAACTTCCGGGTTGGGGAAGGGTTGGT
GGATATTTCATGTGACCTA
Found at i:92965 original size:6 final size:6
Alignment explanation
Indices: 92946--93005 Score: 72
Period size: 6 Copynumber: 10.3 Consensus size: 6
92936 TTAAACTTCC
* *
92946 GGGTT- GGG-TA GGGTTA GGGTT- GGGTTA GGGTTA GCGTTA TGGTTA
1 GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA
92991 GGGTTA GGGTATA GG
1 GGGTTA GGGT-TA GG
93006 CACTTTGACG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
4 1 0.02
5 11 0.23
6 31 0.66
7 4 0.09
ACGTcount: A:0.15, C:0.02, G:0.50, T:0.33
Consensus pattern (6 bp):
GGGTTA
Found at i:92991 original size:18 final size:17
Alignment explanation
Indices: 92948--92997 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
92938 AAACTTCCGG
*
92948 GTTGGG-TAGGGTTAGG
1 GTTGGGTTAGGGTTAGC
92964 GTTGGGTTAGGGTTAGC
1 GTTGGGTTAGGGTTAGC
*
92981 GTTATGGTTAGGGTTAG
1 GTT-GGGTTAGGGTTAG
92998 GGTATAGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.20
17 12 0.40
18 12 0.40
ACGTcount: A:0.14, C:0.02, G:0.48, T:0.36
Consensus pattern (17 bp):
GTTGGGTTAGGGTTAGC
Found at i:93496 original size:11 final size:11
Alignment explanation
Indices: 93482--93661 Score: 100
Period size: 11 Copynumber: 16.4 Consensus size: 11
93472 GGTTCAACTA
93482 GGGTATACCCT
1 GGGTATACCCT
*
93493 GGGTTTACCCT
1 GGGTATACCCT
* *
93504 GGATATACCCC
1 GGGTATACCCT
93515 GGGTATACCCT
1 GGGTATACCCT
* * *
93526 TGGTGTACCCC
1 GGGTATACCCT
*
93537 GGGTATACCCG
1 GGGTATACCCT
*
93548 GGGTTAAACCC-
1 GGG-TATACCCT
* *
93559 GGGAATAACCT
1 GGGTATACCCT
*
93570 GGGTTAAACCC-
1 GGG-TATACCCT
* *
93581 GGTTATATCCT
1 GGGTATACCCT
*
93592 GGGTTTAACCC-
1 GGGTAT-ACCCT
93603 GGGTATACCCT
1 GGGTATACCCT
* * *
93614 GAGTTTACCCC
1 GGGTATACCCT
*
93625 GGGTTTAACCC-
1 GGGTAT-ACCCT
*
93636 GGGTTTAACCC-
1 GGGTAT-ACCCT
*
93647 GGGAATACCCT
1 GGGTATACCCT
93658 GGGT
1 GGGT
93662 TAGGGTTAGG
Statistics
Matches: 128, Mismatches: 33, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
10 17 0.13
11 94 0.73
12 17 0.13
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.26
Consensus pattern (11 bp):
GGGTATACCCT
Found at i:93661 original size:22 final size:22
Alignment explanation
Indices: 93488--93662 Score: 163
Period size: 22 Copynumber: 7.9 Consensus size: 22
93478 ACTAGGGTAT
* * *
93488 ACCCTGGGTTTACCCTGGATATA
1 ACCC-GGGTATACCCTGGGTTTA
* * *
93511 CCCCGGGTATACCCTTGGTGTA
1 ACCCGGGTATACCCTGGGTTTA
* * *
93533 CCCCGGGTATACCCGGGGTTAA
1 ACCCGGGTATACCCTGGGTTTA
* * *
93555 ACCCGGGAATAACCTGGGTTAA
1 ACCCGGGTATACCCTGGGTTTA
* *
93577 ACCCGGTTATATCCTGGGTTTA
1 ACCCGGGTATACCCTGGGTTTA
*
93599 ACCCGGGTATACCCTGAGTTTA
1 ACCCGGGTATACCCTGGGTTTA
* *
93621 CCCCGGGTTTAACCC-GGGTTTA
1 ACCCGGGTAT-ACCCTGGGTTTA
*
93643 ACCCGGGAATACCCTGGGTT
1 ACCCGGGTATACCCTGGGTT
93663 AGGGTTAGGG
Statistics
Matches: 124, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
21 4 0.03
22 113 0.91
23 7 0.06
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.26
Consensus pattern (22 bp):
ACCCGGGTATACCCTGGGTTTA
Found at i:93669 original size:6 final size:6
Alignment explanation
Indices: 93658--93820 Score: 235
Period size: 6 Copynumber: 27.3 Consensus size: 6
93648 GGAATACCCT
*
93658 GGGTTA GGGTTA GGGTTA GGGTTA GGGTT- GGGTTA GGGTAA GGGTT-
1 GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA
* *
93704 GGGTTA GGGTTA GGGTTA GGGTTA GGGTTT GGGTT- GGGTTA GGGTTT
1 GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA
*
93751 GGGTT- GGGTTA GGGTTA GGGTTA GGGTTA GGGTTGGA GGGTTA AGGTTA
1 GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTT--A GGGTTA GGGTTA
93800 GGGTTA GGGTTA GGGTATA GG
1 GGGTTA GGGTTA GGGT-TA GG
93821 CACTTTGACG
Statistics
Matches: 144, Mismatches: 6, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
5 20 0.14
6 114 0.79
7 4 0.03
8 6 0.04
ACGTcount: A:0.15, C:0.00, G:0.52, T:0.34
Consensus pattern (6 bp):
GGGTTA
Found at i:93719 original size:52 final size:52
Alignment explanation
Indices: 93658--93820 Score: 245
Period size: 52 Copynumber: 3.0 Consensus size: 52
93648 GGAATACCCT
*
93658 GGGTTAGGGTTAGGGTTAGGGTTAGGGTTGGGTTAGGGTAAGGGTTGGGTTA
1 GGGTTAGGGTTAGGGTTAGGGTTAGGGTTGGGTTAGGGTTAGGGTTGGGTTA
* *
93710 GGGTTAGGGTTAGGGTTAGGGTTTGGGTTGGGTTAGGGTTTGGGTTGGGTTA
1 GGGTTAGGGTTAGGGTTAGGGTTAGGGTTGGGTTAGGGTTAGGGTTGGGTTA
*
93762 GGGTTAGGGTTAGGGTTAGGGTTGGAGGGTTAAGGTTAGGGTTAGGGTTAGGGTATA
1 GGGTTAGGGTTAGGGTTAGGGTT--AGGGTT-GGGTTAGGGTTAGGGTT-GGGT-TA
93819 GG
1 GG
93821 CACTTTGACG
Statistics
Matches: 100, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
52 72 0.72
54 5 0.05
55 15 0.15
56 4 0.04
57 4 0.04
ACGTcount: A:0.15, C:0.00, G:0.52, T:0.34
Consensus pattern (52 bp):
GGGTTAGGGTTAGGGTTAGGGTTAGGGTTGGGTTAGGGTTAGGGTTGGGTTA
Found at i:94323 original size:11 final size:11
Alignment explanation
Indices: 94293--94333 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
94283 GGATCAACTA
94293 GGGTATACCCT
1 GGGTATACCCT
* *
94304 GAGTTTACCCT
1 GGGTATACCCT
*
94315 GGGTATACCCC
1 GGGTATACCCT
94326 GGGTATAC
1 GGGTATAC
94334 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (11 bp):
GGGTATACCCT
Found at i:110770 original size:364 final size:364
Alignment explanation
Indices: 110102--111002 Score: 1534
Period size: 364 Copynumber: 2.5 Consensus size: 364
110092 NNNNNNNNNN
110102 TGACATTTCAACGCGAAGCCGAAAACCATGGGTTCCCTCATGGAGGTTTAAATTCAAGTTAAAAG
1 TGACATTTCAACGCGAAGCCGAAAACCATGGGTTCCCTCATGGAGGTTTAAATTCAAGTTAAAAG
*
110167 CACTTTTCTTTTACATTTTACTGGTTATTTCCTTCTATTGATGTAATAAAAGATAAAAAAGGGTG
66 CACTTTTCTTTTAAATTTTACTGGTTATTTCCTTCTATTGATGTAATAAAAGATAAAAAAGGGTG
*
110232 CCAGGAAAAATTCAAAAAAGATTTAGGAGCTTTTCTTGGTGATTAACCATACTGATAATTAAATG
131 CCAGGAAAAATTCAAAAAAGATTTAGGAGTTTTTCTTGGTGATTAACCATACTGATAATTAAATG
* *
110297 AGAAACAGAAAATCATGGGTTCTGTCATTGGGGTGGAATTTTTGAACAAAAGCATTTATCATTTA
196 AGAAACAGAAAATCATGGGTTCTGTCATTGGGGTGGAATTTTTAAACAAAAGCATATATCATTTA
110362 ACTAATGCTGTTTATTTCTTTGTATTGATGTAATAAAAGATAGATTAGGCTGCAAACATTAACAC
261 ACTAATGCTGTTTATTTCTTTGTATTGATGTAATAAAAGATAGATTAGGCTGCAAACATTAACAC
*
110427 AAAAAGACTAAGTAGGTGTCCTGTGTGATT-AACTGTAC
326 AAAAAGACTAAGTAGGTGTCCTATGTGATTAAACTGTAC
* *
110465 TGACATTTCAACGCGAAGCTGAAAACCATGGGTTCCATCATGGAGGTTTAAATTCAAGTTAAAAG
1 TGACATTTCAACGCGAAGCCGAAAACCATGGGTTCCCTCATGGAGGTTTAAATTCAAGTTAAAAG
* * *
110530 CACTTTTGTTTTAAATTTTACTGGTTATTTTCTTGTATTGATGTAATAAAAGATAAAAAAGGGTG
66 CACTTTTCTTTTAAATTTTACTGGTTATTTCCTTCTATTGATGTAATAAAAGATAAAAAAGGGTG
* * *
110595 CCAGGAGAAATTAAAAAAAAGATTTAGGAGTTTTTCTTGGTGATTAACCATACTGATAATTTAAT
131 CCAGGAAAAATT-CAAAAAAGATTTAGGAGTTTTTCTTGGTGATTAACCATACTGATAATTAAAT
110660 GAGAAACAGAAAATCATGGGTTCTGTCATTGGGGTGGAATTTTTAAACAAAAGCATATATCATTT
195 GAGAAACAGAAAATCATGGGTTCTGTCATTGGGGTGGAATTTTTAAACAAAAGCATATATCATTT
* *
110725 AACTAATGCTGTTTATTTCTTTGTATTGATGTATTAAAAGATAGATTAGGCTGCAAATATTAACA
260 AACTAATGCTGTTTATTTCTTTGTATTGATGTAATAAAAGATAGATTAGGCTGCAAACATTAACA
* * * *
110790 CAAAAAGACTTAGTAGGTTTCCTATTTGATTAAATTGTAC
325 CAAAAAGACTAAGTAGGTGTCCTATGTGATTAAACTGTAC
* * *
110830 TGACATTTCAACGCGAAGCCGAAAACCATGGTTTCCCTCATGGAGGTTGAAATTCAAATTAAAAG
1 TGACATTTCAACGCGAAGCCGAAAACCATGGGTTCCCTCATGGAGGTTTAAATTCAAGTTAAAAG
* *
110895 CACTTTTCTTTTAAATTTTACTGGTTATTTCCCTCTATTGATGTAATAAAAGATTAAAAATGGGT
66 CACTTTTCTTTTAAATTTTACTGGTTATTTCCTTCTATTGATGTAATAAAAGA-TAAAAAAGGGT
* * *
110960 GCCAGGATAAATTCAAAAAAGATTTAGGTGTTTTTCTTAGTGA
130 GCCAGGAAAAATTCAAAAAAGATTTAGGAGTTTTTCTTGGTGA
111003 CTCGCTATAT
Statistics
Matches: 502, Mismatches: 33, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
363 135 0.27
364 202 0.40
365 143 0.28
366 22 0.04
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (364 bp):
TGACATTTCAACGCGAAGCCGAAAACCATGGGTTCCCTCATGGAGGTTTAAATTCAAGTTAAAAG
CACTTTTCTTTTAAATTTTACTGGTTATTTCCTTCTATTGATGTAATAAAAGATAAAAAAGGGTG
CCAGGAAAAATTCAAAAAAGATTTAGGAGTTTTTCTTGGTGATTAACCATACTGATAATTAAATG
AGAAACAGAAAATCATGGGTTCTGTCATTGGGGTGGAATTTTTAAACAAAAGCATATATCATTTA
ACTAATGCTGTTTATTTCTTTGTATTGATGTAATAAAAGATAGATTAGGCTGCAAACATTAACAC
AAAAAGACTAAGTAGGTGTCCTATGTGATTAAACTGTAC
Found at i:110937 original size:182 final size:181
Alignment explanation
Indices: 110102--110963 Score: 699
Period size: 182 Copynumber: 4.7 Consensus size: 181
110092 NNNNNNNNNN
* * *
110102 TGACATTTCAACGCGAAGCCGAAAACCATGGGTTCCCTCATGGAGGTTTAAATTCAAGTTAAAAG
1 TGACATTTCAACGCGAAGCAGAAAACCATGGGTTCCCTCATGGAGGTTGAAATTCAAATTAAAAG
* * *
110167 CACTTTTCTTTTACATTTTACTGGTTATTTCCTTCTATTGATGTAATAAAAGATAAAAAAGGGTG
66 CACTTTTCTTTTAAATTTTACTGGTTATTTCCTTGTATTGATGTAATAAAAGATAAAAAAGGCTG
* * *
110232 CCAGGAAAAATT--CAAAAAAGATTTAGGAGCTTTTCTTGGTGATTAACCATAC
131 CC---AAAAATTAACAAAAAAGACTTAGGAGGTTTCCTTGGTGATTAACCATAC
* * * * * * * ** * * ** *
110284 TGATAATTAAATGAGAAACAGAAAATCATGGGTTCTGTCATTGG-GGTGGAATTTTTGAA-CAAA
1 TGACATTTCAACGCGAAGCAGAAAACCATGGGTTCCCTCA-TGGAGGTTGAA-ATTCAAATTAAA
* * ** * * * * **
110347 AGCA-TTTATCATTTAACTAATGCTGTTTATTTCTTTGTATTGATGTAATAAAAGATAGATTAGG
64 AGCACTTT-TCTTTTAAATTTTACTGGTTATTTCCTTGTATTGATGTAATAAAAGATAAAAAAGG
* * * * **
110411 CTG-CAAACATTAACACAAAAAGACTAAGTAGGTGTCC-TGTGTGATTAACTGTAC
128 CTGCCAAAAATTAACA-AAAAAGACTTAGGAGGTTTCCTTG-GTGATTAACCATAC
* * * *
110465 TGACATTTCAACGCGAAGCTGAAAACCATGGGTTCCATCATGGAGGTTTAAATTCAAGTTAAAAG
1 TGACATTTCAACGCGAAGCAGAAAACCATGGGTTCCCTCATGGAGGTTGAAATTCAAATTAAAAG
* * *
110530 CACTTTTGTTTTAAATTTTACTGGTTATTTTCTTGTATTGATGTAATAAAAGATAAAAAAGGGTG
66 CACTTTTCTTTTAAATTTTACTGGTTATTTCCTTGTATTGATGTAATAAAAGATAAAAAAGGCTG
* * *
110595 CCAGGAGAAATTAA-AAAAAAGATTTAGGAGTTTTTCTTGGTGATTAACCATAC
131 CCA--A-AAATTAACAAAAAAGACTTAGGAGGTTTCCTTGGTGATTAACCATAC
* * * * * ** * * * *
110648 TGATAATTT-AATGAGAAACAGAAAATCATGGGTTCTGTCATTGG-GGTGGAATTTTTAAA-CAA
1 TGA-CATTTCAACGCGAAGCAGAAAACCATGGGTTCCCTCA-TGGAGGTTGAA-ATTCAAATTAA
* * * ** * * * * * **
110710 AAGCA-TATATCATTTAACTAATGCTGTTTATTTCTTTGTATTGATGTATTAAAAGATAGATTAG
63 AAGCACT-TTTCTTTTAAATTTTACTGGTTATTTCCTTGTATTGATGTAATAAAAGATAAAAAAG
* * * ***
110774 GCTG-CAAATATTAACACAAAAAGACTTAGTAGGTTTCCTAT-TTGATTAAATTGTAC
127 GCTGCCAAAAATTAACA-AAAAAGACTTAGGAGGTTTCCT-TGGTGATT-AACCATAC
* *
110830 TGACATTTCAACGCGAAGCCGAAAACCATGGTTTCCCTCATGGAGGTTGAAATTCAAATTAAAAG
1 TGACATTTCAACGCGAAGCAGAAAACCATGGGTTCCCTCATGGAGGTTGAAATTCAAATTAAAAG
* * * *
110895 CACTTTTCTTTTAAATTTTACTGGTTATTTCCCTCTATTGATGTAATAAAAGATTAAAAATGGGT
66 CACTTTTCTTTTAAATTTTACTGGTTATTTCCTTGTATTGATGTAATAAAAGA-TAAAAAAGGCT
110960 GCCA
130 GCCA
110964 GGATAAATTC
Statistics
Matches: 506, Mismatches: 145, Indels: 56
0.72 0.21 0.08
Matches are distributed among these distances:
178 6 0.01
179 6 0.01
180 12 0.02
181 154 0.30
182 179 0.35
183 126 0.25
184 17 0.03
185 6 0.01
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (181 bp):
TGACATTTCAACGCGAAGCAGAAAACCATGGGTTCCCTCATGGAGGTTGAAATTCAAATTAAAAG
CACTTTTCTTTTAAATTTTACTGGTTATTTCCTTGTATTGATGTAATAAAAGATAAAAAAGGCTG
CCAAAAATTAACAAAAAAGACTTAGGAGGTTTCCTTGGTGATTAACCATAC
Found at i:111183 original size:17 final size:17
Alignment explanation
Indices: 111161--111196 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
111151 AACAAAGCAG
111161 GGTTAGGGTAAGGGTTA
1 GGTTAGGGTAAGGGTTA
* *
111178 GGTTAGGTTATGGGTTA
1 GGTTAGGGTAAGGGTTA
111195 GG
1 GG
111197 GTAAAGGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.33
Consensus pattern (17 bp):
GGTTAGGGTAAGGGTTA
Found at i:117316 original size:13 final size:13
Alignment explanation
Indices: 117298--117323 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
117288 TTGAAAATTT
117298 AAGGTTTAGGTTC
1 AAGGTTTAGGTTC
117311 AAGGTTTAGGTTC
1 AAGGTTTAGGTTC
117324 TCTAACATTA
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:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (13 bp):
AAGGTTTAGGTTC
Found at i:117726 original size:4 final size:4
Alignment explanation
Indices: 117717--117747 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
117707 CAAAGCTCCC
117717 TCTG TCTG TCTG TCTG TCTG TCTG TCTG TCT
1 TCTG TCTG TCTG TCTG TCTG TCTG TCTG TCT
117748 CTCTCTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.23, T:0.52
Consensus pattern (4 bp):
TCTG
Found at i:117752 original size:2 final size:2
Alignment explanation
Indices: 117745--117812 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
117735 TGTCTGTCTG
117745 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
117787 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
117813 CTGAAAGTTG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:117946 original size:2 final size:2
Alignment explanation
Indices: 117941--117994 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
117931 CACACACACA
117941 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
117983 CT CT CT CT CT CT
1 CT CT CT CT CT CT
117995 AGACTAGATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:119839 original size:7 final size:7
Alignment explanation
Indices: 119829--119885 Score: 75
Period size: 7 Copynumber: 8.6 Consensus size: 7
119819 CTAAACCATG
119829 ACCTTAA
1 ACCTTAA
119836 ACC-TAA
1 ACCTTAA
119842 ACCTTAA
1 ACCTTAA
119849 ACC-TAA
1 ACCTTAA
*
119855 ACCATAA
1 ACCTTAA
119862 ACCTT-A
1 ACCTTAA
119868 ACCTTAA
1 ACCTTAA
*
119875 ACCTTTA
1 ACCTTAA
119882 ACCT
1 ACCT
119886 CAACCTTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
6 18 0.40
7 27 0.60
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (7 bp):
ACCTTAA
Found at i:119844 original size:6 final size:6
Alignment explanation
Indices: 119833--119878 Score: 56
Period size: 6 Copynumber: 7.2 Consensus size: 6
119823 ACCATGACCT
*
119833 TAAACC TAAACC TTAAACC TAAACC ATAAACC TTAACC TTAAACC T
1 TAAACC TAAACC -TAAACC TAAACC -TAAACC TAAACC -TAAACC T
119879 TTAACCTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 18 0.51
7 17 0.49
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (6 bp):
TAAACC
Found at i:119879 original size:13 final size:13
Alignment explanation
Indices: 119829--119878 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
119819 CTAAACCATG
119829 ACCTTAAACCTAA
1 ACCTTAAACCTAA
119842 ACCTTAAACCTAA
1 ACCTTAAACCTAA
* *
119855 ACCATAAACCTTA
1 ACCTTAAACCTAA
119868 ACCTTAAACCT
1 ACCTTAAACCT
119879 TTAACCTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (13 bp):
ACCTTAAACCTAA
Found at i:119884 original size:20 final size:19
Alignment explanation
Indices: 119813--119893 Score: 83
Period size: 20 Copynumber: 4.1 Consensus size: 19
119803 TACCTTTTTA
* *
119813 TAAATCCTAAACCATGACCT
1 TAAA-CCTAAACCTTAACCT
119833 TAAACCTAAACCTTAAACC-
1 TAAACCTAAACCTT-AACCT
119852 TAAACCATAAACCTTAACCT
1 TAAACC-TAAACCTTAACCT
* *
119872 TAAACCTTTAACCTCAACCT
1 TAAACC-TAAACCTTAACCT
119892 TA
1 TA
119894 TTTTTTGATT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
19 19 0.36
20 34 0.64
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.26
Consensus pattern (19 bp):
TAAACCTAAACCTTAACCT
Found at i:119892 original size:13 final size:14
Alignment explanation
Indices: 119829--119885 Score: 66
Period size: 13 Copynumber: 4.3 Consensus size: 14
119819 CTAAACCATG
*
119829 ACCTTAAACC-TAA
1 ACCTTAAACCTTTA
*
119842 ACCTTAAACC-TAA
1 ACCTTAAACCTTTA
*
119855 ACCATAAACC-TTA
1 ACCTTAAACCTTTA
119868 ACCTTAAACCTTTA
1 ACCTTAAACCTTTA
119882 ACCT
1 ACCT
119886 CAACCTTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
13 33 0.82
14 7 0.17
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (14 bp):
ACCTTAAACCTTTA
Found at i:121192 original size:2 final size:2
Alignment explanation
Indices: 121185--121217 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
121175 TAACTTTTGT
121185 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
121218 TATTACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:122068 original size:180 final size:180
Alignment explanation
Indices: 121826--122642 Score: 603
Period size: 181 Copynumber: 4.5 Consensus size: 180
121816 GATAACATAT
* * *
121826 TTTTTCTTGAAACTAATGCTGATTATTTCTTTGTATTAATGTAATAAAAGAT-AATAAGGGTGTA
1 TTTTTCTT-CAACTAATGCTGATTATTTCTTTGTATTAATATAATAAAAGATAAATTAGGGTGTA
*
121890 AGGGTAGATTCAAAAAGATTTAGAAGGTTTCTTAACTGATTAACTACACTGATAATTTAAGGATA
65 AGGATAGATTCAAAAAGATTTAGAAGGTTTCTTAACTGATTAACTACACTGATAATTTAAGGATA
* *
121955 AACAGAAAATGATGGGTTCATTCATGGGGGTGCAATTTTATAAGGAAAGGA
130 AACAGAAAATGATGGGTTCATTCATGGAGGTGCAATTTTACAAGGAAAGGA
* *
122006 TTTTTCATTCAACTAAAGCTGATTATTTCTTTGTATTATTATAAT-AAAGATAAATTAGGGTGTA
1 TTTTTC-TTCAACTAATGCTGATTATTTCTTTGTATTAATATAATAAAAGATAAATTAGGGTGTA
* ** * * * * *
122070 AGGAT-GAATT-AAAACAGATTTAGAAAGTTT-TGT-AGGGAATAACCTATACTGCTAATTTCAC
65 AGGATAG-ATTCAAAA-AGATTTAGAAGGTTTCT-TAACTGATTAA-CTACACTGATAATTTAAG
** * * ** * * * ** *
122131 GATAAAGGGGAAATTATGGGTTCCCTCATGGGGGTGTACTTTTACAAAAAAAGAA
126 GATAAACAGAAAATGATGGGTTCATTCATGGAGGTGCAATTTTACAAGGAAAGGA
* ** * * * *
122186 TATTTCTGGAGACTAATGCTGATT-TTATCTTTGTAATGATCTAATCAAAGATAGAA-T-GCGGT
1 TTTTTCTTCA-ACTAATGCTGATTATT-TCTTTGTATTAATATAATAAAAGATA-AATTAG-GGT
* ** * * * * *** * * ** * *
122248 GCAAATAATA-ATCCAGAAAGAATTAGTAGGTTTCAGGATTAATTAACTGTACTGACATTTTAAC
62 G-TAAGGATAGATTCAAAAAGATTTAGAAGGTTTCTTAACTGATTAACTACACTGATAATTTAA-
** * * *** * * * *
122312 GCGA-AGCCA-AAAGTTACAAGATCACTCCA-GGAGGTGTAA-TTT-CAA-GATAACAGA
125 G-GATAAACAGAAAATGATGGGTTCA-TTCATGGAGGTGCAATTTTACAAGGA-AA-GGA
* * * *
122366 TTTTTTCTTGAATCTAATGCTGATTATTTCTTTGTATTAATGTGATAAAAGATAAATAAGGGTGT
1 -TTTTTCTTCAA-CTAATGCTGATTATTTCTTTGTATTAATATAATAAAAGATAAATTAGGGTGT
* * *
122431 AAGTG-TAGATTCAAAAAGGTTTAGAAGGTTTCCTAACTGATTAACTACACTGATAATATAAGGA
64 AAG-GATAGATTCAAAAAGATTTAGAAGGTTTCTTAACTGATTAACTACACTGATAATTTAAGGA
* *
122495 TAAACAGAAAATGATGGGTTCTTTCATGGAGGTGCAATTTTATAAGGAAAGGA
128 TAAACAGAAAATGATGGGTTCATTCATGGAGGTGCAATTTTACAAGGAAAGGA
* * * *
122548 TTTATCAGTCAACTAGA-GCTGTTTGTTTCTTTGTATTAATATAATAAAAGATAAATTAGGGTGT
1 TTTTTC-TTCAACTA-ATGCTGATTATTTCTTTGTATTAATATAATAAAAGATAAATTAGGGTGT
*
122612 AAAGAT-GAATT-AAAACAGATTTAGAAGGTTT
64 AAGGATAG-ATTCAAAA-AGATTTAGAAGGTTT
122643 TGTAGGGTAT
Statistics
Matches: 477, Mismatches: 121, Indels: 77
0.71 0.18 0.11
Matches are distributed among these distances:
178 1 0.00
179 29 0.06
180 184 0.39
181 226 0.47
182 29 0.06
183 6 0.01
184 2 0.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (180 bp):
TTTTTCTTCAACTAATGCTGATTATTTCTTTGTATTAATATAATAAAAGATAAATTAGGGTGTAA
GGATAGATTCAAAAAGATTTAGAAGGTTTCTTAACTGATTAACTACACTGATAATTTAAGGATAA
ACAGAAAATGATGGGTTCATTCATGGAGGTGCAATTTTACAAGGAAAGGA
Found at i:122695 original size:181 final size:180
Alignment explanation
Indices: 121836--122764 Score: 596
Period size: 181 Copynumber: 5.1 Consensus size: 180
121826 TTTTTCTTGA
* * * *
121836 AACTAATGCTGATTATTTCTTTGTATTAATGTAATAAAAGAT-AATAAGGGTGTAAGGGT-AGAT
1 AACTAATGCTGATTATTTCTTTGTATTAATATAATAAAAGATAAATTAGGGTGTAAAGATGA-AT
* * * * *
121899 TCAAAAAGATTTAGAAGGTTTCTTA-ACTGATTAACTACACTGATAATTTAAGGATAAACAGAAA
65 T-AAAAAGATTTAGAAGGTTT-TTAGGCTGATTAACTATACTGCTAATTTAACGATAAAGAGAAA
* * * * *
121963 ATGATGGGTTCATTCATGGGGGTGCAATTTTATAAGGAAAGGATTTTTCATTC
128 ATTATGGGTTCCTTCATGGAGGTGCAATTTTACAAGGAAAGGATTTTTCAGTC
* * *
122016 AACTAAAGCTGATTATTTCTTTGTATTATTATAAT-AAAGATAAATTAGGGTGTAAGGATGAATT
1 AACTAATGCTGATTATTTCTTTGTATTAATATAATAAAAGATAAATTAGGGTGTAAAGATGAATT
* * * * *
122080 AAAACAGATTTAGAAAGTTTTGTAGG--GAATAACCTATACTGCTAATTTCACGATAAAGGGGAA
66 AAAA-AGATTTAGAAGGTTTT-TAGGCTGATTAA-CTATACTGCTAATTTAACGATAAAGAGAAA
* * * * ** * * * *
122143 ATTATGGGTTCCCTCATGGGGGTGTACTTTTACAAAAAAAGAATATTTCTG-G
128 ATTATGGGTTCCTTCATGGAGGTGCAATTTTACAAGGAAAGGATTTTTCAGTC
* * * * * *
122195 AGACTAATGCTGATT-TTATCTTTGTAATGATCTAATCAAAGATAGAA-T-GCGGTGCAAATAAT
1 A-ACTAATGCTGATTATT-TCTTTGTATTAATATAATAAAAGATA-AATTAG-GGTGTAAA-GAT
* * * * * * * * * **
122257 -AATCCAGAAAGAATTAGTAGG-TTTCAGGATTAATTAACTGTACTGAC-ATTTTAACG-CGAAG
61 GAAT-TAAAAAGATTTAGAAGGTTTTTAGG-CTGATTAACTATACTG-CTAATTTAACGATAAAG
** *** * * * * * *
122318 CCAAAAGTTACAAGATCACTCCA-GGAGGTGTAA-TTT-CAA-GATAACAGATTTTTTC-TTG
123 AGAAAA-TTATGGGTTC-CTTCATGGAGGTGCAATTTTACAAGGA-AA-GGA-TTTTTCAGTC
* * *
122376 AATCTAATGCTGATTATTTCTTTGTATTAATGTGATAAAAGATAAATAAGGGTGT-AAG-TGTAG
1 AA-CTAATGCTGATTATTTCTTTGTATTAATATAATAAAAGATAAATTAGGGTGTAAAGATG-A-
* * * * * * * *
122439 ATTCAAAAAGGTTTAGAAGGTTTCCTA-ACTGATTAACTACACTGATAATATAAGGATAAACAGA
63 ATT-AAAAAGATTTAGAAGGTTT-TTAGGCTGATTAACTATACTGCTAATTTAACGATAAAGAGA
* * * *
122503 AAATGATGGGTTCTTTCATGGAGGTGCAATTTTATAAGGAAAGGATTTATCAGTC
126 AAATTATGGGTTCCTTCATGGAGGTGCAATTTTACAAGGAAAGGATTTTTCAGTC
* *
122558 AACTAGA-GCTGTTTGTTTCTTTGTATTAATATAATAAAAGATAAATTAGGGTGTAAAGATGAAT
1 AACTA-ATGCTGATTATTTCTTTGTATTAATATAATAAAAGATAAATTAGGGTGTAAAGATGAAT
* *
122622 TAAAACAGATTTAGAAGGTTTTGTAGGGT-A-TAACCTATACTGCTAATTTAACGATAAAGAGGA
65 TAAAA-AGATTTAGAAGGTTTT-TAGGCTGATTAA-CTATACTGCTAATTTAACGATAAAGAGAA
* * * * ** * * *
122685 AATTATGGGTTCCCTCATGGGGGTGTACTTTTACAATTAAAGAATTTTTTCTG-G
127 AATTATGGGTTCCTTCATGGAGGTGCAATTTTACAAGGAAAGGA-TTTTTCAGTC
* *
122739 AGACCAATGCTGATTTTTTCTTTGTA
1 A-ACTAATGCTGATTATTTCTTTGTA
122765 ATGATCCAAT
Statistics
Matches: 561, Mismatches: 138, Indels: 98
0.70 0.17 0.12
Matches are distributed among these distances:
178 2 0.00
179 27 0.05
180 184 0.33
181 274 0.49
182 65 0.12
183 7 0.01
184 2 0.00
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (180 bp):
AACTAATGCTGATTATTTCTTTGTATTAATATAATAAAAGATAAATTAGGGTGTAAAGATGAATT
AAAAAGATTTAGAAGGTTTTTAGGCTGATTAACTATACTGCTAATTTAACGATAAAGAGAAAATT
ATGGGTTCCTTCATGGAGGTGCAATTTTACAAGGAAAGGATTTTTCAGTC
Found at i:123323 original size:181 final size:180
Alignment explanation
Indices: 122962--123334 Score: 407
Period size: 181 Copynumber: 2.1 Consensus size: 180
122952 TAATAAAAGN
* * * * * *
122962 ACTATGGGTTCCTTCA-TAGGGGTGT-AATTTTACAGTAAGAAGGATTTATCATTGAGCTAAAGC
1 ACTATTGGTTCCTT-AGTAGGGTTGTCAA-TTTACAATTA-AAGGAATTATCATTGAACTAAAGC
* * **
123025 TGATTGTTTCTTGGTTTTAATATAGTAAAAAATAATTTAGGGTGAAAAGATGAATTGAAATAGAT
63 TAATTGTTTCTTGGTTTTAATATAATAAAAAATAATTTAGGGTGAAAAGATGAAAAGAAATAGAT
* * *
123090 TTAGTAGGTTTCCTAAGTGATTAACAGTACTGATTTTTTAAAGTTAAACAGAAA
128 TTAGTAGGTTTCCTAAGTGATTAACAGTACTGATATGTCAAAG-TAAACAGAAA
*
123144 ATTATTGGTTCCTTAGTAGGGTTGTCAATTTACAATTAAAGGAATTATCATTGAACTAAAGCTAA
1 ACTATTGGTTCCTTAGTAGGGTTGTCAATTTACAATTAAAGGAATTATCATTGAACTAAAGCTAA
* * ** * *
123209 TTGTTTCTTTGTTTTAATATAATAAAAGATAATTTAGGGTGTGAGGGT-AAAAGCAGAA-AGATT
66 TTGTTTCTTGGTTTTAATATAATAAAAAATAATTTAGGGTGAAAAGATGAAAAG-A-AATAGATT
* * * *
123272 TA-TCAGGTTTCCTAGGTGATTATCTGTACTGATAATGTCACAA-TGAACAGAAA
129 TAGT-AGGTTTCCTAAGTGATTAACAGTACTGAT-ATGTCA-AAGTAAACAGAAA
123325 ACTATTGGTT
1 ACTATTGGTT
123335 TCTTTAAAGG
Statistics
Matches: 159, Mismatches: 25, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
180 4 0.03
181 118 0.74
182 33 0.21
183 4 0.03
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (180 bp):
ACTATTGGTTCCTTAGTAGGGTTGTCAATTTACAATTAAAGGAATTATCATTGAACTAAAGCTAA
TTGTTTCTTGGTTTTAATATAATAAAAAATAATTTAGGGTGAAAAGATGAAAAGAAATAGATTTA
GTAGGTTTCCTAAGTGATTAACAGTACTGATATGTCAAAGTAAACAGAAA
Found at i:129495 original size:14 final size:14
Alignment explanation
Indices: 129466--129532 Score: 91
Period size: 14 Copynumber: 4.8 Consensus size: 14
129456 GGTTGAGGAA
* *
129466 TGAGGATTGTGGGT
1 TGAGGACTGAGGGT
129480 TG-GGTACTGAGGGT
1 TGAGG-ACTGAGGGT
129494 TGAGGACTGAGGGT
1 TGAGGACTGAGGGT
*
129508 TGGGGACTGAGGGT
1 TGAGGACTGAGGGT
129522 TGAGGACTGAG
1 TGAGGACTGAG
129533 AATTGTAGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
13 2 0.04
14 43 0.91
15 2 0.04
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.25
Consensus pattern (14 bp):
TGAGGACTGAGGGT
Found at i:129579 original size:6 final size:6
Alignment explanation
Indices: 129568--129619 Score: 95
Period size: 6 Copynumber: 8.5 Consensus size: 6
129558 TTAANTGTAG
129568 GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTATA
1 GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGT-TA
129617 GGG
1 GGG
129620 GTATTTGCGA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 40 0.89
7 5 0.11
ACGTcount: A:0.17, C:0.00, G:0.52, T:0.31
Consensus pattern (6 bp):
GGGTTA
Found at i:132137 original size:181 final size:180
Alignment explanation
Indices: 131579--134528 Score: 2413
Period size: 181 Copynumber: 16.3 Consensus size: 180
131569 TTTAAACGTT
* * * * * * *
131579 AAACAGATAATTCTGGGTTCCTTCAAAGGGGTGTAATT-TTACAATAAAAGTACTTATCATAGAA
1 AAACAGAAAATTATGGGTTCCTTCATAGGGGTGTAATTCTT--AAGAAAAGGATTTATCATTGAA
* ** * * ** * * * *
131643 CTAAAGCTGATTATTTCTTTGTTTTAATATTATATAAGATAATTTAGAATGGGAGGATGAATTCA
64 CTAAAGCTGATTATTTCTTTGTATTAATACAATAAAAGATAAATTAGGGTGTGAGGGTAAATTGA
* ** ** * * *
131708 AAAGGATTT-GGACGGTTTTGTAAGG-GATTAACTATACAGATAATTGAATGATG
129 AAAAGATTTAGGA-GGTTTCCT-AGGTGATTATTTATACTGATAATTTAACGA-G
* * * * * * *
131761 -GACAGGAAATAATGGGTTCCTTCAGAGGGGTG-CATTCTTAAAATAAAGGGATTTACCATTGAA
1 AAACAGAAAATTATGGGTTCCTTCATAGGGGTGTAATTCTTAAGA-AAA-GGATTTATCATTGAA
* * * ** * * * * *
131824 C-ATAAGCTGATGATTTCTTTGCT-TCAATAAAATAAATTATTATTTAGGGTGTGAAGATGAATT
64 CTA-AAGCTGATTATTTCTTTG-TATTAATACAATAAAAGATAAATTAGGGTGTGAGGGTAAATT
** * ** * * *
131887 CCAAAAGATTTAGCAGGTTTCCTAGGTGATTAACTGTCCTGAT-TTTTATACGTA-
127 GAAAAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGATAATTTA-ACG-AG
** * * *
131941 AAACAGAGTATTATGGGTTCCTTCATATGGGTGTAATT-TTACAGTAAAAGGATTCATCAATGAA
1 AAACAGAAAATTATGGGTTCCTTCATAGGGGTGTAATTCTTA-AG-AAAAGGATTTATCATTGAA
* * *
132005 CCAAAGCTGATAATTTCTTTGT-TTCAATACAATAAAAGATAAAATAGGGTGTGAGGGTAAATTG
64 CTAAAGCTGATTATTTCTTTGTATT-AATACAATAAAAGATAAATTAGGGTGTGAGGGTAAATTG
* * * *
132069 AAAAAGATTTAGGAGGTATCCTAGGTGATTATTTGTACAGAAAATTTAACGAG
128 AAAAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGATAATTTAACGAG
* * * * * ** *
132122 AAACAGGAAATTATGGGTTTCTACTTAGGGGTCTAATTTCAGAATG-AAAGGATTT-T-TTTGGA
1 AAACAGAAAATTATGGGTTCCTTCATAGGGGTGTAA-TTCTTAA-GAAAAGGATTTATCATT-G-
* * * *** * * *
132184 AACTAATGTTAATTATTTCTTTGTATTAATGTGAGAAAATATAAATTAGGGTATGAGGGTAAATT
62 AACTAAAGCTGATTATTTCTTTGTATTAATACAATAAAAGATAAATTAGGGTGTGAGGGTAAATT
* * * * *
132249 CAAAAAGATTGAGGAGGTTTCGTAAGTGATTATTTATACTGATAATTTAACGAC
127 GAAAAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGATAATTTAACGAG
* * * *
132303 AAA-TGCAAAATTATAGGTTCCCTCAT-GGGGATGTAATTCTATAAGAAAAGGATTTATCATTTA
1 AAACAG-AAAATTATGGGTTCCTTCATAGGGG-TGTAATTCT-TAAGAAAAGGATTTATCATTGA
* * *** * * *
132366 ACTAAATG-TAACTATTTCTTTGTATTAATGTGATGAAAGACAAGTTAGGGTGTGAGGGTAAATT
63 ACTAAA-GCTGATTATTTCTTTGTATTAATACAATAAAAGATAAATTAGGGTGTGAGGGTAAATT
* * * * * *
132430 CAAAGAGATTTAGTAGGTTTCCTAGGTGATTATTTATACAGATATTTTAACGCG
127 GAAAAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGATAATTTAACGAG
* * * *
132484 AAACAGAAAATTATGAGTTCCTTCATGGGGGTGTAATTCTATAAGAAAAGGATTAATCATTAAAC
1 AAACAGAAAATTATGGGTTCCTTCATAGGGGTGTAATTCT-TAAGAAAAGGATTTATCATTGAAC
* * ** * *
132549 TAGAGGTTTTTATTTCTTTGTATTAATACAATTAAAGAT-AATCTTGGGTGTGAGGGTAAATTGA
65 TAAAGCTGATTATTTCTTTGTATTAATACAATAAAAGATAAAT-TAGGGTGTGAGGGTAAATTGA
* * *
132613 AATAGATTTAGGAGGTATCCAAGGTGATTATTTATACTGATAATTTAACGAG
129 AAAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGATAATTTAACGAG
* * ** * * ** *
132665 AAACAGAAAGTTATGGGTTCCTTTATAGGGGTGTAATTTCAGAATAAAAGG-TTTTTACAGGGGA
1 AAACAGAAAATTATGGGTTCCTTCATAGGGGTGTAA-TTCTTAAGAAAAGGATTTAT-CATTGAA
* * * *** ** * * *
132729 CTAATGTTGAGTATTTCTTTGTATTAATGTGAGGAAGGATAAATTAGGGCGTGAGGGTAGATTGA
64 CTAAAGCTGATTATTTCTTTGTATTAATACAATAAAAGATAAATTAGGGTGTGAGGGTAAATTGA
* *
132794 AAAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGACAATTTAACGAC
129 AAAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGATAATTTAACGAG
* * * *
132846 AAAC-GCAAAACTATGGGTTCCCTCATTGGGGTGTAATTCTATAAGAAAAGGATTTATCATTTAA
1 AAACAG-AAAATTATGGGTTCCTTCATAGGGGTGTAATTCT-TAAGAAAAGGATTTATCATTGAA
* ** **
132910 CTAGAGCTTTTTATTTCTTTGTATTAATACAATAAAAGATAAAAAAGGGTGTGAGGGTAAATTGA
64 CTAAAGCTGATTATTTCTTTGTATTAATACAATAAAAGATAAATTAGGGTGTGAGGGTAAATTGA
* * * * * *
132975 AATAGATTTAGGAAGTTTCCTAGGTGATTGTTTATACTGATAATTCAAAGAT
129 AAAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGATAATTTAACGAG
** * * * * * * *
133027 AAACTCAAAATTAAGGGTTCCTTCATGGGGGTGTCATTCTTTTAGAAAATGATATATTATTGAAC
1 AAACAGAAAATTATGGGTTCCTTCATAGGGGTGTAATTC-TTAAGAAAAGGATTTATCATTGAAC
* * * *
133092 TAAACCTG-TCTCTTTCTTTGTTTTAATACAATAAAAGATAAAATAGGGTGTGAGGGTAAATTGA
65 TAAAGCTGAT-TATTTCTTTGTATTAATACAATAAAAGATAAATTAGGGTGTGAGGGTAAATTGA
* * * *
133156 AAAAGATTTAGGAGGTTTCCTAGGTGATTATTTGTACAGAAAATTTAACAAG
129 AAAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGATAATTTAACGAG
* * * * ** *
133208 AAACA-AGAAGTTATGGGTTCCTACTTAGGGGTCTAATTTCAGAATG-AAAGGA-TT-TCTTTGG
1 AAACAGA-AAATTATGGGTTCCTTCATAGGGGTGTAA-TTCTTAA-GAAAAGGATTTATCATT-G
* * ** * *
133269 AAACTAATGCTAATTATTTCTTTGTATTAATATGAGAAAAGATAAATTAGGGTATGAGGGTAAAT
62 -AACTAAAGCTGATTATTTCTTTGTATTAATACAATAAAAGATAAATTAGGGTGTGAGGGTAAAT
* * * * *
133334 TCAAAAAGATTAAGGAGGTTTCGTAAGTGATTATTTATACTGATAATTTAACGAC
126 TGAAAAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGATAATTTAACGAG
* * *
133389 AAA-TGCAAAATTATGGGTTCCTTCATGGGGGTGTAATTCTATAAGAAAAGGATTTATCATTTAA
1 AAACAG-AAAATTATGGGTTCCTTCATAGGGGTGTAATTCT-TAAGAAAAGGATTTATCATTGAA
* *** * * * *
133453 CTAAATG-TAATTATTTCTTTGTATTAATGTGATGAAAGACAAGTTAGGGTGTGAGGGTAAATTC
64 CTAAA-GCTGATTATTTCTTTGTATTAATACAATAAAAGATAAATTAGGGTGTGAGGGTAAATTG
* * * * *
133517 AAAGAGATTTAGTAGGTTTCCTAGGTGATTATTTATACAGATATTTTAACGCG
128 AAAAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGATAATTTAACGAG
* * * * *
133570 AAACGGAAAATTATGAGTTCCTTCATGGGGGTGTGATTCTATAAGAAAAGGATTTATCATTAAAC
1 AAACAGAAAATTATGGGTTCCTTCATAGGGGTGTAATTCT-TAAGAAAAGGATTTATCATTGAAC
* * ** * * *
133635 TAGAGGTTTTTATTTCTTTGTATTAATACAATTAAAGAT-AATCTTGGGTGTGAGAGTAAATTGA
65 TAAAGCTGATTATTTCTTTGTATTAATACAATAAAAGATAAAT-TAGGGTGTGAGGGTAAATTGA
* *
133699 AATAGATTTAGGAGGTATCCTAGGTGATTATTTATACTGATAATTTAACGAG
129 AAAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGATAATTTAACGAG
* * * ** * * * ** *
133751 AAACAGAAAATTTTTGGTTCCTTTATAGGGGTGTAATTTCAGAATAAAAGAAATT-TCAGGGGAC
1 AAACAGAAAATTATGGGTTCCTTCATAGGGGTGTAA-TTCTTAAGAAAAGGATTTATCATTGAAC
* * * * * *** ** * *
133815 CAATGTTGAGTATTTCTTTGTATAAATGTGAGGAAAGATAAATTAGGGCGTGAGGGTAGATTGAA
65 TAAAGCTGATTATTTCTTTGTATTAATACAATAAAAGATAAATTAGGGTGTGAGGGTAAATTGAA
* *
133880 AAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGACAATTTAACGAC
130 AAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGATAATTTAACGAG
* * * *
133931 AAAC-GCAAAATTATGGATTCCCTCATTGGGGTGTAATTCTCTAAGAAAAGGATTTATCATTTAA
1 AAACAG-AAAATTATGGGTTCCTTCATAGGGGTGTAATTCT-TAAGAAAAGGATTTATCATTGAA
** ** ** * *
133995 CTTGAGCTTTTTATTTCTTTGTATTAATACAATAAAAGATAAAAAAGGGTATGATGGTAAATTGA
64 CTAAAGCTGATTATTTCTTTGTATTAATACAATAAAAGATAAATTAGGGTGTGAGGGTAAATTGA
* * * * * * * *
134060 AATAGAATTAGGAGGTTTCCTAGGTGACTGTTAATTCTGATAATTCAACGAC
129 AAAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGATAATTTAACGAG
* * * * * * *
134112 AAA-TGCAAAATTAAGTGTTCCTTCATAGGGGAGTAATTCTATGAGAAAATGATTTATCATTTAA
1 AAACAG-AAAATTATGGGTTCCTTCATAGGGGTGTAATTCT-TAAGAAAAGGATTTATCATTGAA
* * *** * * ** * *
134176 CTAAAGCTGTTTATTTATTTGTATTAATGTGATAAAAGACAAGTTAATGTGTGAGGATAAATTCA
64 CTAAAGCTGATTATTTCTTTGTATTAATACAATAAAAGATAAATTAGGGTGTGAGGGTAAATTGA
* * * *
134241 AATAGATTTAGTAGGTTTCCTAGGTGATTATTTAGA-TAGATAATTTAATGAG
129 AAAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACT-GATAATTTAACGAG
* * * * * **
134293 ACACAGAAAATCATAGGTTCCTTCAT-GGGGTTGTAATTCTAAAAGAAAAGGATTTGTCATCAAA
1 AAACAGAAAATTATGGGTTCCTTCATAGGGG-TGTAATTCT-TAAGAAAAGGATTTATCATTGAA
** ** * * *
134357 CTGGAGCTTTTTATTTCTTTGTATTAATACAATAAAAGAT-AATCTTGGGTGTGAGAGTTAATTG
64 CTAAAGCTGATTATTTCTTTGTATTAATACAATAAAAGATAAAT-TAGGGTGTGAGGGTAAATTG
* * *
134421 AAATAGATTTAGGAGGTTTCCTAGGTGATTATTTATAGTGATAATTTAACCAG
128 AAAAAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGATAATTTAACGAG
* * * * * * ** *
134474 AATCAGAAAATGATGGGTTTCTTTACAGAGGTGTAAATTCACAATAAAAGGATTT
1 AAACAGAAAATTATGGGTTCCTTCATAGGGGTGT-AATTCTTAAGAAAAGGATTT
134529 CTTCTTGGGA
Statistics
Matches: 2202, Mismatches: 494, Indels: 145
0.78 0.17 0.05
Matches are distributed among these distances:
179 11 0.00
180 189 0.09
181 1931 0.88
182 62 0.03
183 9 0.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.35
Consensus pattern (180 bp):
AAACAGAAAATTATGGGTTCCTTCATAGGGGTGTAATTCTTAAGAAAAGGATTTATCATTGAACT
AAAGCTGATTATTTCTTTGTATTAATACAATAAAAGATAAATTAGGGTGTGAGGGTAAATTGAAA
AAGATTTAGGAGGTTTCCTAGGTGATTATTTATACTGATAATTTAACGAG
Found at i:137805 original size:4 final size:4
Alignment explanation
Indices: 137796--137843 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
137786 GTTATGTTAC
137796 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
137844 GGAAATAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:137856 original size:13 final size:12
Alignment explanation
Indices: 137798--137858 Score: 59
Period size: 12 Copynumber: 5.0 Consensus size: 12
137788 TATGTTACAT
**
137798 AAATAAATAAAT
1 AAATAAATAAGG
**
137810 AAATAAATAAAT
1 AAATAAATAAGG
**
137822 AAATAAATAAAT
1 AAATAAATAAGG
137834 AAATAAATAAGG
1 AAATAAATAAGG
137846 AAATAAAATAAGG
1 AAAT-AAATAAGG
137859 TAGAATATTG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
12 38 0.83
13 8 0.17
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (12 bp):
AAATAAATAAGG
Found at i:140063 original size:14 final size:14
Alignment explanation
Indices: 140046--140116 Score: 72
Period size: 14 Copynumber: 4.6 Consensus size: 14
140036 TTTGTAATGG
140046 TTTTTTTTTGTGTT
1 TTTTTTTTTGTGTT
140060 TTTTTTTTTGTGTT
1 TTTTTTTTTGTGTT
140074 TGTTTTGTTGTTGTTGTT
1 T-TTTT-TT-TTG-TGTT
140092 TTTTTGGTTTTG-GTT
1 TTTTT--TTTTGTGTT
140107 TTCTTTTTTT
1 TT-TTTTTTT
140117 TTTTCTAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
14 19 0.37
15 9 0.18
16 5 0.10
17 10 0.20
18 8 0.16
ACGTcount: A:0.00, C:0.01, G:0.18, T:0.80
Consensus pattern (14 bp):
TTTTTTTTTGTGTT
Found at i:140122 original size:12 final size:12
Alignment explanation
Indices: 140045--140120 Score: 62
Period size: 12 Copynumber: 6.0 Consensus size: 12
140035 TTTTGTAATG
*
140045 GTTTTTTTTTGT
1 GTTTTTTTTTTT
140057 GTTTTTTTTTTT
1 GTTTTTTTTTTT
*
140069 GTGTTTGTTTTGTT
1 GT-TTT-TTTTTTT
140083 GTTGTTGTTTTTTT
1 GTT-TT-TTTTTTT
* **
140097 GGTTTTGGTTTT
1 GTTTTTTTTTTT
*
140109 CTTTTTTTTTTT
1 GTTTTTTTTTTT
140121 CTAATTTGTT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
12 26 0.51
13 6 0.12
14 19 0.37
ACGTcount: A:0.00, C:0.01, G:0.18, T:0.80
Consensus pattern (12 bp):
GTTTTTTTTTTT
Found at i:140460 original size:11 final size:11
Alignment explanation
Indices: 140446--140476 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
140436 GGTCCACTCG
140446 GGGTTTACTTT
1 GGGTTTACTTT
140457 GGGTTTACTTT
1 GGGTTTACTTT
140468 GGGTTTACT
1 GGGTTTACT
140477 CGAGAATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.29, T:0.52
Consensus pattern (11 bp):
GGGTTTACTTT
Found at i:140968 original size:21 final size:21
Alignment explanation
Indices: 140942--141027 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
140932 TTTTTCTATC
*
140942 AAATATGTTGACATGCAAGAT
1 AAATATGTCGACATGCAAGAT
*
140963 AAATATGTTGACATGCAAGAT
1 AAATATGTCGACATGCAAGAT
*** * *
140984 GGTTATGTCAACATGCAACAT
1 AAATATGTCGACATGCAAGAT
*
141005 AACTATGTCGACATGCAAGAT
1 AAATATGTCGACATGCAAGAT
141026 AA
1 AA
141028 TTGCAATCAA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (21 bp):
AAATATGTCGACATGCAAGAT
Found at i:141122 original size:21 final size:20
Alignment explanation
Indices: 141096--141286 Score: 166
Period size: 21 Copynumber: 9.1 Consensus size: 20
141086 AGATGCGAAA
141096 GCAACTTATTTATGTCGACAT
1 GCAACTTATTTATGTC-ACAT
*
141117 GCAACTTATTTATGTAAACAT
1 GCAACTTATTTATGT-CACAT
** ** *
141138 GCAAGATAAATATGCTGACAT
1 GCAACTTATTTATG-TCACAT
*
141159 GCAACTAATTTATGTCAGCAT
1 GCAACTTATTTATGTCA-CAT
**
141180 GCAACTTCGTTATGTTCACAT
1 GCAACTTATTTATG-TCACAT
141201 GCAACTTATTTATGTCGACAT
1 GCAACTTATTTATGTC-ACAT
** *
141222 GCAGTTTAGTTATGTTCACAT
1 GCAACTTATTTATG-TCACAT
* *
141243 GCTACTTATTTATCTCAACAT
1 GCAACTTATTTATGTC-ACAT
*
141264 GCAACTTAGTTATGTTCACAT
1 GCAACTTATTTATG-TCACAT
141285 GC
1 GC
141287 GAGATAAATA
Statistics
Matches: 134, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
20 6 0.04
21 120 0.90
22 8 0.06
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (20 bp):
GCAACTTATTTATGTCACAT
Found at i:141201 original size:42 final size:42
Alignment explanation
Indices: 141096--141286 Score: 206
Period size: 42 Copynumber: 4.5 Consensus size: 42
141086 AGATGCGAAA
* * *
141096 GCAACTTATTTATG-TCGACATGCAACTTATTTATGTAAACAT
1 GCAACTTAGTTATGTTC-ACATGCAACTTATTTATGTCAGCAT
** ** * * *
141138 GCAAGATAAATATGCTGACATGCAACTAATTTATGTCAGCAT
1 GCAACTTAGTTATGTTCACATGCAACTTATTTATGTCAGCAT
*
141180 GCAACTTCGTTATGTTCACATGCAACTTATTTATGTC-GACAT
1 GCAACTTAGTTATGTTCACATGCAACTTATTTATGTCAG-CAT
** * * *
141222 GCAGTTTAGTTATGTTCACATGCTACTTATTTATCTCAACAT
1 GCAACTTAGTTATGTTCACATGCAACTTATTTATGTCAGCAT
141264 GCAACTTAGTTATGTTCACATGC
1 GCAACTTAGTTATGTTCACATGC
141287 GAGATAAATA
Statistics
Matches: 122, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
41 1 0.01
42 120 0.98
43 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (42 bp):
GCAACTTAGTTATGTTCACATGCAACTTATTTATGTCAGCAT
Found at i:151081 original size:11 final size:11
Alignment explanation
Indices: 151065--151101 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
151055 ATATCATGTA
151065 TTTTCAATTAC
1 TTTTCAATTAC
151076 TTTTCAATTAC
1 TTTTCAATTAC
* *
151087 ATTTCATTTAC
1 TTTTCAATTAC
151098 TTTT
1 TTTT
151102 TTCTAAGACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTCAATTAC
Found at i:167270 original size:33 final size:33
Alignment explanation
Indices: 167222--167320 Score: 134
Period size: 33 Copynumber: 3.1 Consensus size: 33
167212 GTACACCTAC
* *
167222 TAAAGAAATTCATGTTTTAATTTTGTTAATGTT
1 TAAAGCAATTCATGTTTTAATTTTGTTCATGTT
*
167255 TAAGGCAATTCATGTTTTAA---T-TTCATGTT
1 TAAAGCAATTCATGTTTTAATTTTGTTCATGTT
*
167284 TAAAGCAATTCATGTTTTAATTTTGTTCTTGTT
1 TAAAGCAATTCATGTTTTAATTTTGTTCATGTT
167317 TAAA
1 TAAA
167321 CTTTATAGGT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
29 26 0.46
30 1 0.02
32 1 0.02
33 29 0.51
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (33 bp):
TAAAGCAATTCATGTTTTAATTTTGTTCATGTT
Found at i:167273 original size:17 final size:16
Alignment explanation
Indices: 167253--167303 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
167243 TTTGTTAATG
167253 TTTAAGGCAATTCATGT
1 TTTAA-GCAATTCATGT
*
167270 TTT-A--ATTTCATGT
1 TTTAAGCAATTCATGT
*
167283 TTAAAGCAATTCATGT
1 TTTAAGCAATTCATGT
167299 TTTAA
1 TTTAA
167304 TTTTGTTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
13 10 0.37
14 1 0.04
16 13 0.48
17 3 0.11
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (16 bp):
TTTAAGCAATTCATGT
Found at i:167283 original size:29 final size:29
Alignment explanation
Indices: 167222--167306 Score: 107
Period size: 29 Copynumber: 2.8 Consensus size: 29
167212 GTACACCTAC
* *
167222 TAAAGAAATTCATGTTTTAATTTTGTTAATGTT
1 TAAAGCAATTCATGTTTTAA---T-TTCATGTT
*
167255 TAAGGCAATTCATGTTTTAATTTCATGTT
1 TAAAGCAATTCATGTTTTAATTTCATGTT
167284 TAAAGCAATTCATGTTTTAATTT
1 TAAAGCAATTCATGTTTTAATTT
167307 TGTTCTTGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 29 0.60
30 1 0.02
33 18 0.38
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (29 bp):
TAAAGCAATTCATGTTTTAATTTCATGTT
Found at i:171570 original size:19 final size:18
Alignment explanation
Indices: 171546--171582 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
171536 ATACTTGTAT
*
171546 ATTTTAATTAAAATGATAA
1 ATTTTAAGTAAAAT-ATAA
171565 ATTTTAAGTAAAATATAA
1 ATTTTAAGTAAAATATAA
171583 CCTTTAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
ATTTTAAGTAAAATATAA
Found at i:179703 original size:15 final size:15
Alignment explanation
Indices: 179665--179695 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
179655 AAACAAGAGC
*
179665 TATCCAAATGTATCA
1 TATCCAAATGAATCA
179680 TATCCAAATGAATCA
1 TATCCAAATGAATCA
179695 T
1 T
179696 TTCTAAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (15 bp):
TATCCAAATGAATCA
Found at i:182216 original size:63 final size:62
Alignment explanation
Indices: 182117--182402 Score: 446
Period size: 63 Copynumber: 4.6 Consensus size: 62
182107 GCTATATCCC
182117 ACCCTCAGATTGAGCCTATGACTGACACACAGGGCAGGGATTACATTATAACCCCCCACACCT
1 ACCCTCAGATTGAGCCTATGACTGACACACAGGGCAGGGATTACATTATAA-CCCCCACACCT
** * *
182180 ACCCTCAGATTGAGTTTATGACTGACACACAGGGCAGGGATTACATTATAATCCCCATACCT
1 ACCCTCAGATTGAGCCTATGACTGACACACAGGGCAGGGATTACATTATAACCCCCACACCT
** *
182242 ACCCTCAGATTGAGTTTATGACTGACACACGGGGCAGGGATTACATTATAACCCCCCACACCT
1 ACCCTCAGATTGAGCCTATGACTGACACACAGGGCAGGGATTACATTATAA-CCCCCACACCT
* * *
182305 ACCCTCAGATTGAGCCTATGACTGACACACAGGACAAGGATTACATGTATAACCCCCATACCT
1 ACCCTCAGATTGAGCCTATGACTGACACACAGGGCAGGGATTACAT-TATAACCCCCACACCT
*
182368 ACCCTCAGATTGAGCCTATGGCTGACACACAGGGC
1 ACCCTCAGATTGAGCCTATGACTGACACACAGGGC
182403 GCTGTGTTGT
Statistics
Matches: 206, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
62 59 0.29
63 142 0.69
64 5 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (62 bp):
ACCCTCAGATTGAGCCTATGACTGACACACAGGGCAGGGATTACATTATAACCCCCACACCT
Found at i:182346 original size:125 final size:126
Alignment explanation
Indices: 182117--182402 Score: 484
Period size: 125 Copynumber: 2.3 Consensus size: 126
182107 GCTATATCCC
182117 ACCCTCAGATTGAGCCTATGACTGACACACAGGGCAGGGATTACATTATAACCCCCCACACCTAC
1 ACCCTCAGATTGAGCCTATGACTGACACACAGGGCAGGGATTACATTATAACCCCCCACACCTAC
** * * *
182182 CCTCAGATTGAGTTTATGACTGACACACAGGGCAGGGATTACAT-TATAATCCCCATACCT
66 CCTCAGATTGAGCCTATGACTGACACACAGGACAAGGATTACATGTATAACCCCCATACCT
** *
182242 ACCCTCAGATTGAGTTTATGACTGACACACGGGGCAGGGATTACATTATAACCCCCCACACCTAC
1 ACCCTCAGATTGAGCCTATGACTGACACACAGGGCAGGGATTACATTATAACCCCCCACACCTAC
182307 CCTCAGATTGAGCCTATGACTGACACACAGGACAAGGATTACATGTATAACCCCCATACCT
66 CCTCAGATTGAGCCTATGACTGACACACAGGACAAGGATTACATGTATAACCCCCATACCT
*
182368 ACCCTCAGATTGAGCCTATGGCTGACACACAGGGC
1 ACCCTCAGATTGAGCCTATGACTGACACACAGGGC
182403 GCTGTGTTGT
Statistics
Matches: 148, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
125 102 0.69
126 46 0.31
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (126 bp):
ACCCTCAGATTGAGCCTATGACTGACACACAGGGCAGGGATTACATTATAACCCCCCACACCTAC
CCTCAGATTGAGCCTATGACTGACACACAGGACAAGGATTACATGTATAACCCCCATACCT
Found at i:189338 original size:13 final size:13
Alignment explanation
Indices: 189320--189344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
189310 ACATAGTCGG
189320 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
189333 AAAGAAAGAAAG
1 AAAGAAAGAAAG
189345 TTTGTGTTTT
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAGA
Found at i:190783 original size:13 final size:14
Alignment explanation
Indices: 190765--190793 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
190755 CCCCTCCCGA
190765 ATATTTAAAAG-CT
1 ATATTTAAAAGTCT
190778 ATATTTAAAAGTCT
1 ATATTTAAAAGTCT
190792 AT
1 AT
190794 GCTTCTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (14 bp):
ATATTTAAAAGTCT
Found at i:195228 original size:22 final size:22
Alignment explanation
Indices: 195178--195430 Score: 275
Period size: 21 Copynumber: 11.8 Consensus size: 22
195168 AAAATATTTT
* *
195178 TATCTCGTAATTACGAG-AAAA
1 TATCTCGTTATTACGAGTTAAA
* *
195199 GATCTCGTTATTACGAGTTAAT
1 TATCTCGTTATTACGAGTTAAA
195221 TATCTCGTTATTACGAGTT-AA
1 TATCTCGTTATTACGAGTTAAA
*
195242 TATCTCGTTATTACGAG-AAAA
1 TATCTCGTTATTACGAGTTAAA
* * *
195263 GATCTCGTAATTACGAG-AAAA
1 TATCTCGTTATTACGAGTTAAA
* * *
195284 GATCTCGTAATTACGAGTTAAT
1 TATCTCGTTATTACGAGTTAAA
* *
195306 TATCTCGTAATTACGAGTTAAT
1 TATCTCGTTATTACGAGTTAAA
* *
195328 TATCTCGTTATAACGAG-AAAA
1 TATCTCGTTATTACGAGTTAAA
* *
195349 GATCTCGTTATTACGAGTTAAT
1 TATCTCGTTATTACGAGTTAAA
* *
195371 TATCTCGTAATTACGAG-AAAA
1 TATCTCGTTATTACGAGTTAAA
* *
195392 GATCTCGTTATTACGAGTTAAC
1 TATCTCGTTATTACGAGTTAAA
195414 TATCTCGTTATTACGAG
1 TATCTCGTTATTACGAG
195431 AAAAGATCTA
Statistics
Matches: 198, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
21 105 0.53
22 93 0.47
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (22 bp):
TATCTCGTTATTACGAGTTAAA
Found at i:195247 original size:43 final size:43
Alignment explanation
Indices: 195179--195439 Score: 312
Period size: 43 Copynumber: 6.1 Consensus size: 43
195169 AAATATTTTT
* ** * **
195179 ATCTCGTAATTACGAG-AAAAGATCTCGTTATTACGAGTTAATT
1 ATCTCGTAATTACGAGTTAATTATCTCGTTATTACGAG-AAAAG
*
195222 ATCTCGTTATTACGAGTTAA-TATCTCGTTATTACGAGAAAAG
1 ATCTCGTAATTACGAGTTAATTATCTCGTTATTACGAGAAAAG
* ** * * **
195264 ATCTCGTAATTACGAG-AAAAGATCTCGTAATTACGAGTTAATT
1 ATCTCGTAATTACGAGTTAATTATCTCGTTATTACGAG-AAAAG
*
195307 ATCTCGTAATTACGAGTTAATTATCTCGTTATAACGAGAAAAG
1 ATCTCGTAATTACGAGTTAATTATCTCGTTATTACGAGAAAAG
* *
195350 ATCTCGTTATTACGAGTTAATTATCTCGTAATTACGAGAAAAG
1 ATCTCGTAATTACGAGTTAATTATCTCGTTATTACGAGAAAAG
* *
195393 ATCTCGTTATTACGAGTTAACTATCTCGTTATTACGAGAAAAG
1 ATCTCGTAATTACGAGTTAATTATCTCGTTATTACGAGAAAAG
195436 ATCT
1 ATCT
195440 ATTTTTAAAA
Statistics
Matches: 188, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
41 2 0.01
42 32 0.17
43 136 0.72
44 18 0.10
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (43 bp):
ATCTCGTAATTACGAGTTAATTATCTCGTTATTACGAGAAAAG
Found at i:195397 original size:86 final size:85
Alignment explanation
Indices: 195179--195439 Score: 371
Period size: 86 Copynumber: 3.0 Consensus size: 85
195169 AAATATTTTT
* * **
195179 ATCTCGTAATTACGAGAAAAGATCTCGTTATTACGAGTTAATTATCTCGTTATTACGAGTTAATA
1 ATCTCGTAATTACGAGAAAAGATCTCGTAATTACGAGTAAAAGATCTCGTTATTACGAGTTAATA
195244 TCTCGTTATTACGAGAAAAG
66 TCTCGTTATTACGAGAAAAG
* ** *
195264 ATCTCGTAATTACGAGAAAAGATCTCGTAATTACGAGTTAATTATCTCGTAATTACGAGTTAATT
1 ATCTCGTAATTACGAGAAAAGATCTCGTAATTACGAGTAAAAGATCTCGTTATTACGAGTTAA-T
*
195329 ATCTCGTTATAACGAGAAAAG
65 ATCTCGTTATTACGAGAAAAG
* * **
195350 ATCTCGTTATTACGAGTTAATTATCTCGTAATTACGAG-AAAAGATCTCGTTATTACGAGTTAAC
1 ATCTCGTAATTACGAG-AAAAGATCTCGTAATTACGAGTAAAAGATCTCGTTATTACGAGTTAA-
195414 TATCTCGTTATTACGAGAAAAG
64 TATCTCGTTATTACGAGAAAAG
195436 ATCT
1 ATCT
195440 ATTTTTAAAA
Statistics
Matches: 161, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
85 61 0.38
86 82 0.51
87 18 0.11
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (85 bp):
ATCTCGTAATTACGAGAAAAGATCTCGTAATTACGAGTAAAAGATCTCGTTATTACGAGTTAATA
TCTCGTTATTACGAGAAAAG
Found at i:196103 original size:22 final size:22
Alignment explanation
Indices: 196074--196347 Score: 213
Period size: 22 Copynumber: 12.7 Consensus size: 22
196064 ATAGATCTTT
196074 TCTCGTAATAACGAGAAAATTA
1 TCTCGTAATAACGAGAAAATTA
*
196096 ACTCGTAATAACGAGAAAATTA
1 TCTCGTAATAACGAGAAAATTA
** *
196118 TCTCGTAATAACGAG-ATCTTT
1 TCTCGTAATAACGAGAAAATTA
*
196139 TCTCGTAATAACGAGATAATTA
1 TCTCGTAATAACGAGAAAATTA
* ** *
196161 ACTCGTAATAACGAG-ATCTTT
1 TCTCGTAATAACGAGAAAATTA
* ** *
196182 TCTCGTTATTAA-GAG-ATCTTT
1 TCTCG-TAATAACGAGAAAATTA
*
196203 TCTCGTAATAACGAGATAATTA
1 TCTCGTAATAACGAGAAAATTA
* ** *
196225 ACTCGTAATAACGAG-ATCTTT
1 TCTCGTAATAACGAGAAAATTA
* ** *
196246 TCTCGTTATTAA-GAG-ATCTTT
1 TCTCG-TAATAACGAGAAAATTA
*
196267 TCTCGTAATAACGAGATAATTA
1 TCTCGTAATAACGAGAAAATTA
* ** *
196289 ACTCGTAATAACGAG-ATCTTT
1 TCTCGTAATAACGAGAAAATTA
*
196310 TCTCGTAATAACGAGATAATTA
1 TCTCGTAATAACGAGAAAATTA
*
196332 ACTCGTAATAACGAGA
1 TCTCGTAATAACGAGA
196348 TCTTTTCTCG
Statistics
Matches: 200, Mismatches: 44, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
20 10 0.05
21 80 0.40
22 110 0.55
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (22 bp):
TCTCGTAATAACGAGAAAATTA
Found at i:196160 original size:43 final size:43
Alignment explanation
Indices: 196074--196371 Score: 370
Period size: 43 Copynumber: 6.9 Consensus size: 43
196064 ATAGATCTTT
** ** *
196074 TCTCGTAATAACGAGAAAATTAACTCGTAATAACGAGAAAATTA
1 TCTCGTAATAACGAG-ATCTTTTCTCGTAATAACGAGATAATTA
196118 TCTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTA
1 TCTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTA
* * * *
196161 ACTCGTAATAACGAGATCTTTTCTCGTTATTAA-GAGAT-CTTT
1 TCTCGTAATAACGAGATCTTTTCTCG-TAATAACGAGATAATTA
* ** * *
196203 TCTCGTAATAACGAGATAATTAACTCGTAATAACGAGAT-CTTT
1 TCTCGTAATAACGAGAT-CTTTTCTCGTAATAACGAGATAATTA
*
196246 TCTCGTTATTAA-GAGATCTTTTCTCGTAATAACGAGATAATTA
1 TCTCG-TAATAACGAGATCTTTTCTCGTAATAACGAGATAATTA
*
196289 ACTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTA
1 TCTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTA
* *
196332 ACTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATAA
1 TCTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAA
196372 AAATATTTTT
Statistics
Matches: 225, Mismatches: 23, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
42 46 0.20
43 154 0.68
44 25 0.11
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (43 bp):
TCTCGTAATAACGAGATCTTTTCTCGTAATAACGAGATAATTA
Found at i:196262 original size:107 final size:108
Alignment explanation
Indices: 196097--196371 Score: 396
Period size: 107 Copynumber: 2.6 Consensus size: 108
196087 AGAAAATTAA
* * *
196097 CTCGTAATAACGAGAAAATTATCTCGTAATAACGAGATCTTTTCTCG-TAATAACGAGATAATTA
1 CTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTTCTCGTTATTAA-GAGATAATTA
* ** *
196161 ACTCGTAATAACGAGAT-CTTTTCTCGTTATTAA-GAGATCTTTT
65 ACTCGTAATAACGAGATAATTAACTCG-TAATAACGAGATCTTTT
* **
196204 CTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTTCTCGTTATTAAGAGAT-CTTTT
1 CTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTTCTCGTTATTAAGAGATAATTAA
196268 CTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTT
66 CTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTT
* *
196311 CTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTTCTCGTAATTACGAGATAA
1 CTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTTCTCGTTATTAAGAGATAA
196372 AAATATTTTT
Statistics
Matches: 151, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
106 23 0.15
107 123 0.81
108 5 0.03
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (108 bp):
CTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTTCTCGTTATTAAGAGATAATTAA
CTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTT
Found at i:196369 original size:64 final size:64
Alignment explanation
Indices: 196066--196348 Score: 435
Period size: 64 Copynumber: 4.4 Consensus size: 64
196056 CATTTTATAT
* ** *
196066 AGATCTTTTCTCGTAATAACGAGAAAATTAACTCGTAATAACGAGAAAATTATCTCG-TAATAAC
1 AGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACGAG-ATCTTTTCTCGTTAATAA-
196130 G
64 G
*
196131 AGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTTCTCGTTATTAAG
1 AGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTTCTCGTTAATAAG
*
196195 AGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTTCTCGTTATTAAG
1 AGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTTCTCGTTAATAAG
196259 AGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTTCTCG-TAATAACG
1 AGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTTCTCGTTAATAA-G
* **
196323 AGATAATTAACTCGTAATAACGAGAT
1 AGAT-CTTTTCTCGTAATAACGAGAT
196349 CTTTTCTCGT
Statistics
Matches: 206, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
63 5 0.02
64 134 0.65
65 67 0.33
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (64 bp):
AGATCTTTTCTCGTAATAACGAGATAATTAACTCGTAATAACGAGATCTTTTCTCGTTAATAAG
Found at i:200172 original size:31 final size:32
Alignment explanation
Indices: 200137--200203 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
200127 GGTTGAAACA
* *
200137 TGACCC-GGGGTCATTTTTCAACGTTGAATAT
1 TGACCCGGGGGTCATTTTTCAACGTGGAAAAT
200168 TGACCCGGGGGGTCATTTTTCAACGTGGAAAAT
1 TGACCC-GGGGGTCATTTTTCAACGTGGAAAAT
200201 TGA
1 TGA
200204 GACCAAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 6 0.19
33 26 0.81
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (32 bp):
TGACCCGGGGGTCATTTTTCAACGTGGAAAAT
Found at i:209613 original size:15 final size:15
Alignment explanation
Indices: 209595--209623 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
209585 ATTTTATGTA
209595 TAAAACAGAAGACTT
1 TAAAACAGAAGACTT
209610 TAAAACAGAAGACT
1 TAAAACAGAAGACT
209624 CTCATGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.17
Consensus pattern (15 bp):
TAAAACAGAAGACTT
Found at i:210652 original size:31 final size:31
Alignment explanation
Indices: 210607--210667 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
210597 GTGTATTGTA
*
210607 AGTTTAACTAGTTCACTGCAGAGTTCAGAGT
1 AGTTTAACTAGTTCACAGCAGAGTTCAGAGT
* *
210638 AGTTTGACTTGTTCACAGCAGAGTTCAGAG
1 AGTTTAACTAGTTCACAGCAGAGTTCAGAG
210668 GTAAGAACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (31 bp):
AGTTTAACTAGTTCACAGCAGAGTTCAGAGT
Found at i:214798 original size:35 final size:35
Alignment explanation
Indices: 214710--214803 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
214700 TATCCTGATG
* * *
214710 AATGGATATAAACTATT-ATTATTATAGACTCACAA
1 AATGGATATAAACTCTTCA-TATCATAGACTCAAAA
* *
214745 AA-GGATATAAAATCCTTCATATCATAGACTGAAAA
1 AATGGATATAAACT-CTTCATATCATAGACTCAAAA
214780 AATGGATATAAACTCTTCATATCA
1 AATGGATATAAACTCTTCATATCA
214804 CTATAGGCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
34 10 0.20
35 29 0.58
36 11 0.22
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.31
Consensus pattern (35 bp):
AATGGATATAAACTCTTCATATCATAGACTCAAAA
Found at i:231026 original size:27 final size:27
Alignment explanation
Indices: 230989--231041 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
230979 ACTTCTCTAA
*
230989 TGTTGTTTTTACACGTATTTTTAATAG
1 TGTTGTATTTACACGTATTTTTAATAG
*
231016 TGTTGTATTTACACGTTTTTTTAATA
1 TGTTGTATTTACACGTATTTTTAATA
231042 TTAGAGAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.08, G:0.13, T:0.57
Consensus pattern (27 bp):
TGTTGTATTTACACGTATTTTTAATAG
Found at i:231523 original size:27 final size:27
Alignment explanation
Indices: 231481--231536 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
231471 TAACCTCTCT
* *
231481 ATTGTTGTATTTACACGTATTTTTATC
1 ATTGTTGTATTCACACGTATTTATATC
231508 ATTGTTGTATTCACACGTATTTATATC
1 ATTGTTGTATTCACACGTATTTATATC
231535 AT
1 AT
231537 GTTTCTACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.52
Consensus pattern (27 bp):
ATTGTTGTATTCACACGTATTTATATC
Found at i:231856 original size:27 final size:27
Alignment explanation
Indices: 231836--232925 Score: 419
Period size: 27 Copynumber: 39.6 Consensus size: 27
231826 ATATCGGAGC
*
231836 TCTACCTATTCTGTTATATATCACAGT
1 TCTACCTGTTCTGTTATATATCACAGT
*
231863 TCTACCTGTTCTGTTATATATCATAGT
1 TCTACCTGTTCTGTTATATATCACAGT
*
231890 TCTACCTGTTCTGTTATATATCATAGT
1 TCTACCTGTTCTGTTATATATCACAGT
* * * *
231917 TTTAAGC-GTAT-TGATATATATCATAGT
1 TCT-ACCTGT-TCTGTTATATATCACAGT
** * * **
231944 TCTACAGGTAT-TGTTATACATAATGGT
1 TCTACCTGT-TCTGTTATATATCACAGT
* * * *
231971 TCTATCTATTTTGTTATATATCATAGT
1 TCTACCTGTTCTGTTATATATCACAGT
* * * *
231998 TCTACCTGTACAGGTATATATCACAAT
1 TCTACCTGTTCTGTTATATATCACAGT
** * * *
232025 TCTTTCTGTACTATTATATATCAAAGT
1 TCTACCTGTTCTGTTATATATCACAGT
* * ** * *
232052 TCTTCGTGAACTGTTATATATAACGGT
1 TCTACCTGTTCTGTTATATATCACAGT
* *** * **
232079 TCTATCTAAACTGTTATAAATCATTGT
1 TCTACCTGTTCTGTTATATATCACAGT
* * * ***
232106 TTTGCCTGTACTGTTATATATCGTGGT
1 TCTACCTGTTCTGTTATATATCACAGT
*
232133 TCTACCTGTGT-TGTTATATATCATAGT
1 TCTACCTGT-TCTGTTATATATCACAGT
*
232160 TCTACCTGTAT-TGTTAT-TAATCATAGT
1 TCTACCTGT-TCTGTTATAT-ATCACAGT
* *
232187 CCTACCTGTAT-TGTTATATATATCATAGT
1 TCTACCTGT-TCTG-T-TATATATCACAGT
*
232216 GT-TACCTGTACTGTTATATATCACAGT
1 -TCTACCTGTTCTGTTATATATCACAGT
* * * *
232243 TCTAACTGAAT-TGTTATATGTCATAGT
1 TCTACCTG-TTCTGTTATATATCACAGT
* * * * *
232270 TCTACCAGTGATGTTTTAATATATCATAGA
1 TCTACC--TGTTCTGTT-ATATATCACAGT
** * ** * * *
232300 TCTATATCTAATGTTACACATCATAGT
1 TCTACCTGTTCTGTTATATATCACAGT
* * * * * *
232327 TGTGCTTGTTCTGTAATATATCATAGA
1 TCTACCTGTTCTGTTATATATCACAGT
* * *
232354 TCTACCTGTTCTGTTATACATTATAGT
1 TCTACCTGTTCTGTTATATATCACAGT
* * *
232381 TGTACCTGTTCTGTT-TCATATTATAGT
1 TCTACCTGTTCTGTTAT-ATATCACAGT
* * **
232408 TTTACCTGAAAGTGTGCTGTAAAATACCAGGTATCGTAGT
1 TCTACCT----GT-T-CTGT----TA-TA--TATCACAGT
* * *
232448 TCTACATGTACTGTTATATATCATAGT
1 TCTACCTGTTCTGTTATATATCACAGT
* * * *
232475 TCTTCTTGTATTTAAAAACATTATATATCA-ATGT
1 TCTACCTGT-TCT------GTTATATATCACA-GT
* * * **
232509 TCTACCTGTACTTTTATATATTATTGT
1 TCTACCTGTTCTGTTATATATCACAGT
** *
232536 TCTA----AACTGTTATATATCATAGT
1 TCTACCTGTTCTGTTATATATCACAGT
* * * **
232559 TTTACATGTACTGTTATATATCATGGT
1 TCTACCTGTTCTGTTATATATCACAGT
* * *
232586 TCTACCCGTTTTGTTATATATCATAGT
1 TCTACCTGTTCTGTTATATATCACAGT
* **
232613 TCTACCTGTAT-TGTTATTTATCATTGT
1 TCTACCTGT-TCTGTTATATATCACAGT
* *
232640 TCTACCTGTTTTGTTATAAATCACAGT
1 TCTACCTGTTCTGTTATATATCACAGT
* * *
232667 TCTACCAGTAT-TGTTATAAATCATAGAT
1 TCTACCTGT-TCTGTTATATATCACAG-T
**
232695 T-TACCTGTTCTGTTATATATCATGGT
1 TCTACCTGTTCTGTTATATATCACAGT
* * * *
232721 TCTACCCGTTTTGATATATATCATAGT
1 TCTACCTGTTCTGTTATATATCACAGT
*
232748 TCTACCTGTAT-TGTTATATATCATAGT
1 TCTACCTGT-TCTGTTATATATCACAGT
* *
232775 TCTACCTGTTTTGTTATAAATCACAGT
1 TCTACCTGTTCTGTTATATATCACAGT
* * *
232802 TCTACCAGTAT-TGTTATAAATCATAGAT
1 TCTACCTGT-TCTGTTATATATCACAG-T
* *
232830 T-TACCTGTTCTGTTATA-ATTATAGT
1 TCTACCTGTTCTGTTATATATCACAGT
* * *
232855 TCTACCTGTTTTGTTACATATCATAGT
1 TCTACCTGTTCTGTTATATATCACAGT
*
232882 TCTACCTGTAT-TGTTATATATCATAGAT
1 TCTACCTGT-TCTGTTATATATCACAG-T
*
232910 T-TACTTGTTCTGTTAT
1 TCTACCTGTTCTGTTAT
232926 GTTATAATTG
Statistics
Matches: 833, Mismatches: 169, Indels: 122
0.74 0.15 0.11
Matches are distributed among these distances:
23 18 0.02
25 2 0.00
26 32 0.04
27 667 0.80
28 23 0.03
29 26 0.03
30 17 0.02
31 2 0.00
32 1 0.00
33 6 0.01
34 23 0.03
36 2 0.00
37 1 0.00
38 1 0.00
40 12 0.01
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (27 bp):
TCTACCTGTTCTGTTATATATCACAGT
Found at i:231894 original size:54 final size:54
Alignment explanation
Indices: 231836--232998 Score: 648
Period size: 54 Copynumber: 21.1 Consensus size: 54
231826 ATATCGGAGC
* *
231836 TCTACCTATTCTGTTATATATCACAGTTCTACCTGTTCTGTTATATATCATAGT
1 TCTACCTGTTCTGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGT
* * *
231890 TCTACCTGTTCTGTTATATATCATAGTTTTAAGC-GTAT-TGATATATATCATAGT
1 TCTACCTGTTCTGTTATATATCATAGTTCT-ACCTGT-TCTGTTATATATCATAGT
** * * * * * *
231944 TCTACAGGTAT-TGTTATACATAATGGTTCTATCTATTTTGTTATATATCATAGT
1 TCTACCTGT-TCTGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGT
* * * * * ** * * *
231998 TCTACCTGTACAGGTATATATCACAATTCTTTCTGTACTATTATATATCAAAGT
1 TCTACCTGTTCTGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGT
* * ** * ** * *** * *
232052 TCTTCGTGAACTGTTATATATAACGGTTCTATCTAAACTGTTATAAATCATTGT
1 TCTACCTGTTCTGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGT
* * * * *
232106 TTTGCCTGTACTGTTATATATCGTGGTTCTACCTGTGT-TGTTATATATCATAGT
1 TCTACCTGTTCTGTTATATATCATAGTTCTACCTGT-TCTGTTATATATCATAGT
*
232160 TCTACCTGTAT-TGTTAT-TAATCATAGTCCTACCTGTAT-TGTTATATATATCATAGT
1 TCTACCTGT-TCTGTTATAT-ATCATAGTTCTACCTGT-TCTG-T-TATATATCATAGT
* * * * *
232216 GT-TACCTGTACTGTTATATATCACAGTTCTAACTGAAT-TGTTATATGTCATAGT
1 -TCTACCTGTTCTGTTATATATCATAGTTCTACCTG-TTCTGTTATATATCATAGT
* * * * ** * ** * *
232270 TCTACCAGTGATGTTTTAATATATCATAGATCTATATCTAATGTTACACATCATAGT
1 TCTACC--TGTTCTGTT-ATATATCATAGTTCTACCTGTTCTGTTATATATCATAGT
* * * * * * *
232327 TGTGCTTGTTCTGTAATATATCATAGATCTACCTGTTCTGTTATACATTATAGT
1 TCTACCTGTTCTGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGT
* * * * *
232381 TGTACCTGTTCTGTT-TCATATTATAGTTTTACCTGAAAGTGTGCTGTAAAATACCAGGTATCGT
1 TCTACCTGTTCTGTTAT-ATATCATAGTTCTACCT----GT-T-CTGT----TA-TA--TATCAT
232445 AGT
52 AGT
* * * * * *
232448 TCTACATGTACTGTTATATATCATAGTTCTTCTTGTATTTAAAAACATTATATATCA-ATGT
1 TCTACCTGTTCTGTTATATATCATAGTTCTACCTGT-TCT------GTTATATATCATA-GT
* * * * **
232509 TCTACCTGTACTTTTATATATTATTGTTCTA----AACTGTTATATATCATAGT
1 TCTACCTGTTCTGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGT
* * * * * *
232559 TTTACATGTACTGTTATATATCATGGTTCTACCCGTTTTGTTATATATCATAGT
1 TCTACCTGTTCTGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGT
* * * * *
232613 TCTACCTGTAT-TGTTATTTATCATTGTTCTACCTGTTTTGTTATAAATCACAGT
1 TCTACCTGT-TCTGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGT
* * *
232667 TCTACCAGTAT-TGTTATAAATCATAGATT-TACCTGTTCTGTTATATATCATGGT
1 TCTACCTGT-TCTGTTATATATCATAG-TTCTACCTGTTCTGTTATATATCATAGT
* * *
232721 TCTACCCGTTTTGATATATATCATAGTTCTACCTGTAT-TGTTATATATCATAGT
1 TCTACCTGTTCTGTTATATATCATAGTTCTACCTGT-TCTGTTATATATCATAGT
* * * * *
232775 TCTACCTGTTTTGTTATAAATCACAGTTCTACCAGTAT-TGTTATAAATCATAGAT
1 TCTACCTGTTCTGTTATATATCATAGTTCTACCTGT-TCTGTTATATATCATAG-T
* * *
232830 T-TACCTGTTCTGTTATA-ATTATAGTTCTACCTGTTTTGTTACATATCATAGT
1 TCTACCTGTTCTGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGT
* **
232882 TCTACCTGTAT-TGTTATATATCATAGATT-TACTTGTTCTGTTATGTTATAATTGTAGT
1 TCTACCTGT-TCTGTTATATATCATAG-TTCTACCTGTTCTGTTA---TAT-ATCATAGT
* * * ** * * *
232940 TCTACATGTCCTCTTATATATCATAGTT-TAATTTGTGCTGTTTTATATTATAGT
1 TCTACCTGTTCTGTTATATATCATAGTTCT-ACCTGTTCTGTTATATATCATAGT
232994 TCTAC
1 TCTAC
232999 ATGTATCATT
Statistics
Matches: 862, Mismatches: 183, Indels: 128
0.73 0.16 0.11
Matches are distributed among these distances:
50 38 0.04
51 1 0.00
52 3 0.00
53 50 0.06
54 542 0.63
55 21 0.02
56 48 0.06
57 38 0.04
58 40 0.05
59 1 0.00
60 5 0.01
61 32 0.04
62 1 0.00
63 4 0.00
64 4 0.00
65 1 0.00
67 31 0.04
68 2 0.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (54 bp):
TCTACCTGTTCTGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGT
Found at i:231945 original size:81 final size:81
Alignment explanation
Indices: 231847--232967 Score: 582
Period size: 81 Copynumber: 13.9 Consensus size: 81
231837 CTACCTATTC
*
231847 TGTTATATATCACAGTTCTACCTGTTCTGTTATATATCATAGTTCTACCTGTTCTGTTATATATC
1 TGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGTTCTACCTGTTCTGTTATATATC
* *
231912 ATAGTTTTAAGC-GTAT
66 ATAGTTCT-ACCTGTAT
* ** * * * * * *
231928 TGATATATATCATAGTTCTACAGGTAT-TGTTATACATAATGGTTCTATCTATTTTGTTATATAT
1 TGTTATATATCATAGTTCTACCTGT-TCTGTTATATATCATAGTTCTACCTGTTCTGTTATATAT
*
231992 CATAGTTCTACCTGTAC
65 CATAGTTCTACCTGTAT
* * * * ** * * * * * ** *
232009 AGGTATATATCACAATTCTTTCTGTACTATTATATATCAAAGTTCTTCGTGAACTGTTATATATA
1 TGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGTTCTACCTGTTCTGTTATATATC
** * ** *
232074 ACGGTTCTATCTAAAC
66 ATAGTTCTACCTGTAT
* * * * * * *
232090 TGTTATAAATCATTGTTTTGCCTGTACTGTTATATATCGTGGTTCTACCTGTGT-TGTTATATAT
1 TGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGTTCTACCTGT-TCTGTTATATAT
232154 CATAGTTCTACCTGTAT
65 CATAGTTCTACCTGTAT
* *
232171 TGTTAT-TAATCATAGTCCTACCTGTAT-TGTTATATATATCATAGTGT-TACCTGTACTGTTAT
1 TGTTATAT-ATCATAGTTCTACCTGT-TCTG-T-TATATATCATAGT-TCTACCTGTTCTGTTAT
* * *
232233 ATATCACAGTTCTAACTGAAT
61 ATATCATAGTTCTACCTGTAT
* * * * * ** * ** * *
232254 TGTTATATGTCATAGTTCTACCAGTGATGTTTTAATATATCATAGATCTATATCTAATGTTACAC
1 TGTTATATATCATAGTTCTACC--TGTTCTGTT-ATATATCATAGTTCTACCTGTTCTGTTATAT
* * *
232319 ATCATAGTTGTGCTTGT-T
63 ATCATAGTTCTACCTGTAT
* * * * *
232337 CTGTAATATATCATAGATCTACCTGTTCTGTTATACATTATAGTTGTACCTGTTCTGTT-TCATA
1 -TGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGTTCTACCTGTTCTGTTAT-ATA
* * * *
232401 TTATAGTTTTACCTGAAAG
64 TCATAGTTCTACCTG-TAT
** * * * * ** * * *
232420 TGTGCTGTA--A-A---ATACCAGGTATC-G-TA-GT-TC-TACATGTA-CTGTTAT-ATATCAT
1 TGTTATATATCATAGTTCTACC-TGT-TCTGTTATATATCATAGTTCTACCTGTTCTGTTAT-AT
** * ** ** *
232472 AGTTC-TTCTTGTATTTAAAAA
63 A--TCATAGTTCTACCT-GTAT
** * * * * **
232493 CATTATATATCA-ATGTTCTACCTGTACTTTTATATATTATTGTTCTA----AACTGTTATATAT
1 TGTTATATATCATA-GTTCTACCTGTTCTGTTATATATCATAGTTCTACCTGTTCTGTTATATAT
* * *
232553 CATAGTTTTACATGTAC
65 CATAGTTCTACCTGTAT
* * * *
232570 TGTTATATATCATGGTTCTACCCGTTTTGTTATATATCATAGTTCTACCTGTAT-TGTTATTTAT
1 TGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGTTCTACCTGT-TCTGTTATATAT
* *
232634 CATTGTTCTACCTGTTT
65 CATAGTTCTACCTGTAT
* * * *
232651 TGTTATAAATCACAGTTCTACCAGTAT-TGTTATAAATCATAGATT-TACCTGTTCTGTTATATA
1 TGTTATATATCATAGTTCTACCTGT-TCTGTTATATATCATAG-TTCTACCTGTTCTGTTATATA
* * *
232714 TCATGGTTCTACCCGTTT
64 TCATAGTTCTACCTGTAT
* * *
232732 TGATATATATCATAGTTCTACCTGTAT-TGTTATATATCATAGTTCTACCTGTTTTGTTATAAAT
1 TGTTATATATCATAGTTCTACCTGT-TCTGTTATATATCATAGTTCTACCTGTTCTGTTATATAT
* *
232796 CACAGTTCTACCAGTAT
65 CATAGTTCTACCTGTAT
* * * *
232813 TGTTATAAATCATAGATT-TACCTGTTCTGTTATA-ATTATAGTTCTACCTGTTTTGTTACATAT
1 TGTTATATATCATAG-TTCTACCTGTTCTGTTATATATCATAGTTCTACCTGTTCTGTTATATAT
232876 CATAGTTCTACCTGTAT
65 CATAGTTCTACCTGTAT
* ** * * *
232893 TGTTATATATCATAGATT-TACTTGTTCTGTTATGTTATAATTGTAGTTCTACATGTCCTCTTAT
1 TGTTATATATCATAG-TTCTACCTGTTCTGTTA---TAT-ATCATAGTTCTACCTGTTCTGTTAT
232957 ATATCATAGTT
61 ATATCATAGTT
232968 TAATTTGTGC
Statistics
Matches: 770, Mismatches: 214, Indels: 108
0.71 0.20 0.10
Matches are distributed among these distances:
71 1 0.00
72 11 0.01
73 18 0.02
74 2 0.00
75 2 0.00
76 6 0.01
77 44 0.06
78 10 0.01
79 11 0.01
80 82 0.11
81 406 0.53
82 23 0.03
83 65 0.08
84 56 0.07
85 33 0.04
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (81 bp):
TGTTATATATCATAGTTCTACCTGTTCTGTTATATATCATAGTTCTACCTGTTCTGTTATATATC
ATAGTTCTACCTGTAT
Found at i:232245 original size:83 final size:84
Alignment explanation
Indices: 232144--232298 Score: 208
Period size: 83 Copynumber: 1.9 Consensus size: 84
232134 CTACCTGTGT
* * * *
232144 TGTTATATATCATAGTTCTACCTGTATTGTTAT-TAATCATAGTCCTACCTGT-ATTGTTAT-AT
1 TGTTATATATCACAGTTCTAACTGAATTGTTATAT-ATCATAGTCCTACCAGTGA-TGTTATAAT
232206 ATATCATAGTGTTACCTGTAC
64 ATATCATAGTGTTACCTGTAC
* * *
232227 TGTTATATATCACAGTTCTAACTGAATTGTTATATGTCATAGTTCTACCAGTGATGTTTTAATAT
1 TGTTATATATCACAGTTCTAACTGAATTGTTATATATCATAGTCCTACCAGTGATGTTATAATAT
232292 ATCATAG
66 ATCATAG
232299 ATCTATATCT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
83 49 0.79
84 13 0.21
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (84 bp):
TGTTATATATCACAGTTCTAACTGAATTGTTATATATCATAGTCCTACCAGTGATGTTATAATAT
ATCATAGTGTTACCTGTAC
Found at i:232716 original size:135 final size:135
Alignment explanation
Indices: 232543--232925 Score: 626
Period size: 135 Copynumber: 2.8 Consensus size: 135
232533 TGTTCTAAAC
* * * *
232543 TGTTATATATCATAGTTTTACATGTACTGTTATATATCATGGTTCTACCCGTTTTGTTATATATC
1 TGTTATAAATCATAGATTTACCTGTTCTGTTATATATCATGGTTCTACCCGTTTTGTTATATATC
* *
232608 ATAGTTCTACCTGTATTGTTATTTATCATTGTTCTACCTGTTTTGTTATAAATCACAGTTCTACC
66 ATAGTTCTACCTGTATTGTTATATATCATAGTTCTACCTGTTTTGTTATAAATCACAGTTCTACC
232673 AGTAT
131 AGTAT
*
232678 TGTTATAAATCATAGATTTACCTGTTCTGTTATATATCATGGTTCTACCCGTTTTGATATATATC
1 TGTTATAAATCATAGATTTACCTGTTCTGTTATATATCATGGTTCTACCCGTTTTGTTATATATC
232743 ATAGTTCTACCTGTATTGTTATATATCATAGTTCTACCTGTTTTGTTATAAATCACAGTTCTACC
66 ATAGTTCTACCTGTATTGTTATATATCATAGTTCTACCTGTTTTGTTATAAATCACAGTTCTACC
232808 AGTAT
131 AGTAT
* * * *
232813 TGTTATAAATCATAGATTTACCTGTTCTGTTATA-ATTATAGTTCTACCTGTTTTGTTACATATC
1 TGTTATAAATCATAGATTTACCTGTTCTGTTATATATCATGGTTCTACCCGTTTTGTTATATATC
* *
232877 ATAGTTCTACCTGTATTGTTATATATCATAGATT-TACTTGTTCTGTTAT
66 ATAGTTCTACCTGTATTGTTATATATCATAG-TTCTACCTGTTTTGTTAT
232926 GTTATAATTG
Statistics
Matches: 233, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
134 69 0.30
135 164 0.70
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.48
Consensus pattern (135 bp):
TGTTATAAATCATAGATTTACCTGTTCTGTTATATATCATGGTTCTACCCGTTTTGTTATATATC
ATAGTTCTACCTGTATTGTTATATATCATAGTTCTACCTGTTTTGTTATAAATCACAGTTCTACC
AGTAT
Found at i:232957 original size:58 final size:54
Alignment explanation
Indices: 232872--233002 Score: 138
Period size: 58 Copynumber: 2.4 Consensus size: 54
232862 GTTTTGTTAC
* * ** * *
232872 ATATCATAGTTCTACCTGTATTGTTATATATCATAGATTT-ACTTGTTCTGTTATGTT
1 ATATTATAGTTCTACATGTCCTCTTATATATCATAG-TTTAACTTGTGCTG-T-T-TT
* *
232929 ATAATTGTAGTTCTACATGTCCTCTTATATATCATAGTTTAATTTGTGCTGTTTT
1 AT-ATTATAGTTCTACATGTCCTCTTATATATCATAGTTTAACTTGTGCTGTTTT
232984 ATATTATAGTTCTACATGT
1 ATATTATAGTTCTACATGT
233003 ATCATTTATC
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
54 16 0.25
55 4 0.06
56 1 0.02
57 6 0.10
58 36 0.57
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (54 bp):
ATATTATAGTTCTACATGTCCTCTTATATATCATAGTTTAACTTGTGCTGTTTT
Found at i:232987 original size:85 final size:85
Alignment explanation
Indices: 232794--232967 Score: 205
Period size: 85 Copynumber: 2.1 Consensus size: 85
232784 TTTGTTATAA
* * * * *
232794 ATCACAGTTCTACCAGTATTGTTATAAATCATAGATTTAC-----CTGTTCTGTTATAATTATAG
1 ATCATAGTTCTACCTGTACTGTTATATATCATAGATTTACTTGTTCTGTTATGTTATAATTATAG
* ** *
232854 TTCTACCTGTTTTGTTACAT
66 TTCTACATGTCCTCTTACAT
* *
232874 ATCATAGTTCTACCTGTATTGTTATATATCATAGATTTACTTGTTCTGTTATGTTATAATTGTAG
1 ATCATAGTTCTACCTGTACTGTTATATATCATAGATTTACTTGTTCTGTTATGTTATAATTATAG
*
232939 TTCTACATGTCCTCTTATAT
66 TTCTACATGTCCTCTTACAT
232959 ATCATAGTT
1 ATCATAGTT
232968 TAATTTGTGC
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
80 37 0.47
85 42 0.53
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.47
Consensus pattern (85 bp):
ATCATAGTTCTACCTGTACTGTTATATATCATAGATTTACTTGTTCTGTTATGTTATAATTATAG
TTCTACATGTCCTCTTACAT
Found at i:234764 original size:61 final size:62
Alignment explanation
Indices: 234634--235095 Score: 609
Period size: 61 Copynumber: 7.5 Consensus size: 62
234624 TTATAAATGA
* * * ** * *
234634 CCCGGTCGTTTATT-TTTTCCCTAAGGTCCATACATATACAACATAAGTGT-C-CTCATTGG
1 CCCGGTCGTTTATTATTTGCCCTGAGGTCCATACATGTACAGTATAAGTATACTCACATTGG
* * *
234693 CCCGGTCGTTT-TTATTTGCCCTGAGGTCCATACATATACGGTATAAGTATACTCATATTGG
1 CCCGGTCGTTTATTATTTGCCCTGAGGTCCATACATGTACAGTATAAGTATACTCACATTGG
* * *
234754 CCCGGCCGTTT-TTATTTGCCCTGAGGTCCATACATATACAGTATAAGTATACTCACATTGA
1 CCCGGTCGTTTATTATTTGCCCTGAGGTCCATACATGTACAGTATAAGTATACTCACATTGG
* * * *
234815 CCCTGTCGTTTATT-TTTGCCATGAGGTCCATACATGTACGGTATAAGTATACTTACATTGG
1 CCCGGTCGTTTATTATTTGCCCTGAGGTCCATACATGTACAGTATAAGTATACTCACATTGG
* *
234876 CCCGGTCGTTTA-TATTTGCCCCGAGGTCCATACATGTACAGTATAAGTATACTCATATTGG
1 CCCGGTCGTTTATTATTTGCCCTGAGGTCCATACATGTACAGTATAAGTATACTCACATTGG
* *
234937 CCCGGTCGTTTATACACTGTATTTGCCCCGAGGTCCATACATGTACAGTATAAGTATACTCATAT
1 CCCGGTCG-TT-T--A-T-TATTTGCCCTGAGGTCCATACATGTACAGTATAAGTATACTCACAT
235002 TGG
60 TGG
235005 CCCGGTCGTTTATT-TTTGCCCTGAGGTCCATACATGTACAGTATAAGTATACTCACATTGG
1 CCCGGTCGTTTATTATTTGCCCTGAGGTCCATACATGTACAGTATAAGTATACTCACATTGG
*
235066 CCCGGTCGTTTA-TATTTGCCCCGAGGTCCA
1 CCCGGTCGTTTATTATTTGCCCTGAGGTCCA
235096 GCAGCCGCTC
Statistics
Matches: 362, Mismatches: 28, Indels: 24
0.87 0.07 0.06
Matches are distributed among these distances:
58 2 0.01
59 41 0.11
60 3 0.01
61 247 0.68
62 5 0.01
63 2 0.01
64 1 0.00
65 1 0.00
66 1 0.00
67 2 0.01
68 57 0.16
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (62 bp):
CCCGGTCGTTTATTATTTGCCCTGAGGTCCATACATGTACAGTATAAGTATACTCACATTGG
Found at i:235033 original size:190 final size:183
Alignment explanation
Indices: 234631--235095 Score: 673
Period size: 190 Copynumber: 2.5 Consensus size: 183
234621 CGTTTATAAA
* * * ** * *
234631 TGACCCGGTCGTTTATTTTTTCCCTAAGGTCCATACATATACAACATAAGTGT-CCT-CATTGGC
1 TGACCCGGTCGTTTATTTTTGCCCTGAGGTCCATACATGTACAGTATAAGTATACTTACATTGGC
* * *
234694 CCGGTCGTTTTTATTTGCCCTGAGGTCCATACATATACGGTATAAGTATACTCATATTGGCCCGG
66 CCGGTCGTTTATATTTGCCCCGAGGTCCATACATATACAGTATAAGTATACTCATATTGGCCCGG
*
234759 CCGTTTTTATTTGCCCTGAGGTCCATACATATACAGTATAAGTATACTCACAT
131 CCGTTTTTATTTGCCCCGAGGTCCATACATATACAGTATAAGTATACTCACAT
* * *
234812 TGACCCTGTCGTTTATTTTTGCCATGAGGTCCATACATGTACGGTATAAGTATACTTACATTGGC
1 TGACCCGGTCGTTTATTTTTGCCCTGAGGTCCATACATGTACAGTATAAGTATACTTACATTGGC
*
234877 CCGGTCGTTTATATTTGCCCCGAGGTCCATACATGTACAGTATAAGTATACTCATATTGGCCCGG
66 CCGGTCGTTTATATTTGCCCCGAGGTCCATACATATACAGTATAAGTATACTCATATTGGCCCGG
* * *
234942 TCGTTTATACACTGTATTTGCCCCGAGGTCCATACATGTACAGTATAAGTATACTCATAT
131 CCG-TT-T----T-TATTTGCCCCGAGGTCCATACATATACAGTATAAGTATACTCACAT
* *
235002 TGGCCCGGTCGTTTATTTTTGCCCTGAGGTCCATACATGTACAGTATAAGTATACTCACATTGGC
1 TGACCCGGTCGTTTATTTTTGCCCTGAGGTCCATACATGTACAGTATAAGTATACTTACATTGGC
235067 CCGGTCGTTTATATTTGCCCCGAGGTCCA
66 CCGGTCGTTTATATTTGCCCCGAGGTCCA
235096 GCAGCCGCTC
Statistics
Matches: 252, Mismatches: 23, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
181 44 0.17
182 2 0.01
183 70 0.28
184 2 0.01
185 1 0.00
189 1 0.00
190 132 0.52
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (183 bp):
TGACCCGGTCGTTTATTTTTGCCCTGAGGTCCATACATGTACAGTATAAGTATACTTACATTGGC
CCGGTCGTTTATATTTGCCCCGAGGTCCATACATATACAGTATAAGTATACTCATATTGGCCCGG
CCGTTTTTATTTGCCCCGAGGTCCATACATATACAGTATAAGTATACTCACAT
Found at i:235390 original size:34 final size:34
Alignment explanation
Indices: 235347--235421 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
235337 AATTTCTCCC
235347 GTTTGAAAGAGATGGAGGTAATATCATTTATACT
1 GTTTGAAAGAGATGGAGGTAATATCATTTATACT
*
235381 GTTTGAAAGAGATGGAGGTCATATCATTTATACT
1 GTTTGAAAGAGATGGAGGTAATATCATTTATACT
235415 GTTTGAA
1 GTTTGAA
235422 CTTCTAGGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (34 bp):
GTTTGAAAGAGATGGAGGTAATATCATTTATACT
Found at i:236255 original size:46 final size:46
Alignment explanation
Indices: 236188--236323 Score: 254
Period size: 46 Copynumber: 3.0 Consensus size: 46
236178 TTTGATTTCG
*
236188 TGGGTTATTCGCGGCCTTGTTCTGACTGTAGGCGTCATTAGGACAC
1 TGGGTTATTCGCGGCCTTGTTCTGACTGTAGGCGCCATTAGGACAC
236234 TGGGTTATTCGCGGCCTTGTTCTGACTGTAGGCGCCATTAGGACAC
1 TGGGTTATTCGCGGCCTTGTTCTGACTGTAGGCGCCATTAGGACAC
*
236280 TGGGTTATTCGCGGCCTTGTTCTGACTGTAGCCGCCATTAGGAC
1 TGGGTTATTCGCGGCCTTGTTCTGACTGTAGGCGCCATTAGGAC
236324 GGTGTCCGCC
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 88 1.00
ACGTcount: A:0.15, C:0.24, G:0.30, T:0.32
Consensus pattern (46 bp):
TGGGTTATTCGCGGCCTTGTTCTGACTGTAGGCGCCATTAGGACAC
Found at i:240713 original size:22 final size:22
Alignment explanation
Indices: 240687--240729 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
240677 TATGTTAAAA
240687 TATGTCGATAGAAATATCAAAT
1 TATGTCGATAGAAATATCAAAT
240709 TATGTCGATAGAAATATCAAA
1 TATGTCGATAGAAATATCAAA
240730 ATACTGTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (22 bp):
TATGTCGATAGAAATATCAAAT
Found at i:247824 original size:41 final size:42
Alignment explanation
Indices: 247741--247832 Score: 150
Period size: 41 Copynumber: 2.2 Consensus size: 42
247731 CTGAGACCCG
* *
247741 CCCCACACAGAAACCCCAAGCCCCACCCCCGCGATAACCCCA
1 CCCCTCACAGAAACCCCAAGCACCACCCCCGCGATAACCCCA
*
247783 CCCCTCACAGAAACCCCAAGCACCA-CCCCGTGATAACCCCA
1 CCCCTCACAGAAACCCCAAGCACCACCCCCGCGATAACCCCA
247824 CCCCTCACA
1 CCCCTCACA
247833 CTGAGTCTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 24 0.51
42 23 0.49
ACGTcount: A:0.30, C:0.55, G:0.09, T:0.05
Consensus pattern (42 bp):
CCCCTCACAGAAACCCCAAGCACCACCCCCGCGATAACCCCA
Found at i:252442 original size:21 final size:21
Alignment explanation
Indices: 252416--252502 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 21
252406 TTTTTCTATC
252416 AAATATGTCGACATGCAAGAT
1 AAATATGTCGACATGCAAGAT
* *
252437 AAATATTTTGACATGCAAGAT
1 AAATATGTCGACATGCAAGAT
** * * *
252458 AGTTATGGCAACTTGCAACG-T
1 AAATATGTCGACATGCAA-GAT
* *
252479 AACTATGTTGACATGCAAGA-
1 AAATATGTCGACATGCAAGAT
252499 AAAT
1 AAAT
252503 TGCTATAAAA
Statistics
Matches: 48, Mismatches: 16, Indels: 5
0.70 0.23 0.07
Matches are distributed among these distances:
20 4 0.08
21 43 0.90
22 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (21 bp):
AAATATGTCGACATGCAAGAT
Found at i:252609 original size:21 final size:21
Alignment explanation
Indices: 252580--252817 Score: 203
Period size: 21 Copynumber: 11.3 Consensus size: 21
252570 ATGATGCTAG
*
252580 ATGCTACTTATTTATGTCGAC
1 ATGCAACTTATTTATGTCGAC
* **
252601 ATGCAACTTATTTATTTTAAC
1 ATGCAACTTATTTATGTCGAC
* ** ** *
252622 ATGCGAGATAAATATGTTGAC
1 ATGCAACTTATTTATGTCGAC
*
252643 ATGCAACTTATTTATG-CTTAC
1 ATGCAACTTATTTATGTC-GAC
*
252664 ATGCAACTTATTTATG-CTTAC
1 ATGCAACTTATTTATGTC-GAC
* *
252685 ATGCAACTTCTTTATGTTGAC
1 ATGCAACTTATTTATGTCGAC
* *
252706 ATGCAACATATTTATGTTGAC
1 ATGCAACTTATTTATGTCGAC
252727 ATGCAACTTATTTATGTCGAC
1 ATGCAACTTATTTATGTCGAC
* * *
252748 ATGCAACGTAATTATGT-TATC
1 ATGCAACTTATTTATGTCGA-C
** ** *
252769 ATGCAAGATACATATGTTGAC
1 ATGCAACTTATTTATGTCGAC
*
252790 ATGCAACATATTTATGTCGAC
1 ATGCAACTTATTTATGTCGAC
252811 ATGCAAC
1 ATGCAAC
252818 ATAGATGTGT
Statistics
Matches: 176, Mismatches: 37, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
20 1 0.01
21 174 0.99
22 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (21 bp):
ATGCAACTTATTTATGTCGAC
Found at i:253041 original size:21 final size:21
Alignment explanation
Indices: 253017--253112 Score: 68
Period size: 21 Copynumber: 4.6 Consensus size: 21
253007 ACTTATGTCA
**
253017 ACATGCAACTTAGTTATGTTG
1 ACATGCAACTTAAATATGTTG
* **
253038 ACATGCGAGATAAATATGTTG
1 ACATGCAACTTAAATATGTTG
* * * *
253059 ACATGCTACTT-AGTTTAGTTC
1 ACATGCAACTTAAATAT-GTTG
* **
253080 ACATGCGAGATAAATATGTTG
1 ACATGCAACTTAAATATGTTG
253101 ACATGCAACTTA
1 ACATGCAACTTA
253113 TAAGTTGTAT
Statistics
Matches: 53, Mismatches: 20, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
20 3 0.06
21 47 0.89
22 3 0.06
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (21 bp):
ACATGCAACTTAAATATGTTG
Found at i:253070 original size:42 final size:42
Alignment explanation
Indices: 253017--253112 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
253007 ACTTATGTCA
*
253017 ACATGCAACTTAG-TTATGTTGACATGCGAGATAAATATGTTG
1 ACATGCAACTTAGTTTA-GTTCACATGCGAGATAAATATGTTG
*
253059 ACATGCTACTTAGTTTAGTTCACATGCGAGATAAATATGTTG
1 ACATGCAACTTAGTTTAGTTCACATGCGAGATAAATATGTTG
253101 ACATGCAACTTA
1 ACATGCAACTTA
253113 TAAGTTGTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
42 47 0.94
43 3 0.06
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (42 bp):
ACATGCAACTTAGTTTAGTTCACATGCGAGATAAATATGTTG
Found at i:253227 original size:21 final size:21
Alignment explanation
Indices: 253203--253305 Score: 109
Period size: 21 Copynumber: 4.9 Consensus size: 21
253193 AAACTACATG
253203 TAAGTAGCATGTCGACATAAA
1 TAAGTAGCATGTCGACATAAA
*
253224 TAAGTTGCATGTCGACATAAA
1 TAAGTAGCATGTCGACATAAA
* * * *
253245 GAAGTTA-CATATCAACATTAA
1 TAAG-TAGCATGTCGACATAAA
* * *
253266 TTAGTTGCATGTCCACATAAA
1 TAAGTAGCATGTCGACATAAA
*
253287 TAAGTAGCACGTCGACATA
1 TAAGTAGCATGTCGACATA
253306 TTTATCTTGC
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
20 1 0.02
21 62 0.97
22 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (21 bp):
TAAGTAGCATGTCGACATAAA
Found at i:253316 original size:42 final size:42
Alignment explanation
Indices: 253270--253375 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 42
253260 CATTAATTAG
* * *
253270 TTGCATGTCCACATAAATAAGTAGCACGTCGACATATTTATC
1 TTGCATGTCAACATAAATAAGTAGCACGACAACATATTTATC
* * * *
253312 TTGCATGTCAACGTAACTAAGTCGCATGACAACATATTTATC
1 TTGCATGTCAACATAAATAAGTAGCACGACAACATATTTATC
* * *
253354 TGGCATGTTAACATATATAAGT
1 TTGCATGTCAACATAAATAAGT
253376 TGTCGACATA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (42 bp):
TTGCATGTCAACATAAATAAGTAGCACGACAACATATTTATC
Found at i:253542 original size:21 final size:21
Alignment explanation
Indices: 253518--253557 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
253508 ACATAACTAT
253518 CTTGCATGTCAACAAATTTAC
1 CTTGCATGTCAACAAATTTAC
* *
253539 CTTGCATGTCGACATATTT
1 CTTGCATGTCAACAAATTT
253558 GATAGAAAAA
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:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (21 bp):
CTTGCATGTCAACAAATTTAC
Found at i:253544 original size:42 final size:42
Alignment explanation
Indices: 253475--253554 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
253465 ATTGCAATTT
* * *
253475 TCTTGCATGTCAACATAGTTACGTTGCAAGTTGACATAACTA
1 TCTTGCATGTCAACAAAGTTACCTTGCAAGTCGACATAACTA
* *
253517 TCTTGCATGTCAACAAATTTACCTTGCATGTCGACATA
1 TCTTGCATGTCAACAAAGTTACCTTGCAAGTCGACATA
253555 TTTGATAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (42 bp):
TCTTGCATGTCAACAAAGTTACCTTGCAAGTCGACATAACTA
Done.