Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007915.1 Hibiscus syriacus cultivar Beakdansim tig00110318_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1667290
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 10
Found at i:922 original size:23 final size:22
Alignment explanation
Indices: 887--936 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
877 ATTTTTAATA
*
887 AAAAATTGGTCCCCCCCTTGTTG
1 AAAAACTGGT-CCCCCCTTGTTG
* *
910 AAAAACTGTTCCCCCTTTGTTG
1 AAAAACTGGTCCCCCCTTGTTG
932 AAAAA
1 AAAAA
937 ACTAAGCCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (22 bp):
AAAAACTGGTCCCCCCTTGTTG
Found at i:5963 original size:23 final size:22
Alignment explanation
Indices: 5920--5971 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
5910 GGGGCACTGA
5920 ATTGTTG-AAAAACTGCTCCCC
1 ATTGTTGAAAAAACTGCTCCCC
*
5941 TTTGTTGAAAAAACTAAGC-CCCC
1 ATTGTTGAAAAAACT--GCTCCCC
5964 ATTGTTGA
1 ATTGTTGA
5972 CTTTTCCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 6 0.23
22 7 0.27
23 11 0.42
24 2 0.08
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (22 bp):
ATTGTTGAAAAAACTGCTCCCC
Found at i:11283 original size:2 final size:2
Alignment explanation
Indices: 11270--11321 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
11260 ATTAAAATTA
*
11270 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11312 AT AT AT AT AT
1 AT AT AT AT AT
11322 GTACTAGCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16335 original size:16 final size:17
Alignment explanation
Indices: 16303--16335 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16293 TGACTGTGAC
16303 CAAAAAGTCAAATTTTT
1 CAAAAAGTCAAATTTTT
*
16320 CAAAAAGTCATATTTT
1 CAAAAAGTCAAATTTT
16336 ATGTTTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
CAAAAAGTCAAATTTTT
Found at i:18486 original size:22 final size:22
Alignment explanation
Indices: 18461--18502 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18451 TTCTGGTATT
*
18461 GGATT-AAATGGTAATTATGGAA
1 GGATTGAAAGGGTAA-TATGGAA
18483 GGATTGAAAGGGTAATATGG
1 GGATTGAAAGGGTAATATGG
18503 TAACTTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.29
Consensus pattern (22 bp):
GGATTGAAAGGGTAATATGGAA
Found at i:23022 original size:10 final size:10
Alignment explanation
Indices: 22990--23023 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22980 TCTTTGGGGA
22990 TTATATAAGC
1 TTATATAAGC
*
23000 TTAATAAAAGC
1 TT-ATATAAGC
23011 TTATATAAGC
1 TTATATAAGC
23021 TTA
1 TTA
23024 AAACTCAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (10 bp):
TTATATAAGC
Found at i:51537 original size:37 final size:37
Alignment explanation
Indices: 51496--51571 Score: 109
Period size: 38 Copynumber: 2.1 Consensus size: 37
51486 GTTGAAAAAT
*
51496 ATTTATATAT-TTTCTTTAAAAAATTTAAAATCATAAA
1 ATTTATATATATTTCTTTAAAAAATTAAAAAT-ATAAA
* *
51533 ATTTATATATATTTTTTTACAAAATTAAAAATATAAA
1 ATTTATATATATTTCTTTAAAAAATTAAAAATATAAA
51570 AT
1 AT
51572 GTTTAATGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 17 0.49
38 18 0.51
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (37 bp):
ATTTATATATATTTCTTTAAAAAATTAAAAATATAAA
Found at i:52544 original size:87 final size:87
Alignment explanation
Indices: 52449--52624 Score: 352
Period size: 87 Copynumber: 2.0 Consensus size: 87
52439 TTTCACAATT
52449 ATTTTCCTTCAAACGATTTCTGTTTACAGTTATTGTTTTGCAAGATCATTTATTTCAGTTGATTT
1 ATTTTCCTTCAAACGATTTCTGTTTACAGTTATTGTTTTGCAAGATCATTTATTTCAGTTGATTT
52514 TGTTAAAATAGAAAAACCCTGC
66 TGTTAAAATAGAAAAACCCTGC
52536 ATTTTCCTTCAAACGATTTCTGTTTACAGTTATTGTTTTGCAAGATCATTTATTTCAGTTGATTT
1 ATTTTCCTTCAAACGATTTCTGTTTACAGTTATTGTTTTGCAAGATCATTTATTTCAGTTGATTT
52601 TGTTAAAATAGAAAAACCCTGC
66 TGTTAAAATAGAAAAACCCTGC
52623 AT
1 AT
52625 AACTTTTAGA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (87 bp):
ATTTTCCTTCAAACGATTTCTGTTTACAGTTATTGTTTTGCAAGATCATTTATTTCAGTTGATTT
TGTTAAAATAGAAAAACCCTGC
Found at i:57864 original size:14 final size:14
Alignment explanation
Indices: 57846--58107 Score: 127
Period size: 14 Copynumber: 18.6 Consensus size: 14
57836 TCGAGTACAT
* *
57846 ATTTAATAATAATT
1 ATTTAATATTAATG
57860 ATTTAAGT-TTAATG
1 ATTTAA-TATTAATG
* *
57874 ATTTAATAATAATT
1 ATTTAATATTAATG
*
57888 ACTTAACT-TTAATG
1 ATTTAA-TATTAATG
* *
57902 ATTTAATAATAATT
1 ATTTAATATTAATG
57916 ATTTAACT-TTAATG
1 ATTTAA-TATTAATG
57930 ATTTAACT-TTAATG
1 ATTTAA-TATTAATG
* *
57944 ATTTAATAATAATT
1 ATTTAATATTAATG
*
57958 ACTTAACT-TTAATG
1 ATTTAA-TATTAATG
57972 ATTTAA-ATTTAATG
1 ATTTAATA-TTAATG
* *
57986 ATTTAATAATAATT
1 ATTTAATATTAATG
*
58000 ACTTAATGATTTAA--
1 ATTTAAT-A-TTAATG
*
58014 CTTTAATGATTTAAT-
1 ATTTAAT-A-TTAATG
*
58029 A-ATAATTACTTAATG
1 ATTTAA-TA-TTAATG
58044 ATTTAACT-TTAATG
1 ATTTAA-TATTAATG
* *
58058 ATTTAATAATAATT
1 ATTTAATATTAATG
*
58072 ACTTGAAT-TTAATG
1 A-TTTAATATTAATG
58086 ATTT-ATATTTAATG
1 ATTTAATA-TTAATG
*
58100 ATATAATA
1 ATTTAATA
58108 ATAAAAAATA
Statistics
Matches: 191, Mismatches: 36, Indels: 41
0.71 0.13 0.15
Matches are distributed among these distances:
12 2 0.01
13 6 0.03
14 160 0.84
15 16 0.08
16 7 0.04
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.48
Consensus pattern (14 bp):
ATTTAATATTAATG
Found at i:57878 original size:28 final size:28
Alignment explanation
Indices: 57846--58090 Score: 183
Period size: 28 Copynumber: 8.2 Consensus size: 28
57836 TCGAGTACAT
*
57846 ATTTAATAATAATTATTTAAGTTTAATG
1 ATTTAATAATAATTATTTAACTTTAATG
*
57874 ATTTAATAATAATTACTTAACTTTAATG
1 ATTTAATAATAATTATTTAACTTTAATG
57902 ATTTAATAATAATTATTTAACTTTAATG
1 ATTTAATAATAATTATTTAACTTTAATG
* * * *
57930 ATTTAACT-TTAATGATTTAA-TAATAATT
1 ATTTAA-TAATAATTATTTAACT-TTAATG
* * * *
57958 ACTTAACT-TTAATGATTTAAATTTAATG
1 ATTTAA-TAATAATTATTTAACTTTAATG
57986 ATTTAATAATAATTACTTAATGATTTAACTTTAATG
1 ATTTAATAAT-A--A--T--T-ATTTAACTTTAATG
58022 ATTTAATAATAATTACTTAATGATTTAACTTTAATG
1 ATTTAATAAT-A--A--T--T-ATTTAACTTTAATG
*
58058 ATTTAATAATAATTACTTGAA-TTTAATG
1 ATTTAATAATAATTA-TTTAACTTTAATG
58086 ATTTA
1 ATTTA
58091 TATTTAATGA
Statistics
Matches: 189, Mismatches: 15, Indels: 26
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.01
28 115 0.61
29 8 0.04
31 2 0.01
33 2 0.01
35 1 0.01
36 59 0.31
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.48
Consensus pattern (28 bp):
ATTTAATAATAATTATTTAACTTTAATG
Found at i:57920 original size:42 final size:41
Alignment explanation
Indices: 57869--58111 Score: 256
Period size: 42 Copynumber: 6.1 Consensus size: 41
57859 TATTTAAGTT
* * *
57869 TAATGATTTAATAATAATTACTTAACTTTAATGATTTAATAA
1 TAATTATTTAAT-ATAATGATTTAACTTTAATGATTTAATAA
*
57911 TAATTATTTAACTTTAATGATTTAACTTTAATGATTTAATAA
1 TAATTATTTAA-TATAATGATTTAACTTTAATGATTTAATAA
* * *
57953 TAATTACTTAACTTTAATGATTTAAATTTAATGATTTAATAA
1 TAATTATTTAA-TATAATGATTTAACTTTAATGATTTAATAA
*
57995 T-A--A-TTACT-TAATGATTTAACTTTAATGATTTAATAA
1 TAATTATTTAATATAATGATTTAACTTTAATGATTTAATAA
*
58031 T-A--A-TTACT-TAATGATTTAACTTTAATGATTTAATAA
1 TAATTATTTAATATAATGATTTAACTTTAATGATTTAATAA
* * *
58067 TAATTACTTGAATTTAATGATTTATA-TTTAATGATATAATAA
1 TAATTA-TTTAATATAATGATTTA-ACTTTAATGATTTAATAA
58109 TAA
1 TAA
58112 AAAATATATT
Statistics
Matches: 182, Mismatches: 11, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
36 64 0.35
37 2 0.01
38 3 0.02
39 2 0.01
41 4 0.02
42 105 0.58
43 2 0.01
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (41 bp):
TAATTATTTAATATAATGATTTAACTTTAATGATTTAATAA
Found at i:58056 original size:50 final size:50
Alignment explanation
Indices: 57938--58063 Score: 125
Period size: 50 Copynumber: 2.5 Consensus size: 50
57928 TGATTTAACT
* * * * *
57938 TTAATGATTTAA-TAATAATTACTTAACTTTAATGATTTAAATTTAATGAT
1 TTAATGATTTAACT-TTAATGATTTAACTTTAATGATTTAAATATAATGAC
* *
57988 TTAATAATAATT-AC-TTAATGATTTAACTTTAATGATTT-AATAATAATTAC
1 TTAATGAT--TTAACTTTAATGATTTAACTTTAATGATTTAAAT-ATAATGAC
58038 TTAATGATTTAACTTTAATGATTTAA
1 TTAATGATTTAACTTTAATGATTTAA
58064 TAATAATTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
48 2 0.03
49 5 0.08
50 52 0.84
51 1 0.02
52 2 0.03
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.48
Consensus pattern (50 bp):
TTAATGATTTAACTTTAATGATTTAACTTTAATGATTTAAATATAATGAC
Found at i:61110 original size:31 final size:31
Alignment explanation
Indices: 61072--61151 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
61062 TCATACCATG
*
61072 TGAAGAAGACGCCGAGTACTCCACCCCAATT
1 TGAAGAAGACGCCGAGTACTCCACCCCAAGT
61103 TGAAGAAGACGCCGAGTACTCCACCCCAAGT
1 TGAAGAAGACGCCGAGTACTCCACCCCAAGT
*
61134 TGAAGAAGACGCCTAGTA
1 TGAAGAAGACGCCGAGTA
61152 ATCCTCTAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.34, C:0.29, G:0.23, T:0.15
Consensus pattern (31 bp):
TGAAGAAGACGCCGAGTACTCCACCCCAAGT
Found at i:62712 original size:34 final size:35
Alignment explanation
Indices: 62665--62746 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 35
62655 ATAAAAGGTT
* * *
62665 TGATATATATAAATATCTGATAACTG-TAATCATC
1 TGATATCTGTAAATATCTGATAACTGAAAATCATC
* *
62699 TGATATCTGTAAATATTTGCTAACTGAAAATCATC
1 TGATATCTGTAAATATCTGATAACTGAAAATCATC
*
62734 TAATATCTGTAAA
1 TGATATCTGTAAA
62747 CATTTAGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 22 0.54
35 19 0.46
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (35 bp):
TGATATCTGTAAATATCTGATAACTGAAAATCATC
Found at i:62740 original size:35 final size:34
Alignment explanation
Indices: 62674--62751 Score: 102
Period size: 35 Copynumber: 2.3 Consensus size: 34
62664 TTGATATATA
* * *
62674 TAAATATCTGATAACTGTAATCATCTGATATCTG
1 TAAATATTTGATAACTGAAATCATCTAATATCTG
*
62708 TAAATATTTGCTAACTGAAAATCATCTAATATCTG
1 TAAATATTTGATAACTG-AAATCATCTAATATCTG
*
62743 TAAACATTT
1 TAAATATTT
62752 AGAATTCATC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
34 15 0.39
35 23 0.61
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.38
Consensus pattern (34 bp):
TAAATATTTGATAACTGAAATCATCTAATATCTG
Found at i:63544 original size:24 final size:24
Alignment explanation
Indices: 63512--63565 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
63502 CTTTAGGCTA
63512 GAGTCACAACTCACATAACATTAG
1 GAGTCACAACTCACATAACATTAG
63536 GAGTCACAACTCACATAACATTAG
1 GAGTCACAACTCACATAACATTAG
63560 GAGTCA
1 GAGTCA
63566 TTTCTTATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (24 bp):
GAGTCACAACTCACATAACATTAG
Found at i:65527 original size:29 final size:30
Alignment explanation
Indices: 65467--65528 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
65457 TTTTTGGTCC
*
65467 CTAAACTTTTCAAAATTTATACTTTAGCCA
1 CTAAACTTTTCAAAATTTATACTTTAACCA
* *
65497 CTAAACTTTT-AGAAA-TTATATTTTAATCA
1 CTAAACTTTTCA-AAATTTATACTTTAACCA
65526 CTA
1 CTA
65529 GTCAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (30 bp):
CTAAACTTTTCAAAATTTATACTTTAACCA
Found at i:71169 original size:11 final size:11
Alignment explanation
Indices: 71149--71178 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
71139 AACAAAGAGG
71149 AAAAAAAGAAA
1 AAAAAAAGAAA
71160 AAAAAAAGAAA
1 AAAAAAAGAAA
71171 ACAAAAAA
1 A-AAAAAA
71179 AGAAGACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.90, C:0.03, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:71170 original size:19 final size:19
Alignment explanation
Indices: 71132--71171 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
71122 AAAATAAAAG
* * *
71132 AAAAAGAAACAAAGAGGAA
1 AAAAAGAAAAAAAAAAGAA
71151 AAAAAGAAAAAAAAAAGAA
1 AAAAAGAAAAAAAAAAGAA
71170 AA
1 AA
71172 CAAAAAAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAAAAAAGAA
Found at i:71171 original size:16 final size:16
Alignment explanation
Indices: 71152--71190 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
71142 AAAGAGGAAA
71152 AAAAGAAAAAAAAAAG
1 AAAAGAAAAAAAAAAG
* *
71168 AAAACAAAAAAAGAAG
1 AAAAGAAAAAAAAAAG
*
71184 ACAAGAA
1 AAAAGAA
71191 GCACATACAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAAAG
Found at i:71176 original size:13 final size:13
Alignment explanation
Indices: 71149--71187 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
71139 AACAAAGAGG
71149 AAAAAAAG-AAA-
1 AAAAAAAGAAAAC
71160 AAAAAAAGAAAAC
1 AAAAAAAGAAAAC
*
71173 AAAAAAAGAAGAC
1 AAAAAAAGAAAAC
71186 AA
1 AA
71188 GAAGCACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 8 0.32
12 3 0.12
13 14 0.56
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAC
Found at i:72283 original size:32 final size:32
Alignment explanation
Indices: 72221--72284 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
72211 AAGAAACGAT
* *
72221 GAATGATGGGGCATCTTTGGAGATTTAACATC
1 GAATGATGGGGCATCTTTAGAGATTCAACATC
*
72253 GAATGTTGGGGCATCTTTCAG-GATTCAACATC
1 GAATGATGGGGCATCTTT-AGAGATTCAACATC
72285 TTGATATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (32 bp):
GAATGATGGGGCATCTTTAGAGATTCAACATC
Found at i:72550 original size:65 final size:64
Alignment explanation
Indices: 72355--72575 Score: 216
Period size: 65 Copynumber: 3.5 Consensus size: 64
72345 ATCAGTATAC
* * * * * *
72355 TTTGAG-TTGTTTCTCTT-GAAAC-AAATATTG-TCTCTTGGGACAGTTTCTTTTTAAAAAAAAA
1 TTTGAGTTTGTTTCT-TTGGAAACAAAATTTTGTTCTCTTGAGACAATTTCTTTTGAGAAAAATA
* * * * * * * *
72416 ATTGAGTATGTTTATCTGGAAACAAAGTTTTATTTCTCTTGAGGCAATTTCTTTTGCGAAAAATA
1 TTTGAGTTTGTTTCTTTGGAAACAAAATTTT-GTTCTCTTGAGACAATTTCTTTTGAGAAAAATA
* * *
72481 TTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACATTTTCTTTTGAGAAAAGTC
1 TTTGAGTTTGTTTCTTTGGAAACAAAATTTTGT-TCTCTTGAGACAATTTCTTTTGAGAAAAATA
**
72546 TTTGAGACTGTTTCTTTGGAAACAAAATTT
1 TTTGAGTTTGTTTCTTTGGAAACAAAATTT
72576 ACCATCTTTG
Statistics
Matches: 127, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
61 6 0.05
62 11 0.09
63 5 0.04
64 1 0.01
65 104 0.82
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.43
Consensus pattern (64 bp):
TTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTTCTCTTGAGACAATTTCTTTTGAGAAAAATA
Found at i:72594 original size:36 final size:35
Alignment explanation
Indices: 72544--72642 Score: 110
Period size: 35 Copynumber: 2.8 Consensus size: 35
72534 TTGAGAAAAG
* ** *
72544 TCTTTGAGACTGTTT-CTTTGGAAACAAAATTTACCA
1 TCTTTGAGATTGTTTCCTTT-GAAACAAAA-CAAACA
* *
72580 TCTTTGAGTTTGTTTCCCTTGAAACAAAACAAACA
1 TCTTTGAGATTGTTTCCTTTGAAACAAAACAAACA
*
72615 TCTTTGAGATCGTTTCCTTTGAAACAAA
1 TCTTTGAGATTGTTTCCTTTGAAACAAA
72643 TTTTGTCTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
35 28 0.53
36 22 0.42
37 3 0.06
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (35 bp):
TCTTTGAGATTGTTTCCTTTGAAACAAAACAAACA
Found at i:72915 original size:133 final size:131
Alignment explanation
Indices: 72714--73107 Score: 474
Period size: 133 Copynumber: 3.0 Consensus size: 131
72704 CCATTATCCT
* * * * *
72714 TAAAGATGGCCTGCCATCCTCATCACGTAGGAACCGTATCATC-CCCCGACCAGACCTCCTCATC
1 TAAAGATGG-CTGTCGTCCTTATCGCGTAGGAACCGTGTCATCTCCCCGACCAGACCTCCTCATC
** ** * * *
72778 ACGTAAGAGTTGTGTCACCTTTAGATAATCAGTCATCCTCATCACATAGGAACCGTGTTATCATC
65 ACGTAAGAGCCGTGTCACCCATAGATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCATC
72843 AC
130 AC
*
72845 TAAAAGATGGCATGTCGTCCTTATCGCGTAGGAACCGTGTCATCTCCCCGACCAGGCCTCCTCAT
1 T-AAAGATGGC-TGTCGTCCTTATCGCGTAGGAACCGTGTCATCTCCCCGACCAGACCTCCTCAT
* * * *
72910 CACGTAGGTGCCGTGTCACCCATAGATAACCAGTTGTCCTCATCACGTAGGAACCATGTTATCAT
64 CACGTAAGAGCCGTGTCACCCATAGATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCA-
72975 TC-C
128 TCAC
* * * *
72978 TAAAGATGGTCTGTTGTCCTTATCGCATAGGAACCATGTCA--TCCCCTACCAGACCTCCTCATC
1 TAAAGATGG-CTGTCGTCCTTATCGCGTAGGAACCGTGTCATCTCCCCGACCAGACCTCCTCATC
* * * * *
73041 ATGTAAGAGCCGTGTCACCCCTAGATAACCAGTCGTCCTTATCGCGTAGGAACCGTGTTGTCA-C
65 ACGTAAGAGCCGTGTCACCCATAGATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCATC
73105 AC
130 AC
73107 T
1 T
73108 CCCTAAAGAT
Statistics
Matches: 226, Mismatches: 31, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
128 1 0.00
129 2 0.01
130 74 0.33
131 2 0.01
132 70 0.31
133 75 0.33
134 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (131 bp):
TAAAGATGGCTGTCGTCCTTATCGCGTAGGAACCGTGTCATCTCCCCGACCAGACCTCCTCATCA
CGTAAGAGCCGTGTCACCCATAGATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCATCA
C
Found at i:74560 original size:20 final size:19
Alignment explanation
Indices: 74531--74573 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
74521 TCAAAGGTTA
*
74531 TTTTTACTTT-TGGTTTTAT
1 TTTTTACTTTAT-ATTTTAT
74550 TTTTTAGCTTTATATTTTAT
1 TTTTTA-CTTTATATTTTAT
74570 TTTT
1 TTTT
74574 ATTTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 14 0.67
21 1 0.05
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (19 bp):
TTTTTACTTTATATTTTAT
Found at i:75328 original size:28 final size:26
Alignment explanation
Indices: 75277--75346 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 26
75267 TATTTTTAAG
* *
75277 TAAATAAATATCTTATTTATAAAAATC
1 TAAA-AAATATATTATTTATAAAAATA
75304 TAAAAAATATATATATTTATTAAAAATA
1 TAAAAAATATAT-TATTTA-TAAAAATA
75332 TAAAATTAATATATT
1 TAAAA--AATATATT
75347 TTCTTGAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 7 0.19
27 10 0.27
28 12 0.32
29 1 0.03
30 7 0.19
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (26 bp):
TAAAAAATATATTATTTATAAAAATA
Found at i:75336 original size:26 final size:26
Alignment explanation
Indices: 75277--75347 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 26
75267 TATTTTTAAG
*
75277 TAAATAAATATCT-TATTTATAAAAATC
1 TAAA-AAATATATATATTTATAAAAA-C
75304 TAAAAAATATATATATTTATTAAAAA-
1 TAAAAAATATATATATTTA-TAAAAAC
*
75330 TATAAAAT-TAATATATTT
1 TAAAAAATAT-ATATATTT
75348 TCTTGAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 1 0.03
26 22 0.56
27 10 0.26
28 6 0.15
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAAAAATATATATATTTATAAAAAC
Found at i:76566 original size:24 final size:24
Alignment explanation
Indices: 76536--76583 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
76526 TCTATTTATA
76536 GATACATTTTATTTTGCTTTAACT
1 GATACATTTTATTTTGCTTTAACT
76560 GATACATTTTATTTTGCTTTAACT
1 GATACATTTTATTTTGCTTTAACT
76584 TGTTTATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.54
Consensus pattern (24 bp):
GATACATTTTATTTTGCTTTAACT
Found at i:77482 original size:20 final size:20
Alignment explanation
Indices: 77459--77505 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
77449 TATTCACATC
* *
77459 TTTGCATTTTTATGTTTGTA
1 TTTGCATTTTCATGTTTGCA
*
77479 TTTGCATTTTCATTTTTGCA
1 TTTGCATTTTCATGTTTGCA
77499 TTTGCAT
1 TTTGCAT
77506 CTTTGCATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.11, G:0.13, T:0.62
Consensus pattern (20 bp):
TTTGCATTTTCATGTTTGCA
Found at i:77496 original size:14 final size:14
Alignment explanation
Indices: 77479--77513 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
77469 TATGTTTGTA
* *
77479 TTTGCATTTTCATT
1 TTTGCATTTGCATC
77493 TTTGCATTTGCATC
1 TTTGCATTTGCATC
77507 TTTGCAT
1 TTTGCAT
77514 AGTTACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.14, C:0.17, G:0.11, T:0.57
Consensus pattern (14 bp):
TTTGCATTTGCATC
Found at i:78016 original size:24 final size:24
Alignment explanation
Indices: 77984--78039 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
77974 TCATTCAGAA
77984 CGATCAAGGAAAGTGAAAATCTCT
1 CGATCAAGGAAAGTGAAAATCTCT
78008 CGATCAAGGAAAGTGAAAATCTCT
1 CGATCAAGGAAAGTGAAAATCTCT
78032 CGATCAAG
1 CGATCAAG
78040 AAAAACTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (24 bp):
CGATCAAGGAAAGTGAAAATCTCT
Found at i:79490 original size:8 final size:8
Alignment explanation
Indices: 79424--79479 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
79414 CATTCATCAT
79424 AAAAAAAG
1 AAAAAAAG
79432 AAAAAAAG
1 AAAAAAAG
* *
79440 AGAAAAGG
1 AAAAAAAG
*
79448 AAAATATA-
1 AAAA-AAAG
*
79456 AAAAAATG
1 AAAAAAAG
79464 AAAAAAAAG
1 -AAAAAAAG
79473 AAAAAAA
1 AAAAAAA
79480 AAAGAAAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
7 1 0.03
8 28 0.76
9 8 0.22
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (8 bp):
AAAAAAAG
Found at i:82000 original size:73 final size:73
Alignment explanation
Indices: 81763--82384 Score: 1081
Period size: 73 Copynumber: 8.6 Consensus size: 73
81753 GGATGTTTTC
81763 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
81828 TTCACTTG
66 TTCACTTG
* *
81836 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAA-AAAA-ATTTCTCGTTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
81899 TTCACTTG
66 TTCACTTG
81907 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
81972 TTCACTTG
66 TTCACTTG
* *
81980 AAATAGCAATTTATCACACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTAGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
82045 TTCACTTG
66 TTCACTTG
*
82053 AAATAGCAATTTATCTCACTTGAGATTATTTTTCTTAAAA-AAAATGTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
82117 TTCACTTG
66 TTCACTTG
*
82125 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
82190 TTCACTTG
66 TTCACTTG
* *
82198 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTT-AAACAAATTGTTTCTCGCTAGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
82262 TTCACTTG
66 TTCACTTG
* * * *
82270 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTTAAACAAACTATTTCTCGTTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
*
82335 TTCACTCG
66 TTCACTTG
* *
82343 AAATAGCAATTTATCTCACTTGGGATTATTTTTCTTAAAACA
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
82385 TTTCCAGAAG
Statistics
Matches: 525, Mismatches: 20, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
71 65 0.12
72 149 0.28
73 311 0.59
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (73 bp):
AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
TTCACTTG
Found at i:82155 original size:145 final size:146
Alignment explanation
Indices: 81763--82384 Score: 1081
Period size: 145 Copynumber: 4.3 Consensus size: 146
81753 GGATGTTTTC
81763 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
*
81828 TTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAA-AAAA-ATTTCTCGTTG
66 TTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATATTTCTCGCTG
81891 GAGAAAGTTTCACTTG
131 GAGAAAGTTTCACTTG
81907 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
* * *
81972 TTCACTTGAAATAGCAATTTATCACACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTA
66 TTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATATTTCTCGCTG
82037 GAGAAAGTTTCACTTG
131 GAGAAAGTTTCACTTG
*
82053 AAATAGCAATTTATCTCACTTGAGATTATTTTTCTTAAAA-AAAATGTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
* *
82117 TTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTTTCTCGCTG
66 TTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATATTTCTCGCTG
82182 GAGAAAGTTTCACTTG
131 GAGAAAGTTTCACTTG
* *
82198 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTT-AAACAAATTGTTTCTCGCTAGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
* * *
82262 TTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTTAAACAAACTATTTCTCGTTG
66 TTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATATTTCTCGCTG
*
82327 GAGAAAGTTTCACTCG
131 GAGAAAGTTTCACTTG
* *
82343 AAATAGCAATTTATCTCACTTGGGATTATTTTTCTTAAAACA
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
82385 TTTCCAGAAG
Statistics
Matches: 456, Mismatches: 18, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
144 115 0.25
145 273 0.60
146 68 0.15
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (146 bp):
AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
TTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATATTTCTCGCTG
GAGAAAGTTTCACTTG
Found at i:82207 original size:218 final size:218
Alignment explanation
Indices: 81763--82384 Score: 1113
Period size: 218 Copynumber: 2.9 Consensus size: 218
81753 GGATGTTTTC
*
81763 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTAGAGAAAGT
81828 TTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAAAAAA-ATTTCTCGTTGG
66 TTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAAAAAATATTTCTCGTTGG
81892 AGAAAGTTTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTT
131 AGAAAGTTTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTT
81957 CTCGCTGGAGAAAGTTTCACTTG
196 CTCGCTGGAGAAAGTTTCACTTG
*
81980 AAATAGCAATTTATCACACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTAGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTAGAGAAAGT
* * *
82045 TTCACTTGAAATAGCAATTTATCTCACTTGAGATTATTTTTCTTAAAAAAAATGTTTCTCGCTGG
66 TTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAAAAAATATTTCTCGTTGG
*
82110 AGAAAGTTTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTGTTT
131 AGAAAGTTTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTT
82175 CTCGCTGGAGAAAGTTTCACTTG
196 CTCGCTGGAGAAAGTTTCACTTG
*
82198 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTT-AAACAAATTGTTTCTCGCTAGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTAGAGAAAGT
* *
82262 TTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTTAAACAAACTATTTCTCGTTG
66 TTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTC-TTAAAAAAAATATTTCTCGTTG
* * *
82327 GAGAAAGTTTCACTCGAAATAGCAATTTATCTCACTTGGGATTATTTTTCTTAAAACA
130 GAGAAAGTTTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
82385 TTTCCAGAAG
Statistics
Matches: 387, Mismatches: 16, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
217 182 0.47
218 205 0.53
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (218 bp):
AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTTCTCGCTAGAGAAAGT
TTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAAAAAATATTTCTCGTTGG
AGAAAGTTTCACTTGAAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATGTTT
CTCGCTGGAGAAAGTTTCACTTG
Found at i:82485 original size:39 final size:38
Alignment explanation
Indices: 82390--82757 Score: 478
Period size: 39 Copynumber: 9.7 Consensus size: 38
82380 AAACATTTCC
82390 AGAAGGAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGA
1 AGAA-GAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGA
*
82429 AG--GAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
1 AGAAGAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGA
* * **
82465 AGAATGAGTTCATAATCTGAAGAACTCGTTTGAAGATAA
1 AGAA-GAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGA
82504 AGAAGGAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGA
1 AGAA-GAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGA
82543 AG--GAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGA
1 AGAAGAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGA
* * * **
82579 AG--GAGTTCATAATCTGAAGAACTCGCCTAAAGACAA
1 AGAAGAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGA
82615 AGAAGGAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGA
1 AGAA-GAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGA
* * *
82654 AGAAGAAGTTCATAGTCTGAAGAACTCATATGAAGAAGA
1 AGAAG-AGTTCATAGTCTGAAGAACTCGTCTGAAGAGGA
* *
82693 AGAATGAGTTCATAATCTGAAGAACTCATCTGAAGAGGA
1 AGAA-GAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGA
* *
82732 AGAAAAAATTCATAGTCTGAAGAACT
1 AG-AAGAGTTCATAGTCTGAAGAACT
82758 TATTTAACCT
Statistics
Matches: 292, Mismatches: 28, Indels: 18
0.86 0.08 0.05
Matches are distributed among these distances:
36 102 0.35
38 1 0.00
39 186 0.64
40 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (38 bp):
AGAAGAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGA
Found at i:82618 original size:150 final size:152
Alignment explanation
Indices: 82390--82733 Score: 530
Period size: 150 Copynumber: 2.3 Consensus size: 152
82380 AAACATTTCC
*
82390 AGAAGGAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGAAGGAGTTCATAATCTGAAGAACTCGT
1 AGAAGGAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGAAGGAGTTCATAATCTGAAGAACTCGC
* ** * * * *
82455 CTGAAGAGGAAGAATGAGTTCATAATCTGAAGAACTCGTTTGAAGATAAAGAAGGAGTTCATAGT
66 CTAAAGACAAAGAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGAAAGAAGAAGTTCATAGT
* *
82520 CTGAAGAACTCGTCTGAAG-AG
131 CTGAAGAACTCATATGAAGAAG
82541 -GAAGGAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGAAGGAGTTCATAATCTGAAGAACTCGC
1 AGAAGGAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGAAGGAGTTCATAATCTGAAGAACTCGC
* *
82605 CTAAAGACAAAGAAGGAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGAAGAAGAAGTTCATAGT
66 CTAAAGACAAAGAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGAAAGAAGAAGTTCATAGT
82670 CTGAAGAACTCATATGAAGAAG
131 CTGAAGAACTCATATGAAGAAG
* * *
82692 AAGAATGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAG
1 -AGAAGGAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGAAG
82734 AAAAAATTCA
Statistics
Matches: 175, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
150 136 0.78
151 2 0.01
153 37 0.21
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (152 bp):
AGAAGGAGTTCATAGTCTGAAGAACTCGTCTGAAGAGGAAGGAGTTCATAATCTGAAGAACTCGC
CTAAAGACAAAGAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGAAAGAAGAAGTTCATAGT
CTGAAGAACTCATATGAAGAAG
Found at i:83009 original size:122 final size:122
Alignment explanation
Indices: 82693--83013 Score: 437
Period size: 123 Copynumber: 2.6 Consensus size: 122
82683 ATGAAGAAGA
** * *
82693 AGAATGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAGAAAAAATTCATAGTCTGAAGAACT
1 AGAA-GAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATCTGAAGAACT
* *
82758 TATTTAACCTTTTGCTTGACTCTATTGCAGAAGGAGATAGAACAATATCAACATTTCC
65 TATTCAACCTTTTGCTTGACTCTATCGCAGAAGGAGATAGAACAATATCAACATTTCC
* * *
82816 TGAAGAAGTTCGTAATAAGAAGAACTCGTCTGAAGAGGAAGAAAAAGTTCATAATCTGAAGAACT
1 AGAAG-AGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATCTGAAGAACT
* ***
82881 TATTCAACCTTTTGCTTGATTCTATCGCAGAAGGAGATAGAAC-ATCATCTGTATTTCC
65 TATTCAACCTTTTGCTTGACTCTATCGCAGAAGGAGATAGAACAAT-ATCAACATTTCC
* * * **
82939 AGAAGAGTTCATAATGAGAAGAACTAATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTT
1 AGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATCTGAAGAACTT
*
83004 GTTCAACCTT
66 ATTCAACCTT
83014 AGATTGATTC
Statistics
Matches: 174, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
122 65 0.37
123 109 0.63
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.27
Consensus pattern (122 bp):
AGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATCTGAAGAACTT
ATTCAACCTTTTGCTTGACTCTATCGCAGAAGGAGATAGAACAATATCAACATTTCC
Found at i:83182 original size:39 final size:39
Alignment explanation
Indices: 83082--83183 Score: 159
Period size: 39 Copynumber: 2.6 Consensus size: 39
83072 TTTTCAAAGG
* * * *
83082 AAGTTCATAATGAGATGAACTTATCTGGAGAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTTGTCTGAAGAGGAAGAAA
*
83121 AATTTCATAATGAGAAGAACTTGTCTGAAGAGGAAGAAA
1 AAGTTCATAATGAGAAGAACTTGTCTGAAGAGGAAGAAA
83160 AAGTTCATAATGAGAAGAACTTGT
1 AAGTTCATAATGAGAAGAACTTGT
83184 TTAACCTTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.25
Consensus pattern (39 bp):
AAGTTCATAATGAGAAGAACTTGTCTGAAGAGGAAGAAA
Found at i:83716 original size:31 final size:29
Alignment explanation
Indices: 83659--83717 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
83649 CTTCTACCCA
**
83659 CAAAAGCAGCCCCTCCACGTTTCAACAAG
1 CAAAAGCAGCCCCTCCACGTACCAACAAG
83688 CAAAAGCAGCCCCTCTACACGTACCAACAA
1 CAAAAGCAGCCCCTC--CACGTACCAACAA
83718 CAACCACACG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.58
31 11 0.42
ACGTcount: A:0.37, C:0.39, G:0.12, T:0.12
Consensus pattern (29 bp):
CAAAAGCAGCCCCTCCACGTACCAACAAG
Found at i:84680 original size:26 final size:27
Alignment explanation
Indices: 84659--84716 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
84649 ATAAATTTCT
*
84659 TATTTA-TAAAAATCTAAAAAATTATA
1 TATTTATTAAAAATATAAAAAATTATA
84685 TATTTATTAAAAATAT-AAAAATTAATA
1 TATTTATTAAAAATATAAAAAATT-ATA
84712 TATTT
1 TATTT
84717 TCTTGAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 13 0.45
27 16 0.55
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (27 bp):
TATTTATTAAAAATATAAAAAATTATA
Found at i:85877 original size:30 final size:30
Alignment explanation
Indices: 85843--86064 Score: 162
Period size: 30 Copynumber: 7.3 Consensus size: 30
85833 ACCTGATTTT
*
85843 TTTTAGTCCCTTAAGTTTATGTTTTTTCTA
1 TTTTAGTCCCTTAAATTTATGTTTTTTCTA
*
85873 TTTTAGTCCCTTAAATTTAT-TTTTTTGTAA
1 TTTTAGTCCCTTAAATTTATGTTTTTTCT-A
* * * *
85903 TTTTAGTCCCTTAAATGTCTATTTTTACTA
1 TTTTAGTCCCTTAAATTTATGTTTTTTCTA
* * * *
85933 TTTTAGTCCTTTAAATTTCTGTTTATGCTA
1 TTTTAGTCCCTTAAATTTATGTTTTTTCTA
* *
85963 TTTTAATCCCTTAAGTTT-TGGTTTTTTTTGCTA
1 TTTTAGTCCCTTAAATTTAT-G--TTTTTT-CTA
* * * * *
85996 -TTTAGTTCTTTCAATTTTTGTTTTTACTA
1 TTTTAGTCCCTTAAATTTATGTTTTTTCTA
** * * *
86025 TTTTAGTCTTTTAAGTTTCTTTTTTTTTCTA
1 TTTTAGTCCCTTAAATTT-ATGTTTTTTCTA
*
86056 TTTTGGTCC
1 TTTTAGTCC
86065 TTTTAAATAG
Statistics
Matches: 153, Mismatches: 30, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
29 11 0.07
30 98 0.64
31 23 0.15
32 17 0.11
33 4 0.03
ACGTcount: A:0.18, C:0.13, G:0.09, T:0.61
Consensus pattern (30 bp):
TTTTAGTCCCTTAAATTTATGTTTTTTCTA
Found at i:86025 original size:29 final size:30
Alignment explanation
Indices: 85987--86058 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
85977 GTTTTGGTTT
*
85987 TTTTTGCTATTTAGTTCTTTCAA-TTT-TTG
1 TTTTTACTATTTAG-TCTTTCAAGTTTCTTG
* *
86016 TTTTTACTATTTTAGTCTTTTAAGTTTCTTT
1 TTTTTACTA-TTTAGTCTTTCAAGTTTCTTG
*
86047 TTTTTTCTATTT
1 TTTTTACTATTT
86059 TGGTCCTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 15 0.42
30 11 0.31
31 10 0.28
ACGTcount: A:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (30 bp):
TTTTTACTATTTAGTCTTTCAAGTTTCTTG
Found at i:113411 original size:19 final size:19
Alignment explanation
Indices: 113368--113419 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
113358 AAATAACCAA
* *
113368 CAAATTCGCAACGTGATCG
1 CAAATTCGCAACATGAACG
*
113387 CAAATTCGCAACATGAACTC
1 CAAATTCGCAACATGAAC-G
*
113407 CAATTTCGCAACA
1 CAAATTCGCAACA
113420 CAGTTTCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.37, C:0.29, G:0.13, T:0.21
Consensus pattern (19 bp):
CAAATTCGCAACATGAACG
Found at i:113428 original size:20 final size:20
Alignment explanation
Indices: 113387--113582 Score: 148
Period size: 20 Copynumber: 9.7 Consensus size: 20
113377 AACGTGATCG
* **
113387 CAAATTCGCAACATGAACTC
1 CAAATTCGCAACACGATTTC
*
113407 CAATTTCGCAACAC-AGTTTC
1 CAAATTCGCAACACGA-TTTC
113427 CAAATTCGCAACACGGAATTT-
1 CAAATTCGCAACAC-G-ATTTC
* *
113448 CGAATTCGCAACTCGATTTC
1 CAAATTCGCAACACGATTTC
* * *
113468 TAAATTCGCAACGCGATTTT
1 CAAATTCGCAACACGATTTC
**
113488 CAAATTCGCAACACGAACTC
1 CAAATTCGCAACACGATTTC
* *
113508 CAATTTCGCAACGC-AGTTTC
1 CAAATTCGCAACACGA-TTTC
113528 CAAATTCGCAACACGAAATTT-
1 CAAATTCGCAACACG--ATTTC
* * *
113549 CAAATTAGCAACGCGATTTT
1 CAAATTCGCAACACGATTTC
* *
113569 TAAATTCACAACAC
1 CAAATTCGCAACAC
113583 AAGTTTCCTT
Statistics
Matches: 138, Mismatches: 28, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
19 10 0.07
20 95 0.69
21 25 0.18
22 6 0.04
23 2 0.01
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (20 bp):
CAAATTCGCAACACGATTTC
Found at i:113516 original size:40 final size:40
Alignment explanation
Indices: 113411--113582 Score: 168
Period size: 41 Copynumber: 4.2 Consensus size: 40
113401 GAACTCCAAT
* * * *
113411 TTCGCAACAC-AGTTTCCAAATTCGCAACACGGAATTTCGAA
1 TTCGCAACACGA-ATTCCAAATTCGCAACGC-GATTTTCAAA
* * *
113452 TTCGCAACTCGATTTCTAAATTCGCAACGCGATTTTCAAA
1 TTCGCAACACGAATTCCAAATTCGCAACGCGATTTTCAAA
* * *
113492 TTCGCAACACGAACTCCAATTTCGCAACGC-AGTTTCCAAA
1 TTCGCAACACGAATTCCAAATTCGCAACGCGA-TTTTCAAA
* * *
113532 TTCGCAACACGAAATTTCAAATTAGCAACGCGATTTTTAAA
1 TTCGCAACACG-AATTCCAAATTCGCAACGCGATTTTCAAA
*
113573 TTCACAACAC
1 TTCGCAACAC
113583 AAGTTTCCTT
Statistics
Matches: 109, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 51 0.47
41 55 0.50
42 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (40 bp):
TTCGCAACACGAATTCCAAATTCGCAACGCGATTTTCAAA
Found at i:113566 original size:101 final size:100
Alignment explanation
Indices: 113369--113580 Score: 316
Period size: 101 Copynumber: 2.1 Consensus size: 100
113359 AATAACCAAC
* *
113369 AAATTCGCAACGTGATCGCAAATTCGCAACATGAACTCCAATTTCGCAACACAGTTTCCAAATTC
1 AAATTCGCAACGCGATCGCAAATTCGCAACACGAACTCCAATTTCGCAACACAGTTTCCAAATTC
* * * *
113434 GCAACACGGAATTTCGAATTCGCAACTCGATTTCT
66 GCAACACGAAATTTCAAATTAGCAACGCGATTTCT
** *
113469 AAATTCGCAACGCGATTTTCAAATTCGCAACACGAACTCCAATTTCGCAACGCAGTTTCCAAATT
1 AAATTCGCAACGCGA-TCGCAAATTCGCAACACGAACTCCAATTTCGCAACACAGTTTCCAAATT
*
113534 CGCAACACGAAATTTCAAATTAGCAACGCGATTTTT
65 CGCAACACGAAATTTCAAATTAGCAACGCGATTTCT
*
113570 AAATTCACAAC
1 AAATTCGCAAC
113581 ACAAGTTTCC
Statistics
Matches: 100, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 14 0.14
101 86 0.86
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (100 bp):
AAATTCGCAACGCGATCGCAAATTCGCAACACGAACTCCAATTTCGCAACACAGTTTCCAAATTC
GCAACACGAAATTTCAAATTAGCAACGCGATTTCT
Found at i:113609 original size:20 final size:21
Alignment explanation
Indices: 113563--113629 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 21
113553 TTAGCAACGC
113563 GATTTT-TAAATTCACAACACA
1 GATTTTCT-AATTCACAACACA
* *
113584 -AGTTTCCT-TTTCACAACA-A
1 GA-TTTTCTAATTCACAACACA
*
113603 GATTTTCTAATTCACAACATA
1 GATTTTCTAATTCACAACACA
113624 GATTTT
1 GATTTT
113630 GTTTTCGCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
19 6 0.16
20 20 0.54
21 10 0.27
22 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.39
Consensus pattern (21 bp):
GATTTTCTAATTCACAACACA
Found at i:113697 original size:18 final size:20
Alignment explanation
Indices: 113653--113700 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
113643 GATTTCCGAA
113653 TTTGCAACACGAATTTTAAT
1 TTTGCAACACGAATTTTAAT
* * *
113673 TTCGCAACA-GCA-TTTATT
1 TTTGCAACACGAATTTTAAT
113691 TTTGCAACAC
1 TTTGCAACAC
113701 AAATGTTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 13 0.57
19 2 0.09
20 8 0.35
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
TTTGCAACACGAATTTTAAT
Found at i:114213 original size:74 final size:74
Alignment explanation
Indices: 114129--114278 Score: 300
Period size: 74 Copynumber: 2.0 Consensus size: 74
114119 AACTCTAATG
114129 TTACGTGTTTCAAAGAAATTGAATTTAGAGCCTCTAAGTGGATTTAGGCTATCTTATCAGAGAAA
1 TTACGTGTTTCAAAGAAATTGAATTTAGAGCCTCTAAGTGGATTTAGGCTATCTTATCAGAGAAA
114194 ATGTAAAGT
66 ATGTAAAGT
114203 TTACGTGTTTCAAAGAAATTGAATTTAGAGCCTCTAAGTGGATTTAGGCTATCTTATCAGAGAAA
1 TTACGTGTTTCAAAGAAATTGAATTTAGAGCCTCTAAGTGGATTTAGGCTATCTTATCAGAGAAA
114268 ATGTAAAGT
66 ATGTAAAGT
114277 TT
1 TT
114279 TATTTGTTAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (74 bp):
TTACGTGTTTCAAAGAAATTGAATTTAGAGCCTCTAAGTGGATTTAGGCTATCTTATCAGAGAAA
ATGTAAAGT
Found at i:114686 original size:24 final size:24
Alignment explanation
Indices: 114659--114726 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
114649 GTGAGTACTA
*
114659 GTCAATATTCGAAATTTGATCTTG
1 GTCAATACTCGAAATTTGATCTTG
* * *
114683 GTCAATACCCGGACTTTGATCTTG
1 GTCAATACTCGAAATTTGATCTTG
*
114707 GTCAATACTCGAATTTTGAT
1 GTCAATACTCGAAATTTGAT
114727 GATGTTTCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (24 bp):
GTCAATACTCGAAATTTGATCTTG
Found at i:117010 original size:12 final size:12
Alignment explanation
Indices: 116995--117023 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
116985 AGAAAAAAGA
116995 AATCAAAATCGC
1 AATCAAAATCGC
117007 AATCAAAATCGC
1 AATCAAAATCGC
117019 AATCA
1 AATCA
117024 CAACCACCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.24, G:0.07, T:0.17
Consensus pattern (12 bp):
AATCAAAATCGC
Found at i:117319 original size:20 final size:20
Alignment explanation
Indices: 117276--117354 Score: 86
Period size: 20 Copynumber: 4.0 Consensus size: 20
117266 TTCGCAACTC
* * * *
117276 AAATTCGCAACTCGATATTC
1 AAATTCGCAACGCGAAAATA
117296 AAATTCGCAACGCGAAAATA
1 AAATTCGCAACGCGAAAATA
* *
117316 AAATTCGTAACACGAAAATA
1 AAATTCGCAACGCGAAAATA
* *
117336 AAATTCACGACGCGAAAAT
1 AAATTCGCAACGCGAAAAT
117355 CGCGTTGCGA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (20 bp):
AAATTCGCAACGCGAAAATA
Found at i:119516 original size:64 final size:63
Alignment explanation
Indices: 119441--119601 Score: 171
Period size: 64 Copynumber: 2.5 Consensus size: 63
119431 TCTTTAACAT
* * * * * * *
119441 GTGCATTGATGCACTACCCATGCATCAATACACTAATCACCTTCGATGTTTTCA-TTTTAAGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACCAATCACATTCGATGTTTCCATTTTTAAGAG
* * **
119504 GATGCATCGATGCACTCCTTATGTATCGATGCACCAATTGCATTCGATGTTTCCATTTTTAAGAG
1 G-TGCATCGATGCACTCC-TATGCATCGATACACCAATCACATTCGATGTTTCCATTTTTAAGAG
*
119569 GTGCATCGATGCACTTCCTGTGCATCGATACAC
1 GTGCATCGATGCAC-TCCTATGCATCGATACAC
119602 ACTGAATAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
63 3 0.04
64 65 0.81
65 12 0.15
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACCAATCACATTCGATGTTTCCATTTTTAAGAG
Found at i:121454 original size:21 final size:21
Alignment explanation
Indices: 121429--121560 Score: 90
Period size: 21 Copynumber: 6.3 Consensus size: 21
121419 TGAATGCCAT
*
121429 GTGGATCTTGAACGGTGGGAG
1 GTGGATCTTGAACGATGGGAG
*
121450 GTGGATCCTGAACGATGGGAG
1 GTGGATCTTGAACGATGGGAG
* **
121471 ATGCCTCTTGAACGAT--GAG
1 GTGGATCTTGAACGATGGGAG
* * ** *
121490 ATGAACCTCTTGAACGATGACAT
1 GTGGA--TCTTGAACGATGGGAG
* *
121513 GTGAATCTTGAACAAT-GGAG
1 GTGGATCTTGAACGATGGGAG
* * *
121533 GTGGATCCTGAACAATGGTAG
1 GTGGATCTTGAACGATGGGAG
121554 GTGGATC
1 GTGGATC
121561 GGGCTTTTTC
Statistics
Matches: 88, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
19 6 0.07
20 15 0.17
21 62 0.70
23 5 0.06
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (21 bp):
GTGGATCTTGAACGATGGGAG
Found at i:121546 original size:20 final size:21
Alignment explanation
Indices: 121521--121560 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
121511 ATGTGAATCT
121521 TGAACAATGG-AGGTGGATCC
1 TGAACAATGGTAGGTGGATCC
121541 TGAACAATGGTAGGTGGATC
1 TGAACAATGGTAGGTGGATC
121561 GGGCTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.30, C:0.12, G:0.35, T:0.23
Consensus pattern (21 bp):
TGAACAATGGTAGGTGGATCC
Found at i:121859 original size:21 final size:21
Alignment explanation
Indices: 121835--121928 Score: 68
Period size: 21 Copynumber: 4.5 Consensus size: 21
121825 AGAAACAATC
* *
121835 TCACGTAGAGCAGCTACCTCA
1 TCACGTAAAGCAGATACCTCA
*
121856 TCACGTAAAGCAGATACCTTA
1 TCACGTAAAGCAGATACCTCA
* * *
121877 CCACGTAAAACACCATTA--TCA
1 TCACGTAAAGCA-GA-TACCTCA
*
121898 TCACGTAAAACA-ACTACCTCA
1 TCACGTAAAGCAGA-TACCTCA
*
121919 CCACGTAAAG
1 TCACGTAAAG
121929 ACCTTACCTC
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
19 3 0.05
21 52 0.90
22 1 0.02
23 2 0.03
ACGTcount: A:0.38, C:0.31, G:0.12, T:0.19
Consensus pattern (21 bp):
TCACGTAAAGCAGATACCTCA
Found at i:121941 original size:42 final size:44
Alignment explanation
Indices: 121849--121942 Score: 117
Period size: 42 Copynumber: 2.2 Consensus size: 44
121839 GTAGAGCAGC
* *
121849 TACCTCATCACGTAAAGCAGATACCTTACCACGTAAAACACCAT
1 TACCTCATCACGTAAAACAGATACCTCACCACGTAAAACACCAT
*
121893 TA--TCATCACGTAAAACA-ACTACCTCACCACGT-AAAGACC-T
1 TACCTCATCACGTAAAACAGA-TACCTCACCACGTAAAACACCAT
121933 TACCTCATCA
1 TACCTCATCA
121943 TGCCATGCAC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
40 3 0.07
41 7 0.16
42 32 0.73
44 2 0.05
ACGTcount: A:0.38, C:0.33, G:0.07, T:0.21
Consensus pattern (44 bp):
TACCTCATCACGTAAAACAGATACCTCACCACGTAAAACACCAT
Found at i:122043 original size:42 final size:42
Alignment explanation
Indices: 121996--122096 Score: 148
Period size: 42 Copynumber: 2.4 Consensus size: 42
121986 ATAAAGCACC
* * **
121996 TCTCGGTGTCGAGGTGTAGAATCGGCTCGATCAGGTGATGGA
1 TCTCGGTGTCGAAGTGGAGAAGAGGCTCGATCAGGTGATGGA
*
122038 TCTCGGTGTCGAAGTGGAGAAGAGGCTCGATGAGGTGATGGA
1 TCTCGGTGTCGAAGTGGAGAAGAGGCTCGATCAGGTGATGGA
*
122080 TCTCGGTGTCAAAGTGG
1 TCTCGGTGTCGAAGTGG
122097 GGGGTGCTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.21, C:0.15, G:0.40, T:0.25
Consensus pattern (42 bp):
TCTCGGTGTCGAAGTGGAGAAGAGGCTCGATCAGGTGATGGA
Found at i:123643 original size:14 final size:14
Alignment explanation
Indices: 123626--123657 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
123616 ACTCAAAAAT
123626 GAAATTCGCAACAC
1 GAAATTCGCAACAC
*
123640 GAAATTCGCAACGC
1 GAAATTCGCAACAC
123654 GAAA
1 GAAA
123658 AACTAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.25, G:0.19, T:0.12
Consensus pattern (14 bp):
GAAATTCGCAACAC
Found at i:124084 original size:22 final size:22
Alignment explanation
Indices: 124059--124105 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
124049 ATGGAGGGGA
* *
124059 GTCACCGGATATGGGGACAGAT
1 GTCACCGGAGATGAGGACAGAT
*
124081 GTCACCGGAGATGAGGACGGAT
1 GTCACCGGAGATGAGGACAGAT
124103 GTC
1 GTC
124106 GTCGTAGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.26, C:0.19, G:0.38, T:0.17
Consensus pattern (22 bp):
GTCACCGGAGATGAGGACAGAT
Found at i:124345 original size:20 final size:20
Alignment explanation
Indices: 124322--124371 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
124312 AAATAAATTC
124322 GAGTTGCGAATTTCAAAACT
1 GAGTTGCGAATTTCAAAACT
**
124342 GAGTTGCGAATTTGGAAACT
1 GAGTTGCGAATTTCAAAACT
*
124362 GTGTTGCGAA
1 GAGTTGCGAA
124372 ATTAGAGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (20 bp):
GAGTTGCGAATTTCAAAACT
Found at i:128138 original size:55 final size:55
Alignment explanation
Indices: 128054--128210 Score: 224
Period size: 55 Copynumber: 2.9 Consensus size: 55
128044 AGGATTCATG
*
128054 AAGAAATACATCCGATGAATGAAGAAATTTGAAATTGATTGAAGACTGATCCATC
1 AAGAAAGACATCCGATGAATGAAGAAATTTGAAATTGATTGAAGACTGATCCATC
* * * * *
128109 AAGAAAGACATCTGATGAATAAAGAAATTTGAAACTGATTAAAGACTGATCCATG
1 AAGAAAGACATCCGATGAATGAAGAAATTTGAAATTGATTGAAGACTGATCCATC
* * * *
128164 AAGAAAGACATCCAATGAATGAAGAAGTTTGAAGTTGATCGAAGACT
1 AAGAAAGACATCCGATGAATGAAGAAATTTGAAATTGATTGAAGACT
128211 TCTTTCAAAG
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 88 1.00
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.24
Consensus pattern (55 bp):
AAGAAAGACATCCGATGAATGAAGAAATTTGAAATTGATTGAAGACTGATCCATC
Found at i:131725 original size:15 final size:15
Alignment explanation
Indices: 131701--131731 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
131691 CTACTAAGAA
*
131701 TGATACGAGAACCAT
1 TGATAAGAGAACCAT
131716 TGATAAGAGAACCAT
1 TGATAAGAGAACCAT
131731 T
1 T
131732 AGAAGAATTT
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:0.16, G:0.19, T:0.23
Consensus pattern (15 bp):
TGATAAGAGAACCAT
Found at i:132925 original size:18 final size:18
Alignment explanation
Indices: 132889--133043 Score: 106
Period size: 18 Copynumber: 8.5 Consensus size: 18
132879 ATTTTGCTTG
132889 AAGAAGAAAAGAG-AAAAA
1 AAGAA-AAAAGAGAAAAAA
* *
132907 ATGAAAAGAGAGAAAAAA
1 AAGAAAAAAGAGAAAAAA
*
132925 AAGAGAAGAAA-AGGAAAAA
1 AAGA-AA-AAAGAGAAAAAA
* *
132944 GAG-AAAAATA-AAAAAA
1 AAGAAAAAAGAGAAAAAA
*
132960 ATGAAAAAATGA-AAAAAA
1 AAGAAAAAA-GAGAAAAAA
* * *
132978 AGGAAAAAAAAGGAAAAA
1 AAGAAAAAAGAGAAAAAA
*
132996 AGGAAAAAAG-GAAAAAGAA
1 AAGAAAAAAGAG-AAAA-AA
133015 AAGAAAAAAGAGAAAGAAAA
1 AAGAAAAAAGAG-AA-AAAA
133035 AAGAAAAAA
1 AAGAAAAAA
133044 AATAGAGAAA
Statistics
Matches: 110, Mismatches: 16, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
16 9 0.08
17 16 0.15
18 44 0.40
19 22 0.20
20 17 0.15
21 2 0.02
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (18 bp):
AAGAAAAAAGAGAAAAAA
Found at i:132958 original size:52 final size:52
Alignment explanation
Indices: 132902--133045 Score: 141
Period size: 53 Copynumber: 2.7 Consensus size: 52
132892 AAGAAAAGAG
*
132902 AAAAAATGAAAAGAGA-GAAAAAAAA-GAGAAGAAAAGG-AAAAAGAGAAAAATAA
1 AAAAAATGAAAA-A-ATGAAAAAAAAGGA-AAAAAAAGGAAAAAAG-GAAAAATAA
*
132955 AAAAAATGAAAAAATGAAAAAAAAGGAAAAAAAAGGAAAAAAGGAAAAAAGGAA
1 AAAAAATGAAAAAATGAAAAAAAAGGAAAAAAAAGGAAAAAAGG-AAAAA-TAA
* * *
133009 AAAGAAAAGAAAAAAGAGAAAGAAAAAAGAAAAAAAA
1 AAA-AAATGAAAAAA-TGAAA-AAAAAGGAAAAAAAA
133046 TAGAGAAAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
51 1 0.01
52 19 0.24
53 25 0.32
54 5 0.06
55 10 0.13
56 4 0.05
57 14 0.18
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (52 bp):
AAAAAATGAAAAAATGAAAAAAAAGGAAAAAAAAGGAAAAAAGGAAAAATAA
Found at i:133004 original size:61 final size:61
Alignment explanation
Indices: 132892--133021 Score: 167
Period size: 61 Copynumber: 2.1 Consensus size: 61
132882 TTGCTTGAAG
* * * *
132892 AAGAAAAGAGAAAAAATGAAAAGAGAGAAAAAAAAGAGAAGAAAAGGAAAAAGAGAAAAATAA
1 AAGAAAA-TGAAAAAATGAAAAAAAAGAAAAAAAAGAGAAGAAAAGGAAAAAG-GAAAAAGAA
132955 AA-AAAATGAAAAAATGAAAAAAAAGGAAAAAAAAG-GAA-AAAAGGAAAAAAGGAAAAAGAA
1 AAGAAAATGAAAAAATGAAAAAAAA-GAAAAAAAAGAGAAGAAAAGG-AAAAAGGAAAAAGAA
133015 AAGAAAA
1 AAGAAAA
133022 AAGAGAAAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
60 16 0.27
61 28 0.47
62 14 0.23
63 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (61 bp):
AAGAAAATGAAAAAATGAAAAAAAAGAAAAAAAAGAGAAGAAAAGGAAAAAGGAAAAAGAA
Found at i:133044 original size:28 final size:27
Alignment explanation
Indices: 132890--133044 Score: 122
Period size: 28 Copynumber: 5.7 Consensus size: 27
132880 TTTTGCTTGA
* * * *
132890 AGAAGAAAAGAGAAAAAATGAAAAGAG
1 AGAAAAAAAAAGAAAAAAAGAAAAAAG
* *
132917 AGAAAAAAAAGAGAAGAAAAGGAAAAAG
1 AGAAAAAAAA-AGAAAAAAAGAAAAAAG
* *
132945 AG-AAAAATAA-AAAAAATGAAAAAA-
1 AGAAAAAAAAAGAAAAAAAGAAAAAAG
* *
132969 TGAAAAAAAAGGAAAAAAAAGGAAAAAAG
1 AGAAAAAAAAAG-AAAAAAA-GAAAAAAG
*
132998 -GAAAAAAGGAAA-AAGAAAAGAAAAAAG
1 AGAAAAAA--AAAGAAAAAAAGAAAAAAG
133025 AGAAAGAAAAAAGAAAAAAA
1 AGAAA-AAAAAAGAAAAAAA
133045 ATAGAGAAAA
Statistics
Matches: 100, Mismatches: 17, Indels: 21
0.72 0.12 0.15
Matches are distributed among these distances:
24 1 0.01
25 17 0.17
26 1 0.01
27 31 0.31
28 45 0.45
29 3 0.03
30 2 0.02
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (27 bp):
AGAAAAAAAAAGAAAAAAAGAAAAAAG
Found at i:133059 original size:24 final size:25
Alignment explanation
Indices: 132930--133053 Score: 94
Period size: 25 Copynumber: 4.8 Consensus size: 25
132920 AAAAAAAGAG
*
132930 AAGAAAAGGAAAAAGAGAAA-AATAA
1 AAGAAAAGAAAAAAGAGAAAGAA-AA
*
132955 AA-AAAATGAAAAAATGA-AAAAAAAGGA
1 AAGAAAA-GAAAAAA-GAGAAAGAAA--A
* * *
132982 AAAAAAAGGAAAAAAGGAAAAAAGGAAA
1 AAGAAAA-GAAAAAA-G-AGAAAGAAAA
133010 AAGAAAAGAAAAAAGAGAAAGAAAA
1 AAGAAAAGAAAAAAGAGAAAGAAAA
*
133035 AAGAAAA-AAAATAGAGAAA
1 AAGAAAAGAAAAAAGAGAAA
133054 ATAAAAGCAG
Statistics
Matches: 82, Mismatches: 9, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
24 15 0.18
25 27 0.33
26 5 0.06
27 10 0.12
28 19 0.23
29 1 0.01
30 5 0.06
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (25 bp):
AAGAAAAGAAAAAAGAGAAAGAAAA
Found at i:134263 original size:55 final size:55
Alignment explanation
Indices: 134198--135013 Score: 833
Period size: 55 Copynumber: 14.8 Consensus size: 55
134188 AATCATTTTA
* * * *
134198 AGAAGATTGTTCGAGTTCCATACTCCTTGAAGCAATAGGGAGTGAACCCATTGGC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCATTTGC
* * * * ** *
134253 AGAATATTGTTCGAGTTTTATACTCCCTGAAGTAATAGGAAGCGAACCTGTTTGA
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCATTTGC
* * **
134308 AGAAGATTGTTCGATTTCTATACTTCCTGAAAATAATAGGGAGCGAACCCATTTGC
1 AGAAGATTGTTCGAGTTCTATACTCCCTG-AAGCAATAGGGAGCGAACCCATTTGC
* * *
134364 AGAAGA-TGATTCGAATTCTATACTCCCTGAAGCAATAGGGAGCAAACCCATTTTC
1 AGAAGATTG-TTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCATTTGC
* * * * ** *
134419 ATAAGATTGTTCAAGTTTTATACTCCCTGAAGCAATAGGGAGAGAACTTATTTTC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCATTTGC
* * ** *
134474 AGAAGATTGTTCGAGTTCTATACTCCATGAAACAATAGGGAGCGAACCTGTTTTC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCATTTGC
* *
134529 AGAAGATTGTTCGAGTTCTATACTCCCTGAAATG-AATAGGGAGTGAACCCGTTTGC
1 AGAAGATTGTTCGAGTTCTATACTCCCTG-AA-GCAATAGGGAGCGAACCCATTTGC
* * * * * * *
134585 AGAAGATTATTTGAGTTCTATACTCCCTGAAGCAAGAGGGAGCAAAACCGTTTTC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCATTTGC
* * *
134640 AGAAGATTGTTCGAGTTCTAAACTCCCTGAAAGGAATAGGGAGCGAACCCGTTTGTC
1 AGAAGATTGTTCGAGTTCTATACTCCCTG-AAGCAATAGGGAGCGAACCCATTTG-C
* * *
134697 -GAAGATTGTTCGAGTTCTATACTCCTTGAAGCAATAGGGAGCGAACCCGTTAGC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCATTTGC
* * * * *
134751 AGAAGATTGTTCTAGTTCTATACTCCTTGAAAAG-AATAGGGAGCGAACTCGTTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTG--AAGCAATAGGGAGCGAACCCATTTGC
* * * * * *
134807 AGAATATTGTTTGAGTTCCATACTCCCTGAAGTAATAGGGACCGAA--CATGTAGGC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCAT-T-TGC
* * * * *
134862 AGTAGATTGTTCGAGTTCTATACTCCCTGGAGCAATAGGGAGCAAACTCATTTTC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCATTTGC
* * * *
134917 AGAAGATTGTTTGAGTTCCATACTCCCTGAAAG-AATATGGAGC-AGACCTATTTGTC
1 AGAAGATTGTTCGAGTTCTATACTCCCTG-AAGCAATAGGGAGCGA-ACCCATTTG-C
* *
134973 -GAATATTTTTCGAGTTCTATACTCCCTGAAAG-AATAGGGAG
1 AGAAGATTGTTCGAGTTCTATACTCCCTG-AAGCAATAGGGAG
135014 AAAACATGTT
Statistics
Matches: 640, Mismatches: 102, Indels: 38
0.82 0.13 0.05
Matches are distributed among these distances:
53 2 0.00
54 7 0.01
55 436 0.68
56 188 0.29
57 7 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (55 bp):
AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCATTTGC
Found at i:134377 original size:111 final size:110
Alignment explanation
Indices: 134198--135013 Score: 870
Period size: 111 Copynumber: 7.4 Consensus size: 110
134188 AATCATTTTA
* * * * * *
134198 AGAAGATTGTTCGAGTTCCATACTCCTTGAAGCAATAGGGAGTGAACCCATTGGCAGAATATTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCCATTTGCAGAAGATTGT
* * * *
134263 TCGAGTTTTATACTCCCTGAAGTAATAGGAAGCGAACCTGTTTGA
66 TCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCTGTTTGC
* * *
134308 AGAAGATTGTTCGATTTCTATACTTCCTGAAAATAATAGGGAGCGAACCCATTTGCAGAAGA-TG
1 AGAAGATTGTTCGAGTTCTATACTCCCTG-AAACAATAGGGAGCGAACCCATTTGCAGAAGATTG
* * ** *
134372 ATTCGAATTCTATACTCCCTGAAGCAATAGGGAGCAAACCCATTTTC
65 -TTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCTGTTTGC
* * * * * ** *
134419 ATAAGATTGTTCAAGTTTTATACTCCCTGAAGCAATAGGGAGAGAACTTATTTTCAGAAGATTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCCATTTGCAGAAGATTGT
* * *
134484 TCGAGTTCTATACTCCATGAAACAATAGGGAGCGAACCTGTTTTC
66 TCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCTGTTTGC
* * * *
134529 AGAAGATTGTTCGAGTTCTATACTCCCTGAAATGAATAGGGAGTGAACCCGTTTGCAGAAGATTA
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAA-CAATAGGGAGCGAACCCATTTGCAGAAGATTG
* * * *
134594 TTTGAGTTCTATACTCCCTGAAGCAAGAGGGAGCAAAACC-GTTTTC
65 TTCGAGTTCTATACTCCCTGAAGCAATAGGGAGC-GAACCTGTTTGC
* * *
134640 AGAAGATTGTTCGAGTTCTAAACTCCCTGAAAGGAATAGGGAGCGAACCCGTTTGTC-GAAGATT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAA-CAATAGGGAGCGAACCCATTTG-CAGAAGATT
* * *
134704 GTTCGAGTTCTATACTCCTTGAAGCAATAGGGAGCGAACCCGTTAGC
64 GTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCTGTTTGC
* * * * * * *
134751 AGAAGATTGTTCTAGTTCTATACTCCTTGAAAAGAATAGGGAGCGAACTCGTTTGTAGAATATTG
1 AGAAGATTGTTCGAGTTCTATACTCCCTG-AAACAATAGGGAGCGAACCCATTTGCAGAAGATTG
* * * * * **
134816 TTTGAGTTCCATACTCCCTGAAGTAATAGGGACCGAACATGTAGGC
65 TTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCTGTTTGC
* * * * * *
134862 AGTAGATTGTTCGAGTTCTATACTCCCTGGAGCAATAGGGAGCAAACTCATTTTCAGAAGATTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCCATTTGCAGAAGATTGT
* * * *
134927 TTGAGTTCCATACTCCCTGAAAG-AATATGGAGC-AGACCTATTTGTC
66 TCGAGTTCTATACTCCCTG-AAGCAATAGGGAGCGA-ACCTGTTTG-C
* * *
134973 -GAATATTTTTCGAGTTCTATACTCCCTGAAAGAATAGGGAG
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAACAATAGGGAG
135014 AAAACATGTT
Statistics
Matches: 595, Mismatches: 99, Indels: 24
0.83 0.14 0.03
Matches are distributed among these distances:
109 1 0.00
110 220 0.37
111 366 0.62
112 8 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (110 bp):
AGAAGATTGTTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCCATTTGCAGAAGATTGT
TCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCTGTTTGC
Found at i:134480 original size:166 final size:164
Alignment explanation
Indices: 134198--135013 Score: 871
Period size: 166 Copynumber: 4.9 Consensus size: 164
134188 AATCATTTTA
* * * * *
134198 AGAAGATTGTTCGAGTTCCATACTCCTTGAAGCAATAGGGAGTGAACCCATTGGCAGAATATTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCATTTGCAGAAGATTGT
* * * ** *
134263 TCGAGTTTTATACTCCCTGAAGTAATAGGAAGCGAACCTGTTTGAAGAAGATTGTTCGATTTCTA
66 TCGAGTTCTATACTCCCTGAAG-AATAGGGAGAGAACCTGTTTTCAGAAGATTGTTCGAGTTCTA
* *
134328 TACTTCCTGAAAATAATAGGGAGCGAACCCATTTGC
130 TACTCCCTG-AAAGAATAGGGAGCGAACCCATTTGC
* * * *
134364 AGAAGA-TGATTCGAATTCTATACTCCCTGAAGCAATAGGGAGCAAACCCATTTTCATAAGATTG
1 AGAAGATTG-TTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCATTTGCAGAAGATTG
* * * *
134428 TTCAAGTTTTATACTCCCTGAAGCAATAGGGAGAGAACTTATTTTCAGAAGATTGTTCGAGTTCT
65 TTCGAGTTCTATACTCCCTGAAG-AATAGGGAGAGAACCTGTTTTCAGAAGATTGTTCGAGTTCT
* * ** *
134493 ATACTCCATGAAACAATAGGGAGCGAACCTGTTTTC
129 ATACTCCCTGAAAGAATAGGGAGCGAACCCATTTGC
* *
134529 AGAAGATTGTTCGAGTTCTATACTCCCTGAAATG-AATAGGGAGTGAACCCGTTTGCAGAAGATT
1 AGAAGATTGTTCGAGTTCTATACTCCCTG-AA-GCAATAGGGAGCGAACCCATTTGCAGAAGATT
* * * *
134593 ATTTGAGTTCTATACTCCCTGAAGCAAGAGGGAGCAAAACC-GTTTTCAGAAGATTGTTCGAGTT
64 GTTCGAGTTCTATACTCCCTGAAG-AATAGGGAG-AGAACCTGTTTTCAGAAGATTGTTCGAGTT
* *
134657 CTAAACTCCCTGAAAGGAATAGGGAGCGAACCCGTTTGTC
127 CTATACTCCCTGAAA-GAATAGGGAGCGAACCCATTTG-C
* * *
134697 -GAAGATTGTTCGAGTTCTATACTCCTTGAAGCAATAGGGAGCGAACCCGTTAGCAGAAGATTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCATTTGCAGAAGATTGT
* * * * *
134761 TCTAGTTCTATACTCCTTGAAAAGAATAGGGAGCGAA-CTCGTTTGT-AGAATATTGTTTGAGTT
66 TCGAGTTCTATACTCCCTG--AAGAATAGGGAGAGAACCT-GTTT-TCAGAAGATTGTTCGAGTT
* * *
134824 CCATACTCCCTG-AAGTAATAGGGACCGAA--CATGTAGGC
127 CTATACTCCCTGAAAG-AATAGGGAGCGAACCCAT-T-TGC
* * * * *
134862 AGTAGATTGTTCGAGTTCTATACTCCCTGGAGCAATAGGGAGCAAACTCATTTTCAGAAGATTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCATTTGCAGAAGATTGT
* * * * * *
134927 TTGAGTTCCATACTCCCTGAAAGAATATGGAGCAG-ACCTATTTGTC-GAATATTTTTCGAGTTC
66 TCGAGTTCTATACTCCCTG-AAGAATAGGGAG-AGAACCTGTTT-TCAGAAGATTGTTCGAGTTC
134990 TATACTCCCTGAAAGAATAGGGAG
128 TATACTCCCTGAAAGAATAGGGAG
135014 AAAACATGTT
Statistics
Matches: 550, Mismatches: 79, Indels: 43
0.82 0.12 0.06
Matches are distributed among these distances:
164 2 0.00
165 105 0.19
166 350 0.64
167 88 0.16
168 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (164 bp):
AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCATTTGCAGAAGATTGT
TCGAGTTCTATACTCCCTGAAGAATAGGGAGAGAACCTGTTTTCAGAAGATTGTTCGAGTTCTAT
ACTCCCTGAAAGAATAGGGAGCGAACCCATTTGC
Found at i:135225 original size:2 final size:2
Alignment explanation
Indices: 135218--135269 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
135208 TACTCCAGTT
135218 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
135260 TA TA TA TA TA
1 TA TA TA TA TA
135270 CTAATTAGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:144101 original size:15 final size:16
Alignment explanation
Indices: 144081--144110 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
144071 CACAAATTGC
144081 ATTTTA-ATTAAAATT
1 ATTTTATATTAAAATT
144096 ATTTTATATTAAAAT
1 ATTTTATATTAAAAT
144111 GGAAAAACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTATATTAAAATT
Found at i:145126 original size:13 final size:13
Alignment explanation
Indices: 145093--145149 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
145083 ATTCAAAGGG
*
145093 AAAATAAAAATAAC
1 AAAA-AAAAATAAT
*
145107 AATAAAAAATAAT
1 AAAAAAAAATAAT
*
145120 AAAAAAATATTAAT
1 AAAAAAA-AATAAT
*
145134 AAAATAAAATAAT
1 AAAAAAAAATAAT
145147 AAA
1 AAA
145150 TAATAAATCC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
13 22 0.61
14 14 0.39
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAAAAAATAAT
Found at i:145134 original size:24 final size:25
Alignment explanation
Indices: 145095--145155 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
145085 TCAAAGGGAA
145095 AATAAAAATAACAATAAAA-AATAAT
1 AATAAAAATAACAATAAAATAA-AAT
**
145120 AA-AAAAATATTAATAAAATAAAAT
1 AATAAAAATAACAATAAAATAAAAT
145144 AATAAATAATAA
1 AATAAA-AATAA
145156 ATCCAAGGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 19 0.63
25 7 0.23
26 4 0.13
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (25 bp):
AATAAAAATAACAATAAAATAAAAT
Found at i:145152 original size:41 final size:41
Alignment explanation
Indices: 145029--145157 Score: 109
Period size: 46 Copynumber: 3.0 Consensus size: 41
145019 TATGTTAGAT
*
145029 TAAAAAAATATTAAGTAAAA-AACATAACAAATGAAAAAAAATAA
1 TAAAAAAATATTAAGTAAAATAAAATAA-AAAT---AAAAAATAA
* * *
145073 TAAAATAATAATTCAAAGGGAAAATAAAAATAACAATAAAAAATAA
1 TAAAAAAAT-ATT--AA-GTAAAAT-AAAATAAAAATAAAAAATAA
*
145119 TAAAAAAATATTAA-TAAAATAAAATAATAAATAATAAAT
1 TAAAAAAATATTAAGTAAAATAAAATAA-AAATAAAAAAT
145158 CCAAGGAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
40 7 0.10
41 14 0.20
43 2 0.03
44 8 0.11
45 6 0.09
46 17 0.24
47 2 0.03
48 5 0.07
49 3 0.04
50 6 0.09
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (41 bp):
TAAAAAAATATTAAGTAAAATAAAATAAAAATAAAAAATAA
Found at i:146373 original size:4 final size:4
Alignment explanation
Indices: 146366--146402 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
146356 AAATGAAAGA
146366 AAAT AAAT AAAT AAAT AAAT -AA- AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
146403 ACAATAACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 4 0.13
4 27 0.87
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:146391 original size:18 final size:18
Alignment explanation
Indices: 146348--146402 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
146338 CCTGAAAAAC
* *
146348 ATAAAAAGAAATGAAAGAA
1 ATAAAAATAAAT-AAATAA
*
146367 A-ATAAATAAATAAATAA
1 ATAAAAATAAATAAATAA
146384 ATAAAAATAAATAAATAA
1 ATAAAAATAAATAAATAA
146402 A
1 A
146403 ACAATAACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 6 0.19
18 24 0.77
19 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
ATAAAAATAAATAAATAA
Found at i:146421 original size:13 final size:11
Alignment explanation
Indices: 146365--146398 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
146355 GAAATGAAAG
146365 AAAATAAATAA
1 AAAATAAATAA
146376 ATAAATAAAT-A
1 A-AAATAAATAA
146387 AAAATAAATAA
1 AAAATAAATAA
146398 A
1 A
146399 TAAAACAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 8 0.38
11 5 0.24
12 8 0.38
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:146489 original size:36 final size:36
Alignment explanation
Indices: 146428--146748 Score: 359
Period size: 38 Copynumber: 8.8 Consensus size: 36
146418 AATATTTTCA
*
146428 AAAAATTATATAATATATATTTTTTCAAAATGTTTTTT
1 AAAAACTATATAATATATA--TTTTCAAAATGTTTTTT
*
146466 TAAAACTATATAATATATATTTTCAAAAATG--TTTT
1 AAAAACTATATAATATATATTTTC-AAAATGTTTTTT
* * ** *
146501 AAAAATTATATATTATATATTTTCAAAATAATTTTA
1 AAAAACTATATAATATATATTTTCAAAATGTTTTTT
*
146537 AAAAACCATAT-AT-TATATTTTCAAAATGTTTTTT
1 AAAAACTATATAATATATATTTTCAAAATGTTTTTT
*
146571 AAAAAACTATATATTATATATATTTTCCAAAAT-ATTTTT
1 -AAAAACTATATA--ATATATATTTT-CAAAATGTTTTTT
* *
146610 GAAAACTATATATTATATATATTTTCAAAATGTTTTTC
1 AAAAACTATATA--ATATATATTTTCAAAATGTTTTTT
*
146648 AAAAACCATATAATATAT-TTTT-AAAATGTTTTTT
1 AAAAACTATATAATATATATTTTCAAAATGTTTTTT
*
146682 TAAAACTATATAATATATATTTTCAAAATGTTTTTT
1 AAAAACTATATAATATATATTTTCAAAATGTTTTTT
* * *
146718 AAAAACCATATATTATATAATTTCCAAAATG
1 AAAAACTATATAATATAT-ATTTTCAAAATG
146749 ATTTCAAACT
Statistics
Matches: 243, Mismatches: 27, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
34 50 0.21
35 44 0.18
36 50 0.21
37 23 0.09
38 57 0.23
39 13 0.05
40 6 0.02
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (36 bp):
AAAAACTATATAATATATATTTTCAAAATGTTTTTT
Found at i:147545 original size:84 final size:83
Alignment explanation
Indices: 147382--148204 Score: 881
Period size: 84 Copynumber: 9.8 Consensus size: 83
147372 ATTTTCCTCT
* * * * * * * *
147382 GAGCTGAGTGTAATCAAACTCGAAGGTATTTGTTGACAGATTACTCTTCTAGCCTTGAGTTATGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATGC
*
147447 TGTAAATGATGTGCCTTG
66 TGCAAATGATGTGCCTTG
** * * * * * * *
147465 GATTTGAGTGTAATCGAACTCGAAGGTTTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGCTATG
* *
147530 TTGCAAATGATGTGCCTTT
65 CTGCAAATGATGTGCCTTG
* * ** *
147549 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGATAGATAACCCTTCTAGCCTTGAGTTATGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATGC
*
147614 TGTAAATGATGTGCCTTG
66 TGCAAATGATGTGCCTTG
* * * * * *
147632 GAGTTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGCTATG
* *
147697 CTGCAAATAATGTGCCTTT
65 CTGCAAATGATGTGCCTTG
* * * * * * * *
147716 GAGCTTAGCGTAGTCGAACTCGAAGGTCTTTTATTTGCAAATAGCCTTTCTTGCCATGAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATG
* * *
147781 TTACAAATGATGTTCCTTG
65 CTGCAAATGATGTGCCTTG
*
147800 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGCTATG
*
147865 CTGTAAATGATGTGCCTTG
65 CTGCAAATGATGTGCCTTG
* * * *
147884 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATATCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGCTATG
** * * *
147949 CTATAAATTATATGCCTTT
65 CTGCAAATGATGTGCCTTG
* * * *
147968 GAGCTGAGCGTAGTCGAACTCAAAGGTATTTGGTTGGCATATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGCTATG
*
148033 CTGCAAATGATGTGCCTTA
65 CTGCAAATGATGTGCCTTG
* * * * * * * ** * * *
148052 GAGCTTAGCGTAGTCAAACTCAAATGTCTTTTGTTAGAAAATATTCATTCTTGCCTTGAGCTATA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATG
*
148117 TTGCAAATGATGTGCCTTG
65 CTGCAAATGATGTGCCTTG
* * *
148136 GAACTGAGCGTAGTTGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATG
148201 CTGC
65 CTGC
148205 CAATAGTTTC
Statistics
Matches: 613, Mismatches: 122, Indels: 9
0.82 0.16 0.01
Matches are distributed among these distances:
83 102 0.17
84 505 0.82
85 6 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (83 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGCTATGC
TGCAAATGATGTGCCTTG
Found at i:156336 original size:22 final size:23
Alignment explanation
Indices: 156310--156370 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
156300 ATAGGGTAGA
156310 GGGAATCGATACCCCC-TTGAAG
1 GGGAATCGATACCCCCTTTGAAG
* *
156332 GGGAACCGATTCCCCCTTTGAAG
1 GGGAATCGATACCCCCTTTGAAG
156355 GGGAATCGATACCCCC
1 GGGAATCGATACCCCC
156371 CTGGGGTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 14 0.41
23 20 0.59
ACGTcount: A:0.25, C:0.31, G:0.26, T:0.18
Consensus pattern (23 bp):
GGGAATCGATACCCCCTTTGAAG
Found at i:163266 original size:4 final size:4
Alignment explanation
Indices: 163259--163308 Score: 61
Period size: 4 Copynumber: 12.8 Consensus size: 4
163249 AAATGAAAGA
163259 AAAT AAAT AAAT AAAT AAAT AAA- AACAT ATAAT AAAT -AA- AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AA-AT A-AAT AAAT AAAT AAAT AAAT
163306 AAA
1 AAA
163309 ATAATAACAT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
3 6 0.15
4 30 0.73
5 4 0.10
6 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:163304 original size:35 final size:31
Alignment explanation
Indices: 163258--163327 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 31
163248 GAAATGAAAG
163258 AAAATAAATAAATAAAT-AAATAAAAACATATA
1 AAAAT-AA-AAATAAATAAAATAAAAACATATA
*
163290 ATAAATAAAAATAAATAAAATAATAACATATA
1 A-AAATAAAAATAAATAAAATAAAAACATATA
163322 AAAATA
1 AAAATA
163328 TTTTTTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
31 13 0.37
32 18 0.51
33 4 0.11
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (31 bp):
AAAATAAAAATAAATAAAATAAAAACATATA
Found at i:163315 original size:25 final size:25
Alignment explanation
Indices: 163241--163327 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
163231 CCTGAAAAAC
* * *
163241 ATAAAAAGAAATGAAAGAA-AATAA
1 ATAAAAATAAATAAAACAATAATAA
163265 ATAAATAAATAAATAAAAACATATAATAA
1 AT-AA-AAATAAAT-AAAACA-ATAATAA
* * *
163294 ATAAAAATAAATAAAATAATAACAT
1 ATAAAAATAAATAAAACAATAATAA
163319 ATAAAAATA
1 ATAAAAATA
163328 TTTTTTAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
24 2 0.04
25 16 0.31
26 12 0.23
27 12 0.23
28 3 0.06
29 7 0.13
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (25 bp):
ATAAAAATAAATAAAACAATAATAA
Found at i:163723 original size:39 final size:37
Alignment explanation
Indices: 163322--163740 Score: 360
Period size: 38 Copynumber: 11.2 Consensus size: 37
163312 ATAACATATA
** * *
163322 AAAATATTTTTTAAAAAGTATATAATATATATTTTTCC
1 AAAATATTTTTTAAAAACCATATATTATATAATTTT-C
* * * *
163360 AAAATGTTTTTTTAAAAACTACATAATATATATATTTTC
1 AAAAT-ATTTTTTAAAAACCATATATTATATA-ATTTTC
* *
163399 AAAA-ATGTTTTAAAAACTATATATTATAT-ATTTTC
1 AAAATATTTTTTAAAAACCATATATTATATAATTTTC
* *
163434 AAAATAATTTTAAAAAACCATATA-T-TAT-ATTTTC
1 AAAATATTTTTTAAAAACCATATATTATATAATTTTC
* * *
163468 AAAATGTTTTTT--AAACTATATATTATATATATTTCCC
1 AAAATATTTTTTAAAAACCATATATTATATA-ATTT-TC
* * *
163505 AAAATA-TTTTTGAAAACTATATATTATATATGTTTTC
1 AAAATATTTTTTAAAAACCATATATTATATA-ATTTTC
* *
163542 AAAATGTTTTTTTAAAAA-C-TATATAATAT-ATTTTC
1 AAAAT-ATTTTTTAAAAACCATATATTATATAATTTTC
* *
163577 AAAATGTTTTTTAAAAACCATATATTATATATATTTTTT
1 AAAATATTTTTTAAAAACCATATATTATATA-A-TTTTC
* *
163616 AAAA-ATGTTTTAAAAACCATATATTATATATATTTTTT
1 AAAATATTTTTTAAAAACCATATATTATATA-A-TTTTC
*
163654 AAAA-ATGTTTTAAAAACCATATATTATATATAAGTTTTC
1 AAAATATTTTTTAAAAACCATATA-T-TATATAA-TTTTC
* *
163693 AAAAATATTTTTTAAAACCCATATATTATATAATTTCC
1 -AAAATATTTTTTAAAAACCATATATTATATAATTTTC
163731 AAAATGATTT
1 AAAAT-ATTT
163741 CAAACTATAT
Statistics
Matches: 324, Mismatches: 35, Indels: 44
0.80 0.09 0.11
Matches are distributed among these distances:
32 9 0.03
33 1 0.00
34 32 0.10
35 22 0.07
36 33 0.10
37 47 0.15
38 90 0.28
39 58 0.18
40 15 0.05
41 17 0.05
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (37 bp):
AAAATATTTTTTAAAAACCATATATTATATAATTTTC
Found at i:165224 original size:31 final size:30
Alignment explanation
Indices: 165185--165242 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
165175 TGAGCTAAAA
165185 ATTATGAAACTC-AGCTCGAACTCGAAATAT
1 ATTATGAAACTCGA-CTCGAACTCGAAATAT
*
165215 ATTATTGAAACTCGACTCGGACTCGAAA
1 ATTA-TGAAACTCGACTCGAACTCGAAA
165243 AGGCTCGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 4 0.16
31 20 0.80
32 1 0.04
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (30 bp):
ATTATGAAACTCGACTCGAACTCGAAATAT
Found at i:168280 original size:37 final size:37
Alignment explanation
Indices: 168204--168280 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
168194 TTTTTATATT
*
168204 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * * *
168241 TTTAATTTTTTAAAGAATA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
168278 TTT
1 TTT
168281 GTAATATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 13 0.38
37 21 0.62
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:169518 original size:21 final size:20
Alignment explanation
Indices: 169487--169535 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
169477 ATCATTTTCA
169487 TTTTTTC-TATTGTTTGATTG
1 TTTTTTCTTATT-TTTGATTG
* *
169507 TTTTTTCTTATTTTTTATTT
1 TTTTTTCTTATTTTTGATTG
169527 TATTTTTCT
1 T-TTTTTCT
169536 GCGTTGTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.78
Consensus pattern (20 bp):
TTTTTTCTTATTTTTGATTG
Found at i:169775 original size:11 final size:11
Alignment explanation
Indices: 169716--169782 Score: 50
Period size: 11 Copynumber: 6.3 Consensus size: 11
169706 TAGTTGTATT
*
169716 ATATAATTTTTT
1 ATAT-ATTTTTA
169728 ATATATTTTTA
1 ATATATTTTTA
*
169739 A-A-ATTTATA
1 ATATATTTTTA
***
169748 AT-TATCAATA
1 ATATATTTTTA
*
169758 ATGTATTTTTA
1 ATATATTTTTA
169769 ATATATTTTTA
1 ATATATTTTTA
169780 ATA
1 ATA
169783 ATGTAATTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
9 7 0.16
10 8 0.18
11 25 0.57
12 4 0.09
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (11 bp):
ATATATTTTTA
Found at i:171497 original size:21 final size:21
Alignment explanation
Indices: 171455--171766 Score: 138
Period size: 21 Copynumber: 15.0 Consensus size: 21
171445 GATTTACATA
171455 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
**
171476 TTCGCATTGCGATAGTTGAAG
1 TTCGCATTGCGATAGTCCAAG
* * *
171497 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCATTGCGA--TAGTCCAAG
* *
171520 TTCG--TTGCGATTTATTCCAAA
1 TTCGCATTGCGA--TAGTCCAAG
171541 TTCG--TTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* * *
171560 TTCGCGTTGCGATTTATTCTAAG
1 TTCGCATTGCGA--TAGTCCAAG
*
171583 TTCG--TTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
* * *
171602 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCATTGCGA--TAGTCCAAG
* *
171625 TTCG--TTGCGATTTATTCCAAA
1 TTCGCATTGCGA--TAGTCCAAG
*
171646 TTCG-A-TGCGATTTATTCCAAG
1 TTCGCATTGCGA--TAGTCCAAG
*
171667 TTCG--TTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
* *
171686 TTCG--TTGCGATTTATTCCAAA
1 TTCGCATTGCGA--TAGTCCAAG
*
171707 TTCG--TTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
* * *
171726 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCATTGCGA--TAGTCCAAG
171749 TTCG--TTGCGATAGTCCAA
1 TTCGCATTGCGATAGTCCAA
171767 AATCTCAACG
Statistics
Matches: 244, Mismatches: 29, Indels: 38
0.78 0.09 0.12
Matches are distributed among these distances:
19 56 0.23
21 148 0.61
23 40 0.16
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:171547 original size:42 final size:41
Alignment explanation
Indices: 171514--171766 Score: 350
Period size: 42 Copynumber: 6.1 Consensus size: 41
171504 TGCGATTTAT
*
171514 TCCAAATT-CGTTGCGATTTATTCCAAATTCGTTGCGATAG
1 TCCAAGTTCCGTTGCGATTTATTCCAAATTCGTTGCGATAG
* *
171554 TCCAAGTTCGCGTTGCGATTTATTCTAAGTTCGTTGCGATAG
1 TCCAAGTTC-CGTTGCGATTTATTCCAAATTCGTTGCGATAG
* *
171596 TCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTAT
1 TCCAAGTTC-CGTTGCGATTTATTCCAAATTCGTTGCGA--TAG
* * *
171640 TCCAAATT-CGATGCGATTTATTCCAAGTTCGTTGCGATAG
1 TCCAAGTTCCGTTGCGATTTATTCCAAATTCGTTGCGATAG
*
171680 TCGAAGTT-CGTTGCGATTTATTCCAAATTCGTTGCGATAG
1 TCCAAGTTCCGTTGCGATTTATTCCAAATTCGTTGCGATAG
*
171720 TCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAG
1 TCCAAGTTC-CGTTGCGATTTATTCCAAATTCGTTGCGATAG
171762 TCCAA
1 TCCAA
171767 AATCTCAACG
Statistics
Matches: 190, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
40 53 0.28
42 129 0.68
44 8 0.04
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (41 bp):
TCCAAGTTCCGTTGCGATTTATTCCAAATTCGTTGCGATAG
Found at i:171559 original size:84 final size:81
Alignment explanation
Indices: 171461--171763 Score: 371
Period size: 84 Copynumber: 3.6 Consensus size: 81
171451 CATATTCGCA
* * * *
171461 TTGCGATAGTCCAAGTTCGCATTGCGA-TAGTT-GAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCATTGCGATTA-TTCCAAGTT--CGTTGCGA--TAGTCGAAGTTCG
171524 TTGCGATTTATTCCAAATTCG
61 TTGCGATTTATTCCAAATTCG
* *
171545 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCTAAGTTCGTTGCGATAGTCGAAGTTCGCGTT
1 TTGCGATAGTCCAAGTTCGCATTGCGA-TTATTCCAAGTTCGTTGCGATAGTCGAAGTT--CGTT
171610 GCGATTTATTCCAAATTCG
63 GCGATTTATTCCAAATTCG
* *
171629 TTGCGATTTATTCCAAATTCG-A-TGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGTT
1 TTGCGA--TAGTCCAAGTTCGCATTGCGA-TTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGTT
171692 GCGATTTATTCCAAATTCG
63 GCGATTTATTCCAAATTCG
* * *
171711 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
1 TTGCGATAGTCCAAGTTCGCATTGCGA-TTATTCCAAGTTCGTTGCGATAGTC
171764 CAAAATCTCA
Statistics
Matches: 196, Mismatches: 14, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
80 10 0.05
82 67 0.34
84 99 0.51
85 2 0.01
86 18 0.09
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (81 bp):
TTGCGATAGTCCAAGTTCGCATTGCGATTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGTTGCG
ATTTATTCCAAATTCG
Found at i:172538 original size:21 final size:21
Alignment explanation
Indices: 172514--172608 Score: 97
Period size: 21 Copynumber: 4.6 Consensus size: 21
172504 TTTAGAATAA
172514 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * **
172535 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
172554 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* *
172575 ATCGTAATGCGAACTT-GAACT
1 ATCGCAACGCGAACTTCG-ACT
*
172596 ATCGCAATGCGAA
1 ATCGCAACGCGAA
172609 TATGTAAATC
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 15 0.25
20 1 0.02
21 44 0.73
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:172557 original size:19 final size:19
Alignment explanation
Indices: 172493--172562 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
172483 ATTTTGGACT
*
172493 ATCGCAACGAATTTAGAATAA
1 ATCGCAACGAATTT-GGA-AA
* * **
172514 ATCGCAACGCGAACTTCGACT
1 ATCGCAA--CGAATTTGGAAA
172535 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
172554 ATCGCAACG
1 ATCGCAACG
172563 CGAACTTCGA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 17 0.45
21 14 0.37
22 1 0.03
23 6 0.16
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.20
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:172567 original size:40 final size:42
Alignment explanation
Indices: 172489--172578 Score: 157
Period size: 40 Copynumber: 2.2 Consensus size: 42
172479 TGCGATTTTG
172489 GACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTC
*
172531 GACTATCGCAACGAATTT-GGA-AAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTC
172571 GACTATCG
1 GACTATCG
172579 TAATGCGAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 27 0.57
41 2 0.04
42 18 0.38
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTC
Found at i:188650 original size:157 final size:157
Alignment explanation
Indices: 188364--188679 Score: 632
Period size: 157 Copynumber: 2.0 Consensus size: 157
188354 AGAAGAAAAA
188364 CCAAGCATCAAGTTACAATTGAATTGAAATAAAAAGAAGAGACTAAAACCACTAGGAAATCGAAA
1 CCAAGCATCAAGTTACAATTGAATTGAAATAAAAAGAAGAGACTAAAACCACTAGGAAATCGAAA
188429 GTCCGAGAGAAGAAAAACCAAACATCAAACAGAAGGAACAAGATTACGGGGTAGTTGACGACTTG
66 GTCCGAGAGAAGAAAAACCAAACATCAAACAGAAGGAACAAGATTACGGGGTAGTTGACGACTTG
188494 ACGTACCAGGGATACGATCTGAGGTTG
131 ACGTACCAGGGATACGATCTGAGGTTG
188521 CCAAGCATCAAGTTACAATTGAATTGAAATAAAAAGAAGAGACTAAAACCACTAGGAAATCGAAA
1 CCAAGCATCAAGTTACAATTGAATTGAAATAAAAAGAAGAGACTAAAACCACTAGGAAATCGAAA
188586 GTCCGAGAGAAGAAAAACCAAACATCAAACAGAAGGAACAAGATTACGGGGTAGTTGACGACTTG
66 GTCCGAGAGAAGAAAAACCAAACATCAAACAGAAGGAACAAGATTACGGGGTAGTTGACGACTTG
188651 ACGTACCAGGGATACGATCTGAGGTTG
131 ACGTACCAGGGATACGATCTGAGGTTG
188678 CC
1 CC
188680 GCCATGAATC
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 159 1.00
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (157 bp):
CCAAGCATCAAGTTACAATTGAATTGAAATAAAAAGAAGAGACTAAAACCACTAGGAAATCGAAA
GTCCGAGAGAAGAAAAACCAAACATCAAACAGAAGGAACAAGATTACGGGGTAGTTGACGACTTG
ACGTACCAGGGATACGATCTGAGGTTG
Found at i:190155 original size:27 final size:27
Alignment explanation
Indices: 190125--190213 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
190115 CTGTAAGTAT
190125 TCAACCCCGTCAGGAACAGTAAGGCTC
1 TCAACCCCGTCAGGAACAGTAAGGCTC
** * * * **
190152 TCAACACAAAGCCAAGGAACCTGCAAGTAT-
1 TCAAC-C-CCGTC-AGGAA-CAGTAAGGCTC
190182 TCAACCCCGTCAGGAACAGTAAGGCTC
1 TCAACCCCGTCAGGAACAGTAAGGCTC
190209 TCAAC
1 TCAAC
190214 ACAAAGCCAA
Statistics
Matches: 43, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
26 6 0.14
27 15 0.35
28 3 0.07
29 3 0.07
30 10 0.23
31 6 0.14
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (27 bp):
TCAACCCCGTCAGGAACAGTAAGGCTC
Found at i:190170 original size:30 final size:30
Alignment explanation
Indices: 190136--190228 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
190126 CAACCCCGTC
190136 AGGAACAGTAAGGCTCTCAACACAAAGCCA
1 AGGAACAGTAAGGCTCTCAACACAAAGCCA
* * ** ** *
190166 AGGAACCTGCAAGTAT-TCAAC-C-CCGTC-
1 AGGAA-CAGTAAGGCTCTCAACACAAAGCCA
190193 AGGAACAGTAAGGCTCTCAACACAAAGCCA
1 AGGAACAGTAAGGCTCTCAACACAAAGCCA
190223 AGGAAC
1 AGGAAC
190229 CTGCAAGTAT
Statistics
Matches: 44, Mismatches: 14, Indels: 10
0.65 0.21 0.15
Matches are distributed among these distances:
26 6 0.14
27 10 0.23
28 3 0.07
29 3 0.07
30 16 0.36
31 6 0.14
ACGTcount: A:0.40, C:0.28, G:0.20, T:0.12
Consensus pattern (30 bp):
AGGAACAGTAAGGCTCTCAACACAAAGCCA
Found at i:190192 original size:57 final size:57
Alignment explanation
Indices: 190070--190295 Score: 350
Period size: 57 Copynumber: 4.0 Consensus size: 57
190060 CATAACCATA
* * *
190070 CAACCCCGTCACGAACAGTAAGGCCCTGAGCACAAAGCCAA-GAACCTGTAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCCTCAACACAAAGCCAAGGAACCTGCAAGTATT
* *
190126 CAACCCCGTCAGGAACAGTAAGGCTCTCAACACAAAGCCAAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCCTCAACACAAAGCCAAGGAACCTGCAAGTATT
* *
190183 CAACCCCGTCAGGAACAGTAAGGCTCTCAACACAAAGCCAAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCCTCAACACAAAGCCAAGGAACCTGCAAGTATT
* *
190240 CAACCCCGTCACGAACAGTAAGGCCCTCAGCACAAAGTC--GGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCCTCAACACAAAGCCAAGGAACCTGCAAGTATT
190295 C
1 C
190296 TTCCTCCAAC
Statistics
Matches: 160, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
55 17 0.11
56 37 0.23
57 106 0.66
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.14
Consensus pattern (57 bp):
CAACCCCGTCACGAACAGTAAGGCCCTCAACACAAAGCCAAGGAACCTGCAAGTATT
Found at i:190243 original size:30 final size:30
Alignment explanation
Indices: 190152--190243 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 30
190142 AGTAAGGCTC
190152 TCAACACAAAGCCAAGGAACCTGCAAGTAT
1 TCAACACAAAGCCAAGGAACCTGCAAGTAT
** * * * **
190182 TCAAC-C-CCGTC-AGGAA-CAGTAAGGCT
1 TCAACACAAAGCCAAGGAACCTGCAAGTAT
190208 CTCAACACAAAGCCAAGGAACCTGCAAGTAT
1 -TCAACACAAAGCCAAGGAACCTGCAAGTAT
190239 TCAAC
1 TCAAC
190244 CCCGTCACGA
Statistics
Matches: 43, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
26 6 0.14
27 10 0.23
28 3 0.07
29 3 0.07
30 15 0.35
31 6 0.14
ACGTcount: A:0.39, C:0.29, G:0.17, T:0.14
Consensus pattern (30 bp):
TCAACACAAAGCCAAGGAACCTGCAAGTAT
Found at i:196385 original size:2 final size:2
Alignment explanation
Indices: 196378--196440 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
196368 TGATTTTGCA
196378 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
196420 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
196441 AAATTAATTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:196603 original size:85 final size:83
Alignment explanation
Indices: 196488--196668 Score: 247
Period size: 85 Copynumber: 2.2 Consensus size: 83
196478 TAAGTCATAC
*
196488 AAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTA-AGTCATACATGCG
1 AAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATG-AGAGTCATAAATGCG
* **
196552 TGTCATAAATTTATGATACAT
65 CGTCATAAATGCATG-T-CAT
* * * *
196573 AAATGTGTGTCATTTTCATTTATGATGGGGGCTTCAATGACGCGCAATGAGCGTCATAAATGCGC
1 AAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGAGAGTCATAAATGCGC
196638 GTCATAAATGCATGTCAT
66 GTCATAAATGCATGTCAT
*
196656 AAATGTGCGTCAT
1 AAATGTGTGTCAT
196669 AAATGCATGT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
83 15 0.17
84 2 0.02
85 69 0.80
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (83 bp):
AAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGAGAGTCATAAATGCGC
GTCATAAATGCATGTCAT
Found at i:196639 original size:13 final size:13
Alignment explanation
Indices: 196618--196695 Score: 93
Period size: 13 Copynumber: 6.0 Consensus size: 13
196608 AATGACGCGC
*
196618 AATGAGCGTCATA
1 AATGCGCGTCATA
196631 AATGCGCGTCATA
1 AATGCGCGTCATA
**
196644 AATGCATGTCATA
1 AATGCGCGTCATA
*
196657 AATGTGCGTCATA
1 AATGCGCGTCATA
**
196670 AATGCATGTCATA
1 AATGCGCGTCATA
*
196683 AATGCGTGTCATA
1 AATGCGCGTCATA
196696 GATTTATGAC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 55 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:196647 original size:26 final size:26
Alignment explanation
Indices: 196625--196695 Score: 124
Period size: 26 Copynumber: 2.7 Consensus size: 26
196615 CGCAATGAGC
196625 GTCATAAATGCGCGTCATAAATGCAT
1 GTCATAAATGCGCGTCATAAATGCAT
*
196651 GTCATAAATGTGCGTCATAAATGCAT
1 GTCATAAATGCGCGTCATAAATGCAT
*
196677 GTCATAAATGCGTGTCATA
1 GTCATAAATGCGCGTCATA
196696 GATTTATGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (26 bp):
GTCATAAATGCGCGTCATAAATGCAT
Found at i:196681 original size:39 final size:39
Alignment explanation
Indices: 196618--196695 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
196608 AATGACGCGC
*
196618 AATGAGCGTCATAAATGCGCGTCATAAATGCATGTCATA
1 AATGAGCGTCATAAATGCACGTCATAAATGCATGTCATA
* * *
196657 AATGTGCGTCATAAATGCATGTCATAAATGCGTGTCATA
1 AATGAGCGTCATAAATGCACGTCATAAATGCATGTCATA
196696 GATTTATGAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (39 bp):
AATGAGCGTCATAAATGCACGTCATAAATGCATGTCATA
Found at i:200381 original size:19 final size:19
Alignment explanation
Indices: 200358--200429 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
200348 AAATTGTTCA
*
200358 AGTGTATCGATGCACATGA-
1 AGTGCATCGATGCACA-GAT
* * * *
200377 AGTGTACCAATGCATAGAT
1 AGTGCATCGATGCACAGAT
200396 AGTGCATCGATGCACAGAT
1 AGTGCATCGATGCACAGAT
200415 AGTGCATCGATGCAC
1 AGTGCATCGATGCAC
200430 CCGTCAAGGG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 2 0.04
19 43 0.96
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (19 bp):
AGTGCATCGATGCACAGAT
Found at i:200716 original size:25 final size:25
Alignment explanation
Indices: 200682--200732 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
200672 TGAGAATAAG
200682 ACTTTTGATAAGTCTATCTCTTAGC
1 ACTTTTGATAAGTCTATCTCTTAGC
200707 ACTTTTGATAAGTCTATCTCTTAGC
1 ACTTTTGATAAGTCTATCTCTTAGC
200732 A
1 A
200733 TTGAATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (25 bp):
ACTTTTGATAAGTCTATCTCTTAGC
Found at i:201048 original size:18 final size:18
Alignment explanation
Indices: 201025--201059 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
201015 AGGGATTATC
201025 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
201043 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
201060 AATATTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:207226 original size:64 final size:64
Alignment explanation
Indices: 207087--207249 Score: 177
Period size: 64 Copynumber: 2.5 Consensus size: 64
207077 ATTGTTCAAG
* * * * *
207087 GTGTATCGATGCACATGAAGTGTATCGATGCACTCCTTTAAAATAAAAACATCGAATGACATCA
1 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGACATCA
* * * ** *
207151 GTGCATTGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATACAAACATCGAATGGGATTTA
1 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGACA-TCA
* *
207216 -TGTACCGATGCA-TAGATAGTGCATCGATGCACCC
1 GTGTATCGATGCACAAG-TAGTGCATCGATGCACCC
207250 GTCAAGGGAT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
63 2 0.02
64 78 0.95
65 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (64 bp):
GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGACATCA
Found at i:207831 original size:18 final size:18
Alignment explanation
Indices: 207808--207842 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
207798 AGGGATTATC
*
207808 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCAGGACAT
207826 AGTGGTCCTTCAGGACA
1 AGTGGTCCTTCAGGACA
207843 AATATTCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCAGGACAT
Found at i:209242 original size:3 final size:3
Alignment explanation
Indices: 209234--209280 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
209224 ATAATTAAAT
*
209234 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
209281 TTTTTGTAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:212666 original size:143 final size:145
Alignment explanation
Indices: 212469--212759 Score: 516
Period size: 148 Copynumber: 2.0 Consensus size: 145
212459 ATCCAGATTA
212469 TATTTATAAATATAATATATATTATGAGAATTAAATTTTCTTTAAAGATAAAA-AAAAGTTTTCA
1 TATTTATAAATATAATATATATTATGAGAATTAAATTTTCTTTAAAGATAAAAGAAAAGTTTTCA
*
212533 TGATATAATGACACAAAT-GTATATTTTATAGTGGAAGAGGAAGATTCTATATTTTGCTTTGTGT
66 TGATAAAATGACACAAATGGTATATTTTATAGTGGAAGAGGAAGATTCTATATTTTGCTTTGTGT
212597 TCCCCATGGACATGG
131 TCCCCATGGACATGG
212612 TATTTATAAATAT-ATATTATATTATGAGAATTAATATTTTCTTTAAAGATAAAAAAGAAAAGTT
1 TATTTATAAATATAATA-TATATTATGAGAATTAA-ATTTTCTTTAAAGAT--AAAAGAAAAGTT
212676 TTCATGATAAAATGACACAAATGGTATATTTTATAGTGGAAGAGGAAGATTCTATATTTTGCTTT
62 TTCATGATAAAATGACACAAATGGTATATTTTATAGTGGAAGAGGAAGATTCTATATTTTGCTTT
212741 GTGTTCCCCATGGACATGG
127 GTGTTCCCCATGGACATGG
212760 CTGCAGCCCG
Statistics
Matches: 141, Mismatches: 1, Indels: 7
0.95 0.01 0.05
Matches are distributed among these distances:
142 3 0.02
143 30 0.21
144 15 0.11
146 4 0.03
147 28 0.20
148 61 0.43
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (145 bp):
TATTTATAAATATAATATATATTATGAGAATTAAATTTTCTTTAAAGATAAAAGAAAAGTTTTCA
TGATAAAATGACACAAATGGTATATTTTATAGTGGAAGAGGAAGATTCTATATTTTGCTTTGTGT
TCCCCATGGACATGG
Found at i:214301 original size:15 final size:16
Alignment explanation
Indices: 214283--214312 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
214273 TTTTAAAAAC
214283 ATTTTAAGA-AAAATA
1 ATTTTAAGACAAAATA
214298 ATTTTAAGACAAAAT
1 ATTTTAAGACAAAAT
214313 TTTGGTCTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (16 bp):
ATTTTAAGACAAAATA
Found at i:216956 original size:25 final size:25
Alignment explanation
Indices: 216925--216997 Score: 123
Period size: 24 Copynumber: 3.0 Consensus size: 25
216915 AGTTAGGGGA
216925 TTAGGGTTTGAAACCCTAAACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
216950 TTAGGGTTTGAAACCCT-AACTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
*
216974 TTAGGG-TTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAAACTGAT
216998 GGTTGTTGGG
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
23 10 0.22
24 19 0.41
25 17 0.37
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAAACTGAT
Found at i:217483 original size:45 final size:45
Alignment explanation
Indices: 217354--217509 Score: 130
Period size: 41 Copynumber: 3.6 Consensus size: 45
217344 CTTTAGGAAG
*
217354 GGTGATAACTCGGTTCCTACGTGATGAGGACGGCTGGTTATC--A
1 GGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAA
* * * * * **
217397 GGT--TGACACGGCTCTTACGTGATGAAGA-GATCTGGCCATCTAAA
1 GGTGATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCT-AA
*
217441 GGTGATAACAC-GTTCCTACGTGATGAGGACGGCTGGTTATCTAT
1 GGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAA
* * *
217485 GGT--TGACACGGCTCATACGTGATGA
1 GGTGATAACACGGTTCCTACGTGATGA
217510 AGAGATCTGG
Statistics
Matches: 86, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
40 1 0.01
41 27 0.31
42 5 0.06
43 16 0.19
44 8 0.09
45 23 0.27
46 6 0.07
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (45 bp):
GGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAA
Found at i:217515 original size:88 final size:90
Alignment explanation
Indices: 217308--217519 Score: 306
Period size: 88 Copynumber: 2.4 Consensus size: 90
217298 CGTCTAAGGG
* * * * *
217308 TGACACGGCTCCTACGTGATGAGGAAATCTGGTCATCTTTAGGAAGGGTGATAACTCGGTTCCTA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGCCATC-TTA-GAAGGGTGATAACACGGTTCCTA
217373 CGTGATGAGGACGGCTGGTTATCAGGT
64 CGTGATGAGGACGGCTGGTTATCAGGT
*
217400 TGACACGGCTCTTACGTGATGAAGAGATCTGGCCATC-TA-AA-GGTGATAACAC-GTTCCTACG
1 TGACACGGCTCATACGTGATGAAGAGATCTGGCCATCTTAGAAGGGTGATAACACGGTTCCTACG
217461 TGATGAGGACGGCTGGTTATCTATGGT
66 TGATGAGGACGGCTGGTTATC-A-GGT
217488 TGACACGGCTCATACGTGATGAAGAGATCTGG
1 TGACACGGCTCATACGTGATGAAGAGATCTGG
217520 TCCGGGGGAT
Statistics
Matches: 112, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
86 30 0.27
87 11 0.10
88 36 0.32
90 2 0.02
92 33 0.29
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (90 bp):
TGACACGGCTCATACGTGATGAAGAGATCTGGCCATCTTAGAAGGGTGATAACACGGTTCCTACG
TGATGAGGACGGCTGGTTATCAGGT
Found at i:220307 original size:87 final size:84
Alignment explanation
Indices: 220145--220315 Score: 315
Period size: 87 Copynumber: 2.0 Consensus size: 84
220135 GTTCATTTTC
220145 CATGCTTCATTTTTCGGAGTATCTTCTTCAGTAACAAATATCATCAAGTCCTCATTCGGAAAATC
1 CATGCTTCATTTTTCGGAGTATCTTCTTCAGTAACAAATATCATCAAGTCCTCATTCGGAAAATC
220210 AAATTTTACTGGCTCATAG
66 AAATTTTACTGGCTCATAG
220229 CATGCTTCATTTTTCGGAGTATCTTCTTCAGTAACAAATATACTCATCAAGTCCTCATTCGGAAA
1 CATGCTTCATTTTTCGGAGTATCTTCTTCAGTAAC-AA-ATA-TCATCAAGTCCTCATTCGGAAA
220294 ATCAAATTTTACTGGCTCATAG
63 ATCAAATTTTACTGGCTCATAG
220316 TCTTCTAACG
Statistics
Matches: 84, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
84 35 0.42
85 2 0.02
86 3 0.04
87 44 0.52
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.36
Consensus pattern (84 bp):
CATGCTTCATTTTTCGGAGTATCTTCTTCAGTAACAAATATCATCAAGTCCTCATTCGGAAAATC
AAATTTTACTGGCTCATAG
Done.