Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008838.1 Hibiscus syriacus cultivar Beakdansim tig00112042_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: 388168
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:17800 original size:8 final size:8
Alignment explanation
Indices: 17785--17821 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
17775 GTATTCGATC
17785 TAAATTAA
1 TAAATTAA
*
17793 TCAATTAA
1 TAAATTAA
17801 TAAATTAA
1 TAAATTAA
17809 TAAATTAA
1 TAAATTAA
17817 -AAATT
1 TAAATT
17822 TCACGTACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 5 0.19
8 22 0.81
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAATTAA
Found at i:18221 original size:33 final size:34
Alignment explanation
Indices: 18167--18230 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
18157 GATATTTGAA
*
18167 AATTTTAAAGATCTATCTTATAGT-AATTTATGG
1 AATTTTAAAGATCTATCTTATAATAAATTTATGG
*
18200 AATTTTAAAGAT-TATTTTTATAATAAATTTA
1 AATTTTAAAGATCTA-TCTTATAATAAATTTA
18231 AAAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 2 0.07
33 19 0.70
34 6 0.22
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (34 bp):
AATTTTAAAGATCTATCTTATAATAAATTTATGG
Found at i:18915 original size:25 final size:25
Alignment explanation
Indices: 18881--18933 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
18871 ATGTTAAAAA
18881 AAATAATTTTTAAAAGTTCAACAGT
1 AAATAATTTTTAAAAGTTCAACAGT
*
18906 AAATAATTTTTAAAAGTTCAATAGT
1 AAATAATTTTTAAAAGTTCAACAGT
18931 AAA
1 AAA
18934 ATTAATATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.36
Consensus pattern (25 bp):
AAATAATTTTTAAAAGTTCAACAGT
Found at i:24188 original size:13 final size:13
Alignment explanation
Indices: 24172--24196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24162 TTAATAAATT
24172 AAATTAAAATTTG
1 AAATTAAAATTTG
24185 AAATTAAAATTT
1 AAATTAAAATTT
24197 AATTTTTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AAATTAAAATTTG
Found at i:25051 original size:32 final size:32
Alignment explanation
Indices: 25010--25104 Score: 190
Period size: 32 Copynumber: 3.0 Consensus size: 32
25000 TTACACCCCT
25010 AACCAATGACCTTACCTTGAATCGTCCTCACA
1 AACCAATGACCTTACCTTGAATCGTCCTCACA
25042 AACCAATGACCTTACCTTGAATCGTCCTCACA
1 AACCAATGACCTTACCTTGAATCGTCCTCACA
25074 AACCAATGACCTTACCTTGAATCGTCCTCAC
1 AACCAATGACCTTACCTTGAATCGTCCTCAC
25105 TGCCTATGAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.31, C:0.35, G:0.09, T:0.25
Consensus pattern (32 bp):
AACCAATGACCTTACCTTGAATCGTCCTCACA
Found at i:26077 original size:21 final size:20
Alignment explanation
Indices: 26036--26075 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
26026 AAACATCATA
26036 TATCAAATTATATTATAAAT
1 TATCAAATTATATTATAAAT
*
26056 TATCAATATTTTATTGATAA
1 TATCAA-ATTATATT-ATAA
26076 TTTGTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (20 bp):
TATCAAATTATATTATAAAT
Found at i:27850 original size:17 final size:17
Alignment explanation
Indices: 27824--27860 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
27814 TCAAACAAAC
27824 AATCTCGATGGTAAAAG
1 AATCTCGATGGTAAAAG
*
27841 AATCTTGATGGTAAAAG
1 AATCTCGATGGTAAAAG
27858 AAT
1 AAT
27861 GTAAATTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (17 bp):
AATCTCGATGGTAAAAG
Found at i:34160 original size:2 final size:2
Alignment explanation
Indices: 34153--34191 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
34143 AGTTAAACAA
34153 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34192 CTTTTGGCCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36787 original size:22 final size:22
Alignment explanation
Indices: 36745--36787 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
36735 TGCCAACGAT
* *
36745 AAAAGATCGACATAGATGAGAG
1 AAAAGATCGACAAAGAAGAGAG
36767 AAAAGATCGA-AGAAGAAGAGA
1 AAAAGATCGACA-AAGAAGAGA
36788 CATCTGCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.56, C:0.07, G:0.28, T:0.09
Consensus pattern (22 bp):
AAAAGATCGACAAAGAAGAGAG
Found at i:40302 original size:178 final size:178
Alignment explanation
Indices: 39966--40497 Score: 660
Period size: 178 Copynumber: 2.9 Consensus size: 178
39956 TTTTAAATTT
* *
39966 TTTTAAAGTTAAAGCATTATTATATTTATAAGAAAACACTAATTTCTCTTAAAT---AAAAAAAA
1 TTTTAAA-TTAAAACATTATTATATTTATAAGAAAACCCTAATTTCTCTTAAATAACAAAAAAAA
* * * *
40028 CCCAAATTCATAAAAATCCTAAATCCCAACTCTAGCATGTCGTTGCCACCCTTTCCAGCTACGAC
65 CCCAAATTCATAAAAATCCTAACT-CTAAC-C---C--GTCGTTGCCGCCCTTTCCAGCCACGAC
* * *** *
40093 CATTACCGTCGACTTAGTC-CATGTCATCCTCCTAGTCATGTGTCGTCGTAGTTAAA
123 CACTACCGCCGACTTAGTCTC-TGTCATCCTCCTAGTCATACATCGTCATAGTTAAA
* *
40149 TTTTAAATTAAAACATTATTATATTTATAAGAAACCCCTAATTTCTCTTAAATAACAAAAAAAAA
1 TTTTAAATTAAAACATTATTATATTTATAAGAAAACCCTAATTTCTCTTAAATAACAAAAAAAAC
* *
40214 CCAAATTCATAAAAATCCTAACTCTAACCCGTAGTTGCCGCCCTTTCCAGCCATGACCACTACCG
66 CCAAATTCATAAAAATCCTAACTCTAACCCGTCGTTGCCGCCCTTTCCAGCCACGACCACTACCG
*
40279 CCGACTTAGTCTCTGTCATCCTCCTACTCATACATCGTCATAGTTAAA
131 CCGACTTAGTCTCTGTCATCCTCCTAGTCATACATCGTCATAGTTAAA
40327 TTTTAAATTAAAACATTATTATATTTATAAGAAAACCCTAATTTCTCTTAAATAACAAAAAAAAC
1 TTTTAAATTAAAACATTATTATATTTATAAGAAAACCCTAATTTCTCTTAAATAACAAAAAAAA-
* *
40392 CCCAAATTCATAAAAATCCTAAATCCTAACTCTAACCCGCCGTTGCCGCCCTTTCCAACCACGAC
65 CCCAAATTCAT---AA----AAATCCTAACTCTAACCCGTCGTTGCCGCCCTTTCCAGCCACGAC
* * * *
40457 AACTACCACCGGCTTAGT-TCCCGTCATCCTCCTAGTCATAC
123 CACTACCGCCGACTTAGTCT-CTGTCATCCTCCTAGTCATAC
40498 GACATCGTAG
Statistics
Matches: 308, Mismatches: 28, Indels: 23
0.86 0.08 0.06
Matches are distributed among these distances:
178 133 0.43
179 11 0.04
180 1 0.00
182 45 0.15
183 8 0.03
184 4 0.01
185 31 0.10
186 75 0.24
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (178 bp):
TTTTAAATTAAAACATTATTATATTTATAAGAAAACCCTAATTTCTCTTAAATAACAAAAAAAAC
CCAAATTCATAAAAATCCTAACTCTAACCCGTCGTTGCCGCCCTTTCCAGCCACGACCACTACCG
CCGACTTAGTCTCTGTCATCCTCCTAGTCATACATCGTCATAGTTAAA
Found at i:41359 original size:29 final size:29
Alignment explanation
Indices: 41306--41392 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
41296 AACCCAACCC
**
41306 ATAGGTCGCCATGCACTCCCAGCGACCTC
1 ATAGGTCGCCATGCACTCCCAGCGACCAA
* **
41335 CTAGGTCGCCATGCACTCCGGGCGACCAA
1 ATAGGTCGCCATGCACTCCCAGCGACCAA
* *
41364 AGAGGTCGCCATGCACGCCC-GACGACCAA
1 ATAGGTCGCCATGCACTCCCAG-CGACCAA
41393 GCTTTTAACC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
28 1 0.02
29 47 0.98
ACGTcount: A:0.23, C:0.39, G:0.25, T:0.13
Consensus pattern (29 bp):
ATAGGTCGCCATGCACTCCCAGCGACCAA
Found at i:45510 original size:2 final size:2
Alignment explanation
Indices: 45503--45539 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
45493 TTGGAATTCT
45503 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
45540 TGGATTTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:52579 original size:668 final size:668
Alignment explanation
Indices: 51305--52641 Score: 2629
Period size: 668 Copynumber: 2.0 Consensus size: 668
51295 TTTCCTTAGA
*
51305 AAATGCATACTTTTGCTCTCTAAGAAGACACGATCGAATAGTACCACATGTCAATCTATTGATCC
1 AAATGCATACTTTTGCTCTCTAAGAAGACACGATCGAATAGTACCACATGTCAATCTATTGATCA
51370 TCTTCCATTCTTTCTTCTCAACATCATCTGGTTTCTCTCCTTCAATAGCAATGCCTAGACCCTGC
66 TCTTCCATTCTTTCTTCTCAACATCATCTGGTTTCTCTCCTTCAATAGCAATGCCTAGACCCTGC
51435 TGAAATAGGGCATCTAGAACCTCACTTTGCCACATGCCAAAATGACTGGTGTCATAAAAAATCTC
131 TGAAATAGGGCATCTAGAACCTCACTTTGCCACATGCCAAAATGACTGGTGTCATAAAAAATCTC
51500 CACTGTAAATCTAACATTTGTCACAGTATTGCTTGCCAAAATTGAAGATGAAGAAGCTGTTGACG
196 CACTGTAAATCTAACATTTGTCACAGTATTGCTTGCCAAAATTGAAGATGAAGAAGCTGTTGACG
51565 ACGATGTGGATGTTTTTGTGTCTTCTGTCATTTTTGCTACAAATTATATTTAATAGTTGTCAATG
261 ACGATGTGGATGTTTTTGTGTCTTCTGTCATTTTTGCTACAAATTATATTTAATAGTTGTCAATG
51630 CGGAATGTCAATTAGCCCAAGGAATTTTTTTATGATGTGGAATATCAGCCTAAGCAGCAACCACA
326 CGGAATGTCAATTAGCCCAAGGAATTTTTTTATGATGTGGAATATCAGCCTAAGCAGCAACCACA
51695 GAGCATACTAAAGTAAACCAAGAGCTCTGATGCCAATTGTTGTGGAATTCAGGTTAATTTCCACC
391 GAGCATACTAAAGTAAACCAAGAGCTCTGATGCCAATTGTTGTGGAATTCAGGTTAATTTCCACC
51760 AATAATAACAAATTCACCTTGAAAACTATTTTCTAAGTGACTAGTGTGAAAACGATTGTACTAAA
456 AATAATAACAAATTCACCTTGAAAACTATTTTCTAAGTGACTAGTGTGAAAACGATTGTACTAAA
51825 AATCACCCCAAGGTAGATTTCTAGGAAAGAGTAGAGGGGTCACAATGGTCCCTCTTAAAACTCAC
521 AATCACCCCAAGGTAGATTTCTAGGAAAGAGTAGAGGGGTCACAATGGTCCCTCTTAAAACTCAC
51890 TCTTCTTAGACAGAACTACCAAGACAAGTAATTTTAATTAGACAAAAATTAACAACAACTATACC
586 TCTTCTTAGACAGAACTACCAAGACAAGTAATTTTAATTAGACAAAAATTAACAACAACTATACC
51955 CGACAATAGATATTAAAT
651 CGACAATAGATATTAAAT
*
51973 AAATGCATACTTTTTCTCTCTAAGAAGACACGATCGAATAGTACCACATGTCAATCTATTGATCA
1 AAATGCATACTTTTGCTCTCTAAGAAGACACGATCGAATAGTACCACATGTCAATCTATTGATCA
*
52038 TCTTCCATTCTTTCTTCTCAACATCATCTGGTTTCTCTCCTTCAATAGCAATGTCTAGACCCTGC
66 TCTTCCATTCTTTCTTCTCAACATCATCTGGTTTCTCTCCTTCAATAGCAATGCCTAGACCCTGC
52103 TGAAATAGGGCATCTAGAACCTCACTTTGCCACATGCCAAAATGACTGGTGTCATAAAAAATCTC
131 TGAAATAGGGCATCTAGAACCTCACTTTGCCACATGCCAAAATGACTGGTGTCATAAAAAATCTC
*
52168 CACTGTAAATCTAACATTTGTCACAGTATTGGTTGCCAAAATTGAAGATGAAGAAGCTGTTGACG
196 CACTGTAAATCTAACATTTGTCACAGTATTGCTTGCCAAAATTGAAGATGAAGAAGCTGTTGACG
52233 ACGATGTGGATGTTTTTGTGTCTTCTGTCATTTTTGCTACAAATTATATTTAATAGTTGTCAATG
261 ACGATGTGGATGTTTTTGTGTCTTCTGTCATTTTTGCTACAAATTATATTTAATAGTTGTCAATG
52298 CGGAATGTCAATTAGCCCAAGGAATTTTTTTATGATGTGGAATATCAGCCTAAGCAGCAACCACA
326 CGGAATGTCAATTAGCCCAAGGAATTTTTTTATGATGTGGAATATCAGCCTAAGCAGCAACCACA
52363 GAGCATACTAAAGTAAACCAAGAGCTCTGATGCCAATTGTTGTGGAATTCAGGTTAATTTCCACC
391 GAGCATACTAAAGTAAACCAAGAGCTCTGATGCCAATTGTTGTGGAATTCAGGTTAATTTCCACC
*
52428 AATAATAACAAATTCACCTTGAAAAGTATTTTCTAAGTGACTAGTGTGAAAACGATTGTACTAAA
456 AATAATAACAAATTCACCTTGAAAACTATTTTCTAAGTGACTAGTGTGAAAACGATTGTACTAAA
52493 AATCACCCCAAGGTAGATTTCTAGGAAAGAGTAGAGGGGTCACAATGGTCCCTCTTAAAACTCAC
521 AATCACCCCAAGGTAGATTTCTAGGAAAGAGTAGAGGGGTCACAATGGTCCCTCTTAAAACTCAC
52558 TCTTCTTAGACAGAACTACCAAGACAAGTAATTTTAATTAGACAAAAATTAACAACAACTATACC
586 TCTTCTTAGACAGAACTACCAAGACAAGTAATTTTAATTAGACAAAAATTAACAACAACTATACC
52623 CGACAATAGATATTAAAT
651 CGACAATAGATATTAAAT
52641 A
1 A
52642 GACATAAAAG
Statistics
Matches: 664, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
668 664 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (668 bp):
AAATGCATACTTTTGCTCTCTAAGAAGACACGATCGAATAGTACCACATGTCAATCTATTGATCA
TCTTCCATTCTTTCTTCTCAACATCATCTGGTTTCTCTCCTTCAATAGCAATGCCTAGACCCTGC
TGAAATAGGGCATCTAGAACCTCACTTTGCCACATGCCAAAATGACTGGTGTCATAAAAAATCTC
CACTGTAAATCTAACATTTGTCACAGTATTGCTTGCCAAAATTGAAGATGAAGAAGCTGTTGACG
ACGATGTGGATGTTTTTGTGTCTTCTGTCATTTTTGCTACAAATTATATTTAATAGTTGTCAATG
CGGAATGTCAATTAGCCCAAGGAATTTTTTTATGATGTGGAATATCAGCCTAAGCAGCAACCACA
GAGCATACTAAAGTAAACCAAGAGCTCTGATGCCAATTGTTGTGGAATTCAGGTTAATTTCCACC
AATAATAACAAATTCACCTTGAAAACTATTTTCTAAGTGACTAGTGTGAAAACGATTGTACTAAA
AATCACCCCAAGGTAGATTTCTAGGAAAGAGTAGAGGGGTCACAATGGTCCCTCTTAAAACTCAC
TCTTCTTAGACAGAACTACCAAGACAAGTAATTTTAATTAGACAAAAATTAACAACAACTATACC
CGACAATAGATATTAAAT
Found at i:56625 original size:14 final size:14
Alignment explanation
Indices: 56591--56630 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
56581 TTATGGTTTG
*
56591 TTATTAGCTTGTTA
1 TTATTAGTTTGTTA
56605 -T-TT-GTTTGTTA
1 TTATTAGTTTGTTA
56616 TTATTAGTTTGTTA
1 TTATTAGTTTGTTA
56630 T
1 T
56631 GGTTTGTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
11 7 0.32
12 3 0.14
13 3 0.14
14 9 0.41
ACGTcount: A:0.17, C:0.03, G:0.15, T:0.65
Consensus pattern (14 bp):
TTATTAGTTTGTTA
Found at i:56627 original size:25 final size:24
Alignment explanation
Indices: 56570--56638 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 24
56560 TGTTAGAGCG
*
56570 TTATTAGTTTGTTATGGTTTG---
1 TTATTAGCTTGTTATGGTTTGTTA
*
56591 TTATTAGCTTGTTATTTGTTTGTTA
1 TTATTAGCTTGTTA-TGGTTTGTTA
*
56616 TTATTAGTTTGTTATGGTTTGTT
1 TTATTAGCTTGTTATGGTTTGTT
56639 GGTTACTTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 13 0.32
22 6 0.15
24 8 0.20
25 13 0.32
ACGTcount: A:0.14, C:0.01, G:0.20, T:0.64
Consensus pattern (24 bp):
TTATTAGCTTGTTATGGTTTGTTA
Found at i:56630 original size:11 final size:11
Alignment explanation
Indices: 56569--56618 Score: 66
Period size: 11 Copynumber: 4.6 Consensus size: 11
56559 ATGTTAGAGC
56569 GTTATTAGTTT
1 GTTATTAGTTT
*
56580 GTTA-TGGTTT
1 GTTATTAGTTT
*
56590 GTTATTAGCTT
1 GTTATTAGTTT
*
56601 GTTATTTGTTT
1 GTTATTAGTTT
56612 GTTATTA
1 GTTATTA
56619 TTAGTTTGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 9 0.28
11 23 0.72
ACGTcount: A:0.16, C:0.02, G:0.20, T:0.62
Consensus pattern (11 bp):
GTTATTAGTTT
Found at i:67979 original size:24 final size:24
Alignment explanation
Indices: 67952--68021 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
67942 TATCAAAATC
67952 TTTATTATTTATTATTTTTATTTA
1 TTTATTATTTATTATTTTTATTTA
* *
67976 TTTAGTT-TTTATATATTTTAATTTT
1 TTTA-TTATTTAT-TATTTTTATTTA
* *
68001 TTTGTATAATT-TTATTTTTAT
1 TTTAT-TATTTATTATTTTTAT
68022 AAAATTTACT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
24 18 0.49
25 17 0.46
26 2 0.05
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (24 bp):
TTTATTATTTATTATTTTTATTTA
Found at i:68003 original size:19 final size:18
Alignment explanation
Indices: 67981--68019 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
67971 ATTTATTTAG
67981 TTTT-TATATATTTTAATTT
1 TTTTGTATA-ATTTT-ATTT
68000 TTTTGTATAATTTTATTT
1 TTTTGTATAATTTTATTT
68018 TT
1 TT
68020 ATAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 9 0.47
20 4 0.21
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTGTATAATTTTATTT
Found at i:68008 original size:18 final size:18
Alignment explanation
Indices: 67981--68019 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
67971 ATTTATTTAG
67981 TTTTTATAT-ATTTTAATT
1 TTTTTATATAATTTT-ATT
*
67999 TTTTTGTATAATTTTATT
1 TTTTTATATAATTTTATT
68017 TTT
1 TTT
68020 ATAAAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTATATAATTTTATT
Found at i:68107 original size:24 final size:22
Alignment explanation
Indices: 68054--68095 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
68044 AAATTTATAG
*
68054 ATGTTTTT-TTACTCTTGTAAC
1 ATGTTTTTCCTACTCTTGTAAC
68075 ATGTTTTTCCTACTCTTGTAA
1 ATGTTTTTCCTACTCTTGTAA
68096 GACATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.19, C:0.17, G:0.10, T:0.55
Consensus pattern (22 bp):
ATGTTTTTCCTACTCTTGTAAC
Found at i:72506 original size:2 final size:2
Alignment explanation
Indices: 72499--72556 Score: 107
Period size: 2 Copynumber: 28.5 Consensus size: 2
72489 GCATAAATAC
72499 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
72541 AT AT AT AT AT AGT AT A
1 AT AT AT AT AT A-T AT A
72557 AGAAATGTTG
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 53 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:75483 original size:63 final size:63
Alignment explanation
Indices: 75384--75509 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
75374 CCTGATCAAC
75384 CGTGGGCCATCAGTTCCTTTGGATGGTGGAATACCAGAGGAAGCTTGGAGCAAGAAAGATATA
1 CGTGGGCCATCAGTTCCTTTGGATGGTGGAATACCAGAGGAAGCTTGGAGCAAGAAAGATATA
75447 CGTGGGCCATCAGTTCCTTTGGATGGTGGAATACCAGAGGAAGCTTGGAGCAAGAAAGATATA
1 CGTGGGCCATCAGTTCCTTTGGATGGTGGAATACCAGAGGAAGCTTGGAGCAAGAAAGATATA
75510 AACCTTTCAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (63 bp):
CGTGGGCCATCAGTTCCTTTGGATGGTGGAATACCAGAGGAAGCTTGGAGCAAGAAAGATATA
Found at i:78742 original size:26 final size:26
Alignment explanation
Indices: 78708--78757 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
78698 TATGCGAAGA
* * *
78708 GATGGACTTCTAAATTTTTAGGAGGG
1 GATGAACTTCTAAAATTTAAGGAGGG
*
78734 GATGAACTTTTAAAATTTAAGGAG
1 GATGAACTTCTAAAATTTAAGGAG
78758 CGAAAATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (26 bp):
GATGAACTTCTAAAATTTAAGGAGGG
Found at i:79169 original size:23 final size:23
Alignment explanation
Indices: 79138--79183 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
79128 TCCGTTTATA
*
79138 TGTTCATGAACGTGTTTATTTAG
1 TGTTCATGAACATGTTTATTTAG
* *
79161 TGTTTATGAACATGTTTGTTTAG
1 TGTTCATGAACATGTTTATTTAG
79184 ATTTCATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.50
Consensus pattern (23 bp):
TGTTCATGAACATGTTTATTTAG
Found at i:82158 original size:24 final size:23
Alignment explanation
Indices: 82127--82172 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
82117 AATTTTTACC
82127 TCTTTAAAATTTTATAAATTTAT
1 TCTTTAAAATTTTATAAATTTAT
*
82150 TCTTCTAAAATTTTATAAGTTTA
1 TCTT-TAAAATTTTATAAATTTA
82173 ACCCGACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (23 bp):
TCTTTAAAATTTTATAAATTTAT
Found at i:83216 original size:22 final size:21
Alignment explanation
Indices: 83191--83231 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
83181 AAAAATGGAA
83191 AATAACAAAACACATAAAAAAT
1 AATAACAAAACA-ATAAAAAAT
* *
83213 AATAATAAAATAATAAAAA
1 AATAACAAAACAATAAAAA
83232 TAAACAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (21 bp):
AATAACAAAACAATAAAAAAT
Found at i:83222 original size:11 final size:10
Alignment explanation
Indices: 83204--83249 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 10
83194 AACAAAACAC
83204 ATAAAAAATA
1 ATAAAAAATA
83214 ATAATAAAATA
1 ATAA-AAAATA
83225 AT-AAAAATA
1 ATAAAAAATA
*
83234 A-ACAAAATGA
1 ATAAAAAAT-A
83244 ATAAAA
1 ATAAAA
83250 TGTTAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
9 12 0.40
10 7 0.23
11 11 0.37
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (10 bp):
ATAAAAAATA
Found at i:83402 original size:36 final size:35
Alignment explanation
Indices: 83362--83486 Score: 100
Period size: 36 Copynumber: 3.5 Consensus size: 35
83352 TAATATTTAC
83362 TAAAACAAATAAAAATAATAAATATATAATACTAAG
1 TAAAACAAATAAAAATAATAAATATATAATA-TAAG
* *
83398 TAAAACAAATTAAAAATAA-AGATATACATGATATTAAG
1 TAAAACAAA-TAAAAATAATA-A-ATATATAATA-TAAG
*
83436 -AAAA-AAAT-AAAATAAAGTAAAAATATAATAT-A-
1 TAAAACAAATAAAAAT-AA-TAAATATATAATATAAG
*
83468 TATAAATAAATAAAAATAA
1 TA-AAACAAATAAAAATAA
83487 AATATTAAGA
Statistics
Matches: 73, Mismatches: 6, Indels: 21
0.73 0.06 0.21
Matches are distributed among these distances:
33 2 0.03
34 9 0.12
35 16 0.22
36 19 0.26
37 15 0.21
38 12 0.16
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (35 bp):
TAAAACAAATAAAAATAATAAATATATAATATAAG
Found at i:83502 original size:36 final size:38
Alignment explanation
Indices: 83462--83545 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 38
83452 GTAAAAATAT
83462 AATATATATAAATAA-ATA-AAAATAAAATATTAAG-AA
1 AATATATATAAA-AACATATAAAATAAAATATTAAGAAA
* *
83498 AATATATATAAAAACGTATAAAATATAATATTAAGAAA
1 AATATATATAAAAACATATAAAATAAAATATTAAGAAA
*
83536 AAAATATATA
1 AATATATATA
83546 CATAGTAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
35 2 0.05
36 14 0.33
37 15 0.36
38 11 0.26
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.29
Consensus pattern (38 bp):
AATATATATAAAAACATATAAAATAAAATATTAAGAAA
Found at i:83587 original size:2 final size:2
Alignment explanation
Indices: 83575--83654 Score: 62
Period size: 2 Copynumber: 42.0 Consensus size: 2
83565 TTAATACATC
* *
83575 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA -A TGA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
* * * *
83617 TA -A GA TA TA TA TA -A TA AA AA TA -A TA TA -A TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
83655 AAAAGAGGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
1 5 0.08
2 56 0.89
3 2 0.03
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (2 bp):
TA
Found at i:83644 original size:11 final size:12
Alignment explanation
Indices: 83630--83705 Score: 50
Period size: 12 Copynumber: 6.2 Consensus size: 12
83620 GATATATATA
83630 ATAAAAAT-AAT
1 ATAAAAATAAAT
*
83641 AT-AATATAAAT
1 ATAAAAATAAAT
*
83652 ATAAAAAGAGGAAT
1 ATAAAAATA--AAT
*
83666 ATAGTAAATAAAT
1 ATA-AAAATAAAT
*
83679 AAAAAAATATAAT
1 ATAAAAATA-AAT
*
83692 -TAAAAATATAT
1 ATAAAAATAAAT
83703 ATA
1 ATA
83706 TAGAGGACGA
Statistics
Matches: 49, Mismatches: 9, Indels: 13
0.69 0.13 0.18
Matches are distributed among these distances:
10 4 0.08
11 9 0.18
12 18 0.37
13 8 0.16
14 6 0.12
15 4 0.08
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (12 bp):
ATAAAAATAAAT
Found at i:86277 original size:32 final size:30
Alignment explanation
Indices: 86241--86314 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 30
86231 CATATTGTCT
86241 TCTTTTTTCTTCAAT-TTTCCTTTGTTTTTTTC
1 TCTTTTTTCTTC--TCTTTCCTTT-TTTTTTTC
* *
86273 TCTTTTTATTTTCTCTTTGCTTTTTTTTTTC
1 TCTTTTT-TCTTCTCTTTCCTTTTTTTTTTC
86304 TCTTTTGTTCT
1 TCTTTT-TTCT
86315 GATTGAATCT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
31 17 0.47
32 15 0.42
33 4 0.11
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.74
Consensus pattern (30 bp):
TCTTTTTTCTTCTCTTTCCTTTTTTTTTTC
Found at i:86284 original size:13 final size:14
Alignment explanation
Indices: 86254--86291 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
86244 TTTTTCTTCA
86254 ATTTTC-CTTTGTT
1 ATTTTCTCTTTGTT
*
86267 TTTTTCTCTTT-TT
1 ATTTTCTCTTTGTT
86280 ATTTTCTCTTTG
1 ATTTTCTCTTTG
86292 CTTTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.74
Consensus pattern (14 bp):
ATTTTCTCTTTGTT
Found at i:86297 original size:18 final size:18
Alignment explanation
Indices: 86274--86308 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
86264 GTTTTTTTCT
86274 CTTTTTATTTTCTCTTTG
1 CTTTTTATTTTCTCTTTG
*
86292 CTTTTTTTTTTCTCTTT
1 CTTTTTATTTTCTCTTT
86309 TGTTCTGATT
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:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (18 bp):
CTTTTTATTTTCTCTTTG
Found at i:86923 original size:25 final size:25
Alignment explanation
Indices: 86893--86941 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
86883 AATAACAAAT
86893 AAAACAAG-AAAAAATCAAAAATAAC
1 AAAACAAGTAAAAAAT-AAAAATAAC
*
86918 AAAACAAGTAAAAAATAATAATAA
1 AAAACAAGTAAAAAATAAAAATAA
86942 AATAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.76, C:0.08, G:0.04, T:0.12
Consensus pattern (25 bp):
AAAACAAGTAAAAAATAAAAATAAC
Found at i:86937 original size:22 final size:21
Alignment explanation
Indices: 86912--86952 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
86902 AAAAATCAAA
86912 AATAACAAAACAAGTAAAAAAT
1 AATAACAAAACAA-TAAAAAAT
* *
86934 AATAATAAAATAATAAAAA
1 AATAACAAAACAATAAAAA
86953 TAAACAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (21 bp):
AATAACAAAACAATAAAAAAT
Found at i:86954 original size:14 final size:13
Alignment explanation
Indices: 86901--86956 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
86891 ATAAAACAAG
86901 AAAAAATCAAAAAT
1 AAAAAAT-AAAAAT
* * *
86915 AACAAA-ACAAGT
1 AAAAAATAAAAAT
*
86927 AAAAAATAATAAT
1 AAAAAATAAAAAT
86940 AAAATAATAAAAAT
1 AAAA-AATAAAAAT
86954 AAA
1 AAA
86957 CAAAATGAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
12 9 0.28
13 7 0.22
14 16 0.50
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:87032 original size:17 final size:17
Alignment explanation
Indices: 87012--87059 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
87002 AAATTAATGG
87012 AGTAAAAAAATAAAAAA
1 AGTAAAAAAATAAAAAA
*
87029 AGTAAAAGAAAT-TAAAA
1 AGTAAAA-AAATAAAAAA
*
87046 AGGAATAAAAATAA
1 AGTAA-AAAAATAA
87060 TGTGTACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 19 0.76
18 6 0.24
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (17 bp):
AGTAAAAAAATAAAAAA
Found at i:87040 original size:18 final size:18
Alignment explanation
Indices: 87012--87046 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
87002 AAATTAATGG
87012 AGTAAAAAAA-TAAAAAA
1 AGTAAAAAAATTAAAAAA
87029 AGTAAAAGAAATTAAAAA
1 AGTAAAA-AAATTAAAAA
87047 GGAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (18 bp):
AGTAAAAAAATTAAAAAA
Found at i:87326 original size:2 final size:2
Alignment explanation
Indices: 87314--87362 Score: 57
Period size: 2 Copynumber: 25.0 Consensus size: 2
87304 TTAATACATC
* *
87314 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA -A TGA TA TA -A GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
87355 TA TA TA TA
1 TA TA TA TA
87363 ATAAAAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
1 2 0.05
2 37 0.90
3 2 0.05
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:87366 original size:14 final size:14
Alignment explanation
Indices: 87314--87385 Score: 58
Period size: 14 Copynumber: 5.0 Consensus size: 14
87304 TTAATACATC
* *
87314 TATACATATATATA
1 TATATATATAAATA
*
87328 TATATATATATATA
1 TATATATATAAATA
87342 TA-ATGATATAAGATA
1 TATAT-ATATAA-ATA
*
87357 TATATA-ATAAAAA
1 TATATATATAAATA
87370 TAATATAATATAAATA
1 T-ATAT-ATATAAATA
87386 AAAAAGAGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
13 5 0.10
14 28 0.58
15 7 0.15
16 8 0.17
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (14 bp):
TATATATATAAATA
Found at i:87375 original size:25 final size:27
Alignment explanation
Indices: 87327--87377 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
87317 ACATATATAT
* *
87327 ATATATATATATATATAATGATATAAG
1 ATATATATATATATAAAATAATATAAG
87354 ATATATATA-ATA-AAAATAATATAA
1 ATATATATATATATAAAATAATATAA
87378 TATAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 3 0.14
27 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
ATATATATATATATAAAATAATATAAG
Found at i:88669 original size:82 final size:84
Alignment explanation
Indices: 88459--88673 Score: 226
Period size: 85 Copynumber: 2.6 Consensus size: 84
88449 AGGTGTCATC
* * * *
88459 GAGCTGAATGGAATCGAACTCGACA-AT-TTTCGTTGACAGATAACCCTTCTTGCCTTGAGCTAT
1 GAGCTGAACGTAATCGAACTCGA-AGGTATTT-GTTGACAGATAACCCTTATTGCCTTGAGCTAT
* *
88522 GCTGCAAATTTGATTTACCTCT
64 ACTGCAAATTTGATGTA-CTCT
* * * * *
88544 GAGTTGAATGTAATCGAACTCGAAGGTCTTTGATGATAGATAACCCTTATTGCCTTGAG-TATAC
1 GAGCTGAACGTAATCGAACTCGAAGGTATTTGTTGACAGATAACCCTTATTGCCTTGAGCTATAC
88608 TGCAAATTATG-TGT-CT-T
66 TGCAAATT-TGATGTACTCT
* *
88625 GGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGTTGACAGATAACCCTT
1 -GAGCTGAACGTAATCGAACTCGAAGGTATTTGTTGACAGATAACCCTT
88674 CTTTGAGTGG
Statistics
Matches: 111, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
81 1 0.01
82 43 0.39
84 15 0.14
85 49 0.44
86 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (84 bp):
GAGCTGAACGTAATCGAACTCGAAGGTATTTGTTGACAGATAACCCTTATTGCCTTGAGCTATAC
TGCAAATTTGATGTACTCT
Found at i:89150 original size:106 final size:106
Alignment explanation
Indices: 88894--89375 Score: 566
Period size: 106 Copynumber: 4.6 Consensus size: 106
88884 AATTGGCTCT
* *
88894 GGAAATTATTTGTTGACAATCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTGTCTCGAGTC
1 GGAAATTATTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTATTGTCTCGAGTC
* * *
88959 TAATATCCTTCGTTGTGAAGTTGAAATTGACTCTG-AA-T-
66 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG
* * * *
88997 -GAAA-T-TTTATTGACAATCAGCCTCCCCTTCG-TCGTGAAGTTGAGCTTGTATTGTCTTGGGT
1 GGAAATTATTTGTTGACAATCAGCCGCCCCTTCGCT-GTGAAGTTGAGCTTGTATTGTCTCGAGT
* * * *
89058 CCAATATCCTTCGCTGGGAAGTTTAAATTGGCCCTAAAATTG
65 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG
* * * *
89100 GGAAGTTATTTGTTAACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGA-TGTCTTGAGT
1 GGAAATTATTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGT-ATTGTCTCGAGT
89164 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG
65 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG
* * * * * ** * * * *
89206 GGAAGTTGTTTGTTGACAACCAACCGTCCCTTCTTTGTGAAGTTGAACTTGTGTTGTCTCAAATC
1 GGAAATTATTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTATTGTCTCGAGTC
* *
89271 CAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAACTG
66 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG
* * * * * *
89312 GGAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTATCTCGAGT
1 GGAAATTATTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTATTGTCTCGAGT
89376 GGCACGATAT
Statistics
Matches: 324, Mismatches: 45, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
99 1 0.00
100 77 0.24
101 3 0.01
102 5 0.02
104 3 0.01
105 1 0.00
106 232 0.72
107 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (106 bp):
GGAAATTATTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTATTGTCTCGAGTC
CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG
Found at i:90124 original size:67 final size:66
Alignment explanation
Indices: 90041--90166 Score: 189
Period size: 66 Copynumber: 1.9 Consensus size: 66
90031 GTTGTTTCAT
**
90041 GAAAACGGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGATTTTGTGTTTA
1 GAAAACGGTCTCAAGGGAAACAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTA
90106 AA
65 AA
* * * *
90108 GAAAACTGTCTTAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGT
1 GAAAACGGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGT
90167 TTCAAGGGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
66 31 0.58
67 22 0.42
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (66 bp):
GAAAACGGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTAA
A
Found at i:90161 original size:66 final size:65
Alignment explanation
Indices: 90032--90213 Score: 204
Period size: 65 Copynumber: 2.8 Consensus size: 65
90022 AAGATATCTG
* * * **
90032 TTGTTTC-ATGAAAACGGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAAGAAAACTGTCTCAAGGGAGACAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGAT
90096 T
65 T
* * *
90097 TTGTGTTTAAAGAAAACTGTCTTAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 TTGT-TTCAAAGAAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
90162 T
65 T
* * * * * * *
90163 TTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAATTTGTTTCAAGAGAAA
1 TTGTTTCAAAGAAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA
90214 CTGTCTCAAG
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
65 41 0.42
66 33 0.34
67 23 0.24
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (65 bp):
TTGTTTCAAAGAAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:90214 original size:36 final size:36
Alignment explanation
Indices: 90162--90453 Score: 233
Period size: 36 Copynumber: 8.0 Consensus size: 36
90152 ATTCAAAGAT
* *
90162 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
90198 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* ** * *
90234 TTTAGTTCCAAAAGAAACTGTCTCAAGGGAAACATATTCAAATAA
1 TTT-GTTTCAAGGGAAACTGTCTCAA--G--AGAGA--C-AA-AA
*
90279 TTTGTTTCTAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
90315 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * *
90351 TTTATTTCAAGGGAAA-TGTTTTC-A-A-TG-----T
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
* * *
90379 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAATAT
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-AA
* * *
90417 TTTGTTTCAAGGGAAACTATCTCAAGGGAGATAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
90453 T
1 T
90454 CTTCTTTTTA
Statistics
Matches: 207, Mismatches: 28, Indels: 42
0.75 0.10 0.15
Matches are distributed among these distances:
28 2 0.01
29 15 0.07
30 3 0.01
32 1 0.00
33 1 0.00
34 1 0.00
35 3 0.01
36 92 0.44
37 51 0.25
38 4 0.02
39 1 0.00
40 3 0.01
41 3 0.01
42 1 0.00
43 1 0.00
44 20 0.10
45 5 0.02
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:90284 original size:117 final size:117
Alignment explanation
Indices: 90143--90354 Score: 343
Period size: 117 Copynumber: 1.8 Consensus size: 117
90133 TTTGTTTTAG
* * *
90143 GGGAAATAAATTCAAAGATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAATTTGTTTCAA
1 GGGAAACAAATTCAAAGAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAA
90208 GAGAAACTGTCTCAAGAGAGACAAAATTTAGTTCCAAAAGAAACTGTCTCAA
66 GAGAAACTGTCTCAAGAGAGACAAAATTTAGTTCCAAAAGAAACTGTCTCAA
* * * *
90260 GGGAAACATATTCAAATAATTTGTTTCTAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAA
1 GGGAAACAAATTCAAAGAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAA
* *
90325 GGGAAACTGTCTCAAGAGAGACGAAATTTA
66 GAGAAACTGTCTCAAGAGAGACAAAATTTA
90355 TTTCAAGGGA
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
117 86 1.00
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (117 bp):
GGGAAACAAATTCAAAGAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAA
GAGAAACTGTCTCAAGAGAGACAAAATTTAGTTCCAAAAGAAACTGTCTCAA
Found at i:90433 original size:37 final size:38
Alignment explanation
Indices: 90373--90447 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 38
90363 GAAATGTTTT
* *
90373 CAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA
1 CAATATTTATGTTTCAAGAGAAACTATCTCAAGGGAGA
*
90411 CAATATTT-TGTTTCAAGGGAAACTATCTCAAGGGAGA
1 CAATATTTATGTTTCAAGAGAAACTATCTCAAGGGAGA
90448 TAAAATCTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 27 0.79
38 7 0.21
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (38 bp):
CAATATTTATGTTTCAAGAGAAACTATCTCAAGGGAGA
Found at i:92123 original size:13 final size:13
Alignment explanation
Indices: 92101--92138 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
92091 TTTTTCTTCA
92101 ATTTTC-CTTTGTT
1 ATTTTCTCTTT-TT
92114 -TTTTCTCTTTTT
1 ATTTTCTCTTTTT
92126 ATTTTCTCTTTTT
1 ATTTTCTCTTTTT
92139 TCTCTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.05, C:0.16, G:0.03, T:0.76
Consensus pattern (13 bp):
ATTTTCTCTTTTT
Found at i:95278 original size:11 final size:10
Alignment explanation
Indices: 95260--95304 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 10
95250 AACAAAACAC
95260 ATAAAAAATA
1 ATAAAAAATA
95270 ATAATAAAAT-
1 ATAA-AAAATA
95280 A-AAAAAATA
1 ATAAAAAATA
95289 A-AAAAAATGA
1 ATAAAAAAT-A
95299 ATAAAA
1 ATAAAA
95305 TGTTAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 5 0.16
9 10 0.32
10 7 0.23
11 9 0.29
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (10 bp):
ATAAAAAATA
Found at i:95278 original size:13 final size:12
Alignment explanation
Indices: 95260--95304 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 12
95250 AACAAAACAC
95260 ATAAAAAATAATA
1 ATAAAAAA-AATA
*
95273 ATAAAATAAAAAA
1 ATAAAA-AAAATA
95286 ATAAAAAAAATGA
1 ATAAAAAAAAT-A
95299 ATAAAA
1 ATAAAA
95305 TGTTAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 4 0.14
13 22 0.79
14 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (12 bp):
ATAAAAAAAATA
Found at i:95554 original size:45 final size:43
Alignment explanation
Indices: 95425--95555 Score: 124
Period size: 45 Copynumber: 3.0 Consensus size: 43
95415 TTACTAAAAC
** *
95425 AAATAAAAATAATAA-ATATAT-AATACTAACTAAAACAAATAAA
1 AAATAAAAAT-ATAATATATATAAATAAAAAC-AAAAAAAATAAA
* * *
95468 AAATAAAGATATACATGATAT-TAAAAAAAAAATAAAAAAAATAAA
1 AAATAAAAATATA-AT-ATATAT-AAATAAAAACAAAAAAAATAAA
95513 AAAGTAAAAATATAATATATATAAATAAAAACAAAATAAAATA
1 AAA-TAAAAATATAATATATATAAATAAAAACAAAA-AAAATA
95556 TTAAGAATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 14
0.76 0.10 0.15
Matches are distributed among these distances:
42 3 0.04
43 10 0.14
44 17 0.24
45 27 0.38
46 14 0.20
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (43 bp):
AAATAAAAATATAATATATATAAATAAAAACAAAAAAAATAAA
Found at i:95568 original size:37 final size:37
Alignment explanation
Indices: 95526--95609 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 37
95516 GTAAAAATAT
95526 AATATATATAAATAA-AAACAAAATAAAATATTAAGAA
1 AATATATATAAA-AACAAACAAAATAAAATATTAAGAA
* ** * *
95563 TATATATATAAAAACGTATAAAATATAATATTAAGAA
1 AATATATATAAAAACAAACAAAATAAAATATTAAGAA
*
95600 AAAATATATA
1 AATATATATA
95610 CATAGTAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 2 0.05
37 37 0.95
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (37 bp):
AATATATATAAAAACAAACAAAATAAAATATTAAGAA
Found at i:95645 original size:2 final size:2
Alignment explanation
Indices: 95638--95697 Score: 106
Period size: 2 Copynumber: 31.0 Consensus size: 2
95628 TTAATACATC
95638 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
95680 -A TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA
95698 AATAATAGAG
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 54 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:95749 original size:16 final size:17
Alignment explanation
Indices: 95709--95750 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
95699 ATAATAGAGG
95709 AATATATTAAATAAATAA
1 AATATA-TAAATAAATAA
* *
95727 AAAATATAATTAAA-AA
1 AATATATAAATAAATAA
95743 AATATATA
1 AATATATA
95751 TAGATGACGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 9 0.43
17 7 0.33
18 5 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AATATATAAATAAATAA
Found at i:102598 original size:154 final size:152
Alignment explanation
Indices: 102313--102612 Score: 368
Period size: 154 Copynumber: 2.0 Consensus size: 152
102303 TGCGAATAAT
* * * ** ** ** * *
102313 ATTCTTTGAATTTTTGAACGAAATACATTAATATTTAATTATTTACTATCTAGAAGAATCGGCCT
1 ATTCCTTGAATTTTAGAACGAAAAACAAAAATATTTAATTATTTACTATAGAGAAGAAAAGACAT
*
102378 CTCATGTCTTAAAGCAATCAATTCATATTCCAATCGAAATAAAGAAATATTACAATTCCATTCTA
66 CTCATGTCTTAAAGCAATCAATTCATACTCCAATCGAAATAAAGAAATATTACAATTCCATTCTA
102443 AAAGTTCATTATTAATTCCAACAC
131 AAA--TCATTATTAATTCCAACAC
* *
102467 ATTCCTTGAATTTTAGTACGAAAAACAAAAATATTTAATTATTTTCTATAGAGAAGAAAAGACAT
1 ATTCCTTGAATTTTAGAACGAAAAACAAAAATATTTAATTATTTACTATAGAGAAGAAAAGACAT
* ** * * * * *
102532 CTCATG-CTTTAGAGCAATCTTTTCTTACTCCAATCGAAATAGAGAAATATTACTATTTCTTTCT
66 CTCATGTC-TTAAAGCAATCAATTCATACTCCAATCGAAATAAAGAAATATTACAATTCCATTCT
102596 AAAATCATTATTAATTC
130 AAAATCATTATTAATTC
102613 GAATGCATAA
Statistics
Matches: 123, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
152 13 0.11
153 1 0.01
154 109 0.89
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (152 bp):
ATTCCTTGAATTTTAGAACGAAAAACAAAAATATTTAATTATTTACTATAGAGAAGAAAAGACAT
CTCATGTCTTAAAGCAATCAATTCATACTCCAATCGAAATAAAGAAATATTACAATTCCATTCTA
AAATCATTATTAATTCCAACAC
Found at i:103478 original size:28 final size:29
Alignment explanation
Indices: 103420--103481 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
103410 AAATACATTT
103420 ATAAAAAGTATAAAGGCTAAAATGATTAA
1 ATAAAAAGTATAAAGGCTAAAATGATTAA
*
103449 ATAATAAA-TATAAGGGCT-AAA-GATATAA
1 ATAA-AAAGTATAAAGGCTAAAATGAT-TAA
103477 ATAAA
1 ATAAA
103482 CCAAAATAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 4 0.13
28 10 0.33
29 13 0.43
30 3 0.10
ACGTcount: A:0.60, C:0.03, G:0.13, T:0.24
Consensus pattern (29 bp):
ATAAAAAGTATAAAGGCTAAAATGATTAA
Found at i:104362 original size:22 final size:22
Alignment explanation
Indices: 104334--104378 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
104324 TATTTCATGC
104334 TTTTTCATTTTTTTAATTAATG
1 TTTTTCATTTTTTTAATTAATG
104356 TTTTTCATTTTTTTAATTAATG
1 TTTTTCATTTTTTTAATTAATG
104378 T
1 T
104379 AGGGTATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTTCATTTTTTTAATTAATG
Found at i:111081 original size:18 final size:18
Alignment explanation
Indices: 111048--111083 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
111038 TCGGCTCAAA
**
111048 GTCAACGGTTTGGGTCGG
1 GTCAACGGTTCAGGTCGG
111066 GTCAACGGTTCAGGTCGG
1 GTCAACGGTTCAGGTCGG
111084 ACAAGTAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.19, G:0.42, T:0.25
Consensus pattern (18 bp):
GTCAACGGTTCAGGTCGG
Found at i:112782 original size:18 final size:17
Alignment explanation
Indices: 112759--112838 Score: 69
Period size: 18 Copynumber: 4.8 Consensus size: 17
112749 TAATAATGAT
112759 AAAATAACATAAAAATAA
1 AAAATAA-ATAAAAATAA
*
112777 AAAATAAGT--AAA-AA
1 AAAATAAATAAAAATAA
*
112791 AAGATAAATAAAAATAAA
1 AAAATAAATAAAAAT-AA
*
112809 AAAGATAAATAAAAATTA
1 AAA-ATAAATAAAAATAA
*
112827 TAAAT-AATAAAA
1 AAAATAAATAAAA
112839 GAACCGAGTG
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
14 9 0.18
15 3 0.06
16 10 0.20
17 3 0.06
18 14 0.27
19 12 0.24
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (17 bp):
AAAATAAATAAAAATAA
Found at i:112809 original size:19 final size:19
Alignment explanation
Indices: 112787--112824 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
112777 AAAATAAGTA
112787 AAAAAAGATAAATAAAAAT
1 AAAAAAGATAAATAAAAAT
112806 AAAAAAGATAAATAAAAAT
1 AAAAAAGATAAATAAAAAT
112825 TATAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAAAAGATAAATAAAAAT
Found at i:112829 original size:13 final size:13
Alignment explanation
Indices: 112802--112840 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
112792 AGATAAATAA
112802 AAATAAAAAAGAT
1 AAATAAAAAAGAT
**
112815 AAATAAAAATTAT
1 AAATAAAAAAGAT
112828 AAATAATAAAAGA
1 AAATAA-AAAAGA
112841 ACCGAGTGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (13 bp):
AAATAAAAAAGAT
Found at i:112833 original size:32 final size:31
Alignment explanation
Indices: 112762--112823 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 31
112752 TAATGATAAA
*
112762 ATAACATAAAAATAAAAAATAAGTAAAAAAAG
1 ATAA-ATAAAAATAAAAAATAAATAAAAAAAG
112794 ATAAATAAAAATAAAAAAGATAAATAAAAA
1 ATAAATAAAAAT-AAAAA-ATAAATAAAAA
112824 TTATAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 8 0.30
32 9 0.33
33 10 0.37
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (31 bp):
ATAAATAAAAATAAAAAATAAATAAAAAAAG
Found at i:123346 original size:19 final size:19
Alignment explanation
Indices: 123322--123374 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
123312 AATGACCAAC
123322 AAAATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
123341 AAAATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
123360 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
123375 TCCCCAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.51, C:0.23, G:0.17, T:0.09
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:123490 original size:20 final size:20
Alignment explanation
Indices: 123465--123657 Score: 78
Period size: 20 Copynumber: 9.7 Consensus size: 20
123455 GATTTTCAAG
* *
123465 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
123485 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
123505 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
123525 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
123545 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
123565 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
123585 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
123605 AATCGCAACGATAATCA-GTA
1 AATCGCAACGCGAA-CACATA
* *
123625 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
123645 AATCGCAACGCGA
1 AATCGCAACGCGA
123658 TTTTTAAAGC
Statistics
Matches: 151, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
19 3 0.02
20 145 0.96
21 3 0.02
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:123512 original size:40 final size:40
Alignment explanation
Indices: 123465--123656 Score: 154
Period size: 40 Copynumber: 4.8 Consensus size: 40
123455 GATTTTCAAG
*
123465 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTAAC-CATA
* * * * * *
123505 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTAACCATA
* * * * * *
123545 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTAACCATA
* * * * * *
123585 TATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCAGTA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTAACCA-TA
* * *
123625 AATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AATCGCAACGCGAATACGAAAATCGCAACGCG
123657 ATTTTTAAAG
Statistics
Matches: 132, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 3 0.02
40 127 0.96
41 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (40 bp):
AATCGCAACGCGAATACGAAAATCGCAACGCGTAACCATA
Found at i:123548 original size:60 final size:60
Alignment explanation
Indices: 123465--123656 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
123455 GATTTTCAAG
* ** * *
123465 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACGTAAATCGCAACGCGTATCCGTA
* * *
123525 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATC-CGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACGTAAATCGCAACGCGTATCCGTA
* **
123585 TATCGCAACGCGTATCCGTAAATCGCAACGATAATCA-GTAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CACGTAAATCGCAACGCGTATCCGTA
123645 AATCGCAACGCG
1 AATCGCAACGCG
123657 ATTTTTAAAG
Statistics
Matches: 114, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
59 1 0.01
60 111 0.97
61 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACGTAAATCGCAACGCGTATCCGTA
Found at i:124074 original size:33 final size:33
Alignment explanation
Indices: 124035--124105 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
124025 TTCACTTAGA
124035 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
124068 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
124101 TTTCA
1 TTTCA
124106 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:124210 original size:21 final size:20
Alignment explanation
Indices: 124184--124290 Score: 102
Period size: 21 Copynumber: 5.5 Consensus size: 20
124174 TGCAGAAGAG
124184 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
124205 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
124225 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
124247 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
124261 TCGCAACGTG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
124280 TCGCAACGAGA
1 TCGCAACGAGA
124291 GAATCGCAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 11 0.16
20 9 0.13
21 25 0.36
22 10 0.14
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:124264 original size:14 final size:14
Alignment explanation
Indices: 124245--124301 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
124235 GAAAAATGAA
124245 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
124259 AATCGCAACGTGAAATGAA
1 AATCGCAAC--G--A-GAG
124278 AATCGCAACGAGAG
1 AATCGCAACGAGAG
124292 AATCGCAACG
1 AATCGCAACG
124302 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 21 0.58
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.31
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:124276 original size:33 final size:33
Alignment explanation
Indices: 124238--124317 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
124228 GCAACGAGAA
*
124238 AAATGAAAATCGCAACGAGAGAATCGCAACGTG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
124271 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
124304 AAACCAAAATCGCA
1 AAATGAAAATCGCA
124318 TTGCGATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:124369 original size:21 final size:21
Alignment explanation
Indices: 124343--124407 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
124333 CGCGTTGCGA
124343 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
124364 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
124384 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
124405 TTC
1 TTC
124408 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:124404 original size:20 final size:20
Alignment explanation
Indices: 124342--124405 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
124332 TCGCGTTGCG
124342 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
124362 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
124383 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
124403 ATT
1 ATT
124406 TCAACCAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:126258 original size:92 final size:92
Alignment explanation
Indices: 126088--126399 Score: 567
Period size: 92 Copynumber: 3.4 Consensus size: 92
126078 TAGATTGCTT
*
126088 AGTAAATTTATTCGGTTGCTG-CAATTCTGCTAAA-TGTGTATTCTTTAACACTGTGAAATAGTC
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGT-
*
126151 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
65 ATTGTCTTTGTTTTGTCTTTTGGTTGAA
126179 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
126244 TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTGTCTTTGTTTTGTCTTTTGGTTGAA
126271 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
126336 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
126363 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
126400 AATACCCTGA
Statistics
Matches: 216, Mismatches: 2, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
91 20 0.09
92 143 0.66
93 53 0.25
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (92 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:126542 original size:33 final size:33
Alignment explanation
Indices: 126497--126619 Score: 167
Period size: 33 Copynumber: 3.7 Consensus size: 33
126487 TAGTTTACTT
* * *
126497 TCGCAACACGAAACTTAAAATCGCAACG-GAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
126530 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
* *
126563 TCGCAACGCTAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
126596 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
126620 TTGCGATTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
32 12 0.15
33 68 0.85
ACGTcount: A:0.46, C:0.28, G:0.17, T:0.10
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:126566 original size:14 final size:14
Alignment explanation
Indices: 126545--126603 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
126535 ACGCGAAATG
126545 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
126559 AGAATCGCAACGCTAAACC
1 AAAATCGCAACG----A-C
126578 AAAATCGCAACGAC
1 AAAATCGCAACGAC
126592 AAAATCGCAACG
1 AAAATCGCAACG
126604 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 24 0.63
15 1 0.03
18 1 0.03
19 12 0.32
ACGTcount: A:0.47, C:0.29, G:0.15, T:0.08
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:126585 original size:19 final size:18
Alignment explanation
Indices: 126528--126619 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 18
126518 CGCAACGGAG
**
126528 AATCGCAACGCGAAATGAA
1 AATCGCAACGC-AAACCAA
*
126547 AATCGCAACG---A-CAG
1 AATCGCAACGCAAACCAA
126561 AATCGCAACGCTAAACCAA
1 AATCGCAACGC-AAACCAA
126580 AATCGCAACG---A-CAA
1 AATCGCAACGCAAACCAA
126594 AATCGCAACGCGAAACCAA
1 AATCGCAACGC-AAACCAA
126613 AATCGCA
1 AATCGCA
126620 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.40
15 2 0.03
18 2 0.03
19 32 0.53
ACGTcount: A:0.47, C:0.28, G:0.16, T:0.09
Consensus pattern (18 bp):
AATCGCAACGCAAACCAA
Found at i:126637 original size:19 final size:18
Alignment explanation
Indices: 126615--126747 Score: 101
Period size: 19 Copynumber: 7.8 Consensus size: 18
126605 GAAACCAAAA
126615 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGATTTTCATT
*
126634 TCGCGTTGCGA--TTC-TC
1 TCGC-TTGCGATTTTCATT
126650 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
*
126667 TCGCATTGCGA--TTC-TG
1 TCGC-TTGCGATTTTCATT
126683 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
*
126700 TCGCGTTGCGA--TTC-TC
1 TCGC-TTGCGATTTTCATT
*
126716 TCG-TTGCGATTCTCATT
1 TCGCTTGCGATTTTCATT
126733 TCGCGTTGCGATTTT
1 TCGC-TTGCGATTTT
126748 AAGTTTCGTG
Statistics
Matches: 90, Mismatches: 9, Indels: 30
0.70 0.07 0.23
Matches are distributed among these distances:
14 18 0.20
16 20 0.22
17 21 0.23
19 31 0.34
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (18 bp):
TCGCTTGCGATTTTCATT
Found at i:126656 original size:14 final size:14
Alignment explanation
Indices: 126637--126729 Score: 69
Period size: 14 Copynumber: 5.9 Consensus size: 14
126627 TTTCATTTCG
126637 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
126651 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
126668 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
*
126684 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
126703 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
126717 CGTTGCGATTCTC
1 CGTTGCGATTCTC
126730 ATTTCGCGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 29 0.45
16 10 0.16
17 10 0.16
19 15 0.23
ACGTcount: A:0.10, C:0.25, G:0.22, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:126662 original size:33 final size:33
Alignment explanation
Indices: 126620--126745 Score: 225
Period size: 33 Copynumber: 3.8 Consensus size: 33
126610 CAAAATCGCA
126620 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
126653 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
126686 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
126719 TTGCGATTCTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
126746 TTAAGTTTCG
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:126760 original size:20 final size:19
Alignment explanation
Indices: 126684--126763 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
126674 GCGATTCTGT
* *
126684 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTCTAATTTCG
*
126703 CGTTGCGATTC-----TCT
1 CGTTGCGATTCTAATTTCG
*
126717 CGTTGCGATTCTCATTTCG
1 CGTTGCGATTCTAATTTCG
*
126736 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTCTAA-TTTCG
*
126756 TGTTGCGA
1 CGTTGCGA
126764 AAGTAAACTA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
14 13 0.27
19 24 0.49
20 12 0.24
ACGTcount: A:0.11, C:0.21, G:0.24, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTCTAATTTCG
Found at i:128689 original size:13 final size:14
Alignment explanation
Indices: 128664--128698 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
128654 ATTGTTTAAT
128664 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
128678 TGATTTGT-AAAGT
1 TGATTTGTAAAAGA
128691 TGATTTGT
1 TGATTTGT
128699 GTAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:128860 original size:20 final size:19
Alignment explanation
Indices: 128795--128870 Score: 99
Period size: 19 Copynumber: 4.2 Consensus size: 19
128785 TGAAATGAAA
128795 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
*
128814 GCAA--CG--A-GAGAATC
1 GCAATGCGAAATGAAAATC
128828 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
128847 GCAATGCGGAAATGAAAATC
1 GCAATGC-GAAATGAAAATC
128867 GCAA
1 GCAA
128871 CGAGAGAATC
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 17 0.35
20 16 0.33
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (19 bp):
GCAATGCGAAATGAAAATC
Found at i:128907 original size:19 final size:19
Alignment explanation
Indices: 128879--129118 Score: 229
Period size: 19 Copynumber: 13.7 Consensus size: 19
128869 AACGAGAGAA
*
128879 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
128898 TCGCATTGCGATTTTCA-T
1 TCGCATTGCGATTTTCATT
*
128916 TCTGCATTGCGA--TTC-TC
1 TC-GCATTGCGATTTTCATT
128933 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
128950 TCGCATTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
*
128969 T-GCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
128984 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
129001 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
129020 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
129037 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
129053 TTGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
129072 TCCGCATTGCGATTTTC--T
1 T-CGCATTGCGATTTTCATT
*
129090 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
129106 TCGCATTGCGATT
1 TCGCATTGCGATT
129119 CTCTCGTTGC
Statistics
Matches: 183, Mismatches: 13, Indels: 50
0.74 0.05 0.20
Matches are distributed among these distances:
14 28 0.15
15 5 0.03
16 19 0.10
17 16 0.09
18 22 0.12
19 69 0.38
20 24 0.13
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:128945 original size:33 final size:33
Alignment explanation
Indices: 128903--129065 Score: 122
Period size: 33 Copynumber: 4.8 Consensus size: 33
128893 TCATTTCGCA
128903 TTGCGATTTTCATTCTGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTCTGCATTGCGATTCTCTCG
* *
128936 TTGCGATTTTCATT-TCGCATTGCAATT-T-TCAT
1 TTGCGATTTTCATTCT-GCATTGCGATTCTCTC-G
* * * *
128968 TTGC-A-TTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 TTGCGATTTTC-ATTCT-GCATTGCGA--TTC-TCTCG
*
129004 CATTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 --TTGCGATTTTCA-TTCTGCATTGCGATTCTCTCG
*
129040 TTGCGA-TTTCATTTTGCATTGCGATT
1 TTGCGATTTTCATTCTGCATTGCGATT
129066 TTCATTTCCG
Statistics
Matches: 102, Mismatches: 14, Indels: 29
0.70 0.10 0.20
Matches are distributed among these distances:
30 3 0.03
31 6 0.06
32 27 0.26
33 29 0.28
34 8 0.08
36 5 0.05
37 5 0.05
38 4 0.04
39 9 0.09
40 6 0.06
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTCTGCATTGCGATTCTCTCG
Found at i:128947 original size:52 final size:53
Alignment explanation
Indices: 128885--129118 Score: 386
Period size: 52 Copynumber: 4.5 Consensus size: 53
128875 AGAATCGCAA
*
128885 TGCGATTTTCATTTCGCATTGCGATTTTCA-TTCTGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
128937 TGCGATTTTCATTTCGCATTGCAATTTTCATTT--GCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
128988 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
* * *
129041 TGCGA-TTTCATTTTGCATTGCGATTTTCATTTCCGCATTGCGATTTTCTTGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
129093 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
129119 CTCTCGTTGC
Statistics
Matches: 171, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
51 50 0.29
52 77 0.45
53 44 0.26
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (53 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:129151 original size:105 final size:103
Alignment explanation
Indices: 128885--129118 Score: 353
Period size: 103 Copynumber: 2.3 Consensus size: 103
128875 AGAATCGCAA
* *
128885 TGCGATTTTCATTTCGCATTGCGATTTTCA-TTCTGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTCTCTCGTTGCGA-TTTCAT
128949 TTCGCATTGCAATTTTCATTTGCATTGCGATTCTCTCGT
65 TTCGCATTGCAATTTTCATTTGCATTGCGATTCTCTCGT
* *
128988 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTCATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTCTCTCGTTGCGATTTCATT
* * * *
129053 TTGCATTGCGATTTTCATTTCCGCATTGCGATTTTCTTGT
66 TCGCATTGCAATTTTCATTT--GCATTGCGATTCTCTCGT
*
129093 TGGGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
129119 CTCTCGTTGC
Statistics
Matches: 122, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
103 55 0.45
104 26 0.21
105 41 0.34
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (103 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCAGTTCCGCATTGCAATTCTCTCGTTGCGATTTCATT
TCGCATTGCAATTTTCATTTGCATTGCGATTCTCTCGT
Found at i:131414 original size:12 final size:12
Alignment explanation
Indices: 131397--131421 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
131387 TCTTCGGGGA
131397 CTTTTTCTTCTT
1 CTTTTTCTTCTT
131409 CTTTTTCTTCTT
1 CTTTTTCTTCTT
131421 C
1 C
131422 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:131629 original size:24 final size:24
Alignment explanation
Indices: 131595--131641 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
131585 CTGAAACATC
131595 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
131619 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
131642 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:132361 original size:20 final size:20
Alignment explanation
Indices: 132333--132521 Score: 193
Period size: 20 Copynumber: 9.4 Consensus size: 20
132323 AAATTTCAGT
* * *
132333 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
* **
132353 GTTGCGATTTACTGATTATC
1 GTTGCGATTTACGGATTCGC
*
132373 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
132393 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
132413 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
132433 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
132453 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
*
132473 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
132493 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
132513 GTTGCGATT
1 GTTGCGATT
132522 CTGTAAAATC
Statistics
Matches: 150, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 149 0.99
21 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:132539 original size:21 final size:20
Alignment explanation
Indices: 132515--132585 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
132505 ATATTCGCGT
132515 TGCGATTCTGTAAAATCGCAA
1 TGCGATT-TGTAAAATCGCAA
** *
132536 TGCGAATTTGTACTATCGCAT
1 TGCG-ATTTGTAAAATCGCAA
**
132557 TGCGA-TTGTCAAGAATCGCGT
1 TGCGATTTGT-AA-AATCGCAA
132578 TGCGATTT
1 TGCGATTT
132586 TGGAAACTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
19 4 0.10
20 2 0.05
21 29 0.73
22 5 0.12
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
TGCGATTTGTAAAATCGCAA
Found at i:137723 original size:2 final size:2
Alignment explanation
Indices: 137716--137749 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
137706 TTTATTTACT
137716 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
137750 AGTAGGACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:145389 original size:28 final size:28
Alignment explanation
Indices: 145351--145404 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
145341 TCCAAGATCA
* *
145351 AGATAACTAAATTCCTCTATCACACTCG
1 AGATAACTAAATCCCTCCATCACACTCG
145379 AGATAACTAAATCCCTCCATCACACT
1 AGATAACTAAATCCCTCCATCACACT
145405 TAAGCTCCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.37, C:0.31, G:0.06, T:0.26
Consensus pattern (28 bp):
AGATAACTAAATCCCTCCATCACACTCG
Found at i:152292 original size:50 final size:50
Alignment explanation
Indices: 152217--152312 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
152207 TCACCTAAAG
* *
152217 AAAGATGATACATATTGACAAGAAGCTAAAAGAAAGATGATAAGAAGGAA
1 AAAGACGATACATACTGACAAGAAGCTAAAAGAAAGATGATAAGAAGGAA
* * **
152267 AAAGACGATATATACTGACAAGAAGCTACAATCAAGATGATAAGAA
1 AAAGACGATACATACTGACAAGAAGCTAAAAGAAAGATGATAAGAA
152313 ACAAAGAAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.54, C:0.09, G:0.20, T:0.17
Consensus pattern (50 bp):
AAAGACGATACATACTGACAAGAAGCTAAAAGAAAGATGATAAGAAGGAA
Found at i:158755 original size:13 final size:12
Alignment explanation
Indices: 158736--158776 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 12
158726 AAGTCAAAGG
158736 AAAAGAATAAAA
1 AAAAGAATAAAA
158748 AAATAGAATAAAA
1 AAA-AGAATAAAA
158761 AAAAGAAATAAAA
1 AAAAG-AATAAAA
158774 AAA
1 AAA
158777 CAAAAAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.19
13 22 0.81
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (12 bp):
AAAAGAATAAAA
Found at i:158801 original size:14 final size:14
Alignment explanation
Indices: 158778--158810 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
158768 ATAAAAAAAC
158778 AAAAAAGATAA-AT
1 AAAAAAGATAAGAT
158791 AAAATAAGATAAGAT
1 AAAA-AAGATAAGAT
158806 AAAAA
1 AAAAA
158811 TAATTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 8 0.44
15 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (14 bp):
AAAAAAGATAAGAT
Found at i:160146 original size:3 final size:3
Alignment explanation
Indices: 160138--160247 Score: 107
Period size: 3 Copynumber: 34.3 Consensus size: 3
160128 AACGAAAGAA
160138 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
* *
160183 AAT AAAT AAAT AAAT AACT AATT AAT AA- AAC AAGT AAAT AGAA AAT AAT
1 AAT -AAT -AAT -AAT AA-T AA-T AAT AAT AAT AA-T -AAT A-AT AAT AAT
160232 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
160248 CTATAAAATA
Statistics
Matches: 95, Mismatches: 4, Indels: 16
0.83 0.03 0.14
Matches are distributed among these distances:
2 4 0.04
3 66 0.69
4 23 0.24
5 2 0.02
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:160478 original size:37 final size:36
Alignment explanation
Indices: 160262--160516 Score: 311
Period size: 37 Copynumber: 6.9 Consensus size: 36
160252 AAAATATATA
*
160262 TTTCAAAAAATGTTTTTTTAAAACTATACATTATATAA-
1 TTTC-AAAAATG--TTTTTAAAACTATATATTATATAAT
*
160300 TTTCAAAAA--TTTTTAAAACTATACATTATATAA-
1 TTTCAAAAATGTTTTTAAAACTATATATTATATAAT
160333 TTTCAAAAATGTTTTTAAAACTATATATTATATAATT
1 TTTCAAAAATGTTTTTAAAACTATATATTATATAA-T
160370 TTTCAAAAATGTTTTTAAAACTATATATTATATAAT
1 TTTCAAAAATGTTTTTAAAACTATATATTATATAAT
* *
160406 CTTTCAAAAATGTTTTAAAAACTATATATCATATAAT
1 -TTTCAAAAATGTTTTTAAAACTATATATTATATAAT
* *
160443 TTCTCAAAAATGTTTTAAAAACTATATAATATATAAAT
1 TT-TCAAAAATGTTTTTAAAACTATATATTATAT-AAT
* * *
160481 TTTCGAAAATCATTTTCTGAAAATTATATATTATAT
1 TTTCAAAAAT-GTTTT-T-AAAACTATATATTATAT
160517 TTCGTCAAAA
Statistics
Matches: 197, Mismatches: 10, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
33 33 0.17
35 23 0.12
36 3 0.02
37 110 0.56
38 13 0.07
40 15 0.08
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (36 bp):
TTTCAAAAATGTTTTTAAAACTATATATTATATAAT
Found at i:160519 original size:74 final size:71
Alignment explanation
Indices: 160276--160554 Score: 268
Period size: 74 Copynumber: 3.8 Consensus size: 71
160266 AAAAAATGTT
* *
160276 TTTTTAAAACTATACATTATATAA-TT-TCAAAAAT-TTTT-AAAACTATACATTATATAA-TTT
1 TTTTTAAAACTATATA-TATATAATTTCTCAAAAATGTTTTAAAAACTATATATTATATAATTTT
*
160336 CAAAAATG
65 C-AAAATA
* *
160344 TTTTTAAAACTATATATTATATAATTTTTCAAAAATGTTTTTAAAACTATATATTATATAATCTT
1 TTTTTAAAACTATATA-TATATAATTTCTCAAAAATGTTTTAAAAACTATATATTATATAAT-TT
160409 TCAAAA-A
64 TCAAAATA
*
160416 TGTTTTAAAAACTATATATCATATAATTTCTCAAAAATGTTTTAAAAACTATATAATATATAAAT
1 T-TTTT-AAAACTATATAT-ATATAATTTCTCAAAAATGTTTTAAAAACTATATATTATAT-AAT
160481 TTTCGAAAATCA
62 TTTC-AAAAT-A
* ** * *
160493 TTTTCTGAAAATTATATAT-TAT-ATTTCGTCAAAAACATTTTCACAAACTATATTACTATATA
1 TTTT-T-AAAACTATATATATATAATTTC-TCAAAAATGTTTT-AAAAACTATA-TATTATATA
160555 CATATATATA
Statistics
Matches: 182, Mismatches: 12, Indels: 26
0.83 0.05 0.12
Matches are distributed among these distances:
68 23 0.13
69 2 0.01
70 8 0.04
71 4 0.02
72 19 0.10
73 9 0.05
74 62 0.34
75 21 0.12
76 13 0.07
77 21 0.12
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (71 bp):
TTTTTAAAACTATATATATATAATTTCTCAAAAATGTTTTAAAAACTATATATTATATAATTTTC
AAAATA
Found at i:160751 original size:16 final size:16
Alignment explanation
Indices: 160712--160769 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
160702 AAATGAACTA
160712 ATAAT-ATTAATAACGAT
1 ATAATAATTAAT-AC-AT
160729 GATAATAATTAATACAT
1 -ATAATAATTAATACAT
*
160746 ATAATAATTAA-ACAA
1 ATAATAATTAATACAT
160761 ATAA-AATTA
1 ATAATAATTA
160770 TAGAATAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
14 5 0.13
15 7 0.18
16 11 0.29
17 2 0.05
18 7 0.18
19 6 0.16
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (16 bp):
ATAATAATTAATACAT
Found at i:163244 original size:22 final size:22
Alignment explanation
Indices: 163218--163263 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
163208 ATTACATTCA
*
163218 AATAAATGATATGA-TCAATAAT
1 AATAAATAATA-GATTCAATAAT
*
163240 AATAAATAATAGATTTAATAAT
1 AATAAATAATAGATTCAATAAT
163262 AA
1 AA
163264 ATTTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (22 bp):
AATAAATAATAGATTCAATAAT
Found at i:165661 original size:16 final size:18
Alignment explanation
Indices: 165630--165664 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
165620 TTCATTCTTT
165630 TATTTATATATCATAATA
1 TATTTATATATCATAATA
165648 TATTTATA-AT-ATAATA
1 TATTTATATATCATAATA
165664 T
1 T
165665 GAATTAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 2 0.12
18 8 0.47
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTTATATATCATAATA
Found at i:173919 original size:31 final size:31
Alignment explanation
Indices: 173881--173953 Score: 137
Period size: 31 Copynumber: 2.4 Consensus size: 31
173871 GTAACTTTTA
173881 ATAGTTTGGGGACTCAACAAAATAACGTTCT
1 ATAGTTTGGGGACTCAACAAAATAACGTTCT
*
173912 ATAGTTTGGGGACTCAATAAAATAACGTTCT
1 ATAGTTTGGGGACTCAACAAAATAACGTTCT
173943 ATAGTTTGGGG
1 ATAGTTTGGGG
173954 GTCATTTGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (31 bp):
ATAGTTTGGGGACTCAACAAAATAACGTTCT
Found at i:175392 original size:20 final size:20
Alignment explanation
Indices: 175354--175392 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
175344 AAGTAGATTG
*
175354 CATTCAATATTATGCAATGA
1 CATTCAATATTATACAATGA
* *
175374 CATTCAGTATTATATAATG
1 CATTCAATATTATACAATG
175393 TGATGACAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (20 bp):
CATTCAATATTATACAATGA
Found at i:178761 original size:137 final size:135
Alignment explanation
Indices: 178486--178754 Score: 349
Period size: 137 Copynumber: 2.0 Consensus size: 135
178476 TCATAAGTGT
* ** * * **
178486 ATTTCGATATACAATTGGGTATAAAAATTATTGATCGATTTTTTAATGCATATGTTGCATTTTTG
1 ATTTCGACATACAATTGGGTATAAAAATTATCAATAGATTTTTTAAAGCATATGTTGCATTTTCA
* * * * *
178551 TATCAGTATTACATGCACTTTCGACATTATATGTGCATCCATGGTATTCATAATGAGTTTGTGAA
66 TATCAGTACTACATGCACTTTCGACACTATATATGCATCCATGGAATTCATAATAAGTTTGTGAA
178616 TTACC
131 TTACC
* *
178621 ATTTCGACATACAATTGTGTATAAAAGTTATCAATAGATTTTGTTTAAAGCATATGTTGCATTTT
1 ATTTCGACATACAATTGGGTATAAAAATTATCAATAGA-TTT-TTTAAAGCATATGTTGCATTTT
* * * * *
178686 CATATCAGTACTATATGTACTTTTGGCACTATGTATGCATCCATGGAATTCATAATAAGTTTGTG
64 CATATCAGTACTACATGCACTTTCGACACTATATATGCATCCATGGAATTCATAATAAGTTTGTG
178751 AATT
129 AATT
178755 TTCATTTTGG
Statistics
Matches: 113, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
135 32 0.28
136 3 0.03
137 78 0.69
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (135 bp):
ATTTCGACATACAATTGGGTATAAAAATTATCAATAGATTTTTTAAAGCATATGTTGCATTTTCA
TATCAGTACTACATGCACTTTCGACACTATATATGCATCCATGGAATTCATAATAAGTTTGTGAA
TTACC
Found at i:182358 original size:64 final size:63
Alignment explanation
Indices: 182273--182433 Score: 189
Period size: 64 Copynumber: 2.5 Consensus size: 63
182263 TTGTTTAAGG
* * * *
182273 TGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCAAATATGATTTA
1 TGCATCGATGCATATGTAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCAAATAGGATTTA
* * * *
182337 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATATGTAGTGCATCGATGCAT-CCAATTAAATAAAAACATCAAATAGGATTTA
* *
182401 TGCATCAATGCATGGTGTAGTGCATCGATGCAT
1 TGCATCGATGCAT-ATGTAGTGCATCGATGCAT
182434 ACCTTCATTA
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 58 0.70
65 24 0.29
66 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (63 bp):
TGCATCGATGCATATGTAGTGCATCGATGCATCCAATTAAATAAAAACATCAAATAGGATTTA
Found at i:183838 original size:21 final size:21
Alignment explanation
Indices: 183812--183874 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
183802 GTCGAGGGTT
183812 TCATAGGTCCTTCGGGACAAC
1 TCATAGGTCCTTCGGGACAAC
*
183833 TCATAGGTCCTTCGGGACAAAT
1 TCATAGGTCCTTCGGGAC-AAC
*
183855 TCACAGGTCCTTCGGGACAA
1 TCATAGGTCCTTCGGGACAA
183875 ATTTCATATG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
21 20 0.51
22 19 0.49
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (21 bp):
TCATAGGTCCTTCGGGACAAC
Found at i:183865 original size:22 final size:22
Alignment explanation
Indices: 183811--183882 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
183801 AGTCGAGGGT
183811 TTCATAGGTCCTTCGGGAC-AA
1 TTCATAGGTCCTTCGGGACAAA
*
183832 CTCATAGGTCCTTCGGGACAAA
1 TTCATAGGTCCTTCGGGACAAA
*
183854 TTCACAGGTCCTTCGGGACAAA
1 TTCATAGGTCCTTCGGGACAAA
183876 TTTCATA
1 -TTCATA
183883 TGCCACTCAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.40
22 22 0.49
23 5 0.11
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (22 bp):
TTCATAGGTCCTTCGGGACAAA
Found at i:187850 original size:64 final size:65
Alignment explanation
Indices: 187761--187884 Score: 187
Period size: 64 Copynumber: 1.9 Consensus size: 65
187751 CTGCATGAAT
* * *
187761 TTAAATAGAAAAATCGAATATGATTTATGCATCGATGCAT-AAGTAGTGCATCGATGCATCCCCA
1 TTAAATACAAAAATCGAATAGGATTTATGCATCGATGCATGAAGTAGTGCATCAATGCATCCCCA
* **
187825 TTAAATACAAACATCGAATAGGATTTATGCATCGATGCATGGTGTAGTGCATCAATGCAT
1 TTAAATACAAAAATCGAATAGGATTTATGCATCGATGCATGAAGTAGTGCATCAATGCAT
187885 ACCTTCATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
64 37 0.70
65 16 0.30
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (65 bp):
TTAAATACAAAAATCGAATAGGATTTATGCATCGATGCATGAAGTAGTGCATCAATGCATCCCCA
Found at i:189324 original size:21 final size:22
Alignment explanation
Indices: 189261--189331 Score: 92
Period size: 21 Copynumber: 3.3 Consensus size: 22
189251 AGTCGAGGGT
189261 TTCATAGGTCCTTCGGGAC-AA
1 TTCATAGGTCCTTCGGGACAAA
* *
189282 CTCATAGGTCCTTCAGGACAAA
1 TTCATAGGTCCTTCGGGACAAA
*
189304 TTCACAGGTCCTT-GGGACAAA
1 TTCATAGGTCCTTCGGGACAAA
189325 TTTCATA
1 -TTCATA
189332 TGCCACTCAG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
21 24 0.57
22 18 0.43
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (22 bp):
TTCATAGGTCCTTCGGGACAAA
Found at i:196187 original size:29 final size:28
Alignment explanation
Indices: 196123--196250 Score: 125
Period size: 27 Copynumber: 4.5 Consensus size: 28
196113 TATTTTTAAA
*
196123 AATTACAAAAATAGCACCATTTTCAAAAAT
1 AATTACAAAAATAGCA-C-TTTTTAAAAAT
* *
196153 AATTACCAAAATATCACCTTTTTAAAAAT
1 AATTACAAAAATAGCA-CTTTTTAAAAAT
* * * * *
196182 ATTTACTAAAATATCA-ATTTTAAAAAA
1 AATTACAAAAATAGCACTTTTTAAAAAT
* *
196209 AATTACGAAAATAGCAATTTTTAAAAA-
1 AATTACAAAAATAGCACTTTTTAAAAAT
196236 AATTACAAAAATAGC
1 AATTACAAAAATAGC
196251 TTCCATTTCA
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
27 36 0.42
28 9 0.11
29 24 0.28
30 16 0.19
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.30
Consensus pattern (28 bp):
AATTACAAAAATAGCACTTTTTAAAAAT
Found at i:196263 original size:29 final size:28
Alignment explanation
Indices: 196120--196263 Score: 89
Period size: 27 Copynumber: 5.1 Consensus size: 28
196110 CCTTATTTTT
*
196120 AAAAATTACAAAAATAGCACCATTTTCAA
1 AAAAATTACAAAAATAGCTCCA-TTTCAA
* * * * *
196149 AAATAATTACCAAAATATCACCTTTTTAA
1 AAA-AATTACAAAAATAGCTCCATTTCAA
* * * *
196178 AAATATTTACTAAAATA--TCAATTTTAAA
1 AAA-AATTACAAAAATAGCTCCA-TTTCAA
* * *
196206 AAAAATTACGAAAATAG--CAATTTTTAA
1 AAAAATTACAAAAATAGCTCCA-TTTCAA
196233 AAAAATTACAAAAATAGCTTCCATTTCAA
1 AAAAATTACAAAAATAGC-TCCATTTCAA
196262 AA
1 AA
196264 TAATGACCAG
Statistics
Matches: 93, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
27 37 0.40
28 8 0.09
29 30 0.32
30 18 0.19
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.31
Consensus pattern (28 bp):
AAAAATTACAAAAATAGCTCCATTTCAA
Found at i:196293 original size:29 final size:28
Alignment explanation
Indices: 196253--196307 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
196243 AAAATAGCTT
*
196253 CCATTTCAAAATAATGACCAGAATACCA
1 CCATTTCAAAATAATGACCAAAATACCA
* *
196281 CCATTATCCAAATAATTACCAAAATAC
1 CCATT-TCAAAATAATGACCAAAATAC
196308 TACCTGATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.47, C:0.25, G:0.04, T:0.24
Consensus pattern (28 bp):
CCATTTCAAAATAATGACCAAAATACCA
Found at i:196382 original size:19 final size:19
Alignment explanation
Indices: 196360--196401 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
196350 CGGTCAACCC
196360 GGTTCAAACCAGTCAAACA
1 GGTTCAAACCAGTCAAACA
* *
196379 GGTTCAGACCAGTCAAACC
1 GGTTCAAACCAGTCAAACA
196398 GGTT
1 GGTT
196402 TTCTGCTGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.19
Consensus pattern (19 bp):
GGTTCAAACCAGTCAAACA
Found at i:198520 original size:16 final size:16
Alignment explanation
Indices: 198485--198523 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
198475 CGAATCATTT
**
198485 ACAGGTCAGGTTCATC
1 ACAGGTCAGGTTCAAA
*
198501 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTCAAA
198517 ACAGGTC
1 ACAGGTC
198524 GGATAATACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (16 bp):
ACAGGTCAGGTTCAAA
Found at i:199747 original size:14 final size:14
Alignment explanation
Indices: 199728--199760 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
199718 AGTGCGTAAT
199728 GGGAAATGGTAGAA
1 GGGAAATGGTAGAA
199742 GGGAAATGGTAGAA
1 GGGAAATGGTAGAA
199756 GGGAA
1 GGGAA
199761 GGCTTTGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.45, T:0.12
Consensus pattern (14 bp):
GGGAAATGGTAGAA
Found at i:201142 original size:11 final size:11
Alignment explanation
Indices: 201128--201152 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
201118 TAATATATAG
201128 TTTTGAAAACA
1 TTTTGAAAACA
201139 TTTTGAAAACA
1 TTTTGAAAACA
201150 TTT
1 TTT
201153 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:201165 original size:38 final size:36
Alignment explanation
Indices: 201087--201290 Score: 189
Period size: 38 Copynumber: 5.6 Consensus size: 36
201077 TTGAAAATTT
* * * *
201087 TATAATTTTTGAAAATATTTTTAAATA-TATATAATA
1 TATAGTTTTT-AAAACATTTTGAAAAATTATATAATA
* *
201123 TATAGTTTTGAAAACATTTTGAAAACATTTATATATTA
1 TATAGTTTTTAAAACATTTTGAAAA-A-TTATATAATA
* * *
201161 TATAGTTTTTAAAACAATTTGAAAACTTA-ATAGTA
1 TATAGTTTTTAAAACATTTTGAAAAATTATATAATA
* * *
201196 TATAGTTTTTTAAATATTTTTGAAAAATGATATAATA
1 TATAGTTTTTAAAACA-TTTTGAAAAATTATATAATA
* *
201233 TATAGTTTTAAAAATCATTTTTTGGAAAATTATATAATA
1 TATAGTTTTTAAAA-CA--TTTTGAAAAATTATATAATA
*
201272 TATA-ATTTTAAAACATTTT
1 TATAGTTTTTAAAACATTTT
201291 TTTTGAAAAA
Statistics
Matches: 138, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
35 35 0.25
36 22 0.16
37 19 0.14
38 39 0.28
39 23 0.17
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (36 bp):
TATAGTTTTTAAAACATTTTGAAAAATTATATAATA
Found at i:201273 original size:37 final size:37
Alignment explanation
Indices: 201093--201346 Score: 170
Period size: 35 Copynumber: 6.9 Consensus size: 37
201083 ATTTTATAAT
* *
201093 TTTTGAAAATATTTTT-AAATAT-ATATAATATATAG
1 TTTTAAAAATATTTTTGAAAAATGATATAATATATAG
* * * *
201128 TTTTGAAAACA-TTTTGAAAACATTTATATATTATATAG
1 TTTTAAAAATATTTTTGAAAA-A-TGATATAATATATAG
* * * * * *
201166 TTTTTAAAACA-ATTTGAAAACTTA-ATAGTATATAG
1 TTTTAAAAATATTTTTGAAAAATGATATAATATATAG
**
201201 TTTTTTAAATATTTTTGAAAAATGATATAATATATAG
1 TTTTAAAAATATTTTTGAAAAATGATATAATATATAG
* * *
201238 TTTTAAAAATCATTTTTTGGAAAATTATATAATATATAA
1 TTTTAAAAAT-A-TTTTTGAAAAATGATATAATATATAG
* * *
201277 TTTTAAAACATTTTTTTTGAAAAA-AACAT-ATATAATA-
1 TTTTAAAA-A-TATTTTTGAAAAATGATATAATAT-ATAG
*
201314 TTTT-AAAATAATTTTTGAAATAT-ATAT-ATATAT
1 TTTTAAAAAT-ATTTTTGAAAAATGATATAATATAT
201347 TTTAGAATAT
Statistics
Matches: 181, Mismatches: 25, Indels: 27
0.78 0.11 0.12
Matches are distributed among these distances:
34 7 0.04
35 50 0.28
36 17 0.09
37 27 0.15
38 37 0.20
39 41 0.23
40 1 0.01
41 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (37 bp):
TTTTAAAAATATTTTTGAAAAATGATATAATATATAG
Done.