Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006406.1 Hibiscus syriacus cultivar Beakdansim tig00015443_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: 182385
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Found at i:15501 original size:39 final size:39
Alignment explanation
Indices: 15452--15539 Score: 158
Period size: 39 Copynumber: 2.2 Consensus size: 39
15442 TCTAAACACT
15452 AACCCTTAAACCCTAAATCAGACTTAAACCTCAAATTATA
1 AACCC-TAAACCCTAAATCAGACTTAAACCTCAAATTATA
*
15492 AACCCTAAACCCTAAATCATACTTAAACCTCAAATTATA
1 AACCCTAAACCCTAAATCAGACTTAAACCTCAAATTATA
15531 AACCCTAAA
1 AACCCTAAA
15540 TCGTACGTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 42 0.89
40 5 0.11
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (39 bp):
AACCCTAAACCCTAAATCAGACTTAAACCTCAAATTATA
Found at i:15526 original size:18 final size:18
Alignment explanation
Indices: 15456--15520 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 18
15446 AACACTAACC
*
15456 CTTAAACCCTAAATCAGA
1 CTTAAACCCTAAATCATA
*
15474 CTTAAA-CCTCAAATTATAAA
1 CTTAAACCCT-AAATCAT--A
*
15494 CCCTAAACCCTAAATCATA
1 -CTTAAACCCTAAATCATA
15513 CTTAAACC
1 CTTAAACC
15521 TCAAATTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
17 3 0.08
18 18 0.49
19 1 0.03
20 1 0.03
21 11 0.30
22 3 0.08
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.25
Consensus pattern (18 bp):
CTTAAACCCTAAATCATA
Found at i:16305 original size:36 final size:34
Alignment explanation
Indices: 16216--16291 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
16206 AATTTTACCT
*
16216 TATATATTTAGAAATAATTACAATAACACCCCTC
1 TATATATTTAGGAATAATTACAATAACACCCCTC
*
16250 TATATATTTAGGAATAATTACAATAATACCCCTC
1 TATATATTTAGGAATAATTACAATAACACCCCTC
16284 TATATATT
1 TATATATT
16292 ATTATTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.37
Consensus pattern (34 bp):
TATATATTTAGGAATAATTACAATAACACCCCTC
Found at i:16779 original size:26 final size:26
Alignment explanation
Indices: 16750--16810 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
16740 ATATTATATA
16750 TAAAATATTAAGATTATAAT-AAAACT
1 TAAAATATT-AGATTATAATCAAAACT
** * *
16776 TAAAATATTTTATTATAATCTAGACT
1 TAAAATATTAGATTATAATCAAAACT
16802 TAAAATATT
1 TAAAATATT
16811 TATCTATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 8 0.27
26 22 0.73
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (26 bp):
TAAAATATTAGATTATAATCAAAACT
Found at i:16790 original size:25 final size:26
Alignment explanation
Indices: 16762--16811 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
16752 AAATATTAAG
16762 ATTATAAT-AAAACTTAAAATATTTT
1 ATTATAATCAAAACTTAAAATATTTT
* *
16787 ATTATAATCTAGACTTAAAATATTT
1 ATTATAATCAAAACTTAAAATATTT
16812 ATCTATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTATAATCAAAACTTAAAATATTTT
Found at i:16811 original size:26 final size:26
Alignment explanation
Indices: 16773--16872 Score: 78
Period size: 26 Copynumber: 3.6 Consensus size: 26
16763 TTATAATAAA
16773 ACTTAAAATATTTTATTATAATCTAG
1 ACTTAAAATATTTTATTATAATCTAG
* *
16799 ACTTAAAATA-TTTATCTATATTTTAGTG
1 ACTTAAAATATTTTAT-TATAATCTA--G
**
16827 A-AAAAATATAATTTTATTTAAATAATCTAG
1 ACTTAAA-AT-ATTTTA-TT--ATAATCTAG
16857 ACTTAAAATATTTTAT
1 ACTTAAAATATTTTAT
16873 CTGAATATGT
Statistics
Matches: 56, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
25 5 0.09
26 17 0.30
27 3 0.05
28 5 0.09
29 7 0.12
30 9 0.16
31 4 0.07
32 6 0.11
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (26 bp):
ACTTAAAATATTTTATTATAATCTAG
Found at i:18091 original size:3 final size:3
Alignment explanation
Indices: 18083--18111 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18073 AGGCGACGGT
18083 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
18112 TTCAAATGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:20897 original size:31 final size:31
Alignment explanation
Indices: 20859--20927 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
20849 GTAAGTTGTA
* * *
20859 TTTTCTTTTCTCGGCCGTCGATGTTTCGGGT
1 TTTTCTTTTATCGACCGTCGATGTTTCAGGT
* *
20890 TTTTCTTTTATTGACCGTCGATGTTTCAGTT
1 TTTTCTTTTATCGACCGTCGATGTTTCAGGT
20921 TTTTCTT
1 TTTTCTT
20928 CCTGGTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.07, C:0.19, G:0.19, T:0.55
Consensus pattern (31 bp):
TTTTCTTTTATCGACCGTCGATGTTTCAGGT
Found at i:21548 original size:21 final size:21
Alignment explanation
Indices: 21522--21569 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
21512 GTTAACCCTT
21522 ACAGTGATGATGTGACAGTTC
1 ACAGTGATGATGTGACAGTTC
21543 ACAGTGATGATGTGACAGTTC
1 ACAGTGATGATGTGACAGTTC
21564 ACAGTG
1 ACAGTG
21570 CTAACATGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (21 bp):
ACAGTGATGATGTGACAGTTC
Found at i:22009 original size:22 final size:22
Alignment explanation
Indices: 21979--22027 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
21969 TTTATGTTCA
*
21979 TTTACGTTCAGTAATTCATTCG
1 TTTATGTTCAGTAATTCATTCG
22001 TTTATGTTCAGTAATTCATTCG
1 TTTATGTTCAGTAATTCATTCG
22023 TTTAT
1 TTTAT
22028 ATTAGTTCGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.14, G:0.12, T:0.51
Consensus pattern (22 bp):
TTTATGTTCAGTAATTCATTCG
Found at i:23515 original size:424 final size:424
Alignment explanation
Indices: 22238--23878 Score: 2576
Period size: 424 Copynumber: 3.9 Consensus size: 424
22228 TTTGTGACAC
* * *
22238 CCTGACTATTCATATGTTGCAAACTCAT-ATTTTTCCGTT-AAAATTGACAGTATTCTGAGTTGA
1 CCTGACTATTCATATGTTGCAAACTCGTCA-TTTTCCGTTAAAAATTGACAGTATTCTGAGCTAA
* *
22301 ACGTTAACCTGCTAAATGTGATATGATAAAATATGATCCTAGAA-TCTTAAACGACTATCATATT
65 ACGTTAACCTGCAAAATGTGATATGATAAAATCTGATCCTA-AAGTCTTAAACGACTATCATATT
* * *
22365 TCAGTCATTATGTTAACGTCCAACTTAGACAATGACCGATTTTTTAAATAGAAAAAGACGGGTCT
129 TCAGTCATTATGTTAACGTCCAACTTAGACAACGACCAATTTTTTTAATAGAAAAAGACGGGTCT
*
22430 GAAACATAATAAATAGTGGGATGACCATTTTATAACTTTTAATAGCCAAGGGACTTTATAAAGCG
194 GAAACATAATGAATAGTGGGATGACCATTTTATAACTTTTAATAGCCAAGGGACTTTATAAAGCG
* *
22495 TCATTCTATAGTTAAAGGATCATTTTGTAAATTTTAACAGTCAAGGGACTTAATAAAATAGTATA
259 TCATTCTATAGTTAAAGGATCATTTTGTAATTTTTAACAGTCAAGGGACTTAATAAAATAGTATC
* *
22560 ATGTAGTCAATGGACTATTTGTATATTTTACCTAATAGTCGAGGGACTATATAATGATGTTTTAT
324 ATATAGTCAAGGGACTATTTGTATATTTTACCTAATAGTCGAGGGACTATATAATGATGTTTTAT
* *
22625 TAAGTCTCTCGACTATTAAAAGTTATAAAATGGTCA
389 TAAGTCCCTCGACTATTAAAAGTTACAAAATGGTCA
* * * * * *
22661 CCTGACTATTTATATGTTGTAAACTCGTCATTTTCCATTAAAAATTGGCAATATTATGAGCTAAA
1 CCTGACTATTCATATGTTGCAAACTCGTCATTTTCCGTTAAAAATTGACAGTATTCTGAGCTAAA
* *
22726 CGTTAACCTG-ATAAATGTGATATGATAAAATTTGATCCTAGAGTCTTAAACGACTATCATATTT
66 CGTTAACCTGCA-AAATGTGATATGATAAAATCTGATCCTAAAGTCTTAAACGACTATCATATTT
*
22790 CAGTCATTATGTTAACGTCCAACTTAGACAACGACCGATTTTTTTAATAGAAAAAGACGGGTCTG
130 CAGTCATTATGTTAACGTCCAACTTAGACAACGACCAATTTTTTTAATAGAAAAAGACGGGTCTG
* * *
22855 AAACATAACGAATAGTGGGATGATCATTTT-T-ACTTTTAATAGCCAAGGGACTTTATAAAGTGT
195 AAACATAATGAATAGTGGGATGACCATTTTATAACTTTTAATAGCCAAGGGACTTTATAAAGCGT
* * *
22918 CATTCTATATTTAAATGATCATTTTGTAATTTTTAACAGTCAAGGGACTTAATAAAGTAGTATCA
260 CATTCTATAGTTAAAGGATCATTTTGTAATTTTTAACAGTCAAGGGACTTAATAAAATAGTATCA
22983 TATAGTCAAGGGACTATTTGTATATTTTACCTAATAGTCGAGGGACTATATAATGATGTTTTATT
325 TATAGTCAAGGGACTATTTGTATATTTTACCTAATAGTCGAGGGACTATATAATGATGTTTTATT
*
23048 AAGTCCATCGACTATTAAAAGTTACAAAATGGTCA
390 AAGTCCCTCGACTATTAAAAGTTACAAAATGGTCA
* *
23083 CCTGACTATTCATATGTTGCAAACTCGTCATTTTCCGTTAAAAATTGGCAGTATTTTGAGCTAAA
1 CCTGACTATTCATATGTTGCAAACTCGTCATTTTCCGTTAAAAATTGACAGTATTCTGAGCTAAA
*
23148 TGTTAACCTGCAAAATGTGATATGATAAAATCTGATCCTAAAGTCTTAAACGACTATCATATTTC
66 CGTTAACCTGCAAAATGTGATATGATAAAATCTGATCCTAAAGTCTTAAACGACTATCATATTTC
*
23213 AGTCATTATGTTAACGTCCAACTTAGACAACGACCAATTTTTTTAATAGAAAATGACGGGTCTGA
131 AGTCATTATGTTAACGTCCAACTTAGACAACGACCAATTTTTTTAATAGAAAAAGACGGGTCTGA
*
23278 AACATAATGAATAGTGGGATGACCATTTTATAACTTTTAATAGCCAAGGGACTTTATAAAGTGTC
196 AACATAATGAATAGTGGGATGACCATTTTATAACTTTTAATAGCCAAGGGACTTTATAAAGCGTC
*
23343 ATTCTATAGTTAAAGGATCATTTTGTAATTTTTAACAGTCGAGGGACTTAATAAAATAGTATCAT
261 ATTCTATAGTTAAAGGATCATTTTGTAATTTTTAACAGTCAAGGGACTTAATAAAATAGTATCAT
* *
23408 ATGGTCAAGGGACTATTTGTATATTTTACCTAATAGTCGAGGGACTATAGAATGATGTTTTATTA
326 ATAGTCAAGGGACTATTTGTATATTTTACCTAATAGTCGAGGGACTATATAATGATGTTTTATTA
*
23473 AGTCCCCCGACTATTAAAAGTTACAAAATGGTCA
391 AGTCCCTCGACTATTAAAAGTTACAAAATGGTCA
* * * *
23507 CATGACTATTCATATGTTGCAAACTCGTCACTTTCCGTTAAAAATTGACAGTATTCTGAGTTGAA
1 CCTGACTATTCATATGTTGCAAACTCGTCATTTTCCGTTAAAAATTGACAGTATTCTGAGCTAAA
* * * * * *
23572 CGTTAACATGCTAAATGTGATATGATAAAATCTTATCATAGAGTCTCAAACGACTATCATATTTC
66 CGTTAACCTGCAAAATGTGATATGATAAAATCTGATCCTAAAGTCTTAAACGACTATCATATTTC
* * * * * *
23637 AGTCATTATGTTAACGTCTAATTTAGACAACAACCAA-TTTTTTAATAGAAAATGACGAGTTTGA
131 AGTCATTATGTTAACGTCCAACTTAGACAACGACCAATTTTTTTAATAGAAAAAGACGGGTCTGA
** * * * * *
23701 AACATAATGAATAGTCAGATGATCATTTTATAACTTTAAATAGCTAATGGACTTTATAAAGCATC
196 AACATAATGAATAGTGGGATGACCATTTTATAACTTTTAATAGCCAAGGGACTTTATAAAGCGTC
* * ** *
23766 ATTCTATAGTTAAAGGATCATTTTGTAATTTTTAATATTTGAGAGACTTAATAAAATAGTATCAT
261 ATTCTATAGTTAAAGGATCATTTTGTAATTTTTAACAGTCAAGGGACTTAATAAAATAGTATCAT
* *
23831 TTAGTCAATGGACTATTTGTATATTTTACCTAATAGTCGAGGGACTAT
326 ATAGTCAAGGGACTATTTGTATATTTTACCTAATAGTCGAGGGACTAT
23879 TTATGTATTT
Statistics
Matches: 1130, Mismatches: 81, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
422 396 0.35
423 225 0.20
424 509 0.45
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (424 bp):
CCTGACTATTCATATGTTGCAAACTCGTCATTTTCCGTTAAAAATTGACAGTATTCTGAGCTAAA
CGTTAACCTGCAAAATGTGATATGATAAAATCTGATCCTAAAGTCTTAAACGACTATCATATTTC
AGTCATTATGTTAACGTCCAACTTAGACAACGACCAATTTTTTTAATAGAAAAAGACGGGTCTGA
AACATAATGAATAGTGGGATGACCATTTTATAACTTTTAATAGCCAAGGGACTTTATAAAGCGTC
ATTCTATAGTTAAAGGATCATTTTGTAATTTTTAACAGTCAAGGGACTTAATAAAATAGTATCAT
ATAGTCAAGGGACTATTTGTATATTTTACCTAATAGTCGAGGGACTATATAATGATGTTTTATTA
AGTCCCTCGACTATTAAAAGTTACAAAATGGTCA
Found at i:24687 original size:10 final size:10
Alignment explanation
Indices: 24672--24728 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
24662 AATCCTATTT
24672 AAATATTTTA
1 AAATATTTTA
24682 AAATATTTTAA
1 AAATATTTT-A
24693 AGCAATATTTTA
1 A--AATATTTTA
* *
24705 AAAAATTATA
1 AAATATTTTA
**
24715 ATTTATTTTA
1 AAATATTTTA
24725 AAAT
1 AAAT
24729 TATATATTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
10 24 0.67
11 2 0.06
12 2 0.06
13 8 0.22
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (10 bp):
AAATATTTTA
Found at i:28681 original size:2 final size:2
Alignment explanation
Indices: 28674--28708 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
28664 CAATTAATTC
28674 AT AT AT AT AT AT AT AT A- 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
28709 GAATTAACGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:28696 original size:15 final size:15
Alignment explanation
Indices: 28676--28705 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
28666 ATTAATTCAT
28676 ATATATATATATATA
1 ATATATATATATATA
28691 ATATATATATATATA
1 ATATATATATATATA
28706 TATGAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:28696 original size:17 final size:17
Alignment explanation
Indices: 28674--28707 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
28664 CAATTAATTC
28674 ATATATATATATATATA
1 ATATATATATATATATA
28691 ATATATATATATATATA
1 ATATATATATATATATA
28708 TGAATTAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:29769 original size:22 final size:22
Alignment explanation
Indices: 29728--29794 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
29718 CTCGTATAAA
29728 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
29751 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
29773 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
29795 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:31498 original size:21 final size:21
Alignment explanation
Indices: 31474--31518 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
31464 TCTTGTTCGT
* *
31474 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
31495 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
31516 TTG
1 TTG
31519 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:34600 original size:22 final size:22
Alignment explanation
Indices: 34583--34645 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
34573 CTCGTATAAA
34583 TGCACGAAGTGCCCCGTAGAAT
1 TGCACGAAGTGCCCCGTAGAAT
34605 TG--CGAAGTG-CCCGTAGAAT
1 TGCACGAAGTGCCCCGTAGAAT
*
34624 TGCACCGTAGTG-CCCGTAGAAT
1 TGCA-CGAAGTGCCCCGTAGAAT
34646 GATGTCCATA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 12 0.32
20 7 0.19
22 18 0.49
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (22 bp):
TGCACGAAGTGCCCCGTAGAAT
Found at i:36302 original size:21 final size:21
Alignment explanation
Indices: 36278--36322 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
36268 TCTTGTTCGT
* *
36278 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
36299 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
36320 TTG
1 TTG
36323 CCCAGAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:37349 original size:29 final size:27
Alignment explanation
Indices: 37303--37382 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 27
37293 TATTTTTTTG
*
37303 TCAAAATAAGTATCTAAAGTTATTATT-TA
1 TCAAAATAGGTA-CTAAAG-TATT-TTATA
*
37332 TCAAAATAGGTACATAAAGTATTTTATG
1 TCAAAATAGGTAC-TAAAGTATTTTATA
* *
37360 TCAAGATAGGTACCTAAACTATT
1 TCAAAATAGGTA-CTAAAGTATT
37383 CAAAGTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 2 0.05
28 25 0.57
29 17 0.39
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.36
Consensus pattern (27 bp):
TCAAAATAGGTACTAAAGTATTTTATA
Found at i:39127 original size:2 final size:2
Alignment explanation
Indices: 39122--39151 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
39112 CAAATGTCAG
39122 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
39152 GAATATGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43182 original size:21 final size:21
Alignment explanation
Indices: 43158--43213 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
43148 CGGAAATATT
*
43158 CATTTTAGGTAGCGAAATTAA
1 CATTTTAGGTAGCGAAAATAA
* * **
43179 CATTTTCGATAGAAAAAATAA
1 CATTTTAGGTAGCGAAAATAA
43200 CATTTTAGGTAGCG
1 CATTTTAGGTAGCG
43214 CTCTACTGAG
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (21 bp):
CATTTTAGGTAGCGAAAATAA
Found at i:44170 original size:14 final size:15
Alignment explanation
Indices: 44153--44181 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44143 TTATATTTTT
44153 TAATTTTTTA-AAAA
1 TAATTTTTTATAAAA
44167 TAATTTTTTATAAAA
1 TAATTTTTTATAAAA
44182 AATCTGAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATTTTTTATAAAA
Found at i:51776 original size:30 final size:30
Alignment explanation
Indices: 51740--51797 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
51730 AGTGAACCGA
*
51740 CGATTCAAACCGATTTTGCCGGTTTTCAGC
1 CGATTCAAACCGATTTTACCGGTTTTCAGC
** *
51770 CGATTCACCCCGATTTTACTGGTTTTCA
1 CGATTCAAACCGATTTTACCGGTTTTCA
51798 ACCGGTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (30 bp):
CGATTCAAACCGATTTTACCGGTTTTCAGC
Found at i:55473 original size:21 final size:21
Alignment explanation
Indices: 55447--55486 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55437 CAGAACCCCA
*
55447 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
55468 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
55487 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:55521 original size:20 final size:21
Alignment explanation
Indices: 55467--55529 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
55457 GATTCCCCTG
55467 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
55491 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
55511 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
55530 TGCACAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:59373 original size:22 final size:21
Alignment explanation
Indices: 59331--59370 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59321 GAGTTTGTTT
*
59331 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
59352 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
59371 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:65589 original size:2 final size:2
Alignment explanation
Indices: 65572--65621 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
65562 ATTCAAACTC
* *
65572 AT AT AC AT AC 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
65614 AT AT AT AT
1 AT AT AT AT
65622 GGACAAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:70927 original size:17 final size:18
Alignment explanation
Indices: 70907--70940 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
70897 AAATTAGTAA
70907 AAATAATT-AATTTATTT
1 AAATAATTAAATTTATTT
*
70924 AAATATTTAAATTTATT
1 AAATAATTAAATTTATT
70941 ATTTATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AAATAATTAAATTTATTT
Found at i:71379 original size:45 final size:45
Alignment explanation
Indices: 71303--71407 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 45
71293 AAACGTTACT
* *
71303 TAAAACATTATTTTTCTACAGGAAATCTTAATATCGA-GCGATACC
1 TAAAATATTATTTTTCTACAGAAAATCTTAATAT-GAGGCGATACC
* * *
71348 TAAAATATTATTTTTCTATC-GAAAATGTTAATATTAGGCGCTACC
1 TAAAATATTATTTTTCTA-CAGAAAATCTTAATATGAGGCGATACC
71393 TAAAATATTATTTTT
1 TAAAATATTATTTTT
71408 TTCTACTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
44 1 0.02
45 51 0.96
46 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (45 bp):
TAAAATATTATTTTTCTACAGAAAATCTTAATATGAGGCGATACC
Found at i:73985 original size:2 final size:2
Alignment explanation
Indices: 73978--74007 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
73968 CAAAGTTCTT
73978 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
74008 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:74012 original size:2 final size:2
Alignment explanation
Indices: 74007--74064 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
73997 ATATATATAT
74007 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
74049 AG AG AG TG AG AG AG AG
1 AG AG AG AG AG AG AG AG
74065 GTGGTGGGGG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.48, C:0.00, G:0.50, T:0.02
Consensus pattern (2 bp):
AG
Found at i:75526 original size:31 final size:31
Alignment explanation
Indices: 75477--75535 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
75467 TAAAAACTTA
*
75477 ATATTTTAGTACCTAAACTATCAGTTTTGGT
1 ATATTTTAGTACCTAAACTATCAATTTTGGT
* *
75508 ATATTTTGGTACGC-AAACTTTCAATTTT
1 ATATTTTAGTAC-CTAAACTATCAATTTT
75536 TTTCCAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 23 0.96
32 1 0.04
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.46
Consensus pattern (31 bp):
ATATTTTAGTACCTAAACTATCAATTTTGGT
Found at i:78054 original size:31 final size:31
Alignment explanation
Indices: 78009--78068 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
77999 ATAAGGTAAG
* * *
78009 TGACTACATCTTAATTAAATAAAAACGAATA
1 TGACCACATATTAATGAAATAAAAACGAATA
78040 TGACCACATATTAATGAAATAAAAACGAA
1 TGACCACATATTAATGAAATAAAAACGAA
78069 AGTGATGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.25
Consensus pattern (31 bp):
TGACCACATATTAATGAAATAAAAACGAATA
Found at i:89238 original size:14 final size:14
Alignment explanation
Indices: 89206--89232 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
89196 CCATACACTG
89206 GTGTACCGATACCT
1 GTGTACCGATACCT
89220 GTGTACCGATACC
1 GTGTACCGATACC
89233 CTTGTAGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (14 bp):
GTGTACCGATACCT
Found at i:89429 original size:21 final size:21
Alignment explanation
Indices: 89386--89446 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
89376 TTTGAATTTA
*
89386 ATGAAGGTGTATCGATA-CCT
1 ATGAAGGGGTATCGATACCCT
89406 ATGAAGGGGTATCGATACCCT
1 ATGAAGGGGTATCGATACCCT
*
89427 ATGAAGGGGTACCGATACCC
1 ATGAAGGGGTATCGATACCC
89447 CCTATTATGG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 16 0.42
21 22 0.58
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (21 bp):
ATGAAGGGGTATCGATACCCT
Found at i:89512 original size:20 final size:22
Alignment explanation
Indices: 89474--89513 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
89464 ATTTTGCAAA
89474 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
89496 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
89514 AGATACTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:95798 original size:15 final size:15
Alignment explanation
Indices: 95778--95812 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
95768 TTTAAAAAAA
* *
95778 TTATTATTTAATTAT
1 TTATTACTTAATAAT
95793 TTATTACTTAATAAT
1 TTATTACTTAATAAT
95808 TTATT
1 TTATT
95813 TTATATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTACTTAATAAT
Found at i:95851 original size:23 final size:23
Alignment explanation
Indices: 95777--95848 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
95767 ATTTAAAAAA
* *
95777 ATTATTATTTAATT-AT-TTATT
1 ATTATAATTTAATTGATATTTTT
* *
95798 ACTTAATAATTTATTTTATATTTTT
1 A-TT-ATAATTTAATTGATATTTTT
95823 ATTATAATTTAATTGATATATTTT
1 ATTATAATTTAATTGATAT-TTTT
95847 AT
1 AT
95849 ATATCACAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
21 1 0.02
22 2 0.05
23 23 0.56
24 10 0.24
25 5 0.12
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (23 bp):
ATTATAATTTAATTGATATTTTT
Found at i:102729 original size:15 final size:15
Alignment explanation
Indices: 102694--102727 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
102684 TAATTATAAA
102694 TTTTTAAAAAAGGAT
1 TTTTTAAAAAAGGAT
102709 TTTTTAAAAAA-GAT
1 TTTTTAAAAAAGGAT
102723 TTTTT
1 TTTTT
102728 TATGTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (15 bp):
TTTTTAAAAAAGGAT
Found at i:102769 original size:17 final size:17
Alignment explanation
Indices: 102747--102789 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
102737 ATTCGAGTTT
**
102747 GAGTTCGAGCTTTTATC
1 GAGTTCGAGCTTGAATC
102764 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
*
102781 GAGCTCGAG
1 GAGTTCGAG
102790 TCTCGAGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (17 bp):
GAGTTCGAGCTTGAATC
Found at i:102797 original size:24 final size:23
Alignment explanation
Indices: 102762--102810 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
102752 CGAGCTTTTA
*
102762 TCGAGTTCGAGCTTGAATCGAGC
1 TCGAGTTCGAGCTTCAATCGAGC
102785 TCGAGTCTCGAGCTTCAATCGAGC
1 TCGAGT-TCGAGCTTCAATCGAGC
102809 TC
1 TC
102811 CTGGAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
TCGAGTTCGAGCTTCAATCGAGC
Found at i:103081 original size:3 final size:3
Alignment explanation
Indices: 103073--103141 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
103063 TATTACCTTT
103073 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
103121 ACA AC- ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA A
103142 TAATAATAAT
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:103146 original size:3 final size:3
Alignment explanation
Indices: 103140--103172 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
103130 CAACAACAAC
103140 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
103173 GTATTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:103789 original size:2 final size:2
Alignment explanation
Indices: 103782--103806 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
103772 ATTTTTACTT
103782 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
103807 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104056 original size:12 final size:12
Alignment explanation
Indices: 104041--104065 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104031 AATTATGAGA
104041 TAAATTTTAAAT
1 TAAATTTTAAAT
104053 TAAATTTTAAAT
1 TAAATTTTAAAT
104065 T
1 T
104066 TCACAATAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAATTTTAAAT
Found at i:104579 original size:152 final size:152
Alignment explanation
Indices: 104303--104604 Score: 604
Period size: 152 Copynumber: 2.0 Consensus size: 152
104293 TCTTGTATCG
104303 GATTATGAAGCCAATCAAGGGGATATCTCGATGGGATCCGACGGCCGGTGCTCCTCAGCATGTAC
1 GATTATGAAGCCAATCAAGGGGATATCTCGATGGGATCCGACGGCCGGTGCTCCTCAGCATGTAC
104368 AGGGTGTAATGCCTTCTGCCTTGTAGCACAAGCAACAAAAACGCCTCGAACCCTTTCCGGCTAGG
66 AGGGTGTAATGCCTTCTGCCTTGTAGCACAAGCAACAAAAACGCCTCGAACCCTTTCCGGCTAGG
104433 CCAATTCCAAATGCATAGTCTC
131 CCAATTCCAAATGCATAGTCTC
104455 GATTATGAAGCCAATCAAGGGGATATCTCGATGGGATCCGACGGCCGGTGCTCCTCAGCATGTAC
1 GATTATGAAGCCAATCAAGGGGATATCTCGATGGGATCCGACGGCCGGTGCTCCTCAGCATGTAC
104520 AGGGTGTAATGCCTTCTGCCTTGTAGCACAAGCAACAAAAACGCCTCGAACCCTTTCCGGCTAGG
66 AGGGTGTAATGCCTTCTGCCTTGTAGCACAAGCAACAAAAACGCCTCGAACCCTTTCCGGCTAGG
104585 CCAATTCCAAATGCATAGTC
131 CCAATTCCAAATGCATAGTC
104605 GATAAATAGT
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 150 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.22
Consensus pattern (152 bp):
GATTATGAAGCCAATCAAGGGGATATCTCGATGGGATCCGACGGCCGGTGCTCCTCAGCATGTAC
AGGGTGTAATGCCTTCTGCCTTGTAGCACAAGCAACAAAAACGCCTCGAACCCTTTCCGGCTAGG
CCAATTCCAAATGCATAGTCTC
Found at i:104906 original size:21 final size:21
Alignment explanation
Indices: 104881--104941 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
104871 GAAATTATTA
104881 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
104902 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
104916 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
104937 AAATG
1 AAATG
104942 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:104926 original size:35 final size:35
Alignment explanation
Indices: 104880--104953 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
104870 TGAAATTATT
104880 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
104915 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
104950 AAAA
1 AAAA
104954 AGTAAAGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.43
Consensus pattern (35 bp):
AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
Found at i:105403 original size:16 final size:16
Alignment explanation
Indices: 105382--105413 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
105372 ACTATTCATA
*
105382 TGAATAGTGAATTTCG
1 TGAATAGTGAAATTCG
105398 TGAATAGTGAAATTCG
1 TGAATAGTGAAATTCG
105414 GTCGGCGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.34
Consensus pattern (16 bp):
TGAATAGTGAAATTCG
Found at i:109522 original size:22 final size:22
Alignment explanation
Indices: 109496--109539 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
109486 TTTTCAAAGT
109496 TTGGTAAATGTTTCTTTGAAAA
1 TTGGTAAATGTTTCTTTGAAAA
109518 TTGGTAAATGTTTCTTTGAAAA
1 TTGGTAAATGTTTCTTTGAAAA
109540 ATAGTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (22 bp):
TTGGTAAATGTTTCTTTGAAAA
Found at i:110614 original size:61 final size:61
Alignment explanation
Indices: 110455--110607 Score: 159
Period size: 60 Copynumber: 2.5 Consensus size: 61
110445 TATATACTTT
* * * * * *
110455 ATTTTAAATTGGTCTCTAAAC-TTTTAAATATTTTAATTTTTTCCCTAACCTATAACTATC
1 ATTTTAAATTGGTCCCCAAACTTTTTAAACATTTTAATTTTATCCCCAAACTATAACTATC
* * ** * *
110515 ATTCTAAATTAGTCGTCAAA-TTTTTTAACATTTTAATTTTATCCCCAAACTATGAC-ATTC
1 ATTTTAAATTGGTCCCCAAACTTTTTAAACATTTTAATTTTATCCCCAAACTATAACTA-TC
*
110575 ATTTTAAATTGGTCCCCAAACTTTTTGAACATT
1 ATTTTAAATTGGTCCCCAAACTTTTTAAACATT
110608 CCAATTTCAT
Statistics
Matches: 74, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
59 1 0.01
60 62 0.84
61 11 0.15
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (61 bp):
ATTTTAAATTGGTCCCCAAACTTTTTAAACATTTTAATTTTATCCCCAAACTATAACTATC
Found at i:118389 original size:20 final size:21
Alignment explanation
Indices: 118346--118397 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
118336 CAAGATGAGG
* *
118346 GTATCGATACTAGGCCCTTTA
1 GTATCGATACTAGACCCTTGA
118367 GTATCGATACTA-ACCCTTGA
1 GTATCGATACTAGACCCTTGA
118387 GTATCGATACT
1 GTATCGATACT
118398 CACCTGTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (21 bp):
GTATCGATACTAGACCCTTGA
Found at i:118500 original size:16 final size:15
Alignment explanation
Indices: 118474--118506 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
118464 AGAGAGGATT
118474 GGAGGGGGAGGGAGG
1 GGAGGGGGAGGGAGG
118489 GGAGGAGGGAGGGAGG
1 GGAGG-GGGAGGGAGG
118505 GG
1 GG
118507 GAGAGGGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.21, C:0.00, G:0.79, T:0.00
Consensus pattern (15 bp):
GGAGGGGGAGGGAGG
Found at i:118512 original size:16 final size:15
Alignment explanation
Indices: 118474--118514 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
118464 AGAGAGGATT
*
118474 GGAGGGGGAGGGAGG
1 GGAGAGGGAGGGAGG
118489 GGAGGAGGGAGGGAGGG
1 GGA-GAGGGAGGGA-GG
118506 GGAGAGGGA
1 GGAGAGGGA
118515 TGAGAGAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 3 0.13
16 15 0.65
17 5 0.22
ACGTcount: A:0.24, C:0.00, G:0.76, T:0.00
Consensus pattern (15 bp):
GGAGAGGGAGGGAGG
Found at i:118529 original size:2 final size:2
Alignment explanation
Indices: 118516--118649 Score: 84
Period size: 2 Copynumber: 69.5 Consensus size: 2
118506 GGAGAGGGAT
* *
118516 GA GA GA GT GA GA GA GA GA GA GA GA GA G- GTA GA GA GA GA G- GG
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G-A GA GA GA GA GA GA
* * * * * *
118557 GTA GA GA GA AA GA GA GA GA GG GA GA TA GG GA G- GA -A GG GG GA
1 G-A GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * *
118598 GA GA GA GG GA GG GA GA GA -A G- GA GA GA GA GG GA G- GA GA GG
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
118637 GA GA GA GT GA GA G
1 GA GA GA GA GA GA G
118650 GGTAAGGGAG
Statistics
Matches: 100, Mismatches: 23, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
1 7 0.07
2 91 0.91
3 2 0.02
ACGTcount: A:0.40, C:0.00, G:0.56, T:0.04
Consensus pattern (2 bp):
GA
Found at i:124004 original size:15 final size:15
Alignment explanation
Indices: 123984--124058 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 15
123974 AAATAATTAA
123984 AATAATATATTTTAT
1 AATAATATATTTTAT
123999 AATAATATA-TTTAT
1 AATAATATATTTTAT
*
124013 AATCATTTATTATTTT-T
1 AAT-A-ATA-TATTTTAT
*
124030 AA-AAT-TA--TTAA
1 AATAATATATTTTAT
124041 AATAATATATTTTAT
1 AATAATATATTTTAT
124056 AAT
1 AAT
124059 GATTTATTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 18
0.68 0.06 0.26
Matches are distributed among these distances:
10 2 0.04
11 2 0.04
12 5 0.11
13 2 0.04
14 9 0.19
15 17 0.36
16 2 0.04
17 5 0.11
18 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (15 bp):
AATAATATATTTTAT
Found at i:124090 original size:42 final size:42
Alignment explanation
Indices: 123999--124092 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 42
123989 TATATTTTAT
123999 AATAATATA-TTTATAATCATTTATTATTTTTAAAATTATTAA
1 AATAATATATTTTATAATCATTTATTATTTTT-AAATTATTAA
* *
124041 AATAATATATTTTATAATGATTTATTATATTTT-TATTAATTAA
1 AATAATATATTTTATAATCATTTATTAT-TTTTAAATT-ATTAA
124084 AA-AATATAT
1 AATAATATAT
124093 CTTAATATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
42 19 0.40
43 24 0.51
44 4 0.09
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (42 bp):
AATAATATATTTTATAATCATTTATTATTTTTAAATTATTAA
Found at i:137512 original size:44 final size:45
Alignment explanation
Indices: 137422--137516 Score: 147
Period size: 44 Copynumber: 2.1 Consensus size: 45
137412 TTTTCTATTC
* * *
137422 TACTGTGAAGGTTTTTATGGCAGGGGGGTGTTTTTAAGTTTTATG
1 TACTGTAAAGGCTTTTATGGCAGGGGGATGTTTTTAAGTTTTATG
*
137467 TACTGTAAAGGCTTTTATGTCA-GGGGATGTTTTTAAGTTTTATG
1 TACTGTAAAGGCTTTTATGGCAGGGGGATGTTTTTAAGTTTTATG
137511 TACTGT
1 TACTGT
137517 TATTGGTGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 27 0.59
45 19 0.41
ACGTcount: A:0.20, C:0.06, G:0.28, T:0.45
Consensus pattern (45 bp):
TACTGTAAAGGCTTTTATGGCAGGGGGATGTTTTTAAGTTTTATG
Found at i:141999 original size:58 final size:59
Alignment explanation
Indices: 141909--142032 Score: 232
Period size: 58 Copynumber: 2.1 Consensus size: 59
141899 GCAATCATTG
141909 ATGACAATGTTATTACTCACAGCAATTAGATGCT-AAAAAATAACAACTATCTTGGCTA
1 ATGACAATGTTATTACTCACAGCAATTAGATGCTAAAAAAATAACAACTATCTTGGCTA
*
141967 ATGACAATGTTATTACTCACTGCAATTAGATGCTAAAAAAATAACAACTATCTTGGCTA
1 ATGACAATGTTATTACTCACAGCAATTAGATGCTAAAAAAATAACAACTATCTTGGCTA
142026 ATGACAA
1 ATGACAA
142033 CCAAAAACCT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 33 0.52
59 31 0.48
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (59 bp):
ATGACAATGTTATTACTCACAGCAATTAGATGCTAAAAAAATAACAACTATCTTGGCTA
Found at i:144922 original size:23 final size:23
Alignment explanation
Indices: 144878--144974 Score: 68
Period size: 23 Copynumber: 4.2 Consensus size: 23
144868 TGTTCGTTGA
* * **
144878 TTTAATGTGCGCAAACGTGTCCG
1 TTTAATGTTCGCGAACAAGTCCG
* *
144901 TTTAATGTTCGTGAACAAGTCCA
1 TTTAATGTTCGCGAACAAGTCCG
* * *
144924 TTTAAATATTCGCGAACATGTTCG
1 TTT-AATGTTCGCGAACAAGTCCG
* * * *
144948 TTTAACGTTCACGAACATGTTCG
1 TTTAATGTTCGCGAACAAGTCCG
144971 TTTA
1 TTTA
144975 GCGCTCGATT
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
23 41 0.69
24 18 0.31
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (23 bp):
TTTAATGTTCGCGAACAAGTCCG
Found at i:145397 original size:19 final size:22
Alignment explanation
Indices: 145373--145418 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
145363 CAAACTTCTG
145373 AATGAG-TTGTTCATG-A-ATA
1 AATGAGTTTGTTCATGCACATA
*
145392 AATGAGTTTGTTCGTGCACATA
1 AATGAGTTTGTTCATGCACATA
145414 AATGA
1 AATGA
145419 ATCGAACACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 8 0.35
21 1 0.04
22 8 0.35
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.35
Consensus pattern (22 bp):
AATGAGTTTGTTCATGCACATA
Found at i:149963 original size:17 final size:15
Alignment explanation
Indices: 149945--149975 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
149935 ATAAAAAAAT
*
149945 ATATTATTAATTTAA
1 ATATTTTTAATTTAA
149960 ATATTTTTAATTTAA
1 ATATTTTTAATTTAA
149975 A
1 A
149976 ATTCAAAATT
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTTTTAATTTAA
Found at i:151146 original size:14 final size:14
Alignment explanation
Indices: 151127--151192 Score: 69
Period size: 14 Copynumber: 4.3 Consensus size: 14
151117 GCTGGGCATA
151127 CGAGGCCATCCGAC
1 CGAGGCCATCCGAC
151141 CGAGGCCATCCGAGAGCATC
1 CGAGGCCATCC----G-A-C
151161 CGAGGCCATCCGAC
1 CGAGGCCATCCGAC
*
151175 CGAGGCCATCCGAA
1 CGAGGCCATCCGAC
151189 CGAG
1 CGAG
151193 CTATGCGAGG
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
14 29 0.64
15 1 0.02
16 1 0.02
18 1 0.02
19 1 0.02
20 12 0.27
ACGTcount: A:0.24, C:0.38, G:0.30, T:0.08
Consensus pattern (14 bp):
CGAGGCCATCCGAC
Found at i:151165 original size:34 final size:36
Alignment explanation
Indices: 151122--151210 Score: 128
Period size: 34 Copynumber: 2.5 Consensus size: 36
151112 AACATGCTGG
151122 GCATACGAGGCCATCCGACCGAGGCCATCCG-A-GA
1 GCATACGAGGCCATCCGACCGAGGCCATCCGAACGA
*
151156 GCATCCGAGGCCATCCGACCGAGGCCATCCGAACGA
1 GCATACGAGGCCATCCGACCGAGGCCATCCGAACGA
* *
151192 GCTATGCGAGGGCATCCGA
1 GC-ATACGAGGCCATCCGA
151211 GGGTAACCGA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
34 30 0.61
35 1 0.02
36 4 0.08
37 14 0.29
ACGTcount: A:0.25, C:0.35, G:0.30, T:0.10
Consensus pattern (36 bp):
GCATACGAGGCCATCCGACCGAGGCCATCCGAACGA
Found at i:151187 original size:10 final size:10
Alignment explanation
Indices: 151140--151173 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
151130 GGCCATCCGA
151140 CCGAGGCCAT
1 CCGAGGCCAT
151150 CCGAGAG-CAT
1 CCGAG-GCCAT
151160 CCGAGGCCAT
1 CCGAGGCCAT
151170 CCGA
1 CCGA
151174 CCGAGGCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 1 0.05
10 20 0.91
11 1 0.05
ACGTcount: A:0.24, C:0.38, G:0.29, T:0.09
Consensus pattern (10 bp):
CCGAGGCCAT
Found at i:151226 original size:33 final size:33
Alignment explanation
Indices: 151184--151246 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
151174 CCGAGGCCAT
*
151184 CCGAACGAGCTATGCGAGGGCATCCGAGGGTAA
1 CCGAACGAGCTATGCGAGGGAATCCGAGGGTAA
*
151217 CCGAGCGAGCTATGCGAGGGAATCCGAGGG
1 CCGAACGAGCTATGCGAGGGAATCCGAGGG
151247 AAGCCGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.24, G:0.40, T:0.11
Consensus pattern (33 bp):
CCGAACGAGCTATGCGAGGGAATCCGAGGGTAA
Found at i:151308 original size:29 final size:29
Alignment explanation
Indices: 151262--151346 Score: 161
Period size: 29 Copynumber: 2.9 Consensus size: 29
151252 GTGTGAGGGT
*
151262 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
151291 AGGTCGCCCGGAGGGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
151320 AGGTCGCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
151347 TGTGTTGGGA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.20, C:0.31, G:0.38, T:0.12
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:154908 original size:24 final size:24
Alignment explanation
Indices: 154881--154947 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
154871 GGAGAAAAAG
* * *
154881 AGAAGGAAGTGGAAGAAGAGGAAC
1 AGAAAGAAGTGGAGGAAGAAGAAC
*
154905 AGAAAGAAGTGGAGGAAGAAGAGC
1 AGAAAGAAGTGGAGGAAGAAGAAC
*
154929 AGAAAGAAGTAGAGGAAGA
1 AGAAAGAAGTGGAGGAAGA
154948 TGAGGAGGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.52, C:0.03, G:0.40, T:0.04
Consensus pattern (24 bp):
AGAAAGAAGTGGAGGAAGAAGAAC
Found at i:154957 original size:3 final size:3
Alignment explanation
Indices: 154949--154974 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
154939 AGAGGAAGAT
154949 GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GA
154975 AAAAGATAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:159419 original size:14 final size:14
Alignment explanation
Indices: 159400--159435 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
159390 ATTGTAACTC
*
159400 TTGTAGTAACTTAG
1 TTGTAGTAACTTAA
159414 TTGTAGTAACTTAA
1 TTGTAGTAACTTAA
159428 TTGTAGTA
1 TTGTAGTA
159436 GTATATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (14 bp):
TTGTAGTAACTTAA
Found at i:163092 original size:11 final size:11
Alignment explanation
Indices: 163076--163100 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
163066 GAGGCCAAAT
163076 CCATTTAAAAC
1 CCATTTAAAAC
163087 CCATTTAAAAC
1 CCATTTAAAAC
163098 CCA
1 CCA
163101 AATCAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (11 bp):
CCATTTAAAAC
Found at i:163182 original size:17 final size:17
Alignment explanation
Indices: 163160--163198 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
163150 TGAATCAAAT
163160 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
163177 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
163194 -AATTA
1 TAATTA
163199 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:164631 original size:29 final size:29
Alignment explanation
Indices: 164584--164674 Score: 87
Period size: 29 Copynumber: 3.0 Consensus size: 29
164574 AAAATAATTG
*
164584 AATACTTTAAGTACATATTTTGACTAAAA
1 AATACTTTAAGTACATATTTTGACAAAAA
*
164613 AATACTTTAGGTA-ACTATTTTGACAAAAA
1 AATACTTTAAGTACA-TATTTTGACAAAAA
* *
164642 AGATAACTTTACA-TACTTGTTTTGATCAAAAA
1 A-AT-ACTTTA-AGTACATATTTTGA-CAAAAA
164674 A
1 A
164675 TACGTTTGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
28 1 0.02
29 26 0.51
30 2 0.04
31 15 0.29
32 7 0.14
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (29 bp):
AATACTTTAAGTACATATTTTGACAAAAA
Found at i:164816 original size:59 final size:59
Alignment explanation
Indices: 164718--164836 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 59
164708 CTTTAATTAC
* *
164718 TTATTTATTATATAAGCCAACTCATTTCTTACAATCTACGGTTAAATTTTGGTTAAATT
1 TTATTTATTATACAAGCCAACTCATTTCTTACAAACTACGGTTAAATTTTGGTTAAATT
*
164777 TTATTTATTATACAAGCCAACTCATTTCTTATAAACTACGGTTAAATTTTGGTTAAATT
1 TTATTTATTATACAAGCCAACTCATTTCTTACAAACTACGGTTAAATTTTGGTTAAATT
164836 T
1 T
164837 AACTTGACTC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.45
Consensus pattern (59 bp):
TTATTTATTATACAAGCCAACTCATTTCTTACAAACTACGGTTAAATTTTGGTTAAATT
Found at i:164921 original size:21 final size:20
Alignment explanation
Indices: 164883--164926 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
164873 CGAGTTGTAA
* * *
164883 AATATAACTTAAATAACTTG
1 AATATAACTAAAAAAACTCG
164903 AATAGTAACTAAAAAAACTCG
1 AATA-TAACTAAAAAAACTCG
164924 AAT
1 AAT
164927 TTTTTAGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.27
Consensus pattern (20 bp):
AATATAACTAAAAAAACTCG
Found at i:166373 original size:13 final size:13
Alignment explanation
Indices: 166355--166381 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
166345 CATAGTTGAA
166355 CAGTCTTCATATG
1 CAGTCTTCATATG
166368 CAGTCTTCATATG
1 CAGTCTTCATATG
166381 C
1 C
166382 GCGTCTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:166591 original size:18 final size:21
Alignment explanation
Indices: 166548--166591 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 21
166538 TTTTATTTAC
166548 TTTAAATAATTAAACTATATT
1 TTTAAATAATTAAACTATATT
*
166569 ATTAAATAA-TAAA-T-TATT
1 TTTAAATAATTAAACTATATT
166587 TTTAA
1 TTTAA
166592 GGAGGTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 8 0.38
19 1 0.05
20 4 0.19
21 8 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTAAATAATTAAACTATATT
Found at i:167175 original size:72 final size:72
Alignment explanation
Indices: 167041--167176 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
167031 TCGGGACAAC
*
167041 AATAGTGGCGTTTTCTTGACAAACGCCGCAATAGATCAATCTATAATGACGTTTTATCAATAAAT
1 AATAGTGGCGTTTTCTTGAAAAACGCCGCAATAGATCAATCTATAATGACGTTTTATCAATAAAT
167106 CCGCAAT
66 CCGCAAT
* * * * * * *
167113 AATAGTGGCGTTTTTTTGAAAATACGTCGCAATAGGTCCATCTATAGTGGCG-TTTATTAATAAA
1 AATAGTGGCGTTTTCTTGAAAA-ACGCCGCAATAGATCAATCTATAATGACGTTTTATCAATAAA
167177 ACGTCACTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 31 0.56
73 24 0.44
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (72 bp):
AATAGTGGCGTTTTCTTGAAAAACGCCGCAATAGATCAATCTATAATGACGTTTTATCAATAAAT
CCGCAAT
Found at i:170240 original size:4 final size:4
Alignment explanation
Indices: 170231--170304 Score: 148
Period size: 4 Copynumber: 18.5 Consensus size: 4
170221 ATCATACATT
170231 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
170279 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
170305 TACATATCAT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 70 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:171317 original size:2 final size:2
Alignment explanation
Indices: 171310--171336 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
171300 GGCGAGTTTT
171310 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
171337 AGAAACGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:172255 original size:319 final size:319
Alignment explanation
Indices: 171676--172314 Score: 1161
Period size: 319 Copynumber: 2.0 Consensus size: 319
171666 TTTTTATTGG
*
171676 CCAAGTTACACCATAACTCATTCAATCATTAGTAATATTATAAACGGGTCACCCATTTCAAAAAG
1 CCAAGTTACACCATAACTCATTCAATCATTAGTAATATTATAAACAGGTCACCCATTTCAAAAAG
*
171741 TCACTGACGAGTCATTCAATTAATCGGTAAAGAAAATTAAAAATAATATTCTAGGTTTTGATCTT
66 TCACTGACGAGTCATTCAATTAATCGGTAAAGAAAATTAAAAATAATATTATAGGTTTTGATCTT
* *
171806 TTCAAAAATCGAGAACTTCATTCGAAAATCGAAACGTTTGAGAGATGTCTGTGAGCTGAAGAATA
131 CTCAAAAATCGAGAACTTCATTCGAAAATCGAAACGTTTGAGAGATGTCTGTGAGATGAAGAATA
* *
171871 CATCCCTAGATAGAGTCCATTTGAAGGTAAACGATGCAGAACAAAGTTTAATGGTTCTGAGGTGA
196 CATCCCTAGATAGAGTCCATTTGAAGGTAAACGATGAAGAACAAAGTTTAATAGTTCTGAGGTGA
*
171936 TTTCATAACTTTAAAGAGGGTTCCTCGGGAACCTAATCCGATGAATTGAACAAAGAGAT
261 TTTCATAACTTTAAAGAGGGTTCATCGGGAACCTAATCCGATGAATTGAACAAAGAGAT
*
171995 CCAAGTTACACCATAACTCATTCAATCATTAGTAATATTATAAACATGTCACCCATTTCAAAAAG
1 CCAAGTTACACCATAACTCATTCAATCATTAGTAATATTATAAACAGGTCACCCATTTCAAAAAG
*
172060 TCACTGACGAGTCATTCAATTAATCGGTAAAGAAAATTAAAAATAATATTATGGGTTTTGATCTT
66 TCACTGACGAGTCATTCAATTAATCGGTAAAGAAAATTAAAAATAATATTATAGGTTTTGATCTT
*
172125 CTCAAAGATCGAGAACTTCATTCGAAAATCGAAACGTTTGAGAGATGTCTGTGAGATGAAGAATA
131 CTCAAAAATCGAGAACTTCATTCGAAAATCGAAACGTTTGAGAGATGTCTGTGAGATGAAGAATA
*
172190 CATCCCTAGATAGAGTCCATTTGAAGGTAAACGATGAAGAACAAAGTTTAATAGTTTTGAGGTGA
196 CATCCCTAGATAGAGTCCATTTGAAGGTAAACGATGAAGAACAAAGTTTAATAGTTCTGAGGTGA
* *
172255 TTTCATAACTTTTAAGAGGGTTTATCGGGAACCTAATCCGATGAATTGAACAAAGAGAT
261 TTTCATAACTTTAAAGAGGGTTCATCGGGAACCTAATCCGATGAATTGAACAAAGAGAT
172314 C
1 C
172315 AATGTGAATA
Statistics
Matches: 307, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
319 307 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (319 bp):
CCAAGTTACACCATAACTCATTCAATCATTAGTAATATTATAAACAGGTCACCCATTTCAAAAAG
TCACTGACGAGTCATTCAATTAATCGGTAAAGAAAATTAAAAATAATATTATAGGTTTTGATCTT
CTCAAAAATCGAGAACTTCATTCGAAAATCGAAACGTTTGAGAGATGTCTGTGAGATGAAGAATA
CATCCCTAGATAGAGTCCATTTGAAGGTAAACGATGAAGAACAAAGTTTAATAGTTCTGAGGTGA
TTTCATAACTTTAAAGAGGGTTCATCGGGAACCTAATCCGATGAATTGAACAAAGAGAT
Found at i:179055 original size:2 final size:2
Alignment explanation
Indices: 179048--179081 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
179038 ATGTGAAGGC
179048 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
179082 GGGTAAACTA
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):
AT
Done.