Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000250.1 Hibiscus syriacus cultivar Beakdansim tig00000452_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: 2850692
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 12
Found at i:259606 original size:20 final size:20
Alignment explanation
Indices: 259581--259632 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
259571 CAAATAACAA
259581 AAATAAA-AAAGAAAGAAAAT
1 AAATAAATAAA-AAAGAAAAT
*
259601 AAATAAATAAAAAATAAAAT
1 AAATAAATAAAAAAGAAAAT
*
259621 GAATATAATAAA
1 AAATA-AATAAA
259633 TAATAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (20 bp):
AAATAAATAAAAAAGAAAAT
Found at i:259613 original size:25 final size:26
Alignment explanation
Indices: 259572--259662 Score: 73
Period size: 25 Copynumber: 3.5 Consensus size: 26
259562 TGTTTGGATC
* *
259572 AAATAACAAAAATAAAAAA-GAAA-GA
1 AAATAA-ATAAATAAAAAATAAAATGA
259597 AAATAAATAAATAAAAAATAAAATGA
1 AAATAAATAAATAAAAAATAAAATGA
* * * *
259623 ATAT-AATAAATAATAAATTAGAATAA
1 AAATAAATAAATAA-AAAATAAAATGA
259649 TAAAT-AATAAATAA
1 -AAATAAATAAATAA
259663 TATTATACTA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 11 0.20
25 18 0.33
26 14 0.25
27 12 0.22
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (26 bp):
AAATAAATAAATAAAAAATAAAATGA
Found at i:259630 original size:5 final size:4
Alignment explanation
Indices: 259597--259662 Score: 59
Period size: 4 Copynumber: 16.5 Consensus size: 4
259587 AAAAGAAAGA
*
259597 AAAT AAAT AAAT AAA- AAAT AAAAT GAAT ATAAT AAAT -AAT AAATT AGAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT A-AAT AAAT AAAT AAA-T A-AAT
259647 -AAT AAAT -AAT AAAT AA
1 AAAT AAAT AAAT AAAT AA
259663 TATTATACTA
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
3 12 0.23
4 27 0.52
5 11 0.21
6 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:259635 original size:7 final size:7
Alignment explanation
Indices: 259598--259664 Score: 61
Period size: 7 Copynumber: 9.6 Consensus size: 7
259588 AAAGAAAGAA
259598 AATAAAT
1 AATAAAT
*
259605 AAATAAAA
1 -AATAAAT
259613 AAT-AA-
1 AATAAAT
259618 AATGAATAT
1 AAT-AA-AT
259627 AATAAAT
1 AATAAAT
259634 AATAAAT
1 AATAAAT
259641 --TAGAAT
1 AATA-AAT
259647 AATAAAT
1 AATAAAT
259654 AATAAAT
1 AATAAAT
259661 AATA
1 AATA
259665 TTATACTATA
Statistics
Matches: 51, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
5 5 0.10
6 5 0.10
7 27 0.53
8 11 0.22
9 3 0.06
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (7 bp):
AATAAAT
Found at i:259640 original size:20 final size:19
Alignment explanation
Indices: 259598--259665 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
259588 AAAGAAAGAA
*
259598 AATAAATAA-ATAAAAAAT
1 AATAAATAATATAATAAAT
259616 -A-AAATGAATATAATAAAT
1 AATAAAT-AATATAATAAAT
259634 AATAAATTAGA-ATAATAAAT
1 AATAAA-TA-ATATAATAAAT
259654 AATAAATAATAT
1 AATAAATAATAT
259666 TATACTATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
16 4 0.10
17 3 0.07
18 9 0.21
19 5 0.12
20 19 0.45
21 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
AATAAATAATATAATAAAT
Found at i:259761 original size:37 final size:37
Alignment explanation
Indices: 259683--260029 Score: 354
Period size: 37 Copynumber: 9.1 Consensus size: 37
259673 TATAATATAT
* *
259683 AAATGTTTTTAAAAACTATATAATATATATATATATATTCA
1 AAATATTTTCAAAAACTATAT-AT-TATATATAT-T-TTCA
*
259724 AAATGTTTTCAAAAACTATATATTATATATATTTTCA
1 AAATATTTTCAAAAACTATATATTATATATATTTTCA
*
259761 AAATATTTTCAAAAACTATATTATATATATATATATATATATA
1 AAATATTTTCAAAAACTATA-TAT-TATATATAT-T-T-T-CA
*
259804 TATTCAAAATGTTTTC-AAAACTATATA--ATATATA--TTCA
1 -A---AATA--TTTTCAAAAACTATATATTATATATATTTTCA
259842 AAATATTTTCAAAAACTATATA-T-TATATATTTTCA
1 AAATATTTTCAAAAACTATATATTATATATATTTTCA
* *
259877 AAATATTTTTAAAAACTATATATTATTTATATTTTCA
1 AAATATTTTCAAAAACTATATATTATATATATTTTCA
*
259914 AAATATTTTCAAAAACTATATATTATATATATTTTTA
1 AAATATTTTCAAAAACTATATATTATATATATTTTCA
259951 AAATATTTTCAAAAACTATATATTATATATATGTTTTCA
1 AAATATTTTCAAAAACTATATATTATATATA--TTTTCA
**
259990 AAA-AGTTTTTTTAAAACTATATATT-T-TATATTTTCA
1 AAATA--TTTTCAAAAACTATATATTATATATATTTTCA
260026 AAAT
1 AAAT
260030 TATATATATA
Statistics
Matches: 269, Mismatches: 14, Indels: 50
0.81 0.04 0.15
Matches are distributed among these distances:
32 5 0.02
33 17 0.06
34 3 0.01
35 25 0.09
36 10 0.04
37 100 0.37
38 10 0.04
39 28 0.10
40 21 0.08
41 21 0.08
42 1 0.00
43 1 0.00
44 8 0.03
47 5 0.02
48 9 0.03
49 5 0.02
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (37 bp):
AAATATTTTCAAAAACTATATATTATATATATTTTCA
Found at i:259789 original size:2 final size:2
Alignment explanation
Indices: 259777--259806 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
259767 TTTCAAAAAC
259777 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
259807 TCAAAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:259810 original size:49 final size:47
Alignment explanation
Indices: 259740--259838 Score: 153
Period size: 48 Copynumber: 2.1 Consensus size: 47
259730 TTTCAAAAAC
* *
259740 TATATATTATATATATTTTCAAAATATTTTCAAAAACTATATTATATA
1 TATATATTATATATATATTCAAAATATTTTC-AAAACTATATAATATA
*
259788 TATATATATATATATATATTCAAAATGTTTTCAAAACTATATAATATA
1 TATATAT-TATATATATATTCAAAATATTTTCAAAACTATATAATATA
259836 TAT
1 TAT
259839 TCAAAATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 25 0.53
49 22 0.47
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.46
Consensus pattern (47 bp):
TATATATTATATATATATTCAAAATATTTTCAAAACTATATAATATA
Found at i:259834 original size:68 final size:66
Alignment explanation
Indices: 259790--259972 Score: 208
Period size: 72 Copynumber: 2.6 Consensus size: 66
259780 ATTATATATA
*
259790 TATATATATATATATATTCAAAAT-GTTTTCAAAACTATATAATATATATTCAAAATATTTTCAA
1 TATATAT-TATATATATTCAAAATAGTTTTAAAAACTATATAATAT-T-TTCAAAATATTTTCAA
259854 AAAC
63 AAAC
* *
259858 TATATATTATATATTTTCAAAATATTTTTAAAAACTATATATTATTTATATTTTCAAAATATTTT
1 TATATATTATATATATTCAAAATAGTTTTAAAAAC--TATA-TA---ATATTTTCAAAATATTTT
259923 CAAAAAC
60 CAAAAAC
*
259930 TATATATTATATATATTTTTAAAATA-TTTTCAAAAACTATATA
1 TATATATTATATATA--TTCAAAATAGTTTT-AAAAACTATATA
259973 TTATATATAT
Statistics
Matches: 100, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
67 15 0.15
68 16 0.16
70 4 0.04
71 4 0.04
72 38 0.38
73 5 0.05
74 18 0.18
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (66 bp):
TATATATTATATATATTCAAAATAGTTTTAAAAACTATATAATATTTTCAAAATATTTTCAAAAA
C
Found at i:259852 original size:11 final size:11
Alignment explanation
Indices: 259801--259964 Score: 52
Period size: 11 Copynumber: 14.1 Consensus size: 11
259791 ATATATATAT
*
259801 ATATATTCAAA
1 ATATTTTCAAA
*
259812 ATGTTTTCAAA
1 ATATTTTCAAA
* *
259823 ACTA-TAT-AAT
1 A-TATTTTCAAA
*
259833 ATATATTCAAA
1 ATATTTTCAAA
259844 ATATTTTCAAAA
1 ATATTTTC-AAA
*
259856 ACTATATATT--AT
1 A-TAT-T-TTCAAA
259868 ATATTTTCAAA
1 ATATTTTCAAA
*
259879 ATATTTTTAAAA
1 ATA-TTTTCAAA
**
259891 ACTATATATT-ATTT
1 A-TAT-T-TTCA-AA
259905 ATATTTTCAAA
1 ATATTTTCAAA
259916 ATATTTTCAAAA
1 ATATTTTC-AAA
*
259928 ACTATATATT-ATAT
1 A-TAT-T-TTCA-AA
*
259942 ATATTTTTAAA
1 ATATTTTCAAA
259953 ATATTTTCAAA
1 ATATTTTCAAA
259964 A
1 A
259965 ACTATATATT
Statistics
Matches: 113, Mismatches: 19, Indels: 42
0.65 0.11 0.24
Matches are distributed among these distances:
9 4 0.04
10 5 0.04
11 52 0.46
12 24 0.21
13 17 0.15
14 7 0.06
15 4 0.04
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (11 bp):
ATATTTTCAAA
Found at i:285408 original size:73 final size:73
Alignment explanation
Indices: 285291--285430 Score: 228
Period size: 73 Copynumber: 1.9 Consensus size: 73
285281 AATAGGGTCT
* * **
285291 ACTGGATTATCATGTTTTCGAGTTTTTTAATAAAAAAATGATGTTTAAAAATATTTTTTAATTAT
1 ACTGAATTATCATATTTTCGAGTTTTAAAATAAAAAAATGATGTTTAAAAATATTTTTTAATTAT
285356 TAGGGCCC
66 TAGGGCCC
285364 ACTGAATTATCATATTTTCGAGTGTTTAAAATAAAAAAAT-ATGTTTAAAAATATTTTTTAATTA
1 ACTGAATTATCATATTTTCGAGT-TTTAAAATAAAAAAATGATGTTTAAAAATATTTTTTAATTA
285428 TTA
65 TTA
285431 AACTTAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
73 48 0.77
74 14 0.23
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (73 bp):
ACTGAATTATCATATTTTCGAGTTTTAAAATAAAAAAATGATGTTTAAAAATATTTTTTAATTAT
TAGGGCCC
Found at i:293505 original size:22 final size:21
Alignment explanation
Indices: 293463--293502 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
293453 GAGTTTATTT
*
293463 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
293484 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
293503 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:296546 original size:27 final size:27
Alignment explanation
Indices: 296502--296554 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
296492 GTTTGAGGGA
* *
296502 GTGTTGTTTGGTTATGTTTC-TTTTGTC
1 GTGTTGATTAGTTATG-TTCATTTTGTC
*
296529 GTGTTGATTAGTTTTGTTCATTTTGT
1 GTGTTGATTAGTTATGTTCATTTTGT
296555 GATATTTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.08, C:0.06, G:0.25, T:0.62
Consensus pattern (27 bp):
GTGTTGATTAGTTATGTTCATTTTGTC
Found at i:301345 original size:19 final size:18
Alignment explanation
Indices: 301321--301368 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
301311 GATCAAGGGA
*
301321 AATGAATGCATGTGTCTTT
1 AATGAATGCATGTCT-TTT
301340 AATGAATGTACATGTCTTTT
1 AATGAATG--CATGTCTTTT
301360 AATGAATGC
1 AATGAATGC
301369 TCTTGTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 8 0.31
20 11 0.42
21 6 0.23
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (18 bp):
AATGAATGCATGTCTTTT
Found at i:302827 original size:21 final size:21
Alignment explanation
Indices: 302803--302857 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
302793 CCTTTAGCTA
*
302803 AATGAGCTTCCATCATTTGTT
1 AATGAGCTACCATCATTTGTT
*
302824 AATGAGCTACCATCCTTTGTT
1 AATGAGCTACCATCATTTGTT
302845 AATGAGCTACCAT
1 AATGAGCTACCAT
302858 AACTTCCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (21 bp):
AATGAGCTACCATCATTTGTT
Found at i:304608 original size:19 final size:19
Alignment explanation
Indices: 304584--304628 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
304574 ATTGTAATAC
304584 CCCAAATTTTGGTTAGTAA
1 CCCAAATTTTGGTTAGTAA
304603 CCCAAATTTTGGTTAGTAA
1 CCCAAATTTTGGTTAGTAA
*
304622 CCAAAAT
1 CCCAAAT
304629 ATAAATTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (19 bp):
CCCAAATTTTGGTTAGTAA
Found at i:304660 original size:29 final size:31
Alignment explanation
Indices: 304615--304678 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
304605 CAAATTTTGG
*
304615 TTAGTAACCAAAATAT-AAATTTTG-AAAGT
1 TTAGTAACCAAAATATAAAATTTAGAAAAGT
* *
304644 TTAGTAGCCAAATTATAAAATTTAGAAAAGT
1 TTAGTAACCAAAATATAAAATTTAGAAAAGT
304675 TTAG
1 TTAG
304679 GGACCTAGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 14 0.47
30 7 0.23
31 9 0.30
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.34
Consensus pattern (31 bp):
TTAGTAACCAAAATATAAAATTTAGAAAAGT
Found at i:311818 original size:36 final size:36
Alignment explanation
Indices: 311718--311818 Score: 98
Period size: 36 Copynumber: 2.8 Consensus size: 36
311708 GCATTAGGTC
* *
311718 AGGAATCACCAGCTTAATCAGAACTGAACCTACAATA
1 AGGAATTA-CAGCTTGATCAGAACTGAACCTACAATA
*** *
311755 AGGAATTACTAG-TTGATCAGTGTTGAACCTA-TATA
1 AGGAATTAC-AGCTTGATCAGAACTGAACCTACAATA
*
311790 ATGAATTATCAGCTTGATCAGAACTGAAC
1 AGGAATTA-CAGCTTGATCAGAACTGAAC
311819 GTGCACAGAC
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
35 12 0.24
36 30 0.59
37 9 0.18
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.27
Consensus pattern (36 bp):
AGGAATTACAGCTTGATCAGAACTGAACCTACAATA
Found at i:316313 original size:35 final size:36
Alignment explanation
Indices: 316190--316318 Score: 127
Period size: 36 Copynumber: 3.6 Consensus size: 36
316180 CCTTAGGTCC
* * *
316190 ATAAGGATTTACCAG-TTGATCGGTGCTGAACCTCT
1 ATAAGGAATTACCAGCTTGATCGGTGCTAAACCTAT
* * *** * *
316225 ATAATGAATTACCAGCTTGATCAGAAATAAACCAACA
1 ATAAGGAATTACCAGCTTGATCGGTGCTAAACCTA-T
* *
316262 ATAAAGAATTACCAGC-TGATCGGTGCTAAATCTAT
1 ATAAGGAATTACCAGCTTGATCGGTGCTAAACCTAT
316297 ATAAGGAATTACCAGCTTGATC
1 ATAAGGAATTACCAGCTTGATC
316319 AGAACTAAAC
Statistics
Matches: 72, Mismatches: 19, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
35 28 0.39
36 29 0.40
37 15 0.21
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (36 bp):
ATAAGGAATTACCAGCTTGATCGGTGCTAAACCTAT
Found at i:318223 original size:20 final size:20
Alignment explanation
Indices: 318186--318225 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
318176 TTTTATAAAT
* **
318186 AGTGAACAGTACCCGTGAAC
1 AGTGAACAATACAAGTGAAC
318206 AGTGAACAATACAAGTGAAC
1 AGTGAACAATACAAGTGAAC
318226 GGTAGGGGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (20 bp):
AGTGAACAATACAAGTGAAC
Found at i:318807 original size:44 final size:46
Alignment explanation
Indices: 318687--318812 Score: 150
Period size: 47 Copynumber: 2.8 Consensus size: 46
318677 TATAAAATCT
*
318687 CTTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTACCAAGATA
1 CTTACCATTTAATTCCATAAGCTCGTAAGCTTATTTTACCAAGATA
* * *
318732 CTTACCATTTAAATTCCATAAGCTTGTAAGCTTATTTTTCCAATATA
1 CTTACCATTT-AATTCCATAAGCTCGTAAGCTTATTTTACCAAGATA
* * * *
318779 CTTGCTA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCGTAAGCTTATTT
318813 GCATGGTTAC
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
44 22 0.31
45 10 0.14
46 2 0.03
47 36 0.51
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.40
Consensus pattern (46 bp):
CTTACCATTTAATTCCATAAGCTCGTAAGCTTATTTTACCAAGATA
Found at i:326076 original size:47 final size:44
Alignment explanation
Indices: 326007--326132 Score: 146
Period size: 47 Copynumber: 2.8 Consensus size: 44
325997 TATAAAATCT
326007 CTTACCATT-TTCCCCATAAGCTCGTAAGCTTATTTTACCAAGATA
1 CTTACCATTATT--CCATAAGCTCGTAAGCTTATTTTACCAAGATA
* *
326052 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCAATATA
1 CTTACCA-TT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAGATA
* * * *
326099 CTTGCCATTATTTCGTAAGCTCATAAGCTTATTT
1 CTTACCATTATTCCATAAGCTCGTAAGCTTATTT
326133 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
44 22 0.31
45 7 0.10
46 4 0.06
47 36 0.51
49 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (44 bp):
CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAAGATA
Found at i:339801 original size:74 final size:75
Alignment explanation
Indices: 339712--339877 Score: 185
Period size: 75 Copynumber: 2.2 Consensus size: 75
339702 GTTAAATGAC
* * *
339712 TAGGGTTATCGGTACCCATAAGT-GGGTATCGATACCCATAGGGCATTCTATTTTTCTCGG-GCC
1 TAGGGGTATCGGTACCC-TAAGTGGGGTATCGACACCCATAGGGCAATCTATTTTTCTCGGAG-C
339775 CAAAACTT-GCA
64 CAAAACTTGGCA
* * * * * *
339786 TAGGGGTATCAGTACCCTATGTGGGGGTATCGGCATCCATTGGGCAATCTGTTTTTCTCGGAGCC
1 TAGGGGTATCGGTACCCTAAGT-GGGGTATCGACACCCATAGGGCAATCTATTTTTCTCGGAGCC
*
339851 AAAATTTGGCA
65 AAAACTTGGCA
*
339862 TAGAGGTATCGGTACC
1 TAGGGGTATCGGTACC
339878 TCCCTATTTA
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
73 4 0.05
74 15 0.20
75 39 0.51
76 18 0.24
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (75 bp):
TAGGGGTATCGGTACCCTAAGTGGGGTATCGACACCCATAGGGCAATCTATTTTTCTCGGAGCCA
AAACTTGGCA
Found at i:347132 original size:23 final size:21
Alignment explanation
Indices: 347080--347182 Score: 93
Period size: 23 Copynumber: 4.8 Consensus size: 21
347070 AAATCTCGAT
* *
347080 GGGTGTATCGATGCACA-GCA
1 GGGTGCATCGATGCACATTCA
347100 GGGTGCATCGATGCACATTCGA
1 GGGTGCATCGATGCACATTC-A
* *
347122 GGAGTGCATCGGTGTATC-TTCA
1 GG-GTGCATCGATGCA-CATTCA
* *
347144 TGGTGGATCGATGCACATTCAA
1 GGGTGCATCGATGCACATTC-A
347166 GGGATGCATCGATGCAC
1 GGG-TGCATCGATGCAC
347183 TGTCTAGTGT
Statistics
Matches: 66, Mismatches: 10, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
20 17 0.26
21 14 0.21
22 8 0.12
23 26 0.39
24 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (21 bp):
GGGTGCATCGATGCACATTCA
Found at i:349562 original size:14 final size:13
Alignment explanation
Indices: 349528--349563 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
349518 TAACATTTTC
349528 TTTGAAAAATAAT
1 TTTGAAAAATAAT
349541 TTTGAAAAATAAT
1 TTTGAAAAATAAT
*
349554 TTTGTAAAAT
1 TTTGAAAAAT
349564 TACTCCCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (13 bp):
TTTGAAAAATAAT
Found at i:351731 original size:44 final size:43
Alignment explanation
Indices: 351658--351758 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 43
351648 TACACAACAG
* * * * *
351658 GGTGCATCAATGCACATTCGAGGAGTGCATCGGTGTATCT-TCAT
1 GGTGTATCGATGCACATTCAAGGAGTGCATCGATGCA-CTGTC-T
351702 GGTGTATCGATGCACATTCAAGG-GATGCATCGATGCACTGTCT
1 GGTGTATCGATGCACATTCAAGGAG-TGCATCGATGCACTGTCT
*
351745 AGTGTATCGATGCA
1 GGTGTATCGATGCA
351759 TAGTGCACAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
43 17 0.35
44 32 0.65
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (43 bp):
GGTGTATCGATGCACATTCAAGGAGTGCATCGATGCACTGTCT
Found at i:359387 original size:16 final size:15
Alignment explanation
Indices: 359366--359398 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
359356 AGCTAAAATG
359366 AAATAAAAAAAGATAA
1 AAATAAAAAAAGA-AA
359382 AAATAAAAAAAGAAA
1 AAATAAAAAAAGAAA
359397 AA
1 AA
359399 GAAAAGCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (15 bp):
AAATAAAAAAAGAAA
Found at i:361140 original size:84 final size:84
Alignment explanation
Indices: 360796--361469 Score: 710
Period size: 84 Copynumber: 8.0 Consensus size: 84
360786 ACCATGCGGT
* * * * * * * **
360796 TGATATGCCTATGAGCTGAATGAAATCAAACTCGAAGGTC-TTTGATGACAGATAACCCTTCTTT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAG
*
360860 CCTTGAGTTATGCTGTAAA
66 CCTTGAGTTATGCTGCAAA
* * *
360879 TTTGATATGCCTTTGAGCTGAGTGTAATCGAACTTGAAGGTC-TTTGTTGACAGATAACCCTTCT
1 --TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCT
* * *
360943 CGTCTTGAGCTATGCTGCAAA
64 AGCCTTGAGTTATGCTGCAAA
* * *
360964 TGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTC-TTTGGTGGCAGATAACCCTTCTAT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAG
361028 CCTTGAGTTATGCTGCAAA
66 CCTTGAGTTATGCTGCAAA
* * * * * *
361047 TGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTATTGGCAGATAATCCTTCTAG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAG
*
361112 CCTTGAATTATGCTGCAAA
66 CCTTGAGTTATGCTGCAAA
* * * * * *
361131 TGATGTGCCTTAGAGCTGAGCGTAGTCGAACTAGAAGGT-TTTTGGTTAGCAGATAACCCTTCTC
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTT-GTTGGCAGATAACCCTTCTA
* * * *
361195 GACTTAAGTTATGATACAAA
65 GCCTTGAGTTATGCTGCAAA
* * * * * **
361215 TGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTTGGTGGTAGATAACCCTTTTCT
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAG
*
361280 CCTTGAGTTATGCTGTAAA
66 CCTTGAGTTATGCTGCAAA
* * * * * *
361299 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGAAGATAACCCTTTTAG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAG
* * *
361364 CCTTAAGTTATGATGTAAA
66 CCTTGAGTTATGCTGCAAA
* * * * * *
361383 TGATGTTCCTTTAAGCTAAGTGTAA-CTGAACTCGAAGGTCTTTTGTTAGCAGATAGCCCTTCTT
1 TGATGTGCCTTTGAGCTGAGTGTAATC-GAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTA
* * * *
361447 GCCTTTAGCTAAGCTACAAA
65 GCCTTGAGTTATGCTGCAAA
361467 TGA
1 TGA
361470 GAACGATATC
Statistics
Matches: 499, Mismatches: 86, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
83 116 0.23
84 307 0.62
85 76 0.15
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (84 bp):
TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAG
CCTTGAGTTATGCTGCAAA
Found at i:361323 original size:252 final size:249
Alignment explanation
Indices: 360821--361469 Score: 820
Period size: 252 Copynumber: 2.6 Consensus size: 249
360811 CTGAATGAAA
* ** *
360821 TCAAACTCGAAGGTCTTTGA-TGACAGATAACCCTTCTTTCCTTGAGTTATGCTGTAAATTTGAT
1 TCAAACTCGAAGGTCTTTGATTGGCAGATAACCCTTCTAGCCTTGAATTATGCTGTAAA--TGAT
* * * * *
360885 ATGCCTTTGAGCTGAGTGTAATCGAACTTGAAGGTCTTTGTT-GACAGATAACCCTTCTCGTCTT
64 GTGCCTTAGAGCTGAGTGT-ATCGAACTAGAAGGTTTTTGTTAG-CAGATAACCCTTCTCGACTT
* * * * *
360949 GAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGTGGCA
127 AAGCTATGATACAAATGATATGCCTTTGAGCTAAGTGTAATCAAACTCGAAGGTCTTTGGTGGCA
361014 GATAACCCTTCTATCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
192 GATAACCCTTCTATCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* * *
361072 TCAAACTCGAAGGTCTTTTATTGGCAGATAATCCTTCTAGCCTTGAATTATGCTGCAAATGATGT
1 TCAAACTCGAAGGTCTTTGATTGGCAGATAACCCTTCTAGCCTTGAATTATGCTGTAAATGATGT
*
361137 GCCTTAGAGCTGAGCGTAGTCGAACTAGAAGGTTTTTGGTTAGCAGATAACCCTTCTCGACTTAA
66 GCCTTAGAGCTGAGTGTA-TCGAACTAGAAGGTTTTT-GTTAGCAGATAACCCTTCTCGACTTAA
* * *
361202 GTTATGATACAAATGATATGCCTTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTTGGTGGTAG
129 GCTATGATACAAATGATATGCCTTTGAGCTAAGTGTAATCAAACTCGAAGGTC-TTTGGTGGCAG
* * *
361267 ATAACCCTTTTCTCCTTGAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAG
193 ATAACCCTTCTATCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* * * * *
361324 TCGAACTCGAAGGTCTTTGGTTGGAAGATAACCCTTTTAGCCTT-AAGTTATGATGTAAATGATG
1 TCAAACTCGAAGGTCTTTGATTGGCAGATAACCCTTCTAGCCTTGAA-TTATGCTGTAAATGATG
* * * * * * *
361388 TTCCTTTA-AGCTAAGTGTAACTGAACTCGAAGGTCTTTTGTTAGCAGATAGCCCTTCTTGCCTT
65 TGCC-TTAGAGCTGAGTGTATC-GAACTAGAAGGT-TTTTGTTAGCAGATAACCCTTCTCGACTT
* * *
361452 TAGCTAAGCTACAAATGA
127 AAGCTATGATACAAATGA
361470 GAACGATATC
Statistics
Matches: 345, Mismatches: 44, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
249 1 0.00
250 36 0.10
251 92 0.27
252 209 0.61
253 7 0.02
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (249 bp):
TCAAACTCGAAGGTCTTTGATTGGCAGATAACCCTTCTAGCCTTGAATTATGCTGTAAATGATGT
GCCTTAGAGCTGAGTGTATCGAACTAGAAGGTTTTTGTTAGCAGATAACCCTTCTCGACTTAAGC
TATGATACAAATGATATGCCTTTGAGCTAAGTGTAATCAAACTCGAAGGTCTTTGGTGGCAGATA
ACCCTTCTATCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
Found at i:361686 original size:121 final size:121
Alignment explanation
Indices: 361472--361812 Score: 468
Period size: 121 Copynumber: 2.8 Consensus size: 121
361462 ACAAATGAGA
* * * * * *
361472 ACGATATCCTTCGTCGTAAAGTTGAAATCGTGAATGCCCCCTTCATTGTAAAGATGAACCTAGAA
1 ACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGATGAACCTAGAA
* * *
361537 TTAT-ATATCCTTCTTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTTCTTGTGGAC
66 TT-TGATATCCTTCTTCGTGAAGTTGAAATCCAAGGGTTGCATTGATGCTGGTGGAC
* ** *
361593 ACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCCTTTTCGTTATGAAGATGAACCTCGAA
1 ACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGATGAACCTAGAA
*
361658 TTTGATATCCTTCTTTGTGAAGTTGAAATCCAAGGGTTGCATTGATGCTGGTGGAC
66 TTTGATATCCTTCTTCGTGAAGTTGAAATCCAAGGGTTGCATTGATGCTGGTGGAC
* * * * *
361714 AAGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCCCCTTCGTCATGAAGTTGAACCTTGAA
1 ACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGATGAACCTAGAA
* * *
361779 TTAGATATCCTTCATCGTGAAGATGAAATCCAAG
66 TTTGATATCCTTCTTCGTGAAGTTGAAATCCAAG
361813 TTAAATTTCG
Statistics
Matches: 193, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
120 1 0.01
121 192 0.99
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (121 bp):
ACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGATGAACCTAGAA
TTTGATATCCTTCTTCGTGAAGTTGAAATCCAAGGGTTGCATTGATGCTGGTGGAC
Found at i:362060 original size:43 final size:43
Alignment explanation
Indices: 362013--362130 Score: 173
Period size: 43 Copynumber: 2.7 Consensus size: 43
362003 TGTGGGCACA
*
362013 ATATCCTCCGTCGTGGAGTTGAAATCGTGGATCCATTGGTATG
1 ATATCCTCCGTCGTGGAGTTGAAATCGTGGATCCATTGGTACG
* * *
362056 ATATCCTCCGTCGTGGAGTTGAAATCTTCGATCCGTTGGTACG
1 ATATCCTCCGTCGTGGAGTTGAAATCGTGGATCCATTGGTACG
** *
362099 ATATCCTTAGTCGTGAAGTTGAAATCGTGGAT
1 ATATCCTCCGTCGTGGAGTTGAAATCGTGGAT
362131 GACCCATTTG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (43 bp):
ATATCCTCCGTCGTGGAGTTGAAATCGTGGATCCATTGGTACG
Found at i:362783 original size:32 final size:32
Alignment explanation
Indices: 362714--362802 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
362704 TTGCATCAGG
* *
362714 ATGTTGAATCCCCAAATATGCCCTAATATTCA
1 ATGTTGAATCCCCAAATATGCCCCAACATTCA
* **
362746 ATGTTGAATCTCCAAATATGCCCCAACATTTG
1 ATGTTGAATCCCCAAATATGCCCCAACATTCA
* ** *
362778 CTGTTGAATCCTTAAAGATGCCCCA
1 ATGTTGAATCCCCAAATATGCCCCA
362803 TTATTCCTCA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.30
Consensus pattern (32 bp):
ATGTTGAATCCCCAAATATGCCCCAACATTCA
Found at i:363853 original size:16 final size:16
Alignment explanation
Indices: 363823--363875 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
363813 ATTATCTTCC
*
363823 CTTTTTCTTTGCTTTTT
1 CTTTTTGTTT-CTTTTT
363840 CTTTTTGTTTCTTTTT
1 CTTTTTGTTTCTTTTT
* *
363856 CTTTTTGATTCTTGTT
1 CTTTTTGTTTCTTTTT
363872 CTTT
1 CTTT
363876 GCTTTTCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 24 0.73
17 9 0.27
ACGTcount: A:0.02, C:0.15, G:0.08, T:0.75
Consensus pattern (16 bp):
CTTTTTGTTTCTTTTT
Found at i:364642 original size:30 final size:30
Alignment explanation
Indices: 364606--364662 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
364596 GTTTAAAGGA
*
364606 TTAAGCAAACATGAAAGATCAAAACACCCT
1 TTAAGCAAACATGAAAGAACAAAACACCCT
364636 TTAAGCAAACATGAAAGAACAAAACAC
1 TTAAGCAAACATGAAAGAACAAAACAC
364663 ATTCAAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.54, C:0.21, G:0.11, T:0.14
Consensus pattern (30 bp):
TTAAGCAAACATGAAAGAACAAAACACCCT
Found at i:364676 original size:30 final size:30
Alignment explanation
Indices: 364611--364673 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
364601 AAGGATTAAG
* * * *
364611 CAAACATGAAAGATCAAAACACCCTTTAAG
1 CAAACATGAAAGAACAAAACACCATTCAAA
364641 CAAACATGAAAGAACAAAACA-CATTCAAA
1 CAAACATGAAAGAACAAAACACCATTCAAA
364670 CAAA
1 CAAA
364674 ACAATGCTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.57, C:0.22, G:0.08, T:0.13
Consensus pattern (30 bp):
CAAACATGAAAGAACAAAACACCATTCAAA
Found at i:369293 original size:20 final size:21
Alignment explanation
Indices: 369254--369293 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
369244 GAAGCCTTAA
* *
369254 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACTCTTGAT
369275 GATCATC-ATTTACTCTTGA
1 GATCATCAATTTACTCTTGA
369294 AAGTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACTCTTGAT
Found at i:369347 original size:65 final size:65
Alignment explanation
Indices: 369274--369401 Score: 256
Period size: 65 Copynumber: 2.0 Consensus size: 65
369264 TTTCTTTTGA
369274 TGATCATCATTTACTCTTGAAAGTAAATTATGGAAATTAGTATTTTTCTTTTCAAACTCATCTTT
1 TGATCATCATTTACTCTTGAAAGTAAATTATGGAAATTAGTATTTTTCTTTTCAAACTCATCTTT
369339 TGATCATCATTTACTCTTGAAAGTAAATTATGGAAATTAGTATTTTTCTTTTCAAACTCATCT
1 TGATCATCATTTACTCTTGAAAGTAAATTATGGAAATTAGTATTTTTCTTTTCAAACTCATCT
369402 AGTTTGATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.45
Consensus pattern (65 bp):
TGATCATCATTTACTCTTGAAAGTAAATTATGGAAATTAGTATTTTTCTTTTCAAACTCATCTTT
Found at i:371512 original size:64 final size:65
Alignment explanation
Indices: 371424--371579 Score: 183
Period size: 65 Copynumber: 2.4 Consensus size: 65
371414 ATAAGACTTA
* * * **
371424 GTGCATCGGTACA-ATAATTACATTCGA-TGTTTCAAAGAGCCTGGAGTGCATCGATGCATGG-T
1 GTGCATCGGTACACA-AAATGCATTCGATTGTTTAAAAGAGCCAAGAGTGCATCGATGCATGGCT
371486 CT
65 -T
* * **
371488 GTGCATCGGTACACAAAATGCATTCGATTTTTTAAAATATTCAAGAGTGCATCGATGCATGGCTT
1 GTGCATCGGTACACAAAATGCATTCGATTGTTTAAAAGAGCCAAGAGTGCATCGATGCATGGCTT
*
371553 GTGTATCGGTACACAAAATGCATTCGA
1 GTGCATCGGTACACAAAATGCATTCGA
371580 AATGGGTGTG
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 23 0.29
65 55 0.70
66 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (65 bp):
GTGCATCGGTACACAAAATGCATTCGATTGTTTAAAAGAGCCAAGAGTGCATCGATGCATGGCTT
Found at i:376552 original size:74 final size:75
Alignment explanation
Indices: 376473--376635 Score: 179
Period size: 74 Copynumber: 2.2 Consensus size: 75
376463 GTTAAATGAC
* * * *
376473 TAGGGGTATTGGTACCCATAAG-GGGGTATCATTACCCATAAGACATTATGTATTTCTTGG-GTC
1 TAGGGGTATTGGTACCC-TAAGTGGGCTATCAGTACCCATAAGACAATATGTATTTCTCGGAG-C
376536 CAAAACTT-GCA
64 CAAAACTTGGCA
* * ** * * *
376547 TAGGGGTATTGTTACCCTATGTGGGCTATCAGTACCCATTGGGCAATCTGTTTTTCTCGGAGCCA
1 TAGGGGTATTGGTACCCTAAGTGGGCTATCAGTACCCATAAGACAATATGTATTTCTCGGAGCCA
*
376612 AAATTTGGCA
66 AAACTTGGCA
376622 TAGGGGTATTGGTA
1 TAGGGGTATTGGTA
376636 TACCCTATGA
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
73 3 0.04
74 53 0.73
75 17 0.23
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (75 bp):
TAGGGGTATTGGTACCCTAAGTGGGCTATCAGTACCCATAAGACAATATGTATTTCTCGGAGCCA
AAACTTGGCA
Found at i:379587 original size:13 final size:13
Alignment explanation
Indices: 379529--379587 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
379519 GTCATAAATC
*
379529 TATGACGCGTATT
1 TATGACGCGCATT
* * *
379542 TATGGCACTCATT
1 TATGACGCGCATT
* *
379555 TATGACACACATT
1 TATGACGCGCATT
379568 TATGACGCGCATT
1 TATGACGCGCATT
379581 TATGACG
1 TATGACG
379588 TTCAATGAGC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:379762 original size:2 final size:2
Alignment explanation
Indices: 379750--379785 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
379740 TTTCATAAAT
379750 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
379786 TGTAGATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:381640 original size:12 final size:12
Alignment explanation
Indices: 381623--381653 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
381613 ATATATTGAT
381623 AATCAAATGAAA
1 AATCAAATGAAA
381635 AATCAAATGAAA
1 AATCAAATGAAA
*
381647 AAACAAA
1 AATCAAA
381654 CCCGAGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.10, G:0.06, T:0.13
Consensus pattern (12 bp):
AATCAAATGAAA
Found at i:382266 original size:26 final size:26
Alignment explanation
Indices: 382184--382267 Score: 62
Period size: 26 Copynumber: 3.3 Consensus size: 26
382174 TTCTTTTTTC
* *
382184 CCTCTTCGGTGTCCCTTCCCCTTTCT
1 CCTCTTCGGTGTCCCTTCTCCTTTAT
* * *** ** *
382210 CCTCTTC-CTTTTGTTTCTTTTTTTT
1 CCTCTTCGGTGTCCCTTCTCCTTTAT
*
382235 CGTCTTCGGTGTCCCTTCTCCTTTAT
1 CCTCTTCGGTGTCCCTTCTCCTTTAT
382261 CCTCTTC
1 CCTCTTC
382268 CTTTTTCCTT
Statistics
Matches: 38, Mismatches: 19, Indels: 2
0.64 0.32 0.03
Matches are distributed among these distances:
25 15 0.39
26 23 0.61
ACGTcount: A:0.01, C:0.37, G:0.10, T:0.52
Consensus pattern (26 bp):
CCTCTTCGGTGTCCCTTCTCCTTTAT
Found at i:382357 original size:89 final size:90
Alignment explanation
Indices: 382191--382361 Score: 290
Period size: 89 Copynumber: 1.9 Consensus size: 90
382181 TTCCCTCTTC
* * *
382191 GGTGTCCCTTCCCCTTTCTCCTCTTCCTTTTGTTTCTTTTTTTTCGTCTTCGGTGTCCCTTCTCC
1 GGTGTCCCTTCCCCTTTCCCCTCTTCCTTTTCTTTCTTTTTTTCCGTCTTCGGTGTCCCTTCTCC
382256 TTTATCCTCTTCCTTTTTCCTTTGT
66 TTTATCCTCTTCCTTTTTCCTTTGT
*
382281 GGTGTCCCTTCTCCTTTCCCCTCTTCCTTTTCTTTC-TTTTTTCCGTCTTCGGTGTCCCTTCTCC
1 GGTGTCCCTTCCCCTTTCCCCTCTTCCTTTTCTTTCTTTTTTTCCGTCTTCGGTGTCCCTTCTCC
*
382345 TTTCTCCTCTTCCTTTT
66 TTTATCCTCTTCCTTTT
382362 CAACAAGTTC
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 43 0.57
90 33 0.43
ACGTcount: A:0.01, C:0.36, G:0.09, T:0.54
Consensus pattern (90 bp):
GGTGTCCCTTCCCCTTTCCCCTCTTCCTTTTCTTTCTTTTTTTCCGTCTTCGGTGTCCCTTCTCC
TTTATCCTCTTCCTTTTTCCTTTGT
Found at i:385098 original size:12 final size:13
Alignment explanation
Indices: 385073--385097 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
385063 AGTTGTTTGT
385073 TTGTTTTCCCCCC
1 TTGTTTTCCCCCC
385086 TTGTTTTCCCCC
1 TTGTTTTCCCCC
385098 TCAGCATTGT
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:0.00, C:0.44, G:0.08, T:0.48
Consensus pattern (13 bp):
TTGTTTTCCCCCC
Found at i:385505 original size:20 final size:20
Alignment explanation
Indices: 385480--385519 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
385470 ATAAACTTCC
*
385480 CTTAACTTGTTATTATATTT
1 CTTAACTTATTATTATATTT
385500 CTTAACTTATTATTATATTT
1 CTTAACTTATTATTATATTT
385520 TTATCAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.60
Consensus pattern (20 bp):
CTTAACTTATTATTATATTT
Found at i:387363 original size:168 final size:170
Alignment explanation
Indices: 387082--387409 Score: 633
Period size: 168 Copynumber: 1.9 Consensus size: 170
387072 GCTTGCATGT
387082 ATACGAGAATGAAATGTCTGTAACTTCTTAATATAGTTAGTAGTAAATATAATTAATAGCATTAA
1 ATACGAGAATGAAATGTCTGTAACTTCTTAATATAGTTA-TAGTAAATATAATTAATAGCATTAA
387147 TAAATATCATCATATTAAACTATGCTTAAAAAAATTAACTTGGGTTTTAAATCAAACGTGTTAGA
65 TAAATATCATCATATTAAACTATGCTTAAAAAAATTAACTTGGGTTTTAAATCAAACGTGTTAGA
387212 CAATCTTATTTATTTTATGAAACATAACATTTGTAGCTTGC
130 CAATCTTATTTATTTTATGAAACATAACATTTGTAGCTTGC
387253 ATACGAGAATGAAATGTCTGTAACTTCTTAATATAG-T-TAGTAAATATAATTAATAGCATTAAT
1 ATACGAGAATGAAATGTCTGTAACTTCTTAATATAGTTATAGTAAATATAATTAATAGCATTAAT
387316 AAATATCATCATATTAAACTATGCTTAAAAAAATTAACTTGGGTTTTAAATCAAACGTGTTAGAC
66 AAATATCATCATATTAAACTATGCTTAAAAAAATTAACTTGGGTTTTAAATCAAACGTGTTAGAC
387381 AATCTTATTTATTTTATGAAACATAACAT
131 AATCTTATTTATTTTATGAAACATAACAT
387410 AATTGTCTAT
Statistics
Matches: 157, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
168 120 0.76
170 1 0.01
171 36 0.23
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.37
Consensus pattern (170 bp):
ATACGAGAATGAAATGTCTGTAACTTCTTAATATAGTTATAGTAAATATAATTAATAGCATTAAT
AAATATCATCATATTAAACTATGCTTAAAAAAATTAACTTGGGTTTTAAATCAAACGTGTTAGAC
AATCTTATTTATTTTATGAAACATAACATTTGTAGCTTGC
Found at i:388397 original size:32 final size:31
Alignment explanation
Indices: 388361--388421 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
388351 TGGAATTTAA
* *
388361 ATGTTTTAACTACATGGTATCTGTTTTATTGC
1 ATGTTTTAACTAC-TGATATCTGATTTATTGC
* *
388393 ATGTTTTGACTTCTGATATCTGATTTATT
1 ATGTTTTAACTACTGATATCTGATTTATT
388422 TTATATTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 14 0.56
32 11 0.44
ACGTcount: A:0.21, C:0.11, G:0.15, T:0.52
Consensus pattern (31 bp):
ATGTTTTAACTACTGATATCTGATTTATTGC
Found at i:390653 original size:3 final size:3
Alignment explanation
Indices: 390645--390709 Score: 78
Period size: 3 Copynumber: 21.7 Consensus size: 3
390635 TTTTAATATC
* * * *
390645 ATT ATT ATT AAT ATT ATT ATT ATC ATT ATT AAT ATT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
390693 ATT ATAT ATT A-T ATT AT
1 ATT AT-T ATT ATT ATT AT
390710 ACAAACCAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
2 2 0.04
3 47 0.90
4 3 0.06
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:391207 original size:13 final size:13
Alignment explanation
Indices: 391189--391213 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
391179 ACAGAACCGA
391189 AGAGAAAAAAAAC
1 AGAGAAAAAAAAC
391202 AGAGAAAAAAAA
1 AGAGAAAAAAAA
391214 AAACAACAAA
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:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (13 bp):
AGAGAAAAAAAAC
Found at i:401491 original size:7 final size:7
Alignment explanation
Indices: 401479--401527 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
401469 ATTATGCTTG
401479 AAGAAAA
1 AAGAAAA
401486 AAG--AA
1 AAGAAAA
401491 AAGAAAA
1 AAGAAAA
401498 AAGAAAA
1 AAGAAAA
401505 GAA-AAAA
1 -AAGAAAA
*
401512 TAGAAAA
1 AAGAAAA
*
401519 TAGAAAA
1 AAGAAAA
401526 AA
1 AA
401528 AGAGAAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
5 5 0.14
6 1 0.03
7 28 0.78
8 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (7 bp):
AAGAAAA
Found at i:401496 original size:12 final size:12
Alignment explanation
Indices: 401479--401543 Score: 69
Period size: 12 Copynumber: 5.1 Consensus size: 12
401469 ATTATGCTTG
401479 AAGAAAAAAGAA
1 AAGAAAAAAGAA
401491 AAGAAAAAAGAA
1 AAGAAAAAAGAA
401503 AAGAAAAAATAGAAA
1 AAG-AAAAA-AG-AA
*
401518 ATAGAAAAAAAGAG
1 A-AG-AAAAAAGAA
401532 AAG-AAAAAGAA
1 AAGAAAAAAGAA
401543 A
1 A
401544 GGGGGTCAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.17
12 15 0.32
13 7 0.15
14 4 0.09
15 5 0.11
16 8 0.17
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (12 bp):
AAGAAAAAAGAA
Found at i:402751 original size:50 final size:50
Alignment explanation
Indices: 402676--403128 Score: 861
Period size: 50 Copynumber: 9.1 Consensus size: 50
402666 GAAAGAGACT
402676 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
402726 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
402776 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
*
402826 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
402876 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
402926 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
402976 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
*
403026 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
* * *
403076 AATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
403126 AAT
1 AAT
403129 CAATCATTGA
Statistics
Matches: 398, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 398 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (50 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
Found at i:404061 original size:119 final size:119
Alignment explanation
Indices: 403856--404416 Score: 945
Period size: 119 Copynumber: 4.8 Consensus size: 119
403846 AATCCATCAC
* *
403856 TTGATGGATCAATCTTTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGCAGAAGGA
1 TTGATGGATC-ATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
* *
403921 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCAAA
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
*
403976 TTGATGGATCATCTTTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
1 TTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
*
404041 GAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCAAA
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
*
404095 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
1 TTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
404160 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
*
404214 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
1 TTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
* *
404279 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATC-AG
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
* * *
404332 TTGATGGATCAACATTACCAG-GTAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAA
1 TTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
*
404392 GAAAAAGTTCATAATGAGAAGAACT
66 GAAGAAGTTCATAATGAGAAGAACT
404417 CATCAAGAGC
Statistics
Matches: 429, Mismatches: 12, Indels: 7
0.96 0.03 0.02
Matches are distributed among these distances:
113 39 0.09
114 1 0.00
116 18 0.04
117 3 0.01
118 20 0.05
119 338 0.79
120 10 0.02
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (119 bp):
TTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
Found at i:404672 original size:3 final size:3
Alignment explanation
Indices: 404666--404763 Score: 126
Period size: 3 Copynumber: 33.0 Consensus size: 3
404656 TTTATCCATT
* * * *
404666 TTA TTA TCA TTA TTA TTA ATA TTA TTA TTA TCA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
404714 TCA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TT- TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
404761 TTA
1 TTA
404764 AATATATTAA
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
2 2 0.02
3 79 0.98
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:404672 original size:12 final size:11
Alignment explanation
Indices: 404652--404761 Score: 59
Period size: 12 Copynumber: 9.8 Consensus size: 11
404642 AAGATACTAT
*
404652 TTTTTTTATCCA
1 TTTTATTAT-CA
404664 TTTTATTATCA
1 TTTTATTATCA
404675 TTATTATTAAT-A
1 TT-TTATT-ATCA
404687 TTATTATTATCA
1 TT-TTATTATCA
404699 --TTATTA--A
1 TTTTATTATCA
*
404706 TATTATTATCA
1 TTTTATTATCA
* *
404717 TTATTATTTTTA
1 TT-TTATTATCA
*
404729 TTATTATTATTA
1 TT-TTATTATCA
**
404741 TTATTATTATTT
1 TT-TTATTATCA
404753 TTTTATTAT
1 TTTTATTAT
404762 TAAATATATT
Statistics
Matches: 84, Mismatches: 6, Indels: 17
0.79 0.06 0.16
Matches are distributed among these distances:
7 1 0.01
9 12 0.14
11 15 0.18
12 54 0.64
13 2 0.02
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTATTATCA
Found at i:405276 original size:13 final size:13
Alignment explanation
Indices: 405258--405282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
405248 ACAGAACCGA
405258 AGAGAAAAAAAAC
1 AGAGAAAAAAAAC
405271 AGAGAAAAAAAA
1 AGAGAAAAAAAA
405283 AACAACAAAC
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:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (13 bp):
AGAGAAAAAAAAC
Found at i:408964 original size:44 final size:42
Alignment explanation
Indices: 408892--409006 Score: 106
Period size: 44 Copynumber: 2.7 Consensus size: 42
408882 TGATTTATAG
* * *
408892 TGGCATTTTTGCTACAAAC-TCCGCTAATTATCCTATACTTAA
1 TGGCTTTTTTGCCACAAACGT-CGTTAATTATCCTATACTTAA
* * * * ** *
408934 TGGTGTTTTTTGGCCACAAACGTCGTTAATTCTCTTGTGTTTAG
1 TGG-CTTTTTT-GCCACAAACGTCGTTAATTATCCTATACTTAA
408978 TGGCTTTTTTGCCACAAACGTCGTTAATT
1 TGGCTTTTTTGCCACAAACGTCGTTAATT
409007 CTCTTGTCTT
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 22 0.37
43 11 0.19
44 25 0.42
45 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.42
Consensus pattern (42 bp):
TGGCTTTTTTGCCACAAACGTCGTTAATTATCCTATACTTAA
Found at i:408998 original size:42 final size:42
Alignment explanation
Indices: 408889--409235 Score: 338
Period size: 43 Copynumber: 8.1 Consensus size: 42
408879 TTGTGATTTA
* * * * * *
408889 TAGTGGCATTTTTGCTACAAACTCCGCTAATTATCCTATAC-T
1 TAGTGGCTTTTTTGCCACAAACGCCGCTAATTCTCTTGT-CTT
* * * * *
408931 TAATGGTGTTTTTTGGCCACAAACGTCGTTAATTCTCTTGTGTT
1 TAGTGG-CTTTTTT-GCCACAAACGCCGCTAATTCTCTTGTCTT
* *
408975 TAGTGGCTTTTTTGCCACAAACGTCGTTAATTCTCTTGTCTT
1 TAGTGGCTTTTTTGCCACAAACGCCGCTAATTCTCTTGTCTT
* * * *
409017 TAGTGGGGTTTCTTGCTACAAACGCCGCTAATTCTCTTGTCCT
1 TAGT-GGCTTTTTTGCCACAAACGCCGCTAATTCTCTTGTCTT
* *
409060 TAGTGGCATTTTTTGCCACAAACACCGCTAATTCTCTTGTATT
1 TAGTGGC-TTTTTTGCCACAAACGCCGCTAATTCTCTTGTCTT
* *
409103 TAGTGGAGTTATTTGCCACAAACGCCGCTAATTCTCTTGTCTT
1 TAGTGG-CTTTTTTGCCACAAACGCCGCTAATTCTCTTGTCTT
* ** *
409146 TAGTGG-TGTTTTTGCTACAAACGTTGTTAATTCTCTTGTCTT
1 TAGTGGCT-TTTTTGCCACAAACGCCGCTAATTCTCTTGTCTT
* * * *
409188 TAGTGGCATTTTTTTGCTACAAATGCTGCTAATTCTCTTGTTTT
1 TAGTGGC--TTTTTTGCCACAAACGCCGCTAATTCTCTTGTCTT
409232 TAGT
1 TAGT
409236 ACAAAATGTC
Statistics
Matches: 256, Mismatches: 39, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.00
42 74 0.29
43 121 0.47
44 59 0.23
45 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (42 bp):
TAGTGGCTTTTTTGCCACAAACGCCGCTAATTCTCTTGTCTT
Found at i:409126 original size:129 final size:127
Alignment explanation
Indices: 408897--409235 Score: 417
Period size: 129 Copynumber: 2.6 Consensus size: 127
408887 TATAGTGGCA
* * * * * * ** * *
408897 TTTTTGCTACAAACTCCGCTAATTATCCTATACTTAATGGTGTTTTTTGGCCACAAACGTCGTTA
1 TTTTTGCTACAAACGCCGCTAATTCTCTTGTCCTTAGTGGCATTTTTT-GCCACAAACGCCGCTA
* * * *
408962 ATTCTCTTGTGTTTAGTGGCTTTTTTGCCACAAACGTCGTTAATTCTCTTGTCTTTAGTGGGG
65 ATTCTCTTGTATTTAGTGGCTTATTTGCCACAAACGCCGCTAATTCTCTTGTCTTTAGTGGGG
*
409025 TTTCTTGCTACAAACGCCGCTAATTCTCTTGTCCTTAGTGGCATTTTTTGCCACAAACACCGCTA
1 TTT-TTGCTACAAACGCCGCTAATTCTCTTGTCCTTAGTGGCATTTTTTGCCACAAACGCCGCTA
* *
409090 ATTCTCTTGTATTTAGTGGAGTTATTTGCCACAAACGCCGCTAATTCTCTTGTCTTTAGTGGTG
65 ATTCTCTTGTATTTAGTGG-CTTATTTGCCACAAACGCCGCTAATTCTCTTGTCTTTAGTGGGG
** * * * * *
409154 TTTTTGCTACAAACGTTGTTAATTCTCTTGTCTTTAGTGGCATTTTTTTGCTACAAATGCTGCTA
1 TTTTTGCTACAAACGCCGCTAATTCTCTTGTCCTTAGTGGCA-TTTTTTGCCACAAACGCCGCTA
*
409219 ATTCTCTTGTTTTTAGT
65 ATTCTCTTGTATTTAGT
409236 ACAAAATGTC
Statistics
Matches: 182, Mismatches: 26, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
128 69 0.38
129 113 0.62
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.43
Consensus pattern (127 bp):
TTTTTGCTACAAACGCCGCTAATTCTCTTGTCCTTAGTGGCATTTTTTGCCACAAACGCCGCTAA
TTCTCTTGTATTTAGTGGCTTATTTGCCACAAACGCCGCTAATTCTCTTGTCTTTAGTGGGG
Found at i:411010 original size:18 final size:18
Alignment explanation
Indices: 410987--411030 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
410977 AAGTTTTAGG
410987 ATATTTTTTTTA-TATTTT
1 ATATTTTTTTTAGTA-TTT
*
411005 ATATTTGTTTTAGGTATTT
1 ATATTTTTTTTA-GTATTT
411024 ATATTTT
1 ATATTTT
411031 AATTAGGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 11 0.50
19 9 0.41
20 2 0.09
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (18 bp):
ATATTTTTTTTAGTATTT
Found at i:411015 original size:32 final size:32
Alignment explanation
Indices: 410961--411023 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
410951 TTTAAATATG
410961 TTTTAGTATTTTAATTAAGTTTTAGGATATTTT
1 TTTTAGTATTTTAATTAAGTTTTAGG-TATTTT
*
410994 TTTTA-TATTTTATATT-TGTTTTAGGTATTT
1 TTTTAGTATTTTA-ATTAAGTTTTAGGTATTT
411024 ATATTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 5 0.18
32 15 0.54
33 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (32 bp):
TTTTAGTATTTTAATTAAGTTTTAGGTATTTT
Found at i:411726 original size:18 final size:19
Alignment explanation
Indices: 411703--411745 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
411693 TAATTTGTTT
411703 ATTTAATTATT-TTTTTTA
1 ATTTAATTATTATTTTTTA
*
411721 ATTTAATTCTTATTTTTTA
1 ATTTAATTATTATTTTTTA
*
411740 TTTTAA
1 ATTTAA
411746 AAACAACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTAATTATTATTTTTTA
Found at i:418760 original size:32 final size:32
Alignment explanation
Indices: 418717--418778 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
418707 TTTAAATAGG
418717 TTTTAGTATTTTA-ATTAAGTTTTAGGATATTAT
1 TTTTAGTATTTTATATT-AGTTTTAGG-TATTAT
*
418750 TTTTA-TATTTTATATTTGTTTTAGGTATT
1 TTTTAGTATTTTATATTAGTTTTAGGTATT
418779 TTAATTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 4 0.15
32 15 0.56
33 8 0.30
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (32 bp):
TTTTAGTATTTTATATTAGTTTTAGGTATTAT
Found at i:418806 original size:24 final size:24
Alignment explanation
Indices: 418698--418808 Score: 84
Period size: 24 Copynumber: 4.5 Consensus size: 24
418688 TTTTATCTTT
*
418698 GTATTTTAGTTTAAATAGGTTTTA
1 GTATTTTAATTTAAATAGGTTTTA
* *
418722 GTATTTTAA-TTAAGTTTTAGGATATTA
1 GTATTTTAATTTAA---ATAGG-TTTTA
* **
418749 -T-TTTTATATTTTATATTTGTTTTA
1 GTATTTTA-A-TTTAAATAGGTTTTA
418773 GGTATTTTAATTTAAATAGGTTTTA
1 -GTATTTTAATTTAAATAGGTTTTA
418798 GTATTTTAATT
1 GTATTTTAATT
418809 AGGATTTAGA
Statistics
Matches: 66, Mismatches: 11, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
23 4 0.06
24 23 0.35
25 19 0.29
26 8 0.12
27 9 0.14
28 3 0.05
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.59
Consensus pattern (24 bp):
GTATTTTAATTTAAATAGGTTTTA
Found at i:418811 original size:19 final size:19
Alignment explanation
Indices: 418707--418845 Score: 63
Period size: 19 Copynumber: 7.2 Consensus size: 19
418697 TGTATTTTAG
*
418707 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
*
418726 TTTAATTAAGTTTTAGGATAT
1 TTTAATTAGGTTTTA-G-TAT
* **
418747 TATT-TTTATATTTTA-TAT
1 T-TTAATTAGGTTTTAGTAT
* *
418765 TTGT-TTTAGGTATTT--TAA
1 TT-TAATTAGGT-TTTAGTAT
*
418783 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
* *
418802 TTTAATTAGGATTTAGAAT
1 TTTAATTAGGTTTTAGTAT
* **
418821 ATTATATTATTTTTTAGGTAT
1 TTTA-ATTAGGTTTTA-GTAT
418842 TTTA
1 TTTA
418846 GTTCAAATAG
Statistics
Matches: 90, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
17 5 0.06
18 19 0.21
19 37 0.41
20 9 0.10
21 18 0.20
22 2 0.02
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (19 bp):
TTTAATTAGGTTTTAGTAT
Found at i:418841 original size:64 final size:63
Alignment explanation
Indices: 418759--418880 Score: 183
Period size: 64 Copynumber: 1.9 Consensus size: 63
418749 TTTTTATATT
*
418759 TTATATTTGTTTTAGGTATTTTAATTTAAATAGGTTTT-AGTATTTTAATTAGGATTTAGAATA
1 TTATATTTGTTTTAGGTATTTTAATTCAAATA-GTTTTAAGTATTTTAATTAGGATTTAGAATA
* * *
418822 TTATATTATTTTTTAGGTATTTTAGTTCAAATAGTTTTAAGTGTTTTAATTAGGATTTA
1 TTATATT-TGTTTTAGGTATTTTAATTCAAATAGTTTTAAGTATTTTAATTAGGATTTA
418881 AGATGTTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
63 12 0.23
64 41 0.77
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (63 bp):
TTATATTTGTTTTAGGTATTTTAATTCAAATAGTTTTAAGTATTTTAATTAGGATTTAGAATA
Found at i:421526 original size:41 final size:41
Alignment explanation
Indices: 421481--421773 Score: 184
Period size: 41 Copynumber: 7.1 Consensus size: 41
421471 ATGAAAATAT
* * *
421481 CACTAAAGTACTACTTTATTGCGGCATTTGTTGAAAAACGC
1 CACTAAAGTATTACTCTATTGCGGCGTTTGTTGAAAAACGC
* * * * * *
421522 CACTATAG-ATGAACCCTATTACGGCATTTGTAT-AAAAACGA
1 CACTAAAGTAT-TACTCTATTGCGGCGTTTGT-TGAAAAACGC
** * * * *
421563 TGCTAAAGTATTACTCTGTTGCGGCGTTTATTGAAAAATGT
1 CACTAAAGTATTACTCTATTGCGGCGTTTGTTGAAAAACGC
* * *
421604 CACTATAG-ATTAACTCTATTGTGGCGTTTATAT-AAAAACGC
1 CACTAAAGTATT-ACTCTATTGCGGCGTTTGT-TGAAAAACGC
* * *
421645 CACTAAAGTATTACTCTATTGTGGCGTTTATTGAAAAAACTC
1 CACTAAAGTATTACTCTATTGCGGCGTTTGTTG-AAAAACGC
* * * *
421687 CACTATAG-ATGAACCCTATTGCGGCGTTTGTATG-AAAACAC
1 CACTAAAGTAT-TACTCTATTGCGGCGTTTGT-TGAAAAACGC
* * * * * * * *
421728 CGCTAAAGTACTATTATGTTGTGTCGTTTGTTGAAAAATGC
1 CACTAAAGTATTACTCTATTGCGGCGTTTGTTGAAAAACGC
421769 CACTA
1 CACTA
421774 GGGATGAACC
Statistics
Matches: 193, Mismatches: 46, Indels: 26
0.73 0.17 0.10
Matches are distributed among these distances:
40 8 0.04
41 145 0.75
42 38 0.20
43 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (41 bp):
CACTAAAGTATTACTCTATTGCGGCGTTTGTTGAAAAACGC
Found at i:421585 original size:82 final size:82
Alignment explanation
Indices: 421446--421827 Score: 358
Period size: 82 Copynumber: 4.7 Consensus size: 82
421436 AAGAAGACAG
*** * * * * * *
421446 AGATGAACCCTATTGCGATGTTTGTATGAAAA-TATCACTAAAGTACTACTTTATTGCGGCATTT
1 AGATGAACCCTATTGCGGCATTTGTATAAAAACGA-CGCTAAAGTACTACTCTGTTGCGGCGTTT
*
421510 GTTGAAAAACGCCACTAT
65 ATTGAAAAACGCCACTAT
* * *
421528 AGATGAACCCTATTACGGCATTTGTATAAAAACGATGCTAAAGTATTACTCTGTTGCGGCGTTTA
1 AGATGAACCCTATTGCGGCATTTGTATAAAAACGACGCTAAAGTACTACTCTGTTGCGGCGTTTA
* *
421593 TTGAAAAATGTCACTAT
66 TTGAAAAACGCCACTAT
* * * * * * * * * *
421610 AGATTAACTCTATTGTGGCGTTTATATAAAAACGCCACTAAAGTATTACTCTATTGTGGCGTTTA
1 AGATGAACCCTATTGCGGCATTTGTATAAAAACGACGCTAAAGTACTACTCTGTTGCGGCGTTTA
*
421675 TTGAAAAAACTCCACTAT
66 TTG-AAAAACGCCACTAT
* * * * * *
421693 AGATGAACCCTATTGCGGCGTTTGTATGAAAAC-ACCGCTAAAGTACTATTATGTTGTGTCGTTT
1 AGATGAACCCTATTGCGGCATTTGTATAAAAACGA-CGCTAAAGTACTACTCTGTTGCGGCGTTT
* * *
421757 GTTGAAAAATGCCACTAG
65 ATTGAAAAACGCCACTAT
* * *
421775 GGATGAA-CCTATTGTGACATTTGTATAAAAACG-CAGCTAAAGTACTACTCTGT
1 AGATGAACCCTATTGCGGCATTTGTATAAAAACGAC-GCTAAAGTACTACTCTGT
421828 CACTGCATTT
Statistics
Matches: 243, Mismatches: 52, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
80 1 0.00
81 37 0.15
82 139 0.57
83 66 0.27
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (82 bp):
AGATGAACCCTATTGCGGCATTTGTATAAAAACGACGCTAAAGTACTACTCTGTTGCGGCGTTTA
TTGAAAAACGCCACTAT
Found at i:421703 original size:165 final size:162
Alignment explanation
Indices: 421481--421825 Score: 431
Period size: 165 Copynumber: 2.1 Consensus size: 162
421471 ATGAAAATAT
* *
421481 CACTAAAGTACTACTTTATTGCGGCATTTGTTGAAAAACGCCACTATAGATGAACCCTATTACGG
1 CACTAAAGTACTACTCTATTGCGGCATTTATTGAAAAACGCCACTATAGATGAACCCTATTACGG
* * * * *
421546 CATTTGTATAAAAACGA-TGCTAAAGTATTACTCTGTTGCGGCGTTTATTGAAAAATGTCACTAT
66 CATTTGTATAAAAAC-ACCGCTAAAGTACTACTATGTTGCGGCGTTTATTGAAAAATGCCACTAG
* * *
421610 AGATTAACTCTATTGTGGCGTTTATATAAAAACG
130 AGATGAAC-CTATTGTGACATTTATATAAAAACG
* * * * *
421644 CCACTAAAGTATTACTCTATTGTGGCGTTTATTGAAAAAACTCCACTATAGATGAACCCTATTGC
1 -CACTAAAGTACTACTCTATTGCGGCATTTATTG-AAAAACGCCACTATAGATGAACCCTATTAC
* * * * * *
421709 GGCGTTTGTATGAAAACACCGCTAAAGTACTATTATGTTGTGTCGTTTGTTGAAAAATGCCACTA
64 GGCATTTGTATAAAAACACCGCTAAAGTACTACTATGTTGCGGCGTTTATTGAAAAATGCCACTA
* *
421774 GGGATGAACCTATTGTGACATTTGTATAAAAACG
129 GAGATGAACCTATTGTGACATTTATATAAAAACG
421808 CAGCTAAAGTACTACTCT
1 CA-CTAAAGTACTACTCT
421826 GTCACTGCAT
Statistics
Matches: 154, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
163 2 0.01
164 65 0.42
165 87 0.56
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (162 bp):
CACTAAAGTACTACTCTATTGCGGCATTTATTGAAAAACGCCACTATAGATGAACCCTATTACGG
CATTTGTATAAAAACACCGCTAAAGTACTACTATGTTGCGGCGTTTATTGAAAAATGCCACTAGA
GATGAACCTATTGTGACATTTATATAAAAACG
Found at i:424186 original size:29 final size:29
Alignment explanation
Indices: 424144--424210 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
424134 TCCAGCCACC
424144 TAACCCGTGGAGCCAAGTAGAACCTAATG
1 TAACCCGTGGAGCCAAGTAGAACCTAATG
424173 TAACCCGTGGAGCCAAGTAGAACCTAATG
1 TAACCCGTGGAGCCAAGTAGAACCTAATG
424202 TAACCCGTG
1 TAACCCGTG
424211 TTTTCTATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.18
Consensus pattern (29 bp):
TAACCCGTGGAGCCAAGTAGAACCTAATG
Found at i:425354 original size:32 final size:32
Alignment explanation
Indices: 425318--425387 Score: 140
Period size: 32 Copynumber: 2.2 Consensus size: 32
425308 TAGTCAAGGG
425318 TTTAACATTTTGCATATTTATATATATTAAAT
1 TTTAACATTTTGCATATTTATATATATTAAAT
425350 TTTAACATTTTGCATATTTATATATATTAAAT
1 TTTAACATTTTGCATATTTATATATATTAAAT
425382 TTTAAC
1 TTTAAC
425388 TTTATTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (32 bp):
TTTAACATTTTGCATATTTATATATATTAAAT
Found at i:428227 original size:65 final size:65
Alignment explanation
Indices: 428153--428283 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
428143 TCAAGTATAT
428153 TTAGAACTAAATAGATCTCACCGACACGATTTCCTATATCCACTTATTTTTCGGGAGTATATTTA
1 TTAGAACTAAATAGATCTCACCGACACGATTTCCTATATCCACTTATTTTTCGGGAGTATATTTA
428218 TTAGAACTAAATAGATCTCACCGACACGATTTCCTATATCCACTTATTTTTCGGGAGTATATTTA
1 TTAGAACTAAATAGATCTCACCGACACGATTTCCTATATCCACTTATTTTTCGGGAGTATATTTA
428283 T
1 T
428284 GCACTTGCTC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (65 bp):
TTAGAACTAAATAGATCTCACCGACACGATTTCCTATATCCACTTATTTTTCGGGAGTATATTTA
Found at i:430602 original size:9 final size:9
Alignment explanation
Indices: 430590--430617 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
430580 TAATTAAAAT
430590 TATTTTATA
1 TATTTTATA
430599 TATTTTATA
1 TATTTTATA
430608 TATTTTATA
1 TATTTTATA
430617 T
1 T
430618 TAATATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TATTTTATA
Found at i:430728 original size:21 final size:22
Alignment explanation
Indices: 430693--430736 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
430683 AATAATATTT
430693 AATTTTAAAATATTAAAAAATA
1 AATTTTAAAATATTAAAAAATA
*
430715 AATTTT-ATATATTAAAAAATA
1 AATTTTAAAATATTAAAAAATA
430736 A
1 A
430737 TATATCTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTTTAAAATATTAAAAAATA
Found at i:431266 original size:21 final size:20
Alignment explanation
Indices: 431180--431337 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
431170 AAATGACCAA
**
431180 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
431199 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
431219 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
431239 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
431260 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
431281 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
431301 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
431322 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
431338 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:431347 original size:20 final size:20
Alignment explanation
Indices: 431304--431457 Score: 159
Period size: 20 Copynumber: 7.7 Consensus size: 20
431294 CGATTTTCCA
* ** *
431304 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
431324 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
431344 AAATCGCAACACGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
431364 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
431384 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
431404 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
431424 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
431445 AAATCGCAACGCG
1 AAATCGCAACGCG
431458 ATATTTAAAG
Statistics
Matches: 110, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.02
20 90 0.82
21 17 0.15
22 1 0.01
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:431353 original size:40 final size:40
Alignment explanation
Indices: 431304--431458 Score: 177
Period size: 40 Copynumber: 3.9 Consensus size: 40
431294 CGATTTTCCA
* ** *
431304 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * * *
431344 AAATCGCAACACGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
431384 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
431424 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
431459 TATTTAAAGC
Statistics
Matches: 94, Mismatches: 18, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 60 0.64
41 33 0.35
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:431879 original size:33 final size:33
Alignment explanation
Indices: 431840--431910 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
431830 TTCACTTAGG
*
431840 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
431873 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
431906 TTTCA
1 TTTCA
431911 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:432047 original size:41 final size:41
Alignment explanation
Indices: 431989--432066 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
431979 TTGCAGAAGA
*
431989 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
432030 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
432067 AGCAACGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:432063 original size:21 final size:21
Alignment explanation
Indices: 431990--432065 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
431980 TGCAGAAGAG
*
431990 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
432011 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
432031 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
432052 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
432066 TAGCAACGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:432080 original size:33 final size:33
Alignment explanation
Indices: 432042--432122 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
432032 CGCAACGAGA
*
432042 GAAATGAAAATCGCAACGAGAGAATAGCAACGC
1 GAAATGAAAATCGCAACGACAGAATAGCAACGC
*
432075 GAAATGAAAATCGCAACGACAGAATCGCAACGC
1 GAAATGAAAATCGCAACGACAGAATAGCAACGC
**
432108 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
432123 TTGCGATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.48, C:0.22, G:0.21, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGACAGAATAGCAACGC
Found at i:432140 original size:19 final size:19
Alignment explanation
Indices: 432118--432201 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 19
432108 GAAACCAAAA
* *
432118 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
432137 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
432156 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
432170 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
432189 TCGCGTTGCGATT
1 TCGCGTTGCGATT
432202 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.18
16 3 0.05
17 3 0.05
19 40 0.71
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:432178 original size:14 final size:14
Alignment explanation
Indices: 432159--432215 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
432149 TTTCATTTCG
432159 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
432173 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
432192 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
432206 CGTTGCGATT
1 CGTTGCGATT
432216 TTCATTTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:432182 original size:33 final size:33
Alignment explanation
Indices: 432140--432223 Score: 168
Period size: 33 Copynumber: 2.5 Consensus size: 33
432130 TTTTATTTCG
432140 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
432173 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
432206 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
432224 AACCAAAAGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.10, C:0.24, G:0.20, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:434080 original size:93 final size:93
Alignment explanation
Indices: 433921--434203 Score: 541
Period size: 93 Copynumber: 3.1 Consensus size: 93
433911 TAGATTGCTT
*
433921 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
433986 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
434014 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
434079 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
434107 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
434172 TTTGTCTTTGTTTTGTCTATTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
434199 AGTAA
1 AGTAA
434204 TGCAATCCAT
Statistics
Matches: 188, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
92 6 0.03
93 182 0.97
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:434330 original size:33 final size:32
Alignment explanation
Indices: 434287--434379 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 32
434277 CGCGAAACCA
434287 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
434319 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
434352 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
434380 TTGCGATTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
32 2 0.03
33 57 0.97
ACGTcount: A:0.46, C:0.30, G:0.17, T:0.06
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:434377 original size:52 final size:54
Alignment explanation
Indices: 434251--434379 Score: 137
Period size: 52 Copynumber: 2.4 Consensus size: 54
434241 TAGTTTACTT
*
434251 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAACCAAAA
1 TCGCAAC-CGAAAC-CAAAATCGCAACGCGAAACCAAAATCGCAAC-CG-AACCAAAA
* *
434309 TCGCAA-CG--A-CAGAATCGCAACGCGAAACCAAAATCGCAA-CG-A-CAAGA
1 TCGCAACCGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACCGAACCAAAA
434356 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAAC-CGAAACCAAAATCGCA
434380 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
47 10 0.16
48 1 0.02
49 2 0.03
50 2 0.03
51 1 0.02
52 37 0.60
54 1 0.02
56 2 0.03
58 6 0.10
ACGTcount: A:0.46, C:0.30, G:0.16, T:0.08
Consensus pattern (54 bp):
TCGCAACCGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACCGAACCAAAA
Found at i:434385 original size:19 final size:19
Alignment explanation
Indices: 434251--434379 Score: 143
Period size: 19 Copynumber: 7.3 Consensus size: 19
434241 TAGTTTACTT
* *
434251 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
434271 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
434290 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
434309 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
434323 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
434342 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
434356 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
434375 TCGCA
1 TCGCA
434380 TTGCGATTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 21
0.77 0.05 0.17
Matches are distributed among these distances:
14 20 0.22
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 48 0.52
20 13 0.14
ACGTcount: A:0.46, C:0.30, G:0.16, T:0.08
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:434397 original size:19 final size:19
Alignment explanation
Indices: 434375--434509 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
434365 GAAACCAAAA
*
434375 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
434394 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
434410 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
434427 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
434443 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
434460 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
434479 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
434499 TCGTGTTGCGA
1 TCGCGTTGCGA
434510 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:434416 original size:14 final size:14
Alignment explanation
Indices: 434397--434453 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
434387 TTTCATTTCG
434397 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
434411 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
434428 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
434444 CGTTGCGATT
1 CGTTGCGATT
434454 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:434422 original size:33 final size:33
Alignment explanation
Indices: 434380--434472 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
434370 CAAAATCGCA
*
434380 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
434413 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
434446 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
434473 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:436454 original size:14 final size:14
Alignment explanation
Indices: 436435--436470 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
436425 ATTGTTTAAT
436435 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
436449 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
436463 TGATTTGT
1 TGATTTGT
436471 GTAATTGATG
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:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:436601 original size:19 final size:19
Alignment explanation
Indices: 436577--436674 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
436567 AAAATTGACT
436577 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
436596 ATCGCAATGCAAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
436615 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
436629 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
436648 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
436668 ATCGCAA
1 ATCGCAA
436675 CGGGAGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 1 0.01
18 1 0.01
19 38 0.55
20 16 0.23
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:436706 original size:53 final size:53
Alignment explanation
Indices: 436577--436693 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
436567 AAAATTGACT
436577 ATCGCAATGCGAAATGAAAATCGCAATGC-AAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
* *
436629 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
436682 ATCGCAATGCGA
1 ATCGCAATGCGA
436694 TTTTAATTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 29 0.47
53 33 0.53
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
Found at i:436711 original size:19 final size:19
Alignment explanation
Indices: 436683--436904 Score: 241
Period size: 19 Copynumber: 12.7 Consensus size: 19
436673 AACGGGAGAA
* *
436683 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
436702 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
436718 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
436735 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
436754 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
436773 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
436789 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
436806 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
436825 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
436841 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
436858 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
436876 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
436892 TCGCATTGCGATT
1 TCGCATTGCGATT
436905 CTCTCGTTAC
Statistics
Matches: 172, Mismatches: 10, Indels: 42
0.77 0.04 0.19
Matches are distributed among these distances:
14 29 0.17
16 23 0.13
17 19 0.11
18 3 0.02
19 86 0.50
20 12 0.07
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:436726 original size:33 final size:33
Alignment explanation
Indices: 436689--436818 Score: 197
Period size: 33 Copynumber: 3.8 Consensus size: 33
436679 AGAATCGCAA
*
436689 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
436722 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
436760 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
436793 TGCGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
436819 TTCATTTCGC
Statistics
Matches: 89, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
33 50 0.56
35 7 0.08
36 7 0.08
38 25 0.28
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:436746 original size:52 final size:52
Alignment explanation
Indices: 436683--436876 Score: 241
Period size: 52 Copynumber: 3.7 Consensus size: 52
436673 AACGGGAGAA
* * * *
436683 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-
1 TCGCATTGCGATTTTCATTTCGCATTGCGATT-T-TCATTGCGCA-TTGCGATTC
*
436735 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTC
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTGCGCATTGCGATTC
* * *
436787 TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTC
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTGCGCATTGCGATTC
* *
436839 TCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCAT
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATTTTCAT
436877 GTTGGGATTT
Statistics
Matches: 131, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
50 9 0.07
51 5 0.04
52 100 0.76
53 17 0.13
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTGCGCATTGCGATTC
Found at i:436764 original size:71 final size:71
Alignment explanation
Indices: 436683--436837 Score: 292
Period size: 71 Copynumber: 2.2 Consensus size: 71
436673 AACGGGAGAA
*
436683 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
436748 TTCATT
66 TTCATT
*
436754 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
436819 TTCATT
66 TTCATT
436825 TCGCATTGCGATT
1 TCGCATTGCGATT
436838 CTCTCGTTGC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 82 1.00
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.45
Consensus pattern (71 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
TTCATT
Found at i:436926 original size:33 final size:33
Alignment explanation
Indices: 436811--436918 Score: 164
Period size: 33 Copynumber: 3.2 Consensus size: 33
436801 TCATTTCGCA
436811 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
436844 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
436878 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
436911 TTACGATT
1 TTGCGATT
436919 GTAATTTCCG
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
32 1 0.01
33 36 0.54
34 29 0.43
35 1 0.01
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:436937 original size:34 final size:34
Alignment explanation
Indices: 436811--436937 Score: 161
Period size: 33 Copynumber: 3.8 Consensus size: 34
436801 TCATTTCGCA
436811 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
*
436844 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTTCCGCATTGCGATTCTC-TCG
*
436878 TTGGGATTTTCATTT-CGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
* * * **
436911 TTACGATTGTAATTTCCGTGTTGCGAT
1 TTGCGATTTTCATTTCCGCATTGCGAT
436938 AGTCAAATGC
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
32 1 0.01
33 41 0.51
34 38 0.47
35 1 0.01
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (34 bp):
TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
Found at i:439435 original size:24 final size:24
Alignment explanation
Indices: 439401--439447 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
439391 CTGAAACATC
439401 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
439425 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
439448 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:440158 original size:20 final size:20
Alignment explanation
Indices: 440130--440400 Score: 274
Period size: 20 Copynumber: 13.5 Consensus size: 20
440120 AAATTTCAGT
* *
440130 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
440150 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
440170 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
440190 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
440210 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
440230 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
440250 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * * *
440270 GTTGCGATTTTATGTATTATA
1 GTTGCGA-TTTACGGATTCTC
* * *
440291 GTTGCGATTTACAGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
440311 GTTGCGATTAACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
440331 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
440351 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
440371 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
440391 GTTGCGATTT
1 GTTGCGATTT
440401 TGAAAAATCG
Statistics
Matches: 210, Mismatches: 38, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
20 195 0.93
21 15 0.07
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:440190 original size:40 final size:40
Alignment explanation
Indices: 440130--440400 Score: 330
Period size: 40 Copynumber: 6.8 Consensus size: 40
440120 AAATTTCAGT
* *
440130 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
*
440170 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
*
440210 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
* * * * *
440250 GTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATA
1 GTTGCGATTTACAGATTCGCGTTGCGA-TTTACGGATTATC
* * *
440291 GTTGCGATTTACAGATACGCGTTGCGATTAACGGA-TACAC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTA-TC
* * * **
440331 GTTGCGATTTACGGATACGCGTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACG-GATTATC
* *
440371 GTTGCGATTTTCATATTCGCGTTGCGATTT
1 GTTGCGATTTACAGATTCGCGTTGCGATTT
440401 TGAAAAATCG
Statistics
Matches: 205, Mismatches: 22, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
39 2 0.01
40 165 0.80
41 38 0.19
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (40 bp):
GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
Found at i:440417 original size:21 final size:21
Alignment explanation
Indices: 440387--440465 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 21
440377 ATTTTCATAT
*
440387 TCGCGTTGCGATTTTGAAAAA
1 TCGCATTGCGATTTTGAAAAA
* * * **
440408 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGAAAAA
* *
440429 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAAAAA
*
440450 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
440466 GAAACTGATT
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGAAAAA
Found at i:440418 original size:121 final size:121
Alignment explanation
Indices: 440172--440408 Score: 266
Period size: 121 Copynumber: 2.0 Consensus size: 121
440162 GGATTATCGT
* * * * * *
440172 TGCGATTTACAGATTCTCGTTGCGATTTACGGATTATCGTTGCGATTTACAGATTCTCGTTGCGA
1 TGCGATTTACAGATACGCGTTGCGATTAACGGATTAACGTTGCGATTTACAGATACGCGTTGCGA
* * * ** *
440237 TTTACGGATTATCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATAGT
66 TTTACGGATTAGCGTTGCGATTTACAGATACGCGTTGCGATTTTATGAAAAATAGA
*
440293 TGCGATTTACAGATACGCGTTGCGATTAACGGA-TACACGTTGCGATTTACGGATACGCGTTGCG
1 TGCGATTTACAGATACGCGTTGCGATTAACGGATTA-ACGTTGCGATTTACAGATACGCGTTGCG
* * * * *
440357 ATTTATGTG-TTCGCGTTGCGATTTTCATATTCGCGTTGCGA-TTT-TGAAAAAT
65 ATTTACG-GATTAGCGTTGCGATTTACAGATACGCGTTGCGATTTTATGAAAAAT
440409 CGCAATGCGA
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
119 5 0.05
120 5 0.05
121 86 0.89
122 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (121 bp):
TGCGATTTACAGATACGCGTTGCGATTAACGGATTAACGTTGCGATTTACAGATACGCGTTGCGA
TTTACGGATTAGCGTTGCGATTTACAGATACGCGTTGCGATTTTATGAAAAATAGA
Found at i:440460 original size:42 final size:43
Alignment explanation
Indices: 440367--440465 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 43
440357 ATTTATGTGT
* *
440367 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGAAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTCAAAAA
** *
440408 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTCAAAAA
*
440450 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
440466 GAAACTGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
41 8 0.17
42 36 0.77
43 3 0.06
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTCAAAAA
Found at i:447192 original size:24 final size:23
Alignment explanation
Indices: 447131--447193 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 23
447121 TAATCCGTTC
*
447131 TTTTATGTTCGTTTATTTCA-TTA
1 TTTTATGTTCGTTCATTT-ATTTA
447154 -TTTATG-T-G-TCATTTATGTTA
1 TTTTATGTTCGTTCATTTAT-TTA
447174 TTTTATGTTCGTTCATTTAT
1 TTTTATGTTCGTTCATTTAT
447194 ATTCAGTCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
18 1 0.03
19 5 0.15
20 4 0.12
21 7 0.21
22 7 0.21
23 1 0.03
24 8 0.24
ACGTcount: A:0.17, C:0.08, G:0.11, T:0.63
Consensus pattern (23 bp):
TTTTATGTTCGTTCATTTATTTA
Found at i:448695 original size:23 final size:23
Alignment explanation
Indices: 448665--448725 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
448655 CTCGTATAAA
448665 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* *
448688 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
448711 TGCACCAAAGTGCCA
1 TGCACCGAAGTGCCA
448726 TATAAAATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.31, C:0.28, G:0.25, T:0.16
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:453319 original size:23 final size:23
Alignment explanation
Indices: 453289--453374 Score: 120
Period size: 23 Copynumber: 3.8 Consensus size: 23
453279 AACTCGTATA
*
453289 AATT-CACCAAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
453311 AATTGCACCGAAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
453334 AATTGCACCGAAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
453357 AATTACATCGAAGTGCCA
1 AATTGCACCGAAGTGCCA
453375 TATAAAATGT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
22 4 0.07
23 54 0.93
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:454413 original size:24 final size:24
Alignment explanation
Indices: 454382--454445 Score: 121
Period size: 24 Copynumber: 2.7 Consensus size: 24
454372 GGTACATTCT
454382 ACAT-TGCATCGATGCATTCCTTA
1 ACATGTGCATCGATGCATTCCTTA
454405 ACATGTGCATCGATGCATTCCTTA
1 ACATGTGCATCGATGCATTCCTTA
454429 ACATGTGCATCGATGCA
1 ACATGTGCATCGATGCA
454446 CTATCTATGC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 4 0.10
24 36 0.90
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (24 bp):
ACATGTGCATCGATGCATTCCTTA
Found at i:457568 original size:40 final size:39
Alignment explanation
Indices: 457442--457577 Score: 114
Period size: 40 Copynumber: 3.3 Consensus size: 39
457432 ACATGGCTCT
* * *
457442 TACGTGATGAGGAAATCTGGTCGGGGTATGATACGGTTCC
1 TACGTGATGAGGAGATCTGGTCGGGG-ATGACACGATTCC
* ** *
457482 TACGTGATGAGGACG-GCTGGTTATCTAAGGTTGACAC-ATCTCC
1 TACGTGATGAGGA-GATCTGG---TC-GGGGATGACACGAT-TCC
457525 TACGTGATGAGGAGATCTGGTCGGTGGATGACACGATTCC
1 TACGTGATGAGGAGATCTGGTCGG-GGATGACACGATTCC
*
457565 TACGCGATGAGGA
1 TACGTGATGAGGA
457578 CGGCTGACCA
Statistics
Matches: 75, Mismatches: 12, Indels: 18
0.71 0.11 0.17
Matches are distributed among these distances:
40 42 0.56
41 2 0.03
42 2 0.03
43 27 0.36
44 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.26
Consensus pattern (39 bp):
TACGTGATGAGGAGATCTGGTCGGGGATGACACGATTCC
Found at i:459095 original size:15 final size:15
Alignment explanation
Indices: 459075--459116 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
459065 ACCATTCATA
459075 AATCCAAAATCAAAC
1 AATCCAAAATCAAAC
459090 AATCCACAAAATCAAAC
1 AAT-C-CAAAATCAAAC
*
459107 AATTCAAAAT
1 AATCCAAAAT
459117 GTTGAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 9 0.38
16 1 0.04
17 14 0.58
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.17
Consensus pattern (15 bp):
AATCCAAAATCAAAC
Found at i:461144 original size:21 final size:21
Alignment explanation
Indices: 461093--461155 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
461083 ATTCCCCTGT
461093 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTT-CCC-TCAA
** *
461116 ATGGGGAATCGGTTCCCTCAG
1 GGGGGGAATCGGTTCCCTCAA
*
461137 GGGGGGAATCGATTCCCTC
1 GGGGGGAATCGGTTCCCTC
461156 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 19 0.56
22 3 0.09
23 12 0.35
ACGTcount: A:0.17, C:0.25, G:0.35, T:0.22
Consensus pattern (21 bp):
GGGGGGAATCGGTTCCCTCAA
Found at i:464886 original size:22 final size:21
Alignment explanation
Indices: 464844--464883 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
464834 GAGTTTGTTT
*
464844 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
464865 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
464884 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:467231 original size:36 final size:35
Alignment explanation
Indices: 467175--467338 Score: 108
Period size: 36 Copynumber: 5.0 Consensus size: 35
467165 TTAGGGATTT
467175 ATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATCC
1 ATTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT-C
*
467211 ATTTCAAGGGAAA-TGATCTCAA-AGATG-----AT-
1 ATTTCAAGAGAAACTG-TCTCAAGAGA-GACAAAATC
* *
467240 GTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTC
1 ATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TC
*
467276 ATTTCAAGGGAAAC-GATCTCAA-AGATG-----AT-
1 ATTTCAAGAGAAACTG-TCTCAAGAGA-GACAAAATC
* *
467305 GTTTCAAGAGAAACTGTCTTAAGAGAGACAAAAT
1 ATTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
467339 TTGTTTCAAG
Statistics
Matches: 99, Mismatches: 9, Indels: 42
0.66 0.06 0.28
Matches are distributed among these distances:
29 36 0.36
30 10 0.10
31 3 0.03
34 3 0.03
35 10 0.10
36 37 0.37
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.24
Consensus pattern (35 bp):
ATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATC
Found at i:467245 original size:29 final size:29
Alignment explanation
Indices: 467212--467317 Score: 81
Period size: 29 Copynumber: 3.4 Consensus size: 29
467202 ACAAAATCCA
*
467212 TTTCAAGGGAAATGATCTCAAAGATGATG
1 TTTCAAGAGAAATGATCTCAAAGATGATG
*
467241 TTTCAAGAGAAATTG-TCTCAAGAGA-GACAAAATTCA
1 TTTCAAGAGAAA-TGATCTCAA-AGATG-----A-T-G
* *
467277 TTTCAAGGGAAACGATCTCAAAGATGATG
1 TTTCAAGAGAAATGATCTCAAAGATGATG
467306 TTTCAAGAGAAA
1 TTTCAAGAGAAA
467318 CTGTCTTAAG
Statistics
Matches: 60, Mismatches: 6, Indels: 22
0.68 0.07 0.25
Matches are distributed among these distances:
29 29 0.48
30 6 0.10
31 1 0.02
34 1 0.02
35 5 0.08
36 18 0.30
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (29 bp):
TTTCAAGAGAAATGATCTCAAAGATGATG
Found at i:467258 original size:65 final size:65
Alignment explanation
Indices: 467176--467420 Score: 330
Period size: 65 Copynumber: 3.8 Consensus size: 65
467166 TAGGGATTTA
* *
467176 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATCCATTTCAAGGGAAATGATCTCAAAGATGATG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGATG
*
467241 TTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGATG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGATG
* ** * * *
467306 TTTCAAGAGAAACTGTCTTAAGAGAGACAAAATTTGTTTCAA-GGAAACAATCTTAAAGATTATT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGA-T
467370 G
65 G
* * * * **
467371 TTTCAAGATAAATTGTCTGAAGAGATACAAAAATTTGTTTCAAGGGAAAC
1 TTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAATTCATTTCAAGGGAAAC
467421 AAATTCAAAG
Statistics
Matches: 163, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
64 17 0.10
65 126 0.77
66 14 0.09
67 6 0.04
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.27
Consensus pattern (65 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGATG
Found at i:467634 original size:36 final size:36
Alignment explanation
Indices: 467589--467701 Score: 165
Period size: 36 Copynumber: 3.1 Consensus size: 36
467579 ATTTCAAAGG
*
467589 GAAAATGTCTCAAGTGAGACGAAATTTGTTTTTAGA
1 GAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAGA
* * * *
467625 GAAATTGTCTCAAGCGAGAAAAAATTTATTTTTAGA
1 GAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAGA
467661 GAAAACTGTCTCAAGTGAGACAAAATTTGTTTTTA-A
1 GAAAA-TGTCTCAAGTGAGACAAAATTTGTTTTTAGA
467697 GAAAA
1 GAAAA
467702 ACAGTCTCTA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
36 41 0.61
37 26 0.39
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.32
Consensus pattern (36 bp):
GAAAATGTCTCAAGTGAGACAAAATTTGTTTTTAGA
Found at i:467686 original size:37 final size:37
Alignment explanation
Indices: 467589--467739 Score: 164
Period size: 37 Copynumber: 4.1 Consensus size: 37
467579 ATTTCAAAGG
* *
467589 GAAAA-TGTCTCAAGTGAGACGAAATTTGTTTTTAGA
1 GAAAACTGTCTCAAGCGAGACAAAATTTGTTTTTAGA
* * *
467625 G-AAATTGTCTCAAGCGAGAAAAAATTTATTTTTAGA
1 GAAAACTGTCTCAAGCGAGACAAAATTTGTTTTTAGA
*
467661 GAAAACTGTCTCAAGTGAGACAAAATTTGTTTTTA-A
1 GAAAACTGTCTCAAGCGAGACAAAATTTGTTTTTAGA
* * * **
467697 GAAAAACAGTCTCTAGCGAGACAACACTTTGTTTCGAGA
1 G-AAAACTGTCTCAAGCGAGACAA-AATTTGTTTTTAGA
467736 GAAA
1 GAAA
467740 CCATCTCAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
35 3 0.03
36 31 0.32
37 48 0.50
38 12 0.12
39 2 0.02
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (37 bp):
GAAAACTGTCTCAAGCGAGACAAAATTTGTTTTTAGA
Done.