Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_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: 6915314
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 30
Found at i:4355715 original size:33 final size:33
Alignment explanation
Indices: 4355667--4355737 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
4355657 AAAATCGCAA
**
4355667 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCAT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCAT
*
4355700 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCAT
4355733 TGCGA
1 TGCGA
4355738 CAGTCATTCT
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:0.10, C:0.23, G:0.24, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCAT
Found at i:4355745 original size:33 final size:33
Alignment explanation
Indices: 4355678--4355759 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
4355668 GCGATTTTGG
***
4355678 TTTCGCGTTGCGATTCTCTCATTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCATTGCGACAGTCA
*
4355711 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCATTGCGACAGTCA
*
4355744 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
4355760 TTCATTTATC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 31 0.72
34 12 0.28
ACGTcount: A:0.11, C:0.26, G:0.21, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCATTGCGACAGTCA
Found at i:4355900 original size:33 final size:33
Alignment explanation
Indices: 4355858--4355928 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
4355848 AATACTAACT
*
4355858 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
4355891 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
4355924 TGAAA
1 TGAAA
4355929 TCTAAGTGAA
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:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:4356161 original size:22 final size:21
Alignment explanation
Indices: 4356110--4356163 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
4356100 TGGTTGTGAG
**
4356110 GGATTTCGCCGGAGATGGGAC
1 GGATTTCTTCGGAGATGGGAC
**
4356131 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGAT-GGGAC
4356153 GGATTTCTTCG
1 GGATTTCTTCG
4356164 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (21 bp):
GGATTTCTTCGGAGATGGGAC
Found at i:4356334 original size:20 final size:20
Alignment explanation
Indices: 4356309--4356501 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
4356299 CTTTAAATAT
4356309 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4356329 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
4356351 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4356370 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
4356390 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
4356410 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4356430 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4356450 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
4356470 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
4356490 CGCGTTGCGATT
1 CGCGTTGCGATT
4356502 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:4356496 original size:60 final size:60
Alignment explanation
Indices: 4356309--4356501 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
4356299 CTTTAAATAT
**
4356309 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
4356370 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
4356430 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
4356490 CGCGTTGCGATT
1 CGCGTTGCGATT
4356502 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:4356582 original size:20 final size:20
Alignment explanation
Indices: 4356557--4356608 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
4356547 AAGAATCGCG
*
4356557 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4356577 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4356597 TTGCGATTCTGG
1 TTGCGATTCTGG
4356609 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:4358450 original size:13 final size:14
Alignment explanation
Indices: 4358432--4358460 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4358422 TATACCTTAC
4358432 CCCTAAATTA-AAA
1 CCCTAAATTATAAA
4358445 CCCTAAATTATAAA
1 CCCTAAATTATAAA
4358459 CC
1 CC
4358461 AAAAGTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (14 bp):
CCCTAAATTATAAA
Found at i:4361912 original size:18 final size:19
Alignment explanation
Indices: 4361866--4361912 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
4361856 GTGTAAAAAG
4361866 AAATATGAAAAACAAGTAAT
1 AAATAT-AAAAACAAGTAAT
* * *
4361886 ATATTTAAAAATAAGT-AT
1 AAATATAAAAACAAGTAAT
4361904 AAATATAAA
1 AAATATAAA
4361913 TGTATATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 9 0.41
19 9 0.41
20 4 0.18
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (19 bp):
AAATATAAAAACAAGTAAT
Found at i:4369761 original size:55 final size:55
Alignment explanation
Indices: 4369675--4369842 Score: 214
Period size: 55 Copynumber: 3.0 Consensus size: 55
4369665 ATTACCAAAT
*
4369675 GGCACTAAGTGTGCAAAAACTTAAGAAATTCATACTAAGTGTATGAATTTTTGTATG
1 GGCACTATGTGTGC-AAAAC-TAAGAAATTCATACTAAGTGTATGAATTTTTGTATG
* * * *
4369732 GGTACTTTGTGTGCAAAACTAAGAAATTCATACTAAGTGTATAAATTTCCT-TATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTT-TTGTATG
* * * *
4369787 GGCACTATGTGTACGAAA-TAAGAAATTCATACCAAGTGTATGAATTTTCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTTGTATG
4369841 GG
1 GG
4369843 AAAAATATGT
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.34
55 46 0.48
56 6 0.06
57 11 0.11
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTTGTATG
Found at i:4370243 original size:69 final size:68
Alignment explanation
Indices: 4370018--4370274 Score: 372
Period size: 68 Copynumber: 3.8 Consensus size: 68
4370008 AAAAATTAAT
* * *
4370018 AGGCCTAACTGTGCATTTGAAAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCT
4370083 TTG
66 TTG
* * * *
4370086 AGTCCTAACTGTGTATTTGACAGAAATGTGTCATTTATG-CTAGTTAGATGAAAGGCTAAGTGCC
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTC-AGTTAGATGAAAGGCTAAGTGCC
*
4370150 TTTA
65 TTTG
* * * *
4370154 AGGCCTAACTGTGCATTTGACAGAAAGGTATCATTTATGTCAGTTAGATGAAAAAGCTAAGTTCC
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATG-AAAGGCTAAGTGCC
4370219 TTTG
65 TTTG
*
4370223 AGGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGTCAGTTAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAA
4370275 TGGTTAAATA
Statistics
Matches: 171, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
67 1 0.01
68 107 0.63
69 63 0.37
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:4370268 original size:137 final size:136
Alignment explanation
Indices: 4370018--4370274 Score: 381
Period size: 137 Copynumber: 1.9 Consensus size: 136
4370008 AAAAATTAAT
* * *
4370018 AGGCCTAACTGTGCATTTGAAAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGAAAGAAAGGTATCAATTATGCCAGTTAGATGAAAAGCTAAGTGCCT
* * * * *
4370083 TTGAGTCCTAACTGTGTATTTGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTG
66 TTGAGGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTG
4370148 CCTTTA
131 CCTTTA
* * * *
4370154 AGGCCTAACTGTGCATTTGACAGAAAGGTATCATTTATGTCAGTTAGATGAAAAAGCTAAGTTCC
1 AGGCCTAACTGTGCATTTGAAAGAAAGGTATCAATTATGCCAGTTAGATG-AAAAGCTAAGTGCC
4370219 TTTGAGGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATG-TCAGTTAGATGAA
65 TTTGAGGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCT-AGTTAGATGAA
4370275 TGGTTAAATA
Statistics
Matches: 107, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
136 46 0.43
137 61 0.57
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (136 bp):
AGGCCTAACTGTGCATTTGAAAGAAAGGTATCAATTATGCCAGTTAGATGAAAAGCTAAGTGCCT
TTGAGGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTG
CCTTTA
Found at i:4370372 original size:81 final size:81
Alignment explanation
Indices: 4370224--4370461 Score: 296
Period size: 81 Copynumber: 2.9 Consensus size: 81
4370214 GTTCCTTTGA
* * * ** **
4370224 GGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTATGTCAGTTAGATGAATGGTTAAATACCGT
1 GGCCTAGCTATGCATTTGGCAAAAAGGTGTCAATTATGTCAGTTAGATGAACAGTTAAATAATGT
*
4370289 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAACAAT
* * * * * * *
4370305 GGCTTAGCTATGCATTTGGTAAAAATGTGTCAATTCTGCCAGTTAGATGAACAATTAAATATTGT
1 GGCCTAGCTATGCATTTGGCAAAAAGGTGTCAATTATGTCAGTTAGATGAACAGTTAAATAATGT
4370370 TGAGTAAAAGAACAAT
66 TGAGTAAAAGAACAAT
* * * *
4370386 GGCCTAGCTGTGTATTTGGCAGAAAGGTGTCATTTATGTCAGTTAGATGAACAGTTAAATAATGT
1 GGCCTAGCTATGCATTTGGCAAAAAGGTGTCAATTATGTCAGTTAGATGAACAGTTAAATAATGT
*
4370451 TAAGTAAAAGA
66 TGAGTAAAAGA
4370462 TGAACGATTA
Statistics
Matches: 131, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 131 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (81 bp):
GGCCTAGCTATGCATTTGGCAAAAAGGTGTCAATTATGTCAGTTAGATGAACAGTTAAATAATGT
TGAGTAAAAGAACAAT
Found at i:4370463 original size:29 final size:28
Alignment explanation
Indices: 4370430--4370519 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 28
4370420 TATGTCAGTT
* * *
4370430 AGATGAACAGTTAAATAATGTTAAGTAAA
1 AGATGAAC-GTTAAACATTGTTGAGTAAA
*
4370459 AGATGAACGATTAAACATTATTGAGTAAA
1 AGATGAACG-TTAAACATTGTTGAGTAAA
4370488 AGATGAACGGTTAAACATTGTTGAGTAAA
1 AGATGAAC-GTTAAACATTGTTGAGTAAA
4370517 AGA
1 AGA
4370520 ATAATGACCT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.02
29 52 0.96
30 1 0.02
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.27
Consensus pattern (28 bp):
AGATGAACGTTAAACATTGTTGAGTAAA
Found at i:4370599 original size:139 final size:139
Alignment explanation
Indices: 4370349--4370629 Score: 418
Period size: 139 Copynumber: 2.0 Consensus size: 139
4370339 TCTGCCAGTT
* * *
4370349 AGATGAACAATTAAATATTGTTGAGTAAAAGAACAATGGCCTAGCTGTGTATTTGGCAGAAAGGT
1 AGATGAACAATTAAACATTGTTGAGTAAAAGAACAATGACCTAGCTGTGCATTTGGCAGAAAGGT
* * * *
4370414 GTCATTTATGTCAGTTAGATGAACAGTTAAATAATGTTAAGTAAAAGATGAACGATTAAACATTA
66 GTCATTTATGCCAATTAGATGAACAGTTAAACAATGTTAAGTAAAAGATGAACGATTAAACACTA
4370479 TTGAGTAAA
131 TTGAGTAAA
** *
4370488 AGATGAACGGTTAAACATTGTTGAGTAAAAGAATAATGACCTAGCTGTGCATTTGGCAGAAAGGT
1 AGATGAACAATTAAACATTGTTGAGTAAAAGAACAATGACCTAGCTGTGCATTTGGCAGAAAGGT
** * * * *
4370553 GTCATTTATGCCAATTAGATGAATGGTTAAACACTGTTGAGTAAAAGATGAACGGTTAAACACTG
66 GTCATTTATGCCAATTAGATGAACAGTTAAACAATGTTAAGTAAAAGATGAACGATTAAACACTA
4370618 TTGAGTAAA
131 TTGAGTAAA
4370627 AGA
1 AGA
4370630 ATAATGGCCT
Statistics
Matches: 126, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
139 126 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (139 bp):
AGATGAACAATTAAACATTGTTGAGTAAAAGAACAATGACCTAGCTGTGCATTTGGCAGAAAGGT
GTCATTTATGCCAATTAGATGAACAGTTAAACAATGTTAAGTAAAAGATGAACGATTAAACACTA
TTGAGTAAA
Found at i:4370611 original size:29 final size:29
Alignment explanation
Indices: 4370569--4370629 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
4370559 TATGCCAATT
*
4370569 AGATGAATGGTTAAACACTGTTGAGTAAA
1 AGATGAACGGTTAAACACTGTTGAGTAAA
4370598 AGATGAACGGTTAAACACTGTTGAGTAAA
1 AGATGAACGGTTAAACACTGTTGAGTAAA
4370627 AGA
1 AGA
4370630 ATAATGGCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.25
Consensus pattern (29 bp):
AGATGAACGGTTAAACACTGTTGAGTAAA
Found at i:4370652 original size:110 final size:110
Alignment explanation
Indices: 4370459--4370795 Score: 489
Period size: 110 Copynumber: 3.1 Consensus size: 110
4370449 GTTAAGTAAA
* * * *
4370459 AGATGAACGATTAAACATTATTGAGTAAAAGATGAACGGTTAAACATTGTTGAGTAAAAGAATAA
1 AGATGAACGGTTAAACACTGTTGAGTAAAAGATGAACGGTTAAACACTGTTGAGTAAAAGAATAA
* * * *
4370524 TGACCTAGCTGTGCATTTGGCAGAAAGGTGTCATTTATGCCAATT
66 TGGCCTAGTTGTGCATTTGGAAAAAAGGTGTCATTTATGCCAATT
*
4370569 AGATGAATGGTTAAACACTGTTGAGTAAAAGATGAACGGTTAAACACTGTTGAGTAAAAGAATAA
1 AGATGAACGGTTAAACACTGTTGAGTAAAAGATGAACGGTTAAACACTGTTGAGTAAAAGAATAA
* *
4370634 TGGCCTAGTTGTGCATTTGGAAAAAATGTGTCATTTATGCCAGTT
66 TGGCCTAGTTGTGCATTTGGAAAAAAGGTGTCATTTATGCCAATT
*
4370679 AGATGAACAGTTAAACACTGTTGAGTAAAAGATGAACGGTTAAACACTGTTGAGTAAAAGAATAA
1 AGATGAACGGTTAAACACTGTTGAGTAAAAGATGAACGGTTAAACACTGTTGAGTAAAAGAATAA
* * * **
4370744 TGGACTATTTGTGCATTT-GATAAAAAAGTGTCAAATATG-CAAGTT
66 TGGCCTAGTTGTGCATTTGGA-AAAAAGGTGTCATTTATGCCAA-TT
4370789 AGATGAA
1 AGATGAA
4370796 AGGCTAAATA
Statistics
Matches: 206, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
109 4 0.02
110 202 0.98
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (110 bp):
AGATGAACGGTTAAACACTGTTGAGTAAAAGATGAACGGTTAAACACTGTTGAGTAAAAGAATAA
TGGCCTAGTTGTGCATTTGGAAAAAAGGTGTCATTTATGCCAATT
Found at i:4370721 original size:29 final size:29
Alignment explanation
Indices: 4370679--4370739 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
4370669 TATGCCAGTT
4370679 AGATGAACAGTTAAACACTGTTGAGTAAA
1 AGATGAACAGTTAAACACTGTTGAGTAAA
*
4370708 AGATGAACGGTTAAACACTGTTGAGTAAA
1 AGATGAACAGTTAAACACTGTTGAGTAAA
4370737 AGA
1 AGA
4370740 ATAATGGACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (29 bp):
AGATGAACAGTTAAACACTGTTGAGTAAA
Found at i:4373495 original size:12 final size:12
Alignment explanation
Indices: 4373478--4373506 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4373468 TGTCAAAACA
4373478 TTTTTATTTTAC
1 TTTTTATTTTAC
4373490 TTTTTATTTTAC
1 TTTTTATTTTAC
4373502 TTTTT
1 TTTTT
4373507 TTAGATAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTATTTTAC
Found at i:4380345 original size:20 final size:20
Alignment explanation
Indices: 4380316--4380354 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4380306 AAAGCTCATA
*
4380316 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
4380336 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
4380355 GTGGTGGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:4385732 original size:54 final size:54
Alignment explanation
Indices: 4385577--4385744 Score: 212
Period size: 55 Copynumber: 3.0 Consensus size: 54
4385567 ATTACCAAAT
* *
4385577 GGCACTAAGTGTGCAAAAACTTAAGAAATTCATACTAAGTGTATGAATTTCTGTAGG
1 GGCACTATGTGTGC-AAAAC-TAAGAAATTCATACTAAGTGTATGAATTTC-GTATG
* * *
4385634 GGTACTTTGTGTGCAAAACTAAGAAATTCATACTGAGTGTATGAATTTACGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTT-CGTATG
* * *
4385689 GGCACTATGTGTGCGAAA-TAATAAATTCATACCAAGTGTATGAATTTTCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAA-TTTCGTATG
4385743 GG
1 GG
4385745 AAATATATGT
Statistics
Matches: 98, Mismatches: 11, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
54 31 0.32
55 50 0.51
56 6 0.06
57 11 0.11
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (54 bp):
GGCACTATGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCGTATG
Found at i:4386031 original size:68 final size:68
Alignment explanation
Indices: 4385919--4386242 Score: 531
Period size: 68 Copynumber: 4.8 Consensus size: 68
4385909 AAAGATTAAT
* * *
4385919 AGGCCTAACTGTGCATTTGACAGAAAGGTTTCATTTGTGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
*
4385984 TTA
66 TTG
* * *
4385987 AGGCCTAACTGTGCATTTGACAGAAATGTGTCATTTATGTCAGTTAGATGAAAGACTAAGTTCCT
1 AGGCCTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4386052 TTG
66 TTG
* * *
4386055 AGGCCTAACTGTGGATTTGACAGAAATGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTGCAT
1 AGGCCTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4386120 TTG
66 TTG
*
4386123 AGGCCTAACTGTGCATTTGACTGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4386188 TTG
66 TTG
* *
4386191 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAA
4386243 CAGTTAAATA
Statistics
Matches: 238, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 238 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:4386296 original size:81 final size:80
Alignment explanation
Indices: 4386192--4386429 Score: 334
Period size: 81 Copynumber: 2.9 Consensus size: 80
4386182 GTGCCTTTGA
* *
4386192 GGCCTA-ACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATAGCG
1 GGCCTAGA-TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAC-GTTAAATACCG
4386256 TTGAGTAAAAGAATAAT
64 TTGAGTAAAAGAATAAT
* * *
4386273 GGCCTAGATGTGCATTTGGCAGAAATGTGTCAATTATGCTAGTTAGATTAACGGTTAAATACCGT
1 GGCCTAGATGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAC-GTTAAATACCGT
4386338 TGAGTAAAAGAATAAT
65 TGAGTAAAAGAATAAT
* * * * **
4386354 GTCCTAGTTGTGCATTTGGTAGAAAGGTGTCATTTATGCCAGTTAGATGAACGATTAAATATTGT
1 GGCCTAGATGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG-TTAAATACCGT
4386419 TGAGTAAAAGA
65 TGAGTAAAAGA
4386430 TGAACGATTA
Statistics
Matches: 140, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.01
81 138 0.99
82 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (80 bp):
GGCCTAGATGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGTTAAATACCGTT
GAGTAAAAGAATAAT
Found at i:4386440 original size:29 final size:29
Alignment explanation
Indices: 4386398--4386487 Score: 146
Period size: 29 Copynumber: 3.1 Consensus size: 29
4386388 TATGCCAGTT
* *
4386398 AGATGAACGATTAAATATTGTTGAGTAAA
1 AGATGAACGATTAAACACTGTTGAGTAAA
4386427 AGATGAACGATTAAACACTGTTGAGTAAA
1 AGATGAACGATTAAACACTGTTGAGTAAA
4386456 AGATGAAC-AGTTAAACACTGTTGAGTAAA
1 AGATGAACGA-TTAAACACTGTTGAGTAAA
4386485 AGA
1 AGA
4386488 ATATTGGCCT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
28 1 0.02
29 57 0.98
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.26
Consensus pattern (29 bp):
AGATGAACGATTAAACACTGTTGAGTAAA
Found at i:4386570 original size:29 final size:29
Alignment explanation
Indices: 4386537--4386597 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
4386527 TATGCCAGTT
* * *
4386537 AGATGAATGGTTAAACATTGTTGAGTAAA
1 AGATGAACGGTTAAACACTATTGAGTAAA
4386566 AGATGAACGGTTAAACACTATTGAGTAAA
1 AGATGAACGGTTAAACACTATTGAGTAAA
4386595 AGA
1 AGA
4386598 ATAATGTCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (29 bp):
AGATGAACGGTTAAACACTATTGAGTAAA
Found at i:4386580 original size:139 final size:139
Alignment explanation
Indices: 4386317--4386597 Score: 445
Period size: 139 Copynumber: 2.0 Consensus size: 139
4386307 TATGCTAGTT
* * * * * *
4386317 AGATTAACGGTTAAATACCGTTGAGTAAAAGAATAATGTCCTAGTTGTGCATTTGGTAGAAAGGT
1 AGATGAACAGTTAAACACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGGCAGAAAGGT
* *
4386382 GTCATTTATGCCAGTTAGATGAACGATTAAATATTGTTGAGTAAAAGATGAACGATTAAACACTG
66 GTCATTTATGCCAGTTAGATGAACGATTAAACATTGTTGAGTAAAAGATGAACGATTAAACACTA
4386447 TTGAGTAAA
131 TTGAGTAAA
* *
4386456 AGATGAACAGTTAAACACTGTTGAGTAAAAGAATATTGGCCTAGCTGTGCATTTGGCAGAAAGGT
1 AGATGAACAGTTAAACACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGGCAGAAAGGT
* * *
4386521 GTCATTTATGCCAGTTAGATGAATGGTTAAACATTGTTGAGTAAAAGATGAACGGTTAAACACTA
66 GTCATTTATGCCAGTTAGATGAACGATTAAACATTGTTGAGTAAAAGATGAACGATTAAACACTA
4386586 TTGAGTAAA
131 TTGAGTAAA
4386595 AGA
1 AGA
4386598 ATAATGTCCT
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
139 129 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (139 bp):
AGATGAACAGTTAAACACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGGCAGAAAGGT
GTCATTTATGCCAGTTAGATGAACGATTAAACATTGTTGAGTAAAAGATGAACGATTAAACACTA
TTGAGTAAA
Found at i:4386620 original size:110 final size:110
Alignment explanation
Indices: 4386427--4386707 Score: 445
Period size: 110 Copynumber: 2.6 Consensus size: 110
4386417 GTTGAGTAAA
* * *
4386427 AGATGAACGATTAAACACTGTTGAGTAAAAGATGAACAGTTAAACACTGTTGAGTAAAAGAATAT
1 AGATGAACGGTTAAACATTGTTGAGTAAAAGATGAACAGTTAAACACTGTTGAGTAAAAGAATAA
*
4386492 TGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCATTTATGCCAGTT
66 TGGCCTAGCTGTGCATTTGGCAAAAAGGTGTCATTTATGCCAGTT
* * *
4386537 AGATGAATGGTTAAACATTGTTGAGTAAAAGATGAACGGTTAAACACTATTGAGTAAAAGAATAA
1 AGATGAACGGTTAAACATTGTTGAGTAAAAGATGAACAGTTAAACACTGTTGAGTAAAAGAATAA
* * *
4386602 TGTCCTAGTTGTGCATTTGGCAAAAAGGTGTCATTTATGTCAGTT
66 TGGCCTAGCTGTGCATTTGGCAAAAAGGTGTCATTTATGCCAGTT
* * *
4386647 AGATGAACGGTTAAACATTGTTGAGTAAAATATGAACAATTAAACAATGTTGAGTAAAAGA
1 AGATGAACGGTTAAACATTGTTGAGTAAAAGATGAACAGTTAAACACTGTTGAGTAAAAGA
4386708 TGAACGGTTA
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 155 1.00
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.29
Consensus pattern (110 bp):
AGATGAACGGTTAAACATTGTTGAGTAAAAGATGAACAGTTAAACACTGTTGAGTAAAAGAATAA
TGGCCTAGCTGTGCATTTGGCAAAAAGGTGTCATTTATGCCAGTT
Found at i:4386682 original size:29 final size:29
Alignment explanation
Indices: 4386647--4386736 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 29
4386637 TATGTCAGTT
*
4386647 AGATGAACGGTTAAACATTGTTGAGTAAA
1 AGATGAACGGTTAAACAATGTTGAGTAAA
* **
4386676 ATATGAACAATTAAACAATGTTGAGTAAA
1 AGATGAACGGTTAAACAATGTTGAGTAAA
* * *
4386705 AGATGAACGGTTAAACACTATTAAGTAAA
1 AGATGAACGGTTAAACAATGTTGAGTAAA
4386734 AGA
1 AGA
4386737 ATAATGGATA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.48, C:0.08, G:0.19, T:0.26
Consensus pattern (29 bp):
AGATGAACGGTTAAACAATGTTGAGTAAA
Found at i:4389172 original size:8 final size:8
Alignment explanation
Indices: 4389159--4389183 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4389149 TTTGGGAACC
4389159 AAAATTTA
1 AAAATTTA
4389167 AAAATTTA
1 AAAATTTA
4389175 AAAATTTA
1 AAAATTTA
4389183 A
1 A
4389184 GGATAGTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAAATTTA
Found at i:4390240 original size:18 final size:19
Alignment explanation
Indices: 4390217--4390254 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
4390207 CATGTCTAAC
4390217 CCATTGACTATGA-CCAAA
1 CCATTGACTATGACCCAAA
*
4390235 CCATTGACTTTGACCCAAA
1 CCATTGACTATGACCCAAA
4390254 C
1 C
4390255 TGTTGACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.34, C:0.32, G:0.11, T:0.24
Consensus pattern (19 bp):
CCATTGACTATGACCCAAA
Found at i:4390267 original size:25 final size:25
Alignment explanation
Indices: 4390238--4390289 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
4390228 GACCAAACCA
4390238 TTGACTTTGACCCAAACTGTTGACT
1 TTGACTTTGACCCAAACTGTTGACT
4390263 TTGACTTTGACCCAAACTGTTGACT
1 TTGACTTTGACCCAAACTGTTGACT
4390288 TT
1 TT
4390290 AACCAGGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (25 bp):
TTGACTTTGACCCAAACTGTTGACT
Found at i:4390287 original size:19 final size:19
Alignment explanation
Indices: 4390217--4390267 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
4390207 CATGTCTAAC
*
4390217 CCATTGACTATGA-CCAAA
1 CCATTGACTTTGACCCAAA
4390235 CCATTGACTTTGACCCAAA
1 CCATTGACTTTGACCCAAA
**
4390254 CTGTTGACTTTGAC
1 CCATTGACTTTGAC
4390268 TTTGACCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (19 bp):
CCATTGACTTTGACCCAAA
Found at i:4394475 original size:13 final size:11
Alignment explanation
Indices: 4394434--4394477 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
4394424 GATGTTTAGT
*
4394434 TTGATTATTGGA
1 TTGATT-TTGGG
4394446 TTGATTTTGGG
1 TTGATTTTGGG
4394457 TTGATTTTGGTG
1 TTGATTTTGG-G
4394469 TTTGATTTT
1 -TTGATTTT
4394478 ATCGTGAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 14 0.48
12 7 0.24
13 8 0.28
ACGTcount: A:0.14, C:0.00, G:0.27, T:0.59
Consensus pattern (11 bp):
TTGATTTTGGG
Found at i:4398132 original size:24 final size:23
Alignment explanation
Indices: 4398105--4398149 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4398095 TAGTGAGAAA
*
4398105 TTAAATAAATCTAGTTTTTTTAAT
1 TTAAA-AAATCTAATTTTTTTAAT
*
4398129 TTAAAAAATTTAATTTTTTTA
1 TTAAAAAATCTAATTTTTTTA
4398150 CAGTAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
TTAAAAAATCTAATTTTTTTAAT
Found at i:4400989 original size:78 final size:78
Alignment explanation
Indices: 4400857--4401023 Score: 273
Period size: 78 Copynumber: 2.1 Consensus size: 78
4400847 ATTGCATTGT
* * *
4400857 ATCGGTTTAGTGTTTTGCTGTGCCTTTAGGGGATAGCAATTCTCTGTTCTAACCGAAAAAACCAA
1 ATCGGTTTAGTGTTTTGCTGTGCCTTTAGGGGAGAGCAATTATATGTTCTAACCGAAAAAACCAA
4400922 CAAAACTGAGCCA
66 CAAAACTGAGCCA
*
4400935 ATTGGTTTAGTGTTTTGCCT-TGCCTTTAGGGGAGAGCAATTATATGTTCTAACCGAAAAAACCA
1 ATCGGTTTAGTGTTTTG-CTGTGCCTTTAGGGGAGAGCAATTATATGTTCTAACCGAAAAAACCA
*
4400999 ACAAAACTGAGTCA
65 ACAAAACTGAGCCA
4401013 ATCGGTTTAGT
1 ATCGGTTTAGT
4401024 CGGTTTCAGT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
78 80 0.98
79 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (78 bp):
ATCGGTTTAGTGTTTTGCTGTGCCTTTAGGGGAGAGCAATTATATGTTCTAACCGAAAAAACCAA
CAAAACTGAGCCA
Found at i:4407310 original size:16 final size:16
Alignment explanation
Indices: 4407268--4407317 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
4407258 TCTCTATATT
*
4407268 ATTTTTTTAATTAAATC
1 ATTTTTTT-ATTAAATA
4407285 ATTATTTTTATTAAATA
1 ATT-TTTTTATTAAATA
*
4407302 ATTTTTTTAATAAATA
1 ATTTTTTTATTAAATA
4407318 TGTTATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 12 0.40
17 13 0.43
18 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTTTTATTAAATA
Found at i:4409438 original size:14 final size:14
Alignment explanation
Indices: 4409419--4409464 Score: 74
Period size: 14 Copynumber: 3.1 Consensus size: 14
4409409 GTCATCTGTT
4409419 CGAACATAAATGAA
1 CGAACATAAATGAA
4409433 CGAACATAAATGAA
1 CGAACATAAATGAA
4409447 CGAACATATAATCGAA
1 CGAACATA-AAT-GAA
4409463 CG
1 CG
4409465 TTCACGAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 22 0.73
15 3 0.10
16 5 0.17
ACGTcount: A:0.52, C:0.17, G:0.15, T:0.15
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:4422335 original size:29 final size:28
Alignment explanation
Indices: 4422285--4422388 Score: 102
Period size: 29 Copynumber: 3.5 Consensus size: 28
4422275 CATATTATAT
* *
4422285 TATATATA-TTTTTAATATATATAAATA
1 TATATATAGTTTTGAAAATATATAAATA
*
4422312 TACTATATAGTTTTGAAAATATATAAGTA
1 TA-TATATAGTTTTGAAAATATATAAATA
4422341 TATACTATAGTTTTGAAAATAGTAATATATAATA
1 TATA-TATAGTTTTG-AAA-A-T-ATATA-AATA
4422375 TATCATATAGTTTT
1 TAT-ATATAGTTTT
4422389 TTAAAAAATA
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
27 2 0.03
28 8 0.12
29 28 0.44
30 3 0.05
31 1 0.02
32 1 0.02
33 5 0.08
34 15 0.23
35 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (28 bp):
TATATATAGTTTTGAAAATATATAAATA
Found at i:4424900 original size:24 final size:22
Alignment explanation
Indices: 4424868--4424926 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 22
4424858 TACCATATAC
*
4424868 GGTATCGATACTACTTAGT-AT
1 GGTACCGATACTACTTAGTGAT
4424889 AGTAGTACCGATACT-CTTAGTGAT
1 -G--GTACCGATACTACTTAGTGAT
4424913 GGTACCGATACTAC
1 GGTACCGATACTAC
4424927 CTTTTTGGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
21 11 0.34
22 2 0.06
23 7 0.22
24 12 0.38
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (22 bp):
GGTACCGATACTACTTAGTGAT
Found at i:4426397 original size:36 final size:36
Alignment explanation
Indices: 4426357--4426622 Score: 231
Period size: 36 Copynumber: 7.5 Consensus size: 36
4426347 TTAAAATACG
* *
4426357 TATATAATATATAGTTTTTAAAATATTTTGAATATA
1 TATATAATATATAGTTTTTAAAACATTTTGAAAATA
*
4426393 TATATAATATATAGTTTTTAAAACATTTTTGAAAA-C
1 TATATAATATATAGTTTTTAAAACA-TTTTGAAAATA
*
4426429 TATATAATATATAGTTTTTAAAACATTATAGAAAATA
1 TATATAATATATAGTTTTTAAAACATT-TTGAAAATA
*
4426466 TATATAATATATAGTTTTTTAAAATTATTTTGAAAACT-
1 TATATAATATATAG-TTTTTAAAA-CATTTTGAAAA-TA
*
4426504 TATAT-A-ATATA-----T---AC-TTTTGAGAACT-
1 TATATAATATATAGTTTTTAAAACATTTTGA-AAATA
* * *
4426529 TATATAATACATAGTTTTGAAAACATTTTTTTGAAAACATT
1 TATATAATATATAGTTTTTAAAACA---TTTTG-AAA-ATA
*
4426570 TATATATTATATAGTTTTTAAAACATTTTGAAAATA
1 TATATAATATATAGTTTTTAAAACATTTTGAAAATA
4426606 TATAT--TATATAGTTTTT
1 TATATAATATATAGTTTTT
4426623 TTTTGAAACA
Statistics
Matches: 190, Mismatches: 16, Indels: 50
0.74 0.06 0.20
Matches are distributed among these distances:
25 12 0.06
26 3 0.02
27 5 0.03
30 1 0.01
34 12 0.06
35 4 0.02
36 67 0.35
37 26 0.14
38 25 0.13
39 11 0.06
40 2 0.01
41 22 0.12
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAATA
Found at i:4426528 original size:25 final size:25
Alignment explanation
Indices: 4426493--4426552 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
4426483 TTTAAAATTA
*
4426493 TTTTGAAAACTTATATAATATATAC
1 TTTTGAAAACTTATATAATACATAC
* *
4426518 TTTTGAGAACTTATATAATACATAG
1 TTTTGAAAACTTATATAATACATAC
4426543 TTTTGAAAAC
1 TTTTGAAAAC
4426553 ATTTTTTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (25 bp):
TTTTGAAAACTTATATAATACATAC
Found at i:4426533 original size:100 final size:98
Alignment explanation
Indices: 4426419--4426621 Score: 241
Period size: 100 Copynumber: 2.0 Consensus size: 98
4426409 TTTAAAACAT
* *
4426419 TTTTGAAAACTATATAATATATAGTTTTTAAAACA-TTATAG-AAA-ATATATATAATATATAGT
1 TTTTGAAAACTATATAATACATAGTTTTGAAAACATTTATAGAAAACATATATATAATATATAG-
*
4426481 TTTTTAAAATTATTTTGAAAACTTATATAATATATAC
65 TTTTTAAAA-CATTTTGAAAA--TATATAATATATAC
* * * * *
4426518 TTTTGAGAACTTATATAATACATAGTTTTGAAAACATTTTTTTGAAAACATTTATATATTATATA
1 TTTTGAAAAC-TATATAATACATAGTTTTGAAAACA-TTTATAGAAAACATATATATAATATATA
* *
4426583 GTTTTTAAAACATTTTGAAAATATATATTATATAG
64 GTTTTTAAAACATTTTGAAAATATATAATATATAC
4426618 TTTT
1 TTTT
4426622 TTTTTGAAAC
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
99 9 0.10
100 39 0.44
102 14 0.16
103 12 0.13
104 15 0.17
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.46
Consensus pattern (98 bp):
TTTTGAAAACTATATAATACATAGTTTTGAAAACATTTATAGAAAACATATATATAATATATAGT
TTTTAAAACATTTTGAAAATATATAATATATAC
Found at i:4426534 original size:63 final size:65
Alignment explanation
Indices: 4426466--4426587 Score: 167
Period size: 63 Copynumber: 1.9 Consensus size: 65
4426456 ATAGAAAATA
* **
4426466 TATATAATATATAGTTTTTTAAA-ATTATTTTGAAAAC-TTATATAATATATACTTTTGAGAACT
1 TATATAATACATAGTTTTGAAAACATTATTTTGAAAACATTATATAATATATACTTTTGAGAACT
* * *
4426529 TATATAATACATAGTTTTGAAAACATTTTTTTGAAAACATTTATATATTATATAGTTTT
1 TATATAATACATAGTTTTGAAAACATTATTTTGAAAACA-TTATATAATATATACTTTT
4426588 TAAAACATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
63 20 0.40
64 13 0.26
66 17 0.34
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (65 bp):
TATATAATACATAGTTTTGAAAACATTATTTTGAAAACATTATATAATATATACTTTTGAGAACT
Found at i:4426560 original size:14 final size:14
Alignment explanation
Indices: 4426543--4426570 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4426533 TAATACATAG
4426543 TTTTGAAAACATTT
1 TTTTGAAAACATTT
4426557 TTTTGAAAACATTT
1 TTTTGAAAACATTT
4426571 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TTTTGAAAACATTT
Found at i:4427426 original size:32 final size:32
Alignment explanation
Indices: 4427390--4427469 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
4427380 GTTTTACCAG
**
4427390 CCGGAGCGGTGGCCGGCGTTGCATGAAAGCCA
1 CCGGAGCGGTGGCCGGCCCTGCATGAAAGCCA
*
4427422 CCGGAGCGATGGCCGGCCCTGCATGAAAGCCA
1 CCGGAGCGGTGGCCGGCCCTGCATGAAAGCCA
4427454 CCGGA-CGGTGGCCGGC
1 CCGGAGCGGTGGCCGGC
4427470 TAGCGAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 10 0.23
32 34 0.77
ACGTcount: A:0.17, C:0.33, G:0.40, T:0.10
Consensus pattern (32 bp):
CCGGAGCGGTGGCCGGCCCTGCATGAAAGCCA
Found at i:4428006 original size:22 final size:22
Alignment explanation
Indices: 4427968--4428014 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
4427958 GACCTTTTTA
*
4427968 TTTATTATTTATATTTTTTCTC
1 TTTATTATTTATATTTTTTCCC
*
4427990 TTTATTTATTT-TCTTTTTTCCC
1 TTTA-TTATTTATATTTTTTCCC
4428012 TTT
1 TTT
4428015 TTTCTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTATTATTTATATTTTTTCCC
Found at i:4428043 original size:15 final size:15
Alignment explanation
Indices: 4428023--4428054 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4428013 TTTTTCTTAT
4428023 TTTATTTATTTAATA
1 TTTATTTATTTAATA
*
4428038 TTTATTTATTTATTA
1 TTTATTTATTTAATA
4428053 TT
1 TT
4428055 ATTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTATTTATTTAATA
Found at i:4428055 original size:3 final size:3
Alignment explanation
Indices: 4428047--4428072 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4428037 ATTTATTTAT
4428047 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4428073 TTCTCTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4432623 original size:22 final size:21
Alignment explanation
Indices: 4432576--4432623 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
4432566 CTAGATTGTT
* *
4432576 AACAGGGAACTGATACCCTGC
1 AACAGGGAACCGATACCCTAC
* *
4432597 TACAGGGAACCGATTCCCCTAC
1 AACAGGGAACCGA-TACCCTAC
4432619 AACAG
1 AACAG
4432624 TACTGCTACA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.33, C:0.31, G:0.21, T:0.15
Consensus pattern (21 bp):
AACAGGGAACCGATACCCTAC
Found at i:4437920 original size:12 final size:12
Alignment explanation
Indices: 4437903--4437942 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
4437893 AAATGCGATA
4437903 TGAACAGTAACG
1 TGAACAGTAACG
4437915 TGAACAGTAA--
1 TGAACAGTAACG
*
4437925 TGAACAGTACCG
1 TGAACAGTAACG
4437937 TGAACA
1 TGAACA
4437943 ATGCCCTGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 9 0.36
12 16 0.64
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (12 bp):
TGAACAGTAACG
Found at i:4438653 original size:31 final size:31
Alignment explanation
Indices: 4438630--4438739 Score: 166
Period size: 31 Copynumber: 3.5 Consensus size: 31
4438620 TATAGATTCT
*
4438630 GAAGAACCTAGGTAAACAGTCTATATGTCCC
1 GAAGAACATAGGTAAACAGTCTATATGTCCC
* *
4438661 GAAGAACATAGGTAAACAATCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCTATATGTCCC
* *
4438692 GAATAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCTATATGTCCC
*
4438723 TAAGAACATAGGTAAAC
1 GAAGAACATAGGTAAAC
4438740 CCTTGCCAAC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (31 bp):
GAAGAACATAGGTAAACAGTCTATATGTCCC
Found at i:4444286 original size:17 final size:17
Alignment explanation
Indices: 4444264--4444296 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4444254 CGCATTACGC
4444264 TAATTT-TTGAAGATGAA
1 TAATTTCTTGAA-ATGAA
4444281 TAATTTCTTGAAATGA
1 TAATTTCTTGAAATGA
4444297 CGATGAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
TAATTTCTTGAAATGAA
Found at i:4446167 original size:60 final size:60
Alignment explanation
Indices: 4446093--4446212 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
4446083 ATAGTGTAAC
*
4446093 AATTAACGCATACTTACATCGGTGTAAGTATGTACATCTCCCAATATCTCCATACCTAAG
1 AATTAACACATACTTACATCGGTGTAAGTATGTACATCTCCCAATATCTCCATACCTAAG
* *
4446153 AATTAACACATACTTACATCGGTGTAAGTATGTACATCTCCCAATATCTCGATATCTAAG
1 AATTAACACATACTTACATCGGTGTAAGTATGTACATCTCCCAATATCTCCATACCTAAG
4446213 TTAAACACAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (60 bp):
AATTAACACATACTTACATCGGTGTAAGTATGTACATCTCCCAATATCTCCATACCTAAG
Found at i:4446272 original size:2 final size:2
Alignment explanation
Indices: 4446265--4446290 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4446255 AAAAGAAATA
4446265 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4446291 TAAGTTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4456398 original size:60 final size:60
Alignment explanation
Indices: 4456281--4456410 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 60
4456271 AAGGATGAAG
* *
4456281 ATCATAGATTGAGGATGAAAATGAAAAGTTCAAAAGTTTGAGGACTAATTTAGAATGATA
1 ATCATAGATTAAGGATGAAAATGAAAAGTTCAAAAGTTTGAGGACTAATTTAGAATGAGA
* * * * *
4456341 ATCATAGTTTAAGGAT-AAAATTAAAATGTTTAAGAGTTT-AGGAACTAATTT-GAAATGAGG
1 ATCATAGATTAAGGATGAAAATGAAAA-GTTCAAAAGTTTGAGG-ACTAATTTAG-AATGAGA
4456401 ATCATAGATT
1 ATCATAGATT
4456411 TGGAACATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
59 13 0.22
60 46 0.78
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (60 bp):
ATCATAGATTAAGGATGAAAATGAAAAGTTCAAAAGTTTGAGGACTAATTTAGAATGAGA
Found at i:4456596 original size:16 final size:16
Alignment explanation
Indices: 4456575--4456605 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4456565 AAATTAAATT
*
4456575 CGAGTTATTTTTGGTA
1 CGAGTTAATTTTGGTA
4456591 CGAGTTAATTTTGGT
1 CGAGTTAATTTTGGT
4456606 TTGCTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.26, T:0.48
Consensus pattern (16 bp):
CGAGTTAATTTTGGTA
Found at i:4456846 original size:16 final size:17
Alignment explanation
Indices: 4456817--4456848 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4456807 AGCACTCATA
4456817 TAAAAATATATTAAATT
1 TAAAAATATATTAAATT
4456834 TAAAAATAT-TTAAAT
1 TAAAAATATATTAAAT
4456849 ATGTTGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAAATATATTAAATT
Found at i:4458037 original size:13 final size:13
Alignment explanation
Indices: 4458019--4458047 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4458009 GTTGAAGTTG
4458019 GAGCGAGAGGCTT
1 GAGCGAGAGGCTT
4458032 GAGCGAGAGGCTT
1 GAGCGAGAGGCTT
4458045 GAG
1 GAG
4458048 TAAGTCTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.14, G:0.48, T:0.14
Consensus pattern (13 bp):
GAGCGAGAGGCTT
Found at i:4468129 original size:21 final size:21
Alignment explanation
Indices: 4468099--4468158 Score: 111
Period size: 21 Copynumber: 2.8 Consensus size: 21
4468089 ATGATTCTTA
4468099 TTTTTCGTTATGATAGGTCAAG
1 TTTTT-GTTATGATAGGTCAAG
4468121 TTTTTGTTATGATAGGTCAAG
1 TTTTTGTTATGATAGGTCAAG
4468142 TTTTTGTTATGATAGGT
1 TTTTTGTTATGATAGGT
4468159 AAATATTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 33 0.87
22 5 0.13
ACGTcount: A:0.22, C:0.05, G:0.23, T:0.50
Consensus pattern (21 bp):
TTTTTGTTATGATAGGTCAAG
Found at i:4469801 original size:3 final size:3
Alignment explanation
Indices: 4469771--4469827 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
4469761 AAAACGAAAA
* *
4469771 AAT AA- AAT AAA AAT AAAT AAT GAT AAT AAT AAT AAT AAAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
4469817 AAT AAT AAT AA
1 AAT AAT AAT AA
4469828 ATCCTAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 2 0.04
3 39 0.83
4 6 0.13
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:4469807 original size:22 final size:22
Alignment explanation
Indices: 4469771--4469827 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
4469761 AAAACGAAAA
*
4469771 AATAA-AATAAAAATAAATAAT
1 AATAATAATAATAATAAATAAT
*
4469792 GATAATAATAATAATAAATAAT
1 AATAATAATAATAATAAATAAT
4469814 AATAATAATAATAA
1 AATAATAATAATAA
4469828 ATCCTAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 4 0.12
22 28 0.88
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
AATAATAATAATAATAAATAAT
Found at i:4469845 original size:19 final size:19
Alignment explanation
Indices: 4469770--4469829 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
4469760 TAAAACGAAA
*
4469770 AAATAA-AATAAAAATAA-
1 AAATAATAATAATAATAAT
*
4469787 ATAATGATAATAATAATAAT
1 A-AATAATAATAATAATAAT
4469807 AAATAATAATAATAATAAT
1 AAATAATAATAATAATAAT
4469826 AAAT
1 AAAT
4469830 CCTAATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 1 0.03
18 4 0.11
19 31 0.84
20 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AAATAATAATAATAATAAT
Found at i:4470670 original size:21 final size:21
Alignment explanation
Indices: 4470644--4470688 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4470634 GATTTCTGGG
* *
4470644 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
4470665 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
4470686 CAA
1 CAA
4470689 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:4470761 original size:23 final size:22
Alignment explanation
Indices: 4470717--4470761 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4470707 AATGTCATGG
*
4470717 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
4470739 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
4470762 AAATTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:4472100 original size:32 final size:31
Alignment explanation
Indices: 4472058--4472186 Score: 136
Period size: 32 Copynumber: 4.1 Consensus size: 31
4472048 AGAGTCGAGG
4472058 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
*
4472089 GTTTTACCTATG-TCTTTC-GAGACATATGGACA
1 G-TTTACCTATGTTC-TACGGA-ACATATGGACA
* * *
4472121 GTATACCTATGTTCTAAGAAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* * * *
4472152 GTTTACCTAGGTTCTTCGGGGACCTATGGACA
1 GTTTACCTATGTTCTAC-GGAACATATGGACA
4472184 GTT
1 GTT
4472187 ACCGAGGATC
Statistics
Matches: 80, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
31 39 0.49
32 41 0.51
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGGACA
Found at i:4472131 original size:31 final size:31
Alignment explanation
Indices: 4472058--4472166 Score: 130
Period size: 31 Copynumber: 3.5 Consensus size: 31
4472048 AGAGTCGAGG
* *
4472058 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTAAGAAACATATGGACA
** *
4472089 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTC-TAAGAAACATATGGACA
*
4472121 GTATACCTATGTTCTAAGAAACATATGGACA
1 GTTTACCTATGTTCTAAGAAACATATGGACA
*
4472152 GTTTACCTAGGTTCT
1 GTTTACCTATGTTCT
4472167 TCGGGGACCT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
31 39 0.59
32 27 0.41
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (31 bp):
GTTTACCTATGTTCTAAGAAACATATGGACA
Found at i:4472180 original size:63 final size:62
Alignment explanation
Indices: 4472060--4472189 Score: 174
Period size: 63 Copynumber: 2.1 Consensus size: 62
4472050 AGTCGAGGGT
* * *
4472060 TTACCTATGTTCTACGGAACATATGGACAGTTTTACCTATGTCTTTCGAGACATATGGACAG
1 TTACCTATGTTCTAAGAAACATATGGACAGTTTTACCTAGGTCTTTCGAGACATATGGACAG
* *
4472122 TATACCTATGTTCTAAGAAACATATGGACAG-TTTACCTAGGT-TCTTCGGGGACCTATGGACAG
1 T-TACCTATGTTCTAAGAAACATATGGACAGTTTTACCTAGGTCT-TTC-GAGACATATGGACAG
4472185 TTACC
1 TTACC
4472190 GAGGATCTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
61 1 0.02
62 18 0.30
63 41 0.68
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (62 bp):
TTACCTATGTTCTAAGAAACATATGGACAGTTTTACCTAGGTCTTTCGAGACATATGGACAG
Found at i:4472217 original size:30 final size:30
Alignment explanation
Indices: 4472172--4472244 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
4472162 GTTCTTCGGG
* *
4472172 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
4472202 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
4472232 GACCTCTGGATAG
1 GACCTCTGGATAG
4472245 GTCCTTCGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:4473002 original size:37 final size:36
Alignment explanation
Indices: 4472962--4473049 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 36
4472952 TAGGTTTTCA
4472962 AAAAAATGTTTTAAAATTATATATTATATAATTTTT
1 AAAAAATGTTTTAAAATTATATATTATATAATTTTT
* * * *
4472998 AAAAAATGTTTCAAAAACTATATACTATATAAGTTTT
1 AAAAAATGTTT-TAAAATTATATATTATATAATTTTT
*
4473035 -CAAAATGTTTTAAAA
1 AAAAAATGTTTTAAAA
4473050 ACTATACAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
35 4 0.09
36 20 0.44
37 21 0.47
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (36 bp):
AAAAAATGTTTTAAAATTATATATTATATAATTTTT
Found at i:4473081 original size:66 final size:65
Alignment explanation
Indices: 4473001--4473126 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 65
4472991 AATTTTTAAA
* *
4473001 AAATGTTTCAAAAACTATATACTATATAAGTTTTCAAAATGTTTT-AAAAACTATACAATATTAT
1 AAATGTTTCAAAAACTATATACTATAT-A-TTTTAAAAATATTTTCAAAAACTATACAATATTAT
4473065 AT
64 AT
* *
4473067 AAATGTTTTC-AAAACTATATATTATATATTTTAAAAATATTTTCAAAAACTATATAATAT
1 AAATG-TTTCAAAAACTATATACTATATATTTTAAAAATATTTTCAAAAACTATACAATAT
4473127 ATAAATTTGC
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
64 13 0.24
65 16 0.30
66 21 0.39
67 4 0.07
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (65 bp):
AAATGTTTCAAAAACTATATACTATATATTTTAAAAATATTTTCAAAAACTATACAATATTATAT
Found at i:4473187 original size:40 final size:37
Alignment explanation
Indices: 4473072--4473200 Score: 122
Period size: 40 Copynumber: 3.4 Consensus size: 37
4473062 TATATAAATG
*
4473072 TTTTC-AAAACTATATATTATATATTT-T-AAAAATA
1 TTTTCAAAAACTATATATTATATATTTGTCAAAAACA
* *
4473106 TTTTCAAAAACTATATAATATATAAATTTG-CGAAAATCA
1 TTTTCAAAAACTATAT-AT-TATATATTTGTC-AAAAACA
* *
4473145 TTTTCTGAAAATTATATATTATTATATTTTGTCAAAAACA
1 TTTTC-AAAAACTATATATTA-TATA-TTTGTCAAAAACA
*
4473185 TTTTCATAAACTATAT
1 TTTTCAAAAACTATAT
4473201 TGCTATATAC
Statistics
Matches: 75, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
34 5 0.07
35 10 0.13
36 2 0.03
37 8 0.11
38 2 0.03
39 23 0.31
40 24 0.32
41 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (37 bp):
TTTTCAAAAACTATATATTATATATTTGTCAAAAACA
Found at i:4474078 original size:17 final size:16
Alignment explanation
Indices: 4474056--4474089 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
4474046 TAAAAACAGT
4474056 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
4474073 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
4474089 A
1 A
4474090 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:4483864 original size:15 final size:14
Alignment explanation
Indices: 4483840--4483869 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
4483830 GTAAACTATA
4483840 CAAAAAATAAAATG
1 CAAAAAATAAAATG
4483854 CAAACAAATAAAATG
1 CAAA-AAATAAAATG
4483869 C
1 C
4483870 TCTGGCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.13, G:0.07, T:0.13
Consensus pattern (14 bp):
CAAAAAATAAAATG
Found at i:4485960 original size:84 final size:84
Alignment explanation
Indices: 4485664--4486732 Score: 992
Period size: 84 Copynumber: 12.9 Consensus size: 84
4485654 TTATTGACAT
* * * * * * * * *
4485664 ATAACCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCCTTGAAGCTGAGTGTAGTCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
*
4485729 GAATGTC--T--TTGGCAG
66 GAAGGTCTTTGGTTGGCAG
* * * * * * * * *
4485744 ATAACCCTTCTAGCCTTGAGCTATACTGCAAATGATGT-CATT-GAGCTGAGTGTAATCAAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
*
4485807 AAAGGTCTTT-GTTGGCAG
66 GAAGGTCTTTGGTTGGCAG
* * * * * ** * *
4485825 ATAACTCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCAACGCTGAGTGTAATCGAACT
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGA-GCTGAGCGTAGTCGAACT
* * *
4485890 CGAGGGTTTTTGGTTGGCAT
65 CGAAGGTCTTTGGTTGGCAG
* * * * * ** *
4485910 ATAGCCCTTTTCGACTTAAGCTATGCTTCAAATGATGCGCCTTAGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
*
4485975 GAAGGTCTTTGATTGGCAG
66 GAAGGTCTTTGGTTGGCAG
* *
4485994 ATAACCCTTCTTGACTTAAGTTATGCTGCAAATAATATGCCTTGGAGC-GAGCGTAGTCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
** *
4486058 GAAGGTCTTTTGGTT-ATAT
66 GAAGGTC-TTTGGTTGGCAG
* * * * * * * * *
4486077 ATAACCCTTCTAGCCTTGAGTTAAGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATTGAACT
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACT
4486142 C-AAGGGTC--T--TTGGCAG
65 CGAA-GGTCTTTGGTTGGCAG
* * * * * * * *
4486158 ATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCTTTGGAGCTGAGCGTAGTTGAACTT
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
4486223 GAAGGTCTTTGGTTGGCAG
66 GAAGGTCTTTGGTTGGCAG
* * * * *
4486242 ATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTGGAGTTGAGCATAATCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
* * **
4486307 AAAGGTCTTTTGTTTACAG
66 GAAGGTCTTTGGTTGGCAG
* * * * * *
4486326 ATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATACCCTCGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT-GCCTTGGAGCTGAGCGTAGTCGAACT
4486391 C-AAGGGTC--T--TTGGCAG
65 CGAA-GGTCTTTGGTTGGCAG
** * * * *
4486407 ATTGCCCTTCTCGAC-AAATGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACT
1 ATAACCCTTCTAGACTTAA-GTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACT
* *
4486471 CGAAGGTCTATGGTTGGCAT
65 CGAAGGTCTTTGGTTGGCAG
* *
4486491 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
* *
4486556 GAAGGTCTTTTGGTT-ACAA
66 GAAGGTC-TTTGGTTGGCAG
* * *
4486575 ATAACCCTTCTAGACTTAAGTTATGCTACAAATGATATGGCTTGGAGCTGAGCGTAGTTGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
* *
4486640 AAAGGTCTTTGGGTGGCAG
66 GAAGGTCTTTGGTTGGCAG
* * ** ** * *
4486659 ATAGCCCTTCTAGCCTCGAGCAATGCTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
4486724 GAAGGTCTT
66 GAAGGTCTT
4486733 GGCCGATAGA
Statistics
Matches: 814, Mismatches: 147, Indels: 52
0.80 0.15 0.05
Matches are distributed among these distances:
78 23 0.03
79 3 0.00
80 89 0.11
81 110 0.14
82 5 0.01
83 65 0.08
84 428 0.53
85 91 0.11
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (84 bp):
ATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTC
GAAGGTCTTTGGTTGGCAG
Found at i:4486416 original size:249 final size:249
Alignment explanation
Indices: 4485668--4486732 Score: 1290
Period size: 249 Copynumber: 4.3 Consensus size: 249
4485658 TGACATATAA
* * * * * * * *
4485668 CCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCCTTGAAGCTGAGTGTAGTCGAACTCGAAT
1 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
* * * * * * *
4485733 GTC--T--TTGGCAGATAACCCTTCTAGCCTTGAGCTATACTGCAAATGATGT-CATT-GAGCTG
66 GTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTG
** * * * * *
4485792 AGTGTAATCAAACTCAAAGGTC-TTT-GTTGGCAGATAACTCTTCTAGCCTTGAGTTATGCTGCA
131 AGCATAATCGAACTCAAAGGTCTTTTGGTT-ACAGATAACCCTTCTAGACTTAAGTTATGCTGCA
* * * *
4485855 AATGATGTGCCCTC-AACGCTGAGTGTAATCGAACTCGAGGGTTTTTGGTTGGCATATAG
195 AATGATATGCCCTCGAA-GCTGAGTGTAATCGAACTCAAGGG--TCT--TTGGCAGATAG
* * * *
4485914 CCCTTTTCGACTTAAGCTATGCTTCAAATGATGCGCCTTAGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
* * *
4485979 GTCTTTGATTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATAATATGCCTTGGAGC-G
66 GTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTG
* * * * * * * * *
4486043 AGCGTAGTCGAACTCGAAGGTCTTTTGGTTATATATAACCCTTCTAGCCTTGAGTTAAGCTGTAA
131 AGCATAATCGAACTCAAAGGTCTTTTGGTTACAGATAACCCTTCTAGACTTAAGTTATGCTGCAA
*
4486108 ATGATATGCCCTCGAAGCTGAGTGTAATTGAACTCAAGGGTCTTTGGCAGATAG
196 ATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATAG
* * * *
4486162 CCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCTTTGGAGCTGAGCGTAGTTGAACTTGAAG
1 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
* *
4486227 GTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTGGAGTTG
66 GTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTG
* *
4486292 AGCATAATCGAACTCAAAGGTCTTTTGTTTACAGATAACCCTTCTAGACTTAAGTTATGCTGTAA
131 AGCATAATCGAACTCAAAGGTCTTTTGGTTACAGATAACCCTTCTAGACTTAAGTTATGCTGCAA
* *
4486357 ATGATATACCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATTG
196 ATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATAG
*
4486411 CCCTTCTCGAC-AAATGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAA
1 CCCTTCTCGACTTAA-GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAA
* *
4486475 GGTCTATGGTTGGCATATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCT
65 GGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCT
* * * *
4486540 GAGCATAGTCGAACTCGAAGGTCTTTTGGTTACAAATAACCCTTCTAGACTTAAGTTATGCTACA
130 GAGCATAATCGAACTCAAAGGTCTTTTGGTTACAGATAACCCTTCTAGACTTAAGTTATGCTGCA
* * * * * * *
4486605 AATGATATG-GCTTGGAGCTGAGCGTAGTTGAACTCAAAGGTCTTTGGGTGGCAGATAG
195 AATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTC-TT---TGGCAGATAG
* * ** * *
4486663 CCCTTCTAGCCTCGAGCAATGCTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAAG
1 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
4486728 GTCTT
66 GTCTT
4486733 GGCCGATAGA
Statistics
Matches: 712, Mismatches: 91, Indels: 26
0.86 0.11 0.03
Matches are distributed among these distances:
246 56 0.08
248 154 0.22
249 294 0.41
250 40 0.06
251 22 0.03
252 140 0.20
253 6 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (249 bp):
CCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
GTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTG
AGCATAATCGAACTCAAAGGTCTTTTGGTTACAGATAACCCTTCTAGACTTAAGTTATGCTGCAA
ATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATAG
Found at i:4486593 original size:333 final size:330
Alignment explanation
Indices: 4485652--4486732 Score: 1110
Period size: 333 Copynumber: 3.3 Consensus size: 330
4485642 AACTCGACAA
* * * * * *
4485652 TTTT-ATTGACATATAACCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCCTTGAAGCTGAG
1 TTTTGATTGACAGATAACCCTTCTTGACTTAAGTTATGCTGTAAATGATATGCCTTGAAGCTGAG
* * *
4485716 TGTAGTCGAACTCGAATGTCTTTGGCAGATAACCCTTCTAGCCTTGAGCTATACTGCAAATGATG
66 TGTAGTCGAACTCGAAGGTCTTTGGCAGATTACCCTTCTAGCCTTGAGCTATGCTGCAAATGATG
* * * * * *
4485781 T-CATT-GAGCTGAGTGTAATCAAACTCAAAGGTCTTTGTTGGCAGATAACTCTTCTAGCCTTGA
131 TGCCTTGGAGCTGAGTGTAATCGAACTC-AAGGTC-TTGTTGGCAGATAACCCTTCTCGACTTAA
* ** * * *
4485844 GTTATGCTGCAAATGATGTGCCCTCAACGCTGAGTGTAATCGAACTCGAGGGT-TTTTGGTTGGC
194 GTTATGCTGCAAATGATGTGCCTTGGA-GCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTGGC
* * * * ** *
4485908 ATATAGCCCTTTTCGACTTAAGCTATGCTTCAAATGATGCGCCTTAGAGCTGAGCGTAGTCGAAC
258 AAATAACCCTTCTCGACTTAAGTTATGCTT-AAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
*
4485973 TCGAAGGTC
322 TCAAAGGTC
* * * *
4485982 -TTTGATTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATAATATGCCTTGGAGC-GAG
1 TTTTGATTGACAGATAACCCTTCTTGACTTAAGTTATGCTGTAAATGATATGCCTTGAAGCTGAG
* * * * * *
4486045 CGTAGTCGAACTCGAAGGTCTTTTGGTTATATATAACCCTTCTAGCCTTGAGTTAAGCTGTAAAT
66 TGTAGTCGAACTCGAAGGTC-TTTGG-CAGAT-T-ACCCTTCTAGCCTTGAGCTATGCTGCAAAT
* * * * *
4486110 GATATGCCCTCGAAGCTGAGTGTAATTGAACTCAAGGGTC-T-TTGGCAGATAGCCCTTCTCGAC
127 GATGTG-CCTTGGAGCTGAGTGTAATCGAACTCAA-GGTCTTGTTGGCAGATAACCCTTCTCGAC
* * * * *
4486173 TTAAGCTATACTGCAAATGATGTGCTTTGGAGCTGAGCGTAGTTGAACTTGAAGGTC-TTTGGTT
190 TTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTT
* * * *
4486237 GGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCTTGGAGTTGAGCATAATCG
255 GGCAAATAACCCTTCTCGACTTAAGTTATGCT-TAAATGATATGCCTTGGAGCTGAGCGTAGTCG
4486302 AACTCAAAGGTC
319 AACTCAAAGGTC
* * * *
4486314 TTTTG-TTTACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATACCCTCGAAGCTGA
1 TTTTGATTGACAGATAACCCTTCTTGACTTAAGTTATGCTGTAAATGATAT-GCCTTGAAGCTGA
* * * * **
4486378 GTGTAATCGAACTC-AAGGGTCTTTGGCAGATTGCCCTTCTCGAC-AAATGCTATGCTGCAAATG
65 GTGTAGTCGAACTCGAA-GGTCTTTGGCAGATTACCCTTCTAGCCTTGA-GCTATGCTGCAAATG
* * *
4486441 ATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTATGGTTGGCATATAACCCTTCTCGAC
128 ATGTGCCTTGGAGCTGAGTGTAATCGAACTC-AAGGTCT-T-GTTGGCAGATAACCCTTCTCGAC
* *
4486506 TTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGGTT
190 TTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTT
* * * * *
4486571 -ACAAATAACCCTTCTAGACTTAAGTTATGCTACAAATGATATGGCTTGGAGCTGAGCGTAGTTG
255 GGCAAATAACCCTTCTCGACTTAAGTTATGCT-TAAATGATATGCCTTGGAGCTGAGCGTAGTCG
4486635 AACTCAAAGGTC
319 AACTCAAAGGTC
** * * * * ** ** * * * *
4486647 -TTTGGGTGGCAGATAGCCCTTCTAGCCTCGAGCAATGCTGCAAATGATGTGTCTTGGAGCTGAG
1 TTTTGATTGACAGATAACCCTTCTTGACTTAAGTTATGCTGTAAATGATATGCCTTGAAGCTGAG
*
4486711 CGTAGTCGAACTCGAAGGTCTT
66 TGTAGTCGAACTCGAAGGTCTT
4486733 GGCCGATAGA
Statistics
Matches: 613, Mismatches: 114, Indels: 46
0.79 0.15 0.06
Matches are distributed among these distances:
329 50 0.08
330 78 0.13
331 5 0.01
332 165 0.27
333 263 0.43
334 26 0.04
335 4 0.01
336 22 0.04
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (330 bp):
TTTTGATTGACAGATAACCCTTCTTGACTTAAGTTATGCTGTAAATGATATGCCTTGAAGCTGAG
TGTAGTCGAACTCGAAGGTCTTTGGCAGATTACCCTTCTAGCCTTGAGCTATGCTGCAAATGATG
TGCCTTGGAGCTGAGTGTAATCGAACTCAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGT
TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTTGGCAAA
TAACCCTTCTCGACTTAAGTTATGCTTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAA
AGGTC
Found at i:4491891 original size:20 final size:20
Alignment explanation
Indices: 4491866--4491964 Score: 69
Period size: 20 Copynumber: 5.0 Consensus size: 20
4491856 AAAAAGCTAC
4491866 ATAAATAAATAATAAATAAA
1 ATAAATAAATAATAAATAAA
* *
4491886 ATAAATAAATGATAAATCAAG
1 ATAAATAAATAATAAAT-AAA
** **
4491907 AGGAA-AAATATATTTATAAA
1 ATAAATAAATA-ATAAATAAA
* *
4491927 AAAAATGAAA-AATAAAAAAA
1 ATAAAT-AAATAATAAATAAA
*
4491947 ATAAATCAA-AATAAATAA
1 ATAAATAAATAATAAATAA
4491965 GAAAAAGAGA
Statistics
Matches: 59, Mismatches: 16, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
19 10 0.17
20 36 0.61
21 10 0.17
22 3 0.05
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (20 bp):
ATAAATAAATAATAAATAAA
Found at i:4491947 original size:10 final size:10
Alignment explanation
Indices: 4491922--4491964 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
4491912 AAATATATTT
4491922 ATAAAAA-AA
1 ATAAAAATAA
4491931 ATGAAAAATAA
1 AT-AAAAATAA
4491942 A-AAAAATAA
1 ATAAAAATAA
*
4491951 ATCAAAATAA
1 ATAAAAATAA
4491961 ATAA
1 ATAA
4491965 GAAAAAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 11 0.38
10 15 0.52
11 3 0.10
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:4492035 original size:2 final size:2
Alignment explanation
Indices: 4492028--4492058 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4492018 TAAAAATAGA
4492028 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4492059 CAAAGAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4492740 original size:3 final size:3
Alignment explanation
Indices: 4492709--4492773 Score: 85
Period size: 3 Copynumber: 21.0 Consensus size: 3
4492699 AACGGAAAAA
* * *
4492709 AAT AAA AAT AAA AAT AAAT AAT GAT AAT AAT AAT AAT AAT ATAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
4492756 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
4492774 TCCTAAAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
3 48 0.89
4 6 0.11
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4492790 original size:25 final size:25
Alignment explanation
Indices: 4492709--4492773 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
4492699 AACGGAAAAA
* * * *
4492709 AATAAAAATAAAAATAAATAATGAT
1 AATAATAATAATAATATATAATAAT
4492734 AATAATAATAATAATATATAATAAT
1 AATAATAATAATAATATATAATAAT
4492759 AATAATAATAATAAT
1 AATAATAATAATAAT
4492774 TCCTAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (25 bp):
AATAATAATAATAATATATAATAAT
Found at i:4492980 original size:38 final size:38
Alignment explanation
Indices: 4492824--4493033 Score: 185
Period size: 38 Copynumber: 5.8 Consensus size: 38
4492814 AAAAATTTCC
* *
4492824 AAAACTATGTATTATAT-AGTTTTCAAAAATTA-TTTT
1 AAAACTATATATTATATAAGTTTTCAAAAAATATTTTT
*
4492860 --AA--A-ATATTATATAAGTTTTCAAAAAAAATGTTTCT
1 AAAACTATATATTATATAAGTTTTCAAAAAATAT-TTT-T
* ** *
4492895 AAAAGTATATATTATATAA-TTTTACCGAAAATGTTTTTT
1 AAAACTATATATTATATAAGTTTT-CAAAAAAT-ATTTTT
* *
4492934 TAAACTATATATTATATAATTTTTCAAAAAATATTTTT
1 AAAACTATATATTATATAAGTTTTCAAAAAATATTTTT
* *
4492972 AAAACTATATATTATATAATTTTTC-AAAAAT-GTTTT
1 AAAACTATATATTATATAAGTTTTCAAAAAATATTTTT
*
4493008 AAAA--ATATA-CATATAAGTTTTCAAAA
1 AAAACTATATATTATATAAGTTTTCAAAA
4493034 TGTTTTAAAA
Statistics
Matches: 145, Mismatches: 16, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
31 8 0.06
32 14 0.10
33 11 0.08
34 13 0.09
35 1 0.01
36 8 0.06
37 8 0.06
38 29 0.20
39 29 0.20
40 23 0.16
41 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (38 bp):
AAAACTATATATTATATAAGTTTTCAAAAAATATTTTT
Found at i:4492991 original size:77 final size:78
Alignment explanation
Indices: 4492819--4493007 Score: 225
Period size: 71 Copynumber: 2.5 Consensus size: 78
4492809 ATATAAAAAA
* * * *
4492819 TTTCCAAAACTATGTATTATATAGTTTT-CAAAAA--TTATTTT-AA--A-ATATTATATAAGTT
1 TTTCTAAAACTATATATTATATAATTTTCCAAAAATGTTTTTTTAAACTATATATTATATAAGTT
4492877 TTCAAAAAAAATG
66 TTCAAAAAAAATG
* * *
4492890 TTTCTAAAAGTATATATTATATAATTTTACCGAAAATGTTTTTTTAAACTATATATTATATAATT
1 TTTCTAAAACTATATATTATATAATTTT-CCAAAAATGTTTTTTTAAACTATATATTATATAAGT
*
4492955 TTTCAAAAAATAT-
65 TTTCAAAAAAAATG
*
4492968 TTT-TAAAACTATATATTATATAATTTTTCAAAAATGTTTT
1 TTTCTAAAACTATATATTATATAATTTTCCAAAAATGTTTT
4493008 AAAAATATAC
Statistics
Matches: 99, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
71 24 0.24
73 5 0.05
75 6 0.06
76 13 0.13
77 23 0.23
78 4 0.04
79 24 0.24
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (78 bp):
TTTCTAAAACTATATATTATATAATTTTCCAAAAATGTTTTTTTAAACTATATATTATATAAGTT
TTCAAAAAAAATG
Found at i:4502110 original size:3 final size:3
Alignment explanation
Indices: 4502102--4502178 Score: 136
Period size: 3 Copynumber: 25.7 Consensus size: 3
4502092 TTTCAACTCC
*
4502102 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
4502150 AAT GAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4502179 AAAATTCATC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4502302 original size:59 final size:60
Alignment explanation
Indices: 4502239--4502378 Score: 142
Period size: 58 Copynumber: 2.4 Consensus size: 60
4502229 TACATTAATT
* * *
4502239 TTTTTATTTAAATACTTAAAATATTTTTTTTATCAAAATGAGTACGTAAAAT-TATCAT-C
1 TTTTTATTTAAATACTTAAAATA-TTTTTTAATCAAAATAAGTACGTAAAATATATAATAC
* ** * * *
4502298 TTTTTCATTT-GATGTTTAAAATATTTTTTAATCAAAATAAGTACTTAAAGTATATAATAT
1 TTTTT-ATTTAAATACTTAAAATATTTTTTAATCAAAATAAGTACGTAAAATATATAATAC
* *
4502358 TTTTTATTTAAGTTCTTAAAA
1 TTTTTATTTAAATACTTAAAA
4502379 AAGTTGACAT
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
58 24 0.38
59 24 0.38
60 16 0.25
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (60 bp):
TTTTTATTTAAATACTTAAAATATTTTTTAATCAAAATAAGTACGTAAAATATATAATAC
Found at i:4502566 original size:2 final size:2
Alignment explanation
Indices: 4502559--4502604 Score: 83
Period size: 2 Copynumber: 22.5 Consensus size: 2
4502549 TACTCAACAT
4502559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
4502602 TA T
1 TA T
4502605 TAATGACTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4507411 original size:11 final size:10
Alignment explanation
Indices: 4507394--4507420 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4507384 ATTAACATAT
4507394 TAAAAAAAAA
1 TAAAAAAAAA
4507404 TAAAAAAAAA
1 TAAAAAAAAA
4507414 TAAAAAA
1 TAAAAAA
4507421 GATAAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:4512712 original size:22 final size:22
Alignment explanation
Indices: 4512659--4512712 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
4512649 TTCAGCTGTT
* * *
4512659 ATAACTCCCGAAATTATATCAT
1 ATAACTCCTGAAATTAAATCAA
* *
4512681 GTAACCCCTGAAATTAAATCAA
1 ATAACTCCTGAAATTAAATCAA
4512703 ATAACTCCTG
1 ATAACTCCTG
4512713 TAACTCCTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (22 bp):
ATAACTCCTGAAATTAAATCAA
Found at i:4512998 original size:6 final size:6
Alignment explanation
Indices: 4512987--4513053 Score: 125
Period size: 6 Copynumber: 11.2 Consensus size: 6
4512977 GACACGTATT
*
4512987 ACCACG ACCACG ACCACG ACCACG ACCATG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
4513035 ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG A
4513054 GCCGAGCCGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.34, C:0.48, G:0.16, T:0.01
Consensus pattern (6 bp):
ACCACG
Found at i:4513061 original size:5 final size:5
Alignment explanation
Indices: 4513051--4513134 Score: 98
Period size: 5 Copynumber: 16.8 Consensus size: 5
4513041 ACCACGACCA
* *
4513051 CGAGC CGAGC CGAGT CGAGC CGAGT CGAGC CGAGC CGAGC CGAGC CGAGC
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC
* * * *
4513101 CGTGC CGTA-C CGTGC CGAGC CGAGA CGAGA CGAG
1 CGAGC CG-AGC CGAGC CGAGC CGAGC CGAGC CGAG
4513135 ACGGACGGAC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
5 68 1.00
ACGTcount: A:0.20, C:0.35, G:0.39, T:0.06
Consensus pattern (5 bp):
CGAGC
Found at i:4519010 original size:6 final size:6
Alignment explanation
Indices: 4518999--4519053 Score: 92
Period size: 6 Copynumber: 9.2 Consensus size: 6
4518989 GACATGTATT
* *
4518999 ACCACG ACCACG ACCACG ACCACG ACCTCG ACCTCG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
4519047 ACCACG A
1 ACCACG A
4519054 GCCGAGCCGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.31, C:0.49, G:0.16, T:0.04
Consensus pattern (6 bp):
ACCACG
Found at i:4519061 original size:5 final size:5
Alignment explanation
Indices: 4519051--4519099 Score: 71
Period size: 5 Copynumber: 9.8 Consensus size: 5
4519041 ACCACGACCA
* * *
4519051 CGAGC CGAGC CGAGC CGAGC CGAGC CGTGC CGAGC CGAGA CGAGA CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAG
4519100 ACGGATGGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.22, C:0.35, G:0.41, T:0.02
Consensus pattern (5 bp):
CGAGC
Found at i:4522024 original size:28 final size:28
Alignment explanation
Indices: 4521991--4522047 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
4521981 CAGAGCAAGT
*
4521991 ATGACTACTTCTTGTTCATTAAGAGGCA
1 ATGACTACTTCTTGTTCATCAAGAGGCA
4522019 ATGACTACTTCTTGTTCATCAAGAGGCA
1 ATGACTACTTCTTGTTCATCAAGAGGCA
4522047 A
1 A
4522048 CAAGGTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (28 bp):
ATGACTACTTCTTGTTCATCAAGAGGCA
Found at i:4524962 original size:21 final size:21
Alignment explanation
Indices: 4524938--4524980 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4524928 ATTAAAGGAG
*
4524938 TAATAATAAAAATAAATAAAA
1 TAATAATAAAAATAAAGAAAA
* *
4524959 TAATGATCAAAATAAAGAAAA
1 TAATAATAAAAATAAAGAAAA
4524980 T
1 T
4524981 TAAAATTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (21 bp):
TAATAATAAAAATAAAGAAAA
Found at i:4525005 original size:13 final size:14
Alignment explanation
Indices: 4524976--4525007 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4524966 CAAAATAAAG
4524976 AAAATTAAAATTAT
1 AAAATTAAAATTAT
4524990 AAAATTAAAA-TAT
1 AAAATTAAAATTAT
4525003 AAAAT
1 AAAAT
4525008 ATCAAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATTAAAATTAT
Found at i:4525499 original size:23 final size:23
Alignment explanation
Indices: 4525473--4525519 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
4525463 ACTTAAAGAA
4525473 TAATAATATAAATAAAATAAAAG
1 TAATAATATAAATAAAATAAAAG
*
4525496 TAATAATGTAAATAAAATAAAAG
1 TAATAATATAAATAAAATAAAAG
4525519 T
1 T
4525520 GCAATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (23 bp):
TAATAATATAAATAAAATAAAAG
Found at i:4526826 original size:3 final size:3
Alignment explanation
Indices: 4526818--4526879 Score: 88
Period size: 3 Copynumber: 20.3 Consensus size: 3
4526808 TTTGGGCCTG
*
4526818 TAA TAA TAA TAA TATT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
4526864 TAT TTA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
4526880 TTTAAAAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 50 0.96
4 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:4527199 original size:45 final size:45
Alignment explanation
Indices: 4527135--4527861 Score: 988
Period size: 45 Copynumber: 15.8 Consensus size: 45
4527125 TAAAATCTCA
* * * **
4527135 TTTGAAAACATCTTGCACTGGAGGTCTTATGGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
4527180 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
4527225 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* ** *
4527270 TTTGAAAATATTC-TGCACTGAAGATCTTACAGATGATCCGAAGGCTT
1 TTTGAAAACA-TCATGCACTGAAGGGCTTACAGATGACCCGAAGG--T
* * * * **
4527317 TTTGAAAACATCCTGCACTGAAGGTCTTACGGATGACCTGAATACTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCG-A-A-GGT
* * *
4527365 TTTGAAAACATCCTGCACTGATGGTCTTACAGATGACCCGAAGGCTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG---T
* * * * * *
4527413 TTTAAAAACATCCTGCACTTAAGGTCTTACAGATGACCTGGAGGTTTTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-----T
4527463 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG--T
* *
4527510 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
4527555 TTTGAAAATATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG--T
*
4527602 TTTGAAAACATCGTGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
4527647 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
4527692 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
4527737 TTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
4527782 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
4527827 TTTGAAAACATCATGAACTGAAGGGCTTACAGATG
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATG
4527862 TGGGAAATAG
Statistics
Matches: 625, Mismatches: 43, Indels: 28
0.90 0.06 0.04
Matches are distributed among these distances:
45 377 0.60
46 5 0.01
47 122 0.20
48 79 0.13
49 1 0.00
50 41 0.07
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
Found at i:4528678 original size:47 final size:46
Alignment explanation
Indices: 4528461--4529052 Score: 714
Period size: 45 Copynumber: 12.8 Consensus size: 46
4528451 TAAAATCTCA
* * * **
4528461 TTTGAAAATATCCTGCACTGGAGGTCTTATGGATGACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTT
* * *
4528506 TTTGAAAACATCCTGCATTGAAGGTCTTACAGATGACCTGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTT
* * *
4528551 TTTGAAAACATCCTGCACTTAAGGTCTTACAGAAGACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTT
* * * *
4528596 TTTGAAAATATTC-TGCACTAAAGATCTTACAGATGATCCGAAGGCTT
1 TTTGAAAACA-TCATGCACTGAAGGTCTTACAGATGACCCGAAGG-TT
* * * *
4528643 TTTAAAAACATCATGCACTGAAGGTCTTACGGATGACCTGAATGCTT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAA-GGTT
* *
4528690 TTCTGAAAACATCCTGCACTGAAGGTCTTACAGACGACCCCGAAGGCTTT
1 TT-TGAAAACATCATGCACTGAAGGTCTTACAGATGA-CCCGAAGG--TT
* * *
4528740 TTTGAAAACATCCTGCACTGAAGGTCTTACAAATGACCTGAAGGTTTTT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG---TT
* *
4528789 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACTCGAAGGTTT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG-TT
* *
4528836 TTTAAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTT
* *
4528881 TTTGAAAATATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG-TT
**
4528928 TTTGAAAACATCATGCACTGAAGGGATTACAGATGACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTT
*
4528973 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTT
4529018 TTTGAAAACATCATGCACTGAAAGG-CTTACAGATG
1 TTTGAAAACATCATGCACTG-AAGGTCTTACAGATG
4529053 TGGGAAATAG
Statistics
Matches: 487, Mismatches: 47, Indels: 26
0.87 0.08 0.05
Matches are distributed among these distances:
45 233 0.48
46 8 0.02
47 124 0.25
48 39 0.08
49 79 0.16
50 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (46 bp):
TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTT
Found at i:4528927 original size:92 final size:92
Alignment explanation
Indices: 4528461--4529052 Score: 737
Period size: 92 Copynumber: 6.4 Consensus size: 92
4528451 TAAAATCTCA
* * * ** * *
4528461 TTTGAAAATATCCTGCACTGGAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCCTGCATTG
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
* *
4528526 AAGGTCTTACAGATGACCTGAAGG--T
66 AAGGGCTTACAGATGACCCGAAGGTTT
* * * *
4528551 TTTGAAAACATCCTGCACTTAAGGTCTTACAGAAGACCCGAAGGTTTTGAAAATATTC-TGCACT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACA-TCATGCACT
* ** * *
4528615 AAAGATCTTACAGATGATCCGAAGGCTT
65 GAAGGGCTTACAGATGACCCGAAGGTTT
* * * * *
4528643 TTTAAAAACATCATGCACTGAAGGTCTTACGGATGACCTGAATGCTTTTCTGAAAACATCCTGCA
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAA-G-GTTT-TGAAAACATCATGCA
* *
4528708 CTGAAGGTCTTACAGACGACCCCGAAGGCTTT
63 CTGAAGGGCTTACAGATGA-CCCGAAGG-TTT
* * *
4528740 TTTGAAAACATCCTGCACTGAAGGTCTTACAAATGACCTGAAGGTTTTTTTTGAAAACATCATGC
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG----TTTTGAAAACATCATGC
*
4528805 ACTGAAGGGCTTACAGATGACTCGAAGGTTT
62 ACTGAAGGGCTTACAGATGACCCGAAGGTTT
* * *
4528836 TTTAAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAATATCATGCACTG
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
4528901 AAGGGCTTACAGATGACCCGAAGGTTT
66 AAGGGCTTACAGATGACCCGAAGGTTT
**
4528928 TTTGAAAACATCATGCACTGAAGGGATTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
4528993 AAGGGCTTACAGATGACCCGAAGG--T
66 AAGGGCTTACAGATGACCCGAAGGTTT
4529018 TTTGAAAACATCATGCACTGAAAGG-CTTACAGATG
1 TTTGAAAACATCATGCACTG-AAGGTCTTACAGATG
4529053 TGGGAAATAG
Statistics
Matches: 442, Mismatches: 46, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
90 104 0.24
91 6 0.01
92 168 0.38
93 1 0.00
94 5 0.01
95 27 0.06
96 50 0.11
97 47 0.11
98 31 0.07
99 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (92 bp):
TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
AAGGGCTTACAGATGACCCGAAGGTTT
Found at i:4538395 original size:46 final size:46
Alignment explanation
Indices: 4538328--4538415 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
4538318 AGGTATAAAT
4538328 CCTAACCTCATGATTTCTAGTTCCATGCTTTATTTAGAAAAATTAG
1 CCTAACCTCATGATTTCTAGTTCCATGCTTTATTTAGAAAAATTAG
* *
4538374 CCTAA-CTGCATGATTTCTAGTTCCATGTTTTGTTTAGAAAAA
1 CCTAACCT-CATGATTTCTAGTTCCATGCTTTATTTAGAAAAA
4538416 AATGAAATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 2 0.05
46 37 0.95
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (46 bp):
CCTAACCTCATGATTTCTAGTTCCATGCTTTATTTAGAAAAATTAG
Found at i:4539706 original size:21 final size:21
Alignment explanation
Indices: 4539682--4539724 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4539672 ATTAAAGGAG
*
4539682 TAATAATAAAAATAAATAAAA
1 TAATAATAAAAATAAAGAAAA
* *
4539703 TAATGATCAAAATAAAGAAAA
1 TAATAATAAAAATAAAGAAAA
4539724 T
1 T
4539725 TAAAATTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (21 bp):
TAATAATAAAAATAAAGAAAA
Found at i:4539749 original size:13 final size:14
Alignment explanation
Indices: 4539720--4539751 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4539710 CAAAATAAAG
4539720 AAAATTAAAATTAT
1 AAAATTAAAATTAT
4539734 AAAATTAAAA-TAT
1 AAAATTAAAATTAT
4539747 AAAAT
1 AAAAT
4539752 ATCAAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATTAAAATTAT
Found at i:4540242 original size:23 final size:23
Alignment explanation
Indices: 4540216--4540262 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
4540206 ACTTAAAGAA
4540216 TAATAATATAAATAAAATAAAAG
1 TAATAATATAAATAAAATAAAAG
*
4540239 TAATAATGTAAATAAAATAAAAG
1 TAATAATATAAATAAAATAAAAG
4540262 T
1 T
4540263 GCAATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (23 bp):
TAATAATATAAATAAAATAAAAG
Found at i:4541569 original size:3 final size:3
Alignment explanation
Indices: 4541561--4541616 Score: 85
Period size: 3 Copynumber: 18.3 Consensus size: 3
4541551 TTTGGGCCTG
* *
4541561 TAA TAA TAA TAA TATT TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4541607 TAA TAA TAA T
1 TAA TAA TAA T
4541617 TTTAAAATGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 46 0.96
4 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:4541935 original size:45 final size:45
Alignment explanation
Indices: 4541871--4542502 Score: 817
Period size: 45 Copynumber: 13.8 Consensus size: 45
4541861 TAAAATCTCA
* * **
4541871 TTTGAAAACATCCTGCACTGGAGGTCTTATGGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
*
4541916 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* *
4541961 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATAACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* *
4542006 TTTGAAAATATTC-TGCACTGAAGGTCTTACAGATGATCCGAAGGCTT
1 TTTGAAAACA-TCATGCACTGAAGGTCTTACAGATGACCCGAAGG--T
* * * *
4542053 TTTGAAAACATCCTGCACTGAAGGTCTTACGGATGACCTGAATGCTTT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAA-G--GT
*
4542101 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGTTTT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG---T
*
4542149 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG----T
* *
4542198 TTTGAAAACATCATGCACT---GG-ATTATAGATGACCCGAAGGTTT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG--T
*
4542241 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* * *
4542286 TTTGAAAATATCATGCACTGAAGGGCTTACAGATGACCTGAAGGTTT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG--T
* *
4542333 TTTGAAAACGTCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* *
4542378 TTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
* *
4542423 TTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
4542468 TTTGAAAACATCATGCACTGAAAGG-CTTACAGATG
1 TTTGAAAACATCATGCACTG-AAGGTCTTACAGATG
4542503 TGGGAAATAG
Statistics
Matches: 538, Mismatches: 31, Indels: 36
0.89 0.05 0.06
Matches are distributed among these distances:
43 22 0.04
45 299 0.56
46 12 0.02
47 96 0.18
48 87 0.16
49 22 0.04
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGT
Found at i:4542088 original size:137 final size:136
Alignment explanation
Indices: 4541871--4542502 Score: 814
Period size: 137 Copynumber: 4.6 Consensus size: 136
4541861 TAAAATCTCA
* * ** *
4541871 TTTGAAAACATCCTGCACTGGAGGTCTTATGGATGACCCGAAGG-TTTTGAAAACATCCTGCACT
1 TTTGAAAACATTCTGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACT
* *
4541935 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCCTGCACTGAAGGTCTTACAGATAACCC
66 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCC
4542000 GAAGGT
131 GAAGGT
* * *
4542006 TTTGAAAATATTCTGCACTGAAGGTCTTACAGATGATCCGAAGGCTTTTTGAAAACATCCTGCAC
1 TTTGAAAACATTCTGCACTGAAGGTCTTACAGATGACCCGAAGG-TTTTTGAAAACATCATGCAC
* * * *
4542071 TGAAGGTCTTACGGATGACCTGAATGCTTTTTTGAAAACATCCTGCACTGAAGGTCTTACAGATG
65 TGAAGGTCTTACAGATGACCCGAA-G--GTTTTGAAAACATCATGCACTGAAGGTCTTACAGATG
4542136 ACCCGAAGGTTTT
127 ACCCGAAGG---T
*
4542149 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTTTTTGAAAACATCATGC
1 TTTGAAAACATTCTGCACTGAAGGTCTTACAGATGACCCGAAGG---TTTTTGAAAACATCATGC
* * *
4542214 ACT---GG-ATTATAGATGACCCGAAGGTTTTTTGAAAACATCATGCACTGAAGGACTTACAGAT
63 ACTGAAGGTCTTACAGATGACCCGAAGG--TTTTGAAAACATCATGCACTGAAGGTCTTACAGAT
4542275 GACCCGAAGGT
126 GACCCGAAGGT
* * * *
4542286 TTTGAAAATA-TCATGCACTGAAGGGCTTACAGATGACCTGAAGGTTTTTTGAAAACGTCATGCA
1 TTTGAAAACATTC-TGCACTGAAGGTCTTACAGATGACCCGAAGG-TTTTTGAAAACATCATGCA
* * *
4542350 CTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAAATGAC
64 CTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGAC
4542415 CCGAAGGT
129 CCGAAGGT
* *
4542423 TTTGAAAACA-TCATGCACTAAAGGGCTTACAGATGACCCGAAGG-TTTTGAAAACATCATGCAC
1 TTTGAAAACATTC-TGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCAC
4542486 TGAAAGG-CTTACAGATG
65 TG-AAGGTCTTACAGATG
4542503 TGGGAAATAG
Statistics
Matches: 444, Mismatches: 35, Indels: 36
0.86 0.07 0.07
Matches are distributed among these distances:
135 89 0.20
136 5 0.01
137 165 0.37
138 3 0.01
139 17 0.04
140 88 0.20
141 13 0.03
142 2 0.00
143 42 0.09
145 20 0.05
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (136 bp):
TTTGAAAACATTCTGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACT
GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCC
GAAGGT
Found at i:4542274 original size:92 final size:90
Alignment explanation
Indices: 4541871--4542486 Score: 769
Period size: 92 Copynumber: 6.7 Consensus size: 90
4541861 TAAAATCTCA
* ** *
4541871 TTTGAAAACATCCTGCACTGGAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCCTGCACTG
1 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT-
4541936 AAGGTCTTACAGATGACCCGAAGG--T
65 -AGGTCTTACAGATGACCCGAAGGTTT
* *
4541961 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATAACCCGAAGGTTTTGAAAATATTC-TGCACT
1 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACA-TCATGCACT
* *
4542025 GAAGGTCTTACAGATGATCCGAAGGCTT
65 --AGGTCTTACAGATGACCCGAAGGTTT
* * * *
4542053 TTTGAAAACATCCTGCACTGAAGGTCTTACGGATGACCTGAATGCTTTTTTGAAAACATCCTGCA
1 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAA-G--GTTTTGAAAACATCATGCA
4542118 CTGAAGGTCTTACAGATGACCCGAAGGTTTT
63 CT--AGGTCTTACAGATGACCCGAAGG-TTT
4542149 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTTTTTGAAAACATCATGC
1 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGG----TTTTGAAAACATCATGC
* *
4542214 ACT-GG-ATTATAGATGACCCGAAGGTTT
62 ACTAGGTCTTACAGATGACCCGAAGGTTT
* * *
4542241 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAATATCATGCACTG
1 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT-
* *
4542306 AAGGGCTTACAGATGACCTGAAGGTTT
65 -AGGTCTTACAGATGACCCGAAGGTTT
* * *
4542333 TTTGAAAACGTCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
1 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT-
* *
4542398 AAGGGCTTACAAATGACCCGAAGG--T
65 -AGGTCTTACAGATGACCCGAAGGTTT
* * *
4542423 TTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
1 TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
4542487 GAAAGGCTTA
Statistics
Matches: 478, Mismatches: 32, Indels: 32
0.88 0.06 0.06
Matches are distributed among these distances:
88 19 0.04
90 143 0.30
91 4 0.01
92 188 0.39
93 18 0.04
94 4 0.01
95 41 0.09
96 42 0.09
97 19 0.04
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (90 bp):
TTTGAAAACATCCTGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTA
GGTCTTACAGATGACCCGAAGGTTT
Found at i:4543198 original size:22 final size:22
Alignment explanation
Indices: 4543173--4543251 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
4543163 AATAAGGCTT
* *
4543173 TCATCTTTGAAAAGAGAATCTA
1 TCATATTTGAAGAGAGAATCTA
* *
4543195 TCATCTTTGAAGAGATAATCTA
1 TCATATTTGAAGAGAGAATCTA
*
4543217 CCATATTTGAAGAGAGAATCTA
1 TCATATTTGAAGAGAGAATCTA
4543239 TCATATTTGAAGA
1 TCATATTTGAAGA
4543252 ATGTAGATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (22 bp):
TCATATTTGAAGAGAGAATCTA
Found at i:4551813 original size:46 final size:46
Alignment explanation
Indices: 4551746--4551833 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
4551736 AGGTATAAAT
4551746 CCTAACCTCATGATTTCTAGTTCCATGCTTTATTTAGAAAAATTAA
1 CCTAACCTCATGATTTCTAGTTCCATGCTTTATTTAGAAAAATTAA
* *
4551792 CCTAA-CTGCATGATTTCTAGTTCCATGTTTTGTTTAGAAAAA
1 CCTAACCT-CATGATTTCTAGTTCCATGCTTTATTTAGAAAAA
4551834 AATGAAATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 2 0.05
46 37 0.95
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (46 bp):
CCTAACCTCATGATTTCTAGTTCCATGCTTTATTTAGAAAAATTAA
Found at i:4553832 original size:15 final size:16
Alignment explanation
Indices: 4553812--4553853 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4553802 GTATTCCATG
4553812 AAAACTTTTGACA-TT
1 AAAACTTTTGACACTT
*
4553827 AAAAC-TTTAACACTT
1 AAAACTTTTGACACTT
4553842 AAAACTTATTGA
1 AAAACTT-TTGA
4553854 ACGTCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.27
15 12 0.55
16 1 0.05
17 3 0.14
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (16 bp):
AAAACTTTTGACACTT
Found at i:4556099 original size:22 final size:23
Alignment explanation
Indices: 4556073--4556128 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 23
4556063 TGTTCTTTCT
*
4556073 TTTACTAA-GTTGATTAATAAAC
1 TTTACAAATGTTGATTAATAAAC
4556095 TTTACAAATTCGTTGATTAATAAAC
1 TTTACAAA-T-GTTGATTAATAAAC
4556120 TTTACAAAT
1 TTTACAAAT
4556129 TCCCTAGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 7 0.23
24 1 0.03
25 22 0.73
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (23 bp):
TTTACAAATGTTGATTAATAAAC
Found at i:4556110 original size:25 final size:25
Alignment explanation
Indices: 4556081--4556130 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
4556071 CTTTTACTAA
4556081 GTTGATTAATAAACTTTACAAATTC
1 GTTGATTAATAAACTTTACAAATTC
4556106 GTTGATTAATAAACTTTACAAATTC
1 GTTGATTAATAAACTTTACAAATTC
4556131 CCTAGTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (25 bp):
GTTGATTAATAAACTTTACAAATTC
Found at i:4561702 original size:36 final size:32
Alignment explanation
Indices: 4561613--4561689 Score: 122
Period size: 32 Copynumber: 2.4 Consensus size: 32
4561603 GGAATCGAAC
*
4561613 TCAAAGG-TTTTTTGTTTCAAGAGAAACATTT
1 TCAAAGGTTTTTTTGTTTCAAGAAAAACATTT
4561644 TCAAAGGTTTTTTTGTTTCAAGAAAAACGA-TT
1 TCAAAGGTTTTTTTGTTTCAAGAAAAAC-ATTT
4561676 TCAAAGGTTTTTTT
1 TCAAAGGTTTTTTT
4561690 TTGTGTTTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
31 7 0.16
32 35 0.81
33 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (32 bp):
TCAAAGGTTTTTTTGTTTCAAGAAAAACATTT
Found at i:4561752 original size:73 final size:67
Alignment explanation
Indices: 4561692--4561866 Score: 176
Period size: 67 Copynumber: 2.5 Consensus size: 67
4561682 GTTTTTTTTT
* * *
4561692 GTGTTTCAAGAGAAATTGTCTCAAGGGAGGCAAAATTTTGTTTCAAGAGAAAC-ATATTCAAAGA
1 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGAGAAACGAT-TTCAAAGA
4561756 TTG
65 TTG
* * * *
4561759 GTGTTTCAAGAGAAACTGTCTCAAGAGAGATAAAACTTTGTTTCAAGGGAAACTG-TCTCAAGAG
1 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGAGAAAC-GATTTC-A-A-
4561823 AGACAAATT-
62 AG----ATTG
*
4561832 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
4561867 ATTAGTTCCA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
67 49 0.54
68 2 0.02
69 1 0.01
70 2 0.02
73 33 0.37
74 3 0.03
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.27
Consensus pattern (67 bp):
GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAGAGAAACGATTTCAAAGAT
TG
Found at i:4561847 original size:36 final size:36
Alignment explanation
Indices: 4561760--4562212 Score: 451
Period size: 36 Copynumber: 12.8 Consensus size: 36
4561750 CAAAGATTGG
*
4561760 TGTTTCAAGAGAAACTGTCTCAAGAGAGATAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
4561797 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
4561833 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAATT
* * * *
4561870 AGTTCCAA-AAAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
4561905 TATTTCAAG-GAAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
* * *
4561934 TGTTTCAAGGGAAATTGTCTCAAGAGAGATAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
4561970 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
4562006 TGTTTCAAGAGAAACTGTCTCAAGAGGGACAAAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGA--G----AGACAAAATT
* * *
4562048 TGTTTCAAGTGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
4562084 TGTTTCAAG-GAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
*
4562112 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
4562148 TGTTTTAATG-GAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAA-GAGAAACTGTCTCAAGAGAGACAAAATT
*
4562184 TGTTTCAAGAGAAACTTTCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGA
4562213 TAAAGACAAA
Statistics
Matches: 349, Mismatches: 36, Indels: 63
0.78 0.08 0.14
Matches are distributed among these distances:
28 16 0.05
29 23 0.07
30 3 0.01
31 2 0.01
32 6 0.02
33 2 0.01
34 1 0.00
35 20 0.06
36 196 0.56
37 45 0.13
38 1 0.00
40 1 0.00
42 33 0.09
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:4561904 original size:73 final size:72
Alignment explanation
Indices: 4561760--4561917 Score: 212
Period size: 73 Copynumber: 2.2 Consensus size: 72
4561750 CAAAGATTGG
* * * * **
4561760 TGTTTCAAGAGAAACTGTCTCAAGAGAGATAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTAGTTCCAAGAAAAACTGTCTCAAGAGAG
4561825 ACAAATTT
66 ACAAA-TT
*
4561833 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTAGTTCCAA-AAAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTAGTTCCAAGAAAAACTGTCTCAAGAGAG
4561897 ACAAAATT
66 AC-AAATT
*
4561905 TATTTCAAG-GAAA
1 TGTTTCAAGAGAAA
4561918 ACATATTCAA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
71 4 0.05
72 28 0.37
73 44 0.58
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (72 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTAGTTCCAAGAAAAACTGTCTCAAGAGAG
ACAAATT
Found at i:4561977 original size:21 final size:20
Alignment explanation
Indices: 4561948--4562017 Score: 51
Period size: 21 Copynumber: 3.6 Consensus size: 20
4561938 TCAAGGGAAA
4561948 TTGTCTCAAGAGAGATAAAAT
1 TTGTCTCAAGAGAGA-AAAAT
*
4561969 TTGTTTCAAG-G-G--AAA-
1 TTGTCTCAAGAGAGAAAAAT
* *
4561984 CTATCTCAAGAGAGACAAAAT
1 TTGTCTCAAGAGAGA-AAAAT
*
4562005 TTGTTTCAAGAGA
1 TTGTCTCAAGAGA
4562018 AACTGTCTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
15 7 0.19
16 4 0.11
17 1 0.03
19 1 0.03
20 4 0.11
21 19 0.53
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (20 bp):
TTGTCTCAAGAGAGAAAAAT
Found at i:4562004 original size:101 final size:102
Alignment explanation
Indices: 4561829--4562019 Score: 269
Period size: 101 Copynumber: 1.9 Consensus size: 102
4561819 AGAGAGACAA
* *
4561829 ATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTAGTTCCAAAAAAACTGTCTCAAGG
1 ATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTAGTTCCAAAAAAACTATCTCAAGA
4561894 GAGACAAAATTTATTTCAAG-GAAAACATATTCAAAG
66 GAGACAAAATTTATTTCAAGAGAAAACATATTCAAAG
* * * * * **
4561930 ATTTTGTTTCAAGGGAAATTGTCTCAAGAGAGA-TAAAATTTGTTTCAAGGGAAACTATCTCAAG
1 ATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTAGTTCCAA-AAAAACTATCTCAAG
*
4561994 AGAGACAAAATTTGTTTCAAGAGAAA
65 AGAGACAAAATTTATTTCAAGAGAAA
4562020 CTGTCTCAAG
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
100 12 0.15
101 62 0.79
102 4 0.05
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (102 bp):
ATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAATTAGTTCCAAAAAAACTATCTCAAGA
GAGACAAAATTTATTTCAAGAGAAAACATATTCAAAG
Found at i:4562163 original size:178 final size:178
Alignment explanation
Indices: 4561693--4562231 Score: 811
Period size: 178 Copynumber: 3.0 Consensus size: 178
4561683 TTTTTTTTTG
* *
4561693 TGTTTCAAGAGAAATTGTCTCAAGGGAGGCAAAATTTTGTTTCAAGAGAAACATATTCAAAGATT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAG-GAAACATATTCAAAGATT
* *
4561758 GGTGTTTCAAGAGAAACTGTCTCAAGAGAGATAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAG
64 -TTGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAG
*
4561823 AGACAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC----A-AAAATT
127 AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAGACAAAATT
* * * *
4561870 AGTTCCAA-AAAAACTGTCTCAAGGGAGACAAAATTTATTTCAAGGAAAACATATTCAAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGG-AAACATATTCAAAGATTT
* *
4561934 TGTTTCAAGGGAAATTGTCTCAAGAGAGATAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
65 TGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
*
4561999 CAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGGGACAAAGACAAAATT
130 CAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAGACAAAATT
* *
4562048 TGTTTCAAGTGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAGGAAACATATTCAAAGATTTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAACATATTCAAAGATTTT
* * *
4562113 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAATGGAAACTGTCTCAAGAGAGAC
66 GTTTCAAGGGAAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
* *
4562178 AAAATTTGTTTCAAGAGAAACTTTCTCAAGAGAGATAAAGACAAAATTT
131 AAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAGACAAAA-TT
4562227 TGTTT
1 TGTTT
4562232 TGAGTAAATT
Statistics
Matches: 328, Mismatches: 26, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
173 65 0.20
174 33 0.10
175 27 0.08
176 22 0.07
177 7 0.02
178 134 0.41
179 40 0.12
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (178 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAACATATTCAAAGATTTT
GTTTCAAGGGAAACTGTCTCAAGAGAGATAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
AAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAGACAAAATT
Done.