Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 343 of 344
Found at i:111431579 original size:103 final size:103
Alignment explanation
Indices: 111431395--111431720 Score: 510
Period size: 103 Copynumber: 3.2 Consensus size: 103
111431385 CCGCGCAACA
* * **
111431395 ATTTGAGCACCTTCGAAAAGGTTTGAACTTTATACGAACATTTATATTTTAAACATTTTAGTGTT
1 ATTTGAGCACCTTCGAAAAGGTTTGACCTTTATACGAGCATTTATATTTTAAACATTTTAGCATT
* * * * *
111431460 CACTTAATTTTATATTATGAAGCTCTTG-AAAATTCATT
66 CACTTAATTTTGTATTATGAGGCGCTTGTAAAA-CCTTT
111431498 ATTTGAGCACCTTCGAAAAGGTTTGACCTTTATACGAGCATTTATATTTTAAACATTTTAGCATT
1 ATTTGAGCACCTTCGAAAAGGTTTGACCTTTATACGAGCATTTATATTTTAAACATTTTAGCATT
111431563 CACTTAATTTTGTATTATGAGGCGCTTGTAAAACCTTT
66 CACTTAATTTTGTATTATGAGGCGCTTGTAAAACCTTT
* * * *
111431601 ATTTGAACACCTTCGAAAAGGTTTGACCTTTATACAAGTATTTATATTTTAAACATTTTAACATT
1 ATTTGAGCACCTTCGAAAAGGTTTGACCTTTATACGAGCATTTATATTTTAAACATTTTAGCATT
*
111431666 TACTTAATTTTGTATTATGAGGCGCTTGTAAAACCTTT
66 CACTTAATTTTGTATTATGAGGCGCTTGTAAAACCTTT
111431704 ATTTGAGCACCTTCGAA
1 ATTTGAGCACCTTCGAA
111431721 TTTGGCCTTC
Statistics
Matches: 207, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
103 203 0.98
104 4 0.02
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.41
Consensus pattern (103 bp):
ATTTGAGCACCTTCGAAAAGGTTTGACCTTTATACGAGCATTTATATTTTAAACATTTTAGCATT
CACTTAATTTTGTATTATGAGGCGCTTGTAAAACCTTT
Found at i:111438444 original size:30 final size:30
Alignment explanation
Indices: 111438408--111438581 Score: 237
Period size: 30 Copynumber: 5.8 Consensus size: 30
111438398 ACTTTTCTCA
*
111438408 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
111438438 ACTAGCCACACCTT-TCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* *
111438467 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
111438497 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
111438527 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
111438557 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
111438582 CTTGTACCTA
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
29 31 0.24
30 99 0.76
ACGTcount: A:0.27, C:0.49, G:0.04, T:0.20
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:111439144 original size:25 final size:25
Alignment explanation
Indices: 111439055--111439254 Score: 105
Period size: 25 Copynumber: 8.2 Consensus size: 25
111439045 ATTATCTTTC
* * *
111439055 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATGTATATATAT
* *
111439079 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATGTATATATAT
* * *
111439100 TAAATTCTATATTACGTATATATA-
1 TTAATACTATATTATGTATATATAT
* *
111439124 TT-ATACTATTTTATGTATATATCT
1 TTAATACTATATTATGTATATATAT
* *
111439148 TTAATATTATATTATTTATATATATTTT
1 TTAATACTATATTATGTATATATA---T
** * *
111439176 TTACATGTTATCTTATGTATATAT-C
1 TTA-ATACTATATTATGTATATATAT
* *
111439201 TT-A-ACTATATTATGTATGTATTT
1 TTAATACTATATTATGTATATATAT
* * *
111439224 TTAACACTATATTATGTACATATTT
1 TTAATACTATATTATGTATATATAT
111439249 TTAATA
1 TTAATA
111439255 TTATCACGTA
Statistics
Matches: 135, Mismatches: 28, Indels: 25
0.72 0.15 0.13
Matches are distributed among these distances:
21 2 0.01
22 29 0.21
23 34 0.25
24 7 0.05
25 42 0.31
28 4 0.03
29 17 0.13
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (25 bp):
TTAATACTATATTATGTATATATAT
Found at i:111439169 original size:27 final size:29
Alignment explanation
Indices: 111439121--111439199 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
111439111 TTACGTATAT
* *
111439121 ATATTATACTATTTTATGTATATATCTTTA-
1 ATATTATATTA-TTTATATATAT-TCTTTAC
*
111439151 ATATTATATTATTTATATATATTTTTTAC
1 ATATTATATTATTTATATATATTCTTTAC
* * *
111439180 ATGTTATCTTATGTATATAT
1 ATATTATATTATTTATATAT
111439200 CTTAACTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 5 0.12
29 27 0.64
30 10 0.24
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (29 bp):
ATATTATATTATTTATATATATTCTTTAC
Found at i:111439213 original size:27 final size:26
Alignment explanation
Indices: 111439133--111439221 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
111439123 ATTATACTAT
*
111439133 TTTATGTATATATCTTTAATATTATATTA
1 TTTATGTATATATC-TT-A-ACTATATTA
* * * *
111439162 TTTATATATAT-TTTTTAC-ATGTTA
1 TTTATGTATATATCTTAACTATATTA
111439186 TCTTATGTATATATCTTAACTATATTA
1 T-TTATGTATATATCTTAACTATATTA
*
111439213 TGTATGTAT
1 TTTATGTAT
111439222 TTTTAACACT
Statistics
Matches: 47, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
24 6 0.13
25 10 0.21
26 12 0.26
27 8 0.17
28 1 0.02
29 10 0.21
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (26 bp):
TTTATGTATATATCTTAACTATATTA
Found at i:111439435 original size:16 final size:15
Alignment explanation
Indices: 111439411--111439458 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
111439401 TAATTATTAT
*
111439411 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
111439427 TATTTTAATATTTTA
1 TATTTTAATATTTTA
111439442 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
111439458 T
1 T
111439459 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:111439446 original size:7 final size:8
Alignment explanation
Indices: 111439411--111439462 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
111439401 TAATTATTAT
*
111439411 TATTCTAA
1 TATTTTAA
*
111439419 TATTTTGA
1 TATTTTAA
111439427 TATTTTAA
1 TATTTTAA
111439435 TATTTT-A
1 TATTTTAA
111439442 TATTTTATA
1 TATTTTA-A
*
111439451 TATTTTAT
1 TATTTTAA
111439459 TATT
1 TATT
111439463 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:111446546 original size:69 final size:68
Alignment explanation
Indices: 111446397--111446570 Score: 181
Period size: 69 Copynumber: 2.5 Consensus size: 68
111446387 CTTTCCAAGG
* **
111446397 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATAAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTT
111446461 TTTAA
65 TTT-A
* ** * *
111446466 AAAATAAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATAAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTT-T
111446531 GTTT-
65 -TTTA
* ** * *
111446535 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATAAACTCATATTGCGAGAAGTGAGTTGAGCCT
111446571 TTTAATTTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
69 82 0.93
70 3 0.03
71 3 0.03
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (68 bp):
AAAATAAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTT
TTA
Found at i:111446702 original size:75 final size:74
Alignment explanation
Indices: 111446588--111447280 Score: 395
Period size: 72 Copynumber: 9.5 Consensus size: 74
111446578 TTTGTTTTTC
* ** *
111446588 AAAATCAACTCATATTGCTAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
111446653 GTTGTTAAAA
66 GTT-TTAAAA
111446663 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
111446728 GTTTT--CA
66 GTTTTAAAA
* * * * *
111446735 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
111446800 GTTTTTAAAAA
66 G-TTTT-AAAA
* ** * *** * *** * **
111446811 AAAAT-GACTCATATTGCGAGAGGTGAGTTAAGCCT-TTTA-A--TTTTTGT-TTTTCAAAATC-
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
**
111446869 -----AACT
66 GTTTTAAAA
* * ** * * ** * * ** * * * **
111446873 CATAT-TGCT-AGA--G-GTGAGTTGAGCCTCAG-GACACG-CTGA-GGTAATTTCAATTTC--T
1 AAAATCAACTCATATTGCGAGAAATGAG-TTGAGCCTCAGGAC--ACGCTGAGGT-AATTTCAAT
* ***
111446928 GTTGT-TAAAAAAA
62 -TTCTGTTTTAAAA
*
111446941 AT---CAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
111447003 GTTTT--CA
66 GTTTTAAAA
* * * * *
111447010 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
111447075 GTTTTCAAAAAA
66 GTTTT---AAAA
* * * * *
111447087 AAAATTTCAACTTATATTGCGAGAAATGAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAATTT
1 AAAA--TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
111447152 CTGTTTTCAAAAA
64 CTGTTTT--AAAA
* ** * *
111447165 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
111447229 TCTGTTTTTAAAA
63 TCTG-TTTTAAAA
** *
111447242 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
111447281 ATTACACACT
Statistics
Matches: 484, Mismatches: 90, Indels: 85
0.73 0.14 0.13
Matches are distributed among these distances:
58 8 0.02
59 4 0.01
61 3 0.01
62 10 0.02
63 1 0.00
64 4 0.01
66 2 0.00
67 2 0.00
68 2 0.00
69 13 0.03
70 26 0.05
71 7 0.01
72 123 0.25
73 5 0.01
74 3 0.01
75 90 0.19
76 35 0.07
77 43 0.09
78 34 0.07
79 69 0.14
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.33
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAA
Found at i:111446860 original size:56 final size:54
Alignment explanation
Indices: 111446788--111446898 Score: 134
Period size: 53 Copynumber: 2.0 Consensus size: 54
111446778 CGTTGAGGTA
111446788 TTTTCAATTTCTGTTTTTAAAAAAAAATGACTCATATTGCGAGAGGTGAGTTAAGCC
1 TTTTCAATTTCTGTTTTT-AAAAAAAA--ACTCATATTGCGAGAGGTGAGTTAAGCC
* * ** * *
111446845 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTGTTTTTAAAAAAAAACTCATATTGCGAGAGGTGAGTTAAGCC
111446898 T
1 T
111446899 CAGGACACGC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
53 27 0.56
55 5 0.10
56 12 0.25
57 4 0.08
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (54 bp):
TTTTCAATTTCTGTTTTTAAAAAAAAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:111446879 original size:275 final size:275
Alignment explanation
Indices: 111446397--111447089 Score: 1125
Period size: 275 Copynumber: 2.6 Consensus size: 275
111446387 CTTTCCAAGG
* * * * *
111446397 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAA-TT-T
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * * * * ** * ** *
111446460 -TTTTAAAAAATAAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT
66 GTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
* * *
111446524 AGTTTATG-TTTT-----AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGT
131 AATTTCTGTTTTTAAAAAAAAATGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGT
111446583 TTTTCAAAATCAACTCATATTGCTAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
196 TTTTCAAAATCAACTCATATTGCTAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
111446648 TTTCTGTTGTTAAAA
261 TTTCTGTTGTTAAAA
111446663 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
111446728 GTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
66 GTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
111446793 AATTTCTGTTTTTAAAAAAAAATGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGT
131 AATTTCTGTTTTTAAAAAAAAATGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGT
*
111446858 TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
196 TTTTCAAAATCAACTCATATTGCTAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
111446923 TTTCTGTTGTTAAAA
261 TTTCTGTTGTTAAAA
111446938 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
111447003 GTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
66 GTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
111447068 AATTTCTGTTTTCAAAAAAAAA
131 AATTTCTGTTTTTAAAAAAAAA
111447090 ATTTCAACTT
Statistics
Matches: 396, Mismatches: 22, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
266 55 0.14
267 2 0.01
268 1 0.00
269 58 0.15
270 4 0.01
275 276 0.70
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (275 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
AATTTCTGTTTTTAAAAAAAAATGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGT
TTTTCAAAATCAACTCATATTGCTAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
TTTCTGTTGTTAAAA
Found at i:111446913 original size:128 final size:128
Alignment explanation
Indices: 111446721--111447125 Score: 384
Period size: 128 Copynumber: 3.0 Consensus size: 128
111446711 AGGTAATTTC
* *
111446721 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
* * * **
111446786 TATTTTCAATTTCTGTTTTTAAAAAAAAAT-GACTCATATTGCGAGAGGTGAGTTAAGCCTTTT
66 TAATTTCAATTTCTGTTGTT-AAAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTTTT
* * ** *
111446849 AATTTTTGTTTTTCAAAA-TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
111446913 GTAATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG
65 GTAATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTT-A-----A-G
**
111446978 ACACGCTGAGGT
123 ---C-CT--TTT
*
111446990 AATTTCAATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 AA-TT-----TCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
* * *
111447055 TTGAGGTATTTTCAATTTCTGTT-TTCAAAAAAAAAATTTCAACTTATATTGCGAGAAATGAGTT
60 CTGAGGTAATTTCAATTTCTGTTGTT---AAAAAAAA--TCAACTCATATTGCGAGAAATGAGTT
*
111447119 GAGCCTT
120 AAGCCTT
111447126 AAGACACGTT
Statistics
Matches: 225, Mismatches: 25, Indels: 44
0.77 0.09 0.15
Matches are distributed among these distances:
127 9 0.04
128 87 0.39
129 10 0.04
134 1 0.00
135 1 0.00
138 1 0.00
139 2 0.01
140 2 0.01
141 4 0.02
142 2 0.01
144 1 0.00
145 1 0.00
146 11 0.05
147 60 0.27
149 8 0.04
151 25 0.11
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (128 bp):
AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
TAATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTTTT
Found at i:111447120 original size:79 final size:75
Alignment explanation
Indices: 111446863--111447280 Score: 531
Period size: 72 Copynumber: 5.5 Consensus size: 75
111446853 TTTGTTTTTC
* ** *
111446863 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
111446928 GTTGTT-AAAA
66 GTT-TTCAAAA
*
111446938 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
111447003 GTTTTC---A
66 GTTTTCAAAA
* * * *
111447010 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
111447075 GTTTTCAAAAAA
66 GTTTTC--AAAA
* * * *
111447087 AAAATTTCAACTTATATTGCGAGAAATGAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAATTT
1 AAAA--TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
111447152 CTGTTTTCAAAAA
64 CTGTTTTC-AAAA
* ** *
111447165 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
*
111447229 TCTGTTTTTAAAA
63 TCTGTTTTCAAAA
** *
111447242 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
111447281 ATTACACACT
Statistics
Matches: 312, Mismatches: 19, Indels: 21
0.89 0.05 0.06
Matches are distributed among these distances:
72 67 0.21
74 2 0.01
75 66 0.21
76 30 0.10
77 43 0.14
78 38 0.12
79 66 0.21
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (75 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTCAAAA
Found at i:111447154 original size:151 final size:145
Alignment explanation
Indices: 111446845--111447275 Score: 551
Period size: 147 Copynumber: 2.9 Consensus size: 145
111446835 GAGTTAAGCC
* * *
111446845 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTCTG-TTTTCAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
111446909 TGAGGTAATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
65 TGAGGTATTTTCAATTTCTGTT-TTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
*
111446974 CAGGACACGCTGAGGTA
129 CAAGACACGCTGAGGTA
* ** * *
111446991 ATTTCAATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTTTCAATTTCTGTTTTCAAAA-TCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
111447056 TGAGGTATTTTCAATTTCTGTTTTCAAAAAAAAAATTTCAACTTATATTGCGAGAAATGAGTTGA
65 TGAGGTATTTTCAATTTCTGTTTT---AAAAAAAA--TCAACTCATATTGCGAGAAATGAGTTGA
* *
111447121 GCCTTAAGACACGTTGAGGTA
125 GCCTCAAGACACGCTGAGGTA
111447142 TTTTCAATTTCTGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTT
1 TTTTCAATTTCTGTTTTC-----AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGG--
* **
111447206 CACATGCTGAGGTATTTTCAATTTCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
59 -ACACGCTGAGGTATTTTCAATTTCTG-TTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGT
111447271 TGAGC
122 TGAGC
111447276 TTCAGATTAC
Statistics
Matches: 247, Mismatches: 22, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
146 14 0.06
147 64 0.26
149 8 0.03
151 62 0.25
153 27 0.11
154 1 0.00
155 39 0.16
156 4 0.02
157 24 0.10
158 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (145 bp):
TTTTCAATTTCTGTTTTCAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATTTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
AGACACGCTGAGGTA
Found at i:111447452 original size:75 final size:75
Alignment explanation
Indices: 111447303--111447489 Score: 272
Period size: 75 Copynumber: 2.5 Consensus size: 75
111447293 GGTATTTTTT
* * *
111447303 TCAATTCATATTGCGAGAGGTGAATTGAGCCTCAGG-ACACGCTGAGCTATTTTCAATTTCTGCT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACACGCTGAGCTATTTTCAATTTCTGCT
111447367 TTTCAAAAAAA
66 TTTC-AAAAAA
*
111447378 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGC-GTTTTCAATTTCTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-ACACGCTGA-GCTATTTTCAATTTCTG
111447442 CTTTTC-AAAAA
64 CTTTTCAAAAAA
* *
111447453 TCAACTCATATTGCGAGATGTGAGTTGAGCCTTGGGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
111447490 TTACATGTCG
Statistics
Matches: 103, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
75 73 0.71
77 28 0.27
78 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (75 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACACGCTGAGCTATTTTCAATTTCTGCT
TTTCAAAAAA
Found at i:111449448 original size:23 final size:23
Alignment explanation
Indices: 111449422--111449519 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
111449412 ATAAGTGCCA
111449422 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
111449445 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
111449468 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
111449490 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
111449513 CACTGAT
1 CACTGAT
111449520 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:111449487 original size:45 final size:45
Alignment explanation
Indices: 111449429--111449517 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
111449419 CCACACTGAT
* *
111449429 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
111449474 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
111449518 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:111449763 original size:78 final size:78
Alignment explanation
Indices: 111449674--111449818 Score: 290
Period size: 78 Copynumber: 1.9 Consensus size: 78
111449664 CTAAGTTCAA
111449674 CCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAACAACTT
1 CCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAACAACTT
111449739 TCATGTTCAACCG
66 TCATGTTCAACCG
111449752 CCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAACAACTT
1 CCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAACAACTT
111449817 TC
66 TC
111449819 CTTCCACATT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (78 bp):
CCGGGAATTTACACTTAACACTTTATTTTCAACACTTTATCACTTGAATAATTCATGAACAACTT
TCATGTTCAACCG
Found at i:111450955 original size:30 final size:30
Alignment explanation
Indices: 111450921--111450984 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 30
111450911 GGCTATCACA
*
111450921 ACCAACTCCACTAGCCACACCTT-CTCCACC
1 ACCAAATCCACTAGCCACA-CTTGCTCCACC
111450951 ACCAAATCCACTAGCCACACTTGCTCCACC
1 ACCAAATCCACTAGCCACACTTGCTCCACC
111450981 ACCA
1 ACCA
111450985 CTTGTACCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 3 0.09
30 29 0.91
ACGTcount: A:0.30, C:0.50, G:0.05, T:0.16
Consensus pattern (30 bp):
ACCAAATCCACTAGCCACACTTGCTCCACC
Found at i:111451513 original size:23 final size:23
Alignment explanation
Indices: 111451476--111451603 Score: 77
Period size: 23 Copynumber: 5.5 Consensus size: 23
111451466 CTTTTTTTGT
111451476 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
111451499 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
111451521 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* * *
111451544 TATTACATATATATATT-ATACTA
1 TATTATATATAT-TCTTAATATTA
* *
111451567 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
111451592 TATTATTTATAT
1 TATTATATATAT
111451604 ATATATATTT
Statistics
Matches: 80, Mismatches: 16, Indels: 16
0.71 0.14 0.14
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 36 0.45
24 8 0.10
25 18 0.22
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:111451578 original size:25 final size:26
Alignment explanation
Indices: 111451550--111451690 Score: 80
Period size: 25 Copynumber: 5.6 Consensus size: 26
111451540 TCTATATTAC
*
111451550 ATATATATATT-ATACTATTTTATGT
1 ATATATATATTAATACTATATTATGT
* * *
111451575 ATATATCT-TTAATATTATATTATTT
1 ATATATATATTAATACTATATTATGT
* * *
111451600 ATATATATA-TATTTAC-ATGTTATCTT
1 ATATATATATTA-ATACTATATTAT-GT
* *
111451626 ATGTATATATCTTA-ACTATATTATGT
1 ATATATATAT-TAATACTATATTATGT
* * *
111451652 ATGTAT-TTTTAACACTATATTATGT
1 ATATATATATTAATACTATATTATGT
* *
111451677 ACATAT-TTTTAATA
1 ATATATATATTAATA
111451691 TTATCACATA
Statistics
Matches: 90, Mismatches: 18, Indels: 16
0.73 0.15 0.13
Matches are distributed among these distances:
24 4 0.04
25 58 0.64
26 21 0.23
27 6 0.07
28 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (26 bp):
ATATATATATTAATACTATATTATGT
Found at i:111451635 original size:30 final size:29
Alignment explanation
Indices: 111451556--111451635 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 29
111451546 TTACATATAT
* * * *
111451556 ATATTATACTATTTTATGTATATATCTTTA
1 ATATTATATTA-TGTATATATATATATTTA
*
111451586 ATATTATATTATTTATATATATATATTTA
1 ATATTATATTATGTATATATATATATTTA
* *
111451615 CATGTTATCTTATGTATATAT
1 -ATATTATATTATGTATATAT
111451636 CTTAACTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 16 0.37
30 27 0.63
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (29 bp):
ATATTATATTATGTATATATATATATTTA
Found at i:111451868 original size:16 final size:15
Alignment explanation
Indices: 111451844--111451891 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
111451834 TAATTATTAT
*
111451844 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
111451860 TATTTTAATATTTTA
1 TATTTTAATATTTTA
111451875 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
111451891 T
1 T
111451892 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:111451879 original size:7 final size:8
Alignment explanation
Indices: 111451844--111451895 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
111451834 TAATTATTAT
*
111451844 TATTCTAA
1 TATTTTAA
*
111451852 TATTTTGA
1 TATTTTAA
111451860 TATTTTAA
1 TATTTTAA
111451868 TATTTT-A
1 TATTTTAA
111451875 TATTTTATA
1 TATTTTA-A
*
111451884 TATTTTAT
1 TATTTTAA
111451892 TATT
1 TATT
111451896 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:111455494 original size:129 final size:129
Alignment explanation
Indices: 111455235--111455474 Score: 410
Period size: 129 Copynumber: 1.9 Consensus size: 129
111455225 AATATTGATC
*
111455235 ATTTGAAGATTCAAATAGAATGTTTTGAAGCTTGGATACTAATTTAAAACCTAAGTCATAGTTCA
1 ATTTGAAGATTCAAATAAAATGTTTTGAAGCTTGGATACTAATTTAAAACCTAAGTCATAGTTCA
* * *
111455300 AGCAATGTTGTTGGAACCACATTGGATCGTCTAGTCAGATTGGTTGAATCAAGAATTGACCGGT
66 AGCAATGTTGTTGGAACCACATTCGACCGTCTAGTCAAATTGGTTGAATCAAGAATTGACCGGT
111455364 ATTTGAAGATTCAAATAAAATGTTTTGAAGCTT-GACTACTAATTTAAAACCTAAGTCATAGTTC
1 ATTTGAAGATTCAAATAAAATGTTTTGAAGCTTGGA-TACTAATTTAAAACCTAAGTCATAGTTC
* *
111455428 GAGCAATGTTGTTGGAACCATATTCGACCGTCTAGTCAAATTGGTTG
65 AAGCAATGTTGTTGGAACCACATTCGACCGTCTAGTCAAATTGGTTG
111455475 GATCGGGAAT
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
128 2 0.02
129 102 0.98
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (129 bp):
ATTTGAAGATTCAAATAAAATGTTTTGAAGCTTGGATACTAATTTAAAACCTAAGTCATAGTTCA
AGCAATGTTGTTGGAACCACATTCGACCGTCTAGTCAAATTGGTTGAATCAAGAATTGACCGGT
Found at i:111456037 original size:16 final size:17
Alignment explanation
Indices: 111456016--111456055 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
111456006 GACTCATATT
111456016 TTAAATTAAAT-TAAAA
1 TTAAATTAAATATAAAA
111456032 TTAAA-TAAATATAAAA
1 TTAAATTAAATATAAAA
111456048 -TAAATTAA
1 TTAAATTAA
111456056 TATCATACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAATTAAATATAAAA
Found at i:111456051 original size:15 final size:16
Alignment explanation
Indices: 111456016--111456058 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
111456006 GACTCATATT
111456016 TTAAATTAAAT-TAAAA
1 TTAAA-TAAATATAAAA
111456032 TTAAATAAATATAAAA
1 TTAAATAAATATAAAA
*
111456048 -TAAATTAATAT
1 TTAAATAAATAT
111456059 CATACTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 15 0.60
16 10 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAATAAATATAAAA
Found at i:111465168 original size:16 final size:17
Alignment explanation
Indices: 111465141--111465172 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
111465131 TAATAAATGA
111465141 TAAATATATAAAATTAT
1 TAAATATATAAAATTAT
111465158 TAAATAT-TAAAATTA
1 TAAATATATAAAATTA
111465173 AAATTACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATATAAAATTAT
Found at i:111465795 original size:14 final size:15
Alignment explanation
Indices: 111465776--111465817 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
111465766 CTCAAATTTG
*
111465776 ATATTTTAATTT-AT
1 ATATTTTAATTTGAC
111465790 ATATTTTAATTTGAC
1 ATATTTTAATTTGAC
111465805 ATAATTTTAATTT
1 AT-ATTTTAATTT
111465818 CTTTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 12 0.48
15 3 0.12
16 10 0.40
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (15 bp):
ATATTTTAATTTGAC
Found at i:111467214 original size:266 final size:258
Alignment explanation
Indices: 111466528--111467253 Score: 737
Period size: 266 Copynumber: 2.8 Consensus size: 258
111466518 ATCAAAAAAG
* * * * *
111466528 CACACATGTAAATGTACATAATAGAACTGGAACCTAGACACTTAAGATCCCAGGC-CCCAACCTT
1 CACA-ATGTAAATGCACATAATAGAACTCGAACCTAGACACTTAAGATCCCAAGCACTCAATCTT
* * * * *
111466592 TGTCAACACTACCAAAACGTTACTCATTTACTTATTTATATTTATAAACAAATTGCATATTCGGC
65 TGACAACACTACCAAAACATTACTAATCTACTTATTTATATTTATAAACAAAGTGCATATTCGGC
* * **
111466657 CTAAAATTAACAAATACAAAATTTTCAAACCAAAATGTCCCTCCCTTTCAATCAAATC--ATAT-
130 CTAAAATTAACAAATA-TAAATTTTCAAGCCAAAATAACCCTCCCTTTCAATCAAATCATATATG
* * **** *
111466719 -ATTGCACCATTCTAGTTTGTATCCGACAATTACACATGGTGAGATAAAATCTAGACTAAGAACT
194 CATTGCACCATTCTAGTTTGTATCCAACAATGACACATAACCAGATAAAACCTAGACTAAGAACT
* * * * *
111466783 CAC-ATATAAACGCACACAATAGGACTTGAACCTAGACACTTAAGATCCCAAACCGGCAACCCCT
1 CACAATGTAAATGCACATAATAGAACTCGAACCTAGACACTTAAGATCCC-AA---GC-A---CT
** * * * *
111466847 CAATCTTTGACAATGCTACCAAACCCTTATTTATCTACTTATTTATATTTTATAAACAAAGTGCA
58 CAATCTTTGACAACACTACCAAAACATTACTAATCTACTTATTTATA-TTTATAAACAAAGTGCA
* * * * *
111466912 TATTCGGCCTAAAATTAACAAATATGATTTTTCAAGCTAAAATAACCTTTCCTTTCAATCAAATC
122 TATTCGGCCTAAAATTAACAAATATAAATTTTCAAGCCAAAATAACCCTCCCTTTCAATCAAATC
* ** *
111466977 ATATATTGCAGTTGCACCATTTTCTCA-TTTAGTATCCAATAATGGGACTTAAACCAGAATAAAA
187 ATATA-TGCA-TTGCACCA--TTCT-AGTTT-GTATCCAACAATGACACAT-AACCAG-ATAAAA
111467041 CCTAGACTAAGAACT
244 CCTAGACTAAGAACT
* * *
111467056 CACAGATGTAAATACACATAATAGAACTCAAACCTAAACACTTAAGATCCCAAGCACTCAATCTT
1 CACA-ATGTAAATGCACATAATAGAACTCGAACCTAGACACTTAAGATCCCAAGCACTCAATCTT
* * * ** *
111467121 TGCCAACATTACCAAAACATTACTAATCTACTTATTTATATTTATAAATAAAGAACATATTTGGC
65 TGACAACACTACCAAAACATTACTAATCTACTTATTTATATTTATAAACAAAGTGCATATTCGGC
* * *
111467186 CTAACATTAACAAATATAAGTTTTCAAGCCAAAATACCCCTCCCTTTCAATCAAATCATATACTG
130 CTAAAATTAACAAATATAAATTTTCAAGCCAAAATAACCCTCCCTTTCAATCAAATCATATA-TG
111467251 CAT
194 CAT
111467254 CATTATCCGA
Statistics
Matches: 381, Mismatches: 66, Indels: 38
0.79 0.14 0.08
Matches are distributed among these distances:
253 40 0.10
254 1 0.00
255 3 0.01
257 2 0.01
262 71 0.19
263 40 0.10
264 3 0.01
265 2 0.01
266 80 0.21
267 42 0.11
268 8 0.02
270 8 0.02
271 16 0.04
272 2 0.01
273 23 0.06
274 2 0.01
275 38 0.10
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (258 bp):
CACAATGTAAATGCACATAATAGAACTCGAACCTAGACACTTAAGATCCCAAGCACTCAATCTTT
GACAACACTACCAAAACATTACTAATCTACTTATTTATATTTATAAACAAAGTGCATATTCGGCC
TAAAATTAACAAATATAAATTTTCAAGCCAAAATAACCCTCCCTTTCAATCAAATCATATATGCA
TTGCACCATTCTAGTTTGTATCCAACAATGACACATAACCAGATAAAACCTAGACTAAGAACT
Found at i:111467619 original size:9 final size:9
Alignment explanation
Indices: 111467595--111467628 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
111467585 AATGAAATAG
*
111467595 CATCATCAT
1 CATCACCAT
*
111467604 CACCACCAT
1 CATCACCAT
111467613 CATCACCAT
1 CATCACCAT
111467622 CATCACC
1 CATCACC
111467629 CTCGTCCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.47, G:0.00, T:0.21
Consensus pattern (9 bp):
CATCACCAT
Found at i:111475753 original size:21 final size:21
Alignment explanation
Indices: 111475729--111475794 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
111475719 TAATTTTTTT
* *
111475729 ACTTTGAATTCTGAATTTTAA
1 ACTTTGAATCCTAAATTTTAA
*
111475750 ACTTTGAACCCTAAATTTTAA
1 ACTTTGAATCCTAAATTTTAA
* *
111475771 TC-TTGAATCCCAAATTTTAA
1 ACTTTGAATCCTAAATTTTAA
111475791 ACTT
1 ACTT
111475795 AAACATTGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (21 bp):
ACTTTGAATCCTAAATTTTAA
Found at i:111475785 original size:20 final size:21
Alignment explanation
Indices: 111475742--111475794 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
111475732 TTGAATTCTG
111475742 AATTTTAAACTTTGAACCCTA
1 AATTTTAAACTTTGAACCCTA
*
111475763 AATTTTAATC-TTGAATCCC-A
1 AATTTTAAACTTTGAA-CCCTA
111475783 AATTTTAAACTT
1 AATTTTAAACTT
111475795 AAACATTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (21 bp):
AATTTTAAACTTTGAACCCTA
Found at i:111476689 original size:21 final size:21
Alignment explanation
Indices: 111476663--111476712 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
111476653 ATATCTTTAT
111476663 AATTTTTAAAGGATTAAATTA
1 AATTTTTAAAGGATTAAATTA
*
111476684 AATTTTTAAATGATTAAATTA
1 AATTTTTAAAGGATTAAATTA
*
111476705 ATTTTTTA
1 AATTTTTA
111476713 TAATTTTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (21 bp):
AATTTTTAAAGGATTAAATTA
Found at i:111479957 original size:32 final size:30
Alignment explanation
Indices: 111479909--111480054 Score: 109
Period size: 32 Copynumber: 4.7 Consensus size: 30
111479899 GTTTAAAGAG
*
111479909 AATTCAAAGTTTTTAAAACATTTAGAGGG-CTT
1 AATT-AAAATTTTTAAAA-ATTTAGAGGGTC-T
*
111479941 AATTGAAAATTTTTAAAAATTTTAGAGAGTCT
1 AATT-AAAATTTTTAAAAA-TTTAGAGGGTCT
* * * *
111479973 AATTAAAATTTTCAAAACTTTTACATGGAT-T
1 AATTAAAATTTTTAAAA-ATTTAGA-GGGTCT
* * *
111480004 AATTAAAATTTCTAAAAAAATTA-AGGGTGT
1 AATTAAAATTT-TTAAAAATTTAGAGGGTCT
*
111480034 AATTAAAATTTTCAAAAATTT
1 AATTAAAATTTTTAAAAATTT
111480055 TGAGAGTCAA
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
29 11 0.12
30 13 0.14
31 33 0.35
32 36 0.38
33 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (30 bp):
AATTAAAATTTTTAAAAATTTAGAGGGTCT
Found at i:111479984 original size:31 final size:30
Alignment explanation
Indices: 111479909--111480060 Score: 112
Period size: 31 Copynumber: 4.9 Consensus size: 30
111479899 GTTTAAAGAG
* *
111479909 AATTCAAAGTTTTTAAAACA-TTTAGAGGGCTT
1 AATT-AAAATTTTTAAAA-ATTTTAGAGGTC-T
111479941 AATTGAAAATTTTTAAAAATTTTAGAGAGTCT
1 AATT-AAAATTTTTAAAAATTTTAGAG-GTCT
* * *
111479973 AATTAAAATTTTCAAAACTTTTACATGGAT-T
1 AATTAAAATTTTTAAAAATTTTAGA-GG-TCT
* ** *
111480004 AATTAAAATTTCTAAAAAAATTA-AGGGTGT
1 AATTAAAATTTTTAAAAATTTTAGA-GGTCT
*
111480034 AATTAAAATTTTCAAAAATTTTGAGAG
1 AATTAAAATTTTTAAAAATTTT-AGAG
111480061 TCAAAAAAGC
Statistics
Matches: 97, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
29 1 0.01
30 22 0.23
31 41 0.42
32 31 0.32
33 2 0.02
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (30 bp):
AATTAAAATTTTTAAAAATTTTAGAGGTCT
Found at i:111480048 original size:61 final size:63
Alignment explanation
Indices: 111479939--111480055 Score: 166
Period size: 61 Copynumber: 1.9 Consensus size: 63
111479929 TTTAGAGGGC
* ** *
111479939 TTAATTGAAAATTTTTAAAAATTTTAGAGAGTCTAATTAAAATTTTCAAAACTTTTACATGGA
1 TTAATTGAAAATTTCTAAAAAAATTAGAGAGTCTAATTAAAATTTTCAAAAATTTTACATGGA
* *
111480002 TTAATT-AAAATTTCTAAAAAAATTA-AGGGTGTAATTAAAATTTTCAAAAATTTT
1 TTAATTGAAAATTTCTAAAAAAATTAGAGAGTCTAATTAAAATTTTCAAAAATTTT
111480056 GAGAGTCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
61 26 0.54
62 16 0.33
63 6 0.12
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (63 bp):
TTAATTGAAAATTTCTAAAAAAATTAGAGAGTCTAATTAAAATTTTCAAAAATTTTACATGGA
Found at i:111480051 original size:30 final size:30
Alignment explanation
Indices: 111479929--111480055 Score: 114
Period size: 31 Copynumber: 4.1 Consensus size: 30
111479919 TTTTAAAACA
* *
111479929 TTTAGAGGGCTTAATTGAAAATTTTTAAAAAT
1 TTTACAGGG-TTAATT-AAAATTTTCAAAAAT
* * *
111479961 TTTAGAGAGTCTAATTAAAATTTTCAAAACT
1 TTTACAGGGT-TAATTAAAATTTTCAAAAAT
* *
111479992 TTTACATGGATTAATTAAAA-TTTCTAAAAAA
1 TTTACA-GGGTTAATTAAAATTTTC-AAAAAT
*
111480023 ATTA-AGGGTGTAATTAAAATTTTCAAAAAT
1 TTTACAGGGT-TAATTAAAATTTTCAAAAAT
111480053 TTT
1 TTT
111480056 GAGAGTCAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
29 3 0.04
30 21 0.27
31 39 0.50
32 15 0.19
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (30 bp):
TTTACAGGGTTAATTAAAATTTTCAAAAAT
Found at i:111485564 original size:104 final size:104
Alignment explanation
Indices: 111485436--111485643 Score: 389
Period size: 104 Copynumber: 2.0 Consensus size: 104
111485426 TTTGGAATAA
111485436 TTTATCTAAGGATGATTCTAAAAATTAAAATTTTTAAGCATCGATATAATTTTGTCACTTCATCA
1 TTTATCTAAGGATGATTCTAAAAATTAAAATTTTTAAGCATCGATATAATTTTGTCACTTCATCA
* *
111485501 AATTTAAAGACATGAAGTTATTATTATACACTCGTCCAT
66 AAGTTAAAGACATAAAGTTATTATTATACACTCGTCCAT
*
111485540 TTTATCTAAGGATGATTTTAAAAATTAAAATTTTTAAGCATCGATATAATTTTGTCACTTCATCA
1 TTTATCTAAGGATGATTCTAAAAATTAAAATTTTTAAGCATCGATATAATTTTGTCACTTCATCA
111485605 AAGTTAAAGACATAAAGTTATTATTATACACTCGTCCAT
66 AAGTTAAAGACATAAAGTTATTATTATACACTCGTCCAT
111485644 AGAGAAATTA
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 101 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (104 bp):
TTTATCTAAGGATGATTCTAAAAATTAAAATTTTTAAGCATCGATATAATTTTGTCACTTCATCA
AAGTTAAAGACATAAAGTTATTATTATACACTCGTCCAT
Found at i:111496462 original size:28 final size:28
Alignment explanation
Indices: 111496431--111496505 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 28
111496421 TTGATTATTT
*
111496431 TTAATAATATAAAAACTAAATTAATTC-A
1 TTAATAATA-AAAAACTAAATTAATCCAA
* *
111496459 TTAATAATAAAAAATTAATTTAATCCAA
1 TTAATAATAAAAAACTAAATTAATCCAA
111496487 TTCATATAATACAAAAACT
1 TT-A-ATAATA-AAAAACT
111496506 TTTCAAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
27 14 0.36
28 12 0.31
29 1 0.03
30 6 0.15
31 6 0.15
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (28 bp):
TTAATAATAAAAAACTAAATTAATCCAA
Found at i:111498983 original size:52 final size:52
Alignment explanation
Indices: 111498765--111499110 Score: 425
Period size: 53 Copynumber: 6.7 Consensus size: 52
111498755 AGCCCCACAA
* * *
111498765 TTAATCCTACCTCAATTAGGATTTATATAAGCTTATCTTTTTAGTTTTTCGT
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTCAT
* *
111498817 TTAATCCCA-CTCTATTAGTATTTATATAA--TT-T-TTTTTAATTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTCAT
* * * *
111498864 TTAATCCCACCTTAATTATGA-TAATATAAGCTTATCTTTTTATTTTTTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTA---ATTTTTCAT
* * * * *
111498918 TTAATCCCACCTCAATTAGGATTGAAATAAGTTTTTCTTTTTAATTTTCCAT
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTCAT
* *
111498970 TTAATCCCACCTCAATTAGGATTTATATAAGTTTATCTTTTTAATTTTTTGAT
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAA-TTTTTCAT
* *
111499023 TTAATCTCACCTCAATTAGGATTTATATAAAGCTTATCCTTTTAATTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATAT-AAGCTTATCTTTTTAATTTTTCAT
* *
111499076 TTAATCCCACATCAATTAGGATTTATATAAACTTA
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTA
111499111 CGTAATTTAC
Statistics
Matches: 252, Mismatches: 31, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
47 29 0.12
48 8 0.03
49 4 0.02
50 1 0.00
51 24 0.10
52 62 0.25
53 66 0.26
54 41 0.16
55 17 0.07
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.49
Consensus pattern (52 bp):
TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTCAT
Found at i:111499708 original size:4 final size:4
Alignment explanation
Indices: 111499699--111499736 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
111499689 TCATCCAATG
*
111499699 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
111499737 GTATCCACGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:111509741 original size:22 final size:22
Alignment explanation
Indices: 111509716--111509773 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 22
111509706 CATCCATTAT
*
111509716 AAAAGAAGAAGAA-AGTAAGAAA
1 AAAAAAAG-AGAATAGTAAGAAA
* *
111509738 AAAAAAAGGGAATAGTAATAAA
1 AAAAAAAGAGAATAGTAAGAAA
111509760 AAAATTAAAGAGAA
1 AAAA--AAAGAGAA
111509774 ATAATGTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 3 0.10
22 19 0.66
24 7 0.24
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (22 bp):
AAAAAAAGAGAATAGTAAGAAA
Found at i:111516462 original size:39 final size:38
Alignment explanation
Indices: 111516395--111516488 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 38
111516385 ACCAATATGG
*
111516395 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAA-AGTTGA
* * *
111516434 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAAAGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAAAGTTGA
* * *
111516472 TACCCGGTACCTCATCG
1 CACCCAGTGCCTCATCG
111516489 AATCTATCCG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 18 0.39
39 25 0.54
40 3 0.07
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAAAGTTGA
Found at i:111516709 original size:96 final size:96
Alignment explanation
Indices: 111516545--111516737 Score: 377
Period size: 96 Copynumber: 2.0 Consensus size: 96
111516535 AGGTCGAAGT
111516545 ATCCCTGAACACTTCCAATCCTATGGCATGCCAACTATATCCGACTCAGCCCGACTAGTTAATAG
1 ATCCCTGAACACTTCCAATCCTATGGCATGCCAACTATATCCGACTCAGCCCGACTAGTTAATAG
111516610 GGTATTCAATTCACTTTCTCAATCCTCTATC
66 GGTATTCAATTCACTTTCTCAATCCTCTATC
*
111516641 ATCCCTGAACACTTCCAATCCTATGGCATGTCAACTATATCCGACTCAGCCCGACTAGTTAATAG
1 ATCCCTGAACACTTCCAATCCTATGGCATGCCAACTATATCCGACTCAGCCCGACTAGTTAATAG
111516706 GGTATTCAATTCACTTTCTCAATCCTCTATC
66 GGTATTCAATTCACTTTCTCAATCCTCTATC
111516737 A
1 A
111516738 CTTTCAATTC
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (96 bp):
ATCCCTGAACACTTCCAATCCTATGGCATGCCAACTATATCCGACTCAGCCCGACTAGTTAATAG
GGTATTCAATTCACTTTCTCAATCCTCTATC
Found at i:111541487 original size:117 final size:119
Alignment explanation
Indices: 111541264--111541491 Score: 336
Period size: 117 Copynumber: 1.9 Consensus size: 119
111541254 TAAATTAGAT
* *
111541264 TATTCCAAAAACATGGGATTTGGGCATATCCTCTACTATCCATAATAACAACACATATAGCTCAA
1 TATTCCAAAAACATGGGATTTAGGCATATCCTCTACTATCCATAATAACAACACATACAGCTCAA
* * ** * *
111541329 AAATGGATCATTAATGGGGTTCAAAAGAAGGTTATATGAACAATTTCGGTCAAA
66 AAATGGATCATCAATGGGGGTCAAAAGAAAATCATAAGAACAATTTCGGTCAAA
*
111541383 TATTCCAAAAATATGGGATTTAGG-A-ATCCTCTACTATCCAT-ATAACAACACATAACAGCTCA
1 TATTCCAAAAACATGGGATTTAGGCATATCCTCTACTATCCATAATAACAACACAT-ACAGCTCA
*
111541445 AAAATGGATCATCAGTGGGGGTCAAAAGAAAATCATAAGAACAATTT
65 AAAATGGATCATCAATGGGGGTCAAAAGAAAATCATAAGAACAATTT
111541492 AGGTTTTAGA
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
116 12 0.12
117 63 0.64
118 1 0.01
119 22 0.22
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (119 bp):
TATTCCAAAAACATGGGATTTAGGCATATCCTCTACTATCCATAATAACAACACATACAGCTCAA
AAATGGATCATCAATGGGGGTCAAAAGAAAATCATAAGAACAATTTCGGTCAAA
Found at i:111545699 original size:28 final size:28
Alignment explanation
Indices: 111545658--111545719 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
111545648 CGTTTGGAAT
111545658 TTTTTAAAAATTATATATTT-TTATATA
1 TTTTTAAAAATTATATATTTGTTATATA
* * * *
111545685 TTTTTAATAATTTATTTATTTGTTTTGTA
1 TTTTTAA-AAATTATATATTTGTTATATA
111545714 TTTTTA
1 TTTTTA
111545720 GATTATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.24
28 11 0.38
29 11 0.38
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (28 bp):
TTTTTAAAAATTATATATTTGTTATATA
Found at i:111550017 original size:110 final size:107
Alignment explanation
Indices: 111549743--111550036 Score: 329
Period size: 110 Copynumber: 2.7 Consensus size: 107
111549733 TAATAATGTA
*
111549743 TGTTTGTTTTAG-GTTTTAGGAA-GA--ACTGAACCAGTTTATATGTAACAAAACGCTGGACATG
1 TGTTTGTTTTAGTGTTTTA--AATGAGGACTAAACCAGTTTATATGT-A-AAAA--CTGGACATG
*
111549804 TTT-AAGCTTTAGCTTGGTGTCTGTAATCTAAGCTATAGCCCTGTTGAC
60 TTTAAAGC-TTAGCTTGGTGTCTGTAATCTAAGCTAGAGCCCTGTTGAC
* * *
111549852 GGTTTGTTTTAGTG--TT--ATTAGGACTAAACCAGTTTACATGTAAAAACTGGACATGTTTAAA
1 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAACTGGACATGTTTAAA
* * *
111549913 GCTTAGCTTGGTGTCTGTAATCTAAGCTGGAG-CTTAGTTTTTTAC
66 GCTTAGCTTGGTGTCTGTAATCTAAGCTAGAGCCCT-G---TTGAC
* *
111549958 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAGAACTGGGCATGTTTAAA
1 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAACTGGACATGTTTAAA
111550023 GCTTAGCTTGGTGT
66 GCTTAGCTTGGTGT
111550037 GTTTATATAT
Statistics
Matches: 159, Mismatches: 13, Indels: 25
0.81 0.07 0.13
Matches are distributed among these distances:
102 2 0.01
103 41 0.26
104 5 0.03
105 5 0.03
106 18 0.11
107 17 0.11
108 4 0.03
109 11 0.07
110 56 0.35
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (107 bp):
TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAACTGGACATGTTTAAA
GCTTAGCTTGGTGTCTGTAATCTAAGCTAGAGCCCTGTTGAC
Found at i:111550349 original size:193 final size:193
Alignment explanation
Indices: 111549987--111550401 Score: 624
Period size: 193 Copynumber: 2.2 Consensus size: 193
111549977 AATGAGGACT
*
111549987 AAACCAGTTTATATGTAAGAACTGGGCATGTTTAAAGCTTAGCTTGGTGTGTTTATATATGGACC
1 AAACCAGTTTATATGTAAGAACTGGACATGTTTAAAGCTTAGCTTGGTGTGTTTATATATGGACC
*
111550052 TAGTGTTTTAACTGTTAAATGATGGAGTCACCATTGCTGAATCCAAGTTCAGCACCAGAAGCTAA
66 TAGTGTTTTAACCGTTAAATGATGGAGTCACCATTGCTGAATCCAAGTTCAGCACCAGAAGCTAA
*
111550117 AATCATCTCCCACAACAGACCCTAGCTAGTCTTTATATATACATGTACATGCGGAGTTTTGACA
131 AATCATCTACCAC-ACAGACCCTAGCTAGTCTTTATATATACATGTACATGCGGAGTTTTGACA
* *
111550181 AAACCAGTTTATATGTAAGAACTGGACATGTTTAAATCTTAGCTTGGTGTGTTTCTATATGGACC
1 AAACCAGTTTATATGTAAGAACTGGACATGTTTAAAGCTTAGCTTGGTGTGTTTATATATGGACC
* *
111550246 TA-TCG-TTTAACCGTTAAATGATGGAGTTACCATTGCTGAATCTAAGTTCAGCACCAGAAGCTA
66 TAGT-GTTTTAACCGTTAAATGATGGAGTCACCATTGCTGAATCCAAGTTCAGCACCAGAAGCTA
*
111550309 AAATCATCTACC-C-C-GACCCTAGCTAGTCTTTATATAT--A--T--AT--GGAGCTTTGACA
130 AAATCATCTACCACACAGACCCTAGCTAGTCTTTATATATACATGTACATGCGGAGTTTTGACA
* *
111550362 AAACCAATTTACATGTAAGAACTGGACATGTTT-AAGCTTA
1 AAACCAGTTTATATGTAAGAACTGGACATGTTTAAAGCTTA
111550402 TAAACTTGGT
Statistics
Matches: 209, Mismatches: 11, Indels: 16
0.89 0.05 0.07
Matches are distributed among these distances:
180 6 0.03
181 42 0.20
183 2 0.01
185 1 0.00
187 1 0.00
189 23 0.11
190 1 0.00
192 1 0.00
193 67 0.32
194 65 0.31
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (193 bp):
AAACCAGTTTATATGTAAGAACTGGACATGTTTAAAGCTTAGCTTGGTGTGTTTATATATGGACC
TAGTGTTTTAACCGTTAAATGATGGAGTCACCATTGCTGAATCCAAGTTCAGCACCAGAAGCTAA
AATCATCTACCACACAGACCCTAGCTAGTCTTTATATATACATGTACATGCGGAGTTTTGACA
Found at i:111550695 original size:26 final size:24
Alignment explanation
Indices: 111550666--111550728 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 24
111550656 TAATACTAAT
111550666 TTTAATTTTTAATATTTATATATTGG
1 TTTAATTTTTAATATTTAT-TATT-G
* *
111550692 TTTAATTTTTTAATTTTTATTATTT
1 TTTAA-TTTTTAATATTTATTATTG
111550717 TTTAATATTTTA
1 TTTAAT-TTTTA
111550729 GCCTGAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 1 0.03
25 10 0.30
26 9 0.27
27 13 0.39
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
TTTAATTTTTAATATTTATTATTG
Found at i:111572303 original size:18 final size:18
Alignment explanation
Indices: 111572282--111572321 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
111572272 TGTTATTCTT
*
111572282 GTTGTTGCTATTGTTGCC
1 GTTGTTGCTACTGTTGCC
* *
111572300 GTTGTTGTTACTGTTGCT
1 GTTGTTGCTACTGTTGCC
111572318 GTTG
1 GTTG
111572322 CGGATGCCGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.12, G:0.30, T:0.53
Consensus pattern (18 bp):
GTTGTTGCTACTGTTGCC
Found at i:111572321 original size:6 final size:6
Alignment explanation
Indices: 111572293--111572350 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
111572283 TTGTTGCTAT
* * * * * * *
111572293 TGTTGC CGTTGT TGTTAC TGTTGC TGTTGC GGATGC CGTTGC TTTTGC
1 TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC
111572341 TGTTGC TGTT
1 TGTTGC TGTT
111572351 TCATGCGATG
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.03, C:0.17, G:0.31, T:0.48
Consensus pattern (6 bp):
TGTTGC
Found at i:111576222 original size:18 final size:18
Alignment explanation
Indices: 111576163--111576224 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
111576153 TATCAGTTTC
* *
111576163 ATTCAGTAGCAATTAGTT
1 ATTCAGTAGCAGTCAGTT
* * *
111576181 ATTCAGCAACAGTCATTT
1 ATTCAGTAGCAGTCAGTT
**
111576199 GCTCAGTAGCAGTCAGTT
1 ATTCAGTAGCAGTCAGTT
111576217 ATTCAGTA
1 ATTCAGTA
111576225 ACAATCAATT
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (18 bp):
ATTCAGTAGCAGTCAGTT
Found at i:111576257 original size:18 final size:18
Alignment explanation
Indices: 111576215--111576280 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 18
111576205 TAGCAGTCAG
* * *
111576215 TTATTCAGTAACAATCAA
1 TTATTCAATAATAATTAA
* *
111576233 TTTTTCAATAATAATTGA
1 TTATTCAATAATAATTAA
* *
111576251 TTATTCAATAACAGTTAA
1 TTATTCAATAATAATTAA
*
111576269 TTATTCAGTAAT
1 TTATTCAATAAT
111576281 GATCAGTCAT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.42
Consensus pattern (18 bp):
TTATTCAATAATAATTAA
Found at i:111576496 original size:23 final size:23
Alignment explanation
Indices: 111576407--111576496 Score: 114
Period size: 23 Copynumber: 4.0 Consensus size: 23
111576397 ACCTAATCAG
*
111576407 TATACGACACAT-AAGTTCCTGA
1 TATACGACACATAAAGTGCCTGA
** *
111576429 -A-ACGACACACGAGGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
*
111576450 AATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
111576473 TATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
111576496 T
1 T
111576497 CGACAAAACC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.14
21 9 0.16
22 1 0.02
23 40 0.69
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (23 bp):
TATACGACACATAAAGTGCCTGA
Found at i:111580061 original size:17 final size:19
Alignment explanation
Indices: 111580020--111580061 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
111580010 AACCTTCAAC
111580020 CTTCAAGCTCCTCCTTTTT
1 CTTCAAGCTCCTCCTTTTT
111580039 CTTTCAAGCTCCT-C-TTTT
1 C-TTCAAGCTCCTCCTTTTT
111580057 CTTCA
1 CTTCA
111580062 TTCGACTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.18
18 5 0.23
19 2 0.09
20 11 0.50
ACGTcount: A:0.12, C:0.36, G:0.05, T:0.48
Consensus pattern (19 bp):
CTTCAAGCTCCTCCTTTTT
Found at i:111580127 original size:39 final size:39
Alignment explanation
Indices: 111580084--111580179 Score: 131
Period size: 39 Copynumber: 2.5 Consensus size: 39
111580074 TTCTCTACTT
*
111580084 TCTGCATTCTTCCTTCAAGC-TCCAGATTACTTCAAGCTC
1 TCTGCTTTCTTCCTTCAAGCTTCC-GATTACTTCAAGCTC
* *
111580123 TCTGCTTTCTTCGTTCAAGCTTCCGATTCCTTCAAGCTC
1 TCTGCTTTCTTCCTTCAAGCTTCCGATTACTTCAAGCTC
* *
111580162 ACTACTTTCTTCCTTCAA
1 TCTGCTTTCTTCCTTCAA
111580180 CCCTTCTCAG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
39 47 0.94
40 3 0.06
ACGTcount: A:0.18, C:0.33, G:0.09, T:0.40
Consensus pattern (39 bp):
TCTGCTTTCTTCCTTCAAGCTTCCGATTACTTCAAGCTC
Found at i:111585590 original size:98 final size:98
Alignment explanation
Indices: 111585421--111585624 Score: 408
Period size: 98 Copynumber: 2.1 Consensus size: 98
111585411 TTCCACTCAT
111585421 ACAAATTCAAGAAATTTGAGATGTCTGTGGTTAGGATAACAAAGAAAAAAAAAGTCTAAGCCGAT
1 ACAAATTCAAGAAATTTGAGATGTCTGTGGTTAGGATAACAAAGAAAAAAAAAGTCTAAGCCGAT
111585486 GCGATAGTACGTGCAAATGTCCAAATAAGCTGC
66 GCGATAGTACGTGCAAATGTCCAAATAAGCTGC
111585519 ACAAATTCAAGAAATTTGAGATGTCTGTGGTTAGGATAACAAAGAAAAAAAAAGTCTAAGCCGAT
1 ACAAATTCAAGAAATTTGAGATGTCTGTGGTTAGGATAACAAAGAAAAAAAAAGTCTAAGCCGAT
111585584 GCGATAGTACGTGCAAATGTCCAAATAAGCTGC
66 GCGATAGTACGTGCAAATGTCCAAATAAGCTGC
111585617 ACAAATTC
1 ACAAATTC
111585625 TGTATAAAAT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 106 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.23
Consensus pattern (98 bp):
ACAAATTCAAGAAATTTGAGATGTCTGTGGTTAGGATAACAAAGAAAAAAAAAGTCTAAGCCGAT
GCGATAGTACGTGCAAATGTCCAAATAAGCTGC
Found at i:111586457 original size:10 final size:10
Alignment explanation
Indices: 111586426--111586507 Score: 55
Period size: 10 Copynumber: 8.3 Consensus size: 10
111586416 TTAGTTTTTT
111586426 AAAATTTT-A
1 AAAATTTTAA
**
111586435 AAAATTCAAAA
1 AAAATT-TTAA
111586446 AAAATTTTAAA
1 AAAATTTT-AA
111586457 AACAATTTTAA
1 AA-AATTTTAA
111586468 AAAA--TT-A
1 AAAATTTTAA
* *
111586475 ACAATATTAA
1 AAAATTTTAA
*
111586485 AAAATTATAA
1 AAAATTTTAA
*
111586495 AAACTTTTAA
1 AAAATTTTAA
111586505 AAA
1 AAA
111586508 TTAATTAAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
7 4 0.07
8 2 0.04
9 8 0.14
10 21 0.38
11 15 0.27
12 6 0.11
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:111586470 original size:13 final size:12
Alignment explanation
Indices: 111586442--111586471 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
111586432 TTAAAAATTC
111586442 AAAAAAAATTTT
1 AAAAAAAATTTT
*
111586454 AAAAACAATTTT
1 AAAAAAAATTTT
111586466 AAAAAA
1 AAAAAA
111586472 TTAACAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (12 bp):
AAAAAAAATTTT
Found at i:111586479 original size:17 final size:17
Alignment explanation
Indices: 111586457--111586491 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
111586447 AAATTTTAAA
*
111586457 AACAATTTTAAAAAATT
1 AACAATATTAAAAAATT
111586474 AACAATATTAAAAAATT
1 AACAATATTAAAAAATT
111586491 A
1 A
111586492 TAAAAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
AACAATATTAAAAAATT
Found at i:111586757 original size:18 final size:19
Alignment explanation
Indices: 111586719--111586757 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
111586709 ACCTTCAACC
*
111586719 TTCAAGCTCCTCTTTTTTCT
1 TTCAAGCTCCTC-TCTTTCT
111586739 TTCAAGCTCCTC-CTTTCT
1 TTCAAGCTCCTCTCTTTCT
111586757 T
1 T
111586758 CATTCGACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.10, C:0.33, G:0.05, T:0.51
Consensus pattern (19 bp):
TTCAAGCTCCTCTCTTTCT
Found at i:111586818 original size:17 final size:17
Alignment explanation
Indices: 111586796--111586838 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
111586786 GCACTCTTCT
111586796 TTCAAGCTCCCGATTAC
1 TTCAAGCTCCCGATTAC
*
111586813 TTCAAGCTCCCGATTCC
1 TTCAAGCTCCCGATTAC
111586830 TTCAAGCTC
1 TTCAAGCTC
111586839 ACTACTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.21, C:0.37, G:0.12, T:0.30
Consensus pattern (17 bp):
TTCAAGCTCCCGATTAC
Found at i:111595728 original size:12 final size:12
Alignment explanation
Indices: 111595671--111595742 Score: 54
Period size: 12 Copynumber: 6.0 Consensus size: 12
111595661 GCCATTTTTA
**
111595671 TTGTCGTTGTCA
1 TTGTCGTTGTTG
*
111595683 TTGTCATTGTTG
1 TTGTCGTTGTTG
* * * *
111595695 TTGTTGCTATTT
1 TTGTCGTTGTTG
*
111595707 TTGCCGTTGTTG
1 TTGTCGTTGTTG
*
111595719 TTGTCGTTGTAG
1 TTGTCGTTGTTG
*
111595731 TTGTCATTGTTG
1 TTGTCGTTGTTG
111595743 CTGTTGCCGT
Statistics
Matches: 43, Mismatches: 17, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.07, C:0.11, G:0.26, T:0.56
Consensus pattern (12 bp):
TTGTCGTTGTTG
Found at i:111595728 original size:48 final size:48
Alignment explanation
Indices: 111595657--111595749 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 48
111595647 TAGTCTCTCC
* *
111595657 TTTTGCCATTTTTATTGTCGTTGTCA-TTGTCATTGTTGTTGTTGCTAT
1 TTTTGCCATTGTTATTGTCGTTGT-AGTTGTCATTGTTGCTGTTGCTAT
* *
111595705 TTTTGCCGTTGTTGTTGTCGTTGTAGTTGTCATTGTTGCTGTTGC
1 TTTTGCCATTGTTATTGTCGTTGTAGTTGTCATTGTTGCTGTTGC
111595750 CGTTGCCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.03
48 39 0.98
ACGTcount: A:0.08, C:0.13, G:0.24, T:0.56
Consensus pattern (48 bp):
TTTTGCCATTGTTATTGTCGTTGTAGTTGTCATTGTTGCTGTTGCTAT
Found at i:111595756 original size:6 final size:6
Alignment explanation
Indices: 111595746--111595791 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
111595736 ATTGTTGCTG
* * *
111595746 TTGCCG TTGCCT TTGCCT TTACCG TTGCCT TTGCCT TTGCCT TTGC
1 TTGCCT TTGCCT TTGCCT TTGCCT TTGCCT TTGCCT TTGCCT TTGC
111595792 ATGCGATGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.02, C:0.33, G:0.20, T:0.46
Consensus pattern (6 bp):
TTGCCT
Found at i:111595761 original size:12 final size:12
Alignment explanation
Indices: 111595740--111595791 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
111595730 GTTGTCATTG
* *
111595740 TTGCTGTTGCCG
1 TTGCCGTTGCCT
*
111595752 TTGCCTTTGCCT
1 TTGCCGTTGCCT
*
111595764 TTACCGTTGCCT
1 TTGCCGTTGCCT
*
111595776 TTGCCTTTGCCT
1 TTGCCGTTGCCT
111595788 TTGC
1 TTGC
111595792 ATGCGATGGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.02, C:0.31, G:0.21, T:0.46
Consensus pattern (12 bp):
TTGCCGTTGCCT
Found at i:111595791 original size:18 final size:18
Alignment explanation
Indices: 111595746--111595791 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
111595736 ATTGTTGCTG
111595746 TTGCCGTTGCCTTTGCCT
1 TTGCCGTTGCCTTTGCCT
*
111595764 TTACCGTTGCCTTTGCCT
1 TTGCCGTTGCCTTTGCCT
*
111595782 TTGCCTTTGC
1 TTGCCGTTGC
111595792 ATGCGATGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.02, C:0.33, G:0.20, T:0.46
Consensus pattern (18 bp):
TTGCCGTTGCCTTTGCCT
Found at i:111602598 original size:21 final size:21
Alignment explanation
Indices: 111602572--111602612 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
111602562 AGACGAGCAA
* *
111602572 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
111602593 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
111602613 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:111605506 original size:36 final size:36
Alignment explanation
Indices: 111605466--111605589 Score: 203
Period size: 36 Copynumber: 3.4 Consensus size: 36
111605456 CTGGTGTCCC
111605466 GACAAGATTGCCTGAATTTGTGCGATTTCAAGGTGG
1 GACAAGATTGCCTGAATTTGTGCGATTTCAAGGTGG
**
111605502 GACAAGATTGCCTGAATTTGCACGATTTCAAGGTGG
1 GACAAGATTGCCTGAATTTGTGCGATTTCAAGGTGG
* *
111605538 GACAAGATTGCCTGAATTTGTGCAATTTCAAAGTGG
1 GACAAGATTGCCTGAATTTGTGCGATTTCAAGGTGG
*
111605574 GACAACATTGCCTGAA
1 GACAAGATTGCCTGAA
111605590 GAAGTGAAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 81 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (36 bp):
GACAAGATTGCCTGAATTTGTGCGATTTCAAGGTGG
Found at i:111605601 original size:36 final size:36
Alignment explanation
Indices: 111605526--111605601 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
111605516 AATTTGCACG
* * *** *
111605526 ATTTCAAGGTGGGACAAGATTGCCTGAATTTGTGCA
1 ATTTCAAAGTGGGACAACATTGCCTGAAGAAGTGAA
111605562 ATTTCAAAGTGGGACAACATTGCCTGAAGAAGTGAA
1 ATTTCAAAGTGGGACAACATTGCCTGAAGAAGTGAA
111605598 ATTT
1 ATTT
111605602 GAAATGTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (36 bp):
ATTTCAAAGTGGGACAACATTGCCTGAAGAAGTGAA
Found at i:111612982 original size:33 final size:33
Alignment explanation
Indices: 111612904--111612982 Score: 137
Period size: 30 Copynumber: 2.5 Consensus size: 33
111612894 CTGGTGTCCC
111612904 GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
1 GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
111612937 GAC---ATTGCCTGAATTTGTATTTCAAGGTGG
1 GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
111612967 GACAAGATTGCCTGAA
1 GACAAGATTGCCTGAA
111612983 GGAGTGGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
30 30 0.70
33 13 0.30
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.32
Consensus pattern (33 bp):
GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
Found at i:111613241 original size:28 final size:26
Alignment explanation
Indices: 111613191--111613243 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
111613181 GAAGTGTCTC
* *
111613191 GCCACCAAAGAAATGTTTAGCATTTA
1 GCCACCAAAGAAATGCTAAGCATTTA
111613217 GCCACCAAAGCCAAATGCTAAGCATTT
1 GCCACCAAAG--AAATGCTAAGCATTT
111613244 CCTTGGTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.43
28 13 0.57
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (26 bp):
GCCACCAAAGAAATGCTAAGCATTTA
Found at i:111614549 original size:33 final size:33
Alignment explanation
Indices: 111614471--111614549 Score: 137
Period size: 30 Copynumber: 2.5 Consensus size: 33
111614461 CTGGTGTCCC
111614471 GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
1 GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
111614504 GAC---ATTGCCTGAATTTGTATTTCAAGGTGG
1 GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
111614534 GACAAGATTGCCTGAA
1 GACAAGATTGCCTGAA
111614550 GGAGTGGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
30 30 0.70
33 13 0.30
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.32
Consensus pattern (33 bp):
GACAAGATTGCCTGAATTTGTATTTCAAGGTGG
Found at i:111614808 original size:28 final size:26
Alignment explanation
Indices: 111614758--111614810 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
111614748 GAAGTGTCTC
* *
111614758 GCCACCAAAGAAATGTTTAGCATTTA
1 GCCACCAAAGAAATGCTAAGCATTTA
111614784 GCCACCAAAGCCAAATGCTAAGCATTT
1 GCCACCAAAG--AAATGCTAAGCATTT
111614811 CCTTGGTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.43
28 13 0.57
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (26 bp):
GCCACCAAAGAAATGCTAAGCATTTA
Found at i:111620561 original size:28 final size:28
Alignment explanation
Indices: 111620510--111620569 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
111620500 CCAAATTTAG
*
111620510 AATTTAGTCTCTATATTTTTATTTTCAGA
1 AATTTAGTCTATATATTTTTATTTTCA-A
111620539 AATTTAGT-TATAT-TTTTATATTTTCAA
1 AATTTAGTCTATATATTTT-TATTTTCAA
111620566 AATT
1 AATT
111620570 CAAGTCCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 9 0.31
28 12 0.41
29 8 0.28
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.57
Consensus pattern (28 bp):
AATTTAGTCTATATATTTTTATTTTCAA
Found at i:111622698 original size:26 final size:26
Alignment explanation
Indices: 111622668--111622721 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
111622658 TCCAAGCCTT
111622668 AAATTATTCAAGTCTGATTTAAGAAA
1 AAATTATTCAAGTCTGATTTAAGAAA
* * * *
111622694 AAATTATTTAGGTTTGGTTTAAGAAA
1 AAATTATTCAAGTCTGATTTAAGAAA
111622720 AA
1 AA
111622722 TGTGATTATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (26 bp):
AAATTATTCAAGTCTGATTTAAGAAA
Found at i:111623934 original size:27 final size:28
Alignment explanation
Indices: 111623904--111623971 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 28
111623894 AATCCTTTAT
*
111623904 TTAATTTTTTTTAAATTAAAAAGAT-AA
1 TTAATTTTTTTTAAATTAAAAAAATGAA
** * *
111623931 TTAA-TTGATTT-AGTTAAAAAAATGAT
1 TTAATTTTTTTTAAATTAAAAAAATGAA
111623957 TTAATTTTTTTTAAA
1 TTAATTTTTTTTAAA
111623972 AGGTTAATGG
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
25 10 0.33
26 10 0.33
27 9 0.30
28 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (28 bp):
TTAATTTTTTTTAAATTAAAAAAATGAA
Found at i:111630229 original size:7 final size:7
Alignment explanation
Indices: 111630217--111630242 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
111630207 CAGGCCATGC
111630217 TCATCTA
1 TCATCTA
111630224 TCATCTA
1 TCATCTA
111630231 TCATCTA
1 TCATCTA
111630238 TCATC
1 TCATC
111630243 GTTACAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.42
Consensus pattern (7 bp):
TCATCTA
Found at i:111632944 original size:13 final size:14
Alignment explanation
Indices: 111632928--111632963 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
111632918 CAATCTCATA
111632928 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
111632941 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
111632954 TCTC-ATTTCA
1 TCTCAATTTCA
111632964 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:111632953 original size:18 final size:19
Alignment explanation
Indices: 111632915--111632955 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
111632905 TGGTTCATGT
111632915 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
111632934 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
111632952 TTTC
1 TTTC
111632956 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:111633478 original size:18 final size:19
Alignment explanation
Indices: 111633452--111633490 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
111633442 TTTCAATTCA
111633452 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
111633471 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
111633489 AT
1 AT
111633491 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:111634807 original size:5 final size:5
Alignment explanation
Indices: 111634797--111634849 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
111634787 TTACTTATTT
* *
111634797 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
111634845 ATATA
1 ATATA
111634850 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:111634813 original size:12 final size:12
Alignment explanation
Indices: 111634796--111634851 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
111634786 TTTACTTATT
111634796 TATATAATATAA
1 TATATAATATAA
111634808 TATATAATATAATA
1 TATATAATAT-A-A
111634822 TACTATAATATAA
1 TA-TATAATATAA
*
111634835 TA-ATAATTTAA
1 TATATAATATAA
111634846 TATATA
1 TATATA
111634852 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:111640448 original size:18 final size:18
Alignment explanation
Indices: 111640421--111640513 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
111640411 TACGACCGTT
111640421 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
111640439 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
**
111640457 TATAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
111640475 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
111640493 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
111640511 TAC
1 TAC
111640514 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:111649071 original size:7 final size:7
Alignment explanation
Indices: 111649059--111649084 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
111649049 CAGGCCATGC
111649059 TCATCTA
1 TCATCTA
111649066 TCATCTA
1 TCATCTA
111649073 TCATCTA
1 TCATCTA
111649080 TCATC
1 TCATC
111649085 GTTACAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.42
Consensus pattern (7 bp):
TCATCTA
Found at i:111651786 original size:13 final size:14
Alignment explanation
Indices: 111651770--111651805 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
111651760 CAATCTCATA
111651770 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
111651783 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
111651796 TCTC-ATTTCA
1 TCTCAATTTCA
111651806 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:111651795 original size:18 final size:19
Alignment explanation
Indices: 111651757--111651797 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
111651747 TGGTTCATGT
111651757 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
111651776 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
111651794 TTTC
1 TTTC
111651798 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:111651986 original size:39 final size:38
Alignment explanation
Indices: 111651919--111652053 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
111651909 ACCAATATGG
* * *
111651919 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
111651958 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
111651996 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
111652037 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
111652054 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:111652319 original size:18 final size:19
Alignment explanation
Indices: 111652293--111652331 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
111652283 TTTCAATTCA
111652293 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
111652312 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
111652330 AT
1 AT
111652332 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:111653648 original size:5 final size:5
Alignment explanation
Indices: 111653638--111653690 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
111653628 TTACTTATTT
* *
111653638 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
111653686 ATATA
1 ATATA
111653691 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:111653654 original size:12 final size:12
Alignment explanation
Indices: 111653637--111653692 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
111653627 TTTACTTATT
111653637 TATATAATATAA
1 TATATAATATAA
111653649 TATATAATATAATA
1 TATATAATAT-A-A
111653663 TACTATAATATAA
1 TA-TATAATATAA
*
111653676 TA-ATAATTTAA
1 TATATAATATAA
111653687 TATATA
1 TATATA
111653693 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:111662737 original size:20 final size:19
Alignment explanation
Indices: 111662697--111662734 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
111662687 AAAATTTGCC
111662697 TTTAAAAAAACAGCATTAA
1 TTTAAAAAAACAGCATTAA
111662716 TTTAAAAAAACAGCATTAA
1 TTTAAAAAAACAGCATTAA
111662735 ATTATCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (19 bp):
TTTAAAAAAACAGCATTAA
Found at i:111675087 original size:14 final size:14
Alignment explanation
Indices: 111675068--111675095 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
111675058 AGTTGTTGGC
111675068 TGCTTAAAAAGGTT
1 TGCTTAAAAAGGTT
111675082 TGCTTAAAAAGGTT
1 TGCTTAAAAAGGTT
111675096 AAGTTCTAGG
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:0.21, T:0.36
Consensus pattern (14 bp):
TGCTTAAAAAGGTT
Found at i:111705857 original size:99 final size:99
Alignment explanation
Indices: 111705682--111705879 Score: 234
Period size: 99 Copynumber: 2.0 Consensus size: 99
111705672 AAATGGCTCT
* * * *
111705682 AAAGTCTTTAATGTTAGCTCTGGAAGTTGAGACAACCTTAACACCTCTAACTGATAGCATGCCGA
1 AAAGTCTTTAATGTCAGCTCTGGAAGTTCAGACAACCTTAACACCTCTAACTGAGAGAATGCCGA
* *
111705747 TGTGTGCCTTTCCTCATTGATGAGTCCTTCAGAC
66 TGTATGCCTTTCCTCATGGATGAGTCCTTCAGAC
* ** * ** * *
111705781 AAAGTCTTTAATGTCATCTCTGTTAGTTCAGACAAGCTTAATTCCTTTAACTGAGAGAATGCTGA
1 AAAGTCTTTAATGTCAGCTCTGGAAGTTCAGACAACCTTAACACCTCTAACTGAGAGAATGCCGA
* ** *
111705846 TGTATGTCTTTCCTTGTGGCTGAGTCCTTCAGAC
66 TGTATGCCTTTCCTCATGGATGAGTCCTTCAGAC
111705880 CGTACCATTT
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
99 81 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (99 bp):
AAAGTCTTTAATGTCAGCTCTGGAAGTTCAGACAACCTTAACACCTCTAACTGAGAGAATGCCGA
TGTATGCCTTTCCTCATGGATGAGTCCTTCAGAC
Found at i:111713515 original size:30 final size:30
Alignment explanation
Indices: 111713475--111713539 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
111713465 ATTGATGTTT
* *
111713475 GAAAATAACATAGTGCATAATTAGCTGCTC
1 GAAAACAACATAGAGCATAATTAGCTGCTC
*
111713505 GAAAACAACATAGAGCATAATTAGCTGCTT
1 GAAAACAACATAGAGCATAATTAGCTGCTC
111713535 GAAAA
1 GAAAA
111713540 TAATGTGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (30 bp):
GAAAACAACATAGAGCATAATTAGCTGCTC
Found at i:111719077 original size:24 final size:24
Alignment explanation
Indices: 111719050--111719097 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
111719040 AAAAAGTGTT
*
111719050 AGAATATAATAAGTAAATAGATAA
1 AGAATATAATAAATAAATAGATAA
111719074 AGAATATAATAAATAAATAGATAA
1 AGAATATAATAAATAAATAGATAA
111719098 TTATTTATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (24 bp):
AGAATATAATAAATAAATAGATAA
Found at i:111724382 original size:19 final size:19
Alignment explanation
Indices: 111724346--111724383 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
111724336 TAAAAAGATA
*
111724346 AAATTTTCCTTGTAAAAAC
1 AAATTTTCCATGTAAAAAC
111724365 AAATATTTCCATGTAAAAA
1 AAAT-TTTCCATGTAAAAA
111724384 TCTAAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.34
Consensus pattern (19 bp):
AAATTTTCCATGTAAAAAC
Found at i:111728271 original size:38 final size:38
Alignment explanation
Indices: 111728212--111728317 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
111728202 CATTTTTAAG
*
111728212 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
111728249 AATATGCATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
111728287 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
111728318 TACGTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.35
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:111728711 original size:19 final size:17
Alignment explanation
Indices: 111728687--111728803 Score: 59
Period size: 16 Copynumber: 6.9 Consensus size: 17
111728677 TAATATTAGA
111728687 AAAATATATATAATAGTGT
1 AAAATATATATAATA-T-T
111728706 AAAATATAACTAATAATATT
1 AAAATAT-A-T-ATAATATT
*
111728726 AAAATATATACAATGA-T
1 AAAATATATATAAT-ATT
* * *
111728743 AATATATATAAAAGA-T
1 AAAATATATATAATATT
* *
111728759 -ATATGTATAT-ATAATT
1 AAAATATATATAAT-ATT
*
111728775 -ATATA-ATATAATATT
1 AAAATATATATAATATT
111728790 AAAATATA-ATAATA
1 AAAATATATATAATA
111728804 CGACATAAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
14 1 0.01
15 16 0.20
16 19 0.24
17 17 0.21
18 2 0.03
19 8 0.10
20 9 0.11
21 2 0.03
22 6 0.08
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (17 bp):
AAAATATATATAATATT
Found at i:111729152 original size:23 final size:23
Alignment explanation
Indices: 111729133--111729196 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
111729123 TGTATACACG
111729133 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
*
111729156 TACATAATAATAATACTAATACTAA
1 TACATAATAAAAATA-T-ATACTAA
* *
111729181 TA-ATACTAATAATATA
1 TACATAATAAAAATATA
111729197 AAAATAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 1 0.03
23 15 0.41
24 12 0.32
25 9 0.24
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:111729167 original size:3 final size:3
Alignment explanation
Indices: 111729136--111729203 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
111729126 ATACACGTAC
* * * *
111729136 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA CTA ATA CTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
111729183 ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
111729204 CAAGGATATT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:111729679 original size:11 final size:12
Alignment explanation
Indices: 111729665--111729700 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
111729655 AAGAAAAAAA
111729665 GAAGAGAG-AGG
1 GAAGAGAGAAGG
111729676 GAAGAGAGAAGG
1 GAAGAGAGAAGG
111729688 G-AGAGAGAAGG
1 GAAGAGAGAAGG
111729699 GA
1 GA
111729701 GGGGGAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:111729809 original size:6 final size:6
Alignment explanation
Indices: 111729798--111729845 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
111729788 AAAAAAATAT
* *
111729798 TTTTTA TTTTTA TTTTTA TTTTT- TTGTTTA TATTATA TTGTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA T-TTTTA TTTTTA TTTTT
111729846 TATATTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 2 0.06
6 27 0.77
7 5 0.14
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:111729822 original size:20 final size:22
Alignment explanation
Indices: 111729797--111729854 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 22
111729787 AAAAAAAATA
111729797 TTTTTTATTTTTAT-TT-TTAT
1 TTTTTTATTTTTATATTGTTAT
*
111729817 TTTTTTGTTTATATTATATTGTTAT
1 TTTTTT-ATT-T-TTATATTGTTAT
111729842 TTTTTATATTTTT
1 TTTTT-TATTTTT
111729855 TTAGTATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
20 6 0.20
21 2 0.07
22 1 0.03
23 6 0.20
24 3 0.10
25 11 0.37
26 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.79
Consensus pattern (22 bp):
TTTTTTATTTTTATATTGTTAT
Found at i:111729841 original size:25 final size:24
Alignment explanation
Indices: 111729800--111729846 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
111729790 AAAAATATTT
* *
111729800 TTTATTTTTATTTTTATTTTTTTG
1 TTTATTTATATTGTTATTTTTTTG
111729824 TTTATATTATATTGTTATTTTTT
1 TTTAT-TTATATTGTTATTTTTT
111729847 ATATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTATTTATATTGTTATTTTTTTG
Found at i:111732147 original size:23 final size:22
Alignment explanation
Indices: 111732114--111732162 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
111732104 ATTTTGAAGG
111732114 TTAATGATTAAAGTTATAAAAAAA
1 TTAATGATTAAA-TTA-AAAAAAA
*
111732138 TTAAT-ATTAAATTAACAAAAA
1 TTAATGATTAAATTAAAAAAAA
111732159 TTAA
1 TTAA
111732163 ACATTAGGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 10 0.42
22 3 0.12
23 6 0.25
24 5 0.21
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (22 bp):
TTAATGATTAAATTAAAAAAAA
Found at i:111743027 original size:15 final size:17
Alignment explanation
Indices: 111743003--111743036 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
111742993 TCATGTGTAG
111743003 TTTTTCTTAATATT-TA
1 TTTTTCTTAATATTCTA
111743019 TTTTT-TTAATATTCTA
1 TTTTTCTTAATATTCTA
111743035 TT
1 TT
111743037 ATACCTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTCTTAATATTCTA
Found at i:111743370 original size:26 final size:26
Alignment explanation
Indices: 111743314--111743370 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
111743304 TTTAAAATTC
* * *
111743314 AATTATCTAATAGATTCTCCTATATG
1 AATTATCTAATAGATTCACCAATACG
*
111743340 GATTATCTAATAGATTCACCAATACG
1 AATTATCTAATAGATTCACCAATACG
111743366 AATTA
1 AATTA
111743371 ATTAGTGCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (26 bp):
AATTATCTAATAGATTCACCAATACG
Found at i:111744328 original size:21 final size:22
Alignment explanation
Indices: 111744293--111744340 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 22
111744283 ATAATTTTAA
111744293 ATTTTTATTGAATTTTTTAAAAT
1 ATTTTTATT-AATTTTTTAAAAT
111744316 ATTTTTATT-ATTTTTTAAAAT
1 ATTTTTATTAATTTTTTAAAAT
111744337 -TTTT
1 ATTTT
111744341 ATGATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 4 0.16
21 12 0.48
23 9 0.36
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTTTATTAATTTTTTAAAAT
Found at i:111775919 original size:3 final size:3
Alignment explanation
Indices: 111775911--111775942 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
111775901 TTTACAAATG
111775911 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
111775943 AAGAACAGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:111780983 original size:18 final size:18
Alignment explanation
Indices: 111780960--111781052 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
111780950 CCCAACTACT
*
111780960 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* * *
111780978 GTATACATGAATAGTGCA
1 GTATACGTGAATAGTACC
*
111780996 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
111781014 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
111781032 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
111781050 GTA
1 GTA
111781053 AACGGTCGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:111781012 original size:36 final size:36
Alignment explanation
Indices: 111780960--111781052 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
111780950 CCCAACTACT
*
111780960 GTATACGTGAACAGTACCGTATACATGAATAGTGCA
1 GTATACGTGAATAGTACCGTATACATGAATAGTGCA
* * *
111780996 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACATGAATAGTGCA
111781032 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
111781053 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACATGAATAGTGCA
Found at i:111806142 original size:61 final size:62
Alignment explanation
Indices: 111806074--111806197 Score: 223
Period size: 61 Copynumber: 2.0 Consensus size: 62
111806064 TTTCACATTA
*
111806074 CTTTTTTGTGAAAATATTAGAAAGTGGGAGACTTCAAGTGAACATTGGGGA-AAGCAGGATT
1 CTTTTTTGTGAAAATATTAGAAAGTGGGAGACTTCAAGTGAACATTGGGGATAAGCAAGATT
*
111806135 CTTTTTTGTGAAAATATTAGAAAGTGGGAGACTTTAAGTGAACATTGGGGATAAGCAAGATT
1 CTTTTTTGTGAAAATATTAGAAAGTGGGAGACTTCAAGTGAACATTGGGGATAAGCAAGATT
111806197 C
1 C
111806198 AATGAAGGAT
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 50 0.83
62 10 0.17
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (62 bp):
CTTTTTTGTGAAAATATTAGAAAGTGGGAGACTTCAAGTGAACATTGGGGATAAGCAAGATT
Found at i:111812011 original size:9 final size:9
Alignment explanation
Indices: 111811997--111812027 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
111811987 AAATTGAAAC
111811997 TTTATAAAG
1 TTTATAAAG
111812006 TTTATAAAG
1 TTTATAAAG
111812015 TTTATAAAG
1 TTTATAAAG
111812024 TTTA
1 TTTA
111812028 GTCTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (9 bp):
TTTATAAAG
Found at i:111812365 original size:87 final size:89
Alignment explanation
Indices: 111812200--111812378 Score: 290
Period size: 87 Copynumber: 2.0 Consensus size: 89
111812190 TGTATTGCCC
*
111812200 ATTCTATCGACTTTGGGGACTGAGTGGATGAATTTTTTTTTCCGCACTTTTGCAGGTAATTTCCA
1 ATTCTATCGACTTGGGGGACTGAGTGGATGAATTTTTTTTTCCGCACTTTTGCAGGTAATTTCCA
*
111812265 AAAAGGAGATTATAAAATCAAGTA
66 AAAAAGAGATTATAAAATCAAGTA
* * *
111812289 ATTCTATTGACTTGGGGGACTTAGTGGATG-ATTTTTTTTT-GGCACTTTTGCAGGTAATTTCCA
1 ATTCTATCGACTTGGGGGACTGAGTGGATGAATTTTTTTTTCCGCACTTTTGCAGGTAATTTCCA
*
111812352 AAAAAGAGGTTATAAAATCAAGTA
66 AAAAAGAGATTATAAAATCAAGTA
111812376 ATT
1 ATT
111812379 AATCTAAACT
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
87 47 0.56
88 10 0.12
89 27 0.32
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (89 bp):
ATTCTATCGACTTGGGGGACTGAGTGGATGAATTTTTTTTTCCGCACTTTTGCAGGTAATTTCCA
AAAAAGAGATTATAAAATCAAGTA
Found at i:111812924 original size:28 final size:26
Alignment explanation
Indices: 111812876--111812928 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
111812866 TACTTATTCA
111812876 AAAAAAATATATTTTTAAAGTTATGGC
1 AAAAAAATATATTTTTAAAG-TATGGC
111812903 AAAAAAATATTATTTATT-AAGTATGG
1 AAAAAAATA-TATTT-TTAAAGTATGG
111812929 ACACTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 14 0.58
28 8 0.33
29 2 0.08
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (26 bp):
AAAAAAATATATTTTTAAAGTATGGC
Found at i:111815417 original size:25 final size:25
Alignment explanation
Indices: 111815388--111815461 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
111815378 GGGCTTCCGT
111815388 TTAGCACTTGTGTGCTTCAGTTAAG
1 TTAGCACTTGTGTGCTTCAGTTAAG
* *
111815413 TTAGC-CTT-TGGGCTTCCG-T---
1 TTAGCACTTGTGTGCTTCAGTTAAG
111815432 TTAGCACTTGTGTGCTTCAGTTAAG
1 TTAGCACTTGTGTGCTTCAGTTAAG
111815457 TTAGC
1 TTAGC
111815462 CCCCGGGCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
19 5 0.13
20 3 0.08
21 8 0.21
22 2 0.05
23 8 0.21
24 3 0.08
25 10 0.26
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.41
Consensus pattern (25 bp):
TTAGCACTTGTGTGCTTCAGTTAAG
Found at i:111815432 original size:44 final size:39
Alignment explanation
Indices: 111815192--111815495 Score: 376
Period size: 39 Copynumber: 7.6 Consensus size: 39
111815182 TGGGGTTTCA
* * *
111815192 GTTTAGCTCTGGTGAGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
* * *
111815231 CTTTAGCACTT-CGTGCTTCAGTCAGCCTTCGGGCTTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
111815269 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
* *
111815308 GTTTAGCACTTCTGTGCTTCAGTCAGCCTTCGGGCTTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
* *
111815347 GTTTAGCACTTGTGTGCTTCACTTAGCCTTTGGGCTTCC
1 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
*
111815386 GTTTAGCACTTGTGTGCTTCAGTTAAGTTAGCCTTTGGGCTTCC
1 GTTTAGCACTTGTGTGCTTC-----AGTTAGCCTTCGGGCTTCC
**
111815430 GTTTAGCACTTGTGTGCTTCAGTTAAGTTAGCCCCCGGGCTTCC
1 GTTTAGCACTTGTGTGCTTC-----AGTTAGCCTTCGGGCTTCC
* *
111815474 GTTTAGCACTTATGTACTTCAG
1 GTTTAGCACTTGTGTGCTTCAG
111815496 CTAAACTTCA
Statistics
Matches: 238, Mismatches: 21, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
38 34 0.14
39 127 0.53
44 77 0.32
ACGTcount: A:0.12, C:0.26, G:0.24, T:0.38
Consensus pattern (39 bp):
GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
Found at i:111820226 original size:27 final size:27
Alignment explanation
Indices: 111820188--111820242 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
111820178 TATTTTTTTT
* *
111820188 AATAATGTTGACTACTTGCTTGCACTA
1 AATAATGTTGACTACTGGCTTACACTA
111820215 AATAATGTTGACTACTGGCTTACACTA
1 AATAATGTTGACTACTGGCTTACACTA
111820242 A
1 A
111820243 CATATTGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (27 bp):
AATAATGTTGACTACTGGCTTACACTA
Done.