Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007920.1 Hibiscus syriacus cultivar Beakdansim tig00110324_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: 328425
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:3121 original size:28 final size:28
Alignment explanation
Indices: 3060--3115 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
3050 CACTTTCATC
* * *
3060 ACCATTGCTCCCACACACCTACAATAGA
1 ACCATTGATCCCACACACCTACAAGACA
*
3088 ACCATTGATCTCACACACCTACAAGACA
1 ACCATTGATCCCACACACCTACAAGACA
3116 TTCATTTGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.38, C:0.38, G:0.07, T:0.18
Consensus pattern (28 bp):
ACCATTGATCCCACACACCTACAAGACA
Found at i:9161 original size:41 final size:43
Alignment explanation
Indices: 9106--9185 Score: 121
Period size: 41 Copynumber: 1.9 Consensus size: 43
9096 TGTTGATAAT
9106 AAATTAATAATCAAATATTTA-CAATATTTTAATAATCTTGTTA
1 AAATTAATAATCAAATATTTACCAA-ATTTTAATAATCTTGTTA
*
9149 AAATT-AT-ATCAAATGTTTACCAAATTTTAATAATCTT
1 AAATTAATAATCAAATATTTACCAAATTTTAATAATCTT
9186 TCATTCATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
41 25 0.71
42 5 0.14
43 5 0.14
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.44
Consensus pattern (43 bp):
AAATTAATAATCAAATATTTACCAAATTTTAATAATCTTGTTA
Found at i:11364 original size:36 final size:36
Alignment explanation
Indices: 11317--11418 Score: 168
Period size: 36 Copynumber: 2.8 Consensus size: 36
11307 CGAACAAGAG
*
11317 ACCAGAGGAGGACGAGATCACTGAAAAGAATAGGAA
1 ACCAGAGGAGGACGAGATCATTGAAAAGAATAGGAA
* *
11353 ACCAGAGGAGGACGAGATCATTGAAGAGAATTGGAA
1 ACCAGAGGAGGACGAGATCATTGAAAAGAATAGGAA
*
11389 ACCAGAGGAGGAGGAGATCATTGAAAAGAA
1 ACCAGAGGAGGACGAGATCATTGAAAAGAA
11419 CAAGAATTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.45, C:0.12, G:0.32, T:0.11
Consensus pattern (36 bp):
ACCAGAGGAGGACGAGATCATTGAAAAGAATAGGAA
Found at i:20558 original size:31 final size:31
Alignment explanation
Indices: 20516--20588 Score: 137
Period size: 31 Copynumber: 2.4 Consensus size: 31
20506 TGCTTCCCTT
*
20516 TTTTATGTAATCATCGTACCTAATAATTATA
1 TTTTATATAATCATCGTACCTAATAATTATA
20547 TTTTATATAATCATCGTACCTAATAATTATA
1 TTTTATATAATCATCGTACCTAATAATTATA
20578 TTTTATATAAT
1 TTTTATATAAT
20589 GACGATTGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (31 bp):
TTTTATATAATCATCGTACCTAATAATTATA
Found at i:27800 original size:84 final size:84
Alignment explanation
Indices: 27645--27810 Score: 212
Period size: 84 Copynumber: 2.0 Consensus size: 84
27635 AGATTCTTTA
* * *
27645 AAAATACAAATGAACTGATGAAATGGGTTTTCTCAAAATCAACATACAAAAAGAGGGTTAGGATC
1 AAAATACAAATGAACTGATGAAAAGGGTTTTCTCAAAATCAACAAACAAAAAGAGGGTTAAGATC
*
27710 TCATTAACTAAACTCTTCG
66 TAATTAACTAAACTCTTCG
* * *
27729 AAAATACATATGAACAT-ATGAAAAGGGTTTTCTCAAAATCAACAAAACAAGAA-AGGG-TAATA
1 AAAATACAAATGAAC-TGATGAAAAGGGTTTTCTCAAAATCAAC-AAACAAAAAGAGGGTTAAGA
*
27791 CTCTAATTAACTAAATTCTT
64 -TCTAATTAACTAAACTCTT
27811 TACAAAAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
83 3 0.04
84 60 0.85
85 8 0.11
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (84 bp):
AAAATACAAATGAACTGATGAAAAGGGTTTTCTCAAAATCAACAAACAAAAAGAGGGTTAAGATC
TAATTAACTAAACTCTTCG
Found at i:28715 original size:16 final size:16
Alignment explanation
Indices: 28694--28724 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28684 TAAGGTAAGA
*
28694 TATTTAAGGGTTTAAC
1 TATTTAAGAGTTTAAC
28710 TATTTAAGAGTTTAA
1 TATTTAAGAGTTTAA
28725 GATGACAGTT
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:0.35, C:0.03, G:0.16, T:0.45
Consensus pattern (16 bp):
TATTTAAGAGTTTAAC
Found at i:30206 original size:50 final size:50
Alignment explanation
Indices: 30143--30264 Score: 129
Period size: 50 Copynumber: 2.4 Consensus size: 50
30133 AGAAAGTGCG
* * * * *
30143 CCCCCTACACCGCGCTATATGCTGATTTGGCGTCACGTGAGTATAGCGCA
1 CCCCCTGCACCGCGCTATACGCTGATCTGGCGCCACATGAGTATAGCGCA
* * * * * *
30193 CCCCCTGCCCCGCGATATACGGTGATCTGGTGCCACATGGGTATAGCGCG
1 CCCCCTGCACCGCGCTATACGCTGATCTGGCGCCACATGAGTATAGCGCA
30243 CCCCCTG-ATCCGCGCTATACGC
1 CCCCCTGCA-CCGCGCTATACGC
30265 CACGTAGGGG
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.17, C:0.36, G:0.25, T:0.21
Consensus pattern (50 bp):
CCCCCTGCACCGCGCTATACGCTGATCTGGCGCCACATGAGTATAGCGCA
Found at i:34315 original size:111 final size:111
Alignment explanation
Indices: 34178--34399 Score: 399
Period size: 111 Copynumber: 2.0 Consensus size: 111
34168 ATTACAAAAA
* *
34178 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
34243 AATTAAAACGTTAAAATATTACCGTATCAACAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATATTACCGTATCAACAAAGTGTAGAGATAT
34289 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
* *
34354 AATTAAAACGTTAAAATGTTACCGTATTAACAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATATTACCGTATCAACAAAGTGTAGAGATAT
34400 AATTTTTTCA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATATTACCGTATCAACAAAGTGTAGAGATAT
Found at i:45138 original size:16 final size:17
Alignment explanation
Indices: 45088--45139 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
45078 AAAAAAATTA
45088 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
45105 GA-TT-AAA-TTAGGAGT
1 AATTTGAAAGTTA-GAGT
45120 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
45136 AATT
1 AATT
45140 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 11 0.38
17 4 0.14
18 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:48636 original size:2 final size:2
Alignment explanation
Indices: 48629--48664 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
48619 CACCAATAAT
*
48629 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48665 CTGCGCGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55365 original size:29 final size:30
Alignment explanation
Indices: 55333--55390 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
55323 TTTTGTGAAT
55333 AATTTTAAGATGA-TGTT-ATTTTCATAAAC
1 AATTTTAAGAT-ATTGTTAATTTTCATAAAC
55362 AATTTTAAGATATTGTTAATTTTCATAAA
1 AATTTTAAGATATTGTTAATTTTCATAAA
55391 ATATGTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 1 0.04
29 15 0.56
30 11 0.41
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (30 bp):
AATTTTAAGATATTGTTAATTTTCATAAAC
Found at i:57804 original size:17 final size:18
Alignment explanation
Indices: 57782--57815 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57772 TCAGCCGATC
57782 CGGTTC-GAACGGTTCAT
1 CGGTTCTGAACGGTTCAT
*
57799 CGGTTCTGACCGGTTCA
1 CGGTTCTGAACGGTTCA
57816 CTAATAGCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.29
Consensus pattern (18 bp):
CGGTTCTGAACGGTTCAT
Found at i:70683 original size:30 final size:28
Alignment explanation
Indices: 70662--70716 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
70652 CGGTGATTGG
70662 TATATTTACCGATCTAACACCGGTCAGAT
1 TATATTTACCGATCTAACACCGGT-AGAT
* *
70691 TATATTTCCCGATCTAACACCCGTAG
1 TATATTTACCGATCTAACACCGGTAG
70717 TAGTAAAGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (28 bp):
TATATTTACCGATCTAACACCGGTAGAT
Found at i:71046 original size:12 final size:10
Alignment explanation
Indices: 71014--71044 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
71004 TTTATCACAC
71014 CAAATTCTCT
1 CAAATTCTCT
71024 CAAATTCTCT
1 CAAATTCTCT
*
71034 CAAATACTCT
1 CAAATTCTCT
71044 C
1 C
71045 TCTGTTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:71113 original size:17 final size:18
Alignment explanation
Indices: 71076--71116 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
71066 ATATTATGTA
*
71076 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
71094 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
71111 TTTACT
1 TTTACT
71117 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:73191 original size:12 final size:12
Alignment explanation
Indices: 73174--73205 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
73164 CCTGCTCAGG
73174 ACGATGACGACA
1 ACGATGACGACA
*
73186 ACGATGACGACG
1 ACGATGACGACA
73198 ACGATGAC
1 ACGATGAC
73206 AGCGAGGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.28, T:0.09
Consensus pattern (12 bp):
ACGATGACGACA
Found at i:80097 original size:23 final size:23
Alignment explanation
Indices: 80053--80101 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
80043 ATAAAGAACC
*
80053 AAAATAAACTTAAATATACCATT
1 AAAATAAACTTAAACATACCATT
*
80076 AAAATAAAGTTAAAACAT-CCATT
1 AAAATAAACTT-AAACATACCATT
80099 AAA
1 AAA
80102 CCAACACCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAACTTAAACATACCATT
Found at i:81188 original size:63 final size:63
Alignment explanation
Indices: 81089--81215 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
81079 GTTTTAATCC
81089 TAGGAGAGTTTGTGAAGGATACTAGAAGTCTGTTAAGAGAACAGTTTCAAGATCAGAGAGTGT
1 TAGGAGAGTTTGTGAAGGATACTAGAAGTCTGTTAAGAGAACAGTTTCAAGATCAGAGAGTGT
* *
81152 TAGGAGAGTTTGTGAATGATACTAGAAGTCTGTTAAGAGAACCGTTTCAAGATCAGAGAGTGT
1 TAGGAGAGTTTGTGAAGGATACTAGAAGTCTGTTAAGAGAACAGTTTCAAGATCAGAGAGTGT
81215 T
1 T
81216 CAAGAAAGCA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (63 bp):
TAGGAGAGTTTGTGAAGGATACTAGAAGTCTGTTAAGAGAACAGTTTCAAGATCAGAGAGTGT
Found at i:82820 original size:24 final size:24
Alignment explanation
Indices: 82689--82803 Score: 144
Period size: 24 Copynumber: 4.8 Consensus size: 24
82679 TCGATTTGAT
*
82689 TTCTGACCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
82713 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
* *
82737 TTCTGATTTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
82761 TTCTGATCTGTTACTTGACCTGGA
1 TTCTGATCTGATACTTGACATGGA
*
82785 CTT-TGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
82804 GTGAATTATG
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
23 1 0.01
24 76 0.95
25 3 0.04
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:82939 original size:35 final size:35
Alignment explanation
Indices: 82892--82992 Score: 175
Period size: 35 Copynumber: 2.9 Consensus size: 35
82882 AATACCTGGA
*
82892 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACTTACT
1 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACTTACC
*
82927 GGTTCCTTGGCTGTGTGCTCAGGGCCTTACTTACC
1 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACTTACC
*
82962 GGTTCATCGGCTGTGTGCTCAGGGCCTTACT
1 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACT
82993 GGACGTGACG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 62 1.00
ACGTcount: A:0.09, C:0.28, G:0.30, T:0.34
Consensus pattern (35 bp):
GGTTCCTCGGCTGTGTGCTCAGGGCCTTACTTACC
Found at i:92234 original size:16 final size:16
Alignment explanation
Indices: 92213--92276 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 16
92203 TCTATTGTTG
92213 TTAATAAATTTAATTT
1 TTAATAAATTTAATTT
92229 TTAAT--ATTTATATTT
1 TTAATAAATTTA-ATTT
* *
92244 TTATATCAATTTATTTT
1 TTA-ATAAATTTAATTT
* *
92261 TTAAAAAAATTAATTT
1 TTAATAAATTTAATTT
92277 AATCTAAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
14 5 0.13
15 7 0.18
16 16 0.41
17 6 0.15
18 5 0.13
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAATAAATTTAATTT
Found at i:93979 original size:19 final size:20
Alignment explanation
Indices: 93952--93997 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
93942 AGATTTATTT
*
93952 TTTTTAAAA-AAAAATTAAA
1 TTTTAAAAATAAAAATTAAA
* *
93971 TTTTAAAAATCAAATTTAAA
1 TTTTAAAAATAAAAATTAAA
93991 -TTTAAAA
1 TTTTAAAA
93998 CGAAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
TTTTAAAAATAAAAATTAAA
Found at i:93989 original size:20 final size:18
Alignment explanation
Indices: 93953--93997 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
93943 GATTTATTTT
93953 TTTTAAAAAAAAATTAAA
1 TTTTAAAAAAAAATTAAA
*
93971 TTTTAAAAATCAAATTTAAA
1 TTTTAAAAA--AAAATTAAA
93991 -TTTAAAA
1 TTTTAAAA
93998 CGAAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 7 0.29
20 8 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
TTTTAAAAAAAAATTAAA
Found at i:96798 original size:21 final size:20
Alignment explanation
Indices: 96712--96869 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
96702 AAATGACCAA
**
96712 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
96731 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
96751 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
96771 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
96792 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
96813 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
96833 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
* *
96854 GAAAATCGAAACGCGA
1 CAAAATCGCAACGCGA
96870 ACACATAAAT
Statistics
Matches: 103, Mismatches: 30, Indels: 11
0.72 0.21 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 47 0.46
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:96860 original size:20 final size:19
Alignment explanation
Indices: 96834--96888 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
96824 TGCGATTTTC
*
96834 CAAAATCGCAACGCGAATA
1 CAAAATCGCAACGCGAACA
* *
96853 TGAAAATCGAAACGCGAACA
1 -CAAAATCGCAACGCGAACA
96873 CATAAATCGCAACGCG
1 CA-AAATCGCAACGCG
96889 TATCCGTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.45, C:0.25, G:0.18, T:0.11
Consensus pattern (19 bp):
CAAAATCGCAACGCGAACA
Found at i:96898 original size:20 final size:20
Alignment explanation
Indices: 96875--96989 Score: 160
Period size: 20 Copynumber: 5.7 Consensus size: 20
96865 CGCGAACACA
96875 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
96895 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
*
96915 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* * *
96935 TAAATCGCAACG-ATAATACA
1 TAAATCGCAACGCGT-ATCCG
96955 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCGTATCCG
96976 TAAATCGCAACGCG
1 TAAATCGCAACGCG
96990 ATATTTAAAG
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.01
20 65 0.79
21 15 0.18
22 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:96900 original size:40 final size:40
Alignment explanation
Indices: 96836--96990 Score: 177
Period size: 40 Copynumber: 3.9 Consensus size: 40
96826 CGATTTTCCA
* ** * *
96836 AAATCGCAACGCGAATATGAAAATCGAAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
96876 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
96916 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
96956 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
96991 TATTTAAAGC
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 61 0.64
41 33 0.35
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:97410 original size:33 final size:33
Alignment explanation
Indices: 97371--97441 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
97361 TTCACTTAGA
*
97371 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
97404 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
97437 TTTCA
1 TTTCA
97442 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:97547 original size:21 final size:20
Alignment explanation
Indices: 97521--97659 Score: 108
Period size: 21 Copynumber: 7.5 Consensus size: 20
97511 TGCAGAAGAG
97521 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
97542 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
97562 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
97583 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
97597 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
97616 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
97630 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
97649 TCGCAACGAGA
1 TCGCAACGAGA
97660 GAATCGCAAC
Statistics
Matches: 94, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
14 22 0.23
16 4 0.04
17 4 0.04
19 22 0.23
20 16 0.17
21 26 0.28
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.11
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:97565 original size:20 final size:20
Alignment explanation
Indices: 97521--97663 Score: 116
Period size: 19 Copynumber: 7.8 Consensus size: 20
97511 TGCAGAAGAG
*
97521 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
97542 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
97562 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
97583 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
97597 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
97616 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
97630 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
97649 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
97664 CGCAACGCGA
Statistics
Matches: 99, Mismatches: 8, Indels: 31
0.72 0.06 0.22
Matches are distributed among these distances:
14 18 0.18
16 8 0.08
17 6 0.06
19 24 0.24
20 20 0.20
21 23 0.23
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.11
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:97578 original size:41 final size:33
Alignment explanation
Indices: 97521--97686 Score: 197
Period size: 33 Copynumber: 4.7 Consensus size: 33
97511 TGCAGAAGAG
97521 TCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGA
1 TCGCAACGAG--AAATGAAAATCGCAACGAGAG-A--A
97559 CTGTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAA
1 ---TCGCAAC--GAGAAATGAAAATCGCAACGAGAGAA
*
97597 TCGCAACGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAACGAGAAATGAAAATCGCAACGAGAGAA
*
97630 TCGCAACGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAACGAGAAATGAAAATCGCAACGAGAGAA
* **
97663 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGAGAAATGAAAATCGCA
97687 TTGCGATTTT
Statistics
Matches: 120, Mismatches: 3, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
33 80 0.67
35 7 0.06
38 1 0.01
40 1 0.01
41 28 0.23
43 3 0.03
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
TCGCAACGAGAAATGAAAATCGCAACGAGAGAA
Found at i:97600 original size:14 final size:14
Alignment explanation
Indices: 97581--97670 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
97571 GAGAAATGAA
97581 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
97595 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
97614 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
97628 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
97647 AATCGCAACGAGAG
1 AATCGCAACGAGAG
97661 AATCGCAACG
1 AATCGCAACG
97671 CGAAACCAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:97613 original size:33 final size:33
Alignment explanation
Indices: 97573--97686 Score: 210
Period size: 33 Copynumber: 3.5 Consensus size: 33
97563 CGCAACGAGA
97573 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
97606 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
97639 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
97672 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
97687 TTGCGATTTT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:97704 original size:19 final size:19
Alignment explanation
Indices: 97682--97787 Score: 106
Period size: 19 Copynumber: 6.1 Consensus size: 19
97672 GAAACCAAAA
*
97682 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
97701 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
97715 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
97734 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
**
97748 TCTAGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
97767 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
97786 TC
1 TC
97788 AATCAAAAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
14 19 0.27
16 6 0.09
17 6 0.09
19 39 0.56
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:97723 original size:14 final size:14
Alignment explanation
Indices: 97704--97760 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
97694 TTTCATTTCG
97704 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
97718 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
97737 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
97751 AGTTGCGATT
1 CGTTGCGATT
97761 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:97729 original size:33 final size:33
Alignment explanation
Indices: 97687--97779 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
97677 CAAAATCGCA
*
97687 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTAG
97720 TTGCGATTTTCATTTCGCGTTGCGATTCTCTAG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTAG
97753 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
97780 TTCATTTCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTAG
Found at i:99767 original size:93 final size:93
Alignment explanation
Indices: 99483--99950 Score: 913
Period size: 93 Copynumber: 5.1 Consensus size: 93
99473 TAGATTGCTT
*
99483 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
99548 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
99576 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCT-AACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
99640 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
99668 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
99733 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
99761 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
99826 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
99854 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
99919 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
99946 AGTAA
1 AGTAA
99951 TGCAATCCAT
Statistics
Matches: 373, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
92 98 0.26
93 275 0.74
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:100058 original size:33 final size:32
Alignment explanation
Indices: 100015--100107 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
100005 ACGAAACTTA
**
100015 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
100047 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
100080 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
100108 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:100107 original size:19 final size:19
Alignment explanation
Indices: 99998--100107 Score: 87
Period size: 19 Copynumber: 6.3 Consensus size: 19
99988 TAGTTTACTT
* *
99998 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
**
100018 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
100037 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
100051 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
100070 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
100084 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
100103 TCGCA
1 TCGCA
100108 TTGCGATTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.26
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 29 0.40
20 12 0.17
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:100125 original size:19 final size:19
Alignment explanation
Indices: 100103--100237 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
100093 GAAACCAAAA
*
100103 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
100122 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
100138 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
100155 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
100171 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
100188 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
100207 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
100227 TCGTGTTGCGA
1 TCGCGTTGCGA
100238 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:100144 original size:14 final size:14
Alignment explanation
Indices: 100125--100181 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
100115 TTTCATTTCG
100125 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
100139 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
100156 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
100172 CGTTGCGATT
1 CGTTGCGATT
100182 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:100150 original size:33 final size:33
Alignment explanation
Indices: 100108--100200 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
100098 CAAAATCGCA
*
100108 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
100141 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
100174 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
100201 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:101134 original size:14 final size:14
Alignment explanation
Indices: 101114--101164 Score: 93
Period size: 14 Copynumber: 3.6 Consensus size: 14
101104 GATTGTTTAA
101114 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
*
101128 ATGATTTGTAAAAG
1 TTGATTTGTAAAAG
101142 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
101156 TTGATTTGT
1 TTGATTTGT
101165 GTAATTGATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.45
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:101295 original size:19 final size:19
Alignment explanation
Indices: 101271--101348 Score: 112
Period size: 19 Copynumber: 4.4 Consensus size: 19
101261 AAAATTGACT
101271 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
101290 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
101309 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
101323 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
101342 ATCGCAA
1 ATCGCAA
101349 CGGGAGAATC
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 36 0.69
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:101380 original size:33 final size:33
Alignment explanation
Indices: 101289--101367 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
101279 GCGAAATGAA
101289 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
101322 AATCGCAATGCGAAATGAAAATCGCAACGGGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
101355 AATCGCAATGCGA
1 AATCGCAATGCGA
101368 TTTTAATTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.43, C:0.19, G:0.25, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:101385 original size:19 final size:19
Alignment explanation
Indices: 101357--101545 Score: 219
Period size: 19 Copynumber: 10.7 Consensus size: 19
101347 AACGGGAGAA
* *
101357 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
101376 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
101392 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
101409 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
101428 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
101444 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
101461 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
101480 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
101499 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
101517 T-G--TTGAGATTTTCATT
1 TCGCATTGCGATTTTCATT
101533 TCGCATTGCGATT
1 TCGCATTGCGATT
101546 CTCTCGTTGC
Statistics
Matches: 146, Mismatches: 8, Indels: 32
0.78 0.04 0.17
Matches are distributed among these distances:
14 23 0.16
16 16 0.11
17 14 0.10
18 1 0.01
19 76 0.52
20 16 0.11
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:101419 original size:52 final size:52
Alignment explanation
Indices: 101357--101559 Score: 281
Period size: 52 Copynumber: 3.9 Consensus size: 52
101347 AACGGGAGAA
* *
101357 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
101409 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
101461 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCA--
1 TCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--TTGCGATTTTCATT
*
101517 T-G--TTGAGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
101560 GTAATTTCCG
Statistics
Matches: 140, Mismatches: 5, Indels: 17
0.86 0.03 0.10
Matches are distributed among these distances:
47 8 0.06
49 2 0.01
50 2 0.01
51 3 0.02
52 80 0.57
53 24 0.17
54 3 0.02
55 3 0.02
56 3 0.02
58 12 0.09
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:101567 original size:33 final size:33
Alignment explanation
Indices: 101414--101559 Score: 195
Period size: 33 Copynumber: 4.2 Consensus size: 33
101404 TCATTTCGCA
101414 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
101447 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
*
101483 CATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 --TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
101519 TTGAGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
101552 TTGCGATT
1 TTGCGATT
101560 GTAATTTCCG
Statistics
Matches: 99, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
32 1 0.01
33 47 0.47
34 14 0.14
35 3 0.03
36 6 0.06
37 3 0.03
38 15 0.15
39 10 0.10
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:104016 original size:24 final size:24
Alignment explanation
Indices: 103982--104028 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
103972 CTGAAACATC
103982 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
104006 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
104029 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:105020 original size:20 final size:20
Alignment explanation
Indices: 104710--105019 Score: 361
Period size: 20 Copynumber: 15.5 Consensus size: 20
104700 AAATTTCAGT
*
104710 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
104730 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
104750 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
104770 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
104790 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
104810 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
104830 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
104850 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
104870 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
104890 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
104910 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
104930 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
104950 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
104970 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
104990 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
105010 GTTGCGATTT
1 GTTGCGATTT
105020 TGGAAAATCG
Statistics
Matches: 257, Mismatches: 31, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
20 256 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:105036 original size:21 final size:21
Alignment explanation
Indices: 105006--105088 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
104996 ATTTTCATAT
*
105006 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
105027 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
105048 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
105069 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
105089 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:105079 original size:42 final size:43
Alignment explanation
Indices: 104986--105084 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
104976 ATTTATGTGT
* *
104986 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
105027 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
105069 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
105085 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:106715 original size:291 final size:291
Alignment explanation
Indices: 106191--106778 Score: 1113
Period size: 291 Copynumber: 2.0 Consensus size: 291
106181 TCGTTCTCGG
106191 GTGCTTATCCTCCTCTCTTCTGTCAGTTTTGAAATGGTTGCTTCAGCCTAATAAAGGAATTGACC
1 GTGCTTATCCTCCTCTCTTCTGTCAGTTTTGAAATGGTTGCTTCAGCCTAATAAAGGAATTGACC
* *
106256 GCTAATGTTACTGAAGCTTAGAAGCTATGTTACTCGTACAAAAGTGTGTCAAATATAGGTATATA
66 ACTAATGTTACTGAAGCTTAGAAGCTATGTTACTCGTACAAAAGTGTGTCAAATATAGCTATATA
106321 AATATATGTCAAACACAAGTATTTTTATGTAAACACCTCAAGTAAAATGAAGAGTCAGAAGCAAC
131 AATATATGTCAAACACAAGTATTTTTATGTAAACACCTCAAGTAAAATGAAGAGTCAGAAGCAAC
*
106386 AAGGCAAAATATTCAAACTTTAAACTGTGGTAACTAGTAATTTTGGCTACTAATTTTCTCTCTTC
196 AAGGCAAAATATTCAAACTTTAAACTGTGGTAACTAGTAATTTTGGCTACTAATTTTATCTCTTC
106451 TTAGAGATAAAAGCTTAAGTTATAGAAATTT
261 TTAGAGATAAAAGCTTAAGTTATAGAAATTT
* *
106482 GTGCTTATTCTCCTCTCTTCTGTCAGTTTTGAAATGGTTGCTTCAGCCTGATAAAGGAATTGACC
1 GTGCTTATCCTCCTCTCTTCTGTCAGTTTTGAAATGGTTGCTTCAGCCTAATAAAGGAATTGACC
106547 ACTAATGTTACTGAAGCTTAGAAGCTATGTTACTCGTACAAAAGTGTGTCAAATATAGCTATATA
66 ACTAATGTTACTGAAGCTTAGAAGCTATGTTACTCGTACAAAAGTGTGTCAAATATAGCTATATA
*
106612 AATATATGTCAAACACAAGTATTTTTATGTAAATACCTCAAGTAAAATGAAGAGTCAGAAGCAAC
131 AATATATGTCAAACACAAGTATTTTTATGTAAACACCTCAAGTAAAATGAAGAGTCAGAAGCAAC
*
106677 GAGGCAAAATATTCAAACTTTAAACTGTGGTAACTAGTAATTTTGGCTACTAATTTTATCTCTTC
196 AAGGCAAAATATTCAAACTTTAAACTGTGGTAACTAGTAATTTTGGCTACTAATTTTATCTCTTC
106742 TTAGAGATAAAAGCTTAAGTTATAGAAATTT
261 TTAGAGATAAAAGCTTAAGTTATAGAAATTT
106773 GTGCTT
1 GTGCTT
106779 CCGAGGTAAG
Statistics
Matches: 290, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
291 290 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (291 bp):
GTGCTTATCCTCCTCTCTTCTGTCAGTTTTGAAATGGTTGCTTCAGCCTAATAAAGGAATTGACC
ACTAATGTTACTGAAGCTTAGAAGCTATGTTACTCGTACAAAAGTGTGTCAAATATAGCTATATA
AATATATGTCAAACACAAGTATTTTTATGTAAACACCTCAAGTAAAATGAAGAGTCAGAAGCAAC
AAGGCAAAATATTCAAACTTTAAACTGTGGTAACTAGTAATTTTGGCTACTAATTTTATCTCTTC
TTAGAGATAAAAGCTTAAGTTATAGAAATTT
Found at i:119314 original size:29 final size:29
Alignment explanation
Indices: 119282--119361 Score: 142
Period size: 29 Copynumber: 2.8 Consensus size: 29
119272 TTTTAAGTTA
* *
119282 GAGATTAAGATTTAGGGTTTAGAAGATAT
1 GAGATTATGCTTTAGGGTTTAGAAGATAT
119311 GAGATTATGCTTTAGGGTTTAGAAGATAT
1 GAGATTATGCTTTAGGGTTTAGAAGATAT
119340 GAGATTATGCTTTAGGGTTTAG
1 GAGATTATGCTTTAGGGTTTAG
119362 GGTTATAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.31, C:0.03, G:0.29, T:0.38
Consensus pattern (29 bp):
GAGATTATGCTTTAGGGTTTAGAAGATAT
Found at i:120276 original size:24 final size:24
Alignment explanation
Indices: 120244--120295 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
120234 TGAGAGAAAT
120244 ATTCATCTTATTTGCTGTTATATG
1 ATTCATCTTATTTGCTGTTATATG
*
120268 ATTCTTCTTATTTGCTGTTATATG
1 ATTCATCTTATTTGCTGTTATATG
120292 ATTC
1 ATTC
120296 GAAGATCGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.19, C:0.13, G:0.12, T:0.56
Consensus pattern (24 bp):
ATTCATCTTATTTGCTGTTATATG
Found at i:123140 original size:13 final size:13
Alignment explanation
Indices: 123122--123146 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123112 TCGTTTAATC
123122 AAATGAACGAAGT
1 AAATGAACGAAGT
123135 AAATGAACGAAG
1 AAATGAACGAAG
123147 ATGAACAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.24, T:0.12
Consensus pattern (13 bp):
AAATGAACGAAGT
Found at i:123182 original size:14 final size:14
Alignment explanation
Indices: 123175--123227 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
123165 CGTTCATTTA
*
123175 CGTTCGTTTATGTT
1 CGTTCATTTATGTT
123189 CGTTCATTTATGTT
1 CGTTCATTTATGTT
* * *
123203 TGTTCGTTTATGTG
1 CGTTCATTTATGTT
123217 CGTTCATTTAT
1 CGTTCATTTAT
123228 ATTTTGCGCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.11, C:0.13, G:0.19, T:0.57
Consensus pattern (14 bp):
CGTTCATTTATGTT
Found at i:123457 original size:14 final size:14
Alignment explanation
Indices: 123438--123469 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
123428 TATTTATTGT
123438 GTTTTTTTGCGTTC
1 GTTTTTTTGCGTTC
*
123452 GTTTTTTTGTGTTC
1 GTTTTTTTGCGTTC
123466 GTTT
1 GTTT
123470 ACGTTCGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.09, G:0.22, T:0.69
Consensus pattern (14 bp):
GTTTTTTTGCGTTC
Found at i:123461 original size:24 final size:23
Alignment explanation
Indices: 123430--123541 Score: 89
Period size: 24 Copynumber: 4.7 Consensus size: 23
123420 TTTATGTTTA
** *
123430 TTTATTGTGTTTTTTTGCGTTCG
1 TTTATTGTGTTCGTTTACGTTCG
*
123453 TTTTTTTGTGTTCGTTTACGTTCG
1 -TTTATTGTGTTCGTTTACGTTCG
* *
123477 TTTATTGTGTTCATTTATGTTCG
1 TTTATTGTGTTCGTTTACGTTCG
* ** * *
123500 TTTACATCCGTTCGTTTATGTTTG
1 TTTA-TTGTGTTCGTTTACGTTCG
*
123524 TTCATTTGTGTTCGTTTA
1 TTTA-TTGTGTTCGTTTA
123542 TCATTTAAAT
Statistics
Matches: 70, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
23 24 0.34
24 46 0.66
ACGTcount: A:0.09, C:0.12, G:0.19, T:0.61
Consensus pattern (23 bp):
TTTATTGTGTTCGTTTACGTTCG
Found at i:123542 original size:24 final size:24
Alignment explanation
Indices: 123448--123542 Score: 102
Period size: 24 Copynumber: 4.0 Consensus size: 24
123438 GTTTTTTTGC
* *
123448 GTTCGTTTTTTTGTGTTCGTTTAC
1 GTTCGTTTATTTGTGTTCGTTTAT
*
123472 GTTCGTTTA-TTGTGTTCATTTAT
1 GTTCGTTTATTTGTGTTCGTTTAT
** **
123495 GTTCGTTTACATCCGTTCGTTTAT
1 GTTCGTTTATTTGTGTTCGTTTAT
* *
123519 GTTTGTTCATTTGTGTTCGTTTAT
1 GTTCGTTTATTTGTGTTCGTTTAT
123543 CATTTAAATG
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 21 0.37
24 36 0.63
ACGTcount: A:0.09, C:0.13, G:0.19, T:0.59
Consensus pattern (24 bp):
GTTCGTTTATTTGTGTTCGTTTAT
Found at i:123780 original size:34 final size:33
Alignment explanation
Indices: 123733--123799 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
123723 ATTTAAAAAT
*
123733 TTATTATTATTTTTTTAGATTTCGAGTTTGAAAC
1 TTATTATTATTTTTTAAGATTTCGAGTTT-AAAC
* *
123767 TTATTATTTTTTTTTAAGATTTTGAGTTTAAAC
1 TTATTATTATTTTTTAAGATTTCGAGTTTAAAC
123800 ATAACATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.27, C:0.04, G:0.10, T:0.58
Consensus pattern (33 bp):
TTATTATTATTTTTTAAGATTTCGAGTTTAAAC
Found at i:124287 original size:35 final size:33
Alignment explanation
Indices: 124232--124299 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 33
124222 ATTTAAAAAT
124232 TTATTATTATTTTTTTAGATTTCGAGTTTGAAAC
1 TTATTATTATTTTTTTAGATTTCGAGTTT-AAAC
*
124266 TTATTATT-TTTTTTTAAAGATTTTGAGTTTAAAC
1 TTATTATTATTTTTTT--AGATTTCGAGTTTAAAC
124300 ATAACATGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 7 0.23
34 12 0.39
35 12 0.39
ACGTcount: A:0.28, C:0.04, G:0.10, T:0.57
Consensus pattern (33 bp):
TTATTATTATTTTTTTAGATTTCGAGTTTAAAC
Found at i:124536 original size:30 final size:29
Alignment explanation
Indices: 124496--124553 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
124486 GTAATTATCG
124496 AACTTTTAATTGAA-TCAATCAAACCACCC
1 AACTTTTAATT-AATTCAATCAAACCACCC
124525 AACTATTTAATTAATTCAATCAAACCACC
1 AACT-TTTAATTAATTCAATCAAACCACC
124554 AGCTGTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.29
Consensus pattern (29 bp):
AACTTTTAATTAATTCAATCAAACCACCC
Found at i:124564 original size:500 final size:499
Alignment explanation
Indices: 123624--124621 Score: 1924
Period size: 500 Copynumber: 2.0 Consensus size: 499
123614 TTTATGTTCA
*
123624 TGTTCGTTCATTTGTTCGATTAAAGTTTAACGAATAAACATGAACATACTCTGTTCTTGTTTGTT
1 TGTTCGTTCATTTGTTCGATTAAAGTTTAACGAATAAACATGAACATACTCTGTTCGTGTTTGTT
123689 CAGTTCGTTTACAGGCCTACATGCAACCTTAATAATTTAAAAATTTATTATTATTTTTTTAGATT
66 CAGTTCGTTTACAGGCCTACATGCAACCTTAATAATTTAAAAATTTATTATTATTTTTTTAGATT
123754 TCGAGTTTGAAACTTATTATTTTTTTTTAAGATTTTGAGTTTAAACATAACATATACAAGAACAT
131 TCGAGTTTGAAACTTATTATTTTTTTTTAAGATTTTGAGTTTAAACATAACATATACAAGAACAT
123819 AAAAATTTATTATTAAATGATTAAAAACCTTTGAATAATATTGTTATATTATATTTACCTCATAT
196 AAAAATTTATTATTAAATGATTAAAAACCTTTGAATAATATTGTTATATTATATTTACCTCATAT
*
123884 ATATCATCTATATCTAAACGCAGCTTGTTGTCATTGGTCGTTCGTTCATATTTTTATGGGTAAAC
261 ATATCATCTATATCTAAACGCAGCTTGTTGTCATTGGCCGTTCGTTCATATTTTTATGGGTAAAC
123949 TACACGGGAGACCACTGAACTATGGTAAAAAATCAATGTAACTATCGAACTTTTAATCGAATCAA
326 TACACGGGAGACCACTGAACTATGGTAAAAAATCAATGTAACTATCGAACTTTTAATCGAATCAA
124014 TCAAACCACCCAACTATTTAATTAATTCAATCAAACCACCAGCTGTTAATTTTTAACAGAGGTGG
391 TCAAACCACCCAACTATTTAATTAATTCAATCAAACCACCAGCTGTTAATTTTTAACAGAGGTGG
*
124079 TGATGCGTCCGTTGATAAAATTGGTATGATTATATATTTGGTCG
456 TGATGCGTCCGTTAATAAAATTGGTATGATTATATATTTGGTCG
*
124123 TGTTCGTTCATTTGTTCGATTAAAGTTTAACGAATAAACATGAACATACTTTGTTCGTGTTTGTT
1 TGTTCGTTCATTTGTTCGATTAAAGTTTAACGAATAAACATGAACATACTCTGTTCGTGTTTGTT
124188 CAGTTCGTTTACAGGCCTACATGCAACCTTAATAATTTAAAAATTTATTATTATTTTTTTAGATT
66 CAGTTCGTTTACAGGCCTACATGCAACCTTAATAATTTAAAAATTTATTATTATTTTTTTAGATT
*
124253 TCGAGTTTGAAACTTATTATTTTTTTTTAAAGATTTTGAGTTTAAACATAACATGTACAAGAACA
131 TCGAGTTTGAAACTTATTATTTTTTTTT-AAGATTTTGAGTTTAAACATAACATATACAAGAACA
124318 TAAAAATTTATTATTAAATGATTAAAAACCTTTGAATAATATTGTTATATTATATTTACCTCATA
195 TAAAAATTTATTATTAAATGATTAAAAACCTTTGAATAATATTGTTATATTATATTTACCTCATA
124383 TATATCATCTATATCTAAACGCAGCTTGTTGTCATTGGCCGTTCGTTCATATTTTTATGGGTAAA
260 TATATCATCTATATCTAAACGCAGCTTGTTGTCATTGGCCGTTCGTTCATATTTTTATGGGTAAA
* *
124448 CTACACGGGAGACCACTGAACTATGGTAAAAAATCAATGTAATTATCGAACTTTTAATTGAATCA
325 CTACACGGGAGACCACTGAACTATGGTAAAAAATCAATGTAACTATCGAACTTTTAATCGAATCA
124513 ATCAAACCACCCAACTATTTAATTAATTCAATCAAACCACCAGCTGTTAATTTTTAACAGAGGTG
390 ATCAAACCACCCAACTATTTAATTAATTCAATCAAACCACCAGCTGTTAATTTTTAACAGAGGTG
124578 GTGATGCGTCCGTTAATAAAATTGGTATGATTATATATTTGGTC
455 GTGATGCGTCCGTTAATAAAATTGGTATGATTATATATTTGGTC
124622 CTTAATATTT
Statistics
Matches: 491, Mismatches: 7, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
499 156 0.32
500 335 0.68
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (499 bp):
TGTTCGTTCATTTGTTCGATTAAAGTTTAACGAATAAACATGAACATACTCTGTTCGTGTTTGTT
CAGTTCGTTTACAGGCCTACATGCAACCTTAATAATTTAAAAATTTATTATTATTTTTTTAGATT
TCGAGTTTGAAACTTATTATTTTTTTTTAAGATTTTGAGTTTAAACATAACATATACAAGAACAT
AAAAATTTATTATTAAATGATTAAAAACCTTTGAATAATATTGTTATATTATATTTACCTCATAT
ATATCATCTATATCTAAACGCAGCTTGTTGTCATTGGCCGTTCGTTCATATTTTTATGGGTAAAC
TACACGGGAGACCACTGAACTATGGTAAAAAATCAATGTAACTATCGAACTTTTAATCGAATCAA
TCAAACCACCCAACTATTTAATTAATTCAATCAAACCACCAGCTGTTAATTTTTAACAGAGGTGG
TGATGCGTCCGTTAATAAAATTGGTATGATTATATATTTGGTCG
Found at i:125179 original size:2 final size:2
Alignment explanation
Indices: 125172--125202 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
125162 ATAATCATTA
125172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
125203 ATTACTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:126542 original size:29 final size:29
Alignment explanation
Indices: 126474--126543 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
126464 TCGGTTAATC
*
126474 AAACCAAAATTTATTTGAAAATTATTAACT
1 AAACC-AAATTAATTTGAAAATTATTAACT
* *
126504 -GACCGAATTAATTTGAAAATT-TATAACT
1 AAACCAAATTAATTTGAAAATTAT-TAACT
126532 AAACCAAATTAA
1 AAACCAAATTAA
126544 CCATTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
27 1 0.03
28 20 0.61
29 12 0.36
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (29 bp):
AAACCAAATTAATTTGAAAATTATTAACT
Found at i:126752 original size:24 final size:24
Alignment explanation
Indices: 126725--126770 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
126715 ATCAAACCAA
* *
126725 AATTTATTTGAAAATTATTAACCG
1 AATTAATTTAAAAATTATTAACCG
126749 AATTAATTTAAAAATTATTAAC
1 AATTAATTTAAAAATTATTAAC
126771 TGAACCGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (24 bp):
AATTAATTTAAAAATTATTAACCG
Found at i:126894 original size:28 final size:29
Alignment explanation
Indices: 126851--126921 Score: 99
Period size: 28 Copynumber: 2.4 Consensus size: 29
126841 CCGATTAATT
*
126851 GAACCAAAATTTATTTGAAAATTATT-ACC
1 GAACC-AAATTAATTTGAAAATTATTAACC
* *
126880 GAATCGAATTAATTTGAAAATTATTAACC
1 GAACCAAATTAATTTGAAAATTATTAACC
126909 GAACCAAATTAAT
1 GAACCAAATTAAT
126922 CGAATTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 18 0.50
29 18 0.50
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.32
Consensus pattern (29 bp):
GAACCAAATTAATTTGAAAATTATTAACC
Found at i:127124 original size:17 final size:16
Alignment explanation
Indices: 127087--127131 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
127077 AAAACAATTT
* *
127087 ATAATTAATTTAAATA
1 ATAATTTATTTAAAAA
127103 ATAATTTATTTAAACAA
1 ATAATTTATTTAAA-AA
*
127120 ATAATGTATTTA
1 ATAATTTATTTA
127132 TTTTTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
ATAATTTATTTAAAAA
Found at i:139378 original size:26 final size:26
Alignment explanation
Indices: 139305--139382 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
139295 AATCACGACT
* *
139305 AGAAGATGAAAACGAAGA-GACCGAAA
1 AGAAGAAGAAAACGAAGAGGA-AGAAA
* *
139331 TGAAGAAAGACAACG-AGAAGGAAGAAA
1 AGAAG-AAGAAAACGAAG-AGGAAGAAA
139358 AGAAGAAGAAAACGAAGAGGAAGAA
1 AGAAGAAGAAAACGAAGAGGAAGAA
139383 GAAGGATAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
26 22 0.52
27 18 0.43
28 2 0.05
ACGTcount: A:0.60, C:0.08, G:0.29, T:0.03
Consensus pattern (26 bp):
AGAAGAAGAAAACGAAGAGGAAGAAA
Found at i:139927 original size:2 final size:2
Alignment explanation
Indices: 139922--139953 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
139912 TACTCGTGTG
139922 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
139954 ACCTCTCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:157392 original size:20 final size:20
Alignment explanation
Indices: 157333--157395 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
157323 TTCGTGAGAA
157333 TTTCTAAAAAAGTATAAAAA-
1 TTTCTAAAAAA-TATAAAAAG
* *
157353 TTTCTAGAAATTATAAAAAG
1 TTTCTAAAAAATATAAAAAG
157373 TTTCTAAAAAATATAAAAAG
1 TTTCTAAAAAATATAAAAAG
157393 TTT
1 TTT
157396 GATTAAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.21
20 30 0.79
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (20 bp):
TTTCTAAAAAATATAAAAAG
Found at i:163554 original size:21 final size:20
Alignment explanation
Indices: 163504--163554 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
163494 AAATTCAAAT
163504 ATATTTTAATAAATTTAATAA
1 ATATTTT-ATAAATTTAATAA
*
163525 TTATTTTATAACATTTAA-AA
1 ATATTTTATAA-ATTTAATAA
163545 ATATTATTAT
1 ATATT-TTAT
163555 TAGTAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTTTATAAATTTAATAA
Found at i:165385 original size:174 final size:173
Alignment explanation
Indices: 165094--165617 Score: 849
Period size: 174 Copynumber: 3.0 Consensus size: 173
165084 TAATGCCAAA
** *
165094 GAAAATTTTATATAAAAAC-ATACACTTTATAAAATTTTGCAAAAACGTTGGGGTCTACATTAAA
1 GAAAATTTTATAT-AAAACGA-ACACTTTATAAAATTTTGCAAAAATATT-GGGCCTACATTAAA
*
165158 TAAAAGCACATTTTATAAAAGAAAAGTTTGTTATTGTTAAAAGAAAATTTATAAAAGTATTAATT
63 CAAAAGCACATTTTATAAAAGAAAAGTTTGTTATTGTTAAAAGAAAATTTATAAAAGTATTAATT
* *
165223 TTATAAACTAATACTACTAAACAAAAACATTTAAAAAAGGTAA-AT
128 TTATAAACTAACACTACTAAACAAAAACATTAAAAAAAGGTAACAT
*
165268 GGAAAATTTTATATAAAACGCACACTTTATAAAATTTTGCAAAAATATTGGAGCCTACATTAAAC
1 -GAAAATTTTATATAAAACGAACACTTTATAAAATTTTGCAAAAATATTGG-GCCTACATTAAAC
165333 AAAAGCACATTTTATAAAAGAAAAGTTTGTTATTGTTAAAAGAAAATTTATAAAAGTATTAATTT
64 AAAAGCACATTTTATAAAAGAAAAGTTTGTTATTGTTAAAAGAAAATTTATAAAAGTATTAATTT
*
165398 TATAAACTAACACTACTAAACAAAAATATTAAAAAAAGGTAACAT
129 TATAAACTAACACTACTAAACAAAAACATTAAAAAAAGGTAACAT
*
165443 GAAAATTTTATATAAAACGAACACTTTATAAAATTTTGC-AAAATCATTGGGACCTATATTAAAC
1 GAAAATTTTATATAAAACGAACACTTTATAAAATTTTGCAAAAAT-ATTGGG-CCTACATTAAAC
*
165507 AGAAGCACATTTTATAAAAGAAAAGTTTGTTATTGTTAAAAGAAAATTTATAAAAGTATTAATTT
64 AAAAGCACATTTTATAAAAGAAAAGTTTGTTATTGTTAAAAGAAAATTTATAAAAGTATTAATTT
* *
165572 TATAAAGTAACACTACTAAACAAAAACATTAAAAAAA-GTAATAT
129 TATAAACTAACACTACTAAACAAAAACATTAAAAAAAGGTAACAT
165616 GA
1 GA
165618 TCAACATAAA
Statistics
Matches: 330, Mismatches: 14, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
173 16 0.05
174 299 0.91
175 15 0.05
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (173 bp):
GAAAATTTTATATAAAACGAACACTTTATAAAATTTTGCAAAAATATTGGGCCTACATTAAACAA
AAGCACATTTTATAAAAGAAAAGTTTGTTATTGTTAAAAGAAAATTTATAAAAGTATTAATTTTA
TAAACTAACACTACTAAACAAAAACATTAAAAAAAGGTAACAT
Found at i:168880 original size:14 final size:14
Alignment explanation
Indices: 168875--168985 Score: 82
Period size: 14 Copynumber: 7.9 Consensus size: 14
168865 ATTATTAAAT
* *
168875 TTTAATGATTAAAA
1 TTTAATGATTTAAC
*
168889 TTTAATAATTTAA-
1 TTTAATGATTTAAC
* *
168902 TAATAATTATTTAAC
1 T-TTAATGATTTAAC
168917 TTTAATGATTTAAC
1 TTTAATGATTTAAC
168931 TTTAATGATTTAA-
1 TTTAATGATTTAAC
* * * *
168944 TAATAATTACTTCAC
1 T-TTAATGATTTAAC
* * *
168959 TTTAATAATTAAAA
1 TTTAATGATTTAAC
168973 TTTAATGATTTAA
1 TTTAATGATTTAA
168986 TAATTTAATA
Statistics
Matches: 75, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
13 2 0.03
14 71 0.95
15 2 0.03
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.48
Consensus pattern (14 bp):
TTTAATGATTTAAC
Found at i:168900 original size:8 final size:8
Alignment explanation
Indices: 168883--169030 Score: 74
Period size: 8 Copynumber: 18.0 Consensus size: 8
168873 ATTTTAATGA
168883 TTAA-AAT
1 TTAATAAT
168890 TTAATAAT
1 TTAATAAT
168898 TTAATAAT
1 TTAATAAT
*
168906 AATTATTTAACT
1 --TTA-ATAA-T
*
168918 TTAATGAT
1 TTAATAAT
*
168926 TT-A-ACT
1 TTAATAAT
*
168932 TTAATGAT
1 TTAATAAT
168940 TTAATAAT
1 TTAATAAT
* *
168948 AATTACTTCACT
1 --TTA-AT-AAT
168960 TTAATAA-
1 TTAATAAT
168967 TTAA-AAT
1 TTAATAAT
*
168974 TTAATGAT
1 TTAATAAT
168982 TTAATAAT
1 TTAATAAT
168990 TTAATAAT
1 TTAATAAT
* *
168998 AGTAATGAT
1 -TTAATAAT
*
169007 ATTAA-AGT
1 -TTAATAAT
169015 TTAATAAT
1 TTAATAAT
169023 TTAATAAT
1 TTAATAAT
169031 AGTAATGATA
Statistics
Matches: 106, Mismatches: 20, Indels: 29
0.68 0.13 0.19
Matches are distributed among these distances:
6 5 0.05
7 18 0.17
8 51 0.48
9 13 0.12
10 12 0.11
11 4 0.04
12 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (8 bp):
TTAATAAT
Found at i:168900 original size:42 final size:41
Alignment explanation
Indices: 168854--169031 Score: 191
Period size: 42 Copynumber: 4.3 Consensus size: 41
168844 TCGAGTATAT
*
168854 ATTTAATAATAATTATTAAATTTTAATGATTAAAATTTAATA
1 ATTTAATAATAATTATT-AACTTTAATGATTAAAATTTAATA
* * *
168896 ATTTAATAATAATTATTTAACTTTAATGATTTAACTTTAATG
1 ATTTAATAATAATTA-TTAACTTTAATGATTAAAATTTAATA
* * *
168938 ATTTAATAATAATTACTTCACTTTAATAATTAAAATTTAATG
1 ATTTAATAATAATTA-TTAACTTTAATGATTAAAATTTAATA
* * *
168980 ATTTAATAAT--TTAATAA-TAGTAATGATATTAAAGTTTAATA
1 ATTTAATAATAATTATTAACT-TTAATG--ATTAAAATTTAATA
169021 ATTTAATAATA
1 ATTTAATAATA
169032 GTAATGATAT
Statistics
Matches: 116, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 6 0.05
40 3 0.03
41 22 0.19
42 82 0.71
43 2 0.02
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (41 bp):
ATTTAATAATAATTATTAACTTTAATGATTAAAATTTAATA
Found at i:171415 original size:13 final size:13
Alignment explanation
Indices: 171397--171422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
171387 GTAATGTAAT
171397 AACATATAATCAC
1 AACATATAATCAC
171410 AACATATAATCAC
1 AACATATAATCAC
171423 TAAACCTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
AACATATAATCAC
Found at i:171788 original size:20 final size:20
Alignment explanation
Indices: 171763--171801 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
171753 TCTTTATCAT
*
171763 CTCACCCCGTGAATTCCCTG
1 CTCACCACGTGAATTCCCTG
171783 CTCACCACGTGAATTCCCT
1 CTCACCACGTGAATTCCCT
171802 TTTGCGTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.44, G:0.13, T:0.26
Consensus pattern (20 bp):
CTCACCACGTGAATTCCCTG
Found at i:172317 original size:39 final size:40
Alignment explanation
Indices: 172230--172321 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
172220 GGAAAATAAT
* * *
172230 TTGAAGACGCCGAAACCTCTATGTTTGAATGCAAATTGTG
1 TTGAAGACGCCTAAACATCTATGTTTGAATGCAAATTGTA
* *
172270 TTGAAGACGCCTAAAGATCTGAT-TTTGCATGC-AATTGTA
1 TTGAAGACGCCTAAACATCT-ATGTTTGAATGCAAATTGTA
172309 TTGAAGACGCCTA
1 TTGAAGACGCCTA
172322 GATCTCCCTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 19 0.41
40 25 0.54
41 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (40 bp):
TTGAAGACGCCTAAACATCTATGTTTGAATGCAAATTGTA
Found at i:174404 original size:30 final size:30
Alignment explanation
Indices: 174368--174434 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
174358 AGGTAAAAGG
174368 TCTGCAGTTTACGGACCACATCTGCAGACA
1 TCTGCAGTTTACGGACCACATCTGCAGACA
*
174398 TTTGCAGTTTACGGACCACATCTGCAGACA
1 TCTGCAGTTTACGGACCACATCTGCAGACA
174428 TCTGCAG
1 TCTGCAG
174435 CAGAAGATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (30 bp):
TCTGCAGTTTACGGACCACATCTGCAGACA
Found at i:174660 original size:22 final size:22
Alignment explanation
Indices: 174635--174999 Score: 451
Period size: 22 Copynumber: 16.6 Consensus size: 22
174625 ATAATATGTT
174635 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
*
174657 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
* *
174679 ATTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
174701 TTTTAAAATAAA--ATTTTCTATA
1 TTTTAAAATAAATCA-ATTC-ATA
174723 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
*
174745 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
**
174767 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATTCATA
174789 TTTTAAAATAAATCAA-TCAATA
1 TTTTAAAATAAATCAATTC-ATA
174811 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
174833 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
174855 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
*
174877 TTTTAAAATAAAT--TTTCCATA
1 TTTTAAAATAAATCAATT-CATA
* ***
174898 TTTTAAAATAATTTTTTTTCATA
1 TTTTAAAATAA-ATCAATTCATA
*
174921 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
174943 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
174965 TTTTAAAATAAAT-AAATCTATA
1 TTTTAAAATAAATCAATTC-ATA
174987 TTTTAAAATAAAT
1 TTTTAAAATAAAT
175000 TTTAAAATAA
Statistics
Matches: 308, Mismatches: 22, Indels: 26
0.87 0.06 0.07
Matches are distributed among these distances:
20 3 0.01
21 26 0.08
22 251 0.81
23 24 0.08
24 4 0.01
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTTAAAATAAATCAATTCATA
Found at i:174684 original size:44 final size:44
Alignment explanation
Indices: 174635--174999 Score: 504
Period size: 44 Copynumber: 8.3 Consensus size: 44
174625 ATAATATGTT
174635 TTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
* * ** *
174679 ATTTAAAATAAATCAATCCATATTTTAAAATAAAAT-TTTCTATA
1 TTTTAAAATAAATCAATTCATATTTTAAAAT-AAATCAATCCATA
174723 TTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
** *
174767 TTTTAAAATAAAAT-TTTTCATATTTTAAAATAAATCAATCAATA
1 TTTTAAAAT-AAATCAATTCATATTTTAAAATAAATCAATCCATA
*
174811 TTTTAAAATAAATCAA-TCTATATTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATTC-ATATTTTAAAATAAATCAATCCATA
**
174855 TTTTAAAATAAATCAATTCATATTTTAAAATAAAT-TTTCCATA
1 TTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
* ***
174898 TTTTAAAATAATTTTTTTTCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAA-ATCAATTCATATTTTAAAATAAATCAATCCATA
* * *
174943 TTTTAAAATAAATCAATCCATATTTTAAAATAAATAAATCTATA
1 TTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
174987 TTTTAAAATAAAT
1 TTTTAAAATAAAT
175000 TTTAAAATAA
Statistics
Matches: 281, Mismatches: 32, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
43 26 0.09
44 228 0.81
45 27 0.10
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (44 bp):
TTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
Found at i:174707 original size:66 final size:66
Alignment explanation
Indices: 174635--174999 Score: 515
Period size: 66 Copynumber: 5.5 Consensus size: 66
174625 ATAATATGTT
*
174635 TTTTAAAATAAATCAATTC-ATATTTTAAAATAAATCAATCCATAATTTAAAATAAATCAATCCA
1 TTTTAAAATAAAT-AATTCTATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCA
174699 TA
65 TA
* *
174701 TTTTAAAATAAA-ATTTTCTATATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCA
1 TTTTAAAATAAATA-ATTCTATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCA
174765 TA
65 TA
* * * *
174767 TTTTAAAATAAA-ATTTTTCATATTTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCTA
1 TTTTAAAATAAATAATTCT-ATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCA
174831 TA
65 TA
* **
174833 TTTTAAAATAAATCAA-TCTATATTTTAAAATAAATCAATTCATATTTTAAAATAAAT-TTTCCA
1 TTTTAAAATAAAT-AATTCTATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCA
174896 TA
65 TA
* ** *
174898 TTTTAAAATAATTTTTTTTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCA
1 TTTTAAAATAAATAATTCT-ATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCA
174963 TA
65 TA
*
174965 TTTTAAAATAAATAAATCTATATTTTAAAATAAAT
1 TTTTAAAATAAATAATTCTATATTTTAAAATAAAT
175000 TTTAAAATAA
Statistics
Matches: 265, Mismatches: 26, Indels: 16
0.86 0.08 0.05
Matches are distributed among these distances:
64 1 0.00
65 26 0.10
66 215 0.81
67 22 0.08
68 1 0.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (66 bp):
TTTTAAAATAAATAATTCTATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
A
Found at i:175003 original size:12 final size:12
Alignment explanation
Indices: 174986--175025 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
174976 ATAAATCTAT
174986 ATTTTAAAATAA
1 ATTTTAAAATAA
174998 ATTTTAAAATAA
1 ATTTTAAAATAA
175010 A-TTT-AAAT-A
1 ATTTTAAAATAA
175019 ATTTTAA
1 ATTTTAA
175026 TTTTCCCGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.08
10 7 0.27
11 4 0.15
12 13 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:179324 original size:3 final size:3
Alignment explanation
Indices: 179316--179347 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
179306 CATCTTCGTG
*
179316 CTT CTT CTT CTC CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
179348 CGCCCTCGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:183372 original size:19 final size:20
Alignment explanation
Indices: 183344--183382 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
183334 GCTTTTTTTT
* *
183344 ATTTTTTTTA-AATATAAAA
1 ATTTTCTTTACAAAATAAAA
183363 ATTTTCTTTACAAAATAAAA
1 ATTTTCTTTACAAAATAAAA
183383 TTAAACTCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTTCTTTACAAAATAAAA
Found at i:183576 original size:19 final size:18
Alignment explanation
Indices: 183550--183589 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
183540 AGTAATTATT
*
183550 TTTATTTTTATTTGTATA
1 TTTATTTTTATTTATATA
183568 TTTATTTTTTATTTATATA
1 TTTA-TTTTTATTTATATA
183587 TTT
1 TTT
183590 TAAATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTATTTTTATTTATATA
Found at i:187124 original size:13 final size:14
Alignment explanation
Indices: 187106--187140 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
187096 GATTATAAGT
187106 ATTTGCCT-TGAAG
1 ATTTGCCTCTGAAG
187119 ATTTGCACTCTGAAG
1 ATTTGC-CTCTGAAG
187134 ATTTGCC
1 ATTTGCC
187141 CCAGCAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.30
14 3 0.15
15 11 0.55
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (14 bp):
ATTTGCCTCTGAAG
Found at i:191286 original size:18 final size:18
Alignment explanation
Indices: 191263--191297 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
191253 ACTGAATATT
*
191263 TGTCCCGAATGACCACTA
1 TGTCCCGAAAGACCACTA
191281 TGTCCCGAAAGACCACT
1 TGTCCCGAAAGACCACT
191298 GTTAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAAGACCACTA
Found at i:191598 original size:14 final size:14
Alignment explanation
Indices: 191579--191621 Score: 86
Period size: 14 Copynumber: 3.1 Consensus size: 14
191569 GGAGTCGGTT
191579 ACGATCAAGGAAGG
1 ACGATCAAGGAAGG
191593 ACGATCAAGGAAGG
1 ACGATCAAGGAAGG
191607 ACGATCAAGGAAGG
1 ACGATCAAGGAAGG
191621 A
1 A
191622 TTAACACCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.14, G:0.35, T:0.07
Consensus pattern (14 bp):
ACGATCAAGGAAGG
Found at i:191699 original size:12 final size:12
Alignment explanation
Indices: 191682--191708 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
191672 TAATTGTGAA
191682 AAATTGAAATTT
1 AAATTGAAATTT
191694 AAATTGAAATTT
1 AAATTGAAATTT
191706 AAA
1 AAA
191709 AACTCGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
AAATTGAAATTT
Found at i:193369 original size:20 final size:20
Alignment explanation
Indices: 193327--193370 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
193317 ATTAATAATA
*
193327 ATAATAATAATAAATAAATT
1 ATAATAATAATAAATAAAAT
*
193347 ATAATAGTAA-AAATAAAAAT
1 ATAATAATAATAAAT-AAAAT
193367 ATAA
1 ATAA
193371 AACCCGGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
ATAATAATAATAAATAAAAT
Found at i:193734 original size:84 final size:84
Alignment explanation
Indices: 193600--193787 Score: 250
Period size: 84 Copynumber: 2.2 Consensus size: 84
193590 CTGAATAAAA
* * * * *
193600 TCGAACTCGTCAGGTCTTTGATTGGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATG
1 TCGAACTC-TAAGGTCTTTGATTAGCAAATAACCCTTCTAGACTTAAGCTATGTTGCAAATGATG
193665 TGCCTCAGAGCTGAGCGTAG
65 TGCCTCAGAGCTGAGCGTAG
* * * *
193685 TCGAACTCTAAGGTCTTTGGTTAGCAAATAACTCTTCTAGCCTTGAGCTATGTTGCAAATGATGT
1 TCGAACTCTAAGGTCTTTGATTAGCAAATAACCCTTCTAGACTTAAGCTATGTTGCAAATGATGT
* **
193750 GTCTTGGAGCTGAGCGTAG
66 GCCTCAGAGCTGAGCGTAG
*
193769 TCGAACTCGAAGGTCTTTG
1 TCGAACTCTAAGGTCTTTG
193788 TGTTTCAAGA
Statistics
Matches: 90, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 82 0.91
85 8 0.09
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (84 bp):
TCGAACTCTAAGGTCTTTGATTAGCAAATAACCCTTCTAGACTTAAGCTATGTTGCAAATGATGT
GCCTCAGAGCTGAGCGTAG
Found at i:193922 original size:37 final size:36
Alignment explanation
Indices: 193830--193943 Score: 131
Period size: 36 Copynumber: 3.2 Consensus size: 36
193820 GTGTTTCAAG
* * **
193830 AGAAACTGTCTCAAGAGAGACAAAATTTGTTTTACG
1 AGAAAATGTCTCAAGAGAGACAAAATTTGTTCTAAA
193866 AGAAAATGTCTCAAGAGAGACAAAATTTAGTTCTAAA
1 AGAAAATGTCTCAAGAGAGACAAAATTT-GTTCTAAA
* * * *
193903 ATAAATTGTCTCAAGAGAGACGAGATTTGTT-TAAA
1 AGAAAATGTCTCAAGAGAGACAAAATTTGTTCTAAA
*
193938 GGAAAA
1 AGAAAA
193944 CATATTCAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
35 7 0.11
36 30 0.45
37 29 0.44
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (36 bp):
AGAAAATGTCTCAAGAGAGACAAAATTTGTTCTAAA
Found at i:194010 original size:37 final size:36
Alignment explanation
Indices: 193957--194175 Score: 240
Period size: 37 Copynumber: 6.2 Consensus size: 36
193947 ATTCAAAGAT
*
193957 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
193993 TTTCGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTT-GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * **
194030 CTTAGTTTCGAA-AGAAACTGTCTCAAGAGAGACGGAA
1 -TTTGTTTC-AAGGGAAACTGTCTCAAGAGAGACAAAA
* *
194067 TTTGTTTCAAGGGAAACATAT-TC-A-A-AG----AT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
* *
194096 TTTGTTTCTAGGGAAACTGTCTCAAGGGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
194132 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
194168 CTTTGTTT
1 -TTTGTTT
194176 TGAGTAAATT
Statistics
Matches: 153, Mismatches: 16, Indels: 27
0.78 0.08 0.14
Matches are distributed among these distances:
28 2 0.01
29 19 0.12
30 1 0.01
32 2 0.01
33 2 0.01
34 1 0.01
35 3 0.02
36 51 0.33
37 68 0.44
38 4 0.03
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:194057 original size:139 final size:139
Alignment explanation
Indices: 193821--194175 Score: 536
Period size: 139 Copynumber: 2.6 Consensus size: 139
193811 AGGTTTTTTG
* * * *
193821 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTACGAGAAAATGTCTCAAGAGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
* * *
193886 CAAAATTTAG-TTCTAAAATAAATTGTCTCAAGAGAGAC-GAGATTTGTTTAAAGGAAAACATAT
66 CAAAACTTAGTTTCTAAAAGAAACTGTCTCAAGAGAGACGGA-ATTTGTTTAAAGGAAAACATAT
193949 TCAAAGATTT
130 TCAAAGATTT
* *
193959 TGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAATTTCGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT-GTTTCAAGAGAAACTGTCTCAAGAGAG
* * *
194024 ACAAAACTTAGTTTC-GAAAGAAACTGTCTCAAGAGAGACGGAATTTGTTTCAAGGGAAACATAT
65 ACAAAACTTAGTTTCTAAAAGAAACTGTCTCAAGAGAGACGGAATTTGTTTAAAGGAAAACATAT
194088 TCAAAGATTT
130 TCAAAGATTT
* *
194098 TGTTTCTAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
*
194163 CAAAACTTTGTTT
66 CAAAACTTAGTTT
194176 TGAGTAAATT
Statistics
Matches: 197, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
138 74 0.38
139 118 0.60
140 5 0.03
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (139 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
CAAAACTTAGTTTCTAAAAGAAACTGTCTCAAGAGAGACGGAATTTGTTTAAAGGAAAACATATT
CAAAGATTT
Found at i:194173 original size:102 final size:102
Alignment explanation
Indices: 193992--194175 Score: 282
Period size: 102 Copynumber: 1.8 Consensus size: 102
193982 GAGAGATAAA
193992 ATTTCGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTAGTTTCGAAAGAAACTGTCTCAAG
1 ATTTCGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTAGTTTCGAAAGAAACTGTCTCAAG
**
194057 AGAGACGGAATTTGTTTCAAGGGAAACATATTCAAAG
66 AGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAG
* * * *
194094 ATTTTGTTTCTAGGGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTC-AAGAGAAACTGTCTCAA
1 ATTTCGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTAGTTTCGAA-AGAAACTGTCTCAA
194157 GAGAGACAAAACTTTGTTT
65 GAGAGACAAAA-TTTGTTT
194176 TGAGTAAATT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
100 2 0.03
101 30 0.41
102 42 0.57
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (102 bp):
ATTTCGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTAGTTTCGAAAGAAACTGTCTCAAG
AGAGACAAAATTTGTTTCAAGGGAAACATATTCAAAG
Found at i:194846 original size:105 final size:106
Alignment explanation
Indices: 194510--194896 Score: 485
Period size: 105 Copynumber: 3.6 Consensus size: 106
194500 TTAAAATCTA
* * * * *
194510 AGCTTGTGTTGT-TTCGAGTCTAATATCCTTCG-TCGTGAAGTTAAAATTGGTTCTGAAACTGGG
1 AGCTTGTGCTGTCTT-GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGG
* * * *
194573 ATA-TTATTTGTTGACAGTCAACCGCCCCTTAGTTGTGAAGTTG
64 A-AGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTG
* ** * * * * *
194616 AGCTTGTGTTGTCTCAAGTCTAATATCATTCGCTGTGAAGTTGAAATTGACTCTAAATAAAATTT
1 AGCTTGTGCTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC----TGAAATTG
** *
194681 AAAAGTTGTTTGTTGACAATCAGCCGCCCCTTCGCTGTGAAGTTG
62 GGAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTG
*
194726 AGCTTGTGCTATCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
1 AGCTTGTGCTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
194791 GTTGTTTG-TGACAGTCAGCCGCCCCTTCGCTGTGAAGTTG
66 GTTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTG
*
194831 AGCTTGTGCTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAA
1 AGCTTGTGCTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
194896 G
66 G
194897 CCCATTCGCC
Statistics
Matches: 244, Mismatches: 30, Indels: 15
0.84 0.10 0.05
Matches are distributed among these distances:
105 95 0.39
106 59 0.24
107 2 0.01
109 1 0.00
110 87 0.36
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (106 bp):
AGCTTGTGCTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
GTTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTG
Found at i:195280 original size:16 final size:17
Alignment explanation
Indices: 195261--195300 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
195251 TAATAAAAAA
195261 ATAAAATAAAAAGAT-T
1 ATAAAATAAAAAGATAT
*
195277 ATAATAATAAAAATATAT
1 ATAA-AATAAAAAGATAT
195295 ATAAAA
1 ATAAAA
195301 CCCGGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 12 0.57
18 5 0.24
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
ATAAAATAAAAAGATAT
Found at i:195282 original size:30 final size:29
Alignment explanation
Indices: 195222--195300 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
195212 AAGATGCATT
* * * *
195222 ATAAT-AATAAATAAATAATAATATTTTA
1 ATAATAAAAAAATAAATAAAAAGATTATA
195250 ATAATAAAAAAATAAAATAAAAAGATTATA
1 ATAATAAAAAAAT-AAATAAAAAGATTATA
* *
195280 ATAATAAAAATATATATAAAA
1 ATAATAAAAAAATAAATAAAA
195301 CCCGGTAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
28 5 0.12
29 13 0.30
30 25 0.58
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (29 bp):
ATAATAAAAAAATAAATAAAAAGATTATA
Found at i:195293 original size:14 final size:14
Alignment explanation
Indices: 195222--195298 Score: 59
Period size: 14 Copynumber: 5.3 Consensus size: 14
195212 AAGATGCATT
195222 ATAATAATAAATA-A
1 ATAATAA-AAATATA
* * *
195236 ATAATAATATTTTA
1 ATAATAAAAATATA
*
195250 ATAATAAAAAAATA
1 ATAATAAAAATATA
195264 A-AATAAAAAGATTATA
1 ATAAT-AAAA-A-TATA
195280 ATAATAAAAATATA
1 ATAATAAAAATATA
195294 TATAA
1 -ATAA
195299 AACCCGGTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
13 5 0.10
14 27 0.55
15 6 0.12
16 8 0.16
17 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (14 bp):
ATAATAAAAATATA
Found at i:198279 original size:24 final size:23
Alignment explanation
Indices: 198251--198305 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 23
198241 TATTAGTACA
198251 AGTATCGATATTACTTATTATAGT-
1 AGTATCGATA-TACTTATTATA-TC
*
198275 AGTATTG--ATACTTATTATATC
1 AGTATCGATATACTTATTATATC
198296 AGTATCGATA
1 AGTATCGATA
198306 CTACATTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
20 1 0.04
21 17 0.65
22 1 0.04
23 1 0.04
24 6 0.23
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.44
Consensus pattern (23 bp):
AGTATCGATATACTTATTATATC
Found at i:198286 original size:21 final size:21
Alignment explanation
Indices: 198262--198307 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
198252 GTATCGATAT
*
198262 TACTTATTATAGT-AGTATTGA
1 TACTTATTATA-TCAGTATCGA
198283 TACTTATTATATCAGTATCGA
1 TACTTATTATATCAGTATCGA
198304 TACT
1 TACT
198308 ACATTTCCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (21 bp):
TACTTATTATATCAGTATCGA
Found at i:199695 original size:21 final size:21
Alignment explanation
Indices: 199671--199710 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
199661 TTGAACCGGA
199671 TTTTATATTAAATAATATTTT
1 TTTTATATTAAATAATATTTT
* *
199692 TTTTATTTTATATAATATT
1 TTTTATATTAAATAATATT
199711 CAAAGTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTATATTAAATAATATTTT
Found at i:200123 original size:24 final size:24
Alignment explanation
Indices: 200091--200146 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
200081 ACTATCTTTC
* *
200091 GCTTCAATTTAGCTCAAATTTTAG
1 GCTTCAATTGAGCTAAAATTTTAG
200115 GCTTCAATTGAGCTAAAATTTTAG
1 GCTTCAATTGAGCTAAAATTTTAG
200139 GCTTCAAT
1 GCTTCAAT
200147 CGAACTTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (24 bp):
GCTTCAATTGAGCTAAAATTTTAG
Found at i:206177 original size:230 final size:232
Alignment explanation
Indices: 205742--206203 Score: 910
Period size: 230 Copynumber: 2.0 Consensus size: 232
205732 ACACACTCTT
205742 ACTGCTAAAAGCCAATCAGATGCCTGTAACAGCTAGCAAGTTACGTCAATTGTTAAAATCTAAAC
1 ACTGCTAAAAGCCAATCAGATGCCTGTAACAGCTAGCAAGTTACGTCAATTGTTAAAATCTAAAC
205807 ACCCTTACGTGGAGCGATATCTCGTTGATGTTGTTGACATCATCAGACATTCATTGCAAAATGTA
66 ACCCTTACGTGGAGCGATATCTCGTTGATGTTGTTGACATCATCAGACATTCATTGCAAAATGTA
205872 TTGCATTTGAAGCTGCTGCTCAACAACTTAGAATGGGGCGTCTGCTAAATGTAAGACTCGTTACA
131 TTGCATTTGAAGCTGCTGCTCAACAACTTAGAATGGGGCGTCTGCTAAATGTAAGACTCGTTACA
205937 CTGATTGAAATCCCAAATCTGGTTAATAGTATATTTC
196 CTGATTGAAATCCCAAATCTGGTTAATAGTATATTTC
205974 ACTGCTAAAAGCCAATCAGATGCCTGTAACAGCTAGCAAGTTACGTCAATTG-TAAAATCTAAAC
1 ACTGCTAAAAGCCAATCAGATGCCTGTAACAGCTAGCAAGTTACGTCAATTGTTAAAATCTAAAC
206038 ACCCTTACGTGGAGCGATATCTCGTTGATGTTGTTGACATCATCAGACATTCATTGCAAAATGT-
66 ACCCTTACGTGGAGCGATATCTCGTTGATGTTGTTGACATCATCAGACATTCATTGCAAAATGTA
206102 TTGCATTTGAAGCTGCTGCTCAACAACTTAGAATGGGGCGTCTGCTAAATGTAAGACTCGTTACA
131 TTGCATTTGAAGCTGCTGCTCAACAACTTAGAATGGGGCGTCTGCTAAATGTAAGACTCGTTACA
206167 CTGATTGAAATCCCAAATCTGGTTAATAGTATATTTC
196 CTGATTGAAATCCCAAATCTGGTTAATAGTATATTTC
206204 GTTAATCTGT
Statistics
Matches: 230, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
230 102 0.44
231 76 0.33
232 52 0.23
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (232 bp):
ACTGCTAAAAGCCAATCAGATGCCTGTAACAGCTAGCAAGTTACGTCAATTGTTAAAATCTAAAC
ACCCTTACGTGGAGCGATATCTCGTTGATGTTGTTGACATCATCAGACATTCATTGCAAAATGTA
TTGCATTTGAAGCTGCTGCTCAACAACTTAGAATGGGGCGTCTGCTAAATGTAAGACTCGTTACA
CTGATTGAAATCCCAAATCTGGTTAATAGTATATTTC
Found at i:208285 original size:101 final size:97
Alignment explanation
Indices: 208113--208307 Score: 336
Period size: 101 Copynumber: 2.0 Consensus size: 97
208103 TTTATGAGTG
*
208113 CAGCTATGGCTTCTCTTTAGACCCTTTGAGGTAAAAAAAAAGGTTTATTGAAAGAGTATGGAACT
1 CAGCTATGGCTTCTCTTTAGACCCTTTGAGGTAAAAAAAAAGGTTTATTGAAAGAGTAAGGAACT
*
208178 TGTTTGTGAAAATTCCCAAGTTTTTTTTTGTT
66 TGTTTGTGAAAATCCCCAAGTTTTTTTTTGTT
208210 CAGCTATGGCTTCTCTTTAGACCCTTTGAGGTAAAAAAAAGAAAAGGTTTATTGAAAGAGTAAGG
1 CAGCTATGGCTTCTCTTTAGACCCTTTGAGGT---AAAAA-AAAAGGTTTATTGAAAGAGTAAGG
208275 AACTTGTTTGTGAAAATCCCCAAGTTTTTTTTT
62 AACTTGTTTGTGAAAATCCCCAAGTTTTTTTTT
208308 CATTGAAAAA
Statistics
Matches: 92, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
97 32 0.35
100 5 0.05
101 55 0.60
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (97 bp):
CAGCTATGGCTTCTCTTTAGACCCTTTGAGGTAAAAAAAAAGGTTTATTGAAAGAGTAAGGAACT
TGTTTGTGAAAATCCCCAAGTTTTTTTTTGTT
Found at i:214081 original size:15 final size:15
Alignment explanation
Indices: 214063--214095 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
214053 AAATTCTAAA
214063 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
214078 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
214093 TAT
1 TAT
214096 ATTTGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:217918 original size:216 final size:218
Alignment explanation
Indices: 217544--217954 Score: 799
Period size: 216 Copynumber: 1.9 Consensus size: 218
217534 ATAGGTCAAT
*
217544 ATCAATGAAATAATGCAGGAATTAGTTTTATCTAACCAAAGATTAATCCATAATCAATTAGCCAA
1 ATCAATGAAATAATGCAGGAATTAGGTTTATCTAACCAAAGATTAATCCATAATCAATTAGCCAA
217609 GACACTTTCGAAACTTAATCAAGTCTTTCCATGACCACGTATCTGTCTTAACATAAATCTGAATC
66 GACACTTTCGAAACTTAATCAAGTCTTTCCATGACCACGTATCTGTCTTAACATAAATCTGAATC
217674 TCATTTTGAACCCACCCTAAGGTAACTAATC-A-ACATCCACTGCGAAATTCATTCGAAAAAATG
131 TCATTTTGAACCCACCCTAAGGTAACTAATCAACACATCCACTGCGAAATTCATTCGAAAAAATG
217737 AATTAGCCAAAGATTAATTCACA
196 AATTAGCCAAAGATTAATTCACA
217760 ATCAATGAAATAATGCAGGAATTAGGTTTATCTAACCAAAGATTAATCCATAATCAATTAGCCAA
1 ATCAATGAAATAATGCAGGAATTAGGTTTATCTAACCAAAGATTAATCCATAATCAATTAGCCAA
217825 GACACTTTCGAAACTTAATCAAGTCTTTCCATGACCACGTATCTGTCTTAACATAAATCTGAATC
66 GACACTTTCGAAACTTAATCAAGTCTTTCCATGACCACGTATCTGTCTTAACATAAATCTGAATC
217890 TCATTTTGAACCCACCCTAAGGTAACTAATCAACACATCCACTGCGAAATTCATTCGAAAAAATG
131 TCATTTTGAACCCACCCTAAGGTAACTAATCAACACATCCACTGCGAAATTCATTCGAAAAAATG
217955 GATTCACAAA
Statistics
Matches: 192, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
216 160 0.83
217 1 0.01
218 31 0.16
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (218 bp):
ATCAATGAAATAATGCAGGAATTAGGTTTATCTAACCAAAGATTAATCCATAATCAATTAGCCAA
GACACTTTCGAAACTTAATCAAGTCTTTCCATGACCACGTATCTGTCTTAACATAAATCTGAATC
TCATTTTGAACCCACCCTAAGGTAACTAATCAACACATCCACTGCGAAATTCATTCGAAAAAATG
AATTAGCCAAAGATTAATTCACA
Found at i:218977 original size:21 final size:21
Alignment explanation
Indices: 218953--219010 Score: 88
Period size: 17 Copynumber: 3.0 Consensus size: 21
218943 CTCGTATAAA
218953 TGCACCGAAGTGCCCGTAGAT
1 TGCACCGAAGTGCCCGTAGAT
218974 TGCACCGAAGT--CCG-A-AT
1 TGCACCGAAGTGCCCGTAGAT
218991 TGCACCGAAGTGCCCGTAGA
1 TGCACCGAAGTGCCCGTAGA
219011 ATTATGTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 13 0.39
18 1 0.03
19 6 0.18
20 1 0.03
21 12 0.36
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.17
Consensus pattern (21 bp):
TGCACCGAAGTGCCCGTAGAT
Found at i:219341 original size:15 final size:16
Alignment explanation
Indices: 219323--219357 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
219313 TATACATATC
219323 ATGTCA-TATCATAAT
1 ATGTCAGTATCATAAT
219338 ATGTCATGTATCATAAT
1 ATGTCA-GTATCATAAT
219355 ATG
1 ATG
219358 GGATGTGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
17 12 0.67
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (16 bp):
ATGTCAGTATCATAAT
Found at i:219363 original size:17 final size:17
Alignment explanation
Indices: 219329--219370 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
219319 TATCATGTCA
*
219329 TATCATAATATGTCATG
1 TATCATAATATGGCATG
*
219346 TATCATAATATGGGATG
1 TATCATAATATGGCATG
219363 TGATCATA
1 T-ATCATA
219371 TGTCAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (17 bp):
TATCATAATATGGCATG
Found at i:219818 original size:66 final size:66
Alignment explanation
Indices: 219648--219796 Score: 212
Period size: 66 Copynumber: 2.3 Consensus size: 66
219638 TTTTTCTCAT
* *
219648 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGGTATCGGTT-CCCCCCTGGGGGTA-CGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
219713 TGA
64 TGA
* * * *
219716 GGGGGTATCGGTTCCCCCCTGGGGGTACGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTTG
1 GGGGGTATCGGTTCCCCCCTGGGGGTACGATTCCCCTCAAGCAATCTGGAAATTCATATACGATG
219780 A
66 A
219781 -GGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
219797 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
64 16 0.21
65 6 0.08
66 27 0.36
67 14 0.19
68 12 0.16
ACGTcount: A:0.17, C:0.27, G:0.28, T:0.28
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACGATTCCCCTCAAGCAATCTGGAAATTCATATACGATG
A
Found at i:225846 original size:21 final size:22
Alignment explanation
Indices: 225807--225872 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
225797 CTCGTATAAA
225807 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
225829 TGCACCGAAGTG-CCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
225850 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
225872 T
1 T
225873 ATGTCCATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
21 21 0.49
22 22 0.51
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.20
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:226657 original size:66 final size:67
Alignment explanation
Indices: 226509--226682 Score: 217
Period size: 67 Copynumber: 2.6 Consensus size: 67
226499 TTTTTCTCAT
* * *
226509 GGGGGAATCGGTTCCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACG
1 GGGGGTATCGGTT--CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACG
226574 ATGA
64 ATGA
* * * *
226578 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
226642 GA
66 GA
* *
226644 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
226683 AACCCAGAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
65 6 0.06
66 19 0.20
67 57 0.61
69 12 0.13
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:229631 original size:7 final size:7
Alignment explanation
Indices: 229619--229645 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
229609 GTTTCTTTGT
229619 TGCTTCA
1 TGCTTCA
229626 TGCTTCA
1 TGCTTCA
229633 TGCTTCA
1 TGCTTCA
229640 TGCTTC
1 TGCTTC
229646 CTCCCTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.30, G:0.15, T:0.44
Consensus pattern (7 bp):
TGCTTCA
Found at i:231603 original size:21 final size:20
Alignment explanation
Indices: 231579--231651 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 20
231569 AAAGATTTTT
* *
231579 AATATATTTTTATAATGTTAA
1 AATATATTATT-TAATATTAA
231600 AATATATTATTTAATATTAA
1 AATATATTATTTAATATTAA
* * *
231620 AATTATAATAATTATTA-TAA
1 AA-TATATTATTTAATATTAA
*
231640 AATTTATTATTT
1 AATATATTATTT
231652 TAATTATTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 7 0.16
20 15 0.35
21 21 0.49
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (20 bp):
AATATATTATTTAATATTAA
Found at i:237900 original size:2 final size:2
Alignment explanation
Indices: 237893--237928 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
237883 ACCGATAATC
237893 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
237929 GATTAACACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:243315 original size:15 final size:15
Alignment explanation
Indices: 243291--243324 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
243281 GACATTACCT
*
243291 GCCCCGCATCCGCCC
1 GCCCCACATCCGCCC
*
243306 GCCCCACATCTGCCC
1 GCCCCACATCCGCCC
243321 GCCC
1 GCCC
243325 AACTAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.65, G:0.18, T:0.09
Consensus pattern (15 bp):
GCCCCACATCCGCCC
Done.