Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2437
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: 35725
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:191 original size:20 final size:20
Alignment explanation
Indices: 151--192 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
141 AGAATCGATA
*
151 AAATTTTAATAAAAACTTTT
1 AAATTTTAATAAAAACATTT
171 AAATTTTATATAAAAA-ATTT
1 AAATTTTA-ATAAAAACATTT
191 AA
1 AA
193 CCCAATCTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATTTTAATAAAAACATTT
Found at i:286 original size:21 final size:23
Alignment explanation
Indices: 260--316 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 23
250 AACCGGTATA
260 TATTAATAAATTTT-T-TAATAT
1 TATTAATAAATTTTATATAATAT
* *
281 TATTAATTATTTTTATATAATAT
1 TATTAATAAATTTTATATAATAT
304 T-TTAA-AAATTTTA
1 TATTAATAAATTTTA
317 AAATTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 18 0.60
22 5 0.17
23 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTAATAAATTTTATATAATAT
Found at i:1269 original size:15 final size:15
Alignment explanation
Indices: 1251--1284 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1241 ATTATTTTAT
*
1251 ATCACTTTATTTCTC
1 ATCACTCTATTTCTC
*
1266 ATCACTCTATTTTTC
1 ATCACTCTATTTCTC
1281 ATCA
1 ATCA
1285 ATTTTTTTAA
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:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (15 bp):
ATCACTCTATTTCTC
Found at i:1986 original size:20 final size:19
Alignment explanation
Indices: 1959--2028 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 19
1949 TTTACTCAGA
1959 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
* *
1979 TATATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
1999 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
2019 TGTATCGATA
1 TGTATCGATA
2029 TATTCAAGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:4408 original size:51 final size:51
Alignment explanation
Indices: 4317--4496 Score: 177
Period size: 51 Copynumber: 3.5 Consensus size: 51
4307 TAAATTTCTA
* * * **
4317 AATTTTTCAC-CTTGGGGATACTCCAA-TCCCAGTTCCATTTCCAAAACATC
1 AATTTTTCACAATCGGGGATACTCCAACTCCGA-TTTTATTTCCAAAACATC
** * *
4367 AATTTTTCTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAGCATC
1 AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATC
* * * * *
4418 GATTTATCACAATCGGAGATACTCTAACTCCGATTTTATTTTCAAAACA-C
1 AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATC
* *
4468 TAATTTTTCACAATTGAGGATACTCCAAC
1 -AATTTTTCACAATCGGGGATACTCCAAC
4497 CCTGTTATTT
Statistics
Matches: 103, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
50 9 0.09
51 90 0.87
52 4 0.04
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.35
Consensus pattern (51 bp):
AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATC
Found at i:4517 original size:28 final size:27
Alignment explanation
Indices: 4485--4556 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 27
4475 TCACAATTGA
4485 GGATACTCCAACCCTGTTATTTCATCG-G
1 GGATACTCCAACCCTGTTATTT--TCGAG
*
4513 GGATACTCCAACCCCGTTATTTTCGAG
1 GGATACTCCAACCCTGTTATTTTCGAG
4540 GGAATACTCCAACCCTG
1 GG-ATACTCCAACCCTG
4557 GCTTTATATC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 3 0.08
27 3 0.08
28 34 0.85
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (27 bp):
GGATACTCCAACCCTGTTATTTTCGAG
Found at i:4631 original size:28 final size:29
Alignment explanation
Indices: 4590--4665 Score: 104
Period size: 28 Copynumber: 2.7 Consensus size: 29
4580 TTTTTTCATA
*
4590 ATCGGGG-TACTCCAACCCCGTTATTT-C
1 ATCGGGGATACTCCAAACCCGTTATTTCC
*
4617 ATCGGGGATACTCCAATCCCGTTATTTCC
1 ATCGGGGATACTCCAAACCCGTTATTTCC
*
4646 A-AGGGGATACTCCAAACCCG
1 ATCGGGGATACTCCAAACCCG
4666 ATTTTATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 7 0.16
28 35 0.80
29 2 0.05
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (29 bp):
ATCGGGGATACTCCAAACCCGTTATTTCC
Found at i:4763 original size:51 final size:50
Alignment explanation
Indices: 4648--4764 Score: 189
Period size: 51 Copynumber: 2.3 Consensus size: 50
4638 TTATTTCCAA
* *
4648 GGGGATACTCCAAACCCGATTTTATTTCTAAAATACCAATTTCCCACAATC
1 GGGGATACTCC-AACCCGATTTTATTTCCAAAACACCAATTTCCCACAATC
*
4699 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAAC-CCGATTTTATTTCCAAAACACCAATTTCCCACAATC
4750 GGGGATACTCCAACC
1 GGGGATACTCCAACC
4765 TCGTTATTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
50 4 0.06
51 58 0.94
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (50 bp):
GGGGATACTCCAACCCGATTTTATTTCCAAAACACCAATTTCCCACAATC
Found at i:4781 original size:79 final size:79
Alignment explanation
Indices: 4698--4918 Score: 227
Period size: 79 Copynumber: 2.8 Consensus size: 79
4688 TTCCCACAAT
*
4698 CGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAA
1 CGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCATAATCGGGGATACTCCAA
*
4763 -CCTCGTTATTTTCG
66 CCCT-ATTATTTTCG
* * * * ** *
4777 CGGGGATACTCCAAC-CCTGATTTTATTTTCAAAATACTATTTTCT-ATAATTAGGGATACTCTA
1 CGGGGATACTCCAACTCC-GATTTTATTTCCAAAACACCAATTTCTCATAATCGGGGATACTCCA
4840 ACCCTATTATTTTCG
65 ACCCTATTATTTTCG
* * * * *
4855 AGGGGATACTCCAA-TCCCAATTTTTATTTCTAGAAACACCGATTT-TCCATAATCGAGGATACT
1 CGGGGATACTCCAACT-CCGA-TTTTATTTCCA-AAACACCAATTTCT-CATAATCGGGGATACT
4918 C
62 C
4919 TAGCCCAGTT
Statistics
Matches: 114, Mismatches: 20, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
78 40 0.35
79 53 0.46
80 8 0.07
81 13 0.11
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (79 bp):
CGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCATAATCGGGGATACTCCAA
CCCTATTATTTTCG
Found at i:7834 original size:13 final size:13
Alignment explanation
Indices: 7816--7863 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
7806 AAAATTTTAT
7816 TTTCTTTTAAGAA
1 TTTCTTTTAAGAA
* *
7829 TTTCTTTTGATAA
1 TTTCTTTTAAGAA
*
7842 TTTTATTTTAAGAA
1 -TTTCTTTTAAGAA
7856 -TTCTTTTA
1 TTTCTTTTA
7864 TACATTTCGT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 7 0.25
13 11 0.39
14 10 0.36
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.60
Consensus pattern (13 bp):
TTTCTTTTAAGAA
Found at i:7857 original size:14 final size:14
Alignment explanation
Indices: 7814--7857 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
7804 GAAAAATTTT
7814 ATTTTCTTTTAAGA
1 ATTTTCTTTTAAGA
* *
7828 A-TTTCTTTTGATA
1 ATTTTCTTTTAAGA
*
7841 ATTTTATTTTAAGA
1 ATTTTCTTTTAAGA
7855 ATT
1 ATT
7858 CTTTTATACA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.59
Consensus pattern (14 bp):
ATTTTCTTTTAAGA
Found at i:7870 original size:26 final size:27
Alignment explanation
Indices: 7814--7870 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
7804 GAAAAATTTT
*
7814 ATTTTCTTTTAAGAATTTCTTTTGATA
1 ATTTTATTTTAAGAATTTCTTTTGATA
7841 ATTTTATTTTAAGAA-TTCTTTT-ATA
1 ATTTTATTTTAAGAATTTCTTTTGATA
7866 CATTT
1 -ATTT
7871 CGTTTTCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 3 0.11
26 11 0.39
27 14 0.50
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (27 bp):
ATTTTATTTTAAGAATTTCTTTTGATA
Found at i:7876 original size:26 final size:26
Alignment explanation
Indices: 7816--7876 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
7806 AAAATTTTAT
7816 TTTCTTTTAAGAATTTCTTTTGATAA
1 TTTCTTTTAAGAATTTCTTTTGATAA
*
7842 TTTTATTTTAAGAA-TTCTTTT-ATACA
1 -TTTCTTTTAAGAATTTCTTTTGATA-A
7868 TTTCGTTTT
1 TTTC-TTTT
7877 CATCAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 6 0.20
26 12 0.40
27 12 0.40
ACGTcount: A:0.25, C:0.08, G:0.07, T:0.61
Consensus pattern (26 bp):
TTTCTTTTAAGAATTTCTTTTGATAA
Found at i:11338 original size:19 final size:19
Alignment explanation
Indices: 11294--11349 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
11284 CTGCCAGTTT
**
11294 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
11314 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
11333 CATGTATCGATACAATG
1 CATGTATCGATACAATG
11350 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:11352 original size:13 final size:13
Alignment explanation
Indices: 11334--11360 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11324 TACAATGAAC
11334 ATGTATCGATACA
1 ATGTATCGATACA
11347 ATGTATCGATACA
1 ATGTATCGATACA
11360 A
1 A
11361 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:11375 original size:33 final size:32
Alignment explanation
Indices: 11315--11379 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
11305 ACAATTGTCC
*
11315 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
11347 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
11380 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:15979 original size:13 final size:13
Alignment explanation
Indices: 15961--15986 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15951 TACAGCAAGT
15961 ATGTATCGATACA
1 ATGTATCGATACA
15974 ATGTATCGATACA
1 ATGTATCGATACA
15987 CAAAAAAAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:18230 original size:21 final size:21
Alignment explanation
Indices: 18197--18241 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
18187 TTGCAAGTTG
*
18197 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
18219 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
18239 AAA
1 AAA
18242 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:22173 original size:13 final size:13
Alignment explanation
Indices: 22155--22193 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
22145 ACATTTTTCT
*
22155 TTGTATCAATACA
1 TTGTATCGATACA
22168 TTGTATCGATACA
1 TTGTATCGATACA
22181 TTGTATCGATACA
1 TTGTATCGATACA
22194 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:22357 original size:20 final size:20
Alignment explanation
Indices: 22314--22359 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
22304 AAATCTTTTG
22314 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
22335 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
22355 CAAAA
1 CAAAA
22360 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:23980 original size:12 final size:12
Alignment explanation
Indices: 23963--23987 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23953 AAGGGGGAGA
23963 GAAAATAGATAT
1 GAAAATAGATAT
23975 GAAAATAGATAT
1 GAAAATAGATAT
23987 G
1 G
23988 TGCAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.20, T:0.24
Consensus pattern (12 bp):
GAAAATAGATAT
Found at i:24767 original size:13 final size:13
Alignment explanation
Indices: 24749--24774 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24739 TACAGCAAGT
24749 ATGTATCGATACA
1 ATGTATCGATACA
24762 ATGTATCGATACA
1 ATGTATCGATACA
24775 CAAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:27940 original size:20 final size:20
Alignment explanation
Indices: 27915--27967 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
27905 TCCCGTAGCC
27915 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
*
27935 ATGTATCAATACAATTCATA
1 ATGTATCGATACAATTCATA
27955 ATGTATCGATACA
1 ATGTATCGATACA
27968 TTGATTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:28046 original size:13 final size:13
Alignment explanation
Indices: 28005--28053 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
27995 CCGTTACAAG
*
28005 CAATGTATTGATA
1 CAATGTATCGATA
28018 CAAT-T-TC-AT-
1 CAATGTATCGATA
28027 C-ATGTATCGATA
1 CAATGTATCGATA
28039 CAATGTATCGATA
1 CAATGTATCGATA
28052 CA
1 CA
28054 TTATACCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 4 0.13
11 3 0.10
12 2 0.07
13 17 0.57
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:30490 original size:32 final size:31
Alignment explanation
Indices: 30462--30602 Score: 144
Period size: 31 Copynumber: 4.5 Consensus size: 31
30452 AATGCCACAA
30462 ACTTGTGTGGGCTTTGAAGGGGGTTGCCAGCG
1 ACTTGTGTGGGCTTTGAAGGGGGTTGCCA-CG
* * *
30494 ACTTGTGTGGACTTTGGAGAGGGTTTGCCACCG
1 ACTTGTGTGGGCTTTGAAG-GGGGTTGCCA-CG
* *
30527 ACTTGTGT-GGC-TTGAATGGGGTTGCTAGCG
1 ACTTGTGTGGGCTTTGAAGGGGGTTGCCA-CG
* * *
30557 ACTTGTGTGGACTTTGGA-GAGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAGGGGGTTGCCA-CG
30588 ACTTGTGTGGGCTTT
1 ACTTGTGTGGGCTTT
30603 AGAGAAGGGT
Statistics
Matches: 90, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
30 18 0.20
31 30 0.33
32 23 0.26
33 19 0.21
ACGTcount: A:0.13, C:0.16, G:0.38, T:0.32
Consensus pattern (31 bp):
ACTTGTGTGGGCTTTGAAGGGGGTTGCCACG
Found at i:30590 original size:31 final size:31
Alignment explanation
Indices: 30462--30626 Score: 163
Period size: 32 Copynumber: 5.2 Consensus size: 31
30452 AATGCCACAA
* * * *
30462 ACTTGTGTGGGCTTTGAAGGGGGTTGCCAGCG
1 ACTTGTGTGGACTTTGGA-GAGGTTGCCACCG
30494 ACTTGTGTGGACTTTGGAGAGGGTTTGCCACCG
1 ACTTGTGTGGACTTTGGAGA-GG-TTGCCACCG
* * * *
30527 ACTTGTGTGG-C-TTGAATGGGGTTGCTAGCG
1 ACTTGTGTGGACTTTGGA-GAGGTTGCCACCG
30557 ACTTGTGTGGACTTTGGAGAGGTTGCCACCG
1 ACTTGTGTGGACTTTGGAGAGGTTGCCACCG
* * * *
30588 ACTTGTGTGGGCTTTAGAGAAGGGTGCCACTG
1 ACTTGTGTGGACTTTGGAG-AGGTTGCCACCG
30620 ACTTGTG
1 ACTTGTG
30627 GGTTTTTGAA
Statistics
Matches: 111, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
30 17 0.15
31 35 0.32
32 41 0.37
33 18 0.16
ACGTcount: A:0.15, C:0.16, G:0.38, T:0.30
Consensus pattern (31 bp):
ACTTGTGTGGACTTTGGAGAGGTTGCCACCG
Found at i:30623 original size:32 final size:32
Alignment explanation
Indices: 30462--30646 Score: 122
Period size: 32 Copynumber: 5.9 Consensus size: 32
30452 AATGCCACAA
* *
30462 ACTTGTGTGGGCTTT-GA-AGGGGGTTGCCAGCG
1 ACTTGTGTGGGCTTTAGAGA-AGGG-TGCCACCG
* *
30494 ACTTGTGTGGACTTTGGAG-AGGGTTTGCCACCG
1 ACTTGTGTGGGCTTTAGAGAAGGG--TGCCACCG
* * *
30527 ACTTGTGT-GGC-TT-GA-ATGGGGTTGCTAGCG
1 ACTTGTGTGGGCTTTAGAGA-AGGG-TGCCACCG
* * *
30557 ACTTGTGTGGACTTTGGAG-AGGTTGCCACCG
1 ACTTGTGTGGGCTTTAGAGAAGGGTGCCACCG
*
30588 ACTTGTGTGGGCTTTAGAGAAGGGTGCCACTG
1 ACTTGTGTGGGCTTTAGAGAAGGGTGCCACCG
* *
30620 AC-T-TGTGGGTTTTTGA-AAGGGTGCCAC
1 ACTTGTGTGGGCTTTAGAGAAGGGTGCCAC
30647 GGAAGTTGTG
Statistics
Matches: 125, Mismatches: 18, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
29 11 0.09
30 28 0.22
31 31 0.25
32 35 0.28
33 20 0.16
ACGTcount: A:0.16, C:0.16, G:0.38, T:0.30
Consensus pattern (32 bp):
ACTTGTGTGGGCTTTAGAGAAGGGTGCCACCG
Found at i:30626 original size:63 final size:65
Alignment explanation
Indices: 30462--30602 Score: 236
Period size: 63 Copynumber: 2.2 Consensus size: 65
30452 AATGCCACAA
30462 ACTTGTGTGGGCTTTGAAGGGGGTTGCCAGCGACTTGTGTGGACTTTGGAGAGGGTTTGCCACCG
1 ACTTGTGTGGGCTTTGAAGGGGGTTGCCAGCGACTTGTGTGGACTTTGGAGAGGGTTTGCCACCG
* *
30527 ACTTGTGT-GGC-TTGAATGGGGTTGCTAGCGACTTGTGTGGACTTTGGAGA-GG-TTGCCACCG
1 ACTTGTGTGGGCTTTGAAGGGGGTTGCCAGCGACTTGTGTGGACTTTGGAGAGGGTTTGCCACCG
30588 ACTTGTGTGGGCTTT
1 ACTTGTGTGGGCTTT
30603 AGAGAAGGGT
Statistics
Matches: 72, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
61 17 0.24
62 5 0.07
63 39 0.54
64 3 0.04
65 8 0.11
ACGTcount: A:0.13, C:0.16, G:0.38, T:0.32
Consensus pattern (65 bp):
ACTTGTGTGGGCTTTGAAGGGGGTTGCCAGCGACTTGTGTGGACTTTGGAGAGGGTTTGCCACCG
Found at i:30656 original size:30 final size:30
Alignment explanation
Indices: 30556--30914 Score: 91
Period size: 28 Copynumber: 12.4 Consensus size: 30
30546 GGTTGCTAGC
* * *
30556 GACTTGTGTGGACTTTGGAG-AGGTTGCCACC
1 GACTTGTG-GG-CTTTAGAGAAGGGTGCCACG
*
30587 GACTTGTGTGGGCTTTAGAGAAGGGTGCCACT
1 GAC-T-TGTGGGCTTTAGAGAAGGGTGCCACG
* *
30619 GACTTGTGGGTTTTTGA-AAGGGTGCCACG
1 GACTTGTGGGCTTTAGAGAAGGGTGCCACG
* * * *
30648 GAAGTTGTGGAC-TTA-A-AACGGATGCCACT
1 G-ACTTGTGGGCTTTAGAGAA-GGGTGCCACG
* * * *
30677 AACTTGTGGACTTT--A-AAGGGTGTCACT
1 GACTTGTGGGCTTTAGAGAAGGGTGCCACG
* * * *
30704 AACTTGTGGGCTTTA-AAAAGAAGATGCCACT
1 GACTTGTGGGCTTTAGAGAAG--GGTGCCACG
* * * * * **
30735 AACTTGTGGGCTTTTGA-AAAGATACCATT
1 GACTTGTGGGCTTTAGAGAAGGGTGCCACG
* * *
30764 GACTTGTGGACTTT-GA-AAGGATGCCACT
1 GACTTGTGGGCTTTAGAGAAGGGTGCCACG
** *
30792 GACTTGTGATCTTT-GA-AAGGGTGTCAC-
1 GACTTGTGGGCTTTAGAGAAGGGTGCCACG
* * * * *
30819 TAATTCGTGGGCTTT-GA-AAGGATGTCACT
1 GACTT-GTGGGCTTTAGAGAAGGGTGCCACG
* *
30848 GAC-TGTGGACTTT-GA-AAGGGTG-CACT
1 GACTTGTGGGCTTTAGAGAAGGGTGCCACG
* *
30874 AACTTGTGGGCTTT-GCA-AA-GGTGCCACT
1 GACTTGTGGGCTTTAG-AGAAGGGTGCCACG
*
30902 GACTTGTGAGCTT
1 GACTTGTGGGCTT
30915 AAAGAAATGC
Statistics
Matches: 267, Mismatches: 45, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
26 6 0.02
27 54 0.20
28 88 0.33
29 47 0.18
30 18 0.07
31 34 0.13
32 16 0.06
33 4 0.01
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (30 bp):
GACTTGTGGGCTTTAGAGAAGGGTGCCACG
Found at i:30682 original size:58 final size:56
Alignment explanation
Indices: 30593--32949 Score: 651
Period size: 54 Copynumber: 43.3 Consensus size: 56
30583 CACCGACTTG
* * * * *
30593 TGTGGGCTTTAGAGAAGGGTGCCACTGACTTGTGGGTTTTTGAAAGGGTGCCACGGAAGT
1 TGTGGACTTTA-A-AAGGATGCCACTAACTTGT-GGTCTTTGAAAGGGTGCCAC-GAACT
* * *
30653 TGTGGAC-TTAAAACGGATGCCACTAACTTGTGGACTTT-AAAGGGTGTCACTAACT
1 TGTGGACTTTAAAA-GGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * * * * *
30708 TGTGGGCTTTAAAAAGAAGATGCCACTAACTTGTGGGCTTTTGAAAAGATACCATTG-ACT
1 TGTGGACTTT-AAAAG--GATGCCACTAACTTGTGGTC-TTTGAAAGGGTGCCA-CGAACT
* * * * *
30768 TGTGGACTTTGAAAGGATGCCACTGACTTGTGATCTTTGAAAGGGTGTCACTAA-T
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * * * * *
30823 TCGTGGGCTTTGAAAGGATGTCACTGAC-TGTGGACTTTGAAAGGGTG-CACTAACT
1 T-GTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * * ** * * *
30878 TGTGGGCTTTGCAAAGG-TGCCACTGACTTGTGAG-C-TT-AAAGAAATGCCATGGAGT
1 TGTGGACTTT-AAAAGGATGCCACTAACTTGTG-GTCTTTGAAAG-GGTGCCACGAACT
* * * ** * * * * *
30933 TGTGGTC-AT-GAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCAC-AGAGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGA-ACT
* * * * * * * * *
30986 TATAGAATTTAAAA-GATGCCA-TGGAGTTGTGGAC--T-AAAAGGTGCCA-GGAGT
1 TGTGGACTTTAAAAGGATGCCACT-AACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * * * **
31037 TGTGGAC-TTAAAAGGGTGCCA-TGAAGTTGTGGACCTTTAAAAGGGTGCCACG-GGT
1 TGTGGACTTTAAAAGGATGCCACT-AACTTGTGG-TCTTTGAAAGGGTGCCACGAACT
* * ** * * * *
31092 TATGGAC-TTAAAAAGATGCCACGGACTTGTGGAC-TTAAAAGGGTGCCACAAAGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * * * * * * *
31146 TGTGGAC-TTAAAAGGATGCCACGAAGTTATGGACTTTAAAAGGGTACCACAAAGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * * * * *
31201 TGTGGAC-TTAAAAGGATACCAC-AGACTTCT-G-ATTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACTA-ACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * ** * *
31254 TGTGGAC-TTAAAAAGATGCCAC-AGAGTTGTGG-AGTTAAAAGGGTGCCACGAAGT
1 TGTGGACTTTAAAAGGATGCCACTA-ACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * ** * * *
31308 TGTGGACTTTAAAAGGGTGTCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGAACT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* ** ** * *
31363 TGTGGAC--TAAAAGGATGCTACGGACTTGTGAAC-TT-AAAGAGTGCCAC-AGAGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGA-ACT
* ** * * *
31415 TGTGGAC-TTAAAAGGATGCCACGGAGTGTTATGGACTTTAAAAGGGTGCCGACG-ACT
1 TGTGGACTTTAAAAGGATGCCAC-TA-ACTTGTGGTCTTTGAAAGGGTGCC-ACGAACT
* **** * * * * *
31472 TCTGGAC-TTAAAAGGATGCCACGGTGTTGTGGAC-TTAAAAGGATACCACGGACT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* ** * * * * *
31526 TGTGGAC-TT-AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGCACT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* ** * * * * * *
31579 TGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAAGATGCCACGAAGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * * * * * * * *
31633 TGTTGGACTTTAAAAGGGGTACCACAAAGTTGTGGAC-TTAAAAGGATACCA-TAGACT
1 TG-TGGACTTTAAAA-GGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGA-ACT
* * ** * * * * * * *
31690 TCTGGA-TTT-AAAGGGTGCCACGGAGTTGTGGAC-GTAAAAAGATGCCAC-AGAGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGA-ACT
* * * * * * * * *
31743 TGTGGA-GTTAAAAGGGTGCCACGAAGTTGTGGACTTTAAAAGGGTGTCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * * * * * *
31798 TGTGGACTTTAAAAGGGTGCCACGAACTTGTGGAC-TTAAAAGGATGCTACGGACT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * * * * * *
31853 TGTGGAC-TTAAAA-GAGTGCCAC-GAGTTGTGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGA-TGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
** * * * * * ***
31906 TGTGGACTTT-AAAGGGGGCCACGAACTTCTGGAC-TTAAAAGGATGCCACGGTGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* ** * * * *
31960 TGT-GAC-TTAAAAGGATACCACGGACTTGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
** * * * *
32013 TGTGGAC-TTAAAAGGATGCCACGCAC-TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
** * * * *
32066 TGTGGAC-TTAAAAGGATGCCACGCACTTGTGGAC-TT-AATAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAA-AGGGTGCCACGAACT
* * * ** * * * * * * *
32120 TGTGGTC-ATGAAAGGAT-CCACGGAGTTATGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * * * * * * * *
32173 TATAGAATTTAAAA-GATGCCACTGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * * *
32227 TGT-GAC-TTAAAA-GA-GCCCACGAAGTTGTGGACTTTAAAAGGGTGCCACGAACT
1 TGTGGACTTTAAAAGGATG-CCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
**** * * *
32280 CT-TGGAC-TTAAAAGGATGCCACGGTGTTGTGGAC-TT-AAAGGGTGCCACAAAGT
1 -TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * * * * * *
32333 TGTGGAC-TTAAAAGG-TCGTCA-TGGAGTTGTGGACTTT-AAAAGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGAT-GCCACT-AACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * * * *
32387 TATGGAC-TTAAAAGGATGCCAC-AGACTTGTGGAC-TTAAAAGGGTGCCACAAAGT
1 TGTGGACTTTAAAAGGATGCCACTA-ACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * * * * * * *
32441 TGTGGACTTAAAAAGG-TGCCACAAAGGTTGTGGAC-TTAAAAGGGTACCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACTAA-CTTGTGGTCTTTGAAAGGGTGCCACGAACT
* * * * *
32496 TGTGGGACTTTAAAAGGTTACCAC-AGACTTGTGGAC-TTAAAAGGATGCCAC-AGACT
1 TGT-GGACTTTAAAAGGATGCCACTA-ACTTGTGGTCTTTGAAAGGGTGCCACGA-ACT
* * * * * *
32552 TGTGGAC-TTAAAAGGGTGCCAC-AGAGTTGTGGAC-TTAAAAGGATGCCAC-AGAGT
1 TGTGGACTTTAAAAGGATGCCACTA-ACTTGTGGTCTTTGAAAGGGTGCCACGA-ACT
* * * * * * * *
32606 TGTGGA-GTTAAAAGGGTGCCACGAAGTTGTGGACTTTAAAAGGGTGTCAC-AGAGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGA-ACT
* ** * * * * **
32661 TGTGGACTTT-AAAGGGTGTTA-TGGACTTGTGGAC-TTAAAAGAGTGCCAC-AGAGG
1 TGTGGACTTTAAAAGGATGCCACT-AACTTGTGGTCTTTGAAAGGGTGCCACGA-ACT
* * * *
32715 TGTGGAC-TTAAAAGGATGCCA-TAGAGTTGTGGACTTTAAAAGGGTGCCACGCACT
1 TGTGGACTTTAAAAGGATGCCACTA-ACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* ** * * * * * * *
32770 TATGGAC-TT-AAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATACCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
* ** * * * * *
32823 TGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
** * * * *
32877 TGTGGAC-TTAAAAGGATGCCACGGACTTATGGACTTTAAAAGGAATGCCACTGAA-T
1 TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGG-GTGCCAC-GAACT
*
32933 CGTGGACTTTGAAAAGG
1 TGTGGACTTT-AAAAGG
32950 TTACACTACT
Statistics
Matches: 1923, Mismatches: 269, Indels: 212
0.80 0.11 0.09
Matches are distributed among these distances:
50 6 0.00
51 25 0.01
52 61 0.03
53 487 0.25
54 640 0.33
55 376 0.20
56 147 0.08
57 103 0.05
58 43 0.02
59 10 0.01
60 25 0.01
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (56 bp):
TGTGGACTTTAAAAGGATGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACGAACT
Found at i:30717 original size:27 final size:28
Alignment explanation
Indices: 30593--30914 Score: 251
Period size: 28 Copynumber: 11.3 Consensus size: 28
30583 CACCGACTTG
*
30593 TGTGGGCTTTAGAGAAGGGTGCCACTGACT
1 TGTGGGCTTT-GA-AAGGGTGCCACTAACT
* * *
30623 TGTGGGTTTTTGAAAGGGTGCCACGGAAGT
1 TGTGGG-CTTTGAAAGGGTGCCAC-TAACT
* * *
30653 TGTGGAC-TTAAAACGGATGCCACTAACT
1 TGTGGGCTTTGAAA-GGGTGCCACTAACT
* *
30681 TGTGGACTTT-AAAGGGTGTCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* *
30708 TGTGGGCTTTAAAAAGAAGATGCCACTAACT
1 TGTGGGCTTT-GAAAG--GGTGCCACTAACT
* * * * *
30739 TGTGGGCTTTTGAAAAGATACCATTGACT
1 TGTGGGC-TTTGAAAGGGTGCCACTAACT
* * *
30768 TGTGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
** *
30796 TGTGATCTTTGAAAGGGTGTCACTAA-T
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* * *
30823 TCGTGGGCTTTGAAAGGATGTCACTGAC-
1 T-GTGGGCTTTGAAAGGGTGCCACTAACT
*
30851 TGTGGACTTTGAAAGGGTG-CACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
*
30878 TGTGGGCTTTGCAAA-GGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTAACT
*
30906 TGTGAGCTT
1 TGTGGGCTT
30915 AAAGAAATGC
Statistics
Matches: 239, Mismatches: 39, Indels: 30
0.78 0.13 0.10
Matches are distributed among these distances:
26 6 0.03
27 53 0.22
28 97 0.41
29 41 0.17
30 15 0.06
31 24 0.10
32 3 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTAACT
Found at i:30734 original size:116 final size:113
Alignment explanation
Indices: 30594--30910 Score: 308
Period size: 116 Copynumber: 2.8 Consensus size: 113
30584 ACCGACTTGT
* * *
30594 GTGGGCTTTAGAGAAGGGTGCCACTGACTTGTGGGTTTTTGAAAGGGTGCCACGGAAGTTGTGGA
1 GTGGGCTTTA-A-AAGGATGCCACTGACTTGTGGGATTTTGAAAGGGTGCCACGG-ACTTGTGGA
30659 C-TTAAAACGGATGCCACTAACTTGTGGA-CTTT-AAAGGGTGTCACTAACTT-
63 CTTTAAAA-GGATGCCACTAACTTGT-GATCTTTGAAAGGGTGTCACTAA-TTC
* * * * * **
30709 GTGGGCTTTAAAAAGAAGATGCCACTAACTTGTGGGCTTTTGAAAAGATACCATTGACTTGTGGA
1 GTGGGCTTT-AAAAG--GATGCCACTGACTTGTGGGATTTTGAAAGGGTGCCACGGACTTGTGGA
* *
30774 CTTTGAAAGGATGCCACTGACTTGTGATCTTTGAAAGGGTGTCACTAATTC
63 CTTTAAAAGGATGCCACTAACTTGTGATCTTTGAAAGGGTGTCACTAATTC
* * * ** *
30825 GTGGGCTTTGAAAGGATGTCACTGAC-TGT-GGACTTTGAAAGGGTG-CACTAACTTGTGGGCTT
1 GTGGGCTTTAAAAGGATGCCACTGACTTGTGGGATTTTGAAAGGGTGCCACGGACTTGTGGACTT
* *
30887 TGCAAAGG-TGCCACTGACTTGTGA
66 T-AAAAGGATGCCACTAACTTGTGA
30911 GCTTAAAGAA
Statistics
Matches: 171, Mismatches: 23, Indels: 21
0.80 0.11 0.10
Matches are distributed among these distances:
110 31 0.18
111 16 0.09
112 3 0.02
113 10 0.06
114 5 0.03
115 45 0.26
116 61 0.36
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (113 bp):
GTGGGCTTTAAAAGGATGCCACTGACTTGTGGGATTTTGAAAGGGTGCCACGGACTTGTGGACTT
TAAAAGGATGCCACTAACTTGTGATCTTTGAAAGGGTGTCACTAATTC
Found at i:30738 original size:31 final size:27
Alignment explanation
Indices: 30593--32928 Score: 221
Period size: 27 Copynumber: 85.9 Consensus size: 27
30583 CACCGACTTG
* *
30593 TGTGGGCTTTAGAGAAGGGTGCCACTGACT
1 TGTGGGCTTT--A-AAGGATGCCACTAACT
* * * *
30623 TGTGGGTTTTTGAAAGGGTGCCACGGAAGT
1 TGTGGG-CTTT-AAAGGATGCCAC-TAACT
* *
30653 TGTGGACTTAAAACGGATGCCACTAACT
1 TGTGGGCTTTAAA-GGATGCCACTAACT
* * *
30681 TGTGGACTTTAAAGGGTGTCACTAACT
1 TGTGGGCTTTAAAGGATGCCACTAACT
30708 TGTGGGCTTTAAAAAGAAGATGCCACTAACT
1 TGTGGGCTTT--AAAG--GATGCCACTAACT
* * * *
30739 TGTGGGCTTTTGAAAAGATACCATTGACT
1 TGTGGGC-TTT-AAAGGATGCCACTAACT
* *
30768 TGTGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTT-AAAGGATGCCACTAACT
** * *
30796 TGTGATCTTTGAAAGGGTGTCACTAA-T
1 TGTGGGCTTT-AAAGGATGCCACTAACT
* *
30823 TCGTGGGCTTTGAAAGGATGTCACTGAC-
1 T-GTGGGCTTT-AAAGGATGCCACTAACT
* *
30851 TGTGGACTTTGAAAGGGTG-CACTAACT
1 TGTGGGCTTT-AAAGGATGCCACTAACT
*
30878 TGTGGGCTTTGCAAAGG-TGCCACTGACT
1 TGTGGGCTTT--AAAGGATGCCACTAACT
* * * *
30906 TGTGAGC-TTAAAGAAATGCCA-TGGAGT
1 TGTGGGCTTTAAAG-GATGCCACT-AACT
* * * ** *
30933 TGTGGTC-ATGAAGGATGCCACGGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * *
30959 TGTGGACTTAAAAGGATGCCAC-AGAGT
1 TGTGGGCTTTAAAGGATGCCACTA-ACT
* * ** * * *
30986 TATAGAATTTAAAAGATGCCA-TGGAGT
1 TGTGGGCTTTAAAGGATGCCACT-AACT
* * ** *
31013 TGTGGAC-TAAAAGG-TGCCA-GGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * *
31037 TGTGGACTTAAAAGGGTGCCA-TGAAGT
1 TGTGGGCTTTAAAGGATGCCACT-AACT
* * ***
31064 TGTGGACCTTTAAAAGGGTGCCAC-GGGT
1 TGTGG-GCTTT-AAAGGATGCCACTAACT
* * * * **
31092 TATGGACTTAAAAAGATGCCACGGACT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * * *
31119 TGTGGACTTAAAAGGGTGCCACAAAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * *
31146 TGTGGACTTAAAAGGATGCCACGAAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * * * *
31173 TATGGACTTTAAAAGGGTACCACAAAGT
1 TGTGGGCTTT-AAAGGATGCCACTAACT
* * *
31201 TGTGGACTTAAAAGGATACCAC-AGACT
1 TGTGGGCTTTAAAGGATGCCACTA-ACT
* * * ** *
31228 TCT--GATTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTT-AAAGGATGCCACTAACT
* * * *
31254 TGTGGACTTAAAAAGATGCCAC-AGAGT
1 TGTGGGCTTTAAAGGATGCCACTA-ACT
* * * *
31281 TGTGGAG-TTAAAAGGGTGCCACGAAGT
1 TGTGG-GCTTTAAAGGATGCCACTAACT
* * * ** *
31308 TGTGGACTTTAAAAGGGTGTCACGGAGT
1 TGTGGGCTTT-AAAGGATGCCACTAACT
* * * *
31336 TGTGGACTTAAAAGGGTGCCACGAACT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * **
31363 TGTGGAC-TAAAAGGATGCTACGGACT
1 TGTGGGCTTTAAAGGATGCCACTAACT
** *
31389 TGTGAAC-TTAAA-GAGTGCCAC-AGAGT
1 TGTGGGCTTTAAAGGA-TGCCACTA-ACT
* * * **
31415 TGTGGACTTAAAAGGATGCCACGGAGTGT
1 TGTGGGCTTTAAAGGATGCCAC-TA-ACT
* * * *
31444 TATGGACTTTAAAAGGGTGCCGAC-GACT
1 TGTGGGCTTT-AAAGGATGCC-ACTAACT
* * * ****
31472 TCTGGACTTAAAAGGATGCCACGGTGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * **
31499 TGTGGACTTAAAAGGATACCACGGACT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * ** *
31526 TGTGGAC-TTAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * **
31552 TGTGGACTTAAAAGGATGCCACGCACT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * ** *
31579 TGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * * *
31606 TGTGGACTTAAAAAGATGCCACGAAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * * *
31633 TGTTGGACTTTAAAAGGGGTACCACAAAGT
1 TG-TGGGCTTT-AAA-GGATGCCACTAACT
* * *
31663 TGTGGACTTAAAAGGATACCA-TAGACT
1 TGTGGGCTTTAAAGGATGCCACTA-ACT
* * * ** *
31690 TCT-GGATTTAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * * *
31716 TGTGGACGTAAAAAGATGCCAC-AGAGT
1 TGTGGGCTTTAAAGGATGCCACTA-ACT
* * * *
31743 TGTGGAG-TTAAAAGGGTGCCACGAAGT
1 TGTGG-GCTTTAAAGGATGCCACTAACT
* * * ** *
31770 TGTGGACTTTAAAAGGGTGTCACGGAGT
1 TGTGGGCTTT-AAAGGATGCCACTAACT
* * *
31798 TGTGGACTTTAAAAGGGTGCCACGAACT
1 TGTGGGCTTT-AAAGGATGCCACTAACT
* * * **
31826 TGTGGACTTAAAAGGATGCTACGGACT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * *
31853 TGTGGAC-TTAAAAGAGTGCCAC-GAGT
1 TGTGGGCTTTAAAGGA-TGCCACTAACT
* * ** *
31879 TGTGGACTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* ** *
31906 TGTGGACTTTAAAGGGGGCCACGAACT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * ****
31933 TCTGGACTTAAAAGGATGCCACGGTGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * **
31960 TGT-GACTTAAAAGGATACCACGGACT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * ** *
31986 TGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * **
32013 TGTGGACTTAAAAGGATGCCACGCAC-
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * ** *
32039 TGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * **
32066 TGTGGACTTAAAAGGATGCCACGCACT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* ** *
32093 TGTGGAC-TTAATAGGATGCCACGGAGT
1 TGTGGGCTTTAA-AGGATGCCACTAACT
* * * ** *
32120 TGTGGTCATGAAAGGAT-CCACGGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * ** *
32146 TATGGACTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * ** * * *
32173 TATAGAATTTAAAAGATGCCACTGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * ** *
32200 TGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * *
32227 TGT-GAC-TTAAAAGA-GCCCACGAAGT
1 TGTGGGCTTTAAAGGATG-CCACTAACT
* * *
32252 TGTGGACTTTAAAAGGGTGCCACGAACT
1 TGTGGGCTTT-AAAGGATGCCACTAACT
* * ****
32280 CT-TGGACTTAAAAGGATGCCACGGTGT
1 -TGTGGGCTTTAAAGGATGCCACTAACT
* * * *
32307 TGTGGAC-TTAAAGGGTGCCACAAAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * * *
32333 TGTGGACTTAAAAGG-TCGTCA-TGGAGT
1 TGTGGGCTTTAAAGGAT-GCCACT-AACT
* ** *
32360 TGTGGACTTTAAAAGG-TGCCACGGAGT
1 TGTGGGCTTT-AAAGGATGCCACTAACT
* * *
32387 TATGGACTTAAAAGGATGCCAC-AGACT
1 TGTGGGCTTTAAAGGATGCCACTA-ACT
* * * * *
32414 TGTGGACTTAAAAGGGTGCCACAAAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * *
32441 TGTGGACTTAAAAAGG-TGCCACAAAGGT
1 TGTGGGCTT-TAAAGGATGCCACTAA-CT
* * * * ** *
32469 TGTGGACTTAAAAGGGTACCACGGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* *
32496 TGTGGGACTTTAAAAGGTTACCAC-AGACT
1 TGTGGG-CTTT-AAAGGATGCCACTA-ACT
* *
32525 TGTGGACTTAAAAGGATGCCAC-AGACT
1 TGTGGGCTTTAAAGGATGCCACTA-ACT
* * * *
32552 TGTGGACTTAAAAGGGTGCCAC-AGAGT
1 TGTGGGCTTTAAAGGATGCCACTA-ACT
* * *
32579 TGTGGACTTAAAAGGATGCCAC-AGAGT
1 TGTGGGCTTTAAAGGATGCCACTA-ACT
* * * *
32606 TGTGGAG-TTAAAAGGGTGCCACGAAGT
1 TGTGG-GCTTTAAAGGATGCCACTAACT
* * * *
32633 TGTGGACTTTAAAAGGGTGTCAC-AGAGT
1 TGTGGGCTTT-AAAGGATGCCACTA-ACT
* * ** *
32661 TGTGGACTTTAAAGGGTGTTA-TGGACT
1 TGTGGGCTTTAAAGGATGCCACT-AACT
* * **
32688 TGTGGAC-TTAAAAGAGTGCCAC-AGAGG
1 TGTGGGCTTTAAAGGA-TGCCACTA-ACT
* * *
32715 TGTGGACTTAAAAGGATGCCA-TAGAGT
1 TGTGGGCTTTAAAGGATGCCACTA-ACT
* * **
32742 TGTGGACTTTAAAAGGGTGCCACGCACT
1 TGTGGGCTTT-AAAGGATGCCACTAACT
* * ** *
32770 TATGGAC-TTAAAGGATGCCACGGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * ** *
32796 TGTGGACTTAAAAGGATACCACGGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * ** *
32823 TGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * * ** *
32850 TGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* * **
32877 TGTGGACTTAAAAGGATGCCACGGACT
1 TGTGGGCTTTAAAGGATGCCACTAACT
* *
32904 TATGGACTTTAAAAGGAATGCCACT
1 TGTGGGCTTT-AAAGG-ATGCCACT
32929 GAATCGTGGA
Statistics
Matches: 1859, Mismatches: 341, Indels: 213
0.77 0.14 0.09
Matches are distributed among these distances:
24 12 0.01
25 36 0.02
26 291 0.16
27 1016 0.55
28 338 0.18
29 101 0.05
30 36 0.02
31 26 0.01
32 3 0.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (27 bp):
TGTGGGCTTTAAAGGATGCCACTAACT
Found at i:30979 original size:27 final size:27
Alignment explanation
Indices: 30921--32941 Score: 2084
Period size: 27 Copynumber: 74.8 Consensus size: 27
30911 GCTTAAAGAA
* * * *
30921 ATGCCATGGAGTTGTGGTCAT-GAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
30947 ATGCCACGGAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* * * *
30974 ATGCCACAGAGTTATAGAATTTAAAA-G
1 ATGCCACGGAGTTGT-GGACTTAAAAGG
*
31001 ATGCCATGGAGTTGTGGAC-TAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
31027 -TGCCA-GGAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* * *
31052 GTGCCATGAAGTTGTGGACCTTTAAAAGG
1 ATGCCACGGAGTTGTGGA-C-TTAAAAGG
* * *
31081 GTGCCACGG-GTTATGGACTTAAAAAG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
*
31107 ATGCCACGGACTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* **
31134 GTGCCACAAAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
31161 ATGCCACGAAGTTATGGACTTTAAAAGG
1 ATGCCACGGAGTTGTGGAC-TTAAAAGG
* * **
31189 GTACCACAAAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* * * * *
31216 ATACCACAGACTTCT-GATTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
31242 GTGCCACGGAGTTGTGGACTTAAAAAG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
31269 ATGCCACAGAGTTGTGGAGTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
31296 GTGCCACGAAGTTGTGGACTTTAAAAGG
1 ATGCCACGGAGTTGTGGAC-TTAAAAGG
* *
31324 GTGTCACGGAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* * *
31351 GTGCCACGAACTTGTGGAC-TAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* * *
31377 ATGCTACGGACTTGTGAACTT-AAA-G
1 ATGCCACGGAGTTGTGGACTTAAAAGG
*
31402 AGTGCCACAGAGTTGTGGACTTAAAAGG
1 A-TGCCACGGAGTTGTGGACTTAAAAGG
*
31430 ATGCCACGGAGTGTTATGGACTTTAAAAGG
1 ATGCCACGGA--GTTGTGGAC-TTAAAAGG
* * *
31460 GTGCCGAC-GACTTCTGGACTTAAAAGG
1 ATGCC-ACGGAGTTGTGGACTTAAAAGG
*
31487 ATGCCACGGTGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
31514 ATACCACGGACTTGTGGACTT-AAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
*
31540 GTGCCACGGAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
31567 ATGCCACGCACTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
31594 GTGCCACGGAGTTGTGGACTTAAAAAG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
*
31621 ATGCCACGAAGTTGTTGGACTTTAAAAGGG
1 ATGCCACGGAGTTG-TGGAC-TTAAAA-GG
* * **
31651 GTACCACAAAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* ** * * *
31678 ATACCATAGACTTCTGGA-TTTAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* * *
31704 GTGCCACGGAGTTGTGGACGTAAAAAG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
31731 ATGCCACAGAGTTGTGGAGTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
31758 GTGCCACGAAGTTGTGGACTTTAAAAGG
1 ATGCCACGGAGTTGTGGAC-TTAAAAGG
* *
31786 GTGTCACGGAGTTGTGGACTTTAAAAGG
1 ATGCCACGGAGTTGTGGAC-TTAAAAGG
* * *
31814 GTGCCACGAACTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
31841 ATGCTACGGACTTGTGGACTTAAAA-G
1 ATGCCACGGAGTTGTGGACTTAAAAGG
31867 AGTGCCAC-GAGTTGTGGACTTAAAAGG
1 A-TGCCACGGAGTTGTGGACTTAAAAGG
*
31894 ATGCCACGGAGTTGTGGACTTTAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
** * * *
31921 GGGCCACGAACTTCTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
*
31948 ATGCCACGGTGTTGT-GACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
31974 ATACCACGGACTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
*
32001 GTGCCACGGAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
32028 ATGCCACGCA-CTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
*
32054 GTGCCACGGAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* * *
32081 ATGCCACGCACTTGTGGACTTAATAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* * *
32108 ATGCCACGGAGTTGTGGTCATGAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
*
32135 AT-CCACGGAGTTATGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* * *
32161 ATGCCACGGAGTTATAGAATTTAAAA-G
1 ATGCCACGGAGTTGT-GGACTTAAAAGG
*
32188 ATGCCACTGAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
*
32215 GTGCCACGGAGTTGT-GACTTAAAA-G
1 ATGCCACGGAGTTGTGGACTTAAAAGG
*
32240 A-GCCCACGAAGTTGTGGACTTTAAAAGG
1 ATG-CCACGGAGTTGTGGAC-TTAAAAGG
* * *
32268 GTGCCACGAACTCT-TGGACTTAAAAGG
1 ATGCCACGGAGT-TGTGGACTTAAAAGG
*
32295 ATGCCACGGTGTTGTGGACTT-AAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* **
32321 GTGCCACAAAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
32348 -TCGTCATGGAGTTGTGGACTTTAAAAGG
1 AT-GCCACGGAGTTGTGGAC-TTAAAAGG
*
32376 -TGCCACGGAGTTATGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
32402 ATGCCACAGACTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* **
32429 GTGCCACAAAGTTGTGGACTTAAAAAGG
1 ATGCCACGGAGTTGTGGACTT-AAAAGG
**
32457 -TGCCACAAAGGTTGTGGACTTAAAAGG
1 ATGCCACGGA-GTTGTGGACTTAAAAGG
* *
32484 GTACCACGGAGTTGTGGGACTTTAAAAGG
1 ATGCCACGGAGTTGT-GGAC-TTAAAAGG
* * * *
32513 TTACCACAGACTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
32540 ATGCCACAGACTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
32567 GTGCCACAGAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
32594 ATGCCACAGAGTTGTGGAGTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
32621 GTGCCACGAAGTTGTGGACTTTAAAAGG
1 ATGCCACGGAGTTGTGGAC-TTAAAAGG
* * * *
32649 GTGTCACAGAGTTGTGGACTTTAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* ** * *
32676 GTGTTATGGACTTGTGGACTTAAAA-G
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
32702 AGTGCCACAGAGGTGTGGACTTAAAAGG
1 A-TGCCACGGAGTTGTGGACTTAAAAGG
**
32730 ATGCCATAGAGTTGTGGACTTTAAAAGG
1 ATGCCACGGAGTTGTGGAC-TTAAAAGG
* * * *
32758 GTGCCACGCACTTATGGACTT-AAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
32784 ATGCCACGGAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
*
32811 ATACCACGGAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
*
32838 GTGCCACGGAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
*
32865 GTGCCACGGAGTTGTGGACTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGG
* *
32892 ATGCCACGGACTTATGGACTTTAAAAGG
1 ATGCCACGGAGTTGTGGAC-TTAAAAGG
* * *
32920 AATGCCACTGAATCGTGGACTT
1 -ATGCCACGGAGTTGTGGACTT
32942 TGAAAAGGTT
Statistics
Matches: 1683, Mismatches: 254, Indels: 114
0.82 0.12 0.06
Matches are distributed among these distances:
24 13 0.01
25 31 0.02
26 313 0.19
27 974 0.58
28 253 0.15
29 71 0.04
30 26 0.02
31 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.24
Consensus pattern (27 bp):
ATGCCACGGAGTTGTGGACTTAAAAGG
Found at i:31005 original size:80 final size:81
Alignment explanation
Indices: 30921--32919 Score: 2110
Period size: 80 Copynumber: 24.7 Consensus size: 81
30911 GCTTAAAGAA
* * * * * *
30921 ATGCCATGGAGTTGTGGTCAT-GAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAG
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * *
30985 TTATAGAATTTAAAA-G
66 TTGT-GGACTTAAAAGG
* * *
31001 ATGCCATGGAGTTGTGGAC-TAAAAGG-TGCCA-GGAGTTGTGGACTTAAAAGGGTGCCATGAAG
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
31063 TTGTGGACCTTTAAAAGG
66 TTGTGGA-C-TTAAAAGG
* * * * **
31081 GTGCCACGG-GTTATGGACTTAAAAAGATGCCACGGACTTGTGGACTTAAAAGGGTGCCACAAAG
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
31145 TTGTGGACTTAAAAGG
66 TTGTGGACTTAAAAGG
* * * * ** * * *
31161 ATGCCACGAAGTTATGGACTTTAAAAGGGTACCACAAAGTTGTGGACTTAAAAGGATACCACAGA
1 ATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
* * *
31226 CTTCT-GATTTAAAAGG
65 GTTGTGGACTTAAAAGG
* * * * *
31242 GTGCCACGGAGTTGTGGACTTAAAAAGATGCCACAGAGTTGTGGAGTTAAAAGGGTGCCACGAAG
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
31307 TTGTGGACTTTAAAAGG
66 TTGTGGAC-TTAAAAGG
* * * * * * * *
31324 GTGTCACGGAGTTGTGGACTTAAAAGGGTGCCACGAACTTGTGGAC-TAAAAGGATGCTACGGAC
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
31388 TTGTGAACTT-AAA-G
66 TTGTGGACTTAAAAGG
* *
31402 AGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACGGAGTGTTATGGACTTTAAAAGGGTGCCGA
1 A-TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGA--GTTGTGGAC-TTAAAAGGGTGCC-A
* *
31467 C-GACTTCTGGACTTAAAAGG
61 CGGAGTTGTGGACTTAAAAGG
* * *
31487 ATGCCACGGTGTTGTGGACTTAAAAGGATACCACGGACTTGTGGACTT-AAAGGGTGCCACGGAG
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
31551 TTGTGGACTTAAAAGG
66 TTGTGGACTTAAAAGG
* * * * * *
31567 ATGCCACGCACTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGATGCCACGAAG
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
31632 TTGTTGGACTTTAAAAGGG
66 TTG-TGGAC-TTAAAA-GG
* * ** * ** * * *
31651 GTACCACAAAGTTGTGGACTTAAAAGGATACCATAGACTTCTGGA-TTTAAAGGGTGCCACGGAG
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* *
31715 TTGTGGACGTAAAAAG
66 TTGTGGACTTAAAAGG
* * * * *
31731 ATGCCACAGAGTTGTGGAGTTAAAAGGGTGCCACGAAGTTGTGGACTTTAAAAGGGTGTCACGGA
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGA
31796 GTTGTGGACTTTAAAAGG
65 GTTGTGGAC-TTAAAAGG
* * * * * *
31814 GTGCCACGAACTTGTGGACTTAAAAGGATGCTACGGACTTGTGGACTTAAAAGAGTGCCAC-GAG
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
31878 TTGTGGACTTAAAAGG
66 TTGTGGACTTAAAAGG
* ** * * * * *
31894 ATGCCACGGAGTTGTGGACTTTAAAGGGGGCCACGAACTTCTGGACTTAAAAGGATGCCACGGTG
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
31959 TTGT-GACTTAAAAGG
66 TTGTGGACTTAAAAGG
* * * * *
31974 ATACCACGGACTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGCA-
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
32038 CTGTGGACTTAAAAGG
66 TTGTGGACTTAAAAGG
* * * * *
32054 GTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGCACTTGTGGACTTAATAGGATGCCACGGAG
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* * *
32119 TTGTGGTCATGAAAGG
66 TTGTGGACTTAAAAGG
* * * * * *
32135 AT-CCACGGAGTTATGGACTTAAAAGGATGCCACGGAGTTATAGAATTTAAAA-GATGCCACTGA
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGT-GGACTTAAAAGGGTGCCACGGA
32198 GTTGTGGACTTAAAAGG
65 GTTGTGGACTTAAAAGG
* * *
32215 GTGCCACGGAGTTGT-GACTTAAAA-GA-GCCCACGAAGTTGTGGACTTTAAAAGGGTGCCACGA
1 ATGCCACGGAGTTGTGGACTTAAAAGGATG-CCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGG
*
32277 ACTCT-TGGACTTAAAAGG
64 AGT-TGTGGACTTAAAAGG
* * ** * *
32295 ATGCCACGGTGTTGTGGACTT-AAAGGGTGCCACAAAGTTGTGGACTTAAAA-GGTCGTCATGGA
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGT-GCCACGGA
32358 GTTGTGGACTTTAAAAGG
65 GTTGTGGAC-TTAAAAGG
* * * **
32376 -TGCCACGGAGTTATGGACTTAAAAGGATGCCACAGACTTGTGGACTTAAAAGGGTGCCACAAAG
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
32440 TTGTGGACTTAAAAAGG
66 TTGTGGACTT-AAAAGG
** * * * * *
32457 -TGCCACAAAGGTTGTGGACTTAAAAGGGTACCACGGAGTTGTGGGACTTTAAAAGGTTACCACA
1 ATGCCACGGA-GTTGTGGACTTAAAAGGATGCCACGGAGTTGT-GGAC-TTAAAAGGGTGCCACG
*
32521 GACTTGTGGACTTAAAAGG
63 GAGTTGTGGACTTAAAAGG
* * * * * *
32540 ATGCCACAGACTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAG
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
32605 TTGTGGAGTTAAAAGG
66 TTGTGGACTTAAAAGG
* * * * * * ** *
32621 GTGCCACGAAGTTGTGGACTTTAAAAGGGTGTCACAGAGTTGTGGACTTTAAAGGGTGTTATGGA
1 ATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
*
32686 CTTGTGGACTTAAAA-G
65 GTTGTGGACTTAAAAGG
* * ** *
32702 AGTGCCACAGAGGTGTGGACTTAAAAGGATGCCATAGAGTTGTGGACTTTAAAAGGGTGCCACGC
1 A-TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGG
* *
32767 ACTTATGGACTT-AAAGG
64 AGTTGTGGACTTAAAAGG
*
32784 ATGCCACGGAGTTGTGGACTTAAAAGGATACCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
32849 TTGTGGACTTAAAAGG
66 TTGTGGACTTAAAAGG
* * *
32865 GTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGACTTATGGACTTTAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGG
32920 AATGCCACTG
Statistics
Matches: 1607, Mismatches: 257, Indels: 108
0.81 0.13 0.05
Matches are distributed among these distances:
77 2 0.00
78 34 0.02
79 82 0.05
80 557 0.35
81 386 0.24
82 310 0.19
83 127 0.08
84 107 0.07
85 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.24
Consensus pattern (81 bp):
ATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
TTGTGGACTTAAAAGG
Found at i:34270 original size:20 final size:19
Alignment explanation
Indices: 34245--34309 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
34235 TGTCCTTGTT
34245 TTTTTATTTTTGTTGTTCCA
1 TTTTTATTTTTGTT-TTCCA
* *
34265 TTTTTATTTTGTTTTTTGCA
1 TTTTTATTTT-TGTTTTCCA
* *
34285 CTTTTTATTTTTCTTTTTCA
1 -TTTTTATTTTTGTTTTCCA
34305 TTTTT
1 TTTTT
34310 TGTGCTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
19 5 0.13
20 21 0.54
21 13 0.33
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.75
Consensus pattern (19 bp):
TTTTTATTTTTGTTTTCCA
Done.