Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1869
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: 100877
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Found at i:2267 original size:20 final size:19
Alignment explanation
Indices: 2242--2297 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
2232 TACTGCTTGT
2242 TTCATGTATCGATACAATTA
1 TTCATGTATCGATACAA-TA
2262 TTCATGTATCGATACAATA
1 TTCATGTATCGATACAATA
**
2281 AACATGTATCGATACAA
1 TTCATGTATCGATACAA
2298 AGCATAATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (19 bp):
TTCATGTATCGATACAATA
Found at i:4032 original size:21 final size:20
Alignment explanation
Indices: 3985--4038 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
3975 TATTTTAGAC
*
3985 ATGTATCAATACATTCACTT
1 ATGTATCAATACATTCACTA
4005 ATGTATCAATACATTCACTA
1 ATGTATCAATACATTCACTA
*
4025 ATTGTATCGATACA
1 A-TGTATCAATACA
4039 AATTGTAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (20 bp):
ATGTATCAATACATTCACTA
Found at i:5510 original size:19 final size:19
Alignment explanation
Indices: 5486--5535 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
5476 ATTCAGTAAA
5486 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
5505 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
5524 TGTATCGATACA
1 TGTATCGATACA
5536 ATGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:5605 original size:13 final size:13
Alignment explanation
Indices: 5587--5612 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5577 CATTTTTCTG
5587 TGTATCGATACAT
1 TGTATCGATACAT
5600 TGTATCGATACAT
1 TGTATCGATACAT
5613 CTATTCTTTG
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5630 original size:34 final size:33
Alignment explanation
Indices: 5567--5633 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
5557 GCCAAGGAAA
*
5567 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
5600 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
5634 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:8035 original size:51 final size:51
Alignment explanation
Indices: 7974--8111 Score: 215
Period size: 51 Copynumber: 2.7 Consensus size: 51
7964 AATTCTCCGC
* *
7974 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCCAT
* *
8025 AATCGTGGATACTCCAACTCCGATTTTA-TTTCTAAAACACTCATTTTCCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACTAATTTTCCAT
*
8076 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAA
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAA
8112 GCACCGACTT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
50 4 0.05
51 72 0.91
52 3 0.04
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.36
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCCAT
Found at i:8135 original size:51 final size:49
Alignment explanation
Indices: 7973--8137 Score: 195
Period size: 51 Copynumber: 3.2 Consensus size: 49
7963 CAATTCTCCG
* * *
7973 CAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC-CATTTTC-A
* * *
8024 TAATCGTGGATACTCCAACTCCGATTTTATTTCTAAAACACTCATTTTCCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC-CATTTT-CA
* *
8075 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAGCACCGACTTTTCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACC-A-TTTTCA
*
8126 CAATAGGGGATA
1 CAATCGGGGATA
8138 TTTCAACCCC
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
50 1 0.01
51 94 0.94
52 5 0.05
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (49 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCATTTTCA
Found at i:8239 original size:27 final size:28
Alignment explanation
Indices: 8201--8277 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
8191 TATCAATTTC
*
8201 TCATTGGGGATACTCCAACCCCGTTA-A
1 TCATAGGGGATACTCCAACCCCGTTACA
* * *
8228 TCATCGGGGATACTCAAACCCCGTTACC
1 TCATAGGGGATACTCCAACCCCGTTACA
8256 TC-TGAGGGGATACTCCAACCCC
1 TCAT-AGGGGATACTCCAACCCC
8278 AGCTTTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (28 bp):
TCATAGGGGATACTCCAACCCCGTTACA
Found at i:8387 original size:52 final size:52
Alignment explanation
Indices: 8316--8440 Score: 150
Period size: 52 Copynumber: 2.4 Consensus size: 52
8306 ATCATCGGGA
* *
8316 ATACTCCAACCCCGGTTTTATTT-TCAAAACACC-AATTTTC-CTTTAATCAGGG
1 ATACTCCAACCCCGATTTTATTTCTAAAAACACCAAATTTTCAC---AATCAGGG
* *
8368 ATACTCCAACTCCGATTTTATTTCTAAAAACACCAAATTTTCACAATCGGGG
1 ATACTCCAACCCCGATTTTATTTCTAAAAACACCAAATTTTCACAATCAGGG
8420 ATACTCCAACCCC-ATTATTAT
1 ATACTCCAACCCCGATT-TTAT
8441 CTCCAAAATA
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
51 3 0.05
52 44 0.69
53 9 0.14
54 7 0.11
55 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (52 bp):
ATACTCCAACCCCGATTTTATTTCTAAAAACACCAAATTTTCACAATCAGGG
Found at i:10513 original size:4 final size:4
Alignment explanation
Indices: 10504--10536 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
10494 TTTTGAGGTG
10504 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
10537 CTGTTTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:20881 original size:13 final size:11
Alignment explanation
Indices: 20858--20912 Score: 58
Period size: 11 Copynumber: 4.8 Consensus size: 11
20848 CTTCTTTTCT
20858 AAAAAAAAA-A
1 AAAAAAAAACA
* *
20868 AAACAAAAGCA
1 AAAAAAAAACA
20879 AAAAAAAAACA
1 AAAAAAAAACA
20890 ACAAAAAAAACGA
1 A-AAAAAAAAC-A
20903 ACAAAAAAAA
1 A-AAAAAAAA
20913 ATAAAGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 7 0.18
11 11 0.29
12 9 0.24
13 11 0.29
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:20896 original size:21 final size:20
Alignment explanation
Indices: 20858--20895 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20848 CTTCTTTTCT
20858 AAAAAAAAAAAAACAAAAGC
1 AAAAAAAAAAAAACAAAAGC
*
20878 AAAAAAAAAACAACAAAA
1 AAAAAAAAAAAAACAAAA
20896 AAAACGAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.87, C:0.11, G:0.03, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAACAAAAGC
Found at i:20905 original size:16 final size:15
Alignment explanation
Indices: 20863--20913 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
20853 TTTCTAAAAA
20863 AAAAAAAACAA-AAGC
1 AAAAAAAACAACAA-C
20878 AAAAAAAA-AACAAC
1 AAAAAAAACAACAAC
20892 AAAAAAAACGAACAA-
1 AAAAAAAAC-AACAAC
20907 AAAAAAA
1 AAAAAAA
20914 TAAAGAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.33
15 17 0.52
16 5 0.15
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (15 bp):
AAAAAAAACAACAAC
Found at i:22058 original size:55 final size:54
Alignment explanation
Indices: 21891--22540 Score: 696
Period size: 55 Copynumber: 11.4 Consensus size: 54
21881 CTCCTTCTGC
* *
21891 TTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGATGCC-TTTC----AAAGCCCACACAAGTTGGTGGCA
** * * *
21950 CCTTCAGTCCTCAAGGAGCAGGACGCCTTCTCCTTTCGAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGA-----T-GCCTTTCAAAGCCCACACAAGTTGGTGGCA
22010 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
22065 TTTTCCAGTCCTTAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
22120 TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCC-CACAAGTTGGTAGCA
1 TTTTC-AGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* * * **
22180 CCTTTCAGTCCCCAAATAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
22235 TTTTCTAGTCCTCAAAGAGCAGGA-GACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTTC-AGTCCTCAAAGAGCAGGATG-CCT-TTCAAAGCCCACACAAGTTGGTGGCA
*
22290 CCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
* * * ** *
22351 TTTTTCAGTTCTCAAAAAGCAAGACACCTCTT-AAAACCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * *
22406 CCTTTCAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
22461 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
22516 CTTTTTAGTCCTCAAAGAGCAGGAT
1 -TTTTCAGTCCTCAAAGAGCAGGAT
22541 ACACTTTATT
Statistics
Matches: 516, Mismatches: 45, Indels: 64
0.83 0.07 0.10
Matches are distributed among these distances:
54 18 0.03
55 326 0.63
56 11 0.02
59 19 0.04
60 59 0.11
61 77 0.15
64 4 0.01
65 2 0.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (54 bp):
TTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:22212 original size:170 final size:169
Alignment explanation
Indices: 21896--22539 Score: 826
Period size: 170 Copynumber: 3.8 Consensus size: 169
21886 TCTGCTTTTT
21896 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCC
1 AGTCCTCAAAGAGCAGGA-GCC-TTTC----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* * * * * *
21960 TCAAGGAGCAGGACGCCTTCTCCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
60 TCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAA
* **
22025 AGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
124 AAAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
22071 AGTCCTTAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAA
1 AGTCCTCAAAGAGCAGGA-GCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAA
* * * *
22135 AGAGCAGGATGCTTTTTCTTTTCAAAGCCC-CACAAGTTGGTAGCACCTTTCAGTCCCCAAATAG
64 AGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAAAG
*
22199 CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCT
128 CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
22241 AGTCCTCAAAGAGCAGGAGACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
1 AGTCCTCAAAGAGCAGGAG-CCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
*
22305 AGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTTCTCAAAAAG
64 AGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAAAG
* * *
22370 CAAGACACCTCTT-AAAACCCACACAAGTTGGTGGCACCTTT-C
128 CAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
*
22412 AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGA-GCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
* * * *
22477 GAGCAGGACGC-----C-TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGC
65 GAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAAAGC
22536 AGGA
129 AGGA
22540 TACACTTTAT
Statistics
Matches: 422, Mismatches: 36, Indels: 32
0.86 0.07 0.07
Matches are distributed among these distances:
165 45 0.11
166 1 0.00
169 1 0.00
170 175 0.41
171 170 0.40
172 6 0.01
174 4 0.01
175 20 0.05
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (169 bp):
AGTCCTCAAAGAGCAGGAGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAG
AGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAAAGCAG
GACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:22493 original size:26 final size:26
Alignment explanation
Indices: 22406--22493 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
22396 GTTGGTGGCA
*
22406 CCTTTCAGTCCTCAAAGAGCAAGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * ** *
22432 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
1 CCTTTC--AGTCCTCA-AAG-AGCAGGACG
22461 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
22487 CCTTTCA
1 CCTTTCA
22494 AAGCCCACAC
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 3 0.07
26 17 0.39
27 6 0.14
28 6 0.14
29 10 0.23
30 2 0.05
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:22728 original size:40 final size:42
Alignment explanation
Indices: 22632--22729 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
22622 GACGTACTCT
* *
22632 TTTTCACTTTGTCCTCAAGAAGCAGGACACTTTCCTTTTCTTC
1 TTTTC-CTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
* * * *
22675 TCTTCCTTGGTCCTCAAGGAGCAAGAC-CTATTTC-ATTC-TC
1 TTTTCCTTTGTCCTCAAGAAGCAAGACACT-TTCCTATTCTTC
22715 TTTTCCTTTGTCCTC
1 TTTTCCTTTGTCCTC
22730 GAAAAGTGGA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
40 15 0.33
41 5 0.11
42 22 0.48
43 4 0.09
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.42
Consensus pattern (42 bp):
TTTTCCTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
Found at i:23393 original size:19 final size:18
Alignment explanation
Indices: 23342--23431 Score: 75
Period size: 19 Copynumber: 5.1 Consensus size: 18
23332 TTGAATTCCA
23342 ATAA-TTTGTATCGATAC
1 ATAAGTTTGTATCGATAC
* *
23359 ATTCAGTAAATGTATCGATAC
1 A-TAAGT--TTGTATCGATAC
23380 ATAAGTGTTGTATCGATAC
1 ATAAGT-TTGTATCGATAC
23399 --AA---TGTATCGATAC
1 ATAAGTTTGTATCGATAC
23412 ATAAGTTTTGTATCGATAC
1 ATAAG-TTTGTATCGATAC
23431 A
1 A
23432 ATGTATCGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
13 11 0.19
15 2 0.03
17 3 0.05
18 2 0.03
19 24 0.41
20 4 0.07
21 12 0.21
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
ATAAGTTTGTATCGATAC
Found at i:23406 original size:13 final size:13
Alignment explanation
Indices: 23388--23412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23378 ACATAAGTGT
23388 TGTATCGATACAA
1 TGTATCGATACAA
23401 TGTATCGATACA
1 TGTATCGATACA
23413 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:23408 original size:32 final size:32
Alignment explanation
Indices: 23367--23439 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
23357 ACATTCAGTA
23367 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
23399 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
23431 AATGTATCG
1 AATGTATCG
23440 CTAACAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:23501 original size:13 final size:13
Alignment explanation
Indices: 23483--23508 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23473 CATTTTTCTG
23483 TGTATCGATACAT
1 TGTATCGATACAT
23496 TGTATCGATACAT
1 TGTATCGATACAT
23509 CTATTCTTTG
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:23526 original size:34 final size:33
Alignment explanation
Indices: 23463--23529 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
23453 ACCAAGGAAA
*
23463 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
23496 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
23530 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:26096 original size:79 final size:79
Alignment explanation
Indices: 26005--26179 Score: 255
Period size: 79 Copynumber: 2.2 Consensus size: 79
25995 CCCGTTAATC
* *
26005 ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCTGCTTT-A-TTCTTAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCAG-TTTCATTTC-CAAA
* **
26068 ATATTGATTTCTCATA
64 ACATCAATTTCTCATA
*
26084 ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAATCCCAGTTTCATTTCCAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCAGTTTCATTTCCAAAAC
*
26149 ATCAATTTCTCTTA
66 ATCAATTTCTCATA
26163 ATCGGGGATACTCCAAC
1 ATCGGGGATACTCCAAC
26180 TCCGATTTTA
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
78 3 0.03
79 81 0.93
80 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCAGTTTCATTTCCAAAAC
ATCAATTTCTCATA
Found at i:26176 original size:51 final size:51
Alignment explanation
Indices: 26116--26281 Score: 149
Period size: 51 Copynumber: 3.3 Consensus size: 51
26106 TATTTCCGAA
* **
26116 GGGATACTCCAA-TCCCAGTTTCATTTCCAAAACATCAA-TTTCTCTTAATCG
1 GGGATACTCCAACTCCCA-TTTCATTTCCAAAACACCAATTTTC-CAAAATCG
* * * *
26167 GGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCAAAATCG
1 GGGATACTCCAACTCCCATTTCATTTCCAAAACACCAATTTTCCAAAATCG
* * * * * * *
26218 GGGATACTCCAAGTTCGATTTTATTTCCAAAGCACCGACTTTT-CACAATCG
1 GGGATACTCCAACTCCCATTTCATTTCCAAAACACC-AATTTTCCAAAATCG
*
26269 GGGATATTCCAAC
1 GGGATACTCCAAC
26282 CCCGTTATTT
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
51 84 0.88
52 12 0.12
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.31
Consensus pattern (51 bp):
GGGATACTCCAACTCCCATTTCATTTCCAAAACACCAATTTTCCAAAATCG
Found at i:26442 original size:51 final size:51
Alignment explanation
Indices: 26366--26587 Score: 209
Period size: 51 Copynumber: 4.3 Consensus size: 51
26356 TTACCTCCGA
* * * * * *
26366 GGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGATTTCTCATAATC
1 GGGGATACTCCAACCCTGGTTTTATTTTCAAAACACTAATTTCTCACAATC
*
26417 GGGGATACTCCAACCCTGGTTTTA-TTTCTAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCTGGTTTTATTTTC-AAAACACTAATTTCTCACAATC
* * * *
26468 GGGGATACTCCAACCGTGGTTTTTTTTTTAAAACACCAATTT-TC-CTTTAATC
1 GGGGATACTCCAACCCTGGTTTTATTTTCAAAACACTAATTTCTCAC---AATC
* * * * *
26520 GGGGATACTCTAACTCC-GATTTTATTTCTAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAAC-CCTGGTTTTATTT-TCAAAACACTAATTTCTCACAATC
*
26572 AGGGATACTCCAACCC
1 GGGGATACTCCAACCC
26588 CGTTATTATC
Statistics
Matches: 144, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
49 1 0.01
50 6 0.04
51 75 0.52
52 44 0.31
53 15 0.10
54 2 0.01
55 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.35
Consensus pattern (51 bp):
GGGGATACTCCAACCCTGGTTTTATTTTCAAAACACTAATTTCTCACAATC
Found at i:27876 original size:15 final size:16
Alignment explanation
Indices: 27850--27884 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
27840 TATTACATAA
27850 ATTTTCATATATTCAT
1 ATTTTCATATATTCAT
*
27866 ATTTT-ATATATTTAT
1 ATTTTCATATATTCAT
27881 ATTT
1 ATTT
27885 CTTTTCGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTCATATATTCAT
Found at i:30014 original size:18 final size:18
Alignment explanation
Indices: 29993--30028 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
29983 ATTTAAAATA
29993 TTAATAT-TTATATAATTT
1 TTAATATATTA-ATAATTT
30011 TTAATATATTAATAATTT
1 TTAATATATTAATAATTT
30029 CTATTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTAATATATTAATAATTT
Found at i:30068 original size:15 final size:15
Alignment explanation
Indices: 30015--30080 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
30005 TAATTTTTAA
30015 TATATTA-ATA-ATT
1 TATATTATATATATT
* *
30028 TCTATTATATAAATT
1 TATATTATATATATT
*
30043 T-TA--AAATATATT
1 TATATTATATATATT
30055 TATATTATATATATT
1 TATATTATATATATT
* *
30070 AATATTTTATA
1 TATATTATATA
30081 CATATTTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
12 8 0.19
13 8 0.19
14 5 0.12
15 21 0.50
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATTATATATATT
Found at i:30692 original size:20 final size:20
Alignment explanation
Indices: 30667--30704 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30657 TTATTTTTAT
*
30667 TATATTTTATATTAAAATTA
1 TATATTTAATATTAAAATTA
*
30687 TATATTTAATATTTAAAT
1 TATATTTAATATTAAAAT
30705 ATTTTATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATTTAATATTAAAATTA
Found at i:31140 original size:35 final size:34
Alignment explanation
Indices: 31101--31198 Score: 100
Period size: 35 Copynumber: 3.0 Consensus size: 34
31091 ATAAAAATTA
31101 AATTTAAAATTTAAAATTCATTAAATATTATTTTT
1 AATTTAAAATTTAAAATT-ATTAAATATTATTTTT
** *
31136 AATTTAAAATAAAAAATTA-TAAATATTA---AT
1 AATTTAAAATTTAAAATTATTAAATATTATTTTT
*
31166 -ATTTAAATTTTAAATATT-TTAAATATTATTTTT
1 AATTTAAAATTTAAA-ATTATTAAATATTATTTTT
31199 TAAAAATAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
29 11 0.22
30 13 0.25
33 10 0.20
34 1 0.02
35 16 0.31
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (34 bp):
AATTTAAAATTTAAAATTATTAAATATTATTTTT
Found at i:31143 original size:63 final size:63
Alignment explanation
Indices: 31071--31198 Score: 154
Period size: 63 Copynumber: 2.0 Consensus size: 63
31061 ATGAACGAGA
**
31071 TTAAGTTAAAA-AGAAGTACTATAAAAATTAA-ATTTAAAATTTAAA-ATTCATTAAATATTATT
1 TTAAGTTAAAATA-AAAAACTATAAAAATTAATATTTAAAATTTAAATATT--TTAAATATTATT
31133 T
63 T
* * * *
31134 TTAATTTAAAATAAAAAATTATAAATATTAATATTTAAATTTTAAATATTTTAAATATTATTT
1 TTAAGTTAAAATAAAAAACTATAAAAATTAATATTTAAAATTTAAATATTTTAAATATTATTT
31197 TT
1 TT
31199 TAAAAATAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
63 39 0.70
64 14 0.25
65 3 0.05
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (63 bp):
TTAAGTTAAAATAAAAAACTATAAAAATTAATATTTAAAATTTAAATATTTTAAATATTATTT
Found at i:37398 original size:20 final size:20
Alignment explanation
Indices: 37359--37414 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
37349 ATTTCTATAA
* *
37359 AATGTATTGATATAATAAGTG
1 AATGTATCGATA-CATAAGTG
37380 AATGTATCGATACATAAGTG
1 AATGTATCGATACATAAGTG
*
37400 AATGTATCAATACAT
1 AATGTATCGATACAT
37415 GTTCAAAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 21 0.66
21 11 0.34
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATAAGTG
Found at i:37535 original size:51 final size:49
Alignment explanation
Indices: 37480--37602 Score: 138
Period size: 51 Copynumber: 2.5 Consensus size: 49
37470 ATATGTATCA
* * * *
37480 ATACATTTTTCATTGTATCGATGCATTCTAGGTTTGGACCCAAATGTATTG
1 ATACATTCTTCATTGTATCGATACATTATAGGTTTGGAACC-AATGTA-TG
* * * *
37531 ATACATTCTACATTGTATCGATATATTATGGGTTTTGAACCAATGTATG
1 ATACATTCTTCATTGTATCGATACATTATAGGTTTGGAACCAATGTATG
* *
37580 ATACATTCTTCAATATATCGATA
1 ATACATTCTTCATTGTATCGATA
37603 TATGCAGGCA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 22 0.36
50 6 0.10
51 33 0.54
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (49 bp):
ATACATTCTTCATTGTATCGATACATTATAGGTTTGGAACCAATGTATG
Found at i:39200 original size:155 final size:154
Alignment explanation
Indices: 38809--39192 Score: 466
Period size: 155 Copynumber: 2.5 Consensus size: 154
38799 GGCAACGACT
* * * *
38809 TAGGAGTTGGTTCTAGAAAATTACGAAAATGCCTCTAAGGAATACCTTTGACGTAAAAGTACCTG
1 TAGGAGTTGGTTCTA-AAAATTACGAAAATACCCCTAAGGGATACCTTTGACGTAAAAGTACCCG
* * **
38874 ACATCCT-TAAAGGACTTAAAAAGGATCATAAAAGGGATGAATTTATCCTAAATATCTACCTTCA
65 ATA-CCTCTAAAGGATTTAAAAAGGATCATAAAAGGGATGAACCTATCCTAAATATCTACCTTCA
38938 GCATAAAAGCGAACCCGACGATGACC
129 GCATAAAAGCGAACCCGACGATGACC
* * * * * * *
38964 TAGGAGTTGGTTCTAAAAAATTACGAAAATAACCCTAAGGGGTTCATTTAACGTAAAAGTGCCCA
1 TAGGAGTTGGTTCT-AAAAATTACGAAAATACCCCTAAGGGATACCTTTGACGTAAAAGTACCCG
* * * **
39029 ATACCCCTAAAGGATTTATAGAGGATTC-TAAAAGGGATGAACCTATCCTAAATATCTACCTTTG
65 ATACCTCTAAAGGATTTAAAAAGGA-TCATAAAAGGGATGAACCTATCCTAAATATCTACCTTCA
* * ** * *
39093 GCATAAAAGCGGATCCGGTGGTGATC
129 GCATAAAAGCGAACCCGACGATGACC
*
39119 TAGGAGTTGGTTTTGAAAAATTACGAAAATACCCCTAAGGGATACCTTTGACGTAAAAGTACCCG
1 TAGGAGTTGGTTCT-AAAAATTACGAAAATACCCCTAAGGGATACCTTTGACGTAAAAGTACCCG
39184 ATACCTCTA
65 ATACCTCTA
39193 GGGGATTTGA
Statistics
Matches: 190, Mismatches: 36, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
154 2 0.01
155 185 0.97
156 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (154 bp):
TAGGAGTTGGTTCTAAAAATTACGAAAATACCCCTAAGGGATACCTTTGACGTAAAAGTACCCGA
TACCTCTAAAGGATTTAAAAAGGATCATAAAAGGGATGAACCTATCCTAAATATCTACCTTCAGC
ATAAAAGCGAACCCGACGATGACC
Found at i:45188 original size:52 final size:52
Alignment explanation
Indices: 45103--45227 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
45093 ATATGAAAAG
* * *
45103 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATTTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATATGGGCAAAT
*
45155 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATATGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATATGGGCAAAT
*
45207 TTTCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
45228 AAGATTAGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATATGGGCAAAT
Found at i:45240 original size:52 final size:52
Alignment explanation
Indices: 45103--45247 Score: 193
Period size: 52 Copynumber: 2.8 Consensus size: 52
45093 ATATGAAAAG
* * * *
45103 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATTTGGGCAAAT
1 TTGCCTGCATGTATCGATACAATTATTAGTGTATCGATACATATGGGCAAAT
* *
45155 TTGCCTGCATGTATCGATAC-ATTTTATAATGTATCGATACATATGGGCAAAT
1 TTGCCTGCATGTATCGATACAATTAT-TAGTGTATCGATACATATGGGCAAAT
* **
45207 TTTCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAATTATTAGTGTATCGATACA
45248 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 2 0.03
52 76 0.95
53 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACAATTATTAGTGTATCGATACATATGGGCAAAT
Found at i:45254 original size:13 final size:13
Alignment explanation
Indices: 45236--45260 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45226 CAAAGATTAG
45236 TGTATCGATACAA
1 TGTATCGATACAA
45249 TGTATCGATACA
1 TGTATCGATACA
45261 TTTTTTGGCA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:45317 original size:33 final size:33
Alignment explanation
Indices: 45280--45346 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
45270 AGTAGCTTAA
45280 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
45313 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
45346 A
1 A
45347 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:45320 original size:13 final size:13
Alignment explanation
Indices: 45302--45326 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45292 CAAAAAAATA
45302 TGTATCGATACAT
1 TGTATCGATACAT
45315 TGTATCGATACA
1 TGTATCGATACA
45327 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:46779 original size:20 final size:20
Alignment explanation
Indices: 46702--46779 Score: 95
Period size: 20 Copynumber: 3.8 Consensus size: 20
46692 ATTTGCCTGC
*
46702 ATGTATTGATACA-TTAAAGA
1 ATGTATCGATACATTTAAA-A
46722 ATGTATCGATACAATTTAAAA
1 ATGTATCGATAC-ATTTAAAA
**
46743 CATGTATCGATACATTTATTA
1 -ATGTATCGATACATTTAAAA
46764 ATGTATCGATACATTT
1 ATGTATCGATACATTT
46780 CTTTGGCAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
20 27 0.52
21 8 0.15
22 17 0.33
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTAAAA
Found at i:46952 original size:21 final size:20
Alignment explanation
Indices: 46906--46957 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 20
46896 GTTGGGACCC
46906 TGTATCGATACATTCTAGAA
1 TGTATCGATACATTCTAGAA
46926 ---ATCGATACATTCTAGAAA
1 TGTATCGATACATTCTAG-AA
46944 TGTATCGATACATT
1 TGTATCGATACATT
46958 TGAACAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 15 0.54
18 2 0.07
21 11 0.39
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATTCTAGAA
Found at i:51354 original size:42 final size:42
Alignment explanation
Indices: 51307--51533 Score: 197
Period size: 42 Copynumber: 5.3 Consensus size: 42
51297 TAAATAAAGA
*
51307 GATAAAGAAGTCTCTCAGGTCTGAGCCAACGGGCAGATGAAT
1 GATAAAGAAGTCTCTCAGGTCTGAGCCGACGGGCAGATGAAT
* * * *
51349 GATAAAGAAGTCTC-CTAGGTATGAGCCGACAGGACAAATTAAT
1 GATAAAGAAGTCTCTC-AGGTCTGAGCCGAC-GGGCAGATGAAT
* * * * *
51392 GATAAAGAAGTCTCCCAAGTCTGAGCTGATGGGCAGATTAAT
1 GATAAAGAAGTCTCTCAGGTCTGAGCCGACGGGCAGATGAAT
* * ** * * *
51434 GATAAAAAAAAGTTTCTGGGGTCTGAACTGACAGGCAGATGAAT
1 GAT--AAAGAAGTCTCTCAGGTCTGAGCCGACGGGCAGATGAAT
* * * * *
51478 GATAAAGAAGTCT-TCTGGGTCTGAACCGATGGGTAGACGAAT
1 GATAAAGAAGTCTCTC-AGGTCTGAGCCGACGGGCAGATGAAT
51520 GATAAAGAAGTCTC
1 GATAAAGAAGTCTC
51534 CCGGGTCTAA
Statistics
Matches: 149, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.01
42 81 0.54
43 33 0.22
44 33 0.22
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (42 bp):
GATAAAGAAGTCTCTCAGGTCTGAGCCGACGGGCAGATGAAT
Found at i:51404 original size:43 final size:43
Alignment explanation
Indices: 51307--51406 Score: 132
Period size: 43 Copynumber: 2.3 Consensus size: 43
51297 TAAATAAAGA
* * *
51307 GATAAAGAAGTCT-CTCAGGTCTGAGCCAACGGGCAGATGAAT
1 GATAAAGAAGTCTCCTCAGGTATGAGCCAACGGACAAATGAAT
* *
51349 GATAAAGAAGTCTCCT-AGGTATGAGCCGACAGGACAAATTAAT
1 GATAAAGAAGTCTCCTCAGGTATGAGCCAAC-GGACAAATGAAT
51392 GATAAAGAAGTCTCC
1 GATAAAGAAGTCTCC
51407 CAAGTCTGAG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
42 25 0.49
43 26 0.51
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (43 bp):
GATAAAGAAGTCTCCTCAGGTATGAGCCAACGGACAAATGAAT
Found at i:51552 original size:42 final size:42
Alignment explanation
Indices: 51307--51567 Score: 119
Period size: 42 Copynumber: 6.1 Consensus size: 42
51297 TAAATAAAGA
* * * * * *
51307 GATAAAGAAGTCTCTCAGGTCTGAGCCAACGGGCAGATGAAT
1 GATAAAGAAGTCTCCCGGGTCTGAACCAATGGGAAGACGAAT
** * * * ** * **
51349 GATAAAGAAGTCTCCTAGGTATGAGCCGACAGGACAAATTAAT
1 GATAAAGAAGTCTCCCGGGTCTGAACCAATGGGA-AGACGAAT
** * ** * **
51392 GATAAAGAAGTCTCCCAAGTCTGAGCTGATGGGCAGATTAAT
1 GATAAAGAAGTCTCCCGGGTCTGAACCAATGGGAAGACGAAT
* * ** ** ** * *
51434 GATAAAAAAAAGTTTCTGGGGTCTGAACTGACAGGCAGATGAAT
1 GAT--AAAGAAGTCTCCCGGGTCTGAACCAATGGGAAGACGAAT
* * * *
51478 GATAAAGAAGTCTTCTGGGTCTGAACCGATGGGTAGACGAAT
1 GATAAAGAAGTCTCCCGGGTCTGAACCAATGGGAAGACGAAT
* *
51520 GATAAAGAAGTCTCCCGGGTCT-AAGCCAATGGGAAGACAAAA
1 GATAAAGAAGTCTCCCGGGTCTGAA-CCAATGGGAAGACGAAT
51562 GATAAA
1 GATAAA
51568 AAAAGTCTTG
Statistics
Matches: 173, Mismatches: 42, Indels: 8
0.78 0.19 0.04
Matches are distributed among these distances:
41 2 0.01
42 106 0.61
43 33 0.19
44 32 0.18
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.21
Consensus pattern (42 bp):
GATAAAGAAGTCTCCCGGGTCTGAACCAATGGGAAGACGAAT
Found at i:51568 original size:128 final size:129
Alignment explanation
Indices: 51338--51571 Score: 290
Period size: 128 Copynumber: 1.8 Consensus size: 129
51328 TGAGCCAACG
* **
51338 GGCAGATGAATGATAAAGAAGTCTCCTAGGTATGAGCCGACAGGACAAATTAATGATAAAGAAGT
1 GGCAGATGAATGATAAAGAAGTCTCCTAGGTATGAACCGACAGGACAAACGAATGATAAAGAAGT
* ** * ** *
51403 CTCCCAAGTCTGAGCTGATGGGCAGATTAATGATAAAAAAAAGTTTCTGGGGTCTGAACTGACA
66 CTCCCAAGTCTAAGCCAATGGGAAGACAAAAGATAAAAAAAAGTTTCTGGGGTCTGAACTGACA
* * * * ** *
51467 GGCAGATGAATGATAAAGAAGTCTTCTGGGTCTGAACCGA-TGGGTAGACGAATGATAAAGAAGT
1 GGCAGATGAATGATAAAGAAGTCTCCTAGGTATGAACCGACAGGACAAACGAATGATAAAGAAGT
**
51531 CTCCCGGGTCTAAGCCAATGGGAAGACAAAAGATAAAAAAA
66 CTCCCAAGTCTAAGCCAATGGGAAGACAAAAGATAAAAAAA
51572 GTCTTGTTAG
Statistics
Matches: 86, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
128 50 0.58
129 36 0.42
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (129 bp):
GGCAGATGAATGATAAAGAAGTCTCCTAGGTATGAACCGACAGGACAAACGAATGATAAAGAAGT
CTCCCAAGTCTAAGCCAATGGGAAGACAAAAGATAAAAAAAAGTTTCTGGGGTCTGAACTGACA
Found at i:52019 original size:13 final size:13
Alignment explanation
Indices: 51997--52026 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
51987 AATACATGGG
*
51997 ACATTGTATCGAT
1 ACATTATATCGAT
52010 ACATTATATCGAT
1 ACATTATATCGAT
52023 ACAT
1 ACAT
52027 AGTGAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTATATCGAT
Found at i:52927 original size:42 final size:42
Alignment explanation
Indices: 52793--53309 Score: 380
Period size: 42 Copynumber: 12.2 Consensus size: 42
52783 AGTCTCCTGG
* * * *
52793 GTCTAAGCCGATAGGTAGACAAAAGATGAAGAAGTCTCCCGA
1 GTCTAAGCCGATGGGCAGACAAAAGATAAAGAAGTCTCTCGA
* * ** * * * * * *
52835 GTTTGAGCTAACGAGCAGACAAATGATAAAGAAAGTCTTTTGG
1 GTCTAAGCCGATGGGCAGACAAAAGATAAAG-AAGTCTCTCGA
* **
52878 GTTTAAGCCGATGACCAGACAAAAGATAAAGAAGTCTCTCGA
1 GTCTAAGCCGATGGGCAGACAAAAGATAAAGAAGTCTCTCGA
* *
52920 GTCTAAGCCGATGGGCAGACAAATGATAAAAAATGTCTCTCGA
1 GTCTAAGCCGATGGGCAGACAAAAGATAAAGAA-GTCTCTCGA
* *
52963 GTCTAAGCCGATGGGCAAACAAAAGATAAAGAAGTCTCTCGG
1 GTCTAAGCCGATGGGCAGACAAAAGATAAAGAAGTCTCTCGA
* * * *
53005 GTCTAAGCCGATGGGTAGCCAAATA-ATAAAGAAGTTTC-CGGG
1 GTCTAAGCCGATGGGCAGACAAA-AGATAAAGAAGTCTCTC-GA
* * * * * *
53047 GTCTGAGCCAATGGGCAGACAAAGGATGAAAAAAATCTCCCGA
1 GTCTAAGCCGATGGGCAGACAAAAGAT-AAAGAAGTCTCTCGA
* * * * * *
53090 GTCTGAGTCAAAGGGTAGACAAAAGATAAAGAAGTCTCTCGG
1 GTCTAAGCCGATGGGCAGACAAAAGATAAAGAAGTCTCTCGA
* * ** * *
53132 GTCTAGGCTGACAGGCAGACAAAAGATAAAGAAGTCTCCCAA
1 GTCTAAGCCGATGGGCAGACAAAAGATAAAGAAGTCTCTCGA
** * *
53174 GTCTCAA-CCGATGGATAGGA-AAAAGATAAGGAAGTCTC-CTA
1 GTCT-AAGCCGATGGGCA-GACAAAAGATAAAGAAGTCTCTCGA
* * * * * *
53215 GGTCTGAGCTGATGGGTAGACAAATGATAAAAAAAGTCTC-CCA
1 -GTCTAAGCCGATGGGCAGACAAAAGAT-AAAGAAGTCTCTCGA
* * * * *
53258 GGTCTAAGCTGATGGGCAAACAAAAGATAAAAAATTCTCTCGG
1 -GTCTAAGCCGATGGGCAGACAAAAGATAAAGAAGTCTCTCGA
53301 GTCTAAGCC
1 GTCTAAGCC
53310 AATAAGCAAA
Statistics
Matches: 374, Mismatches: 87, Indels: 28
0.76 0.18 0.06
Matches are distributed among these distances:
41 6 0.02
42 224 0.60
43 143 0.38
44 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (42 bp):
GTCTAAGCCGATGGGCAGACAAAAGATAAAGAAGTCTCTCGA
Found at i:53012 original size:127 final size:125
Alignment explanation
Indices: 52851--53383 Score: 412
Period size: 127 Copynumber: 4.2 Consensus size: 125
52841 GCTAACGAGC
* * * * *
52851 AGACAAATGATAAAGAAAGTCTTTTGGGTTTAAGCCGATGACCAGACAAAAGATAAAGAAGTCTC
1 AGACAAAAGATAAAG-AAGTCTCTCGGGTCTAAGCCGATGAGCAGACAAAAGATAAAGAAGTCTC
* * *
52916 TCGAGTCTAAGCCGATGGGCAGACAAATGATAAAAAATGTCTCTCGAGTCTAAGCCGATGGGC
65 TCGAGTCTAAGCCAATGGGCAGACAAATGATAAAAAA-GTCTC-CGAGTCTGAGCCGATGGGT
* * * * *
52979 AAACAAAAGATAAAGAAGTCTCTCGGGTCTAAGCCGATGGGTAGCCAAATA-ATAAAGAAGTTTC
1 AGACAAAAGATAAAGAAGTCTCTCGGGTCTAAGCCGATGAGCAGACAAA-AGATAAAGAAGTCTC
* * * * * * *
53043 -CGGGGTCTGAGCCAATGGGCAGACAAAGGATGAAAAAAATCTCCCGAGTCTGAGTCAAAGGGT
65 TC-GAGTCTAAGCCAATGGGCAGACAAATGAT-AAAAAAGTCT-CCGAGTCTGAGCCGATGGGT
* * *
53106 AGACAAAAGATAAAGAAGTCTCTCGGGTCTAGGCTGA-CAGGCAGACAAAAGATAAAGAAGTCTC
1 AGACAAAAGATAAAGAAGTCTCTCGGGTCTAAGCCGATGA-GCAGACAAAAGATAAAGAAGTCTC
* * * ** * ** * *
53170 CCAAGTCTCAA-CCGATGGATAGGA-AAAAGATAAGGAAGTCTCCTAGGTCTGAGCTGATGGGT
65 TCGAGTCT-AAGCCAATGGGCA-GACAAATGATAAAAAAGTCTCCGA-GTCTGAGCCGATGGGT
* * * * * * * * *
53232 AGACAAATGATAAAAAAAGTCTCCCAGGTCTAAGCTGATGGGCAAACAAAAGATAAAAAATTCTC
1 AGACAAAAGAT-AAAGAAGTCTCTCGGGTCTAAGCCGATGAGCAGACAAAAGATAAAGAAGTCTC
* ** * * * * * *
53297 TCGGGTCTAAGCCAATAAGCAAATAAATGATAAAAAGGTTTACC-AGGTCTGAGCCGATGAGC
65 TCGAGTCTAAGCCAATGGGCAGACAAATGATAAAAAAGTCT-CCGA-GTCTGAGCCGATGGGT
* *
53359 AGACAAAGGATGAAGAAAGTCTCTC
1 AGACAAAAGATAAAG-AAGTCTCTC
53384 AGATAAAGAA
Statistics
Matches: 315, Mismatches: 74, Indels: 33
0.75 0.18 0.08
Matches are distributed among these distances:
125 3 0.01
126 36 0.11
127 249 0.79
128 27 0.09
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (125 bp):
AGACAAAAGATAAAGAAGTCTCTCGGGTCTAAGCCGATGAGCAGACAAAAGATAAAGAAGTCTCT
CGAGTCTAAGCCAATGGGCAGACAAATGATAAAAAAGTCTCCGAGTCTGAGCCGATGGGT
Found at i:53165 original size:169 final size:169
Alignment explanation
Indices: 52893--53309 Score: 416
Period size: 169 Copynumber: 2.5 Consensus size: 169
52883 AGCCGATGAC
* * * ** * *
52893 CAGACAAAAGAT-AAAGAAGTCTCTC-GAGTCTAAGCCGATGGGCAGACAAATGATAAAAAATGT
1 CAGACAAAGGATAAAAAAAGTCTCCCAG-GTCTAAGCTAAAGGGCAGACAAAAGATAAAAAA-GT
* ** * ** *
52956 CTCTCGAGTCTAAGCCGATGGGCAAACAAAAGATAAAGAAGTCTCTCGGGTCT-AAGCCGATGGG
64 CTCTCGGGTCTAAGCCGACAGGCAAACAAAAGATAAAGAAGTCTCCCAAGTCTCAA-CCGATGGA
* * *
53020 TAGCCAAATA-ATAAAGAAGTTTCCGGGGTCTGAGCCAATGGG
128 TAG-CAAAAAGATAAAGAAGTCTCCGAGGTCTGAGCCAATGGG
* * *
53062 CAGACAAAGGATGAAAAAAA-TCTCCC-GAGTCTGAG-TCAAAGGGTAGACAAAAGATAAAGAAG
1 CAGACAAAGGAT-AAAAAAAGTCTCCCAG-GTCTAAGCT-AAAGGGCAGACAAAAGATAAAAAAG
* * *
53124 TCTCTCGGGTCTAGGCTGACAGGCAGACAAAAGATAAAGAAGTCTCCCAAGTCTCAACCGATGGA
63 TCTCTCGGGTCTAAGCCGACAGGCAAACAAAAGATAAAGAAGTCTCCCAAGTCTCAACCGATGGA
* * * **
53189 TAGGAAAAAGATAAGGAAGTCTCCTAGGTCTGAGCTGATGGG
128 TAGCAAAAAGATAAAGAAGTCTCCGAGGTCTGAGCCAATGGG
* * * * * *
53231 TAGACAAATGATAAAAAAAGTCTCCCAGGTCTAAGCTGATGGGCAAACAAAAGATAAAAAATTCT
1 CAGACAAAGGATAAAAAAAGTCTCCCAGGTCTAAGCTAAAGGGCAGACAAAAGATAAAAAAGTCT
53296 CTCGGGTCTAAGCC
66 CTCGGGTCTAAGCC
53310 AATAAGCAAA
Statistics
Matches: 201, Mismatches: 39, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
168 11 0.05
169 149 0.74
170 36 0.18
171 5 0.02
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (169 bp):
CAGACAAAGGATAAAAAAAGTCTCCCAGGTCTAAGCTAAAGGGCAGACAAAAGATAAAAAAGTCT
CTCGGGTCTAAGCCGACAGGCAAACAAAAGATAAAGAAGTCTCCCAAGTCTCAACCGATGGATAG
CAAAAAGATAAAGAAGTCTCCGAGGTCTGAGCCAATGGG
Found at i:53304 original size:85 final size:83
Alignment explanation
Indices: 52791--53309 Score: 341
Period size: 85 Copynumber: 6.1 Consensus size: 83
52781 CAAGTCTCCT
* * * * * * ** * * *
52791 GGGTCTAAGCCGATAGGTAGACAAAAGATGAAGAAGTCTCCCGAGTTTGAGCTAACGAGCAGACA
1 GGGTCTGAGCCGATGGGCAGACAAAAGATAAAGAAGTCTCCCG-GTCTAAGCCGATGGGTAGACA
* * * *
52856 AATGATAAAGAAAGTCTTTT
65 AAAGATAAA-AAATTCTCTC
* * ** * *
52876 GGGTTTAAGCCGATGACCAGACAAAAGATAAAGAAGTCTCTCGAGTCTAAGCCGATGGGCAGACA
1 GGGTCTGAGCCGATGGGCAGACAAAAGATAAAGAAGTCTCCCG-GTCTAAGCCGATGGGTAGACA
*
52941 AATGATAAAAAATGTCTCTC
65 AAAGATAAAAAAT-TCTCTC
* * * * *
52961 GAGTCTAAGCCGATGGGCAAACAAAAGATAAAGAAGTCTCTCGGGTCTAAGCCGATGGGTAGCCA
1 GGGTCTGAGCCGATGGGCAGACAAAAGATAAAGAAGTCTC-CCGGTCTAAGCCGATGGGTAGACA
*
53026 AATA-ATAAAGAAGTT-TC-C
65 AA-AGATAAA-AAATTCTCTC
* * * * * * * *
53044 GGGGTCTGAGCCAATGGGCAGACAAAGGATGAAAAAAATCTCCCGAGTCTGAGTCAAAGGGTAGA
1 -GGGTCTGAGCCGATGGGCAGACAAAAGAT-AAAGAAGTCTCCCG-GTCTAAGCCGATGGGTAGA
* *
53109 CAAAAGATAAAGAAGTCTCTC
63 CAAAAGATAAAAAATTCTCTC
* ** * *
53130 GGGTCT-AGGCTGACAGGCAGACAAAAGATAAAGAAGTCTCCCAAGTCTCAA-CCGATGGATAGG
1 GGGTCTGA-GCCGATGGGCAGACAAAAGATAAAGAAGTCTCCC-GGTCT-AAGCCGATGGGTA-G
** *
53193 A-AAAAGATAAGGAAGTCTC-C
62 ACAAAAGATAAAAAATTCTCTC
* * * * * * * *
53213 TAGGTCTGAGCTGATGGGTAGACAAATGATAAAAAAAGTCTCCCAGGTCTAAGCTGATGGGCAAA
1 -GGGTCTGAGCCGATGGGCAGACAAAAGAT-AAAGAAGTCTCCC-GGTCTAAGCCGATGGGTAGA
53278 CAAAAGATAAAAAATTCTCTC
63 CAAAAGATAAAAAATTCTCTC
*
53299 GGGTCTAAGCC
1 GGGTCTGAGCC
53310 AATAAGCAAA
Statistics
Matches: 340, Mismatches: 74, Indels: 40
0.75 0.16 0.09
Matches are distributed among these distances:
83 2 0.01
84 98 0.29
85 234 0.69
86 6 0.02
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (83 bp):
GGGTCTGAGCCGATGGGCAGACAAAAGATAAAGAAGTCTCCCGGTCTAAGCCGATGGGTAGACAA
AAGATAAAAAATTCTCTC
Found at i:53484 original size:43 final size:42
Alignment explanation
Indices: 53420--53593 Score: 134
Period size: 42 Copynumber: 4.1 Consensus size: 42
53410 TCGATGGGCT
* *
53420 GACAAAAAATAAAAAAGTCTCCTAGGTCTGACCCGACGGGTA
1 GACAAAAGATAAAAAAGTCTCCTAGGTCTGAGCCGACGGGTA
* * * ****
53462 GACAAAAGATGAAAAAAGTCTCCCAGGTTTAAGCCGACAAACA
1 GACAAAAGAT-AAAAAAGTCTCCTAGGTCTGAGCCGACGGGTA
** * * * *
53505 GGTAAAAGATAAAAACGTCTCC-CGAGTCAGAGCCAACGGGTA
1 GACAAAAGATAAAAAAGTCTCCTAG-GTCTGAGCCGACGGGTA
* * * * **
53547 GATAAAAGATGAAAAAGTCTCCTAGGCCTGAGTCGATTGGTA
1 GACAAAAGATAAAAAAGTCTCCTAGGTCTGAGCCGACGGGTA
53589 GACAA
1 GACAA
53594 GGGATCAAAG
Statistics
Matches: 97, Mismatches: 32, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
41 1 0.01
42 63 0.65
43 33 0.34
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (42 bp):
GACAAAAGATAAAAAAGTCTCCTAGGTCTGAGCCGACGGGTA
Found at i:53839 original size:87 final size:87
Alignment explanation
Indices: 53692--54001 Score: 310
Period size: 87 Copynumber: 3.5 Consensus size: 87
53682 AGGGTGGTAG
* * *
53692 CCATACATCAAATAGGAAGGAGGCGATTTGACC-AGTGTGGTAACCATA-CGTCATATCGAAATG
1 CCATAC-TCAGATAGGAAGGAGGAGATTTGACCAAG-GTGGTAACCATATC-TCAAATCGAAATG
*
53755 AAAAGAATCTGACA-ATGGTCATAA
63 AAAAGAATTTGACACATGGTCATAA
* * *
53779 CCATACTCAGATAGGAATGAGGTGTATTTAACCAAGGTGGTAACCATATCTCAAATCGAAATGAA
1 CCATACTCAGATAGGAAGGAGGAG-ATTTGACCAAGGTGGTAACCATATCTCAAATCGAAATGAA
* *
53844 AAGAATTTGA-ACATGGTGATAG
65 AAGAATTTGACACATGGTCATAA
* * * *
53866 CCATACTCAGACAGGAAGGAGGCAGATTTGACTAAGATGGTAACCATATGTCAAATC-AGAATGA
1 CCATACTCAGATAGGAAGGAGG-AGATTTGACCAAGGTGGTAACCATATCTCAAATCGA-AATGA
* **
53930 AAAGAATTTGAC-CAAGGTGGTAA
64 AAAGAATTTGACACATGGTCATAA
* * * *
53953 CCAAACGTTAGATAAGAAGGAAGCG-GATTTGACCAGGGTGGTAACCATA
1 CCATAC-TCAGATAGGAAGG-AG-GAGATTTGACCAAGGTGGTAACCATA
54002 CATCAGATAA
Statistics
Matches: 188, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
86 17 0.09
87 133 0.71
88 35 0.19
89 2 0.01
90 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (87 bp):
CCATACTCAGATAGGAAGGAGGAGATTTGACCAAGGTGGTAACCATATCTCAAATCGAAATGAAA
AGAATTTGACACATGGTCATAA
Found at i:54117 original size:88 final size:86
Alignment explanation
Indices: 53982--54273 Score: 318
Period size: 88 Copynumber: 3.3 Consensus size: 86
53972 GAAGCGGATT
* * * *
53982 TGACCAGGGTGGTAACCATACATCAGATAAGAAGGATGTAGACTTGACCAGAGTGGTAACCATCC
1 TGACCAGGGTGGTAACCATACATCAGATAAGAA-GAGGTAGATTTGACCAGGGTGGTAACCATAC
*
54047 ATCAAATCAGAATGAAAAGAATC
65 ATCAAATC-GAATGAAAAGAATA
* * *
54070 TGACCAGGGTGGTAACCATACATCAGA-AAGGAATGAGGCAGTTTTGACCAGGGTGGTAACTATA
1 TGACCAGGGTGGTAACCATACATCAGATAA-GAA-GAGGTAGATTTGACCAGGGTGGTAACCATA
* * * *
54134 CGTCAAATTGGAATGGAAAGAATT
64 CATCAAA-TCGAATGAAAAGAATA
* * ** * *
54158 TGACTAGGGTGGTAACTATACGCCATATAAGAAGAAGGTAGATTTGACTAGGGTGGTAACCATAC
1 TGACCAGGGTGGTAACCATACATCAGATAAGAAG-AGGTAGATTTGACCAGGGTGGTAACCATAC
54223 ATCAAATCGAAATGAAAAGAATA
65 ATCAAATCG-AATGAAAAGAATA
** *
54246 TGACCAATGTGGTAA-CATACGTCAGATA
1 TGACCAGGGTGGTAACCATACATCAGATA
54274 GGAGAAAGAC
Statistics
Matches: 168, Mismatches: 31, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
87 15 0.09
88 150 0.89
89 3 0.02
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (86 bp):
TGACCAGGGTGGTAACCATACATCAGATAAGAAGAGGTAGATTTGACCAGGGTGGTAACCATACA
TCAAATCGAATGAAAAGAATA
Found at i:54147 original size:44 final size:44
Alignment explanation
Indices: 53674--54229 Score: 285
Period size: 44 Copynumber: 12.7 Consensus size: 44
53664 AATGCAAATC
* * * *
53674 ATTTGACTAGGGTGGTAGCCATACATCAAATAGGAAGGAGG-CG
1 ATTTGACCAGGGTGGTAACCATACATCAAATAGGAATGAGGAAG
* * * * * *
53717 ATTTGACCAGTGTGGTAACCATACGTCATATCGAAATGA-AAAG
1 ATTTGACCAGGGTGGTAACCATACATCAAATAGGAATGAGGAAG
* * * ** * *
53760 AATCTGACAATGGTCATAACCATAC-TCAGATAGGAATGAGG-TG
1 -ATTTGACCAGGGTGGTAACCATACATCAAATAGGAATGAGGAAG
* * * * *
53803 TATTTAACCAAGGTGGTAACCATATC-TCAAATCGAAATGA-AAAG
1 -ATTTGACCAGGGTGGTAACCATA-CATCAAATAGGAATGAGGAAG
* * * * * * * *
53847 AATTTGAACATGGTGATAGCCATAC-TCAGACAGGAAGGAGGCAG
1 -ATTTGACCAGGGTGGTAACCATACATCAAATAGGAATGAGGAAG
* * * ** *
53891 ATTTGACTAAGATGGTAACCATATGTCAAATCA-GAATGA-AAAG
1 ATTTGACCAGGGTGGTAACCATACATCAAAT-AGGAATGAGGAAG
* * * * * * * * **
53934 AATTTGACCAAGGTGGTAACCAAACGTTAGATAAGAAGGAAGCGG
1 -ATTTGACCAGGGTGGTAACCATACATCAAATAGGAATGAGGAAG
* * * * *
53979 ATTTGACCAGGGTGGTAACCATACATCAGATAAGAAGGATGTAG
1 ATTTGACCAGGGTGGTAACCATACATCAAATAGGAATGAGGAAG
* * * *
54023 ACTTGACCAGAGTGGTAACCATCCATCAAATCA-GAATGA-AAAG
1 ATTTGACCAGGGTGGTAACCATACATCAAAT-AGGAATGAGGAAG
* *
54066 AATCTGACCAGGGTGGTAACCATACATCAGAA-AGGAATGAGGCAG
1 -ATTTGACCAGGGTGGTAACCATACATCA-AATAGGAATGAGGAAG
* * * * *
54111 TTTTGACCAGGGTGGTAACTATACGTCAAATTGGAATG-GAAAG
1 ATTTGACCAGGGTGGTAACCATACATCAAATAGGAATGAGGAAG
* * ** * * *
54154 AATTTGACTAGGGTGGTAACTATACGCCATATAAGAA-GAAGGTAG
1 -ATTTGACCAGGGTGGTAACCATACATCAAATAGGAATG-AGGAAG
*
54199 ATTTGACTAGGGTGGTAACCATACATCAAAT
1 ATTTGACCAGGGTGGTAACCATACATCAAAT
54230 CGAAATGAAA
Statistics
Matches: 386, Mismatches: 107, Indels: 39
0.73 0.20 0.07
Matches are distributed among these distances:
43 100 0.26
44 276 0.72
45 10 0.03
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (44 bp):
ATTTGACCAGGGTGGTAACCATACATCAAATAGGAATGAGGAAG
Found at i:54170 original size:132 final size:132
Alignment explanation
Indices: 53880--54178 Score: 316
Period size: 132 Copynumber: 2.3 Consensus size: 132
53870 ACTCAGACAG
* * * * ** *
53880 GAAGGAGGCAGATTTGACTAAGATGGTAACCATATGTCAAATCAGAATGAAAAGAATTTGACCAA
1 GAAGGAAGTAGATTTGACTAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAATCTGACCAA
* * * *
53945 GGTGGTAACCAAACGTTAGATAAGAAGGAAGCGGATTTGACCAGGGTGGTAACCATACATCAGAT
66 GGTGGTAACCAAACATCAGATAAGAAGGAAGCAGATTTGACCAGGGTGGTAACCATACATCAAAT
54010 AA
131 AA
* * * * * *
54012 GAAGGATGTAGACTTGACCAGAGTGGTAACCATCCATCAAATCAGAATGAAAAGAATCTGACCAG
1 GAAGGAAGTAGATTTGACTAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAATCTGACCAA
* * * * * *
54077 GGTGGTAACCATACATCAGA-AAGGAATGAGGCAGTTTTGACCAGGGTGGTAACTATACGTCAAA
66 GGTGGTAACCAAACATCAGATAA-GAAGGAAGCAGATTTGACCAGGGTGGTAACCATACATCAAA
**
54141 TTG
130 TAA
*
54144 GAATGGAA--AGAATTTGACTAGGGTGGTAACTATAC
1 GAA-GGAAGTAG-ATTTGACTAGGGTGGTAACCATAC
54179 GCCATATAAG
Statistics
Matches: 134, Mismatches: 30, Indels: 6
0.79 0.18 0.04
Matches are distributed among these distances:
131 4 0.03
132 127 0.95
133 3 0.02
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.21
Consensus pattern (132 bp):
GAAGGAAGTAGATTTGACTAGGGTGGTAACCATACATCAAATCAGAATGAAAAGAATCTGACCAA
GGTGGTAACCAAACATCAGATAAGAAGGAAGCAGATTTGACCAGGGTGGTAACCATACATCAAAT
AA
Found at i:55634 original size:13 final size:13
Alignment explanation
Indices: 55616--55641 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55606 TACAACAAGT
55616 ATGTATCGATACA
1 ATGTATCGATACA
55629 ATGTATCGATACA
1 ATGTATCGATACA
55642 CAAAAAATTG
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:57890 original size:21 final size:21
Alignment explanation
Indices: 57857--57901 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
57847 TTGCAAGTTG
*
57857 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
57879 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
57899 AAA
1 AAA
57902 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:59203 original size:13 final size:13
Alignment explanation
Indices: 59185--59210 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59175 ACATTTTTCT
59185 TTGTATCGATACA
1 TTGTATCGATACA
59198 TTGTATCGATACA
1 TTGTATCGATACA
59211 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:60848 original size:20 final size:22
Alignment explanation
Indices: 60823--60862 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
60813 TAGTGTTTAT
60823 TTTATTTGC-TTG-ACCTTGTG
1 TTTATTTGCATTGTACCTTGTG
60843 TTTATTTGCATTGTACCTTG
1 TTTATTTGCATTGTACCTTG
60863 AATTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.12, C:0.15, G:0.17, T:0.55
Consensus pattern (22 bp):
TTTATTTGCATTGTACCTTGTG
Found at i:61777 original size:13 final size:13
Alignment explanation
Indices: 61759--61784 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61749 TACAACAAGT
61759 ATGTATCGATACA
1 ATGTATCGATACA
61772 ATGTATCGATACA
1 ATGTATCGATACA
61785 CAAAAAATTG
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:66416 original size:52 final size:52
Alignment explanation
Indices: 66268--66396 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
66258 CAAAATATGA
*
66268 AAATTTGCCTGCATGTATCGATACATTTCATAGTATATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
66320 AAATTTGCCTGTATGCATCGATACATTTCATAGTGGATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
66372 AAATTTGCCTGCATATATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
66397 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:66423 original size:13 final size:13
Alignment explanation
Indices: 66405--66429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66395 CAAAGATCAG
66405 TGTATCGATACAA
1 TGTATCGATACAA
66418 TGTATCGATACA
1 TGTATCGATACA
66430 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:67150 original size:55 final size:51
Alignment explanation
Indices: 67090--67778 Score: 402
Period size: 49 Copynumber: 14.6 Consensus size: 51
67080 GACCAATACA
* * * ** *
67090 CTGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAAGGATGTCAATATG
1 CTGATTCAAGGCCAGCAATATTGGAATTAAAGATG-G--AAAGG-TGCCAATATG
* *
67145 CTGATTCAAGGCCAGCAACATTGAAATTAAAGATGGAAAGGTGCCAATATG
1 CTGATTCAAGGCCAGCAATATTGGAATTAAAGATGGAAAGGTGCCAATATG
* * *
67196 CTGATTCAAGGCCAGCTATATTGG-ACT-----T--AAAGGTGCCAATGTG
1 CTGATTCAAGGCCAGCAATATTGGAATTAAAGATGGAAAGGTGCCAATATG
* * * * *
67239 CTGATTCAAGGCCAGCTACATTGCACTTAAAGAT-GATA-GTGCCAATATG
1 CTGATTCAAGGCCAGCAATATTGGAATTAAAGATGGAAAGGTGCCAATATG
* *
67288 CTGATTCAAGGCCAGCTATATTGG-ATT-----TGG--AGGTGCCAATGTG
1 CTGATTCAAGGCCAGCAATATTGGAATTAAAGATGGAAAGGTGCCAATATG
* * * *
67331 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-ATGGTGCCAATATG
1 CTGATTCAAGGCCAGCAATATTGGAATTAAAGATGGAAAGGTGCCAATATG
* * * *
67380 CTGATTCAAGGCCAACTATATTGG-ACT-----T-G-AAGGTGCCAATGTG
1 CTGATTCAAGGCCAGCAATATTGGAATTAAAGATGGAAAGGTGCCAATATG
* * * * *
67423 CTGATTCAAGGCCAGCTACATTGGACTCAAAGA-AG-AAGGTGCCAATATG
1 CTGATTCAAGGCCAGCAATATTGGAATTAAAGATGGAAAGGTGCCAATATG
* * *
67472 CTGATTCAAGGCTAGC--TA-T---ATT--AGACTTG-AAGGTGCCAATGTG
1 CTGATTCAAGGCCAGCAATATTGGAATTAAAGA-TGGAAAGGTGCCAATATG
* * * * *
67515 CTGATTCAAGGCTAGCTACATTGGACTTAAAGA-AG-AAGGTGCCAATATG
1 CTGATTCAAGGCCAGCAATATTGGAATTAAAGATGGAAAGGTGCCAATATG
* * *
67564 CTGATTCAAGGCCAGCTATATTGG-ACT-----T-G-AAGGTGCCAATGTG
1 CTGATTCAAGGCCAGCAATATTGGAATTAAAGATGGAAAGGTGCCAATATG
* * * *
67607 CTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AG-AAGGTGCCAATATG
1 CTGATTCAAGGCCAGCAATATTGGAATTAAAGATGGAAAGGTGCCAATATG
* * *
67656 CTGATTCAAGGCCAGCTATATTGG-ACT-----T-G-AAGGTGCCAATGTG
1 CTGATTCAAGGCCAGCAATATTGGAATTAAAGATGGAAAGGTGCCAATATG
* * * **
67699 CTGATTCAAGGTCAGCTACATTGGTCTTAAAGAT--AAAGGTGCCAATATG
1 CTGATTCAAGGCCAGCAATATTGGAATTAAAGATGGAAAGGTGCCAATATG
* *
67748 CTGATTCAAGGCCAGCTATATTGGACTTAAA
1 CTGATTCAAGGCCAGCAATATTGGAATTAAA
67779 TGTGCCAATG
Statistics
Matches: 515, Mismatches: 70, Indels: 104
0.75 0.10 0.15
Matches are distributed among these distances:
41 3 0.01
42 1 0.00
43 210 0.41
44 6 0.01
45 2 0.00
46 2 0.00
47 1 0.00
48 6 0.01
49 213 0.41
50 4 0.01
51 33 0.06
52 5 0.01
54 1 0.00
55 28 0.05
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (51 bp):
CTGATTCAAGGCCAGCAATATTGGAATTAAAGATGGAAAGGTGCCAATATG
Found at i:67309 original size:92 final size:92
Alignment explanation
Indices: 67138--67822 Score: 1138
Period size: 92 Copynumber: 7.4 Consensus size: 92
67128 AAAAGGATGT
* * * *
67138 CAATATGCTGATTCAAGGCCAGCAACATTGAAATTAAAGATGGAAAGGTGCCAATATGCTGATTC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AAGGTGCCAATATGCTGATTC
*
67203 AAGGCCAGCTATATTGGACTTAAAGGTGC
64 AAGGCCAGCTATATTGGACTTGAAGGTGC
*
67232 CAATGTGCTGATTCAAGGCCAGCTACATTGCACTTAAAGATGATA-GTGCCAATATGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA-AGGTGCCAATATGCTGATTCA
* *
67296 AGGCCAGCTATATTGGATTTGGAGGTGC
65 AGGCCAGCTATATTGGACTTGAAGGTGC
*
67324 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
*
67389 GGCCAACTATATTGGACTTGAAGGTGC
66 GGCCAGCTATATTGGACTTGAAGGTGC
* *
67416 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTCAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
67481 GGCTAGCTATATTAGACTTGAAGGTGC
66 GGCCAGCTATATTGGACTTGAAGGTGC
* *
67508 CAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
67573 GGCCAGCTATATTGGACTTGAAGGTGC
66 GGCCAGCTATATTGGACTTGAAGGTGC
*
67600 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
67665 GGCCAGCTATATTGGACTTGAAGGTGC
66 GGCCAGCTATATTGGACTTGAAGGTGC
* * *
67692 CAATGTGCTGATTCAAGGTCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
67757 GGCCAGCTATATTGGACTTAAATGTGC
66 GGCCAGCTATATTGGACTTGAAGGTGC
67784 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
67823 GTTGCCACCG
Statistics
Matches: 558, Mismatches: 31, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
92 519 0.93
93 2 0.00
94 37 0.07
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTGAAGGTGC
Found at i:67864 original size:33 final size:33
Alignment explanation
Indices: 67822--68079 Score: 326
Period size: 33 Copynumber: 7.8 Consensus size: 33
67812 TGGACTTAAA
*
67822 GGTTGCCACCGACTTGTGTGAGCTTTAGAGAAT
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAT
* *
67855 GGTTGCCACCGACTGGTGTGGGCTTTAGAG--G
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAT
* * *
67886 GGATTGCCACCAACTTGTGTGGGCTTTAGAAAAAA
1 GG-TTGCCACCGACTTGTGTGGGCTTTAG-AGAAT
*
67921 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAG
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAT
* *
67954 GGTTACCATCGACTTGTGTGGGCTTT-G-GAAT
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAT
* *
67985 AAGGTTGCCACCGACTTGTGTGGGCTTTGGAGAGT
1 --GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAT
* * *
68020 GGTTGCCACCAACTTGTGTGGGCTTTAGAAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAT
68053 GGTTGCCACCGACTTGTGTGGGCTTTA
1 GGTTGCCACCGACTTGTGTGGGCTTTA
68080 AAGGGTGCCA
Statistics
Matches: 195, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
31 5 0.03
32 25 0.13
33 134 0.69
34 26 0.13
35 5 0.03
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAT
Found at i:67946 original size:66 final size:64
Alignment explanation
Indices: 67822--68084 Score: 364
Period size: 66 Copynumber: 4.0 Consensus size: 64
67812 TGGACTTAAA
* * * * *
67822 GGTTGCCACCGACTTGTGTGAGCTTTAGAGAATGGTTGCCACCGACTGGTGTGGGCTTTAGAGG
1 GGTTGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGG
67886 GGATTGCCACCAACTTGTGTGGGCTTTAGAAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAG
1 GG-TTGCCACCAACTTGTGTGGGCTTTAG-AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAG
67951 AAG
64 --G
* * * * *
67954 GGTTACCATCGACTTGTGTGGGCTTTGGAATAAGGTTGCCACCGACTTGTGTGGGCTTTGGAGAG
1 GGTTGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTT--AGAG
*
68019 T
64 G
*
68020 GGTTGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAAAGG
1 GGTTGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGG
68084 G
1 G
68085 TGCCACGGAG
Statistics
Matches: 175, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
64 6 0.03
65 24 0.14
66 116 0.66
67 22 0.13
68 7 0.04
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (64 bp):
GGTTGCCACCAACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGG
Found at i:68098 original size:29 final size:29
Alignment explanation
Indices: 68049--68126 Score: 88
Period size: 27 Copynumber: 2.8 Consensus size: 29
68039 GGGCTTTAGA
* * * *
68049 AAAAGGTTGCCACCGACTTGTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGTGGACTT
*
68078 TAAAGGGTGCCACGGAG-T-TGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGTGGACTT
*
68105 AAAAAGGTGCCACGGAGTTGTG
1 AAAAGGGTGCCACGGAGTTGTG
68127 GACTTAGAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 23 0.57
28 2 0.05
29 15 0.38
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (29 bp):
AAAAGGGTGCCACGGAGTTGTGTGGACTT
Found at i:68150 original size:34 final size:32
Alignment explanation
Indices: 68079--68378 Score: 149
Period size: 27 Copynumber: 9.8 Consensus size: 32
68069 TGTGGGCTTT
*
68079 AAAGGGTGCCACGGAGTTGTGGACTT----AA
1 AAAGAGTGCCACGGAGTTGTGGACTTGAAGAA
68107 AAAG-GTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTT-GAA-GAA
** * *
68140 AAAGAGTGCCATAGAGTTATGGGCTT-----A
1 AAAGAGTGCCACGGAGTTGTGGACTTGAAGAA
* *
68167 AAAGGGTGCCACGGAGTTGTGGACTAAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACT-TGAA-GAA
*
68201 AAAGAGTGCCACGGAGTCGTGGACTTTGAAG-A
1 AAAGAGTGCCACGGAGTTGTGGAC-TTGAAGAA
*
68233 AAAGA-TGCCACTGAGTTGTGGACTTTG--GAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TTGAAGAA
* ** *
68263 AGAGA-TGCCACTAAGTTGTGGGCTT-----A
1 AAAGAGTGCCACGGAGTTGTGGACTTGAAGAA
* ** * * *
68289 AAAGGGTGCCATAGAGTTGTGGACTTTAGGAC
1 AAAGAGTGCCACGGAGTTGTGGACTTGAAGAA
* *
68321 AAAG-GATGCCACTGAGTCGTGGACTTTGAAGAA
1 AAAGAG-TGCCACGGAGTTGTGGAC-TTGAAGAA
* * * *
68354 AAGGA-TGCCACTGAATCGTGGACTT
1 AAAGAGTGCCACGGAGTTGTGGACTT
68379 TGAGAAGAGA
Statistics
Matches: 214, Mismatches: 33, Indels: 47
0.73 0.11 0.16
Matches are distributed among these distances:
26 4 0.02
27 58 0.27
28 4 0.02
29 3 0.01
30 21 0.10
31 23 0.11
32 42 0.20
33 15 0.07
34 43 0.20
35 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (32 bp):
AAAGAGTGCCACGGAGTTGTGGACTTGAAGAA
Found at i:68157 original size:61 final size:61
Alignment explanation
Indices: 68092--68314 Score: 231
Period size: 61 Copynumber: 3.7 Consensus size: 61
68082 GGGTGCCACG
68092 GAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCATA
1 GAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCATA
* * * * **
68153 GAGTTATGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTAAGAAGGAAAAAGAGTGCCACG
1 GAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCATA
* * * * *
68214 GAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTTGTGGACTT---TGGAAAGAGA-TGCCACT
1 GAGTTGTGGAC-TT--A-AAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCA-T
68275 A
61 A
* * **
68276 -AGTTGTGGGCTTAAAAGGGTGCCATAGAGTTGTGGACTT
1 GAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTT
68315 TAGGACAAAG
Statistics
Matches: 134, Mismatches: 23, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
57 22 0.16
58 1 0.01
60 2 0.01
61 76 0.57
62 10 0.07
64 1 0.01
65 22 0.16
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.23
Consensus pattern (61 bp):
GAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCATA
Found at i:68211 original size:122 final size:121
Alignment explanation
Indices: 68079--68378 Score: 326
Period size: 122 Copynumber: 2.5 Consensus size: 121
68069 TGTGGGCTTT
* * *
68079 AAAGGGTGCCACGGAGTTGTGGAC-TT-A-AAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAA
1 AAAGAGTGCCACGGAGTCGTGGACTTTAAGAAAAGATGCCACGGAGTTGTGGACTT---AGGAAA
*
68141 AAGAGTGCCA-TAGAGTTATGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTAAGAAGGAA
63 AAGA-TGCCACTA-AGTTATGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTAAGAAGGAA
* * *
68201 AAAGAGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTTGTGGACTTTGGAAAGA
1 AAAGAGTGCCACGGAGTCGTGGACTTT-AAGAAAAGATGCCACGGAGTTGTGGACTTAGGAAAAA
* * ** *
68266 GATGCCACTAAGTTGTGGGCTTAAAAGGGTGCCATAGAGTTGTGGACT--TTAGGAC
65 GATGCCACTAAGTTATGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTAAGAAGGAA
* * * *
68321 AAAG-GATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAATCGTGGACTT
1 AAAGAG-TGCCACGGAGTCGTGGACTTT-AAGAAAA-GATGCCACGGAGTTGTGGACTT
68379 TGAGAAGAGA
Statistics
Matches: 156, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
119 1 0.01
120 36 0.23
121 20 0.13
122 62 0.40
123 12 0.08
125 1 0.01
126 24 0.15
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (121 bp):
AAAGAGTGCCACGGAGTCGTGGACTTTAAGAAAAGATGCCACGGAGTTGTGGACTTAGGAAAAAG
ATGCCACTAAGTTATGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTAAGAAGGAA
Found at i:68272 original size:95 final size:94
Alignment explanation
Indices: 68105--68283 Score: 213
Period size: 95 Copynumber: 1.9 Consensus size: 94
68095 TTGTGGACTT
* *
68105 AAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCATAGAGTTATGGGCTTAAAA
1 AAAAAGGTGCCACGGAGTCGTGGACTTAGAAGGAAAAAGAGTGCCATAGAGTTATGGACTTAAAA
* *
68170 GGGTGCCACGGAGTTGTGGACTAAGAAGG
66 GGATGCCACGAAGTTGTGGACTAAGAAGG
* *
68199 AAAAAGAGTGCCACGGAGTCGTGGACTTTGAA-G-AAAAGA-TGCCACT-GAGTTGTGGACTTTG
1 AAAAAG-GTGCCACGGAGTCGTGGACTTAGAAGGAAAAAGAGTGCCA-TAGAGTTATGGAC-TT-
* *
68260 GAAAGAGATGCCACTAAGTTGTGG
62 AAAAG-GATGCCACGAAGTTGTGG
68284 GCTTAAAAGG
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
92 14 0.19
93 9 0.12
94 11 0.15
95 38 0.53
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.21
Consensus pattern (94 bp):
AAAAAGGTGCCACGGAGTCGTGGACTTAGAAGGAAAAAGAGTGCCATAGAGTTATGGACTTAAAA
GGATGCCACGAAGTTGTGGACTAAGAAGG
Found at i:68331 original size:32 final size:31
Alignment explanation
Indices: 68079--68415 Score: 190
Period size: 32 Copynumber: 11.0 Consensus size: 31
68069 TGTGGGCTTT
* *
68079 AAAGGGTGCCACGGAGTTGTGGAC-TT-A-A
1 AAAGGATGCCACTGAGTTGTGGACTTTAAGA
* *
68107 AAAGG-TGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAGGATGCCACTGAGTTGTGGACTT-TAA-GA
* * *
68139 AAAAGAGTGCCA-TAGAGTTATGGGC-TT---A
1 AAAGGA-TGCCACT-GAGTTGTGGACTTTAAGA
* * **
68167 AAAGGGTGCCACGGAGTTGTGGACTAAGAAGGA
1 AAAGGATGCCACTGAGTTGTGGACT-TTAA-GA
* * *
68200 AAAAGAGTGCCACGGAGTCGTGGACTTTGAAGA
1 AAAGGA-TGCCACTGAGTTGTGGACTTT-AAGA
*
68233 AAA-GATGCCACTGAGTTGTGGACTTT--GG
1 AAAGGATGCCACTGAGTTGTGGACTTTAAGA
* *
68261 AAAGAGATGCCACTAAGTTGTGGGC-TT---A
1 AAAG-GATGCCACTGAGTTGTGGACTTTAAGA
* *
68289 AAAGGGTGCCA-TAGAGTTGTGGACTTTAGGA
1 AAAGGATGCCACT-GAGTTGTGGACTTTAAGA
*
68320 CAAAGGATGCCACTGAGTCGTGGACTTTGAAGA
1 -AAAGGATGCCACTGAGTTGTGGACTTT-AAGA
* * *
68353 AAAGGATGCCACTGAATCGTGGACTTTGAGA
1 AAAGGATGCCACTGAGTTGTGGACTTTAAGA
* *
68384 AGA-GATTGCCACT-AGGTCGTGGACTTTAAGA
1 AAAGGA-TGCCACTGA-GTTGTGGACTTTAAGA
68415 A
1 A
68416 GGTATTTGAA
Statistics
Matches: 245, Mismatches: 35, Indels: 55
0.73 0.10 0.16
Matches are distributed among these distances:
26 1 0.00
27 47 0.19
28 21 0.09
29 2 0.01
30 22 0.09
31 47 0.19
32 56 0.23
33 15 0.06
34 34 0.14
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (31 bp):
AAAGGATGCCACTGAGTTGTGGACTTTAAGA
Found at i:68345 original size:89 final size:89
Alignment explanation
Indices: 68200--68365 Score: 221
Period size: 88 Copynumber: 1.9 Consensus size: 89
68190 CTAAGAAGGA
* *
68200 AAAAGAGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTTGTGGACTTTG-G-AA
1 AAAAGAGTGCCACAGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAA
68263 AGAGATGCCACTAAGTTGTGGGCTT
66 AG-GATGCCACTAAGTTGTGGGCTT
* * * *
68288 AAAAGGGTGCCATAGAGTTGTGGACTTT-AGGACAAAGGATGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGAGTGCCACAGAGTCGTGGACTTTGAAGA-AAA-GATGCCACTGAGTCGTGGACTTTG-AG
68352 AAAAGGATGCCACT
63 AAAAGGATGCCACT
68366 GAATCGTGGA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
87 3 0.04
88 27 0.40
89 23 0.34
91 10 0.15
92 4 0.06
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (89 bp):
AAAAGAGTGCCACAGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAA
AGGATGCCACTAAGTTGTGGGCTT
Found at i:68394 original size:122 final size:122
Alignment explanation
Indices: 68140--68398 Score: 350
Period size: 122 Copynumber: 2.1 Consensus size: 122
68130 TTAGAAGGAA
*
68140 AAAGAG-TGCCA-TAGAGTTATGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTAAGAAGGAAAA
1 AAAGAGATGCCACTAGAGTTATGGGCTTAAAAGGGTGCCACAGAGTTGTGGACT-AGAAGGAAAA
* *
68203 AGAGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTTGTGGACTTTGG
65 AGAGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAATCGTGGACTTTGG
* * ** *
68261 AAAGAGATGCCACTA-AGTTGTGGGCTTAAAAGGGTGCCATAGAGTTGTGGACT-TTAGGACAAA
1 AAAGAGATGCCACTAGAGTTATGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTAGAAGGAAAAA
*
68324 G-GATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAATCGTGGACTTT-G
66 GAG-TGCCACGGAGTCGTGGACTTTGAAGAAAA-GATGCCACTGAATCGTGGACTTTGG
68381 AGAAGAGATTGCCACTAG
1 A-AAGAGA-TGCCACTAG
68399 GTCGTGGACT
Statistics
Matches: 122, Mismatches: 9, Indels: 12
0.85 0.06 0.08
Matches are distributed among these distances:
119 1 0.01
120 38 0.31
121 33 0.27
122 48 0.39
123 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.22
Consensus pattern (122 bp):
AAAGAGATGCCACTAGAGTTATGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTAGAAGGAAAAA
GAGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAATCGTGGACTTTGG
Found at i:68416 original size:31 final size:30
Alignment explanation
Indices: 68202--68416 Score: 174
Period size: 31 Copynumber: 7.1 Consensus size: 30
68192 AAGAAGGAAA
*
68202 AAGAG-TGCCACGGAGTCGTGGACTTTGAAG
1 AAGAGATGCCACTGAGTCGTGGACTTT-AAG
* * *
68232 AAAAGATGCCACTGAGTTGTGGACTTT-GG
1 AAGAGATGCCACTGAGTCGTGGACTTTAAG
* * *
68261 AAAGAGATGCCACTAAGTTGTGGGC-TTAA-
1 -AAGAGATGCCACTGAGTCGTGGACTTTAAG
* * *
68290 AAG-GGTGCCA-TAGAGTTGTGGACTTTAGG
1 AAGAGATGCCACT-GAGTCGTGGACTTTAAG
*
68319 ACAAAGGATGCCACTGAGTCGTGGACTTTGAAG
1 A-AGA-GATGCCACTGAGTCGTGGACTTT-AAG
* * *
68352 AAAAGGATGCCACTGAATCGTGGACTTTGAG
1 AAGA-GATGCCACTGAGTCGTGGACTTTAAG
68383 AAGAGATTGCCACT-AGGTCGTGGACTTTAAG
1 AAGAGA-TGCCACTGA-GTCGTGGACTTTAAG
68414 AAG
1 AAG
68417 GTATTTGAAG
Statistics
Matches: 151, Mismatches: 21, Indels: 25
0.77 0.11 0.13
Matches are distributed among these distances:
26 1 0.01
27 15 0.10
28 6 0.04
29 4 0.03
30 29 0.19
31 47 0.31
32 45 0.30
33 4 0.03
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.24
Consensus pattern (30 bp):
AAGAGATGCCACTGAGTCGTGGACTTTAAG
Found at i:76736 original size:52 final size:52
Alignment explanation
Indices: 76658--76786 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
76648 CGAAATATGA
76658 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACAT-TCGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCT-GGGC
* *
76710 AAATTTGCCTGTATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
76762 AAATTTGCCTGCGTATATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
76787 AAGATCAGCG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
52 69 0.99
53 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:76892 original size:19 final size:18
Alignment explanation
Indices: 76864--76926 Score: 55
Period size: 19 Copynumber: 3.7 Consensus size: 18
76854 AGCTTCATAT
*
76864 GTATCAATACAACACTTA
1 GTATCGATACAACACTTA
76882 CGTATCGAT---ACA-TT-
1 -GTATCGATACAACACTTA
*
76896 GTATCGATACTACACTTA
1 GTATCGATACAACACTTA
76914 TGTATCGATACAA
1 -GTATCGATACAA
76927 ATCGTTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 8 0.22
15 2 0.06
16 6 0.17
17 2 0.06
19 18 0.50
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (18 bp):
GTATCGATACAACACTTA
Found at i:76900 original size:32 final size:32
Alignment explanation
Indices: 76863--76925 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
76853 TAGCTTCATA
76863 TGTATCAATACAACACTTACGTATCGATACAT
1 TGTATCAATACAACACTTACGTATCGATACAT
* * *
76895 TGTATCGATACTACACTTATGTATCGATACA
1 TGTATCAATACAACACTTACGTATCGATACA
76926 AATCGTTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (32 bp):
TGTATCAATACAACACTTACGTATCGATACAT
Found at i:89288 original size:15 final size:14
Alignment explanation
Indices: 89252--89289 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
89242 ATCAAATAAC
89252 AAAA-CAAAACAAA
1 AAAAGCAAAACAAA
89265 AAAAGCAAAACAAA
1 AAAAGCAAAACAAA
89279 AAAAGTCAAAA
1 AAAAG-CAAAA
89290 AAATTGCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 4 0.17
14 14 0.61
15 5 0.22
ACGTcount: A:0.79, C:0.13, G:0.05, T:0.03
Consensus pattern (14 bp):
AAAAGCAAAACAAA
Found at i:90346 original size:20 final size:21
Alignment explanation
Indices: 90293--90360 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
90283 TTTCACAATT
* *
90293 TGTATCGATACAAATAGTAAA
1 TGTATCAATACATATAGTAAA
* * *
90314 TGTAGCAACACATA-AGTGAA
1 TGTATCAATACATATAGTAAA
*
90334 TGTATCAATACATGATA-CAAA
1 TGTATCAATACAT-ATAGTAAA
90355 TGTATC
1 TGTATC
90361 GATATAAAAC
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
20 16 0.44
21 19 0.53
22 1 0.03
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (21 bp):
TGTATCAATACATATAGTAAA
Found at i:92922 original size:79 final size:77
Alignment explanation
Indices: 92814--93277 Score: 318
Period size: 79 Copynumber: 6.0 Consensus size: 77
92804 ATTTCTAAAT
* ** * *
92814 TTTTCTTTCCAAAAATATCGATTTTTCATCTCGAGGATATTCCAACCCCGTTATTTTCGAGGGGA
1 TTTTATTTCCAAAAAT-TAAATTTTTCATCTCGAGGATACTCCAACCCCGTTA-TTTCGAAGGGA
* *
92879 TACTCTAACCCCGC
64 TACTCCAACCCCAC
* * * *
92893 TTTTGTTTCCAATAAATTAAATTTTTCATCTCG-GAGATACTCAAACCCAGTTATTTCTGAGGGG
1 TTTTATTTCCAA-AAATTAAATTTTTCATCTCGAG-GATACTCCAACCCCGTTATTTC-GAAGGG
*
92957 ATACTCCAACCCCAT
63 ATACTCCAACCCCAC
* * * * * * * * * * *
92972 TTTTATTTTCGAAATATTAAATTTTTCATCTTGGGGATACTCTAATCCCATCAATTCCTAAAGGA
1 TTTTA-TTTCCAAAAATTAAATTTTTCATCTCGAGGATACTCCAACCCCGT-TATTTCGAAGGGA
* *
93037 TACTCCAACCTCGC
64 TACTCCAACCCCAC
* * * * * *
93051 TTTTATTTCC-AAAATGCTAAATTTTTCATCTTG-GGATATTCCAGCCCCATCAATTCAGAAGGG
1 TTTTATTTCCAAAAAT--TAAATTTTTCATCTCGAGGATACTCCAACCCCGTTATTTC-GAAGGG
* *
93114 ATACTTCAACCCCAT
63 ATACTCCAACCCCAC
* * *
93129 TTTTATTTCCAAAATATTAAA-TTTT--TCTCGAAGG-TACTCCAATCTCGTTATTTTTGAAGGG
1 TTTTATTTCCAAAA-ATTAAATTTTTCATCTCG-AGGATACTCCAACCCCGTTA-TTTCGAAGGG
* **
93190 ATACTACAA-CCCTT
63 ATACTCCAACCCCAC
* ** * *
93204 TTTTA-TTCCAAAAATATTAAAATTTTCATCTCGAGGATACTTAAACCTCG-TATTTCGAGGGGA
1 TTTTATTTCC-AAAA-ATTAAATTTTTCATCTCGAGGATACTCCAACCCCGTTATTTCGAAGGGA
*
93267 CACTCCAACCC
64 TACTCCAACCC
93278 TGCCACTTTT
Statistics
Matches: 307, Mismatches: 58, Indels: 42
0.75 0.14 0.10
Matches are distributed among these distances:
74 4 0.01
75 24 0.08
76 43 0.14
77 22 0.07
78 66 0.21
79 131 0.43
80 17 0.06
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (77 bp):
TTTTATTTCCAAAAATTAAATTTTTCATCTCGAGGATACTCCAACCCCGTTATTTCGAAGGGATA
CTCCAACCCCAC
Found at i:98003 original size:12 final size:11
Alignment explanation
Indices: 97977--98052 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
97967 TCTATTATCT
*
97977 CTCCTGTCTCTC
1 CTCCTATCTC-C
97989 CTCCTATCATCC
1 CTCCTATC-TCC
98001 CTCCTATCT--
1 CTCCTATCTCC
*
98010 CTACTATCT--
1 CTCCTATCTCC
*
98019 CTCCTGTCTCTC
1 CTCCTATCTC-C
98031 CTCCTATCATCC
1 CTCCTATC-TCC
*
98043 CTCCTTTCTC
1 CTCCTATCTC
98053 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.47, G:0.03, T:0.41
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:98004 original size:24 final size:24
Alignment explanation
Indices: 97968--98053 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
97958 CCTCATCTCT
* *
97968 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
97992 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
98013 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
98034 CTATCATCCCTCCTTTCTCT
1 CTATCATCCCTCCTGTCTCT
98054 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.44, G:0.02, T:0.43
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:98046 original size:42 final size:42
Alignment explanation
Indices: 97944--98062 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
97934 TTCTTCTCTC
* * * *
97944 CTCCTCCTGTCATCCCTCATCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
97986 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
* * *
98028 CTCCTCCTATCATCCCTCCTTTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCT
98063 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.09, C:0.45, G:0.03, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
Done.