Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001135.1 Hibiscus syriacus cultivar Beakdansim tig00002263_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 162108
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
File 1 of 2
Found at i:2571 original size:19 final size:19
Alignment explanation
Indices: 2547--2596 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
2537 ATGCCATCGA
2547 TGCATCGATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
2566 TGCATCGATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
2585 TGCATCGATGCA
1 TGCATCGATGCA
2597 CCCCATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (19 bp):
TGCATCGATGCATAAGGAG
Found at i:3778 original size:30 final size:29
Alignment explanation
Indices: 3742--3898 Score: 260
Period size: 30 Copynumber: 5.2 Consensus size: 29
3732 AAGGAACATA
3742 TGGATAGTTATCGAGGATCTTTATGACCTC
1 TGGATAGTTA-CGAGGATCTTTATGACCTC
3772 TGGATAGTTACTGAGGATCTTTATGACCTC
1 TGGATAGTTAC-GAGGATCTTTATGACCTC
3802 TGGATAGTTACTGAGGATCTTTATGACCTC
1 TGGATAGTTAC-GAGGATCTTTATGACCTC
3832 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTA-CGAGGATCTTTATGACCTC
*
3862 TAGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTA-CGAGGATCTTTATGACCTC
3892 TGGATAG
1 TGGATAG
3899 GTCATTCGGA
Statistics
Matches: 123, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
29 1 0.01
30 121 0.98
31 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (29 bp):
TGGATAGTTACGAGGATCTTTATGACCTC
Found at i:4519 original size:16 final size:16
Alignment explanation
Indices: 4498--4559 Score: 115
Period size: 16 Copynumber: 3.9 Consensus size: 16
4488 TTGGGGTGTT
4498 ACACGAACATAAACGA
1 ACACGAACATAAACGA
4514 ACACGAACATAAACGA
1 ACACGAACATAAACGA
*
4530 ACACGAACATAAATGA
1 ACACGAACATAAACGA
4546 ACACGAACATAAAC
1 ACACGAACATAAAC
4560 ATTAGACCCT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.56, C:0.24, G:0.11, T:0.08
Consensus pattern (16 bp):
ACACGAACATAAACGA
Found at i:4810 original size:23 final size:23
Alignment explanation
Indices: 4755--4866 Score: 116
Period size: 23 Copynumber: 4.8 Consensus size: 23
4745 AAAAAATTAA
* * *
4755 GAGCTCGATTAAAACTCGAGACT
1 GAGCTCGATTCAAGCTCGAGTCT
*
4778 CGAGCTCGATTGAAGCTCGAGTCT
1 -GAGCTCGATTCAAGCTCGAGTCT
* *
4802 AAGCTCGATTCAAGCTCGATTCT
1 GAGCTCGATTCAAGCTCGAGTCT
* * *
4825 GAGCTCAATTCAAGGTCGATTCT
1 GAGCTCGATTCAAGCTCGAGTCT
* *
4848 GAGCTCAATTCAAGGTCGA
1 GAGCTCGATTCAAGCTCGA
4867 CATTACCCCA
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
23 59 0.75
24 20 0.25
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (23 bp):
GAGCTCGATTCAAGCTCGAGTCT
Found at i:4823 original size:11 final size:11
Alignment explanation
Indices: 4780--4866 Score: 75
Period size: 11 Copynumber: 7.6 Consensus size: 11
4770 TCGAGACTCG
*
4780 AGCTCGATTGA
1 AGCTCGATTCA
*
4791 AGCTCGAGTCTA
1 AGCTCGATTC-A
4803 AGCTCGATTCA
1 AGCTCGATTCA
*
4814 AGCTCGATTCTG
1 AGCTCGATTC-A
*
4826 AGCTCAATTCA
1 AGCTCGATTCA
* *
4837 AGGTCGATTCTG
1 AGCTCGATTC-A
*
4849 AGCTCAATTCA
1 AGCTCGATTCA
*
4860 AGGTCGA
1 AGCTCGA
4867 CATTACCCCA
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
11 32 0.54
12 27 0.46
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:5381 original size:24 final size:24
Alignment explanation
Indices: 5345--5404 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
5335 AATTGAGTTA
*
5345 AACATAAATGAATGAACATAAACG
1 AACATAAACGAATGAACATAAACG
* *
5369 AACATAACCGAATGAACGTAAACG
1 AACATAAACGAATGAACATAAACG
5393 AACATAAACGAA
1 AACATAAACGAA
5405 CATAACCGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.57, C:0.17, G:0.13, T:0.13
Consensus pattern (24 bp):
AACATAAACGAATGAACATAAACG
Found at i:5401 original size:34 final size:34
Alignment explanation
Indices: 5358--5429 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
5348 ATAAATGAAT
* *
5358 GAACATAAACGAACATAACCGAATGAACGTAAAC
1 GAACATAAACGAACATAACCGAACGAACATAAAC
*
5392 GAACATAAACGAACATAACCGAACGAACATAACC
1 GAACATAAACGAACATAACCGAACGAACATAAAC
5426 GAAC
1 GAAC
5430 GTTCATGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.53, C:0.24, G:0.14, T:0.10
Consensus pattern (34 bp):
GAACATAAACGAACATAACCGAACGAACATAAAC
Found at i:5418 original size:14 final size:14
Alignment explanation
Indices: 5399--5430 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
5389 AACGAACATA
5399 AACGAACATAACCG
1 AACGAACATAACCG
5413 AACGAACATAACCG
1 AACGAACATAACCG
5427 AACG
1 AACG
5431 TTCATGAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.28, G:0.16, T:0.06
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:5429 original size:10 final size:10
Alignment explanation
Indices: 5358--5415 Score: 53
Period size: 10 Copynumber: 5.4 Consensus size: 10
5348 ATAAATGAAT
5358 GAACATAAAC
1 GAACATAAAC
*
5368 GAACATAACCGAAT
1 GAACAT-A---AAC
*
5382 GAACGTAAAC
1 GAACATAAAC
5392 GAACATAAAC
1 GAACATAAAC
*
5402 GAACATAACC
1 GAACATAAAC
5412 GAAC
1 GAAC
5416 GAACATAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
10 30 0.77
11 1 0.03
13 1 0.03
14 7 0.18
ACGTcount: A:0.53, C:0.22, G:0.14, T:0.10
Consensus pattern (10 bp):
GAACATAAAC
Found at i:10454 original size:21 final size:22
Alignment explanation
Indices: 10416--10456 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10406 AATACATCAA
*
10416 ATTTTTAAATGAATTTTCATTG
1 ATTTTTAAATGAAGTTTCATTG
*
10438 ATTTTTGAATG-AGTTTCAT
1 ATTTTTAAATGAAGTTTCAT
10457 GAAAAACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (22 bp):
ATTTTTAAATGAAGTTTCATTG
Found at i:11234 original size:2 final size:2
Alignment explanation
Indices: 11227--11297 Score: 128
Period size: 2 Copynumber: 36.5 Consensus size: 2
11217 ATTGAAGTGC
11227 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11268 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11298 GTAATTAACT
Statistics
Matches: 67, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 65 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11757 original size:21 final size:21
Alignment explanation
Indices: 11733--11778 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
11723 ATACTGTGAG
11733 CAGTGTACCGATACCCTGCTA
1 CAGTGTACCGATACCCTGCTA
11754 CAGTGTACCGATACCCTGCTA
1 CAGTGTACCGATACCCTGCTA
11775 CAGT
1 CAGT
11779 AATTTCGACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (21 bp):
CAGTGTACCGATACCCTGCTA
Found at i:12437 original size:31 final size:31
Alignment explanation
Indices: 12402--12552 Score: 184
Period size: 31 Copynumber: 4.9 Consensus size: 31
12392 TAATAATCTA
*
12402 TCCATATGTCCCGAAGAACATAAGTAAACTG
1 TCCATATGTCCCGAAGAACATAGGTAAACTG
* *
12433 TCCATATGTCACAAAGAACATAGGT-AACTG
1 TCCATATGTCCCGAAGAACATAGGTAAACTG
* *
12463 TCCATATGTCTCGAA-AGACATACGTAAACTG
1 TCCATATGTCCCGAAGA-ACATAGGTAAACTG
12494 TCCATATGTCCCGAA-AGACATAGGTAATTA-TG
1 TCCATATGTCCCGAAGA-ACATAGGTAA--ACTG
*
12526 TCCATATGTTCCGAAGAACATAGGTAA
1 TCCATATGTCCCGAAGAACATAGGTAA
12553 CCCTCAACTC
Statistics
Matches: 106, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
29 1 0.01
30 25 0.24
31 52 0.49
32 26 0.25
33 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (31 bp):
TCCATATGTCCCGAAGAACATAGGTAAACTG
Found at i:12471 original size:61 final size:62
Alignment explanation
Indices: 12402--12552 Score: 200
Period size: 61 Copynumber: 2.4 Consensus size: 62
12392 TAATAATCTA
*
12402 TCCATATGTCCCGAAGAACATAAGTAAACTGTCCATATGTCAC-AAAGAACATAGGTAA-CTG
1 TCCATATGTCCCGAAGAACATAAGTAAACTGTCCATATGTCACGAAAG-ACATAGGTAATATG
* * *
12463 TCCATATGTCTCGAA-AGACATACGTAAACTGTCCATATGTCCCGAAAGACATAGGTAATTATG
1 TCCATATGTCCCGAAGA-ACATAAGTAAACTGTCCATATGTCACGAAAGACATAGGTAA-TATG
* *
12526 TCCATATGTTCCGAAGAACATAGGTAA
1 TCCATATGTCCCGAAGAACATAAGTAA
12553 CCCTCAACTC
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
60 1 0.01
61 48 0.62
62 4 0.05
63 24 0.31
64 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (62 bp):
TCCATATGTCCCGAAGAACATAAGTAAACTGTCCATATGTCACGAAAGACATAGGTAATATG
Found at i:17156 original size:21 final size:20
Alignment explanation
Indices: 17105--17159 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
17095 ATTCCTTTTC
*
17105 AAAAGGATCGATCCATCGGAG
1 AAAA-GATCGATCCATCGAAG
*
17126 AAAAGAATCGATCCCTCGAAAG
1 AAAAG-ATCGATCCATCG-AAG
*
17148 AAATGATCGATC
1 AAAAGATCGATC
17160 ACTTATCTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 22 0.76
22 6 0.21
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (20 bp):
AAAAGATCGATCCATCGAAG
Found at i:19831 original size:3 final size:3
Alignment explanation
Indices: 19825--19873 Score: 55
Period size: 3 Copynumber: 15.7 Consensus size: 3
19815 GGTCTTCTTT
*
19825 TTA TTA TTTA ATA TTA TTA TTA TTTA TT- TTA TTA TTA TTA TTAA TTA
1 TTA TTA -TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT-A TTA
19872 TT
1 TT
19874 TTTTTACACA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 2 0.05
3 29 0.73
4 9 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19858 original size:15 final size:16
Alignment explanation
Indices: 19825--19863 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
19815 GGTCTTCTTT
19825 TTATTATTTAATATTA
1 TTATTATTTAATATTA
*
19841 TTATTATTT-ATTTTA
1 TTATTATTTAATATTA
19856 TTATTATT
1 TTATTATT
19864 ATTAATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTATTTAATATTA
Found at i:19860 original size:21 final size:21
Alignment explanation
Indices: 19827--19875 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
19817 TCTTCTTTTT
19827 ATTA-TTTAATATTATTATTA
1 ATTATTTTAATATTATTATTA
* *
19847 TTTATTTTATTATTATTATTA
1 ATTATTTTAATATTATTATTA
19868 ATTATTTT
1 ATTATTTT
19876 TTTACACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTATTTTAATATTATTATTA
Found at i:23307 original size:2 final size:2
Alignment explanation
Indices: 23300--23329 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23290 AAATTATGTG
23300 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23330 GAATTAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26116 original size:42 final size:42
Alignment explanation
Indices: 26070--26152 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
26060 TTACATTGGA
26070 AAAATCAATTACAACTATCAAACACTGAAAAATATTTTTCAT
1 AAAATCAATTACAACTATCAAACACTGAAAAATATTTTTCAT
*
26112 AAAATCAATTACAACTATCAAACACTGTAAAATATTTTTCA
1 AAAATCAATTACAACTATCAAACACTGAAAAATATTTTTCA
26153 GATATCAAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.31
Consensus pattern (42 bp):
AAAATCAATTACAACTATCAAACACTGAAAAATATTTTTCAT
Found at i:27988 original size:3 final size:3
Alignment explanation
Indices: 27982--28021 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
27972 CTCTTCCTTC
*
27982 CTT CTT CTT CCT CTT CTT CTT CTT CTT CTT CTT CTT -TT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
28022 ATGGTGGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:27998 original size:9 final size:9
Alignment explanation
Indices: 27972--28017 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
27962 CCAACATCAT
27972 CTCTTCCTTC
1 CTCTT-CTTC
27982 CTTCTTCTTC
1 C-TCTTCTTC
27992 CTCTTCTTC
1 CTCTTCTTC
*
28001 TTCTTCTTC
1 CTCTTCTTC
*
28010 TTCTTCTT
1 CTCTTCTT
28018 TTCTATGGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 24 0.71
10 6 0.18
11 4 0.12
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (9 bp):
CTCTTCTTC
Found at i:31447 original size:23 final size:23
Alignment explanation
Indices: 31413--31473 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
31403 CTCATATAAA
*
31413 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
31436 TGCACCGTAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
31459 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
31474 TATAATAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACGTAGAAT
Found at i:33075 original size:21 final size:21
Alignment explanation
Indices: 33045--33089 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
33035 TTTTGTTTGT
*
33045 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
33066 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
33087 TTG
1 TTG
33090 CCCAGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:34025 original size:16 final size:16
Alignment explanation
Indices: 33986--34028 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
33976 ATCATCAGTT
*
33986 CTTATCACTCAAAATC
1 CTTATCAATCAAAATC
* *
34002 ATTAATCAATCAAATTC
1 CTT-ATCAATCAAAATC
34019 CTTATCAATC
1 CTTATCAATC
34029 TTTAATTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.35
Consensus pattern (16 bp):
CTTATCAATCAAAATC
Found at i:36392 original size:23 final size:23
Alignment explanation
Indices: 36357--36409 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
36347 CATGCACCGA
*
36357 AGTGCCACGTAGAATTACACAGT
1 AGTGCCACATAGAATTACACAGT
* * *
36380 AGTGCCGCATAGAATTGCACCGT
1 AGTGCCACATAGAATTACACAGT
36403 AGTGCCA
1 AGTGCCA
36410 TATAATAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.21
Consensus pattern (23 bp):
AGTGCCACATAGAATTACACAGT
Found at i:37042 original size:21 final size:22
Alignment explanation
Indices: 37002--37043 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
36992 CGCATTACGA
**
37002 TTTCCTAAATTCGCGTTGCGAT
1 TTTCCTAAATTCGCAATGCGAT
37024 TTTCCT-AATTCGCAATGCGA
1 TTTCCTAAATTCGCAATGCGA
37044 ATACGTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (22 bp):
TTTCCTAAATTCGCAATGCGAT
Found at i:37291 original size:22 final size:22
Alignment explanation
Indices: 37266--37327 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
37256 GGCGACATCC
37266 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
37288 GTCCCCA----CGACGATAA-CA
1 GTCCCCATCTCCGACGA-AATCA
* *
37306 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
37328 TTCACGGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 14 0.44
19 2 0.06
21 2 0.06
22 14 0.44
ACGTcount: A:0.27, C:0.39, G:0.16, T:0.18
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:37683 original size:20 final size:20
Alignment explanation
Indices: 37658--37706 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
37648 CAACGAGTGA
37658 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
37678 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
37698 ATCGCAACG
1 ATCGCAACG
37707 AGAGAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:37785 original size:20 final size:20
Alignment explanation
Indices: 37719--37783 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
37709 AGAATCGCAA
*
37719 TGCGATATTCA-TTTCGCGT
1 TGCGATATTCATTTTCGTGT
* * *
37738 TGCGATAGTCATTTTTGTAT
1 TGCGATATTCATTTTCGTGT
*
37758 TGCGATTTTCATTTTCGTGT
1 TGCGATATTCATTTTCGTGT
37778 TGCGAT
1 TGCGAT
37784 TTAAAGTTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
19 10 0.27
20 27 0.73
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (20 bp):
TGCGATATTCATTTTCGTGT
Found at i:39686 original size:20 final size:20
Alignment explanation
Indices: 39661--39804 Score: 174
Period size: 20 Copynumber: 7.5 Consensus size: 20
39651 AGAATAGTTT
*
39661 ACTATCGCAATACGAAAATG
1 ACTATCGCAATGCGAAAATG
*
39681 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* **
39701 AATATCGCAA--CG--AGGG
1 ACTATCGCAATGCGAAAATG
39717 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
39735 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
39755 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* **
39775 ACTATCGTAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
39795 ACTATCGCAA
1 ACTATCGCAA
39805 CGAAAGAATC
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
14 7 0.07
16 5 0.05
18 5 0.05
20 90 0.84
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:39773 original size:40 final size:40
Alignment explanation
Indices: 39661--39842 Score: 174
Period size: 40 Copynumber: 4.9 Consensus size: 40
39651 AGAATAGTTT
* *
39661 ACTATCGCAATACGAAAATGACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
* **
39701 AATATCGCAA--CG--AGGGA--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
39735 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
* **
39775 ACTATCGTAATGCGAATTTGACTATCGCAA--CG-AAA-G
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
** *
39811 A--ATCGCAATGCG-AAATGAAAATCGCATTGCGA
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGA
39843 TTCACTCGTT
Statistics
Matches: 117, Mismatches: 16, Indels: 22
0.75 0.10 0.14
Matches are distributed among these distances:
33 10 0.09
34 35 0.30
35 2 0.02
36 7 0.06
37 3 0.03
38 7 0.06
40 53 0.45
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (40 bp):
ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
Found at i:39879 original size:20 final size:20
Alignment explanation
Indices: 39854--39897 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
39844 TCACTCGTTA
39854 CGATAGTCAAATTCGCATTG
1 CGATAGTCAAATTCGCATTG
** *
39874 CGATAGTCATTTTCGCGTTG
1 CGATAGTCAAATTCGCATTG
39894 CGAT
1 CGAT
39898 TTTGATGCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (20 bp):
CGATAGTCAAATTCGCATTG
Found at i:39960 original size:20 final size:20
Alignment explanation
Indices: 39935--40001 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
39925 AATTCTCTCG
**
39935 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
39955 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
39975 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
39995 TTGCGAT
1 TTGCGAT
40002 TTTAAGTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:40526 original size:18 final size:19
Alignment explanation
Indices: 40487--40528 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
40477 CTCACCTGCC
40487 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
40508 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
40526 ATC
1 ATC
40529 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:41963 original size:14 final size:14
Alignment explanation
Indices: 41944--41979 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
41934 ATTGTTTAAT
41944 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
41958 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
41972 TGATTTGT
1 TGATTTGT
41980 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:42169 original size:34 final size:33
Alignment explanation
Indices: 42113--42176 Score: 119
Period size: 34 Copynumber: 1.9 Consensus size: 33
42103 CGTAATGAGA
42113 GAATCGCAATGCGAAATGAAAATCGCAACGAGT
1 GAATCGCAATGCGAAATGAAAATCGCAACGAGT
42146 GAATCGCAATGCGAAAATGAAAATCGCAACG
1 GAATCGCAATGCG-AAATGAAAATCGCAACG
42177 CGAAACTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (33 bp):
GAATCGCAATGCGAAATGAAAATCGCAACGAGT
Found at i:42172 original size:20 final size:19
Alignment explanation
Indices: 42114--42181 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
42104 GTAATGAGAG
42114 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
42133 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
42147 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
42167 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
42182 CTAATTTCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.20
16 5 0.12
17 2 0.05
18 3 0.08
19 11 0.28
20 11 0.28
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:42251 original size:19 final size:19
Alignment explanation
Indices: 42196--42268 Score: 84
Period size: 19 Copynumber: 4.1 Consensus size: 19
42186 TTTCACGTTA
42196 CGATTTTCATTTTCGCATTG
1 CGATTTTCA-TTTCGCATTG
*
42216 CGA--TTCA-CTCG--TTG
1 CGATTTTCATTTCGCATTG
42230 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
*
42249 CGATTTTCATTTTGCATTG
1 CGATTTTCATTTCGCATTG
42268 C
1 C
42269 AATTCTCTCG
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
14 6 0.13
16 7 0.16
17 3 0.07
18 4 0.09
19 22 0.49
20 3 0.07
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTG
Found at i:42285 original size:52 final size:54
Alignment explanation
Indices: 42196--42305 Score: 161
Period size: 52 Copynumber: 2.1 Consensus size: 54
42186 TTTCACGTTA
* **
42196 CGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTT-CGCATTG
1 CGATTTTCATTTTCGCATTGCAATTCACTCGTTGCGATAGTCATTTCCGCATTG
* *
42249 CGATTTTCATTTT-GCATTGCAATTCTCTCGTTGCGATAGTCATTTCCGCGTTG
1 CGATTTTCATTTTCGCATTGCAATTCACTCGTTGCGATAGTCATTTCCGCATTG
42302 CGAT
1 CGAT
42306 AGTCAATTCC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 28 0.55
53 23 0.45
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (54 bp):
CGATTTTCATTTTCGCATTGCAATTCACTCGTTGCGATAGTCATTTCCGCATTG
Found at i:42302 original size:20 final size:20
Alignment explanation
Indices: 42277--42370 Score: 136
Period size: 20 Copynumber: 4.7 Consensus size: 20
42267 GCAATTCTCT
42277 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
42297 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
42317 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
42337 TGTTGCAATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
42357 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
42371 AATGAATGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
20 63 0.97
21 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:44755 original size:24 final size:24
Alignment explanation
Indices: 44721--44774 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
44711 CTGAAAAATC
44721 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
44745 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
44769 ATCAAA
1 ATCAAA
44775 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:44788 original size:24 final size:24
Alignment explanation
Indices: 44721--44788 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
44711 CTGAAAAATC
* * *
44721 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
44745 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
44769 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
44789 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:45809 original size:96 final size:93
Alignment explanation
Indices: 45645--45831 Score: 257
Period size: 96 Copynumber: 2.0 Consensus size: 93
45635 TGCACAGATC
* * *
45645 ATGTTATCACATCACGTTAATAAGAATATAGATCGCTAGTTGATCATCTAAAGAAACTTCTTTGA
1 ATGTTATCACATCACGTTAATAAGAATATAGATCGCTAGTCGATCAACCAAAGAAACTTCTTTG-
*
45710 AAAAAAATAATATTTTTAAGATTTAAATATT
65 -AAAAAATAAT-TCTTTAAGATTTAAATATT
* * * * *
45741 ATGTTATCACATCATGTTAGTAAGAATATAGATTGTTAGTCGATCAACCAAAGAAATTTCTTTGA
1 ATGTTATCACATCACGTTAATAAGAATATAGATCGCTAGTCGATCAACCAAAGAAACTTCTTTGA
*
45806 AAAATTAATTCTTTAAGATTTAAATA
66 AAAAATAATTCTTTAAGATTTAAATA
45832 GTATAATTGG
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
93 16 0.20
94 9 0.11
96 56 0.69
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (93 bp):
ATGTTATCACATCACGTTAATAAGAATATAGATCGCTAGTCGATCAACCAAAGAAACTTCTTTGA
AAAAATAATTCTTTAAGATTTAAATATT
Found at i:48298 original size:32 final size:32
Alignment explanation
Indices: 48257--48321 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
48247 TCTTTGCTTT
48257 ATAAGTGCATTGAGTGATTTGTTAAGGGAACA
1 ATAAGTGCATTGAGTGATTTGTTAAGGGAACA
48289 ATAAGTGCATTGAGTGATTTGTTAAGGGAACA
1 ATAAGTGCATTGAGTGATTTGTTAAGGGAACA
48321 A
1 A
48322 CAGTCTCCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (32 bp):
ATAAGTGCATTGAGTGATTTGTTAAGGGAACA
Found at i:49319 original size:55 final size:55
Alignment explanation
Indices: 49246--49355 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
49236 CAAATATTTC
49246 TACATACTAGAATCCATTTGGCTCAATACATGGAAATGAAAAATTCAGTCAGAGG
1 TACATACTAGAATCCATTTGGCTCAATACATGGAAATGAAAAATTCAGTCAGAGG
* *
49301 TACATACTAGAA-CACATTTGGCTGAATACATGGACATGAAAAATTCAGTCAGAGG
1 TACATACTAGAATC-CATTTGGCTCAATACATGGAAATGAAAAATTCAGTCAGAGG
49356 CTCAATTCTA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
54 1 0.02
55 51 0.98
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (55 bp):
TACATACTAGAATCCATTTGGCTCAATACATGGAAATGAAAAATTCAGTCAGAGG
Found at i:55551 original size:2 final size:2
Alignment explanation
Indices: 55544--55593 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
55534 TATCTCTGCA
55544 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55586 AT AT AT AT
1 AT AT AT AT
55594 GTTTGTAGCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58085 original size:29 final size:29
Alignment explanation
Indices: 58043--58099 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
58033 CTCGGTATGT
*
58043 TTATATGGTTTGTAGTGAAAAGCTATTGC
1 TTATATGGTTTGTAATGAAAAGCTATTGC
*
58072 TTATATGGTTTGTAATTAAAAGCTATTG
1 TTATATGGTTTGTAATGAAAAGCTATTG
58100 TATTGCAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (29 bp):
TTATATGGTTTGTAATGAAAAGCTATTGC
Found at i:64967 original size:20 final size:20
Alignment explanation
Indices: 64942--65076 Score: 139
Period size: 20 Copynumber: 6.7 Consensus size: 20
64932 AATTGGGAAA
64942 ATCGCAATGCGATAATGACT
1 ATCGCAATGCGATAATGACT
*
64962 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATAATGACT
*
64982 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATAATGACT
* *
65002 ATTGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATAATGAC--T
* * *
65023 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATAATGACT
* *
65043 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATAATGAC-T
65063 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
65077 TTTCAAAGCG
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.04
20 67 0.70
21 23 0.24
22 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATAATGACT
Found at i:65039 original size:41 final size:41
Alignment explanation
Indices: 64939--65076 Score: 165
Period size: 41 Copynumber: 3.4 Consensus size: 41
64929 GCGAATTGGG
* * *
64939 AAAATCGCAATGCGATAATGACTATCGCAATGCGATACTGAC
1 AAAATCGCAATGCGATACTGACTATTGCAATGCGATAAT-AC
*
64981 --TATCGCAATGCGATACTGACTATTGCAATGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATTGCAATGCGATAATAC
* * *
65020 AAAATCGCAACGAGATACTGACT-TTCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATT-GCAATGCGATAATAC
*
65061 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
65077 TTTCAAAGCG
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 35 0.43
41 45 0.55
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTGACTATTGCAATGCGATAATAC
Found at i:65665 original size:25 final size:24
Alignment explanation
Indices: 65611--65665 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
65601 TGTTTATTAT
* *
65611 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
65635 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
65661 TGTTT
1 TGTTT
65666 ATTGTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:66815 original size:18 final size:18
Alignment explanation
Indices: 66794--66838 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
66784 TCCACTTCGG
*
66794 GAGCTATCACCTCGCCCA
1 GAGCTATCACCTCACCCA
66812 GAGCTATCACCTCACCCA
1 GAGCTATCACCTCACCCA
*
66830 GAGCCATCA
1 GAGCTATCA
66839 TCTGATCGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCTATCACCTCACCCA
Found at i:67254 original size:13 final size:16
Alignment explanation
Indices: 67222--67259 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 16
67212 ACTGCTAAAC
67222 TGTTTTTGTTAGTATT
1 TGTTTTTGTTAGTATT
67238 TGTTTTT-TT-GT-TT
1 TGTTTTTGTTAGTATT
67251 TGTTTTTGT
1 TGTTTTTGT
67260 CTTTTGGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.43
14 3 0.14
15 2 0.10
16 7 0.33
ACGTcount: A:0.05, C:0.00, G:0.18, T:0.76
Consensus pattern (16 bp):
TGTTTTTGTTAGTATT
Found at i:67376 original size:19 final size:20
Alignment explanation
Indices: 67322--67377 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
67312 TAGTTTACTT
* *
67322 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
67342 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
*
67362 TCGCAATGC-GAAATGA
1 TCGCAACGCGGAAATGA
67378 AAATAGCAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:67386 original size:19 final size:19
Alignment explanation
Indices: 67361--67457 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
67351 GGAAATGGCT
67361 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
67380 ATAGCAAT--G--A-CAAA
1 ATCGCAATGCGAAATGAAA
67394 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
67413 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
67427 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
67446 ATCGCAATGCGA
1 ATCGCAATGCGA
67458 TTTGTGGTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 20 0.33
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 31 0.51
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:67403 original size:33 final size:33
Alignment explanation
Indices: 67361--67454 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
67351 GGAAATGGCT
*
67361 ATCGCAATGCGAAATGAAAATAGCAATGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
*
67394 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
*
67427 ATCGCAACGCGAAATGAAAATCGCAATG
1 ATCGCAATGCGAAATGAAAATCGCAATG
67455 CGATTTGTGG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAATGACAAA
Found at i:67491 original size:14 final size:14
Alignment explanation
Indices: 67469--67526 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
67459 TTGTGGTTCG
*
67469 CGTTACGATTTTGT
1 CGTTGCGATTTTGT
*
67483 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
67499 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
67515 CGTTGCGATTTT
1 CGTTGCGATTTT
67527 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:67510 original size:32 final size:33
Alignment explanation
Indices: 67465--67542 Score: 131
Period size: 32 Copynumber: 2.4 Consensus size: 33
67455 CGATTTGTGG
* *
67465 TTCGCGTTACGATTTTGTCGTTGCGA-TTTCAT
1 TTCGCATTGCGATTTTGTCGTTGCGATTTTCAT
67497 TTCGCATTGCGATTTTGTCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTGTCGTTGCGATTTTCAT
67530 TTCGCATTGCGAT
1 TTCGCATTGCGAT
67543 AGCCATTTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
32 24 0.56
33 19 0.44
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (33 bp):
TTCGCATTGCGATTTTGTCGTTGCGATTTTCAT
Found at i:67561 original size:20 final size:19
Alignment explanation
Indices: 67527--67582 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
67517 TTGCGATTTT
*
67527 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
67546 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
67566 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
67583 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:69644 original size:19 final size:19
Alignment explanation
Indices: 69620--69656 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
69610 ATTGCAACGA
69620 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
69639 GAAAATCGCAATGTGAAA
1 GAAAATCGCAATGCGAAA
69657 ATCGCAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.14, G:0.22, T:0.16
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:69712 original size:20 final size:20
Alignment explanation
Indices: 69695--69782 Score: 115
Period size: 20 Copynumber: 4.4 Consensus size: 20
69685 CGATTTTCTA
69695 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
69715 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
*
69735 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
69755 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
69775 GTTGCGAT
1 GTTGCGAT
69783 TTCCCCGTTG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 3 0.05
20 50 0.89
21 3 0.05
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.39
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:69720 original size:34 final size:36
Alignment explanation
Indices: 69675--69762 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 36
69665 GCGATTTTCA
* *
69675 TTTCGCATTGCGATTTTC-T-AGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAT
69709 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGA-TTTTC--TTC-AATTGCGATAGCCAT
69749 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
69763 AGCCATTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
34 12 0.26
35 5 0.11
38 1 0.02
39 1 0.02
40 27 0.59
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (36 bp):
TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAT
Found at i:70020 original size:20 final size:20
Alignment explanation
Indices: 69995--70106 Score: 73
Period size: 20 Copynumber: 5.5 Consensus size: 20
69985 TTTGAAGATG
69995 ATTGCGATTTTCAGAATCTC
1 ATTGCGATTTTCAGAATCTC
***
70015 ATTGCGAAAGTCAGAATCTC
1 ATTGCGATTTTCAGAATCTC
* * **
70035 GTTGCGATTTTGTATTATCTC
1 ATTGCGATTTT-CAGAATCTC
* ** * *
70056 GTTGCGATAGTCAGTATCGC
1 ATTGCGATTTTCAGAATCTC
*
70076 ATTGCGATTTTCCA-AATTCGC
1 ATTGCGATTTT-CAGAA-TCTC
70097 ATTGCGATTT
1 ATTGCGATTT
70107 ACTTATTCGC
Statistics
Matches: 70, Mismatches: 19, Indels: 5
0.74 0.20 0.05
Matches are distributed among these distances:
20 39 0.56
21 31 0.44
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (20 bp):
ATTGCGATTTTCAGAATCTC
Found at i:70116 original size:20 final size:21
Alignment explanation
Indices: 70072--70123 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
70062 ATAGTCAGTA
*
70072 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
70093 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
70113 TCGCATTGCGA
1 TCGCATTGCGA
70124 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:70935 original size:24 final size:24
Alignment explanation
Indices: 70908--70961 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
70898 GTATTCGAAA
*
70908 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATATTGGTCAATACTCGGAC
*
70932 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACTCGGAC
70956 TTTGAT
1 TTTGAT
70962 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATATTGGTCAATACTCGGAC
Found at i:71153 original size:12 final size:12
Alignment explanation
Indices: 71136--71172 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
71126 ATATAATCCT
71136 GAAGAAGAAAAA
1 GAAGAAGAAAAA
71148 GAAGAAGAAAAA
1 GAAGAAGAAAAA
71160 GAAGAAGAAAAA
1 GAAGAAGAAAAA
71172 G
1 G
71173 TCCCCGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:73502 original size:19 final size:19
Alignment explanation
Indices: 73478--73537 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
73468 GCAACGAGAG
*
73478 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
73497 AATCGCAATGCG-AAT---
1 AATCGCAATGCGAAATGAA
*
73512 -TTCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
73530 AATCGCAA
1 AATCGCAA
73538 CGAGGGAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
14 10 0.30
15 3 0.09
18 3 0.09
19 17 0.52
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:73502 original size:33 final size:33
Alignment explanation
Indices: 73465--73572 Score: 137
Period size: 33 Copynumber: 3.3 Consensus size: 33
73455 GGAAATTACT
*
73465 ATCGCAACGAGAGAATCGCAATACGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
* * *
73498 ATCGCAATGCGA-ATTTCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGA-ATCGCAATGCGAAATGAAA
* *
73531 ATCGCAACGAGGGAATCGCAATGCAAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
*
73564 TTCGCAACG
1 ATCGCAACG
73573 CGATTTTAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
32 1 0.02
33 61 0.97
34 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
Found at i:73586 original size:19 final size:19
Alignment explanation
Indices: 73564--73606 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
73554 CAAAATGAAA
73564 TTCGCAACGCGATTTTAAT
1 TTCGCAACGCGATTTTAAT
*** *
73583 TTCGCGTTGCGATTTTCAT
1 TTCGCAACGCGATTTTAAT
73602 TTCGC
1 TTCGC
73607 GTTGCGATTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (19 bp):
TTCGCAACGCGATTTTAAT
Found at i:73607 original size:19 final size:19
Alignment explanation
Indices: 73572--73647 Score: 81
Period size: 19 Copynumber: 4.3 Consensus size: 19
73562 AATTCGCAAC
*
73572 GCGATTTTAATTTCGCGTT
1 GCGATTTTCATTTCGCGTT
73591 GCGATTTTCATTTCGCGTT
1 GCGATTTTCATTTCGCGTT
*
73610 GCGA--TTC---TCTCGTT
1 GCGATTTTCATTTCGCGTT
* *
73624 GCGATCTTCATTTCGCATT
1 GCGATTTTCATTTCGCGTT
73643 GCGAT
1 GCGAT
73648 AGTACTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
14 10 0.21
16 3 0.06
17 3 0.06
19 32 0.67
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.43
Consensus pattern (19 bp):
GCGATTTTCATTTCGCGTT
Found at i:73769 original size:14 final size:14
Alignment explanation
Indices: 73750--73786 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
73740 CATCAATTAA
73750 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
73764 ACAAATCACCTTTT
1 ACAAATCAACTTTT
73778 ACAAATCAA
1 ACAAATCAA
73787 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:75202 original size:21 final size:21
Alignment explanation
Indices: 75133--75202 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
75123 CATGTGAATC
*
75133 GGACTCTTGAATGGTGGGA-G
1 GGACTCTTGAACGGTGGGAGG
* * ** *
75153 GGACCTCTTCAACGATGACAGT
1 GGA-CTCTTGAACGGTGGGAGG
*
75175 GGCCTCTTGAACGGTGGGAGG
1 GGACTCTTGAACGGTGGGAGG
75196 GGACTCT
1 GGACTCT
75203 CGAGGAATGA
Statistics
Matches: 35, Mismatches: 13, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
20 3 0.09
21 30 0.86
22 2 0.06
ACGTcount: A:0.20, C:0.20, G:0.37, T:0.23
Consensus pattern (21 bp):
GGACTCTTGAACGGTGGGAGG
Found at i:75221 original size:42 final size:41
Alignment explanation
Indices: 75136--75258 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 41
75126 GTGAATCGGA
* * * *
75136 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
75178 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * * *
75220 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATAACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
75259 CGAGTCGGGC
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 4 0.06
42 56 0.85
43 6 0.09
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:75650 original size:91 final size:90
Alignment explanation
Indices: 75476--75660 Score: 291
Period size: 91 Copynumber: 2.0 Consensus size: 90
75466 ATTTCAAACT
* *
75476 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAAATTCACAGTGTT--A-AATAAACAGTTTAGC
75541 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
75569 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAAATTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAAATTCACAGTGTTAAATAAACAGTTTAGCA
*
75633 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
75660 T
1 T
75661 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
91 42 0.48
93 19 0.22
95 26 0.30
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAAATTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:77391 original size:40 final size:37
Alignment explanation
Indices: 77347--77456 Score: 120
Period size: 33 Copynumber: 3.0 Consensus size: 37
77337 TATTTTGGTT
77347 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACG-GA-AATGAGAATCGCAACGC
** *
77386 GGAAATGACTATCGCAAC-G--A-GAGAATCGTAACGC
1 -GAAATGAAAATCGCAACGGAAATGAGAATCGCAACGC
*
77420 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACG-GAAATGAGAATCGCAACG
77457 AGTTTCGCGT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
33 15 0.26
34 13 0.22
35 2 0.03
37 1 0.02
38 12 0.21
40 15 0.26
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.13
Consensus pattern (37 bp):
GAAATGAAAATCGCAACGGAAATGAGAATCGCAACGC
Found at i:77437 original size:19 final size:19
Alignment explanation
Indices: 77347--77456 Score: 113
Period size: 19 Copynumber: 5.9 Consensus size: 19
77337 TATTTTGGTT
*
77347 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
77366 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
77386 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
* *
77404 G--A-GAGAATCGTAACGC
1 GAAATGAAAATCGCAACGC
77420 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
77439 GAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACG
77457 AGTTTCGCGT
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
14 8 0.11
15 1 0.01
16 2 0.03
17 1 0.01
18 2 0.03
19 32 0.43
20 27 0.36
21 2 0.03
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:77457 original size:52 final size:54
Alignment explanation
Indices: 77355--77458 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 54
77345 TTGAAATGAA
* **
77355 AATCGCAACGAGATAATGAGAATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGAGATAATGAAAATCGCAACGCGGAAATGAAAATCGCAACGAGAG
* *
77409 AATCGTAACGCGA-AATGAAAATCGCAACGC-GAAATGAAAATCGCAACGAG
1 AATCGCAACGAGATAATGAAAATCGCAACGCGGAAATGAAAATCGCAACGAG
77459 TTTCGCGTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
52 18 0.40
53 16 0.36
54 11 0.24
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.12
Consensus pattern (54 bp):
AATCGCAACGAGATAATGAAAATCGCAACGCGGAAATGAAAATCGCAACGAGAG
Found at i:78072 original size:20 final size:20
Alignment explanation
Indices: 78047--78137 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
78037 GCTATGTAAA
78047 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-GTAAGTAT
* *
78067 TCGCATTGCGATTTATGTAT
1 TCGCATTGCGATGTAAGTAT
* *
78087 TCGCATTGCGAT-TTACTAAT
1 TCGCATTGCGATGTAAGT-AT
* * *
78107 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
78127 TCGCATTGCGA
1 TCGCATTGCGA
78138 ATTATGAAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 5 0.09
20 51 0.88
21 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATGTAAGTAT
Found at i:78095 original size:40 final size:39
Alignment explanation
Indices: 78047--78137 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 39
78037 GCTATGTAAA
*
78047 TCGCATTGCGATAGTA-AGATTCGCATTGCGATTTATGTAT
1 TCGCATTGCGAT-GTACA-ATTCGCATTGCGATTTACGTAT
* *
78087 TCGCATTGCGATTTACTAATTCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATGTAC-AATTCGCATTGCGATTTACGTAT
78127 TCGCATTGCGA
1 TCGCATTGCGA
78138 ATTATGAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
39 2 0.04
40 43 0.93
41 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (39 bp):
TCGCATTGCGATGTACAATTCGCATTGCGATTTACGTAT
Found at i:78159 original size:21 final size:21
Alignment explanation
Indices: 78135--78193 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
78125 ATTCGCATTG
*
78135 CGAATTATGAAAATCGCAACA
1 CGAATTACGAAAATCGCAACA
* **
78156 CGAA-TACGTAAATCGCAATG
1 CGAATTACGAAAATCGCAACA
*
78176 CGAATTAGGAAAATCGCA
1 CGAATTACGAAAATCGCA
78194 TTGCGATAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (21 bp):
CGAATTACGAAAATCGCAACA
Found at i:78198 original size:21 final size:21
Alignment explanation
Indices: 78127--78199 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
78117 ATTTACGTAT
* *
78127 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
** *
78148 TCGCAACACGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
78168 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
*
78189 TCGCATTGCGA
1 TCGCAATGCGA
78200 TAGTCAGTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 16 0.39
21 25 0.61
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:78217 original size:20 final size:20
Alignment explanation
Indices: 78188--78261 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
78178 AATTAGGAAA
78188 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* ** *
78208 ATCCCATTGCGATTTTCCA-A
1 ATCGCATTGCGATAGT-CAGT
78228 ATTCGCATTGCGATAGTCAGT
1 A-TCGCATTGCGATAGTCAGT
78249 ATCGCATTGCGAT
1 ATCGCATTGCGAT
78262 TTTCCAAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:78219 original size:41 final size:41
Alignment explanation
Indices: 78174--78282 Score: 137
Period size: 41 Copynumber: 2.7 Consensus size: 41
78164 TAAATCGCAA
**
78174 TGCGAATTAGGAAAATCGCATTGCGATAGTCAGTATCCCAT
1 TGCGAATTACCAAAATCGCATTGCGATAGTCAGTATCCCAT
* * * *
78215 TGCGATTTTCCAAATTCGCATTGCGATAGTCAGTATCGCAT
1 TGCGAATTACCAAAATCGCATTGCGATAGTCAGTATCCCAT
* * *
78256 TGCGATTTTCCAAATTCGCATTGCGAT
1 TGCGAATTACCAAAATCGCATTGCGAT
78283 TTACTTATTC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (41 bp):
TGCGAATTACCAAAATCGCATTGCGATAGTCAGTATCCCAT
Found at i:78238 original size:21 final size:21
Alignment explanation
Indices: 78212--78301 Score: 96
Period size: 20 Copynumber: 4.4 Consensus size: 21
78202 GTCAGTATCC
78212 CATTGCGATTTTCCAAATTCG
1 CATTGCGATTTTCCAAATTCG
** *
78233 CATTGCGATAGT-C-AGTATCG
1 CATTGCGATTTTCCAAAT-TCG
78253 CATTGCGATTTTCCAAATTCG
1 CATTGCGATTTTCCAAATTCG
* **
78274 CATTGCGA-TTTACTTATTCG
1 CATTGCGATTTTCCAAATTCG
78294 CATTGCGA
1 CATTGCGA
78302 ATTGGGAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
19 2 0.04
20 31 0.54
21 22 0.39
22 2 0.04
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (21 bp):
CATTGCGATTTTCCAAATTCG
Found at i:78295 original size:41 final size:40
Alignment explanation
Indices: 78065--78301 Score: 133
Period size: 41 Copynumber: 5.8 Consensus size: 40
78055 CGATAGTAAG
* *
78065 ATTCGCATTGCGATTTA-TGTATTCGCATTGCGA-TTTACTA
1 ATTCGCATTGCGA-TTACT-TATTCGCATTGCGATTTTCCAA
* * * *
78105 ATTCGCGTTGCGATTTACGTATTCGCATTGCGAATTAT-GAA
1 ATTCGCATTGCGA-TTACTTATTCGCATTGCG-ATTTTCCAA
* *** * * * * * ***
78146 AATCGCAACACGAATACGTAAATCGCAATGCGAATTAGGAA
1 ATTCGCATTGCGATTAC-TTATTCGCATTGCGATTTTCCAA
* * * *
78187 AATCGCATTGCGA-TAGTCAGTATCCCATTGCGATTTTCCAA
1 ATTCGCATTGCGATTACTTA-T-TCGCATTGCGATTTTCCAA
* *
78228 ATTCGCATTGCGA-TAGTCAGTATCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGATTACTTA-T-TCGCATTGCGATTTTCCAA
78269 ATTCGCATTGCGATTTACTTATTCGCATTGCGA
1 ATTCGCATTGCGA-TTACTTATTCGCATTGCGA
78302 ATTGGGAAAA
Statistics
Matches: 154, Mismatches: 34, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
39 2 0.01
40 36 0.23
41 109 0.71
42 3 0.02
43 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (40 bp):
ATTCGCATTGCGATTACTTATTCGCATTGCGATTTTCCAA
Found at i:78343 original size:21 final size:22
Alignment explanation
Indices: 78291--78343 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
78281 ATTTACTTAT
78291 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
78312 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
78333 TCGCATTGCGA
1 TCGCATTGCGA
78344 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:82356 original size:18 final size:18
Alignment explanation
Indices: 82325--82359 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
82315 AAATTCAAAA
82325 TAAAAATAAAAAATAAAT
1 TAAAAATAAAAAATAAAT
* *
82343 TAAAATTAAGAAATAAA
1 TAAAAATAAAAAATAAA
82360 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
TAAAAATAAAAAATAAAT
Found at i:83769 original size:3 final size:3
Alignment explanation
Indices: 83761--83786 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
83751 TATTTATTTG
83761 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
83787 TATTTGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:85369 original size:9 final size:9
Alignment explanation
Indices: 85357--85395 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
85347 CATTTTCACC
85357 TTTTTCCTT
1 TTTTTCCTT
85366 TTTTTCCTT
1 TTTTTCCTT
85375 TTTTT-CTT
1 TTTTTCCTT
*
85383 TTTTCCCTT
1 TTTTTCCTT
85392 TTTT
1 TTTT
85396 CTTTTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTCCTT
Found at i:85396 original size:9 final size:8
Alignment explanation
Indices: 85357--85402 Score: 58
Period size: 9 Copynumber: 5.6 Consensus size: 8
85347 CATTTTCACC
85357 TTTTTCCTT
1 TTTTTCC-T
85366 TTTTTCCT
1 TTTTTCCT
*
85374 TTTTTTCT
1 TTTTTCCT
85382 TTTTTCCCT
1 TTTTT-CCT
85391 TTTTT-CT
1 TTTTTCCT
85398 TTTTT
1 TTTTT
85403 ATTCATTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 7 0.21
8 13 0.38
9 14 0.41
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTCCT
Found at i:85402 original size:16 final size:16
Alignment explanation
Indices: 85349--85402 Score: 72
Period size: 16 Copynumber: 3.2 Consensus size: 16
85339 CTCTTTTTCA
*
85349 TTTTCACCTTTTTCCTTT
1 TTTTC-CCTTTTTTC-TT
*
85367 TTTTCCTTTTTTTCTT
1 TTTTCCCTTTTTTCTT
85383 TTTTCCCTTTTTTCTT
1 TTTTCCCTTTTTTCTT
85399 TTTT
1 TTTT
85403 ATTCATTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
16 21 0.64
17 7 0.21
18 5 0.15
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTCCCTTTTTTCTT
Found at i:99459 original size:32 final size:32
Alignment explanation
Indices: 99418--99573 Score: 131
Period size: 32 Copynumber: 4.9 Consensus size: 32
99408 AGTCGAGGGT
*
99418 TTACCTATGTTCTACGGAACATATGGACAGAA
1 TTACCTATGTTCTTCGGAACATATGGACAGAA
* **
99450 TTACCTATG-TCTTTTGGGGCATATGGACAGAA
1 TTACCTATGTTC-TTCGGAACATATGGACAGAA
** *
99482 TTACCTATG-TCTTTTGAGACATATGGACAGTA
1 TTACCTATGTTCTTCGGA-ACATATGGACAGAA
** * * *
99514 -TACCTATGTTCTAAGGAGCATATGAACAG-T
1 TTACCTATGTTCTTCGGAACATATGGACAGAA
* * *
99544 TTACCTAGGTTCTTCGGGACCTATGGACAG
1 TTACCTATGTTCTTCGGAACATATGGACAG
99574 TTGCCGAGGT
Statistics
Matches: 99, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
31 46 0.46
32 53 0.54
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (32 bp):
TTACCTATGTTCTTCGGAACATATGGACAGAA
Found at i:99536 original size:31 final size:32
Alignment explanation
Indices: 99418--99556 Score: 133
Period size: 32 Copynumber: 4.4 Consensus size: 32
99408 AGTCGAGGGT
* *
99418 TTACCTATGTTCTACGGAACATATGGACAGAA
1 TTACCTATGTTCTATGGAGCATATGGACAGAA
* *
99450 TTACCTATG-TCTTTTGGGGCATATGGACAGAA
1 TTACCTATGTTC-TATGGAGCATATGGACAGAA
* * *
99482 TTACCTATG-TCTTTTGAGACATATGGACAGTA
1 TTACCTATGTTCTATGGAG-CATATGGACAGAA
* * *
99514 -TACCTATGTTCTAAGGAGCATATGAACAG-T
1 TTACCTATGTTCTATGGAGCATATGGACAGAA
*
99544 TTACCTAGGTTCT
1 TTACCTATGTTCT
99557 TCGGGACCTA
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
31 36 0.40
32 54 0.60
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (32 bp):
TTACCTATGTTCTATGGAGCATATGGACAGAA
Found at i:103466 original size:20 final size:20
Alignment explanation
Indices: 103441--103489 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
103431 AAATTATCTT
103441 CTTACTTCCGGGATCTTGCG
1 CTTACTTCCGGGATCTTGCG
103461 CTTACTTCCGGGATCTTGCG
1 CTTACTTCCGGGATCTTGCG
103481 CTTACTTCC
1 CTTACTTCC
103490 TTTGGGTCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.10, C:0.33, G:0.20, T:0.37
Consensus pattern (20 bp):
CTTACTTCCGGGATCTTGCG
Found at i:106693 original size:3 final size:3
Alignment explanation
Indices: 106685--106786 Score: 197
Period size: 3 Copynumber: 34.3 Consensus size: 3
106675 CTTGATAAAT
106685 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
106733 TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
106780 TTA TTA T
1 TTA TTA T
106787 GTTTCTATGT
Statistics
Matches: 98, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 96 0.98
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:116822 original size:35 final size:35
Alignment explanation
Indices: 116783--116860 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 35
116773 CTAGTCTTGC
*
116783 AAATTCA-AAATAAAAAAAATAAAT-TAAATAAATTA
1 AAATTCAGAAATAAAAAAAA-AAATCT-AAGAAATTA
* *
116818 AAATTAAGAAATAAATAAAAAAATCTAAGAAATTA
1 AAATTCAGAAATAAAAAAAAAAATCTAAGAAATTA
116853 AATATTCA
1 AA-ATTCA
116861 TGGGATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
35 20 0.56
36 16 0.44
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.26
Consensus pattern (35 bp):
AAATTCAGAAATAAAAAAAAAAATCTAAGAAATTA
Found at i:116832 original size:22 final size:22
Alignment explanation
Indices: 116803--116856 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
116793 TAAAAAAAAT
116803 AAATTAAATAAATTAAAAT-TAAG
1 AAATTAAATAAA--AAAATCTAAG
116826 AAA-TAAATAAAAAAATCTAAG
1 AAATTAAATAAAAAAATCTAAG
116847 AAATTAAATA
1 AAATTAAATA
116857 TTCATGGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.17
21 7 0.24
22 14 0.48
23 3 0.10
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.26
Consensus pattern (22 bp):
AAATTAAATAAAAAAATCTAAG
Found at i:116838 original size:18 final size:19
Alignment explanation
Indices: 116790--116838 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
116780 TGCAAATTCA
*
116790 AAATAAA-AAAAATAAATT
1 AAATAAATAAAAATAAATG
* *
116808 AAATAAATTAAAATTAA-G
1 AAATAAATAAAAATAAATG
116826 AAATAAATAAAAA
1 AAATAAATAAAAA
116839 AATCTAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (19 bp):
AAATAAATAAAAATAAATG
Found at i:119003 original size:43 final size:43
Alignment explanation
Indices: 118954--119054 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 43
118944 CAGGAAGTTC
118954 ATTTATGTTCATTCATTTATTAAACGAACGAACATGAACA-AG
1 ATTTATGTTCATTCATTTATTAAACGAACGAACATGAACAGAG
* * *
118996 ATTTTATGTTCA-T--TTAATTAAATGAATGAACATGAACAGAG
1 A-TTTATGTTCATTCATTTATTAAACGAACGAACATGAACAGAG
**
119037 AGCT-TGTTCATTCATTTA
1 ATTTATGTTCATTCATTTA
119055 CGTTCATGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
39 6 0.12
40 24 0.50
41 3 0.06
42 5 0.10
43 10 0.21
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (43 bp):
ATTTATGTTCATTCATTTATTAAACGAACGAACATGAACAGAG
Found at i:119116 original size:24 final size:24
Alignment explanation
Indices: 119088--119144 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
119078 GTTCGTTTAT
119088 GTTCGTTTATATTCATTTA-TGTTC
1 GTTCGTTTATATTCATTTACT-TTC
*
119112 GTTCGTTTATGTTCATTTACTTTC
1 GTTCGTTTATATTCATTTACTTTC
*
119136 ATTCGTTTA
1 GTTCGTTTA
119145 CTTTCGTTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 29 0.97
25 1 0.03
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.58
Consensus pattern (24 bp):
GTTCGTTTATATTCATTTACTTTC
Found at i:119130 original size:10 final size:10
Alignment explanation
Indices: 119075--119114 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
119065 CGTTTGGTAA
119075 TATGTTCGTT
1 TATGTTCGTT
119085 TATGTTCGTT
1 TATGTTCGTT
* *
119095 TATATTCATT
1 TATGTTCGTT
119105 TATGTTCGTT
1 TATGTTCGTT
119115 CGTTTATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.15, C:0.10, G:0.15, T:0.60
Consensus pattern (10 bp):
TATGTTCGTT
Found at i:119660 original size:23 final size:23
Alignment explanation
Indices: 119601--119670 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
119591 TTGTGGTAGT
*
119601 TTATGTTCGTTTACGTTCGTTCGT-
1 TTATGTTCGTTTACGTTCATT--TA
*
119625 TTATGTTCATTTACGTTCATTTA
1 TTATGTTCGTTTACGTTCATTTA
* *
119648 TTGTGTTCGTTTATGTTCATTTA
1 TTATGTTCGTTTACGTTCATTTA
119671 CATTCGTTCG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
22 1 0.03
23 20 0.50
24 19 0.47
ACGTcount: A:0.14, C:0.13, G:0.16, T:0.57
Consensus pattern (23 bp):
TTATGTTCGTTTACGTTCATTTA
Found at i:120489 original size:15 final size:15
Alignment explanation
Indices: 120465--120498 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
120455 CCGTATGACC
120465 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
*
120480 ACTACGTCCCGAAGG
1 ACTACATCCCGAAGG
120495 ACTA
1 ACTA
120499 TTATACCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.21, T:0.15
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:120642 original size:28 final size:28
Alignment explanation
Indices: 120583--120650 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
120573 TTTCATATAT
* *
120583 TCATGTACTCATGTCATTTCTCTTATGA
1 TCATGTACTCATGTCATTACTCTCATGA
120611 TCATGTAGCTCATGTCACTTACT-TCATG-
1 TCATGTA-CTCATGTCA-TTACTCTCATGA
*
120639 TCATGTTCTCAT
1 TCATGTACTCAT
120651 ATCACATATC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 5 0.14
28 13 0.37
29 13 0.37
30 4 0.11
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.44
Consensus pattern (28 bp):
TCATGTACTCATGTCATTACTCTCATGA
Found at i:121677 original size:3 final size:3
Alignment explanation
Indices: 121669--121718 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
121659 TACATATACA
* *
121669 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
121717 AA
1 AA
121719 AAAAATCTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:127286 original size:124 final size:123
Alignment explanation
Indices: 127054--127308 Score: 370
Period size: 124 Copynumber: 2.1 Consensus size: 123
127044 CTCAAACATT
127054 AGTGACTATTTATGTAGTTTATGCTTTTTAATTTTATAAATTCACTGTGCAACGTCAGCAGCCTG
1 AGTGACTATTTATGTAGTTTATGCTTTTTAATTTTATAAATTCACTGTGCAACGTCAGCAGCCTG
* * * *
127119 TTAAAGGTTTAACGATAATTAACCCTCAATGGTCACATCTTAATTAAATAAAAACTAAA
66 TTAAAGGTCTAACGACAATTAACCCTCAATGATCACATATTAATTAAATAAAAA-TAAA
*** * *
127178 AGTGACTATTTATGTAGTTTAT-CATTTTTAATTTTATAAATTCACTGTGTTGCGTTAGCAATCC
1 AGTGACTATTTATGTAGTTTATGC-TTTTTAATTTTATAAATTCACTGTGCAACGTCAGC-AGCC
* *
127242 -GTTAAAGGTCTAACGACAATTAACCCTCAATGATCATATATTAATTAAATAAAAATGAA
64 TGTTAAAGGTCTAACGACAATTAACCCTCAATGATCACATATTAATTAAATAAAAATAAA
127301 AGTGACTA
1 AGTGACTA
127309 AATATTATGT
Statistics
Matches: 118, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
123 12 0.10
124 103 0.87
125 3 0.03
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (123 bp):
AGTGACTATTTATGTAGTTTATGCTTTTTAATTTTATAAATTCACTGTGCAACGTCAGCAGCCTG
TTAAAGGTCTAACGACAATTAACCCTCAATGATCACATATTAATTAAATAAAAATAAA
Found at i:129017 original size:33 final size:35
Alignment explanation
Indices: 128974--129082 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 35
128964 ATAATAAGAA
128974 ATTTATTTTTA-AGTTAATAT-ATT-T-TAAATAGT
1 ATTTATTTTTATAG-TAATATAATTATATAAATAGT
*
129006 ATTTATATTTTATAGTAATATAATTATATAAATATT
1 ATTTAT-TTTTATAGTAATATAATTATATAAATAGT
* * * *
129042 ATTT-TTTATTAAAATAATAT--TTATATAATTATT
1 ATTTATTT-TTATAGTAATATAATTATATAAATAGT
129075 ATTTATTT
1 ATTTATTT
129083 AAATTTATTA
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
32 6 0.09
33 27 0.41
34 10 0.15
35 12 0.18
36 11 0.17
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (35 bp):
ATTTATTTTTATAGTAATATAATTATATAAATAGT
Found at i:129077 original size:15 final size:14
Alignment explanation
Indices: 129039--129120 Score: 53
Period size: 15 Copynumber: 5.7 Consensus size: 14
129029 TTATATAAAT
*
129039 ATTATTTTTTATTAA
1 ATTATTATTTATT-A
* *
129054 AATAATATTTATATA
1 ATTATTATTTAT-TA
129069 ATTATTATTTATTTA
1 ATTATTATTTA-TTA
* *
129084 AAT-TTATTAATTA
1 ATTATTATTTATTA
129097 ATTATT-TTTATGCTA
1 ATTATTATTTAT--TA
129112 ATTA-TATTT
1 ATTATTATTT
129121 TTTTGTCTAC
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
13 9 0.17
14 9 0.17
15 32 0.62
16 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (14 bp):
ATTATTATTTATTA
Found at i:129616 original size:25 final size:26
Alignment explanation
Indices: 129578--129637 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
129568 TATGTACATC
* *
129578 TAAATAATTTTTTTAAAATTTTTATT
1 TAAATAATTATTTTAAAATATTTATT
**
129604 TAAA-AATTATTTTATGATATTTATT
1 TAAATAATTATTTTAAAATATTTATT
129629 TAATATAAT
1 TAA-ATAAT
129638 AATTAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 20 0.71
26 5 0.18
27 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
TAAATAATTATTTTAAAATATTTATT
Found at i:129652 original size:22 final size:21
Alignment explanation
Indices: 129622--129671 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
129612 ATTTTATGAT
*
129622 ATTTATTTAATATAATAATTA
1 ATTTATTTAATATAAAAATTA
* *
129643 ATATTATTTATTATAAAAATTT
1 AT-TTATTTAATATAAAAATTA
129665 ATTTATT
1 ATTTATT
129672 AATTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTATTTAATATAAAAATTA
Found at i:138369 original size:23 final size:21
Alignment explanation
Indices: 138325--138369 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
138315 TTTTTATTTC
*
138325 TTATTTTTATTTATTTAAATA
1 TTATTTTTATTTATATAAATA
*
138346 TTATATTTTATTATATATATATA
1 TTAT-TTTTATT-TATATAAATA
138369 T
1 T
138370 GTTTTTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
23 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTATTTTTATTTATATAAATA
Found at i:138541 original size:20 final size:21
Alignment explanation
Indices: 138502--138541 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
138492 TTTATATGTA
*
138502 TTTTAATTTTTTTTTCTATTT
1 TTTTAATTTTTTTGTCTATTT
*
138523 TTTTTATTTTTTTGT-TATT
1 TTTTAATTTTTTTGTCTATT
138542 GTTATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (21 bp):
TTTTAATTTTTTTGTCTATTT
Found at i:138693 original size:11 final size:11
Alignment explanation
Indices: 138661--138699 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
138651 CTTTTTTTGG
138661 TTTTTT-TTAT
1 TTTTTTATTAT
*
138671 TATTTATATTAT
1 T-TTTTTATTAT
138683 TTTTTTATTAT
1 TTTTTTATTAT
138694 TTTTTT
1 TTTTTT
138700 GTTTATAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 1 0.04
11 19 0.76
12 5 0.20
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTTATTAT
Found at i:138697 original size:40 final size:39
Alignment explanation
Indices: 138622--138700 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 39
138612 TATATATTGT
*
138622 TTTTTTTTATATTTTATATTTTATTTTTCCTTTTTTTGG
1 TTTTTTTTATATTTTATATTTTATTTTTACTTTTTTTGG
138661 TTTTTTTTATTATTTATATTATTTT-TTTATTA-TTTTTTTG
1 TTTTTTTTA-TATTT-TA-TATTTTATTT-TTACTTTTTTTG
138701 TTTATAGGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
39 9 0.26
40 5 0.14
41 13 0.37
42 8 0.23
ACGTcount: A:0.15, C:0.03, G:0.04, T:0.78
Consensus pattern (39 bp):
TTTTTTTTATATTTTATATTTTATTTTTACTTTTTTTGG
Found at i:140020 original size:17 final size:17
Alignment explanation
Indices: 139988--140019 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
139978 CTCACTAACT
139988 TTTTCCTTTCATTTTTG
1 TTTTCCTTTCATTTTTG
140005 TTTT-CTTTCATTTTT
1 TTTTCCTTTCATTTTT
140020 TAACATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.06, C:0.16, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTCCTTTCATTTTTG
Found at i:143037 original size:99 final size:99
Alignment explanation
Indices: 142861--143057 Score: 313
Period size: 99 Copynumber: 2.0 Consensus size: 99
142851 TAATATTATA
* * *
142861 TATAAAATAAAGCTTAAGTTGTCCCTCTAAAGCAATTGGTTAAAGGCCCCGGCTTTATGGATAAG
1 TATAAAATAAAGCTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGACCCGGCTTTATAGATAAG
*
142926 ATTCAGCTAGCCTGATAAAGGTGATTATAATATC
66 ATTCAGCTAGCCTAATAAAGGTGATTATAATATC
* * *
142960 TATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGACGCGGCTTTATAGATAAG
1 TATAAAATAAAGCTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGACCCGGCTTTATAGATAAG
**
143025 ATTTTGCTAGCCTAATAAAGGTGATTATAATAT
66 ATTCAGCTAGCCTAATAAAGGTGATTATAATAT
143058 TGAGTTGTCC
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 89 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (99 bp):
TATAAAATAAAGCTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGACCCGGCTTTATAGATAAG
ATTCAGCTAGCCTAATAAAGGTGATTATAATATC
Found at i:144313 original size:86 final size:87
Alignment explanation
Indices: 144159--144470 Score: 398
Period size: 86 Copynumber: 3.6 Consensus size: 87
144149 TCTTTCTCAT
* * * *
144159 AAAGAGGAGCCACCTGAAGAATATACCACATGACTTTCCCATGAAGGGGAGTCGTCCAAAGATCA
1 AAAGAGGAACCACCAGAAGAATATACCACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATCA
144224 TCTCACCTGGTTCAGACCCACG
66 TCTCACCTGGTTCAGACCCACG
*
144246 AAAG-GGAACCACCAGAAGAATATACCACATGACTTTCCCGTGAAGGCGAGTCATCCAAAGATCA
1 AAAGAGGAACCACCAGAAGAATATACCACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATCA
144310 TCTCACCTGGTTCAGACCCACG
66 TCTCACCTGGTTCAGACCCACG
* * ** *
144332 -AAGTGGAACCACCTA-AAGAATATACCACACGACTTTCATGTGAAGGGGAGTCATCCAAATATC
1 AAAGAGGAACCACC-AGAAGAATATACCACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATC
* * * **
144395 ATTTCACTTGGTTCATACCCGTG
65 ATCTCACCTGGTTCAGACCCACG
* ** * * *
144418 -AAGGGGAACCACTTGAAGAATTTACCACTTGGCTTTCCCGTGAAGGGGAGTCA
1 AAAGAGGAACCACCAGAAGAATATACCACATGACTTTCCCGTGAAGGGGAGTCA
144471 AGTAAAGAAA
Statistics
Matches: 198, Mismatches: 24, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
85 3 0.02
86 190 0.96
87 5 0.03
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (87 bp):
AAAGAGGAACCACCAGAAGAATATACCACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGATCA
TCTCACCTGGTTCAGACCCACG
Found at i:144690 original size:85 final size:85
Alignment explanation
Indices: 144546--145042 Score: 559
Period size: 85 Copynumber: 5.8 Consensus size: 85
144536 GTTGTATAGT
** * * * *
144546 TCAAGGCGAGAAGGACTATCTG-CTAGCAAAAGACCATCGAGTTCAATTACACTCAGCTCAATGA
1 TCAAGGCGAGAAGGGTTATCTGTC-AAC-AAAGACCTTCGAGTTCAATTACATTCAGCTCAAGGA
*
144610 CATATCAAATTTATAGCATAAC
64 CATATCAAATTTACAGCATAAC
* * * *
144632 TCAAGGCGAGAAGGGTTATCTGTTAACCAAGACCTTCTAGTTCAATTACATTCAGCTCAAGGGCA
1 TCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCAATTACATTCAGCTCAAGGACA
144697 TATCAAATTTACAGCATAAC
66 TATCAAATTTACAGCATAAC
* * * *
144717 TCAAGGCGAGAAGGGTTATCTGTCAGA-AAAGACCTTCAAATTCAATTATATTCAGCTCAAGGGC
1 TCAAGGCGAGAAGGGTTATCTGTCA-ACAAAGACCTTCGAGTTCAATTACATTCAGCTCAAGGAC
144781 ATATCAAATTTACAGCATAAC
65 ATATCAAATTTACAGCATAAC
* * * * * * *
144802 TCAAGGCGAAAAGGGCTATATGTCAACAAAAACCTTCGAGTTCGATTACACTCAACTCAAGGACA
1 TCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCAATTACATTCAGCTCAAGGACA
*
144867 TATCAAATTTACATCATAAC
66 TATCAAATTTACAGCATAAC
* * * * * * *
144887 TCAAGGCGAGAAGGGTTAACTATCAATAAATACCTTCGAGTTCGATTTCATTCAGCTCAAGGGCA
1 TCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCAATTACATTCAGCTCAAGGACA
* *
144952 TGTCAAATTTACAGCATAGC
66 TATCAAATTTACAGCATAAC
* * * ** ** * * *
144972 TTAAGTCAAGAAAAGTTATCTGTCAACAAA-AATTGTCGAGTTCGATTCCATTCAGCTCAATGAC
1 TCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCT-TCGAGTTCAATTACATTCAGCTCAAGGAC
145036 ATATCAA
65 ATATCAA
145043 CTGCATGGTA
Statistics
Matches: 351, Mismatches: 56, Indels: 9
0.84 0.13 0.02
Matches are distributed among these distances:
84 3 0.01
85 325 0.93
86 23 0.07
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (85 bp):
TCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCAATTACATTCAGCTCAAGGACA
TATCAAATTTACAGCATAAC
Found at i:145041 original size:255 final size:256
Alignment explanation
Indices: 144546--145042 Score: 624
Period size: 255 Copynumber: 1.9 Consensus size: 256
144536 GTTGTATAGT
* * * * *
144546 TCAAGGCGAGAAGGACTATCTGCTAGCAAAAGACCATCGAGTTCAATTACACTCAGCTCAATGAC
1 TCAAGGCGAAAAGGACTATATGCTAACAAAAGACCATCGAGTTCAATTACACTCAACTCAAGGAC
* * * * * *
144611 ATATCAAATTTATAGCATAACTCAAGGCGAGAAGGGTTATCTGTTAACCAAGACCTTCTAGTTCA
66 ATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTAACTATCAACAAAGACCTTCGAGTTCA
* **
144676 ATTACATTCAGCTCAAGGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTC
131 ATTACATTCAGCTCAAGGGCATATCAAATTTACAGCATAACTCAAGGCAAGAAAAGTTATCTGTC
* * *
144741 AGAAAAGACCTTCAAATTCAATTATATTCAGCTCAAGGGCATATCAAATTTACAGCATAAC
196 AGAAAAGAACTTCAAATTCAATTACATTCAGCTCAAGGACATATCAAATTTACAGCATAAC
* * *
144802 TCAAGGCGAAAAGGGCTATATG-TCAACAAAA-ACCTTCGAGTTCGATTACACTCAACTCAAGGA
1 TCAAGGCGAAAAGGACTATATGCT-AACAAAAGACCATCGAGTTCAATTACACTCAACTCAAGGA
* * *
144865 CATATCAAATTTACATCATAACTCAAGGCGAGAAGGGTTAACTATCAATAAATACCTTCGAGTTC
65 CATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTAACTATCAACAAAGACCTTCGAGTTC
* * * * * *
144930 GATTTCATTCAGCTCAAGGGCATGTCAAATTTACAGCATAGCTTAAGTCAAGAAAAGTTATCTGT
130 AATTACATTCAGCTCAAGGGCATATCAAATTTACAGCATAACTCAAGGCAAGAAAAGTTATCTGT
* * * * * *
144995 CA-ACAAA-AATTGTCGAGTTCGATTCCATTCAGCTCAATGACATATCAA
195 CAGA-AAAGAACT-TCAAATTCAATTACATTCAGCTCAAGGACATATCAA
145043 CTGCATGGTA
Statistics
Matches: 203, Mismatches: 35, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
254 3 0.01
255 175 0.86
256 25 0.12
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (256 bp):
TCAAGGCGAAAAGGACTATATGCTAACAAAAGACCATCGAGTTCAATTACACTCAACTCAAGGAC
ATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTAACTATCAACAAAGACCTTCGAGTTCA
ATTACATTCAGCTCAAGGGCATATCAAATTTACAGCATAACTCAAGGCAAGAAAAGTTATCTGTC
AGAAAAGAACTTCAAATTCAATTACATTCAGCTCAAGGACATATCAAATTTACAGCATAAC
Found at i:146939 original size:13 final size:13
Alignment explanation
Indices: 146905--146944 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
146895 ATTTAGTCCC
*
146905 TTCATATTTTAAT
1 TTCATATTTTTAT
*
146918 TTC-TTTTTTTAT
1 TTCATATTTTTAT
146930 TTCATATTTTTAT
1 TTCATATTTTTAT
146943 TT
1 TT
146945 ATTTAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (13 bp):
TTCATATTTTTAT
Done.