Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005998.1 Hibiscus syriacus cultivar Beakdansim tig00014135_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: 73921
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:4799 original size:21 final size:22
Alignment explanation
Indices: 4773--4821 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 22
4763 GTAATATAGT
4773 AGTAAGTGAGTATAAACAAATG
1 AGTAAGTGAGTATAAACAAATG
*
4795 A-TAAGTGAGTATAAACAAGTG
1 AGTAAGTGAGTATAAACAAATG
4816 AGTAAG
1 AGTAAG
4822 GATGTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.22
Consensus pattern (22 bp):
AGTAAGTGAGTATAAACAAATG
Found at i:5858 original size:39 final size:39
Alignment explanation
Indices: 5785--5897 Score: 149
Period size: 39 Copynumber: 2.9 Consensus size: 39
5775 TATACTTAAA
* *
5785 AAAACACTCTCCAACTTCCAAGA-CCTCTTAAATTCACAAT
1 AAAACACTCT--AACTCCCAAGAGACTCTTAAATTCACAAT
* *
5825 AAAACACT-TGAACTCCCAAGATACTTTTAAATTCACAAT
1 AAAACACTCT-AACTCCCAAGAGACTCTTAAATTCACAAT
5864 AAAACACTCTAACTCCCAAGAGACTCTTAAATTC
1 AAAACACTCTAACTCCCAAGAGACTCTTAAATTC
5898 TCCCCTTAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
38 10 0.15
39 46 0.71
40 9 0.14
ACGTcount: A:0.42, C:0.28, G:0.04, T:0.26
Consensus pattern (39 bp):
AAAACACTCTAACTCCCAAGAGACTCTTAAATTCACAAT
Found at i:6797 original size:20 final size:21
Alignment explanation
Indices: 6772--6823 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
6762 TTTTCCCAAT
*
6772 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
6792 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
6813 TCGCAATGCGA
1 TCGCAATGCGA
6824 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:6837 original size:20 final size:20
Alignment explanation
Indices: 6812--6865 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
6802 AATTGGGAAA
6812 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
6832 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
6852 ATCGCAATGCGATA
1 ATCGCAATGCGATA
6866 ATATAAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:6856 original size:61 final size:61
Alignment explanation
Indices: 6791--6905 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 61
6781 GAATAAGTAA
* * * * *
6791 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACT
1 ATCGCAACGCGATAAT-AGAAAATCGCAACGAGATACTGACTATCGCAACGCGATACTTACT
* * *
6852 ATCGCAATGCGATAATATAAAATCGCAACGAGATACTGACTTTCGCAACGCGAT
1 ATCGCAACGCGATAATAGAAAATCGCAACGAGATACTGACTATCGCAACGCGAT
6906 TTACATAGCG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
61 43 0.96
62 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (61 bp):
ATCGCAACGCGATAATAGAAAATCGCAACGAGATACTGACTATCGCAACGCGATACTTACT
Found at i:7525 original size:20 final size:19
Alignment explanation
Indices: 7459--7537 Score: 113
Period size: 19 Copynumber: 4.1 Consensus size: 19
7449 GAAACCAAAA
* *
7459 TCGCATTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATT
7478 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
7497 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
7516 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
7536 TC
1 TC
7538 AACCAAAAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
19 37 0.69
20 17 0.31
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:7526 original size:39 final size:38
Alignment explanation
Indices: 7459--7537 Score: 113
Period size: 39 Copynumber: 2.1 Consensus size: 38
7449 GAAACCAAAA
*
7459 TCGCATTGCAATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCATTGCAATTCTCATTTCGCGTTGCGATTTTCATT
* * *
7497 TCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 TCGCATTGCAATTCTCATT-TCGCGTTGCGATTTTCATT
7536 TC
1 TC
7538 AACCAAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 16 0.44
39 20 0.56
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.47
Consensus pattern (38 bp):
TCGCATTGCAATTCTCATTTCGCGTTGCGATTTTCATT
Found at i:9696 original size:42 final size:42
Alignment explanation
Indices: 9650--9823 Score: 163
Period size: 42 Copynumber: 4.1 Consensus size: 42
9640 CCTATCGTTG
* * *
9650 AAGAGGCCCCTATCATTTCTTGAGAGTCCCCTCCCACCTTTC
1 AAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCACCATTC
* * * * * * * *
9692 AAGAGGCCACTGTCATCCCTCAAGAGTCCACTCCTATCATTG
1 AAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCACCATTC
*
9734 AAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCACCGTTC
1 AAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCACCATTC
** * * *
9776 AAGAGGCCATTGTCA-TCGTTGAAGAGGT-CCCTCCCACCATTC
1 AAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCACCATTC
9818 AAGAGG
1 AAGAGG
9824 TCGATTCACA
Statistics
Matches: 104, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
41 4 0.04
42 98 0.94
43 2 0.02
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (42 bp):
AAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCACCATTC
Found at i:9801 original size:84 final size:84
Alignment explanation
Indices: 9617--9792 Score: 307
Period size: 84 Copynumber: 2.1 Consensus size: 84
9607 CCCGACTCGC
* * *
9617 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTTCTTGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
*
9682 CCCACCTTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
9701 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
9766 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
*
9785 TTGTCATC
1 CTGTCATC
9793 GTTGAAGAGG
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.22, C:0.36, G:0.16, T:0.26
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:9822 original size:84 final size:84
Alignment explanation
Indices: 9617--9823 Score: 272
Period size: 84 Copynumber: 2.5 Consensus size: 84
9607 CCCGACTCGC
* * * * * *
9617 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTTCTTGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
*
9682 CCCACCTTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
* * *
9701 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
9766 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
* ** *
9785 TTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAGG
1 CTGTCATCCCTCAAGA-GTCCACTCCCACCATTCAAGAGG
9824 TCGATTCACA
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
84 107 0.96
85 4 0.04
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.25
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:11209 original size:13 final size:14
Alignment explanation
Indices: 11178--11212 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
11168 ATTGTTTAAT
11178 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
11192 TGATTTGTAAAA-G
1 TGATTTGTAAAAGG
11205 TGATTTGT
1 TGATTTGT
11213 TTAATTGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:11356 original size:14 final size:14
Alignment explanation
Indices: 11337--11393 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
11327 GCGAAATGAA
11337 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
11351 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
11370 AATCGCAACGAGAG
1 AATCGCAACGAGAG
11384 AATCGCAACG
1 AATCGCAACG
11394 TGAAATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:11364 original size:33 final size:33
Alignment explanation
Indices: 11319--11408 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
11309 AAAAAGTACT
*
11319 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
11352 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* * *
11385 ATCGCAACGTGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
11409 GTTGCGATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:11378 original size:19 final size:19
Alignment explanation
Indices: 11319--11379 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
11309 AAAAAGTACT
*
11319 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
11338 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
11352 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
11371 ATCGCAACG
1 ATCGCAACG
11380 AGAGAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:11426 original size:19 final size:19
Alignment explanation
Indices: 11404--11554 Score: 71
Period size: 19 Copynumber: 8.7 Consensus size: 19
11394 TGAAATTAAA
11404 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
11423 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
11438 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
11456 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
11470 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
**
11489 TTCGTATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
11504 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
11522 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
11541 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
11555 AGACATTAAG
Statistics
Matches: 93, Mismatches: 23, Indels: 31
0.63 0.16 0.21
Matches are distributed among these distances:
14 27 0.29
16 6 0.06
17 6 0.06
19 44 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:11450 original size:33 final size:32
Alignment explanation
Indices: 11408--11534 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
11398 ATTAAATTCG
11408 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
11441 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
11474 CGTTGCGATTTTCATTTCGTATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
11507 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
11535 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:11484 original size:66 final size:66
Alignment explanation
Indices: 11401--11533 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
11391 ACGTGAAATT
*
11401 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
11466 G
66 G
* *
11467 AAATTAGCGTTGCGATTTTCATTTCGTATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
11532 G
66 G
11533 A
1 A
11534 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:13842 original size:12 final size:12
Alignment explanation
Indices: 13825--13861 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
13815 TCTTCGAGGA
13825 CTTTTTCTTCTT
1 CTTTTTCTTCTT
13837 CTTTTTCTTCTT
1 CTTTTTCTTCTT
13849 CTTTTTCTTCTT
1 CTTTTTCTTCTT
13861 C
1 C
13862 AGGATTATAT
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:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:14070 original size:24 final size:24
Alignment explanation
Indices: 14036--14089 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
14026 CTGAAACATC
*
14036 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
14060 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
14084 ATCAAA
1 ATCAAA
14090 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:14999 original size:20 final size:20
Alignment explanation
Indices: 14891--15002 Score: 73
Period size: 20 Copynumber: 5.5 Consensus size: 20
14881 GCGAATAATT
*
14891 AAATCGCAATGCGAATT-TGGA
1 AAATCGCAATGAG-ATTCT-GA
* *
14912 AAATCGCAATGCGATACTGA
1 AAATCGCAATGAGATTCTGA
** * ** *
14932 CTATCGCAACGAGATAATACA
1 AAATCGCAATGAGATTCT-GA
*
14953 AAATCGCAACGAGATTCTGA
1 AAATCGCAATGAGATTCTGA
***
14973 CTTTCGCAATGAGATTCTGA
1 AAATCGCAATGAGATTCTGA
14993 AAATCGCAAT
1 AAATCGCAAT
15003 CATCTTCAAA
Statistics
Matches: 70, Mismatches: 19, Indels: 5
0.74 0.20 0.05
Matches are distributed among these distances:
20 41 0.59
21 29 0.41
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (20 bp):
AAATCGCAATGAGATTCTGA
Found at i:15290 original size:20 final size:20
Alignment explanation
Indices: 15215--15282 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
15205 CAACGGGGAA
15215 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
15235 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
15255 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
15275 ATCGCAAC
1 ATCGCAAC
15283 TAGAAAATCG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:15333 original size:14 final size:14
Alignment explanation
Indices: 15314--15367 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
15304 GAAAATTGCA
15314 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
15328 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
*
15345 CATTGCGATTTTCTAG
1 --TTGCGATTTTCTCG
15361 TTGCGAT
1 TTGCGAT
15368 AGCCATTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 18 0.53
16 2 0.06
17 3 0.09
19 11 0.32
ACGTcount: A:0.13, C:0.19, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:15375 original size:33 final size:33
Alignment explanation
Indices: 15311--15375 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
15301 AATGAAAATT
* ***
15311 GCATTGCGATTTTCTCGTTGCGATTTTCATTTC
1 GCATTGCGATTTTCTAGTTGCGATAGCCATTTC
15344 GCATTGCGATTTTCTAGTTGCGATAGCCATTT
1 GCATTGCGATTTTCTAGTTGCGATAGCCATTT
15376 TCGCGTTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.45
Consensus pattern (33 bp):
GCATTGCGATTTTCTAGTTGCGATAGCCATTTC
Found at i:15513 original size:14 final size:14
Alignment explanation
Indices: 15494--15530 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
15484 CATCAATTAA
15494 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
15508 ACAAATCATCTTTT
1 ACAAATCAACATTT
15522 ACAAATCAA
1 ACAAATCAA
15531 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:17444 original size:19 final size:20
Alignment explanation
Indices: 17389--17456 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
17379 GAAACTTAAA
*
17389 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGGAAATGACT
*
17409 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGGAAATGACT
* * **
17429 ATCTCAATGC-GAAATGAAA
1 ATCGCAACGCGGAAATGACT
17448 ATCGCAACG
1 ATCGCAACG
17457 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 13 0.33
20 26 0.67
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:17464 original size:14 final size:14
Alignment explanation
Indices: 17445--17535 Score: 83
Period size: 14 Copynumber: 5.9 Consensus size: 14
17435 ATGCGAAATG
17445 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
17459 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
17478 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
17492 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
17508 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
17524 AAAATCGCAACG
1 AAAATCGCAACG
17536 CGAAACACAA
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 31 0.48
15 1 0.02
16 10 0.16
17 2 0.03
18 10 0.16
19 10 0.16
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:17520 original size:32 final size:33
Alignment explanation
Indices: 17433--17540 Score: 200
Period size: 33 Copynumber: 3.3 Consensus size: 33
17423 ATGGCTATCT
17433 CAATGCGAAATGAAAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
17466 CAATGCGAAATGAAAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
17499 CAATGCGAAATG-AAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
*
17531 CAACGCGAAA
1 CAATGCGAAA
17541 CACAAATCGC
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 29 0.39
33 45 0.61
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACGACAAAATCG
Found at i:17569 original size:19 final size:19
Alignment explanation
Indices: 17547--17662 Score: 92
Period size: 19 Copynumber: 6.6 Consensus size: 19
17537 GAAACACAAA
17547 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
17566 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
17582 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
17598 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
17614 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
***
17631 TCGCATTGCGATAGCCATT
1 TCGCATTGCGATTTTCATT
17650 TCTGCATTGCGAT
1 TC-GCATTGCGAT
17663 AGTCATTTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 19
0.75 0.08 0.18
Matches are distributed among these distances:
14 15 0.19
15 3 0.04
16 12 0.15
17 4 0.05
18 12 0.15
19 23 0.29
20 10 0.13
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:17588 original size:14 final size:14
Alignment explanation
Indices: 17569--17626 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
17559 TTTCATTTCG
17569 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
17583 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
17599 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
17615 CGTTGCGATTTT
1 CGTTGCGATTTT
17627 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:17633 original size:33 final size:33
Alignment explanation
Indices: 17552--17642 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
17542 ACAAATCGCA
*
17552 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
17585 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
17617 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
17643 AGCCATTTCT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:17658 original size:20 final size:19
Alignment explanation
Indices: 17627--17670 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
17617 TTGCGATTTT
17627 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
*
17646 CATTTCTGCATTGCGATAGT
1 CATTTC-GCATTGCGATAGC
17666 CATTT
1 CATTT
17671 TCGTGTTGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:18183 original size:18 final size:18
Alignment explanation
Indices: 18157--18201 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
18147 GTCGATCAGA
*
18157 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
18175 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
18193 TGATGGCTC
1 TGATGGCTC
18202 CCAAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:19568 original size:20 final size:20
Alignment explanation
Indices: 19520--19578 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
19510 AATATTTTCT
** *
19520 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
19540 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
19560 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
19579 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:19856 original size:20 final size:21
Alignment explanation
Indices: 19831--19879 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
19821 TCTGAGAGAT
19831 GGAGAT-AGACGGATTTCGCC
1 GGAGATGAGACGGATTTCGCC
* *
19851 GGAGATGGGGACGGATTTCGTC
1 GGAGAT-GAGACGGATTTCGCC
*
19873 AGAGATG
1 GGAGATG
19880 GGTGAGAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 1 0.04
22 17 0.71
ACGTcount: A:0.24, C:0.14, G:0.41, T:0.20
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGCC
Found at i:19865 original size:22 final size:22
Alignment explanation
Indices: 19838--19881 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
19828 GATGGAGATA
*
19838 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
*
19860 GACGGATTTCGTCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
19882 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:20095 original size:20 final size:20
Alignment explanation
Indices: 20070--20121 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
20060 ATTATGTATT
20070 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
20090 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
20110 ATCTCGTTGCGA
1 ATCGCGTTGCGA
20122 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:20156 original size:21 final size:20
Alignment explanation
Indices: 20132--20183 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
20122 TTTTGTATTA
*
20132 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
20153 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
20173 TCGCATTGCGA
1 TCGCATTGCGA
20184 ATTGGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAT
Found at i:22226 original size:182 final size:182
Alignment explanation
Indices: 21919--22371 Score: 789
Period size: 182 Copynumber: 2.5 Consensus size: 182
21909 TTTTTACTAT
* *
21919 CGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATAC
1 CGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
* * *
21984 ATTTTTATAAAGTATTGACACTTTATTGGCGCTATAACTTCTTGTCTTTTAAATTCCAAAAGTGT
66 ATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGT
* *
22049 CGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTAC
131 CGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTAC
*
22101 CGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGATAC
1 CGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
*
22166 ATTTTTATAAAGTATCGACACTTTATTAGTGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGT
66 ATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGT
22231 CGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTAC
131 CGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTAC
* ** *
22283 CTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATAC
1 CGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
22348 ATTTTTATAAAGTATCGACACTTT
66 ATTTTTATAAAGTATCGACACTTT
22372 CAATATATCT
Statistics
Matches: 257, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
182 257 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.43
Consensus pattern (182 bp):
CGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
ATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGT
CGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTAC
Found at i:22519 original size:112 final size:112
Alignment explanation
Indices: 22242--22703 Score: 775
Period size: 112 Copynumber: 4.1 Consensus size: 112
22232 GATACTTATA
* *
22242 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
22307 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * *
22354 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATTGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
22419 TTTGTCA-TTTTTTACCTGTTATATTGTTATAGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * * * *
22465 ATAAAGGATCGACATTTTCAATATATCTGGTAGCGCTTTACCTATTTTTTTCATTTATAGACCGG
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCT-GTTTTGTCATTTATAGACCGG
* *
22530 TTTTGTCATTTTTCTACCAGTTATATTGTTATGGATCGATACATTTTT
65 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
22578 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
22643 TTTGTCATTTTTTTA-CTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
22689 ATAAACTATCGACAC
1 ATAAAGTATCGACAC
22704 AAACCGACAA
Statistics
Matches: 325, Mismatches: 23, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
111 123 0.38
112 126 0.39
113 76 0.23
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:25000 original size:43 final size:43
Alignment explanation
Indices: 24919--25000 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
24909 ATTTTCTAAC
* * *
24919 AAAAAATGCCGCAATAGGTTTTGTTATTTAGTGACGTTTGTAA
1 AAAAAATGCCGCAATAGGTATTGATATTTAGCGACGTTTGTAA
* *
24962 AAAAAATGCCGCAATAGGTATTGATGTTTAGCGGCGTTT
1 AAAAAATGCCGCAATAGGTATTGATATTTAGCGACGTTT
25001 TCCCTACAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (43 bp):
AAAAAATGCCGCAATAGGTATTGATATTTAGCGACGTTTGTAA
Found at i:25016 original size:43 final size:43
Alignment explanation
Indices: 24969--25087 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
24959 TAAAAAAAAT
*
24969 GCCGCAATAGGTATTGATGTTTAGCGGCGTTTTCCCTACAAAC
1 GCCGCAATAGGTATTGATGTTTAGCGGCGTTTTACCTACAAAC
* * *
25012 GCCGCAGTAGGTGTTGA-GATTTAGCGGCGTTTTACTTACAAAC
1 GCCGCAATAGGTATTGATG-TTTAGCGGCGTTTTACCTACAAAC
* * * *
25055 GCCGCAGA-AGGTTTTGATATTTTGCGGCATTTT
1 GCCGCA-ATAGGTATTGATGTTTAGCGGCGTTTT
25088 TCCATAAATG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 1 0.02
43 63 0.98
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (43 bp):
GCCGCAATAGGTATTGATGTTTAGCGGCGTTTTACCTACAAAC
Found at i:25163 original size:43 final size:43
Alignment explanation
Indices: 24988--25171 Score: 140
Period size: 43 Copynumber: 4.3 Consensus size: 43
24978 GGTATTGATG
* *
24988 TTTAGCGGCG-TTTTCCCTACAAACGCCGCAGTAGGTGTTGAGA
1 TTTAGCGGCGTTTTTCCC-ACAAACGCCACAGAAGGTGTTGAGA
* ** * * *
25031 TTTAGCGGCGTTTTACTTACAAACGCCGCAGAAGGTTTTGATA
1 TTTAGCGGCGTTTTTCCCACAAACGCCACAGAAGGTGTTGAGA
* * * * * * *
25074 TTTTGCGGCATTTTT-CCATAAATGTCACAGAATGTGATGATG-
1 TTTAGCGGCGTTTTTCCCACAAACGCCACAGAAGGTGTTGA-GA
* * * * *
25116 TTTAGCGGTGTTTTTCCCACAAACGTCACAGTAGGTTTTCAGA
1 TTTAGCGGCGTTTTTCCCACAAACGCCACAGAAGGTGTTGAGA
*
25159 TTTAGCAGCGTTT
1 TTTAGCGGCGTTT
25172 GTATCGAAAA
Statistics
Matches: 106, Mismatches: 31, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
42 29 0.27
43 73 0.69
44 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTCCCACAAACGCCACAGAAGGTGTTGAGA
Found at i:25210 original size:128 final size:128
Alignment explanation
Indices: 24983--25216 Score: 278
Period size: 128 Copynumber: 1.8 Consensus size: 128
24973 CAATAGGTAT
* * *
24983 TGATGTTTAGCGGCGTTTTCCCTACAAACGCCGCAGTAGGTGTTGAGATTTAGCGGCGTTTTACT
1 TGATGTTTAGCGGCGTTTTCCCTACAAACGCCACAGTAGGTGTTCAGATTTAGCAGCGTTTTACT
* * * * * *
25048 TACAAACGCCGCAGAAGGTTTTGATATTTTGCGGCATTTTTCCATAAATGTCACAGAATGTGA
66 GACAAACGACGCAGAAGGTTGTGAGAATTAGCGGCATTTTTCCATAAATGTCACAGAATGTGA
* * *
25111 TGATGTTTAGCGGTGTTTTTCCC-ACAAACGTCACAGTAGGTTTTCAGATTTAGCAGCGTTTGTA
1 TGATGTTTAGCGGCG-TTTTCCCTACAAACGCCACAGTAGGTGTTCAGATTTAGCAGCGTTT-TA
* *
25175 -TCGA-AAACGACGCAATAAGG-TGTGAGAATTAGCGGCGTTTTT
64 CT-GACAAACGACGC-AGAAGGTTGTGAGAATTAGCGGCATTTTT
25217 ATTGAAAATG
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
128 73 0.83
129 15 0.17
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (128 bp):
TGATGTTTAGCGGCGTTTTCCCTACAAACGCCACAGTAGGTGTTCAGATTTAGCAGCGTTTTACT
GACAAACGACGCAGAAGGTTGTGAGAATTAGCGGCATTTTTCCATAAATGTCACAGAATGTGA
Found at i:25258 original size:43 final size:43
Alignment explanation
Indices: 25147--25258 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 43
25137 AACGTCACAG
* * * *
25147 TAGGTTTTCAGATTTAGCAGCGTTTGTATCGAAAACGACGCAA
1 TAGGTGTTGAGATTTAGCGGCGTTTTTATCGAAAACGACGCAA
* * * * *
25190 TAAGGTG-TGAGAATTAGCGGCGTTTTTATTGAAAATGTCGTAA
1 T-AGGTGTTGAGATTTAGCGGCGTTTTTATCGAAAACGACGCAA
25233 TAGGTGTTGAGATTTAGCGGCGTTTT
1 TAGGTGTTGAGATTTAGCGGCGTTTT
25259 CATAAAAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 5 0.09
43 48 0.84
44 4 0.07
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.35
Consensus pattern (43 bp):
TAGGTGTTGAGATTTAGCGGCGTTTTTATCGAAAACGACGCAA
Found at i:25337 original size:44 final size:41
Alignment explanation
Indices: 25247--25361 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 41
25237 TGTTGAGATT
* * ** * *
25247 TAGCGGCGTTTTCATAAAAATACCGCTAAAGTT-CGGTATA
1 TAGCGGCGTTTTTATACAAACGCCGCTAAATTTATGGTATA
25287 TAGCGGCGTTTCTAGTATACAAACGCCGCTAAATTTATGGTATA
1 TAGCGGCGTTT-T--TATACAAACGCCGCTAAATTTATGGTATA
* *
25331 TTGCGGCGTTTTTTTACAAACGCCGCTAAAT
1 TAGCGGCGTTTTTATACAAACGCCGCTAAAT
25362 AGCACAAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
40 11 0.17
41 19 0.30
43 17 0.27
44 16 0.25
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (41 bp):
TAGCGGCGTTTTTATACAAACGCCGCTAAATTTATGGTATA
Found at i:25737 original size:21 final size:21
Alignment explanation
Indices: 25713--25759 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
25703 TCTTTCTCTT
*
25713 CTTCCAATGCTGCTCTGGCTG
1 CTTCCAATGCTGCTCTCGCTG
* *
25734 CTTCCACTGCTGCTCTCTCTG
1 CTTCCAATGCTGCTCTCGCTG
25755 CTTCC
1 CTTCC
25760 CTTCCTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.06, C:0.40, G:0.17, T:0.36
Consensus pattern (21 bp):
CTTCCAATGCTGCTCTCGCTG
Found at i:34197 original size:42 final size:42
Alignment explanation
Indices: 34124--34639 Score: 228
Period size: 42 Copynumber: 12.5 Consensus size: 42
34114 CAGTGTTTTT
* * * *
34124 TTAAAAACGCCACTAAAGCAC-TAGTATTTAGCGGCTTTTATG
1 TTAAAAACGCCACTAAAGTACGT-GTAATTAGCGGCGTTTGTG
*
34166 TTAAAAACGCCACTAAAGTACGTGTAATTAGCAGCGTTTGTG
1 TTAAAAACGCCACTAAAGTACGTGTAATTAGCGGCGTTTGTG
* * * * *
34208 CGT-AAAATGCCACAAAAATATGTGTAATTAGCGGCGTTTGTG
1 -TTAAAAACGCCACTAAAGTACGTGTAATTAGCGGCGTTTGTG
** * **** *
34250 CTT-GCAATGCCACTAAAGTAC-TACCGTTAGCGACGTTTGT-
1 -TTAAAAACGCCACTAAAGTACGTGTAATTAGCGGCGTTTGTG
* * * ** * *
34290 ATAAAAACACCACTAAAGTACAGT-T-TTTCTCGACGTTTAT-
1 TTAAAAACGCCACTAAAGTAC-GTGTAATTAGCGGCGTTTGTG
* * * * **
34330 ATAAAAATGCAACTAGAGTATTTGTAATTAGCGGCGTTTGTG
1 TTAAAAACGCCACTAAAGTACGTGTAATTAGCGGCGTTTGTG
* * * *
34372 -CATAAAACGCCACTAAAGAAAGTATAATTAGCGGCGTTTGTG
1 TTA-AAAACGCCACTAAAGTACGTGTAATTAGCGGCGTTTGTG
* ** * *
34414 CTT-AAAACACCACTAAAGTACGACCT--TTAGCGGTGTTTAT-
1 -TTAAAAACGCCACTAAAGTACG-TGTAATTAGCGGCGTTTGTG
* * ** * * * *
34454 ATAAAAACGCCATTAAAGTAC-AATATTTATCGGTGTTTAT-
1 TTAAAAACGCCACTAAAGTACGTGTAATTAGCGGCGTTTGTG
* * * ** *
34494 ATAAAAACGTCACTATAGTGTGTGTAATTAGCGGAGTTTGTG
1 TTAAAAACGCCACTAAAGTACGTGTAATTAGCGGCGTTTGTG
* *
34536 CGT-AAAATGCCACTAAAGTACGTGTAATTTAGCGGCGTTTGTG
1 -TTAAAAACGCCACTAAAGTACGTGTAA-TTAGCGGCGTTTGTG
* * * *
34579 CTT-AAAATGCCACTAAAGTA--TG-ACCTTTAGCAGCGTTTCT-
1 -TTAAAAACGCCACTAAAGTACGTGTA--ATTAGCGGCGTTTGTG
*
34619 ATAAAAACGCCACTAAAGTAC
1 TTAAAAACGCCACTAAAGTAC
34640 ATTATTTTCT
Statistics
Matches: 362, Mismatches: 89, Indels: 47
0.73 0.18 0.09
Matches are distributed among these distances:
38 1 0.00
39 4 0.01
40 104 0.29
41 64 0.18
42 152 0.42
43 37 0.10
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (42 bp):
TTAAAAACGCCACTAAAGTACGTGTAATTAGCGGCGTTTGTG
Found at i:34402 original size:164 final size:164
Alignment explanation
Indices: 34167--34649 Score: 580
Period size: 164 Copynumber: 2.9 Consensus size: 164
34157 GCTTTTATGT
* * * *
34167 TAAAAACGCCACTAAAGTACGTGTAATTAGCAGCGTTTGTGCGTAAAATGCCAC-AAA-AATATG
1 TAAAAACGTCACTAGAGTATGTGTAATTAGCGGCGTTTGTGCGTAAAATGCCACTAAAGAA-A-G
** * *
34230 TGTAATTAGCGGCGTTTGTGCTTGCAATGCCACTAAAGTACTACCGTTAGCGACGTTTGTATAAA
64 TGTAATTAGCGGCGTTTGTGCTTAAAATGCCACTAAAGTACTACCTTTAGCGACGTTTATATAAA
* *
34295 AACACCACTAAAGTACAGTTTTTCTCGACGTTTATA
129 AACGCCACTAAAGTACAATTTTTCTCGACGTTTATA
* * * *
34331 TAAAAATG-CAACTAGAGTATTTGTAATTAGCGGCGTTTGTGCATAAAACGCCACTAAAGAAAGT
1 TAAAAACGTC-ACTAGAGTATGTGTAATTAGCGGCGTTTGTGCGTAAAATGCCACTAAAGAAAGT
* ** * **
34395 ATAATTAGCGGCGTTTGTGCTTAAAACACCACTAAAGTACGACCTTTAGCGGTGTTTATATAAAA
65 GTAATTAGCGGCGTTTGTGCTTAAAATGCCACTAAAGTACTACCTTTAGCGACGTTTATATAAAA
* * * **
34460 ACGCCATTAAAGTACAATATTTATCGGTGTTTATA
130 ACGCCACTAAAGTACAATTTTTCTCGACGTTTATA
* * * * *
34495 TAAAAACGTCACTATAGTGTGTGTAATTAGCGGAGTTTGTGCGTAAAATGCCACTAAAGTACGTG
1 TAAAAACGTCACTAGAGTATGTGTAATTAGCGGCGTTTGTGCGTAAAATGCCACTAAAGAAAGTG
*
34560 TAATTTAGCGGCGTTTGTGCTTAAAATGCCACTAAAGTA-TGACCTTTAGC-AGCGTTTCTATAA
66 TAA-TTAGCGGCGTTTGTGCTTAAAATGCCACTAAAGTACT-ACCTTTAGCGA-CGTTTATATAA
*
34623 AAACGCCACTAAAGTACATTATTTTCT
128 AAACGCCACTAAAGTACAAT-TTTTCT
34650 AGCATTTTCT
Statistics
Matches: 267, Mismatches: 44, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
163 1 0.00
164 186 0.70
165 74 0.28
166 6 0.02
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (164 bp):
TAAAAACGTCACTAGAGTATGTGTAATTAGCGGCGTTTGTGCGTAAAATGCCACTAAAGAAAGTG
TAATTAGCGGCGTTTGTGCTTAAAATGCCACTAAAGTACTACCTTTAGCGACGTTTATATAAAAA
CGCCACTAAAGTACAATTTTTCTCGACGTTTATA
Found at i:34471 original size:40 final size:40
Alignment explanation
Indices: 34417--34508 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 40
34407 GTTTGTGCTT
* * *
34417 AAAACACCACTAAAGTACGACCTTTAGCGGTGTTTATATA
1 AAAACGCCACTAAAGTACAACATTTAGCGGTGTTTATATA
* * *
34457 AAAACGCCATTAAAGTACAATATTTATCGGTGTTTATATA
1 AAAACGCCACTAAAGTACAACATTTAGCGGTGTTTATATA
*
34497 AAAACGTCACTA
1 AAAACGCCACTA
34509 TAGTGTGTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (40 bp):
AAAACGCCACTAAAGTACAACATTTAGCGGTGTTTATATA
Found at i:34569 original size:43 final size:42
Alignment explanation
Indices: 34515--34598 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 42
34505 ACTATAGTGT
34515 GTGTAATTAGCGGAGTTTGTGCGTAAAATGCCACTAAAGTAC
1 GTGTAATTAGCGGAGTTTGTGCGTAAAATGCCACTAAAGTAC
* *
34557 GTGTAATTTAGCGGCGTTTGTGCTTAAAATGCCACTAAAGTA
1 GTGTAA-TTAGCGGAGTTTGTGCGTAAAATGCCACTAAAGTA
34599 TGACCTTTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 6 0.15
43 33 0.85
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (42 bp):
GTGTAATTAGCGGAGTTTGTGCGTAAAATGCCACTAAAGTAC
Found at i:37336 original size:13 final size:13
Alignment explanation
Indices: 37301--37343 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
37291 TTCTTTCTAT
37301 TTTTTAATTATAA
1 TTTTTAATTATAA
* *
37314 TTCTTAAATTATTA
1 TT-TTTAATTATAA
*
37328 TTTTTAATTATGA
1 TTTTTAATTATAA
37341 TTT
1 TTT
37344 CAGGTTAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (13 bp):
TTTTTAATTATAA
Found at i:40319 original size:2 final size:2
Alignment explanation
Indices: 40312--40343 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
40302 TAAATTTTTA
40312 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
40344 CAATAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54947 original size:135 final size:135
Alignment explanation
Indices: 54702--55339 Score: 836
Period size: 135 Copynumber: 4.7 Consensus size: 135
54692 TAAACCAATC
* * * *
54702 AACATTTCCAATGGAAAGTTCGTAATGAGAAGAACTCATCCAATAGAGGGAGAAGAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAAGGAGAAGAAGTTCATAA
* * * *
54767 TGAGAATAACTTGTTCAACCTTTGCTCGATTCACAATATTTTGAATCAGCGACGCCTCACTTGAG
66 TGAGAAGAACTTGTTCAACCTTTGCTCGATTCACAACATTTCGAATCAGCAACGCCTCACTTGAG
54832 GGATT
131 GGATT
* *
54837 AATATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAAGGAGAATAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAAGGAGAAGAAGTTCATAA
* * * * * * ** * * *
54902 TGTGAAGAACTTGTTCAACCTTTGCTTGATTTAGAGCATTTTGAATCAGTGACACTTTACTTGAG
66 TGAGAAGAACTTGTTCAACCTTTGCTCGATTCACAACATTTCGAATCAGCAACGCCTCACTTGAG
54967 GGATT
131 GGATT
*
54972 AACATTTCCAACGGAGAGTTCATAATGAGAAGAACTCATCCGATA-AAGGGAGAAGAAGTTCATA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAA-GGAGAAGAAGTTCATA
* * * *
55036 ATAAGAAGAACTTGTTCAACCTTTGCTCGATTCACAATATTTCGAATCAACAACGTCTCACTTGA
65 ATGAGAAGAACTTGTTCAACCTTTGCTCGATTCACAACATTTCGAATCAGCAACGCCTCACTTGA
55101 GGGATT
130 GGGATT
* * *
55107 AACATTTCCAATGGAGAGTTTC-TAATGAGAAGAACTCATTCGATA-AAGGGATAAGAATTTCAT
1 AACATTTCCAATGGAGAG-TTCATAATGAGAAGAACTCATCCGATAGAA-GGAGAAGAAGTTCAT
* * * * * *
55170 AATAAGAAGAACTTGTTCAACCTTTGGTTGATGCA-AAGCATTTCGAATCAGCAACGTCTTACTT
64 AATGAGAAGAACTTGTTCAACCTTTGCTCGATTCACAA-CATTTCGAATCAGCAACGCCTCACTT
55234 GAGGGATT
128 GAGGGATT
**
55242 AACATTTCCAATGGAGAGTTTGTAATGAGAAGAACTCATCCGATAG-AGAGAGAAGAAGTTCATA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAAG-GAGAAGAAGTTCATA
* * *
55306 ATGAGAATAACTTTTTCAACCTTTACTCGATTCA
65 ATGAGAAGAACTTGTTCAACCTTTGCTCGATTCA
55340 TCGCACATGG
Statistics
Matches: 441, Mismatches: 56, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
134 7 0.02
135 431 0.98
136 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (135 bp):
AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAAGGAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTGCTCGATTCACAACATTTCGAATCAGCAACGCCTCACTTGAG
GGATT
Found at i:55183 original size:270 final size:270
Alignment explanation
Indices: 54702--55339 Score: 960
Period size: 270 Copynumber: 2.4 Consensus size: 270
54692 TAAACCAATC
* *
54702 AACATTTCCAATGGAAAGTTCGTAATGAGAAGAACTCATCCAATAGAGGGAGAAGAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCGTAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATAA
* * *
54767 TGAGAATAACTTGTTCAACCTTTGCTCGATTCACAATATTTTGAATCAGCGACGCCTCACTTGAG
66 TGAGAATAACTTGTTCAACCTTTGCTCGATTCACAATATTTCGAATCAACAACGCCTCACTTGAG
* *
54832 GGATTAATATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAAGGAGAATAAGTT
131 GGATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAAGGAGAAGAAGTT
** ** * * *
54897 CATAATGTGAAGAACTTGTTCAACCTTTGCTTGATTTAGAGCATTTTGAATCAGTGACAC-T-TT
196 CATAATAAGAAGAACTTGTTCAACCTTTGCTTGATGCAAAGCATTTCGAATCAG-CA-ACGTCTT
54960 ACTTGAGGGATT
259 ACTTGAGGGATT
* * *
54972 AACATTTCCAACGGAGAGTTCATAATGAGAAGAACTCATCCGATAAAGGGAGAAGAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCGTAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATAA
* * *
55037 TAAGAAGAACTTGTTCAACCTTTGCTCGATTCACAATATTTCGAATCAACAACGTCTCACTTGAG
66 TGAGAATAACTTGTTCAACCTTTGCTCGATTCACAATATTTCGAATCAACAACGCCTCACTTGAG
* * *
55102 GGATTAACATTTCCAATGGAGAGTTTC-TAATGAGAAGAACTCATTCGATA-AAGGGATAAGAAT
131 GGATTAACATTTCCAATGGAGAG-TTCATAATGAGAAGAACTCATCCGATAGAA-GGAGAAGAAG
*
55165 TTCATAATAAGAAGAACTTGTTCAACCTTTGGTTGATGCAAAGCATTTCGAATCAGCAACGTCTT
194 TTCATAATAAGAAGAACTTGTTCAACCTTTGCTTGATGCAAAGCATTTCGAATCAGCAACGTCTT
55230 ACTTGAGGGATT
259 ACTTGAGGGATT
* *
55242 AACATTTCCAATGGAGAGTTTGTAATGAGAAGAACTCATCCGATAGAGAGAGAAGAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCGTAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATAA
* *
55307 TGAGAATAACTTTTTCAACCTTTACTCGATTCA
66 TGAGAATAACTTGTTCAACCTTTGCTCGATTCA
55340 TCGCACATGG
Statistics
Matches: 331, Mismatches: 33, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
268 2 0.01
269 4 0.01
270 322 0.97
271 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (270 bp):
AACATTTCCAATGGAGAGTTCGTAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATAA
TGAGAATAACTTGTTCAACCTTTGCTCGATTCACAATATTTCGAATCAACAACGCCTCACTTGAG
GGATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAAGGAGAAGAAGTT
CATAATAAGAAGAACTTGTTCAACCTTTGCTTGATGCAAAGCATTTCGAATCAGCAACGTCTTAC
TTGAGGGATT
Found at i:55717 original size:24 final size:23
Alignment explanation
Indices: 55690--55737 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
55680 AAACCAAGCT
55690 CTGGAGCCCAAACCAAGACCCGAC
1 CTGGAGCCCAAACCAA-ACCCGAC
* *
55714 CTGGGGCCCAAACCAAACCTGAC
1 CTGGAGCCCAAACCAAACCCGAC
55737 C
1 C
55738 CAGAACCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.31, C:0.42, G:0.21, T:0.06
Consensus pattern (23 bp):
CTGGAGCCCAAACCAAACCCGAC
Found at i:56064 original size:35 final size:35
Alignment explanation
Indices: 56010--56120 Score: 111
Period size: 35 Copynumber: 3.2 Consensus size: 35
56000 CGCTAGCTCG
*
56010 TTTA-TTTTATTGCTT-GAACTAACCCTCGAACTTT
1 TTTATTTTTATTG-TTCGAACTAACCCTCAAACTTT
*
56044 TTTATTTTTATTGTTCGAACTAACCCGCTAAAC-TT
1 TTTATTTTTATTGTTCGAACTAACCCTC-AAACTTT
* ** * *
56079 TTTATTTTTGTTGTTCGAGTTAACTCTCTAACTTT
1 TTTATTTTTATTGTTCGAACTAACCCTCAAACTTT
56114 TATTATT
1 T-TTATT
56121 CGATTATATT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
34 9 0.14
35 47 0.73
36 8 0.12
ACGTcount: A:0.23, C:0.17, G:0.09, T:0.51
Consensus pattern (35 bp):
TTTATTTTTATTGTTCGAACTAACCCTCAAACTTT
Found at i:56771 original size:2 final size:2
Alignment explanation
Indices: 56764--56790 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
56754 CCCCTTCATG
56764 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
56791 TATTTTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57003 original size:15 final size:14
Alignment explanation
Indices: 56973--57026 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
56963 TCATGTTGTC
*
56973 TATTTTA-TTATCT
1 TATTTTATTTATTT
56986 TATTTTACTTTATTT
1 TATTTTA-TTTATTT
*
57001 TATTTCATTTATTAT
1 TATTTTATTTATT-T
57016 TATTTTTATTT
1 TA-TTTTATTT
57027 TACTTCATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 7 0.21
14 6 0.18
15 14 0.41
16 7 0.21
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTTATTTATTT
Found at i:57219 original size:2 final size:2
Alignment explanation
Indices: 57214--57247 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
57204 ACATTTTTTA
57214 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
57248 TATCAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59308 original size:26 final size:23
Alignment explanation
Indices: 59275--59341 Score: 59
Period size: 26 Copynumber: 2.9 Consensus size: 23
59265 AAGGTTTTTT
59275 AAAA-AAAATAATAATATAATAA
1 AAAATAAAATAATAATATAATAA
*
59297 TAATGAATAAAA-AATGAAAATAATAA
1 -AA--AATAAAATAAT-AATATAATAA
*
59323 AAAATAATATAAT-ATATAA
1 AAAATAAAATAATAATATAA
59342 AGTTATAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
22 5 0.14
23 8 0.22
24 3 0.08
25 7 0.19
26 13 0.36
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (23 bp):
AAAATAAAATAATAATATAATAA
Found at i:59527 original size:28 final size:28
Alignment explanation
Indices: 59515--59646 Score: 78
Period size: 28 Copynumber: 4.6 Consensus size: 28
59505 AATATTAAAG
59515 AAATATATATATAATAATAATAATAATA
1 AAATATATATATAATAATAATAATAATA
* *
59543 AAATATAGTAAAAAATCAAATGAA-AATAATTTA
1 AAATATA-TATATAAT--AAT-AATAATAA--TA
*
59576 ATATATATATATACAT-ATAATAATAATA
1 AAATATATATATA-ATAATAATAATAATA
* *
59604 ACATGA-ATA-ATAAAAAT-A-AATGAATA
1 AAAT-ATATATATAATAATAATAAT-AATA
**
59630 AAATATCCATATAATAA
1 AAATATATATATAATAA
59647 ATAAAGGGAC
Statistics
Matches: 80, Mismatches: 11, Indels: 27
0.68 0.09 0.23
Matches are distributed among these distances:
25 4 0.05
26 10 0.12
27 11 0.14
28 15 0.19
29 9 0.11
30 7 0.09
31 8 0.10
32 6 0.08
33 10 0.12
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (28 bp):
AAATATATATATAATAATAATAATAATA
Found at i:59615 original size:18 final size:17
Alignment explanation
Indices: 59592--59634 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
59582 ATATATACAT
59592 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
59610 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
59627 ATAA-AATA
1 ATAATAATA
59635 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:60971 original size:105 final size:105
Alignment explanation
Indices: 60786--61130 Score: 511
Period size: 105 Copynumber: 3.3 Consensus size: 105
60776 GCATTGTTCA
** * ** *
60786 GAGTCCAATATCCGCCGTCGTGAAGTTGAAATTGAATCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
60846 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
60886 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
60951 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
60991 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
61056 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
61096 GAGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 GAGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
61131 CACGGATGGC
Statistics
Matches: 222, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
100 35 0.16
101 1 0.00
102 1 0.00
104 5 0.02
105 155 0.70
106 3 0.01
108 22 0.10
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:61827 original size:68 final size:65
Alignment explanation
Indices: 61696--61891 Score: 196
Period size: 68 Copynumber: 2.9 Consensus size: 65
61686 TGAAAGAGAT
* * * * **
61696 AAAATTCGTTTCAAGGGAAAT-GATCTCAAAGATATATGTTGTTTCATGAGAAACGGTCTCAAGG
1 AAAATTTGTTTTAAGGGAAATAAAT-TCAAAGAT-T-T-TT-TTTCAAGAGAAATTGTCTCAAGG
61760 GAAAC
61 GAAAC
** * *
61765 AAAATTATGTTTTAAGGGAAATAAATTTGAAGATTTTGTGTTTTAAGAGTAATTGTCTCAAGGGA
1 AAAATT-TGTTTTAAGGGAAATAAATTCAAAGATTTT-T-TTTCAAGAGAAATTGTCTCAAGGGA
*
61830 GAC
63 AAC
* *
61833 AAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTTTTTCAAGGGAAATTGTCTCAAG
1 AAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTTTTTCAAGAGAAATTGTCTCAAG
61892 ATAGACGAAA
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
65 19 0.18
66 1 0.01
67 28 0.26
68 31 0.29
69 7 0.07
70 19 0.18
71 2 0.02
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (65 bp):
AAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTTTTTCAAGAGAAATTGTCTCAAGGGAAAC
Found at i:61923 original size:36 final size:36
Alignment explanation
Indices: 61870--62128 Score: 221
Period size: 36 Copynumber: 7.3 Consensus size: 36
61860 AAAGATTTTT
* * * *
61870 TTTCAAGGGAAATTGTCTCAAGATAGACGAAATTTA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
*
61906 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
* * * * *
61942 GTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTG
1 -TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
* * * * *
61979 TTTTAA-AGAAAACATAT-TC-----A-A-ATATTTTG
1 TTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATTTA
* *
62008 TTTCAAGGGAAACTGTCTCAAGAGATACAAAATTTA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
*
62044 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTA
* * *
62081 TTTCAAGGGAAACTATCTCAAGAGAGACGAAATTTA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
*
62117 TTTCAAGGGAAA
1 TTTCAAGAGAAA
62129 TGTTTTCAAT
Statistics
Matches: 180, Mismatches: 30, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
28 2 0.01
29 16 0.09
30 2 0.01
31 1 0.01
34 1 0.01
35 3 0.02
36 91 0.51
37 64 0.36
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.27
Consensus pattern (36 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
Found at i:61959 original size:37 final size:36
Alignment explanation
Indices: 61878--61970 Score: 114
Period size: 37 Copynumber: 2.6 Consensus size: 36
61868 TTTTTCAAGG
* * * * * *
61878 GAAATTGTCTCAAGATAGACGAAATTTATTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAA
61914 GAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAACTTA-TTCCAAAA
*
61951 GAAACTGTCTCAAGGGAGAC
1 GAAACTGTCTCAAGAGAGAC
61971 GAAATTTGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 24 0.49
37 25 0.51
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAA
Found at i:61981 original size:138 final size:137
Alignment explanation
Indices: 61818--62177 Score: 470
Period size: 138 Copynumber: 2.6 Consensus size: 137
61808 TAAGAGTAAT
* * * * *
61818 TGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTTTTTCAAGGGAAAT
1 TGTCTCAAGGGAGACGAAATTTGTTTTAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGAAAC
*
61883 TGTCTCAAGATAGACGAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
66 TGTCTCAAGAGAGAC-AAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
61948 AAAGAAAC
130 AAAGAAAC
* * * *
61956 TGTCTCAAGGGAGACGAAATTTGTTTTAAAGAAAACATATTCAAATATTTTGTTTCAAGGGAAAC
1 TGTCTCAAGGGAGACGAAATTTGTTTTAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGAAAC
* * * *
62021 TGTCTCAAGAGATACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCA
66 TGTCTCAAGAGAGAC-AAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
**
62086 AGGGAAAC
130 AAAGAAAC
* * * * * * * *
62094 TATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTTCAATG-TTTATGTTTCAAGAGAAA
1 TGTCTCAAGGGAGACGAAATTTGTTTTAAGGGAAATATATTCAAAGATTT-TGTTTCAAGGGAAA
62158 CTGTCTCAAGAGAGACAAAT
65 CTGTCTCAAGAGAGACAAAT
62178 CTTGTTTTAA
Statistics
Matches: 191, Mismatches: 30, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
137 7 0.04
138 184 0.96
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (137 bp):
TGTCTCAAGGGAGACGAAATTTGTTTTAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGAAAC
TGTCTCAAGAGAGACAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAA
AAGAAAC
Found at i:63108 original size:22 final size:22
Alignment explanation
Indices: 63083--63126 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
63073 CATTTTTGTT
63083 CATTTGATGCT-AAATGGTTTGA
1 CATTTGATGCTCAAA-GGTTTGA
63105 CATTTGATGCTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
63127 TGGGGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:63740 original size:23 final size:24
Alignment explanation
Indices: 63713--63766 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
63703 TTTGCATGTG
63713 TTTTTTG-TCCCTTTTT-CTTTTT
1 TTTTTTGTTCCCTTTTTGCTTTTT
**
63735 TCTTTTTGTTCTTTTTTTGCTTTTT
1 T-TTTTTGTTCCCTTTTTGCTTTTT
63760 TTTTTTG
1 TTTTTTG
63767 CTTTTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 6 0.22
24 13 0.48
25 7 0.26
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (24 bp):
TTTTTTGTTCCCTTTTTGCTTTTT
Found at i:63741 original size:13 final size:12
Alignment explanation
Indices: 63724--63775 Score: 59
Period size: 13 Copynumber: 4.2 Consensus size: 12
63714 TTTTTGTCCC
63724 TTTTTCTTTTTT
1 TTTTTCTTTTTT
* *
63736 CTTTTTGTTCTTT
1 -TTTTTCTTTTTT
*
63749 TTTTGCTTTTTT
1 TTTTTCTTTTTT
63761 TTTTTGCTTTTTT
1 TTTTT-CTTTTTT
63774 TT
1 TT
63776 CTTTTTGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 13 0.41
13 19 0.59
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:63746 original size:9 final size:8
Alignment explanation
Indices: 63724--63781 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 8
63714 TTTTTGTCCC
63724 TTTTTC-T
1 TTTTTCTT
63731 TTTTTCTT
1 TTTTTCTT
63739 TTTGTTCTT
1 TTT-TTCTT
63748 TTTTTGCTT
1 TTTTT-CTT
63757 TTTTT-TT
1 TTTTTCTT
**
63764 TTGCT-TT
1 TTTTTCTT
63771 TTTTTCTT
1 TTTTTCTT
63779 TTT
1 TTT
63782 GCCCTTTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
7 16 0.37
8 11 0.26
9 16 0.37
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:63759 original size:10 final size:9
Alignment explanation
Indices: 63730--63781 Score: 50
Period size: 9 Copynumber: 5.3 Consensus size: 9
63720 TCCCTTTTTC
63730 TTTTTTCTT
1 TTTTTTCTT
*
63739 TTTGTTCTTT
1 TTTTTTC-TT
*
63749 TTTTGCTTTTT
1 TTTT--TTCTT
63760 TTTTTTGCTT
1 TTTTTT-CTT
63770 TTTTTTCTT
1 TTTTTTCTT
63779 TTT
1 TTT
63782 GCCCTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 14 0.40
10 13 0.37
11 6 0.17
12 2 0.06
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.85
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:63789 original size:31 final size:31
Alignment explanation
Indices: 63714--63790 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
63704 TTGCATGTGT
63714 TTTTTGTCCCTTTTTCTTTTTTCTTTTTGTTC
1 TTTTTG-CCCTTTTTCTTTTTTCTTTTTGTTC
*** *
63746 TTTTTTTGCTTTTT-TTTTTTGCTTTTTTTTC
1 TTTTTGCCCTTTTTCTTTTTT-CTTTTTGTTC
63777 TTTTTGCCCTTTTT
1 TTTTTGCCCTTTTT
63791 ATTCTGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 6 0.16
31 26 0.70
32 5 0.14
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (31 bp):
TTTTTGCCCTTTTTCTTTTTTCTTTTTGTTC
Found at i:63790 original size:18 final size:16
Alignment explanation
Indices: 63724--63783 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
63714 TTTTTGTCCC
*
63724 TTTTTCTTTTTTCTTT
1 TTTTTCTTTTTGCTTT
*
63740 TTGTTCTTTTT--TTGCT
1 TTTTTCTTTTTGCTT--T
63756 TTTTT-TTTTTGCTTT
1 TTTTTCTTTTTGCTTT
63771 TTTTTCTTTTTGC
1 TTTTTCTTTTTGC
63784 CCTTTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 2 0.05
15 11 0.30
16 22 0.59
17 2 0.05
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.82
Consensus pattern (16 bp):
TTTTTCTTTTTGCTTT
Found at i:64964 original size:8 final size:8
Alignment explanation
Indices: 64948--64993 Score: 60
Period size: 8 Copynumber: 6.0 Consensus size: 8
64938 ATTGTAGATG
64948 AAAATGCA
1 AAAATGCA
*
64956 AAAAGGCA
1 AAAATGCA
64964 AAAATGC-
1 AAAATGCA
64971 AAAATGC-
1 AAAATGCA
64978 AAAATGCA
1 AAAATGCA
*
64986 AGAATGCA
1 AAAATGCA
64994 TGAAATGTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
7 14 0.41
8 20 0.59
ACGTcount: A:0.59, C:0.13, G:0.17, T:0.11
Consensus pattern (8 bp):
AAAATGCA
Found at i:64969 original size:16 final size:15
Alignment explanation
Indices: 64948--64986 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
64938 ATTGTAGATG
64948 AAAATGCAAAAAGGC
1 AAAATGCAAAAAGGC
*
64963 AAAAATGC-AAAATGC
1 -AAAATGCAAAAAGGC
64978 AAAATGCAA
1 AAAATGCAA
64987 GAATGCATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 7 0.33
16 7 0.33
ACGTcount: A:0.62, C:0.13, G:0.15, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAAGGC
Found at i:64991 original size:15 final size:14
Alignment explanation
Indices: 64948--64993 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
64938 ATTGTAGATG
*
64948 AAAATGCAAAAAGGC
1 AAAATGC-AAAATGC
64963 AAAAATGCAAAATGC
1 -AAAATGCAAAATGC
64978 AAAATGCAAGAATGC
1 AAAATGCAA-AATGC
64993 A
1 A
64994 TGAAATGTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 9 0.32
15 12 0.43
16 7 0.25
ACGTcount: A:0.59, C:0.13, G:0.17, T:0.11
Consensus pattern (14 bp):
AAAATGCAAAATGC
Found at i:68124 original size:17 final size:18
Alignment explanation
Indices: 68091--68126 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
68081 ATATATACAT
*
68091 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
68109 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
68126 A
1 A
68127 AATATCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:68853 original size:105 final size:109
Alignment explanation
Indices: 68623--68854 Score: 242
Period size: 105 Copynumber: 2.1 Consensus size: 109
68613 GTTGAGTATA
* * *
68623 TTTTTACGTTTTGGTCACCTTTAGGGACCAAAATTATTATTTTTCCCTTTTCTTTGCATGTTATA
1 TTTTTAC-ATTTGGTCACCTGTAGGGACCAAAATTATTATTTTTCCCTTTTCTTTGCATATTATA
* * *
68688 TATTTCTTGGTAAATTCAGTATTTAGTCCTTCTAACTTTAGCATG
65 TATTTCTTGATAAATTCAGTATTTAGTCCCTATAACTTTAGCATG
* * * *
68733 TTTTTGCATTATGGTCACCTGTAGGGACC-AAATCTATTA-TTTTCTCTTTTTTTTGTATATTAT
1 TTTTTACATT-TGGTCACCTGTAGGGACCAAAAT-TATTATTTTTCCCTTTTCTTTGCATATTAT
* * * * * *
68796 -T-TTT-TTGAT-CATTTATTGTTTAGTCCCTATAAGTTTAGCGTG
64 ATATTTCTTGATAAATTCAGTATTTAGTCCCTATAACTTTAGCATG
68838 TTTTTACACTTTGGTCA
1 TTTTTACA-TTTGGTCA
68855 TATGTAGTGA
Statistics
Matches: 102, Mismatches: 17, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
105 38 0.37
106 6 0.06
107 3 0.03
108 1 0.01
109 26 0.25
110 28 0.27
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (109 bp):
TTTTTACATTTGGTCACCTGTAGGGACCAAAATTATTATTTTTCCCTTTTCTTTGCATATTATAT
ATTTCTTGATAAATTCAGTATTTAGTCCCTATAACTTTAGCATG
Found at i:73904 original size:21 final size:20
Alignment explanation
Indices: 73880--73918 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
73870 TTTGCCATTA
73880 CATTATGCATTTAGCACTTTT
1 CATTATGCATTT-GCACTTTT
*
73901 CATTTTGCATTTGCACTT
1 CATTATGCATTTGCACTT
73919 GCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.49
Consensus pattern (20 bp):
CATTATGCATTTGCACTTTT
Done.