Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005636.1 Hibiscus syriacus cultivar Beakdansim tig00013140_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: 174214
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:11337 original size:21 final size:21
Alignment explanation
Indices: 11313--11356 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
11303 TTATTTTAAA
**
11313 TTTTGGATTTTTTGGCTTTTT
1 TTTTGGATTTTTTACCTTTTT
* *
11334 TTTTTGTTTTTTTACCTTTTT
1 TTTTGGATTTTTTACCTTTTT
11355 TT
1 TT
11357 GCCTTTTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.07, G:0.11, T:0.77
Consensus pattern (21 bp):
TTTTGGATTTTTTACCTTTTT
Found at i:14538 original size:12 final size:12
Alignment explanation
Indices: 14521--14551 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14511 ATTTATCTTA
14521 ATTATTCCATTT
1 ATTATTCCATTT
14533 ATTATTCCATTT
1 ATTATTCCATTT
*
14545 ATAATTC
1 ATTATTC
14552 AAGGACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTCCATTT
Found at i:18794 original size:35 final size:36
Alignment explanation
Indices: 18747--18814 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 36
18737 ATTTAGAAGT
*
18747 TGGTGATAATATATGCGTGAT-ATGGTGATGGAATA
1 TGGTGATAATATAGGCGTGATAATGGTGATGGAATA
*
18782 TGGTGATGATATAGGCGTGATAATGGTGATGGA
1 TGGTGATAATATAGGCGTGATAATGGTGATGGA
18815 CAGATTGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 19 0.63
36 11 0.37
ACGTcount: A:0.29, C:0.03, G:0.35, T:0.32
Consensus pattern (36 bp):
TGGTGATAATATAGGCGTGATAATGGTGATGGAATA
Found at i:22197 original size:15 final size:16
Alignment explanation
Indices: 22146--22198 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
22136 AGATAGTGAA
22146 ATAAGAAAAGATGAAAG
1 ATAAGAAAA-ATGAAAG
*
22163 AATAA-AGAAATGAAATG
1 -ATAAGAAAAATGAAA-G
22180 ATAAGAAAAATG-AAG
1 ATAAGAAAAATGAAAG
22195 ATAA
1 ATAA
22199 CTTACAACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 5 0.16
16 12 0.39
17 10 0.32
18 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.19, T:0.15
Consensus pattern (16 bp):
ATAAGAAAAATGAAAG
Found at i:23775 original size:13 final size:11
Alignment explanation
Indices: 23734--23818 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
23724 ACAATCTGTC
23734 CATCACCATTAT
1 CATCACCA-TAT
*
23746 CA-CGCCTATAT
1 CATCACC-ATAT
23757 CATCACCATAGT
1 CATCACCATA-T
23769 CCATCACCATTAT
1 -CATCACCA-TAT
*
23782 CA-CGCCTATAT
1 CATCACC-ATAT
23793 CATCACCATATT
1 CATCACCATA-T
23805 CCATCACCATAT
1 -CATCACCATAT
23817 CA
1 CA
23819 CGCCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:23778 original size:36 final size:36
Alignment explanation
Indices: 23731--23835 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
23721 GATACAATCT
23731 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
23767 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
23803 TTCCATCACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
23836 ACTTATAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 21 0.31
36 46 0.69
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:24235 original size:23 final size:22
Alignment explanation
Indices: 24205--24250 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
24195 GTGCTACAAC
*
24205 AAAAAAAAGA-ACAAGAAAGAAG
1 AAAAAAAAGAGAAAAGAAA-AAG
24227 AAAACAAAAGAGAAAAGAAAAAG
1 AAAA-AAAAGAGAAAAGAAAAAG
24250 A
1 A
24251 CTCCTACATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 10 0.48
24 7 0.33
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAAAAAGAGAAAAGAAAAAG
Found at i:24306 original size:14 final size:15
Alignment explanation
Indices: 24272--24318 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
24262 AATTTGGAGT
24272 GCAAAAGAAAGAAAA
1 GCAAAAGAAAGAAAA
*
24287 GAAAAAG-AAGAAAA
1 GCAAAAGAAAGAAAA
*
24301 TCAAAAGCAAAAGAAAA
1 GCAAAAG--AAAGAAAA
24318 G
1 G
24319 TGAAGCAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.48
15 6 0.24
17 7 0.28
ACGTcount: A:0.72, C:0.06, G:0.19, T:0.02
Consensus pattern (15 bp):
GCAAAAGAAAGAAAA
Found at i:28248 original size:13 final size:11
Alignment explanation
Indices: 28207--28291 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
28197 ACAATCTGTC
28207 CATCACCATTAT
1 CATCACCA-TAT
*
28219 CA-CGCCTATAT
1 CATCACC-ATAT
28230 CATCACCATAGT
1 CATCACCATA-T
28242 CCATCACCATTAT
1 -CATCACCA-TAT
*
28255 CA-CGCCTATAT
1 CATCACC-ATAT
28266 CATCACCATATT
1 CATCACCATA-T
28278 CCATCACCATAT
1 -CATCACCATAT
28290 CA
1 CA
28292 CGCCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:28251 original size:36 final size:36
Alignment explanation
Indices: 28204--28308 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
28194 GATACAATCT
28204 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
28240 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
28276 TTCCATCACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
28309 ACTTATAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 21 0.31
36 46 0.69
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:34176 original size:16 final size:15
Alignment explanation
Indices: 34155--34186 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
34145 TGCAAAGATG
34155 CTTGTCTCCACTTAGC
1 CTTGTCTCCAC-TAGC
34171 CTTGTCTCCACTAGC
1 CTTGTCTCCACTAGC
34186 C
1 C
34187 ATCACTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.12, C:0.41, G:0.12, T:0.34
Consensus pattern (15 bp):
CTTGTCTCCACTAGC
Found at i:36694 original size:11 final size:10
Alignment explanation
Indices: 36672--36732 Score: 61
Period size: 10 Copynumber: 5.8 Consensus size: 10
36662 CTATTTTTTT
36672 ACAAACAAAAA
1 ACAAA-AAAAA
36683 ACAAAAACAAA
1 ACAAAAA-AAA
*
36694 AC-AAAAAAG
1 ACAAAAAAAA
*
36703 GCAAAAAAAA
1 ACAAAAAAAA
36713 CACACAAAAAAA
1 -ACA-AAAAAAA
36725 ACAAAAAA
1 ACAAAAAA
36733 GCTAAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
9 3 0.07
10 17 0.40
11 15 0.36
12 7 0.17
ACGTcount: A:0.80, C:0.16, G:0.03, T:0.00
Consensus pattern (10 bp):
ACAAAAAAAA
Found at i:36719 original size:22 final size:23
Alignment explanation
Indices: 36672--36732 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
36662 CTATTTTTTT
* *
36672 ACAAACAAAA-AACAAAAACAAA
1 ACAAAAAAAACAAAAAAAACAAA
** *
36694 ACAAAAAAGGCAAAAAAAAC-AC
1 ACAAAAAAAACAAAAAAAACAAA
36716 ACAAAAAAAACAAAAAA
1 ACAAAAAAAACAAAAAA
36733 GCTAAAATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
22 23 0.74
23 8 0.26
ACGTcount: A:0.80, C:0.16, G:0.03, T:0.00
Consensus pattern (23 bp):
ACAAAAAAAACAAAAAAAACAAA
Found at i:36729 original size:31 final size:31
Alignment explanation
Indices: 36673--36733 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
36663 TATTTTTTTA
36673 CAAACAAAAAACAAAAACAAAACAAAAAAGG
1 CAAACAAAAAACAAAAACAAAACAAAAAAGG
36704 CAAA-AAAAACACACAAAA-AAAACAAAAAAG
1 CAAACAAAAA-ACA-AAAACAAAACAAAAAAG
36734 CTAAAATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 5 0.18
31 19 0.68
32 4 0.14
ACGTcount: A:0.79, C:0.16, G:0.05, T:0.00
Consensus pattern (31 bp):
CAAACAAAAAACAAAAACAAAACAAAAAAGG
Found at i:42773 original size:22 final size:20
Alignment explanation
Indices: 42748--42787 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
42738 ATGTTTGTTT
42748 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
42770 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
42788 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:43017 original size:15 final size:15
Alignment explanation
Indices: 42997--43032 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
42987 ACTAATATTC
42997 TTATAATAAAATATA
1 TTATAATAAAATATA
**
43012 TTATAATAGCATATA
1 TTATAATAAAATATA
43027 TTATAA
1 TTATAA
43033 AGCTAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (15 bp):
TTATAATAAAATATA
Found at i:51350 original size:11 final size:11
Alignment explanation
Indices: 51334--51358 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
51324 TTTTTTTTCT
51334 TTCACTTGCAC
1 TTCACTTGCAC
51345 TTCACTTGCAC
1 TTCACTTGCAC
51356 TTC
1 TTC
51359 TTTTTGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (11 bp):
TTCACTTGCAC
Found at i:52681 original size:22 final size:20
Alignment explanation
Indices: 52656--52696 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
52646 ATGTTTGTTT
52656 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
52678 ATGGTCATGAGCTAAGTAT
1 ATGGTAATGAGCTAAGTAT
52697 ATCATCTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
22 7 0.39
ACGTcount: A:0.32, C:0.07, G:0.32, T:0.29
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:52925 original size:15 final size:15
Alignment explanation
Indices: 52905--52940 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
52895 ACTAATATTC
52905 TTATAATAAAATATA
1 TTATAATAAAATATA
**
52920 TTATAATAGCATATA
1 TTATAATAAAATATA
52935 TTATAA
1 TTATAA
52941 AGCTAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (15 bp):
TTATAATAAAATATA
Found at i:55281 original size:69 final size:68
Alignment explanation
Indices: 55170--55302 Score: 221
Period size: 69 Copynumber: 1.9 Consensus size: 68
55160 ACTGTTTGTG
**
55170 AGCTGTATATGTCTTCCAAATGCTCCACCAAGTTGTCCCAACGTGTGTCATGCTCCAATGTACCT
1 AGCTGTATATGTCTTCCAAATGCTCCACCAAGTCATCCCAACGTGTGTCATGCT-CAATGTACCT
55235 TAAC
65 TAAC
* *
55239 AGCTGTATATGTCTTCTAAATGCTCCACTAAGTCATCCCAACGTGTGTCATGCTCAATGTACCT
1 AGCTGTATATGTCTTCCAAATGCTCCACCAAGTCATCCCAACGTGTGTCATGCTCAATGTACCT
55303 ATATGTGCAA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
68 10 0.17
69 50 0.83
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.32
Consensus pattern (68 bp):
AGCTGTATATGTCTTCCAAATGCTCCACCAAGTCATCCCAACGTGTGTCATGCTCAATGTACCTT
AAC
Found at i:60554 original size:35 final size:37
Alignment explanation
Indices: 60485--60564 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
60475 ATACTATTTC
* *
60485 CATCACCATAATCCATCTTCCATTATCACGCCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
*
60522 CATCACCATAGTCCATC-ACCA-TATCACACCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
60557 CATCACCA
1 CATCACCA
60565 AATTCTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 21 0.52
36 3 0.08
37 16 0.40
ACGTcount: A:0.33, C:0.38, G:0.03, T:0.28
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCATTATCACACCTATAT
Found at i:60558 original size:11 final size:11
Alignment explanation
Indices: 60518--60564 Score: 60
Period size: 11 Copynumber: 4.1 Consensus size: 11
60508 TATCACGCCT
60518 ATATCATCACC
1 ATATCATCACC
60529 ATAGTCCATCACC
1 ATA-T-CATCACC
60542 ATATCA-CACC
1 ATATCATCACC
60552 TATATCATCACC
1 -ATATCATCACC
60564 A
1 A
60565 AATTCTCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 4 0.12
11 12 0.38
12 6 0.19
13 10 0.31
ACGTcount: A:0.36, C:0.36, G:0.02, T:0.26
Consensus pattern (11 bp):
ATATCATCACC
Found at i:60562 original size:22 final size:24
Alignment explanation
Indices: 60518--60564 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
60508 TATCACGCCT
60518 ATATCATCACCATAGTCCATCACC
1 ATATCATCACCATAGTCCATCACC
60542 ATATCA-CACCTATA-T-CATCACC
1 ATATCATCACC-ATAGTCCATCACC
60564 A
1 A
60565 AATTCTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 5 0.23
24 9 0.41
ACGTcount: A:0.36, C:0.36, G:0.02, T:0.26
Consensus pattern (24 bp):
ATATCATCACCATAGTCCATCACC
Found at i:63138 original size:69 final size:68
Alignment explanation
Indices: 63020--63150 Score: 208
Period size: 69 Copynumber: 1.9 Consensus size: 68
63010 TGTTTGTGAG
*
63020 CTGTATATGTCTTCCAAATGCTCCACCAAGCTGTCCCAACGTGTGTCATGCTCCAATGTACCTTA
1 CTGTATATGTCTTCCAAATGATCCACCAAGCTGTCCCAACGTGTGTCATGCT-CAATGTACCTTA
63085 ACAA
65 ACAA
* * * *
63089 CTGTATATGTCTTCTAAATGATCCACTAAGCTGTCCCAACGTTTTTCATGCTCAATGTACCT
1 CTGTATATGTCTTCCAAATGATCCACCAAGCTGTCCCAACGTGTGTCATGCTCAATGTACCT
63151 ACATGTGCAA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
68 10 0.18
69 47 0.82
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (68 bp):
CTGTATATGTCTTCCAAATGATCCACCAAGCTGTCCCAACGTGTGTCATGCTCAATGTACCTTAA
CAA
Found at i:64844 original size:19 final size:20
Alignment explanation
Indices: 64820--64861 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
64810 GCAATTATCA
64820 TCATT-AAAATCATGTATTT
1 TCATTAAAAATCATGTATTT
64839 TCATTAAAAATCATGTATTT
1 TCATTAAAAATCATGTATTT
64859 TCA
1 TCA
64862 AAGGGGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (20 bp):
TCATTAAAAATCATGTATTT
Found at i:66437 original size:17 final size:17
Alignment explanation
Indices: 66397--66438 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
66387 AAGTATGTTG
*
66397 TTCATTAAAGCATGCAT
1 TTCATTTAAGCATGCAT
*
66414 TTCATTTAAGCATGTAT
1 TTCATTTAAGCATGCAT
66431 TTCATTTA
1 TTCATTTA
66439 GGGAAGTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (17 bp):
TTCATTTAAGCATGCAT
Found at i:66973 original size:29 final size:29
Alignment explanation
Indices: 66934--66992 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
66924 TCTTAATGCT
*
66934 TCTATTCAAAGCAATTCAAGGATGAATTC
1 TCTATTCAAAGCAATTAAAGGATGAATTC
66963 TCTATTCAAAGCAATTAAAGGATGAATTC
1 TCTATTCAAAGCAATTAAAGGATGAATTC
66992 T
1 T
66993 TTTCATCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (29 bp):
TCTATTCAAAGCAATTAAAGGATGAATTC
Found at i:68448 original size:6 final size:6
Alignment explanation
Indices: 68439--68491 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
68429 GTAATGGAAA
* * *
68439 GGTGAT GGTGTT GGTGTGAA GGTGAT GGAGAT GGTGAT GGTGAT GGTGAT
1 GGTGAT GGTGAT -G-GTGAT GGTGAT GGTGAT GGTGAT GGTGAT GGTGAT
68489 GGT
1 GGT
68492 TAAGGATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 34 0.87
7 2 0.05
8 3 0.08
ACGTcount: A:0.17, C:0.00, G:0.51, T:0.32
Consensus pattern (6 bp):
GGTGAT
Found at i:68480 original size:18 final size:18
Alignment explanation
Indices: 68454--68496 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
68444 TGGTGTTGGT
68454 GTGAAGGTGATGGAGATG
1 GTGAAGGTGATGGAGATG
* *
68472 GTGATGGTGATGGTGATG
1 GTGAAGGTGATGGAGATG
*
68490 GTTAAGG
1 GTGAAGG
68497 ATAATATCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.49, T:0.28
Consensus pattern (18 bp):
GTGAAGGTGATGGAGATG
Found at i:70485 original size:90 final size:91
Alignment explanation
Indices: 70369--70550 Score: 285
Period size: 90 Copynumber: 2.0 Consensus size: 91
70359 AGGAAATGAT
*
70369 GCTTGGCCGAATAGGGAGAGAGCTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACAT-
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
*
70433 GGGGCTGTTCACATGCAAAACACATG
66 GGGGCTGGTCACATGCAAAACACATG
* * *
70459 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATGATCCTCATGCAAGGCACATG
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
* **
70524 GGGGCTGGTCATATGCAAGGCACATG
66 GGGGCTGGTCACATGCAAAACACATG
70550 G
1 G
70551 GTGTTCTAGG
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 60 0.72
91 23 0.28
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (91 bp):
GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
GGGGCTGGTCACATGCAAAACACATG
Found at i:72784 original size:33 final size:33
Alignment explanation
Indices: 72720--72820 Score: 82
Period size: 33 Copynumber: 3.0 Consensus size: 33
72710 CTTGTTGATG
* * *
72720 AATG-AAGGATGAT-TTAATGGTGATGAAATGGT
1 AATGAAAGGATGATGTTATTGGCG-TGATATGGT
72752 AATGAAAGGATGATGTTATTGGCGTGATATGGT
1 AATGAAAGGATGATGTTATTGGCGTGATATGGT
* * *
72785 GATGGAATATGG-TGATGATATAGGCGTGATAATGGT
1 AAT-GAA-A-GGATGATGTTATTGGCGTGAT-ATGGT
72821 GATGGACAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
32 4 0.07
33 19 0.33
34 10 0.18
35 17 0.30
36 7 0.12
ACGTcount: A:0.33, C:0.02, G:0.34, T:0.32
Consensus pattern (33 bp):
AATGAAAGGATGATGTTATTGGCGTGATATGGT
Found at i:76718 original size:33 final size:33
Alignment explanation
Indices: 76654--76754 Score: 82
Period size: 33 Copynumber: 3.0 Consensus size: 33
76644 CTTGTTGATG
* * *
76654 AATG-AAGGATGAT-TTAATGGTGATGAAATGGT
1 AATGAAAGGATGATGTTATTGGCG-TGATATGGT
76686 AATGAAAGGATGATGTTATTGGCGTGATATGGT
1 AATGAAAGGATGATGTTATTGGCGTGATATGGT
* * *
76719 GATGGAATATGG-TGATGATATAGGCGTGATAATGGT
1 AAT-GAA-A-GGATGATGTTATTGGCGTGAT-ATGGT
76755 GATGGACAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
32 4 0.07
33 19 0.33
34 10 0.18
35 17 0.30
36 7 0.12
ACGTcount: A:0.33, C:0.02, G:0.34, T:0.32
Consensus pattern (33 bp):
AATGAAAGGATGATGTTATTGGCGTGATATGGT
Found at i:78488 original size:14 final size:15
Alignment explanation
Indices: 78454--78500 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
78444 AATTTGGAGT
78454 GCAAAAGAAAGAAAA
1 GCAAAAGAAAGAAAA
*
78469 GAAAAAG-AAGAAAA
1 GCAAAAGAAAGAAAA
*
78483 TCAAAAGCAAAAGAAAA
1 GCAAAAG--AAAGAAAA
78500 G
1 G
78501 TGAAACAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.48
15 6 0.24
17 7 0.28
ACGTcount: A:0.72, C:0.06, G:0.19, T:0.02
Consensus pattern (15 bp):
GCAAAAGAAAGAAAA
Found at i:82452 original size:35 final size:37
Alignment explanation
Indices: 82383--82462 Score: 110
Period size: 35 Copynumber: 2.2 Consensus size: 37
82373 ATACTATTTC
* *
82383 CATCACCATAATCCATCTTCCATTATCACGCCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
* *
82420 CATCATCATAGTCCATC-ACCA-TATCACACCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
82455 CATCACCA
1 CATCACCA
82463 AATTCTCAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
35 20 0.53
36 3 0.08
37 15 0.39
ACGTcount: A:0.33, C:0.36, G:0.03, T:0.29
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCATTATCACACCTATAT
Found at i:82456 original size:11 final size:11
Alignment explanation
Indices: 82416--82462 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
82406 TATCACGCCT
*
82416 ATATCATCATC
1 ATATCATCACC
82427 ATAGTCCATCACC
1 ATA-T-CATCACC
82440 ATATCA-CACC
1 ATATCATCACC
82450 TATATCATCACC
1 -ATATCATCACC
82462 A
1 A
82463 AATTCTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
10 4 0.13
11 12 0.39
12 6 0.19
13 9 0.29
ACGTcount: A:0.36, C:0.34, G:0.02, T:0.28
Consensus pattern (11 bp):
ATATCATCACC
Found at i:87551 original size:8 final size:8
Alignment explanation
Indices: 87540--87601 Score: 58
Period size: 8 Copynumber: 7.9 Consensus size: 8
87530 TCTTTTTCTT
87540 TTCTTTTC
1 TTCTTTTC
87548 TTCTTTTC
1 TTCTTTTC
87556 TTCTTTTC
1 TTCTTTTC
**
87564 TGATTTT-
1 TTCTTTTC
*
87571 TT-TTATC
1 TTCTTTTC
87578 TTCTTTT-
1 TTCTTTTC
87585 TATCTTTTC
1 T-TCTTTTC
87594 TTTCTTTT
1 -TTCTTTT
87602 TGCACTCCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
6 3 0.07
7 4 0.09
8 30 0.68
9 6 0.14
10 1 0.02
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.76
Consensus pattern (8 bp):
TTCTTTTC
Found at i:87564 original size:13 final size:12
Alignment explanation
Indices: 87527--87596 Score: 61
Period size: 13 Copynumber: 5.5 Consensus size: 12
87517 CTTTTTGAAC
87527 TTCTCTTTTTCTT
1 TTCT-TTTTTCTT
87540 TTCTTTTCTTCTT
1 TTCTTTT-TTCTT
*
87553 TTCTTCTTTTCTGA
1 TTCTT-TTTTCT-T
* *
87567 TT-TTTTTTATC
1 TTCTTTTTTCTT
87578 TTCTTTTTATCTT
1 TTCTTTTT-TCTT
87591 TTCTTT
1 TTCTTT
87597 CTTTTTGCAC
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
11 2 0.04
12 13 0.28
13 28 0.60
14 4 0.09
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (12 bp):
TTCTTTTTTCTT
Found at i:87582 original size:30 final size:29
Alignment explanation
Indices: 87538--87594 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
87528 TCTCTTTTTC
87538 TTTTCTTTTCTTCTTTTCT-TCTTTTCTGA
1 TTTTCTTTTCTTCTTTT-TATCTTTTCTGA
*
87567 TTTTTTTTATCTTCTTTTTATCTTTTCT
1 TTTTCTTT-TCTTCTTTTTATCTTTTCT
87595 TTCTTTTTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (29 bp):
TTTTCTTTTCTTCTTTTTATCTTTTCTGA
Found at i:87602 original size:30 final size:29
Alignment explanation
Indices: 87526--87602 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 29
87516 TCTTTTTGAA
*
87526 CTTCTCTT-TTTCTTTTCTTTTCTTCTTTT
1 CTTCTTTTCTTTCTTTT-TTTTCTTCTTTT
*
87555 CTTCTTTTCTGATT-TTTTTTATCTTCTTTT
1 CTTCTTTTCT--TTCTTTTTTTTCTTCTTTT
87585 -TATCTTTTCTTTCTTTTT
1 CT-TCTTTTCTTTCTTTTT
87603 GCACTCCAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
28 2 0.05
29 13 0.32
30 20 0.49
31 4 0.10
32 2 0.05
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.75
Consensus pattern (29 bp):
CTTCTTTTCTTTCTTTTTTTTCTTCTTTT
Found at i:88489 original size:6 final size:6
Alignment explanation
Indices: 88480--88539 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
88470 AAAAGAAAAA
* * * *
88480 AAATAT AAATAT AAATAT ATATAT ATATAT ATATAT ATATAT CAAAGTAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT -AAA-TAT
*
88530 TAATA- AAATA
1 AAATAT AAATA
88540 AATAAGCTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
5 4 0.08
6 37 0.77
7 4 0.08
8 3 0.06
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (6 bp):
AAATAT
Found at i:88499 original size:2 final size:2
Alignment explanation
Indices: 88482--88521 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
88472 AAGAAAAAAA
* *
88482 AT AT AA AT AT AA 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
88522 CAAAGTATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:89497 original size:37 final size:36
Alignment explanation
Indices: 89454--89555 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 36
89444 ATAGTAGAAA
89454 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT
*
89491 TTTATCCTATTTTTAGGAGTTTGAATCCT--AAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
*
89525 TCTATCCTATTTTTTGGAGTTTGAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
89556 TAGGACGACA
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
34 32 0.53
37 28 0.47
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (36 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
Found at i:90410 original size:105 final size:105
Alignment explanation
Indices: 90103--90934 Score: 1296
Period size: 105 Copynumber: 8.0 Consensus size: 105
90093 CATTGTTTCA
* * * ** * * *
90103 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * * * *
90168 CAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
90209 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
90269 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
90309 AGTCCAATATCCTTCGTTGTGATGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
90374 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
90414 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* * * *
90479 AGCGGTCCCTTCGTCGTGAAATTGAACTTGCATTATCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
90519 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
90584 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
90624 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* *
90689 AGCGGTCCCTTCGTCGTGAGGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
90729 AGTCCAATATCATTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
90794 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
90834 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
** * *
90899 CAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
90935 CCTCGAGTGC
Statistics
Matches: 677, Mismatches: 43, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
100 82 0.12
101 1 0.00
102 4 0.01
103 4 0.01
104 3 0.00
105 507 0.75
106 76 0.11
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:91711 original size:67 final size:67
Alignment explanation
Indices: 91564--91898 Score: 238
Period size: 65 Copynumber: 4.9 Consensus size: 67
91554 GGAAACGATC
* * * *
91564 TCAAAGATATCTGTTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAAGGAAA
1 TCAAAGAT-TTTG-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT-TGTTTTAAAGGAAA
91629 TAAAT
63 TAAAT
** * **
91634 TTGAAGATTTTGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAAGGAAATAA
91699 AT
66 AT
* ** *
91701 TCAAAGATTTT-T-TTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-TTG-TTTCAAGAGAAAC
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAAATTTGTTTTAAAG-GAAA-
*
91762 T--GT
63 TAAAT
** * * * *
91765 CTCAAGAGAGACAAAACTT-AGTTACAAAAGAAACTGTCTCAAGGGAGACAGAATTTGTTTTAAA
1 -TC-A-A-AG----ATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAA
* * *
91829 GAAAACATAT
58 GGAAATAAAT
* * * *
91839 TCAAATA-TTT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAAGGAAA
91899 CTGTCTCAAG
Statistics
Matches: 207, Mismatches: 42, Indels: 37
0.72 0.15 0.13
Matches are distributed among these distances:
64 5 0.02
65 77 0.37
66 8 0.04
67 27 0.13
68 34 0.16
69 3 0.01
70 7 0.03
71 1 0.00
72 7 0.03
73 31 0.15
74 7 0.03
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (67 bp):
TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAAGGAAATAA
AT
Found at i:91761 original size:36 final size:35
Alignment explanation
Indices: 91713--91918 Score: 185
Period size: 36 Copynumber: 5.9 Consensus size: 35
91703 AAAGATTTTT
* *
91713 TTTCAAGGGAAACTGTCTCAAGATAGACGAAAATTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAATTG
91749 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT-G
* * * *
91786 TTACAAAAGAAACTGTCTCAAGGGAGACAGAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACA-AAATTG
* * * **
91822 TTTTAA-AGAAAACATAT-TC---A-A-A-TATTTTG
1 TTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATTG
91851 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTG
*
91887 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
91919 CTCTTCTAGT
Statistics
Matches: 138, Mismatches: 18, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
28 2 0.01
29 16 0.12
30 2 0.01
31 1 0.01
32 2 0.01
33 1 0.01
34 1 0.01
35 7 0.05
36 73 0.53
37 31 0.22
38 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (35 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTG
Found at i:91813 original size:138 final size:138
Alignment explanation
Indices: 91658--91920 Score: 411
Period size: 138 Copynumber: 1.9 Consensus size: 138
91648 TTTCAAGAGT
** * * * *
91658 AACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTTTTTCAAGGGA
1 AACTGTCTCAAGGGAGACAAAATTTGTTTTAAAGAAAACAAATTCAAAGATTTTGTTTCAAGAGA
*
91723 AACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGT
66 AACTGTCTCAAGAGAGAC-AAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGT
91787 TACAAAAGA
130 TACAAAAGA
* * *
91796 AACTGTCTCAAGGGAGACAGAATTTGTTTTAAAGAAAACATATTCAAATATTTTGTTTCAAGAGA
1 AACTGTCTCAAGGGAGACAAAATTTGTTTTAAAGAAAACAAATTCAAAGATTTTGTTTCAAGAGA
*
91861 AACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
66 AACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
91921 CTTCTAGTGA
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
137 4 0.04
138 109 0.96
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (138 bp):
AACTGTCTCAAGGGAGACAAAATTTGTTTTAAAGAAAACAAATTCAAAGATTTTGTTTCAAGAGA
AACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTT
ACAAAAGA
Found at i:91940 original size:35 final size:36
Alignment explanation
Indices: 91852--91952 Score: 109
Period size: 36 Copynumber: 2.8 Consensus size: 36
91842 AATATTTTGT
* *
91852 TTCAA-GAGAAACTGTCTCAAGAGAGACAAAATTTGT
1 TTCAAGGA-AAACTGTCTCAAGAGAGACAAAATCTGC
*
91888 TTCAAGGGAAACTGTCTCAAGAGAGACAAAA-CT-C
1 TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTGC
* * *
91922 TTCTAGTGAAAACGGTCTCAAGCGAGACAAA
1 TTCAAG-GAAAACTGTCTCAAGAGAGACAAA
91953 TCTTGTTTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
34 5 0.09
35 22 0.39
36 28 0.50
37 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (36 bp):
TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTGC
Found at i:91968 original size:35 final size:35
Alignment explanation
Indices: 91848--91968 Score: 113
Period size: 35 Copynumber: 3.4 Consensus size: 35
91838 TTCAAATATT
91848 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT-
1 TTGTTTCAAGA-AAACTGTCTCAAGAGAGAC-AAATC
* *
91884 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAC
1 TTGTTTCAA-GAAAACTGTCTCAAGAGAGACAAATC
* * * *
91920 -T-CTTCTAGTGAAAACGGTCTCAAGCGAGACAAATC
1 TTGTTTC-A-AGAAAACTGTCTCAAGAGAGACAAATC
*
91955 TTGTTTTAAGAAAA
1 TTGTTTCAAGAAAA
91969 ACAATCATGA
Statistics
Matches: 68, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
34 3 0.04
35 32 0.47
36 30 0.44
37 3 0.04
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (35 bp):
TTGTTTCAAGAAAACTGTCTCAAGAGAGACAAATC
Found at i:92871 original size:22 final size:22
Alignment explanation
Indices: 92845--92893 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
92835 TTGTGTTTGG
*
92845 TCAAAGGTTTGACATTTGATGC
1 TCAAAGGTTTGACATTGGATGC
92867 TCAAAGGTTTGACATTGGATGC
1 TCAAAGGTTTGACATTGGATGC
92889 TCAAA
1 TCAAA
92894 AGATTGATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (22 bp):
TCAAAGGTTTGACATTGGATGC
Found at i:92900 original size:22 final size:22
Alignment explanation
Indices: 92853--92900 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
92843 GGTCAAAGGT
* * *
92853 TTGACATTTGATGCTCAAAGGT
1 TTGACATTGGATGCTCAAAAGA
92875 TTGACATTGGATGCTCAAAAGA
1 TTGACATTGGATGCTCAAAAGA
92897 TTGA
1 TTGA
92901 TGGGATAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.33
Consensus pattern (22 bp):
TTGACATTGGATGCTCAAAAGA
Found at i:96599 original size:9 final size:9
Alignment explanation
Indices: 96585--96617 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
96575 TACAAGGGAA
96585 AAATAAAAT
1 AAATAAAAT
96594 AAATAAAAT
1 AAATAAAAT
96603 AAATAAAAT
1 AAATAAAAT
96612 AAATAA
1 AAATAA
96618 GTAAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAATAAAAT
Found at i:96678 original size:2 final size:2
Alignment explanation
Indices: 96673--96712 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
96663 AAAAAAGAAA
96673 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
96713 CAAAGTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96935 original size:21 final size:20
Alignment explanation
Indices: 96909--96965 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
96899 TTTTTAAAGA
96909 AAATAATAATATAATAATAAT
1 AAATAATAATATAA-AATAAT
* * *
96930 AAATAAAAAAACGAAAATAAT
1 AAATAATAATA-TAAAATAAT
*
96951 AAAAAATAATATAAA
1 AAATAATAATATAAA
96966 GTTATAAAGT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
20 3 0.11
21 23 0.82
22 2 0.07
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (20 bp):
AAATAATAATATAAAATAAT
Found at i:97159 original size:2 final size:2
Alignment explanation
Indices: 97152--97180 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
97142 TATTAAAGAA
97152 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
97181 ATAATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:97186 original size:3 final size:3
Alignment explanation
Indices: 97178--97281 Score: 53
Period size: 3 Copynumber: 35.3 Consensus size: 3
97168 ATATATATAT
* *
97178 ATA ATA ATA ATA ATA ATA ATA ATA A-A AT- ATA GTA A-A AAA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* *
97221 ATGA A-A ATA AT- TTA AT- ATA TATA TATA CAT- ATA ATA ATA ATA A-C
1 AT-A ATA ATA ATA ATA ATA ATA -ATA -ATA -ATA ATA ATA ATA ATA ATA
*
97265 ATGA ATA ATA AAA ATA A
1 AT-A ATA ATA ATA ATA A
97282 ATGAATAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 22
0.71 0.10 0.20
Matches are distributed among these distances:
2 14 0.18
3 49 0.62
4 16 0.20
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:97714 original size:37 final size:38
Alignment explanation
Indices: 97671--97773 Score: 169
Period size: 35 Copynumber: 2.8 Consensus size: 38
97661 ATAGTAGAAC
97671 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATT
*
97709 T-TATCCTATTTTTAGGAGTTTGAAT-C-A-TAAAATT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATT
97743 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
97774 TAGGACGAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
34 7 0.12
35 25 0.42
36 2 0.03
37 25 0.42
38 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (38 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATT
Found at i:104573 original size:27 final size:27
Alignment explanation
Indices: 104543--104606 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
104533 TTTCAACACA
104543 CTCATCTTCATTCTCAATGCTCTTACT
1 CTCATCTTCATTCTCAATGCTCTTACT
104570 CTCATCTTCATTCTCAATGCTCTTACT
1 CTCATCTTCATTCTCAATGCTCTTACT
104597 CTCATCTTCA
1 CTCATCTTCA
104607 ATTACTCGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.19, C:0.34, G:0.03, T:0.44
Consensus pattern (27 bp):
CTCATCTTCATTCTCAATGCTCTTACT
Found at i:108786 original size:22 final size:20
Alignment explanation
Indices: 108746--108792 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
108736 TGTAGGAGTC
108746 TTTTTCTTTTCTTTATGTTT
1 TTTTTCTTTTCTTTATGTTT
108766 TTTTTCTTCTTTCTTGT-TGTTT
1 TTTTTC-T-TTTCTT-TATGTTT
108788 TTTTT
1 TTTTT
108793 GTTGTAGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.25
21 1 0.04
22 16 0.67
23 1 0.04
ACGTcount: A:0.02, C:0.11, G:0.06, T:0.81
Consensus pattern (20 bp):
TTTTTCTTTTCTTTATGTTT
Found at i:109210 original size:36 final size:36
Alignment explanation
Indices: 109169--109317 Score: 199
Period size: 36 Copynumber: 4.1 Consensus size: 36
109159 ATTTATAAGT
* * * *
109169 TGGTGATAATATGGGCGTGATAATGGTGGTGGAATA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
* *
109205 TGGTGACGATATAGGCGTGATAATGGAGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
* * *
109241 TGGTGATGATAAAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
* *
109277 TGGTGATGATATAGGCATGATAATGGAGATGGAAGA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
109313 TGGTG
1 TGGTG
109318 TTGGACAGAT
Statistics
Matches: 99, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 99 1.00
ACGTcount: A:0.30, C:0.05, G:0.38, T:0.28
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
Found at i:111882 original size:14 final size:13
Alignment explanation
Indices: 111865--111914 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
111855 GTGCAAAAAG
111865 AAAGAAAAAGACAA
1 AAAGAAAAAGA-AA
*
111879 AAAGAAGAAGAAA
1 AAAGAAAAAGAAA
111892 AGAAG-AAAAG--A
1 A-AAGAAAAAGAAA
111903 AAAGAAAAAGAA
1 AAAGAAAAAGAA
111915 TTCAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
13 7 0.23
14 13 0.43
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:111911 original size:19 final size:18
Alignment explanation
Indices: 111859--111914 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
111849 ATTGGAGTGC
111859 AAAAAG-AAAGAAAAAGA
1 AAAAAGAAAAGAAAAAGA
111876 CAAAAAGAAGAAG-AAAAGA
1 -AAAAAGAA-AAGAAAAAGA
111895 AGAAAAGAAAAGAAAAAGA
1 A-AAAAGAAAAGAAAAAGA
111914 A
1 A
111915 TTCAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 10 0.29
19 21 0.62
20 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAAGA
Found at i:115866 original size:33 final size:33
Alignment explanation
Indices: 115787--115866 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 33
115777 ATACAATCTG
* *
115787 TCCATCACCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCA-TATCACGCCAATAACATCACC--AT
115823 TCCATCACCATATCACGCCAATAACATCATCC-T
1 TCCATCACCATATCACGCCAATAACATCA-CCAT
*
115856 TCCATTACCAT
1 TCCATCACCAT
115867 TTCATCACCA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
33 11 0.28
35 17 0.43
36 12 0.30
ACGTcount: A:0.31, C:0.38, G:0.03, T:0.29
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCACCAT
Found at i:119688 original size:24 final size:21
Alignment explanation
Indices: 119654--119696 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
119644 TGCACAAGAT
*
119654 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
119676 ATGTACCTATTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
119697 AGAATGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:125029 original size:15 final size:16
Alignment explanation
Indices: 125002--125038 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
124992 CTTTATTATC
125002 TTATTTCATCTTTCGT
1 TTATTTCATCTTTCGT
*
125018 TTATTT-ATCTTTTGT
1 TTATTTCATCTTTCGT
125033 TTATTT
1 TTATTT
125039 TATTCTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (16 bp):
TTATTTCATCTTTCGT
Found at i:125402 original size:8 final size:8
Alignment explanation
Indices: 125389--125452 Score: 78
Period size: 8 Copynumber: 8.0 Consensus size: 8
125379 TATTTTTTTT
125389 CAAAAAAA
1 CAAAAAAA
125397 CAAAAAAA
1 CAAAAAAA
125405 C-AAAAAA
1 CAAAAAAA
125412 CAAAAAAA
1 CAAAAAAA
125420 GGCAAAAAAA
1 --CAAAAAAA
**
125430 -AAAAAGG
1 CAAAAAAA
125437 CAAAAAAA
1 CAAAAAAA
125445 CAAAAAAA
1 CAAAAAAA
125453 GAGCCAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
7 12 0.25
8 28 0.58
10 8 0.17
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:125411 original size:15 final size:15
Alignment explanation
Indices: 125391--125452 Score: 72
Period size: 15 Copynumber: 3.9 Consensus size: 15
125381 TTTTTTTTCA
125391 AAAAAACAAAAAAAC
1 AAAAAACAAAAAAAC
125406 AAAAAACAAAAAAAGGC
1 AAAAAACAAAAAAA--C
*
125423 AAAAAA-AAAAAAGGC
1 AAAAAACAAAAAA-AC
125438 AAAAAAACAAAAAAA
1 -AAAAAACAAAAAAA
125453 GAGCCAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 15 0.38
16 12 0.30
17 13 0.32
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAAAAAC
Found at i:125443 original size:33 final size:34
Alignment explanation
Indices: 125389--125463 Score: 100
Period size: 33 Copynumber: 2.2 Consensus size: 34
125379 TATTTTTTTT
125389 CAAAAAAACAAAAAAACAAAAAACAAAAAAAG-G
1 CAAAAAAACAAAAAAACAAAAAACAAAAAAAGAG
**
125422 CAAAAAAA-AAAAAGGCAAAAAAACAAAAAAAGAG
1 CAAAAAAACAAAAAAAC-AAAAAACAAAAAAAGAG
*
125456 CCAAAAAA
1 CAAAAAAA
125464 GCCAAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 6 0.16
33 23 0.62
34 8 0.22
ACGTcount: A:0.80, C:0.12, G:0.08, T:0.00
Consensus pattern (34 bp):
CAAAAAAACAAAAAAACAAAAAACAAAAAAAGAG
Found at i:125470 original size:20 final size:20
Alignment explanation
Indices: 125426--125463 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
125416 AAAAGGCAAA
*
125426 AAAAAAAAAGGCAAAAAAAC
1 AAAAAAAAAGCCAAAAAAAC
*
125446 AAAAAAAGAGCCAAAAAA
1 AAAAAAAAAGCCAAAAAA
125464 GCCAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.11, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGCCAAAAAAAC
Found at i:144225 original size:11 final size:11
Alignment explanation
Indices: 144212--144276 Score: 69
Period size: 11 Copynumber: 5.8 Consensus size: 11
144202 ATTTTAGCTT
*
144212 TTTTTTTTGCT
1 TTTTTTTTGCC
144223 TTTTTTTGGTGCC
1 TTTTTTT--TGCC
* *
144236 TTTTCTTTACC
1 TTTTTTTTGCC
144247 TTTTTTTTGCC
1 TTTTTTTTGCC
*
144258 TTTTTTTTG-T
1 TTTTTTTTGCC
144268 TTTTTTTTG
1 TTTTTTTTG
144277 AAAAACAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
10 9 0.20
11 28 0.61
13 9 0.20
ACGTcount: A:0.02, C:0.12, G:0.11, T:0.75
Consensus pattern (11 bp):
TTTTTTTTGCC
Found at i:145698 original size:24 final size:23
Alignment explanation
Indices: 145670--145729 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
145660 ACTTTTTTTT
145670 CTTTCTTTTTCTTCTTTTCGAGTG
1 CTTTCTTTTTCTTCTTTT-GAGTG
*
145694 CTTTCAATTTT-TTCTTTTGAGTG
1 CTTTC-TTTTTCTTCTTTTGAGTG
145717 CTTT-TATTTTCTT
1 CTTTCT-TTTTCTT
145730 TGCTGATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 4 0.13
23 11 0.35
24 12 0.39
25 4 0.13
ACGTcount: A:0.08, C:0.17, G:0.10, T:0.65
Consensus pattern (23 bp):
CTTTCTTTTTCTTCTTTTGAGTG
Found at i:148729 original size:11 final size:13
Alignment explanation
Indices: 148699--148728 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
148689 TGGCCAAAGA
148699 TGAAAAGGTGTGT
1 TGAAAAGGTGTGT
148712 TGAAAAGGTGTG-
1 TGAAAAGGTGTGT
148724 TGAAA
1 TGAAA
148729 GATGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTGTGT
Found at i:152121 original size:19 final size:20
Alignment explanation
Indices: 152080--152130 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
152070 GAAACCCCTT
*
152080 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
152100 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
152119 TGAAGATACATG
1 TGAAAATACATG
152131 CTCTTGGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:153069 original size:30 final size:31
Alignment explanation
Indices: 153030--153089 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
153020 ACATGCTGCC
**
153030 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
* *
153061 ATGA-ATCTAAAACATATGTAAGCATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
153090 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:172348 original size:17 final size:17
Alignment explanation
Indices: 172326--172358 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
172316 TGCGGCTAAA
*
172326 AGAAATGGTTATGGTAT
1 AGAAATGGATATGGTAT
172343 AGAAATGGATATGGTA
1 AGAAATGGATATGGTA
172359 AAGGTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (17 bp):
AGAAATGGATATGGTAT
Done.