Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001785.1 Hibiscus syriacus cultivar Beakdansim tig00003604_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: 274370
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:25680 original size:21 final size:19
Alignment explanation
Indices: 25634--25687 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 19
25624 ACCAGACCCT
25634 TTGACTTTGACCCATTGAC
1 TTGACTTTGACCCATTGAC
25653 TAATGACTTTGACCCATTGAAC
1 T--TGACTTTGACCCATTG-AC
25675 GTTGACTTTGACC
1 -TTGACTTTGACC
25688 AAAAAGTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 1 0.03
21 27 0.87
22 2 0.06
23 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (19 bp):
TTGACTTTGACCCATTGAC
Found at i:27034 original size:2 final size:2
Alignment explanation
Indices: 27027--27081 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
27017 TTTGACTTGT
27027 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27069 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
27082 CCTGATTTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:29017 original size:3 final size:3
Alignment explanation
Indices: 29009--29049 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
28999 TATTTTTAAT
29009 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
29050 GTTTTGAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:29361 original size:17 final size:18
Alignment explanation
Indices: 29327--29361 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
29317 CAACTCCTCA
*
29327 GCTTCCCAGCCGTGAGCC
1 GCTTCCAAGCCGTGAGCC
29345 GCTTCCAAGCC-TGAGCC
1 GCTTCCAAGCCGTGAGCC
29362 ACCGCCGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.14, C:0.43, G:0.26, T:0.17
Consensus pattern (18 bp):
GCTTCCAAGCCGTGAGCC
Found at i:30870 original size:5 final size:5
Alignment explanation
Indices: 30845--30882 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
30835 TTGTGTTGAG
*
30845 TTTTA -TTTA TTTATG TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTT-TA TTTTA TTTTA TTTTA TTTTA TTT
30883 ACTTCATCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.14
5 21 0.72
6 4 0.14
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:31085 original size:2 final size:2
Alignment explanation
Indices: 31078--31118 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
31068 ATGTAAATAG
31078 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
31119 ATAATACAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34119 original size:20 final size:20
Alignment explanation
Indices: 34094--34154 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
34084 ACATTCCCTC
34094 TCTTTGAGACCTTGAAACAT
1 TCTTTGAGACCTTGAAACAT
34114 TCTTTGAGACCTTGAAACAT
1 TCTTTGAGACCTTGAAACAT
* *
34134 TCTTTGCGGCCTTGAAACAT
1 TCTTTGAGACCTTGAAACAT
34154 T
1 T
34155 GCATTTATCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (20 bp):
TCTTTGAGACCTTGAAACAT
Found at i:34785 original size:14 final size:14
Alignment explanation
Indices: 34751--34836 Score: 66
Period size: 14 Copynumber: 5.7 Consensus size: 14
34741 AATAAAAGCG
34751 AAGAACAAAGAAAATCA
1 AAGAA-AAA-AAAA-CA
* *
34768 AAGAGAAAGAAACA
1 AAGAAAAAAAAACA
*
34782 AAGAGAAAAACAAGCAGA
1 AAGA-AAAAA-AA--ACA
*
34800 AAGAAAAAGAAA-A
1 AAGAAAAAAAAACA
34813 AAGAAAAAAAAACA
1 AAGAAAAAAAAACA
34827 AAGAAAAAAA
1 AAGAAAAAAA
34837 GTGGACAAAG
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
13 12 0.21
14 18 0.32
15 6 0.11
16 7 0.12
17 8 0.14
18 6 0.11
ACGTcount: A:0.77, C:0.07, G:0.15, T:0.01
Consensus pattern (14 bp):
AAGAAAAAAAAACA
Found at i:34792 original size:12 final size:12
Alignment explanation
Indices: 34759--34835 Score: 58
Period size: 11 Copynumber: 6.6 Consensus size: 12
34749 CGAAGAACAA
*
34759 AGAAAATCAAAG
1 AGAAAAACAAAG
34771 AGAAAGAAACAAAG
1 AG-AA-AAACAAAG
34785 AGAAAAAC-AAG
1 AGAAAAACAAAG
34796 CAGAAAGAA-AAAG
1 -AGAAA-AACAAAG
*
34809 A-AAAAAGAAA-
1 AGAAAAACAAAG
34819 A-AAAAACAAAG
1 AGAAAAACAAAG
34830 A-AAAAA
1 AGAAAAA
34836 AGTGGACAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 15
0.77 0.03 0.21
Matches are distributed among these distances:
10 11 0.20
11 15 0.27
12 12 0.21
13 9 0.16
14 9 0.16
ACGTcount: A:0.77, C:0.06, G:0.16, T:0.01
Consensus pattern (12 bp):
AGAAAAACAAAG
Found at i:34817 original size:13 final size:14
Alignment explanation
Indices: 34799--34836 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
34789 AAACAAGCAG
*
34799 AAAGAAAAAGAAA-
1 AAAGAAAAAAAAAC
34812 AAAGAAAAAAAAAC
1 AAAGAAAAAAAAAC
34826 AAAGAAAAAAA
1 AAAGAAAAAAA
34837 GTGGACAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.87, C:0.03, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAC
Found at i:35739 original size:24 final size:23
Alignment explanation
Indices: 35686--35742 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
35676 TGAAAGGGGT
35686 AATATTTTCAAAATCTTTGATTA
1 AATATTTTCAAAATCTTTGATTA
* *
35709 AACATTTTTAAAACTCTTTTGA-TA
1 AATATTTTCAAAA-TC-TTTGATTA
*
35733 GATATTTTCA
1 AATATTTTCA
35743 TACTTTTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 11 0.41
24 11 0.41
25 5 0.19
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (23 bp):
AATATTTTCAAAATCTTTGATTA
Found at i:36459 original size:35 final size:36
Alignment explanation
Indices: 36369--36685 Score: 144
Period size: 36 Copynumber: 8.9 Consensus size: 36
36359 GTTTCTCTCG
* * *
36369 AAACAAAATGTTGTCTCGCTAGAGACAGCTTCTTTTGAA
1 AAAC-AAATTTTGTCTCGCTTGAGACAG-TT-TTCTGAA
36408 AAACAAATCTTT-TCTCGCTTGAGACAGTTTTCT-AA
1 AAACAAAT-TTTGTCTCGCTTGAGACAGTTTTCTGAA
* * *
36443 AATCAAATTTTGTCTCGTTTGAGAC-GATTTCTTGAA
1 AAACAAATTTTGTCTCGCTTGAGACAGTTTTC-TGAA
* * *
36479 AAAAAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAA
1 AAACAAATTTTGTCTCGCTTGAGACAGTTTT-C--TGAA
* * ** *
36518 ATACAAATTTCGAAT---TT------GTTTTCAT-ATT
1 AAACAAATTTTGTCTCGCTTGAGACAGTTTTC-TGA-A
* * ** *
36546 AAACAAA-GTTGATCTCACTTGAGATTGTTTTCTCAA
1 AAACAAATTTTG-TCTCGCTTGAGACAGTTTTCTGAA
** *
36582 AAACAAACGTTGTCTCGCTTGAGACAATTTCTCT-AA
1 AAACAAATTTTGTCTCGCTTGAGACAGTTT-TCTGAA
* * * *
36618 AAACAATTTTTGTGTCGTTTGAGACAATTTCTCT-AA
1 AAACAAATTTTGTCTCGCTTGAGACAGTTT-TCTGAA
* * *
36654 AAACAAATGTTGTCTCACTTGAGACAATTTTC
1 AAACAAATTTTGTCTCGCTTGAGACAGTTTTC
36686 CAAATTATGA
Statistics
Matches: 218, Mismatches: 39, Indels: 46
0.72 0.13 0.15
Matches are distributed among these distances:
27 3 0.01
28 8 0.04
29 1 0.00
30 4 0.02
31 2 0.01
34 8 0.04
35 24 0.11
36 108 0.50
37 19 0.09
38 19 0.09
39 22 0.10
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (36 bp):
AAACAAATTTTGTCTCGCTTGAGACAGTTTTCTGAA
Found at i:36467 original size:73 final size:71
Alignment explanation
Indices: 36374--36510 Score: 168
Period size: 71 Copynumber: 1.9 Consensus size: 71
36364 TCTCGAAACA
* * * *
36374 AAATGTTGTCTCGCTAGAGACAGCTTCTTTTGAAAAACAAATCTT-TTCTCGCTTGAGACAGTTT
1 AAATGTTGTCTCGCTAGAGAC-GATT-TCTTGAAAAAAAAAT-TTCGTCTCGCTTGAGACAGTTT
36438 TCTAAAATC
63 TCTAAAATC
* * * *
36447 AAATTTTGTCTCGTTTGAGACGATTTCTTGAAAAAAAAATTTCGTCTCGCTTGAGACATTTTTC
1 AAATGTTGTCTCGCTAGAGACGATTTCTTGAAAAAAAAATTTCGTCTCGCTTGAGACAGTTTTC
36511 CTTTGAAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
70 2 0.04
71 32 0.58
72 3 0.05
73 18 0.33
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (71 bp):
AAATGTTGTCTCGCTAGAGACGATTTCTTGAAAAAAAAATTTCGTCTCGCTTGAGACAGTTTTCT
AAAATC
Found at i:36620 original size:36 final size:36
Alignment explanation
Indices: 36574--36683 Score: 159
Period size: 36 Copynumber: 3.1 Consensus size: 36
36564 TTGAGATTGT
*
36574 TTTCTC-AAAAACAAACGTTGTCTCGCTTGAGACAA
1 TTTCTCTAAAAACAAATGTTGTCTCGCTTGAGACAA
* * * *
36609 TTTCTCTAAAAACAATTTTTGTGTCGTTTGAGACAA
1 TTTCTCTAAAAACAAATGTTGTCTCGCTTGAGACAA
*
36645 TTTCTCTAAAAACAAATGTTGTCTCACTTGAGACAA
1 TTTCTCTAAAAACAAATGTTGTCTCGCTTGAGACAA
36681 TTT
1 TTT
36684 TCCAAATTAT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
35 6 0.09
36 58 0.91
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (36 bp):
TTTCTCTAAAAACAAATGTTGTCTCGCTTGAGACAA
Found at i:36736 original size:32 final size:30
Alignment explanation
Indices: 36700--36761 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
36690 TTATGAATTT
36700 GTTTCACTGGAAACAAACATCATCTTTGAGTC
1 GTTTCACTGGAAAC-AA-ATCATCTTTGAGTC
** * *
36732 GTTTCTTTTGAAACAAATGATCTTTGAGTC
1 GTTTCACTGGAAACAAATCATCTTTGAGTC
36762 TATTTCTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 13 0.50
31 2 0.08
32 11 0.42
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (30 bp):
GTTTCACTGGAAACAAATCATCTTTGAGTC
Found at i:36757 original size:30 final size:31
Alignment explanation
Indices: 36721--36779 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
36711 AACAAACATC
*
36721 ATCTTTGAGTC-GTTTCTTTTGAAACAAATG
1 ATCTTTGAGTCTATTTCTTTTGAAACAAATG
36751 ATCTTTGAGTCTATTTCTTTTGAAACAAA
1 ATCTTTGAGTCTATTTCTTTTGAAACAAA
36780 CTTTGTCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (31 bp):
ATCTTTGAGTCTATTTCTTTTGAAACAAATG
Found at i:37011 original size:66 final size:64
Alignment explanation
Indices: 36839--37024 Score: 230
Period size: 64 Copynumber: 2.9 Consensus size: 64
36829 TTAAAAAAAA
* * * * *
36839 TGAAAAAATATTTGAGCATGTTTCTTTGATAACAAAATTTTGTCTCTTTTGAGAAAGTTTCTTT
1 TGAAAAAATCTTTGAGTATGTTTCTTTGAAAACAAAATTTTGTCTCTTTTGAGACAGTTCCTTT
* * * *
36903 TGAAAGAATCATTGAGTATGTTTCTTTGGAAACAAAATTTTGTCTTTTTTGAGACAGTTCCTTT
1 TGAAAAAATCTTTGAGTATGTTTCTTTGAAAACAAAATTTTGTCTCTTTTGAGACAGTTCCTTT
* **
36967 TGAAGAAAAATCTTTAAGTATGTTT-TTATGAAAACAAAGGTTTGTCTCTTTTGAGACA
1 TG-A-AAAAATCTTTGAGTATGTTTCTT-TGAAAACAAAATTTTGTCTCTTTTGAGACA
37025 ATTTCTCTTA
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
64 57 0.55
65 3 0.03
66 43 0.42
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (64 bp):
TGAAAAAATCTTTGAGTATGTTTCTTTGAAAACAAAATTTTGTCTCTTTTGAGACAGTTCCTTT
Found at i:37188 original size:29 final size:27
Alignment explanation
Indices: 37140--37194 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 27
37130 CGTAAAAAAA
* * *
37140 AAAATCTTTGAGTTTGTTTCTTTTAAC
1 AAAATCTTTGAGTCTATTTCTGTTAAC
37167 AAAATCATATTGAGTCTATTTCTGTTAA
1 AAAATC-T-TTGAGTCTATTTCTGTTAA
37195 AACAATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 6 0.26
28 1 0.04
29 16 0.70
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (27 bp):
AAAATCTTTGAGTCTATTTCTGTTAAC
Found at i:37506 original size:31 final size:31
Alignment explanation
Indices: 37470--37530 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
37460 CCTTAAGGCA
37470 GTTTCTCTAAAAATACAAA-ATCTTTGAGTTT
1 GTTTCTCTAAAAATA-AAACATCTTTGAGTTT
**
37501 GTTTCTCTTGAAATAAAACTATCTTTGAGT
1 GTTTCTCTAAAAATAAAAC-ATCTTTGAGT
37531 CGTTTCCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 3 0.12
31 13 0.50
32 10 0.38
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (31 bp):
GTTTCTCTAAAAATAAAACATCTTTGAGTTT
Found at i:37706 original size:64 final size:64
Alignment explanation
Indices: 37589--37708 Score: 145
Period size: 64 Copynumber: 1.9 Consensus size: 64
37579 CAAGAACATA
* ** * *
37589 TTTGAGTTTGTTTCTCTGGAAACAAGGTTTTCTCCCTTAAAATAGTTTCTTTTGAATGAAAAGC
1 TTTGAGTCTGTTTCTCTGGAAACAAAATTTTCTCACTTAAAATACTTTCTTTTGAATGAAAAGC
* *
37653 TTTGAGTCTGTTTCTTTGGAAACAAAATTTGTCTCAC-TAAGATACTATT-TTTTGAA
1 TTTGAGTCTGTTTCTCTGGAAACAAAATTT-TCTCACTTAAAATACT-TTCTTTTGAA
37709 AACAAAGTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
64 40 0.85
65 7 0.15
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (64 bp):
TTTGAGTCTGTTTCTCTGGAAACAAAATTTTCTCACTTAAAATACTTTCTTTTGAATGAAAAGC
Found at i:37905 original size:38 final size:37
Alignment explanation
Indices: 37813--37919 Score: 110
Period size: 36 Copynumber: 2.9 Consensus size: 37
37803 TTCTTTGAGA
* * **
37813 AAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTAC
1 AAAATCTTTGAGTATGTTTCCTT-GAAACAAAATAAAC
* *
37851 --CATCTTTGAGTTTGTTTCCCTTGAAACAAAATAAAC
1 AAAATCTTTGAGTATGTTT-CCTTGAAACAAAATAAAC
*
37887 AAAATCTTTGAGTATGTTTTTCTTGAAACAAAA
1 AAAATCTTTGAGTATG-TTTCCTTGAAACAAAA
37920 ACATCTTTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
36 27 0.47
37 3 0.05
38 24 0.42
39 3 0.05
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (37 bp):
AAAATCTTTGAGTATGTTTCCTTGAAACAAAATAAAC
Found at i:38107 original size:31 final size:28
Alignment explanation
Indices: 38069--38149 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
38059 GAGACAATTG
*
38069 CTTTTGAAACACATCACCTTTGAGTTTGTTT
1 CTTTTGAAACA-A--ACCTTTGAGTATGTTT
*
38100 -TTCTTGAAACAAATCTTTGAGTATGTTT
1 CTT-TTGAAACAAACCTTTGAGTATGTTT
*
38128 CTTTTGAAACAAATCTTTGAGT
1 CTTTTGAAACAAACCTTTGAGT
38150 CGGTTTCCCT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
28 33 0.72
29 2 0.04
30 3 0.07
31 8 0.17
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (28 bp):
CTTTTGAAACAAACCTTTGAGTATGTTT
Found at i:38156 original size:28 final size:28
Alignment explanation
Indices: 38086--38149 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
38076 AACACATCAC
*
38086 CTTTGAGTTTGTTT-TTCTTGAAACAAAT
1 CTTTGAGTATGTTTCTT-TTGAAACAAAT
38114 CTTTGAGTATGTTTCTTTTGAAACAAAT
1 CTTTGAGTATGTTTCTTTTGAAACAAAT
38142 CTTTGAGT
1 CTTTGAGT
38150 CGGTTTCCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 32 0.94
29 2 0.06
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.48
Consensus pattern (28 bp):
CTTTGAGTATGTTTCTTTTGAAACAAAT
Found at i:38162 original size:28 final size:28
Alignment explanation
Indices: 38102--38165 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
38092 GTTTGTTTTT
* *
38102 CTTGAAACAAATCTTTGAGTATGTTTCT
1 CTTGAAACAAATCTTTGAGTAGGTTTCC
* *
38130 TTTGAAACAAATCTTTGAGTCGGTTTCC
1 CTTGAAACAAATCTTTGAGTAGGTTTCC
38158 CTTGAAAC
1 CTTGAAAC
38166 CATAATCACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (28 bp):
CTTGAAACAAATCTTTGAGTAGGTTTCC
Found at i:38279 original size:43 final size:42
Alignment explanation
Indices: 38225--38423 Score: 129
Period size: 43 Copynumber: 4.5 Consensus size: 42
38215 ATCAACCGAA
38225 CAGACCTCCTCATCACGTAGGAGTCGTGTCACCCCTAGATAAC
1 CAGA-CTCCTCATCACGTAGGAGTCGTGTCACCCCTAGATAAC
* ** * **
38268 CAGACGTCCTCATCATGTAGGAACCGTGTTATCGCCCTTCCTAAAGATGGC
1 CAGAC-TCCTCATCACGTAGGAGTCGTG---TC-ACC--CCT--AGATAAC
* * *
38319 CAGAACTCTTCATCACGTATGAGTCGTGTCATCCCC-CG---AC
1 CAG-ACTCCTCATCACGTAGGAGTCGTGTCA-CCCCTAGATAAC
38359 CAGATCTCCTCATCACGTAGGA-TCCGTGTCACCCCTAGATAAC
1 CAGA-CTCCTCATCACGTAGGAGT-CGTGTCACCCCTAGATAAC
* *
38402 CAGCCGTCCTCATCGCGTAGGA
1 CAGAC-TCCTCATCACGTAGGA
38424 ACCGAGTTAT
Statistics
Matches: 119, Mismatches: 19, Indels: 36
0.68 0.11 0.21
Matches are distributed among these distances:
39 6 0.05
40 27 0.23
42 2 0.02
43 44 0.37
46 4 0.03
47 2 0.02
48 4 0.03
49 3 0.03
51 25 0.21
52 2 0.02
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.23
Consensus pattern (42 bp):
CAGACTCCTCATCACGTAGGAGTCGTGTCACCCCTAGATAAC
Found at i:38373 original size:40 final size:39
Alignment explanation
Indices: 38318--38393 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
38308 CTAAAGATGG
* *
38318 CCAGAACTCTTCATCACGTATGAGT-CGTGTCATCCCCCGA
1 CCAGAACTCCTCATCACGTAGGA-TCCGTGTCA-CCCCCGA
*
38358 CCAGATCTCCTCATCACGTAGGATCCGTGTCACCCC
1 CCAGAACTCCTCATCACGTAGGATCCGTGTCACCCC
38394 TAGATAACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 5 0.16
40 27 0.84
ACGTcount: A:0.21, C:0.38, G:0.17, T:0.24
Consensus pattern (39 bp):
CCAGAACTCCTCATCACGTAGGATCCGTGTCACCCCCGA
Found at i:38414 original size:134 final size:134
Alignment explanation
Indices: 38174--38450 Score: 439
Period size: 134 Copynumber: 2.1 Consensus size: 134
38164 ACCATAATCA
*
38174 CTAAAGATGGCCATAACTCTTCATCAAGTATGAGTCGTGTCATCAACCGAACAGACCTCCTCATC
1 CTAAAGATGGCCAGAACTCTTCATCAAGTATGAGTCGTGTCATCAACCGAACAGACCTCCTCATC
* * *
38239 ACGTAGGAGTCGTGTCACCCCTAGATAACCAGACGTCCTCATCATGTAGGAACCGTGTTATCGCC
66 ACGTAGGAGTCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGAGTTATCACC
38304 CTTC
131 CTTC
* ** * *
38308 CTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCCTCATC
1 CTAAAGATGGCCAGAACTCTTCATCAAGTATGAGTCGTGTCATCAACCGAACAGACCTCCTCATC
* *
38373 ACGTAGGA-TCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAACCGAGTTATCAC
66 ACGTAGGAGT-CGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGAGTTATCAC
38437 CCTTC
130 CCTTC
38442 CTAAAGATG
1 CTAAAGATG
38451 ATGTTGAAAA
Statistics
Matches: 131, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
133 1 0.01
134 130 0.99
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (134 bp):
CTAAAGATGGCCAGAACTCTTCATCAAGTATGAGTCGTGTCATCAACCGAACAGACCTCCTCATC
ACGTAGGAGTCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGAGTTATCACC
CTTC
Found at i:44550 original size:23 final size:21
Alignment explanation
Indices: 44498--44559 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
44488 TTTTGGTGCA
*
44498 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
44518 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
44539 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
44560 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:44585 original size:20 final size:20
Alignment explanation
Indices: 44500--44585 Score: 66
Period size: 21 Copynumber: 4.1 Consensus size: 20
44490 TTGGTGCAGA
* *
44500 GGGAATCGA-TCCCCCCTTG
1 GGGAACCGATTCCCCCCTAG
*
44519 AGGGAACCGATTCCCCCTTTGAAG
1 -GGGAACCGATTCCCCC-CT--AG
*
44543 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATTCCCCCC-TAG
* *
44564 GGGAATCGATACCCCCCTAG
1 GGGAACCGATTCCCCCCTAG
44584 GG
1 GG
44586 TTCTAGTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
20 12 0.23
21 23 0.43
22 1 0.02
23 16 0.30
24 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.27, T:0.16
Consensus pattern (20 bp):
GGGAACCGATTCCCCCCTAG
Found at i:59209 original size:28 final size:28
Alignment explanation
Indices: 59177--59240 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
59167 ATGTTTATGG
59177 ACTCTTTATGACCCTATATTCATACATA
1 ACTCTTTATGACCCTATATTCATACATA
59205 ACTCTTTATGACCCTATATTCATACATA
1 ACTCTTTATGACCCTATATTCATACATA
59233 ACTCTTTA
1 ACTCTTTA
59241 ATAATGTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (28 bp):
ACTCTTTATGACCCTATATTCATACATA
Found at i:59803 original size:23 final size:24
Alignment explanation
Indices: 59777--59823 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
59767 TTTTAGCCAT
59777 AGCCCAATTCACGTTTT-ATTTGA
1 AGCCCAATTCACGTTTTAATTTGA
*
59800 AGCCCAATTCATGTTTTAATTTGA
1 AGCCCAATTCACGTTTTAATTTGA
59824 TGATATCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (24 bp):
AGCCCAATTCACGTTTTAATTTGA
Found at i:64130 original size:18 final size:18
Alignment explanation
Indices: 64107--64151 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
64097 AGGTTTGGAG
64107 CATGTTGAAGCTGCATGT
1 CATGTTGAAGCTGCATGT
*
64125 CATGTTGAAGTTGCATGT
1 CATGTTGAAGCTGCATGT
*
64143 CTTGTTGAA
1 CATGTTGAA
64152 ACCGATTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.38
Consensus pattern (18 bp):
CATGTTGAAGCTGCATGT
Found at i:75887 original size:24 final size:24
Alignment explanation
Indices: 75778--75881 Score: 140
Period size: 23 Copynumber: 4.4 Consensus size: 24
75768 GAGTCGAGGG
*
75778 TTCTACGTGGTCCTTCGGGATAAA
1 TTCTACGTGGTCCTTCGGGACAAA
* * *
75802 -TCTATGTGGTCATTCGGGAC-AT
1 TTCTACGTGGTCCTTCGGGACAAA
*
75824 TTTTACGTGGTCCTTCGGGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
*
75848 TTCTACGCGGTCCTTCGGGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
75872 TTCTACGTGG
1 TTCTACGTGG
75882 CACTTCAGTA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
22 1 0.01
23 34 0.51
24 32 0.48
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (24 bp):
TTCTACGTGGTCCTTCGGGACAAA
Found at i:78747 original size:21 final size:21
Alignment explanation
Indices: 78721--78760 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
78711 GGATTCTGGG
78721 CATAGTGCATCGATGCATATT
1 CATAGTGCATCGATGCATATT
78742 CATAGTGCATCGATGCATA
1 CATAGTGCATCGATGCATA
78761 AAGTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (21 bp):
CATAGTGCATCGATGCATATT
Found at i:79581 original size:23 final size:23
Alignment explanation
Indices: 79537--79581 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
79527 ATCATTATAT
*
79537 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
79560 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
79582 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:83404 original size:13 final size:13
Alignment explanation
Indices: 83386--83426 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
83376 AATCTGGCAA
83386 GGGTATCGGTACT
1 GGGTATCGGTACT
83399 GGGTATCGGTACT
1 GGGTATCGGTACT
*
83412 GGGTATTGGTACT
1 GGGTATCGGTACT
83425 GG
1 GG
83427 AAGAACATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.15, C:0.12, G:0.41, T:0.32
Consensus pattern (13 bp):
GGGTATCGGTACT
Found at i:84262 original size:24 final size:24
Alignment explanation
Indices: 84181--84281 Score: 125
Period size: 23 Copynumber: 4.3 Consensus size: 24
84171 GAGTCAAAGG
* *
84181 TTCTACGCGGTCTTTCGGGACAAA
1 TTCTATGCGGTCCTTCGGGACAAA
* *
84205 -TCTATGTGGTCCTTCGGGAC-AT
1 TTCTATGCGGTCCTTCGGGACAAA
* *
84227 TTCTATGTGGTCCTTCAGGACAAA
1 TTCTATGCGGTCCTTCGGGACAAA
*
84251 TTCTATGCGGTCCTTCGGGAAAAA
1 TTCTATGCGGTCCTTCGGGACAAA
84275 TTCTATG
1 TTCTATG
84282 TGGCAGTTCG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
22 1 0.02
23 36 0.55
24 29 0.44
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (24 bp):
TTCTATGCGGTCCTTCGGGACAAA
Found at i:84265 original size:47 final size:47
Alignment explanation
Indices: 84189--84284 Score: 131
Period size: 47 Copynumber: 2.0 Consensus size: 47
84179 GGTTCTACGC
* * * * *
84189 GGTCTTTCGGGACAAATCTATGTGGTCCTTCGGG-ACATTTCTATGT
1 GGTCCTTCAGGACAAATCTATGCGGTCCTTCGGGAAAAATTCTATGT
84235 GGTCCTTCAGGACAAATTCTATGCGGTCCTTCGGGAAAAATTCTATGT
1 GGTCCTTCAGGACAAA-TCTATGCGGTCCTTCGGGAAAAATTCTATGT
84283 GG
1 GG
84285 CAGTTCGGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
46 14 0.33
47 17 0.40
48 12 0.28
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (47 bp):
GGTCCTTCAGGACAAATCTATGCGGTCCTTCGGGAAAAATTCTATGT
Found at i:85408 original size:20 final size:22
Alignment explanation
Indices: 85361--85414 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
85351 ATATCAAAAG
85361 AAATTAAATAAAAAAGAATAACTA
1 AAATTAAATAAAAAAGAAT-AC-A
*
85385 AAATTAAATAAAAATGAAT-C-
1 AAATTAAATAAAAAAGAATACA
85405 AAATTAAATA
1 AAATTAAATA
85415 TGGGTTGCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 10 0.34
22 1 0.03
24 18 0.62
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (22 bp):
AAATTAAATAAAAAAGAATACA
Found at i:90594 original size:3 final size:3
Alignment explanation
Indices: 90586--90624 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
90576 AAAATACTTC
90586 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
90625 AGTTAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:94947 original size:31 final size:31
Alignment explanation
Indices: 94912--94971 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
94902 GAAATTCGCA
94912 AATCGAATTTCTTTTTCGCAACGCGAATTCC
1 AATCGAATTTCTTTTTCGCAACGCGAATTCC
94943 AATCGAATTTCTTTTTCGCAACGCGAATT
1 AATCGAATTTCTTTTTCGCAACGCGAATT
94972 TGGAATTCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (31 bp):
AATCGAATTTCTTTTTCGCAACGCGAATTCC
Found at i:95021 original size:19 final size:20
Alignment explanation
Indices: 94997--95039 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
94987 AGGAGTCAAA
*
94997 TTCGCAAAGCGAGTTTT-TT
1 TTCGCAAAGCGAATTTTATT
*
95016 TTCGCAACGCGAATTTTATT
1 TTCGCAAAGCGAATTTTATT
95036 TTCG
1 TTCG
95040 AATTCGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (20 bp):
TTCGCAAAGCGAATTTTATT
Found at i:95131 original size:27 final size:27
Alignment explanation
Indices: 95093--95187 Score: 154
Period size: 27 Copynumber: 3.5 Consensus size: 27
95083 GTATATCCCG
95093 TAAATCGCAACTCATAACCTAAAACCC
1 TAAATCGCAACTCATAACCTAAAACCC
95120 TAAATCGCAACTCATAACCTAAAACCC
1 TAAATCGCAACTCATAACCTAAAACCC
* **
95147 TAAATCGTAACTCATAACCTAAAACTT
1 TAAATCGCAACTCATAACCTAAAACCC
*
95174 TAAATCACAACTCA
1 TAAATCGCAACTCA
95188 GTCTCATCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.45, C:0.29, G:0.03, T:0.22
Consensus pattern (27 bp):
TAAATCGCAACTCATAACCTAAAACCC
Found at i:95673 original size:21 final size:21
Alignment explanation
Indices: 95649--95688 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
95639 TTAGTTTTCA
95649 CGTTGCGAATATCATTTTTTT
1 CGTTGCGAATATCATTTTTTT
* *
95670 CGTTTCGAATTTCATTTTT
1 CGTTGCGAATATCATTTTT
95689 GAGTTGTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.55
Consensus pattern (21 bp):
CGTTGCGAATATCATTTTTTT
Found at i:97142 original size:42 final size:42
Alignment explanation
Indices: 97092--97234 Score: 198
Period size: 42 Copynumber: 3.4 Consensus size: 42
97082 TCACTTCGAT
* * ** *
97092 ACCGAGATCCATCACCTCATCGAGCCTCTTCTCCA-CTTCGAC
1 ACCGAGAGCCATCACCTGATCGAGCCAATTCTACACCTT-GAC
* * *
97134 ACCGAGATCCATCACCTGATCGAGTCGATTCTACACCTTGAC
1 ACCGAGAGCCATCACCTGATCGAGCCAATTCTACACCTTGAC
97176 ACCGAGAGCCATCACCTGATCGAGCCAATTCTACACCTTGAC
1 ACCGAGAGCCATCACCTGATCGAGCCAATTCTACACCTTGAC
97218 ACCGAGAGCCATCACCT
1 ACCGAGAGCCATCACCT
97235 ATTCCATCAC
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 89 0.97
43 3 0.03
ACGTcount: A:0.26, C:0.38, G:0.15, T:0.21
Consensus pattern (42 bp):
ACCGAGAGCCATCACCTGATCGAGCCAATTCTACACCTTGAC
Found at i:97191 original size:21 final size:21
Alignment explanation
Indices: 97167--97234 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
97157 GTCGATTCTA
97167 CACCTTGACACCGAGAGCCAT
1 CACCTTGACACCGAGAGCCAT
**
97188 CACC-TGATCGAGCC-A-ATTC-T
1 CACCTTGA-C-A-CCGAGAGCCAT
97208 ACACCTTGACACCGAGAGCCAT
1 -CACCTTGACACCGAGAGCCAT
97230 CACCT
1 CACCT
97235 ATTCCATCAC
Statistics
Matches: 35, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 19 0.54
22 6 0.17
23 2 0.06
ACGTcount: A:0.28, C:0.38, G:0.16, T:0.18
Consensus pattern (21 bp):
CACCTTGACACCGAGAGCCAT
Found at i:97360 original size:21 final size:21
Alignment explanation
Indices: 97334--97373 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
97324 ACCTCCACGG
97334 GATGAGGTCAGTGCTTTACGT
1 GATGAGGTCAGTGCTTTACGT
*
97355 GATGAGGTCGGTGCTTTAC
1 GATGAGGTCAGTGCTTTAC
97374 ATGACGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.15, G:0.35, T:0.33
Consensus pattern (21 bp):
GATGAGGTCAGTGCTTTACGT
Found at i:97621 original size:4 final size:4
Alignment explanation
Indices: 97612--97653 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
97602 TTTTTCGGTA
* * *
97612 TTAT TTAT TTAT TTAT TTAT TGAT TTAT ATAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
97654 TTAGCGGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:97813 original size:21 final size:21
Alignment explanation
Indices: 97787--97831 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
97777 GAAGAAGCCT
97787 GATCCACCTACC-ATTGTTTAG
1 GATCCACCT-CCTATTGTTTAG
97808 GATCCACCTCCTATTGTTTAG
1 GATCCACCTCCTATTGTTTAG
97829 GAT
1 GAT
97832 TTACCTGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.36
Consensus pattern (21 bp):
GATCCACCTCCTATTGTTTAG
Found at i:97882 original size:21 final size:21
Alignment explanation
Indices: 97858--97918 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
97848 AAAAGGCTCA
*
97858 TCCCGTCGTTCAAGATGCC-CC
1 TCCCATCGTTCAAGAT-CCACC
*
97879 TCCCATCGTTCAGGATCCACC
1 TCCCATCGTTCAAGATCCACC
* * *
97900 TCCCACCGTTTAGGATCCA
1 TCCCATCGTTCAAGATCCA
97919 TATGACATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 2 0.06
21 33 0.94
ACGTcount: A:0.18, C:0.41, G:0.16, T:0.25
Consensus pattern (21 bp):
TCCCATCGTTCAAGATCCACC
Found at i:99451 original size:20 final size:20
Alignment explanation
Indices: 99417--99524 Score: 117
Period size: 20 Copynumber: 5.4 Consensus size: 20
99407 AAGAAAATCG
* *
99417 AATTCGCAACACGAAAATCA
1 AATTCGCAACGCGAAAATAA
*
99437 AATTCGCAATGCGAAAATAA
1 AATTCGCAACGCGAAAATAA
* *
99457 AATTTGCAATGCGAAAATAA
1 AATTCGCAACGCGAAAATAA
* *
99477 AATTCTCAACGCAAAAATAA
1 AATTCGCAACGCGAAAATAA
** *
99497 AATTTACAACACGAAAATAA
1 AATTCGCAACGCGAAAATAA
*
99517 AATCCGCA
1 AATTCGCA
99525 TTGCAATTTT
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 73 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (20 bp):
AATTCGCAACGCGAAAATAA
Found at i:99472 original size:40 final size:40
Alignment explanation
Indices: 99423--99524 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 40
99413 ATCGAATTCG
* * * *
99423 CAACACGAAAATCAAATTCGCAATGCGAAAATAAAATTTG
1 CAACACGAAAATAAAATTCGCAACGCAAAAATAAAATTTA
** *
99463 CAATGCGAAAATAAAATTCTCAACGCAAAAATAAAATTTA
1 CAACACGAAAATAAAATTCGCAACGCAAAAATAAAATTTA
*
99503 CAACACGAAAATAAAATCCGCA
1 CAACACGAAAATAAAATTCGCA
99525 TTGCAATTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.53, C:0.19, G:0.10, T:0.19
Consensus pattern (40 bp):
CAACACGAAAATAAAATTCGCAACGCAAAAATAAAATTTA
Found at i:99555 original size:20 final size:20
Alignment explanation
Indices: 99530--99587 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
99520 CCGCATTGCA
99530 ATTTTCATGTTGCGAATTCG
1 ATTTTCATGTTGCGAATTCG
* *
99550 ATTTTCGTGTTGCGAATTTG
1 ATTTTCATGTTGCGAATTCG
* * *
99570 AGTATCAAGTTGCGAATT
1 ATTTTCATGTTGCGAATT
99588 TTATTTTCGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.43
Consensus pattern (20 bp):
ATTTTCATGTTGCGAATTCG
Found at i:102176 original size:24 final size:24
Alignment explanation
Indices: 102149--102202 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
102139 CTGAAACATC
102149 ATCAAAATCCGAGTATTGAT-CAAG
1 ATCAAAATCCGAGTATTG-TCCAAG
* *
102173 ATCAAAGTCCGGGTATTGTCCAAG
1 ATCAAAATCCGAGTATTGTCCAAG
102197 ATCAAA
1 ATCAAA
102203 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGTCCAAG
Found at i:102348 original size:12 final size:12
Alignment explanation
Indices: 102327--102360 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
102317 GGTTGTGGGT
*
102327 TTTGAGATTGTG
1 TTTGATATTGTG
102339 TTTGATATTGTG
1 TTTGATATTGTG
*
102351 TTTGGTATTG
1 TTTGATATTG
102361 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:103170 original size:20 final size:20
Alignment explanation
Indices: 103126--103475 Score: 160
Period size: 20 Copynumber: 17.5 Consensus size: 20
103116 CAAAACATTT
* *
103126 GTGTTGCGAAAATAAAA-GC
1 GTGTTGCGAAATTAAAATTC
103145 -TGTTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAATTC
103164 GTGTTGCG-AATTCGAAAA-TC
1 GTGTTGCGAAATT--AAAATTC
* * *
103184 GAGTTGCGAAAATAAAATTT
1 GTGTTGCGAAATTAAAATTC
* *
103204 GCGTTGCG-AATTAGAAAATC
1 GTGTTGCGAAATTA-AAATTC
* *
103224 TTGTTGCGAAA-AAGAAACTT-
1 GTGTTGCGAAATTA-AAA-TTC
* *
103244 GTGTTGCGAATTTAAAAATC
1 GTGTTGCGAAATTAAAATTC
*
103264 GCGTTGCG-AATTCAGAAA-TC
1 GTGTTGCGAAATT-A-AAATTC
* * *
103284 GAGTTGCGAATTTGAAATTTC
1 GTGTTGCGAAATT-AAAATTC
*
103305 GTGTTGCGAATTTAGAAATTAC
1 GTGTTGCGAAATTA-AAATT-C
* *
103327 --GTTGCGAAATTAGAGTTC
1 GTGTTGCGAAATTAAAATTC
*
103345 GTGTTGCGAATTTGAAAATT-
1 GTGTTGCGAAATT-AAAATTC
* *
103365 GCGTTGCGTAACA-GAAAA-TC
1 GTGTTGCG-AA-ATTAAAATTC
103385 GTGTTGCGTAAA--AGAAATTC
1 GTGTTGCG-AAATTA-AAATTC
* *
103405 GAGTTGCG-AATTCGAAATTCC
1 GTGTTGCGAAATT-AAAATT-C
*
103426 GTGTTGCG-AATTCCAAATTC
1 GTGTTGCGAAATT-AAAATTC
* ** *
103446 GCGTTGCGAAATTGGAGTTC
1 GTGTTGCGAAATTAAAATTC
103466 GTGTTGCGAA
1 GTGTTGCGAA
103476 TTTGAGATTG
Statistics
Matches: 257, Mismatches: 44, Indels: 59
0.71 0.12 0.16
Matches are distributed among these distances:
18 19 0.07
19 25 0.10
20 148 0.58
21 64 0.25
22 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (20 bp):
GTGTTGCGAAATTAAAATTC
Found at i:103231 original size:60 final size:59
Alignment explanation
Indices: 103126--103480 Score: 240
Period size: 60 Copynumber: 5.9 Consensus size: 59
103116 CAAAACATTT
*
103126 GTGTTGCGAAAATAAAA--GCTGTTGCGAAATTA-AAATTCGTGTTGCGAATTCGAAAATC
1 GTGTTGCGAAAATAAAATTGC-GTTGCGAAATTAGAAA-TCGTGTTGCGAATTTGAAAATC
* * *** * *
103184 GAGTTGCGAAAATAAAATTTGCGTTGCG-AATTAGAAAATCTTGTTGCGAAAAAGAAACTT
1 GTGTTGCGAAAATAAAA-TTGCGTTGCGAAATTAG-AAATCGTGTTGCGAATTTGAAAATC
** * * *
103244 GTGTTGCGAATTTAAAAATCGCGTTGCG-AATTCAGAAATCGAGTTGCGAATTTGAAATTTC
1 GTGTTGCGAAAAT-AAAATTGCGTTGCGAAATT-AGAAATCGTGTTGCGAATTTGAAA-ATC
** * ** *
103305 GTGTTGCGAATTTAGAAATTACGTTGCGAAATTAGAGTTCGTGTTGCGAATTTGAAAATT
1 GTGTTGCGAAAATA-AAATTGCGTTGCGAAATTAGAAATCGTGTTGCGAATTTGAAAATC
* * * * * * * *
103365 GCGTTGCGTAACAGAAAATCGTGTTGCGTAAA--AGAAATTCGAGTTGCGAATTCGAAATTCC
1 GTGTTGCG-AAAATAAAATTGCGTTGCG-AAATTAGAAA-TCGTGTTGCGAATTTGAAAAT-C
* * * **
103426 GTGTTGCG-AATTCCAAATTCGCGTTGCGAAATTGGAGTTCGTGTTGCGAATTTGA
1 GTGTTGCGAAAAT-AAAATT-GCGTTGCGAAATTAGAAATCGTGTTGCGAATTTGA
103481 GATTGCGTTG
Statistics
Matches: 229, Mismatches: 50, Indels: 33
0.73 0.16 0.11
Matches are distributed among these distances:
58 16 0.07
59 9 0.04
60 106 0.46
61 92 0.40
62 6 0.03
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.31
Consensus pattern (59 bp):
GTGTTGCGAAAATAAAATTGCGTTGCGAAATTAGAAATCGTGTTGCGAATTTGAAAATC
Found at i:103350 original size:121 final size:121
Alignment explanation
Indices: 103158--103475 Score: 310
Period size: 121 Copynumber: 2.6 Consensus size: 121
103148 TGCGAAATTA
* * * * **
103158 AAATTCGTGTTGCGAATTCGAAAAT-CGAGTTGCGAAAATA-AAATTTGCGTTGCG-AATTAGAA
1 AAATTCGAGTTGCGAATTCGAAATTCCGTGTTGCG-AATTACAAATTCACGTTGCGAAATTAG-A
** * * * * *
103220 AATCTTGTTGCGAAAAAGAAACTTGTGTTGCG-AATTTA-AAAATCGCGTTGCG-AATTCAG
64 GTTCGTGTTGCGAAAAAGAAAATTGCGTTGCGTAA--CAGAAAATCGCGTTGCGTAA--AAG
* * *
103279 AAA-TCGAGTTGCGAATTTGAAATTTCGTGTTGCGAATTTAGAAATT-ACGTTGCGAAATTAGAG
1 AAATTCGAGTTGCGAATTCGAAATTCCGTGTTGCGAA-TTACAAATTCACGTTGCGAAATTAGAG
*** *
103342 TTCGTGTTGCGAATTTGAAAATTGCGTTGCGTAACAGAAAATCGTGTTGCGTAAAAG
65 TTCGTGTTGCGAAAAAGAAAATTGCGTTGCGTAACAGAAAATCGCGTTGCGTAAAAG
* * *
103399 AAATTCGAGTTGCGAATTCGAAATTCCGTGTTGCGAATTCCAAATTCGCGTTGCGAAATTGGAGT
1 AAATTCGAGTTGCGAATTCGAAATTCCGTGTTGCGAATTACAAATTCACGTTGCGAAATTAGAGT
103464 TCGTGTTGCGAA
66 TCGTGTTGCGAA
103476 TTTGAGATTG
Statistics
Matches: 165, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
120 33 0.20
121 117 0.71
122 15 0.09
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (121 bp):
AAATTCGAGTTGCGAATTCGAAATTCCGTGTTGCGAATTACAAATTCACGTTGCGAAATTAGAGT
TCGTGTTGCGAAAAAGAAAATTGCGTTGCGTAACAGAAAATCGCGTTGCGTAAAAG
Found at i:103384 original size:101 final size:99
Alignment explanation
Indices: 103145--103421 Score: 262
Period size: 100 Copynumber: 2.8 Consensus size: 99
103135 AAATAAAAGC
* * *
103145 TGTTGCGAAATTAAAATTCGTGTTGCGAATTC-GAAAATCGAGTTGCGAAAATAAAATTTGCGTT
1 TGTTGCGAATTTAAAAATCGCGTTGCGAA-TCAGAAAATCGAGTTGCGAAAATAAAATTTGCGTT
*
103209 GCGAATTAGAAAATCTTGTTGCGAAAAAGAAACTTG
65 GCGAATTAGAAAATCTCGTTGCGAAAAAG-AACTTG
** * *
103245 TGTTGCGAATTTAAAAATCGCGTTGCGAATTCAG-AAATCGAGTTGCGAATTTGAAATTTCGTGT
1 TGTTGCGAATTTAAAAATCGCGTTGCGAA-TCAGAAAATCGAGTTGCGAAAATAAAATTT-GCGT
* *
103309 TGCGAATTTAG-AAAT-TACGTTGCGAAATTAG-AGTTCG
64 TGCGAA-TTAGAAAATCT-CGTTGCGAAA-AAGAACTT-G
* * * * * *
103346 TGTTGCGAATTTGAAAATTGCGTTGCGTAA-CAGAAAATCGTGTTGCGTAAAA-GAAATTCGAGT
1 TGTTGCGAATTTAAAAATCGCGTTGCG-AATCAGAAAATCGAGTTGCG-AAAATAAAATTTGCGT
*
103409 TGCGAATTCGAAA
64 TGCGAATTAGAAA
103422 TTCCGTGTTG
Statistics
Matches: 149, Mismatches: 18, Indels: 20
0.80 0.10 0.11
Matches are distributed among these distances:
99 3 0.02
100 69 0.46
101 67 0.45
102 10 0.07
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (99 bp):
TGTTGCGAATTTAAAAATCGCGTTGCGAATCAGAAAATCGAGTTGCGAAAATAAAATTTGCGTTG
CGAATTAGAAAATCTCGTTGCGAAAAAGAACTTG
Found at i:103490 original size:19 final size:20
Alignment explanation
Indices: 103443--103498 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
103433 GAATTCCAAA
*
103443 TTCGCGTTGCGAAATTGGAG
1 TTCGCGTTGCGAATTTGGAG
*
103463 TTCGTGTTGCGAATTT-GAG
1 TTCGCGTTGCGAATTTGGAG
103482 ATT-GCGTTGCGAATTTG
1 -TTCGCGTTGCGAATTTG
103499 TTGGTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.18, C:0.12, G:0.32, T:0.38
Consensus pattern (20 bp):
TTCGCGTTGCGAATTTGGAG
Found at i:103679 original size:13 final size:13
Alignment explanation
Indices: 103661--103688 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
103651 AACAAGGGTA
103661 AACTACACTCATT
1 AACTACACTCATT
103674 AACTACACTCATT
1 AACTACACTCATT
103687 AA
1 AA
103689 ACGATACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (13 bp):
AACTACACTCATT
Found at i:110146 original size:21 final size:21
Alignment explanation
Indices: 110107--110147 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
110097 AACGTTATCT
*
110107 AAAATATTATTATTTTTATTA
1 AAAATATTATTATTATTATTA
110128 AAAATATTAATT-TTATTATT
1 AAAATATT-ATTATTATTATT
110148 TAATTTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AAAATATTATTATTATTATTA
Found at i:120702 original size:12 final size:12
Alignment explanation
Indices: 120685--120717 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
120675 GCCCACTACC
120685 TTTTTTTCTTCT
1 TTTTTTTCTTCT
120697 TTTTTTGT-TTCT
1 TTTTTT-TCTTCT
120709 TTTTTTTCT
1 TTTTTTTCT
120718 CTCTCAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.05
12 17 0.89
13 1 0.05
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTTTTCTTCT
Found at i:121472 original size:14 final size:14
Alignment explanation
Indices: 121449--121485 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
121439 GACCAAGTTC
*
121449 ATGCATGCTTGAAA
1 ATGCAAGCTTGAAA
121463 ATGCAAGCTTGAAA
1 ATGCAAGCTTGAAA
121477 ATGCAAGCT
1 ATGCAAGCT
121486 AGTGCCTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (14 bp):
ATGCAAGCTTGAAA
Found at i:123973 original size:20 final size:19
Alignment explanation
Indices: 123931--124002 Score: 56
Period size: 20 Copynumber: 3.7 Consensus size: 19
123921 AAGCCCAAAA
* * *
123931 AGTTTCGATACTTTTCAAT
1 AGTTTCGAAACTTCTCAAG
123950 AGTTTCGAAACTATCTCAAG
1 AGTTTCGAAACT-TCTCAAG
* *
123970 AGTTTCAAAACATTCATTAA-
1 AGTTTCGAAAC-TTC-TCAAG
*
123990 AGTTTCGATACTT
1 AGTTTCGAAACTT
124003 TAGGTCAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 13 0.30
20 26 0.60
21 4 0.09
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (19 bp):
AGTTTCGAAACTTCTCAAG
Found at i:129785 original size:19 final size:19
Alignment explanation
Indices: 129758--129797 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
129748 CAAAATAGAT
129758 TACTCAAAAG-TATCAAAAC
1 TACTCAAAAGAT-TCAAAAC
*
129777 TACTGAAAAGATTCAAAAC
1 TACTCAAAAGATTCAAAAC
129796 TA
1 TA
129798 TAGTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.23
Consensus pattern (19 bp):
TACTCAAAAGATTCAAAAC
Found at i:131623 original size:18 final size:18
Alignment explanation
Indices: 131582--131632 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
131572 TCATATTTTG
131582 GGATGATTTT-ATTATGTT
1 GGAT-ATTTTGATTATGTT
* *
131600 GAATATTTTGATTTTGTT
1 GGATATTTTGATTATGTT
131618 GGATATTTTGGATTA
1 GGATATTTT-GATTA
131633 CATATCTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 5 0.19
18 18 0.67
19 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.55
Consensus pattern (18 bp):
GGATATTTTGATTATGTT
Found at i:131927 original size:13 final size:13
Alignment explanation
Indices: 131909--131937 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
131899 TGAAAATTTG
131909 AATGATAAACATA
1 AATGATAAACATA
131922 AATGATAAACATA
1 AATGATAAACATA
131935 AAT
1 AAT
131938 AATTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (13 bp):
AATGATAAACATA
Found at i:150850 original size:18 final size:18
Alignment explanation
Indices: 150829--150864 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
150819 GACAGAGACG
*
150829 GAGGCACAGACTGAGATA
1 GAGGCACAGAATGAGATA
*
150847 GAGGCAGAGAATGAGATA
1 GAGGCACAGAATGAGATA
150865 AAGACTGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.11, G:0.36, T:0.11
Consensus pattern (18 bp):
GAGGCACAGAATGAGATA
Found at i:156810 original size:27 final size:27
Alignment explanation
Indices: 156770--156835 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
156760 CTTTTTTAGC
* *
156770 CAAAGTTAACGGTCAGACCAGTCGGGT
1 CAAAGTCAACGGTCAGACCAGTCGGAT
* ** *
156797 CAAAGTCAATGGTCAGACTGGTTGGAT
1 CAAAGTCAACGGTCAGACCAGTCGGAT
156824 CAAAGTCAACGG
1 CAAAGTCAACGG
156836 GTCGGTTGGC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.20
Consensus pattern (27 bp):
CAAAGTCAACGGTCAGACCAGTCGGAT
Found at i:161444 original size:19 final size:19
Alignment explanation
Indices: 161420--161468 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
161410 CTTGTGGGAA
*
161420 ATTGATATATAACTCAATG
1 ATTGATACATAACTCAATG
*
161439 ATTGATGCATAACTCAATG
1 ATTGATACATAACTCAATG
*
161458 ATTGATGCATA
1 ATTGATACATA
161469 TGTTAAATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (19 bp):
ATTGATACATAACTCAATG
Found at i:165276 original size:2 final size:2
Alignment explanation
Indices: 165262--165294 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
165252 ATGCATTTTT
*
165262 TA TA CA TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
165295 AATGGGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:166978 original size:21 final size:21
Alignment explanation
Indices: 166949--166991 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
166939 TTATTATATA
*
166949 AGATCTATTTTTAATAAATTAG
1 AGATCTATTTTAAAT-AATTAG
166971 AGAT-TATTTTAAATAATTAG
1 AGATCTATTTTAAATAATTAG
166991 A
1 A
166992 TTTTTACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 9 0.45
22 4 0.20
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (21 bp):
AGATCTATTTTAAATAATTAG
Found at i:169741 original size:3 final size:3
Alignment explanation
Indices: 169733--169852 Score: 195
Period size: 3 Copynumber: 40.0 Consensus size: 3
169723 CCATATTGAT
* *
169733 TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
169781 TTA TGA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
169829 TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
169853 AATATATTAA
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 107 1.00
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:171294 original size:15 final size:14
Alignment explanation
Indices: 171274--171320 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
171264 ATATAATAAA
171274 TAATAATTTATTTT
1 TAATAATTTATTTT
*
171288 TAGATAAATTA-TTT
1 TA-ATAATTTATTTT
171302 TAAT-ATTTATTTT
1 TAATAATTTATTTT
171315 TCAATA
1 T-AATA
171321 TCGAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
12 4 0.15
13 6 0.22
14 10 0.37
15 7 0.26
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (14 bp):
TAATAATTTATTTT
Found at i:182700 original size:7 final size:7
Alignment explanation
Indices: 182660--182711 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
182650 TTATGCTTAA
182660 AAAAAAGG
1 AAAAAA-G
*
182668 AAAAAAA
1 AAAAAAG
*
182675 AAAAAAA
1 AAAAAAG
*
182682 AAAAAAA
1 AAAAAAG
182689 AAAAAGAG
1 AAAAA-AG
182697 AAAAAAG
1 AAAAAAG
182704 AAGAAAAG
1 AA-AAAAG
182712 GGGGGGTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
7 23 0.57
8 17 0.43
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:182700 original size:12 final size:12
Alignment explanation
Indices: 182658--182710 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 12
182648 TATTATGCTT
*
182658 AAAAAAAAGGAA
1 AAAAAAAAAGAA
182670 AAAAAAAAA-AA
1 AAAAAAAAAGAA
182681 AAAAAAAAA-AA
1 AAAAAAAAAGAA
182692 AAGAGAAAAAAGAA
1 AA-A-AAAAAAGAA
*
182706 GAAAA
1 AAAAA
182711 GGGGGGGTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
11 15 0.42
12 11 0.31
13 7 0.19
14 3 0.08
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:182702 original size:1 final size:1
Alignment explanation
Indices: 182658--182693 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
182648 TATTATGCTT
**
182658 AAAAAAAAGGAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
182694 GAGAAAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:182708 original size:10 final size:10
Alignment explanation
Indices: 182658--182710 Score: 65
Period size: 9 Copynumber: 5.4 Consensus size: 10
182648 TATTATGCTT
*
182658 AAAAAAAAGG
1 AAAAAAAAAG
182668 AAAAAAAAA-
1 AAAAAAAAAG
182677 AAAAAAAAA-
1 AAAAAAAAAG
182686 AAAAAAAAGAG
1 AAAAAAAA-AG
*
182697 AAAAAAGAAG
1 AAAAAAAAAG
182707 AAAA
1 AAAA
182711 GGGGGGGTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
9 17 0.44
10 15 0.38
11 7 0.18
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:184209 original size:83 final size:83
Alignment explanation
Indices: 184070--184666 Score: 899
Period size: 83 Copynumber: 7.2 Consensus size: 83
184060 ACTGGAACAA
* *
184070 ATGAATGTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGCAGAACT
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
* * *
184135 AGTTATTGAATTTGAAAT
66 AATCATTGAATTTGAAAG
*
184153 ATGAATGTGCTCATAGCATCTTCTGTAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
* *
184218 AGTCATTGAATTTGGAAG
66 AATCATTGAATTTGAAAG
* *
184236 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
*
184301 AATCATTGAATTTGGAAG
66 AATCATTGAATTTGAAAG
* *
184319 ATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTTTGGCAGAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
*
184384 AATCATTGAAATT-AGAAG
66 AATCATTGAATTTGA-AAG
* * * * *
184402 ATGAATATGCTCATAGTATCTTCTGGAAATGATCTTTGAGTTATCTGATCTGGTTTGACAGAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
184467 AATCATTGAATTTGAAAG
66 AATCATTGAATTTGAAAG
* * * *
184485 ATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCCGATCTGGTTTGGTAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
* *
184550 AGTTATTGAATTTGAAAG
66 AATCATTGAATTTGAAAG
* * * *
184568 ATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACT
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
*
184633 AATCATTGAATTTAAAAG
66 AATCATTGAATTTGAAAG
*
184651 ATGAATTTGCTCATAG
1 ATGAATGTGCTCATAG
184667 TAAAAATAAG
Statistics
Matches: 472, Mismatches: 40, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
83 471 1.00
84 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (83 bp):
ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACC
AATCATTGAATTTGAAAG
Found at i:185653 original size:113 final size:113
Alignment explanation
Indices: 185455--186021 Score: 620
Period size: 113 Copynumber: 5.0 Consensus size: 113
185445 GCAAAGATTT
** * * ****
185455 AAATCCATCATTCAATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * * * *
185520 AAGGAAGAAGAAATTCATAATGACAAGAATTTGTTCAACCTTTCGCTC
66 AAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTC
* * * **
185568 AAATCCATCATTTGATGGATTAGCTTTATCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
185633 AAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTTAACCCTTTTGCTT
66 AAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CCTTTTGCTC
* * ** *
185682 GAATTCATCATTTGATGGATCAACAGCGCCA-AGGAGAGTTCATAATGAGAAGAACTCGTCATCT
1 AAATCCATCATTTGATGGATCAACATTGCCAGA-GAAAGTTCATAATGAGAAGAA--C-TCATCT
* * * * *
185746 GAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAATCTTTTGCTC
62 GAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTC
* * * *
185798 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCTGAAG
1 AAATCCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
185863 AAGGAAGAAGAAGTTTATAATAAGAAGAACTTGTTTAACCCTTTTGCTT
66 AAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CCTTTTGCTC
* * * * * *
185912 GAATTCATCATTTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCAT-C
1 AAATCCATCATTTGATGGATCAACATTGCCAGAG-AAAGTTCATAATGAGAAGAACTCATC-TGA
* * *
185975 TGAA-GAAGAAGAAGTTCATAATAAGAAGAGCTTGTTCAACTTTTTGC
64 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
186022 ATAATTCTAT
Statistics
Matches: 381, Mismatches: 64, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
112 7 0.02
113 163 0.43
114 113 0.30
115 1 0.00
116 53 0.14
117 44 0.12
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (113 bp):
AAATCCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTC
Found at i:185862 original size:230 final size:229
Alignment explanation
Indices: 185490--186018 Score: 851
Period size: 230 Copynumber: 2.3 Consensus size: 229
185480 TTTCCAGTTC
* *
185490 GAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAATTCATAATGACAAGAATTT
1 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTT
* *
185552 GTTCAACCTTTCGCTCAAATCCATCATTTGATGGATTAGCTTTATCAGAGAAAGTTCATAATGAG
66 GTTCAA-CTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTATCAGAGAAAGTTCATAATGAG
185617 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTTAACCCTTTTGCTT
130 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTTAACCCTTTTGCTT
185682 GAATTCATCATTTGATGGATCAACAGCGCCAAGG-A
195 GAATTCATCATTTGATGGATCAACAGCGCC-AGGTA
185717 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTT
1 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTT
185782 GTTCAATCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTT-TCCAGAGAAAGTTCATAATGA
66 GTTCAA-CTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTAT-CAGAGAAAGTTCATAATGA
* *
185846 GAAGAACTCGTCTGAAGAAGGAAGAAGAAGTTTATAATAAGAAGAACTTGTTTAACCCTTTTGCT
129 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTTAACCCTTTTGCT
* **
185911 TGAATTCATCATTTGATGGATTAACATTGCCAGGTA
194 TGAATTCATCATTTGATGGATCAACAGCGCCAGGTA
* **
185947 GAGTTCATAATGAGAAGAACTCGTCATCTGAAG-AAGAAGAAG---TTCATAATAAGAAGAGCTT
1 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTT
186008 GTTCAACTTTT
66 GTTCAACTTTT
186019 TGCATAATTC
Statistics
Matches: 284, Mismatches: 13, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
225 5 0.02
226 22 0.08
227 19 0.07
229 14 0.05
230 224 0.79
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (229 bp):
GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTT
GTTCAACTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTATCAGAGAAAGTTCATAATGAGA
AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTTAACCCTTTTGCTTG
AATTCATCATTTGATGGATCAACAGCGCCAGGTA
Found at i:186354 original size:3 final size:3
Alignment explanation
Indices: 186346--186444 Score: 153
Period size: 3 Copynumber: 33.0 Consensus size: 3
186336 CCATATTGAT
* * *
186346 TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TGA TTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
186394 TTA TTA TTA TCA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
186442 TTA
1 TTA
186445 AATATATTAA
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:187841 original size:16 final size:16
Alignment explanation
Indices: 187800--187850 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
187790 GTTCTAGTTG
**
187800 TATTTTTATTTTTACT
1 TATTTTTATTTTTAAA
* *
187816 TGTTTATATTTTTAAA
1 TATTTTTATTTTTAAA
*
187832 TATTTTTATTTATAAA
1 TATTTTTATTTTTAAA
187848 TAT
1 TAT
187851 ATATATAATA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TATTTTTATTTTTAAA
Found at i:187882 original size:15 final size:14
Alignment explanation
Indices: 187863--187909 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
187853 ATATAATAAA
187863 TAATAATTTATTTT
1 TAATAATTTATTTT
*
187877 TAAATAAATTA-TTT
1 T-AATAATTTATTTT
187891 TAAT-ATTTATTTT
1 TAATAATTTATTTT
187904 TCAATA
1 T-AATA
187910 TCGAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
12 4 0.15
13 7 0.26
14 8 0.30
15 8 0.30
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATAATTTATTTT
Found at i:192181 original size:29 final size:29
Alignment explanation
Indices: 192148--192205 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
192138 CCAAACATAA
*
192148 TAGTTTAAATACTTATGCGTAGTTTACCC
1 TAGTTTAAATACTAATGCGTAGTTTACCC
192177 TAGTTTAAATACTAATGCGTAGTTTACCC
1 TAGTTTAAATACTAATGCGTAGTTTACCC
192206 AAAAATATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (29 bp):
TAGTTTAAATACTAATGCGTAGTTTACCC
Found at i:194621 original size:16 final size:17
Alignment explanation
Indices: 194600--194637 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
194590 TCAAAATAAG
194600 AAATTCAA-A-GTGGTAT
1 AAATTCAATATGTGG-AT
194616 AAATTCAATATGTGGAT
1 AAATTCAATATGTGGAT
194633 AAATT
1 AAATT
194638 GGTAAGATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.40
17 8 0.40
18 4 0.20
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (17 bp):
AAATTCAATATGTGGAT
Found at i:194930 original size:22 final size:22
Alignment explanation
Indices: 194879--194955 Score: 72
Period size: 21 Copynumber: 3.6 Consensus size: 22
194869 TTGATTCATG
* *
194879 GGGTATCGATACCTGTATGAACA
1 GGGTATCGATACC-ATATGAAGA
194902 --GTATCGATACCATATAGAAG-
1 GGGTATCGATACCATAT-GAAGA
**
194922 GGGTATCGATA-CATATGCGGA
1 GGGTATCGATACCATATGAAGA
194943 GGGTATCGATACC
1 GGGTATCGATACC
194956 CTGGGAACTT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
20 5 0.11
21 30 0.67
22 10 0.22
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (22 bp):
GGGTATCGATACCATATGAAGA
Found at i:196662 original size:32 final size:32
Alignment explanation
Indices: 196623--196694 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
196613 TTTATGTGTT
196623 ATATGATAAATAGAAACATAAGGAAATAAGAG
1 ATATGATAAATAGAAACATAAGGAAATAAGAG
*
196655 ATATGATAAATAGAAACATATGGAAATAAGAG
1 ATATGATAAATAGAAACATAAGGAAATAAGAG
*
196687 ATAAGATA
1 ATATGATA
196695 GGTGACTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.58, C:0.03, G:0.18, T:0.21
Consensus pattern (32 bp):
ATATGATAAATAGAAACATAAGGAAATAAGAG
Found at i:201635 original size:29 final size:28
Alignment explanation
Indices: 201589--201646 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 28
201579 ATTTTCACCT
*
201589 AACTAAATTATGTAAGCAATGACATCAA
1 AACTAAATTATGTAAGCAACGACATCAA
201617 AACTAAATTGATGTAAGCAACGACATCAA
1 AACTAAATT-ATGTAAGCAACGACATCAA
201646 A
1 A
201647 TTAATTTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (28 bp):
AACTAAATTATGTAAGCAACGACATCAA
Found at i:206244 original size:29 final size:28
Alignment explanation
Indices: 206202--206261 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 28
206192 TTCACCTAAC
*
206202 TAAATTGATGTAAGCAATGATATCAAAAT
1 TAAATTGATGTAAGCAATGACATC-AAAT
206231 TAAATTGATGTAAGCAATGACATCAAAT
1 TAAATTGATGTAAGCAATGACATCAAAT
206259 TAA
1 TAA
206262 TTTAGGCGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.30
Consensus pattern (28 bp):
TAAATTGATGTAAGCAATGACATCAAAT
Found at i:206831 original size:14 final size:15
Alignment explanation
Indices: 206807--206835 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
206797 TTTTAACGTA
206807 AATATATATTTTTAT
1 AATATATATTTTTAT
206822 AATA-ATATTTTTAT
1 AATATATATTTTTAT
206836 TATTAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATATATATTTTTAT
Found at i:207232 original size:21 final size:22
Alignment explanation
Indices: 207182--207238 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 22
207172 TTAATAAATG
*
207182 ATTAAT-ATTCTAAAATAAGAAT
1 ATTAATAATT-TAAAATAAGAAC
*
207204 ATT-TTAATTTAAAATAA-AAC
1 ATTAATAATTTAAAATAAGAAC
207224 ATTAATAA-TTAAAAT
1 ATTAATAATTTAAAAT
207239 GATCTAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 12 0.40
21 12 0.40
22 6 0.20
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTAATAATTTAAAATAAGAAC
Found at i:209869 original size:24 final size:25
Alignment explanation
Indices: 209834--209900 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
209824 GATTGGGCCC
209834 GATTTA-GGTTTTAGTTTGGGGCAT
1 GATTTAGGGTTTTAGTTTGGGGCAT
*
209858 G-TTT-GGGTTTTTA-TTTGGGGCTT
1 GATTTAGGG-TTTTAGTTTGGGGCAT
209881 GATTTAGGGTTTT-GTTTGGG
1 GATTTAGGGTTTTAGTTTGGG
209901 TATTGTAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
23 15 0.41
24 19 0.51
25 3 0.08
ACGTcount: A:0.10, C:0.03, G:0.36, T:0.51
Consensus pattern (25 bp):
GATTTAGGGTTTTAGTTTGGGGCAT
Found at i:209955 original size:16 final size:18
Alignment explanation
Indices: 209934--209966 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
209924 GTGTAATAAT
209934 AATAATA-ATAA-ATGAA
1 AATAATATATAATATGAA
209950 AATAATATATAATATGA
1 AATAATATATAATATGA
209967 GAAAAAATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (18 bp):
AATAATATATAATATGAA
Found at i:210704 original size:54 final size:54
Alignment explanation
Indices: 210548--210774 Score: 250
Period size: 54 Copynumber: 4.3 Consensus size: 54
210538 TGATAGATGG
* * * ** * ** *
210548 CGTGCCCACGCCATAACTGAATATTTCTTCTGCGAAAGATGTGGGTGAATAAGT
1 CGTGCCCACGCCTTAACTGAAGACTTCTTCTGCGTTAGCTCCGGATGAATAAGT
* * * *
210602 --T-CCCACGCCTTAAGT-AGAGA-TTCTTTTGCAG-TAGCTCGGGATGGATAAGT
1 CGTGCCCACGCCTTAACTGA-AGACTTCTTCTGC-GTTAGCTCCGGATGAATAAGT
*
210652 CGTGCCCACGCCTTAACTGAAGACTTCTTCTGCGTTAGCTCCGGATAAATAAGT
1 CGTGCCCACGCCTTAACTGAAGACTTCTTCTGCGTTAGCTCCGGATGAATAAGT
* *
210706 CGTGCCCAAGCCTTAACTGAAGACTTCTTCTGCGTTAGCTCTGGATGAATAAGT
1 CGTGCCCACGCCTTAACTGAAGACTTCTTCTGCGTTAGCTCCGGATGAATAAGT
210760 CGTGCCCACGCCTTA
1 CGTGCCCACGCCTTA
210775 TGCGAACGCC
Statistics
Matches: 146, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
50 22 0.15
51 15 0.10
52 2 0.01
53 17 0.12
54 90 0.62
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (54 bp):
CGTGCCCACGCCTTAACTGAAGACTTCTTCTGCGTTAGCTCCGGATGAATAAGT
Found at i:219921 original size:15 final size:15
Alignment explanation
Indices: 219901--219933 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
219891 TTAGCTGGGT
*
219901 GGGCGGATGTGGGGC
1 GGGCGGATGCGGGGC
219916 GGGCGGATGCGGGGC
1 GGGCGGATGCGGGGC
219931 GGG
1 GGG
219934 TAATGTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.15, G:0.70, T:0.09
Consensus pattern (15 bp):
GGGCGGATGCGGGGC
Found at i:221652 original size:36 final size:36
Alignment explanation
Indices: 221605--221677 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
221595 AGTTCTGAAA
221605 TTAAGTGATAAAAGAATCAGCCATCGATATGTAGAT
1 TTAAGTGATAAAAGAATCAGCCATCGATATGTAGAT
* *
221641 TTAAGTGATAAAAGAATCATCCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAGCCATCGATATGTAGAT
221677 T
1 T
221678 ATAATTTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (36 bp):
TTAAGTGATAAAAGAATCAGCCATCGATATGTAGAT
Found at i:223459 original size:24 final size:24
Alignment explanation
Indices: 223431--223513 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
223421 AAATATTTTA
*
223431 TCTGATTTCTGACTTGAATTTTGT
1 TCTGATTTCTGACTTGAATTCTGT
* *
223455 TCTGA-TACATGACCTGAATTCTGT
1 TCTGATTTC-TGACTTGAATTCTGT
* *
223479 TCTGATATCTG-TTCTGAATTCTGT
1 TCTGATTTCTGACT-TGAATTCTGT
*
223503 TTTGATTTCTG
1 TCTGATTTCTG
223514 TTATCTCTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
23 2 0.04
24 44 0.94
25 1 0.02
ACGTcount: A:0.18, C:0.16, G:0.17, T:0.49
Consensus pattern (24 bp):
TCTGATTTCTGACTTGAATTCTGT
Found at i:223483 original size:12 final size:12
Alignment explanation
Indices: 223468--223515 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
223458 GATACATGAC
223468 CTGAATTCTGTT
1 CTGAATTCTGTT
223480 CTG-ATATCTGTT
1 CTGAAT-TCTGTT
223492 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
223504 TTGATTTCTGTT
1 CTGAATTCTGTT
223516 ATCTCTGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 2 0.06
12 28 0.88
13 2 0.06
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.54
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:223514 original size:24 final size:24
Alignment explanation
Indices: 223445--223515 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
223435 ATTTCTGACT
* **
223445 TGAATTTTGTTCTGATA-CATGACC
1 TGAATTCTGTTCTGATATC-TGTTC
223469 TGAATTCTGTTCTGATATCTGTTC
1 TGAATTCTGTTCTGATATCTGTTC
* *
223493 TGAATTCTGTTTTGATTTCTGTT
1 TGAATTCTGTTCTGATATCTGTT
223516 ATCTCTGTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 40 0.98
25 1 0.02
ACGTcount: A:0.18, C:0.14, G:0.17, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGTTC
Found at i:226334 original size:36 final size:36
Alignment explanation
Indices: 226287--226359 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
226277 AGTTCTGGAA
226287 TTAAGTGATAAAAGAATCAGCCATCGATATGTAGAT
1 TTAAGTGATAAAAGAATCAGCCATCGATATGTAGAT
* *
226323 TTAAGTGATAAAAGAATCATCCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAGCCATCGATATGTAGAT
226359 T
1 T
226360 ATAATTTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (36 bp):
TTAAGTGATAAAAGAATCAGCCATCGATATGTAGAT
Found at i:228171 original size:12 final size:12
Alignment explanation
Indices: 228133--228225 Score: 75
Period size: 12 Copynumber: 7.8 Consensus size: 12
228123 ATTTCTGACT
228133 TGAATTCTGTTC
1 TGAATTCTGTTC
* **
228145 TG-ATACATGACC
1 TGAATTC-TGTTC
228157 TGAATTCTGTTC
1 TGAATTCTGTTC
*
228169 TGATTTCTGATT-
1 TGAATTCTG-TTC
*
228181 TGGATTCTGTTC
1 TGAATTCTGTTC
228193 TG-ATATCTGTTC
1 TGAAT-TCTGTTC
*
228205 TGAATTCTGTTT
1 TGAATTCTGTTC
*
228217 TGATTTCTG
1 TGAATTCTG
228226 ATATCTCCGT
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
11 7 0.11
12 50 0.78
13 7 0.11
ACGTcount: A:0.17, C:0.15, G:0.18, T:0.49
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:228225 original size:24 final size:25
Alignment explanation
Indices: 228119--228227 Score: 120
Period size: 24 Copynumber: 4.5 Consensus size: 25
228109 AAATATTTTA
*
228119 TCTGATTTCTGACT-TGAATTCTGT
1 TCTGATTTCTGATTCTGAATTCTGT
* *
228143 TCTGA-TACATGA-CCTGAATTCTGT
1 TCTGATTTC-TGATTCTGAATTCTGT
*
228167 TCTGATTTCTGATT-TGGATTCTGT
1 TCTGATTTCTGATTCTGAATTCTGT
*
228191 TCTGATATCTG-TTCTGAATTCTGT
1 TCTGATTTCTGATTCTGAATTCTGT
*
228215 TTTGATTTCTGAT
1 TCTGATTTCTGAT
228228 ATCTCCGTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
23 4 0.06
24 63 0.90
25 3 0.04
ACGTcount: A:0.17, C:0.16, G:0.17, T:0.50
Consensus pattern (25 bp):
TCTGATTTCTGATTCTGAATTCTGT
Found at i:228227 original size:48 final size:48
Alignment explanation
Indices: 228119--228227 Score: 157
Period size: 48 Copynumber: 2.3 Consensus size: 48
228109 AAATATTTTA
*
228119 TCTGATTTCTGACTTGAATTCTGTTCTGATACATGACCTGAATTCTGT
1 TCTGATTTCTGATTTGAATTCTGTTCTGATACATGACCTGAATTCTGT
* **
228167 TCTGATTTCTGATTTGGATTCTGTTCTGATATC-TGTTCTGAATTCTGT
1 TCTGATTTCTGATTTGAATTCTGTTCTGATA-CATGACCTGAATTCTGT
*
228215 TTTGATTTCTGAT
1 TCTGATTTCTGAT
228228 ATCTCCGTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 54 0.98
49 1 0.02
ACGTcount: A:0.17, C:0.16, G:0.17, T:0.50
Consensus pattern (48 bp):
TCTGATTTCTGATTTGAATTCTGTTCTGATACATGACCTGAATTCTGT
Found at i:234133 original size:1 final size:1
Alignment explanation
Indices: 234122--234234 Score: 73
Period size: 1 Copynumber: 113.0 Consensus size: 1
234112 CTCCTTTCAG
* * * * * * * * * * *
234122 TTTTCTTTTTTTTTTCTCTTTTTTTCTCTCTTTTTTTCTTTTATTTTTTTCTTTTTTCTTTTATT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * *
234187 TTTTTCTTTTTCTTTTATTTTTTTATTTTTTTATTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
234235 CCCTTCTTTT
Statistics
Matches: 78, Mismatches: 34, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 78 1.00
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:234143 original size:13 final size:12
Alignment explanation
Indices: 234122--234235 Score: 94
Period size: 13 Copynumber: 9.4 Consensus size: 12
234112 CTCCTTTCAG
234122 TTTTC-TTTTTT
1 TTTTCTTTTTTT
*
234133 TTTTC--TCTTT
1 TTTTCTTTTTTT
* *
234143 TTTTCTCTCTTT
1 TTTTCTTTTTTT
234155 TTTTCTTTTATTT
1 TTTTCTTTT-TTT
234168 TTTTCTTTTTTCT
1 TTTTCTTTTTT-T
234181 TTTAT-TTTTTTCT
1 TTT-TCTTTTTT-T
234194 TTTTCTTTTATTT
1 TTTTCTTTT-TTT
*
234207 TTTTATTTTTTT
1 TTTTCTTTTTTT
*
234219 ATTTT-TTTATTT
1 -TTTTCTTTTTTT
234231 TTTTC
1 TTTTC
234236 CCTTCTTTTC
Statistics
Matches: 89, Mismatches: 5, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
10 9 0.10
11 9 0.10
12 24 0.27
13 44 0.49
14 3 0.03
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:234153 original size:25 final size:25
Alignment explanation
Indices: 234125--234218 Score: 85
Period size: 27 Copynumber: 3.9 Consensus size: 25
234115 CTTTCAGTTT
*
234125 TCTTTTTTT-TTTCTCTTTTTTTCTC
1 TCTTTTTTTCTTT-TATTTTTTTCTC
234150 TCTTTTTTTCTTTTA--TTTTT-T-
1 TCTTTTTTTCTTTTATTTTTTTCTC
*
234171 TC-TTTTTTCTTTTATTTTTTTCTTTT
1 TCTTTTTTTCTTTTATTTTTTTC--TC
234197 TCTTTTATTT-TTTTATTTTTTT
1 TCTTTT-TTTCTTTTATTTTTTT
234219 ATTTTTTTAT
Statistics
Matches: 59, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
20 12 0.20
21 2 0.03
22 6 0.10
23 5 0.08
25 11 0.19
26 5 0.08
27 15 0.25
28 3 0.05
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (25 bp):
TCTTTTTTTCTTTTATTTTTTTCTC
Found at i:234155 original size:20 final size:21
Alignment explanation
Indices: 234127--234216 Score: 109
Period size: 20 Copynumber: 4.5 Consensus size: 21
234117 TTCAGTTTTC
234127 TTTTT-TTTTTCTCTTTT-TT
1 TTTTTCTTTTTCTCTTTTATT
* * *
234146 TCTCTCTTTTTTTCTTTTATT
1 TTTTTCTTTTTCTCTTTTATT
234167 TTTTTCTTTTT-TCTTTTATT
1 TTTTTCTTTTTCTCTTTTATT
234187 TTTTTC-TTTT-TCTTTTATT
1 TTTTTCTTTTTCTCTTTTATT
*
234206 TTTTTATTTTT
1 TTTTTCTTTTT
234217 TTATTTTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
19 21 0.34
20 30 0.48
21 11 0.18
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTCTTTTTCTCTTTTATT
Found at i:234159 original size:33 final size:33
Alignment explanation
Indices: 234122--234234 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 33
234112 CTCCTTTCAG
*
234122 TTTTCTTTTTTTTTTCTCTTTTTTTC-TCTCTTT
1 TTTTCTTTTTTTTTT-TCTTTTTTTCTTCTATTT
*
234155 TTTTCTTTTATTTTTTTC-TTTTTTCTTTTATTT
1 TTTTCTTTT-TTTTTTTCTTTTTTTCTTCTATTT
* *
234188 TTTTCTTTTTCTTTTATT-TTTTTATTTTTTTATTT
1 TTTTCTTTTT-TTTT-TTCTTTTT-TTCTTCTATTT
*
234223 TTTTATTTTTTT
1 TTTTCTTTTTTT
234235 CCCTTCTTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
32 8 0.11
33 29 0.41
34 14 0.20
35 19 0.27
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (33 bp):
TTTTCTTTTTTTTTTTCTTTTTTTCTTCTATTT
Found at i:234217 original size:20 final size:20
Alignment explanation
Indices: 234153--234233 Score: 109
Period size: 19 Copynumber: 4.3 Consensus size: 20
234143 TTTTCTCTCT
*
234153 TTTTTTCTTTTATTTTTTTC
1 TTTTTTCTTTTATTTTTTTA
234173 TTTTTTCTTTTATTTTTTT-
1 TTTTTTCTTTTATTTTTTTA
*
234192 CTTTTTCTTTTATTTTTTTA
1 TTTTTTCTTTTATTTTTTTA
234212 ---TTT-TTTTATTTTTTTA
1 TTTTTTCTTTTATTTTTTTA
234228 TTTTTT
1 TTTTTT
234234 TCCCTTCTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
16 13 0.23
17 3 0.05
19 21 0.38
20 19 0.34
ACGTcount: A:0.07, C:0.06, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTTTTCTTTTATTTTTTTA
Found at i:234218 original size:8 final size:8
Alignment explanation
Indices: 234160--234234 Score: 84
Period size: 8 Copynumber: 9.5 Consensus size: 8
234150 TCTTTTTTTC
234160 TTTTATTT
1 TTTTATTT
*
234168 TTTTCTTT
1 TTTTATTT
234176 TTTCT-TTT
1 TTT-TATTT
234184 ATTTT-TTT
1 -TTTTATTT
* *
234192 CTTT-TTC
1 TTTTATTT
234199 TTTTATTT
1 TTTTATTT
234207 TTTTATTT
1 TTTTATTT
234215 TTTTATTT
1 TTTTATTT
234223 TTTTATTT
1 TTTTATTT
234231 TTTT
1 TTTT
234235 CCCTTCTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
7 8 0.14
8 47 0.80
9 4 0.07
ACGTcount: A:0.08, C:0.05, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTATTT
Found at i:234504 original size:68 final size:69
Alignment explanation
Indices: 234373--234510 Score: 188
Period size: 68 Copynumber: 2.0 Consensus size: 69
234363 CAAGCTTGAC
* * * * *
234373 AACACTATGATGTTTCCATAATCATAACCTTAATTCCAACCTTTATTTGAATGAAAAACAGAGCA
1 AACAATATGATGTTTCCATAATCATAACCTAAAATCCAACCATCATTTGAATGAAAAACAGAGCA
234438 TGAG
66 TGAG
* * * *
234442 AACAATATGATGTTTTCATAATCCTAACC-AAAATCCAACCATCATTTGAATGAGAAATAGAGCA
1 AACAATATGATGTTTCCATAATCATAACCTAAAATCCAACCATCATTTGAATGAAAAACAGAGCA
234506 TGAG
66 TGAG
234510 A
1 A
234511 GCTAGTGATG
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
68 34 0.57
69 26 0.43
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.28
Consensus pattern (69 bp):
AACAATATGATGTTTCCATAATCATAACCTAAAATCCAACCATCATTTGAATGAAAAACAGAGCA
TGAG
Found at i:239387 original size:23 final size:21
Alignment explanation
Indices: 239361--239417 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
239351 TCTTATAAAA
*
239361 AATAAAATAAAAAATT-TATT
1 AATAAAATAAAAAATTATAAT
239381 AATAATAATAAATAAATTATAAT
1 AATAA-AATAAA-AAATTATAAT
239404 AATAAAAATAAAAA
1 AAT-AAAATAAAAA
239418 TATAAAATCC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.16
21 6 0.19
22 7 0.22
23 12 0.38
24 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAAAATAAAAAATTATAAT
Found at i:239403 original size:20 final size:22
Alignment explanation
Indices: 239361--239415 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 22
239351 TCTTATAAAA
239361 AATAA-AATAAA-AAATTTATT
1 AATAATAATAAATAAATTTATT
239381 AATAATAATAAATAAA-TTA-T
1 AATAATAATAAATAAATTTATT
239401 AATAATAA-AAATAAA
1 AATAATAATAAATAAA
239416 AATATAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.21
20 14 0.42
21 9 0.27
22 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AATAATAATAAATAAATTTATT
Found at i:239421 original size:20 final size:20
Alignment explanation
Indices: 239380--239422 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
239370 AAAAATTTAT
*
239380 TAATAATAATAAATAAATTA
1 TAATAATAATAAATAAAATA
239400 TAATAATAA-AAATAAAAATA
1 TAATAATAATAAAT-AAAATA
239420 TAA
1 TAA
239423 AATCCGGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
TAATAATAATAAATAAAATA
Found at i:240474 original size:105 final size:105
Alignment explanation
Indices: 239943--240828 Score: 1346
Period size: 106 Copynumber: 8.4 Consensus size: 105
239933 TATTGTTCCA
* * * * *
239943 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACT-AGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA-GAAA-TGTTTATTGACAA
240007 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
240049 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGATAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTATTGACAAC
* *
240114 CAGCGGTCCCTTTGTCGTGAAGTTGAACATGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
240155 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTATTGACAAC
*
240220 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
240261 AGTCCAATATCATTCGCTAG-GAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 AGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTATTGACAA
*
240325 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
240367 AGTCCAATATCTTTCGCTGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATATTTATTGACAACC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACC
240432 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
240472 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACC
240537 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
240577 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACC
* *
240642 AGCGGTCCCTTCGTCATGAAGTTGAACTTACGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
240682 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAGAAGTGGA-AAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAATTGAGAAA-TGTTTATTGACAA
240746 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
240788 AGTCCAATTTTCTTCGCTGCGAAGTTGAAATAGACTCTGAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA
240829 TGAAATTGGA
Statistics
Matches: 727, Mismatches: 47, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
105 299 0.41
106 426 0.59
107 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:246080 original size:23 final size:21
Alignment explanation
Indices: 246053--246109 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
246043 TCCTATAAAA
*
246053 AATAAAATAAAAAATT-TATT
1 AATAAAATAAAAAATTATAAT
246073 AATAATAATAAATAAATTATAAT
1 AATAA-AATAAA-AAATTATAAT
246096 AATAAAAATAAAAA
1 AAT-AAAATAAAAA
246110 TATAAAATCC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.16
21 6 0.19
22 7 0.22
23 12 0.38
24 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAAAATAAAAAATTATAAT
Found at i:246095 original size:20 final size:22
Alignment explanation
Indices: 246053--246107 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 22
246043 TCCTATAAAA
246053 AATAA-AATAAA-AAATTTATT
1 AATAATAATAAATAAATTTATT
246073 AATAATAATAAATAAA-TTA-T
1 AATAATAATAAATAAATTTATT
246093 AATAATAA-AAATAAA
1 AATAATAATAAATAAA
246108 AATATAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.21
20 14 0.42
21 9 0.27
22 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AATAATAATAAATAAATTTATT
Found at i:246113 original size:20 final size:20
Alignment explanation
Indices: 246072--246114 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
246062 AAAAATTTAT
*
246072 TAATAATAATAAATAAATTA
1 TAATAATAATAAATAAAATA
246092 TAATAATAA-AAATAAAAATA
1 TAATAATAATAAAT-AAAATA
246112 TAA
1 TAA
246115 AATCCGGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
TAATAATAATAAATAAAATA
Done.