Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_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: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 32
Found at i:855595 original size:21 final size:20
Alignment explanation
Indices: 855569--855675 Score: 93
Period size: 21 Copynumber: 5.5 Consensus size: 20
855559 TGCAGAAGAG
855569 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* * **
855590 TCGCAACGTGAAAATCACTA
1 TCGCAACGAGAAAATGAAAA
855610 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
855632 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
855646 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
855665 TCGCAACGAGA
1 TCGCAACGAGA
855676 GAATCGCAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 11 0.16
20 8 0.12
21 25 0.37
22 9 0.13
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:855649 original size:14 final size:14
Alignment explanation
Indices: 855630--855686 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
855620 GAAAAATGAA
855630 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
855644 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
855663 AATCGCAACGAGAG
1 AATCGCAACGAGAG
855677 AATCGCAACG
1 AATCGCAACG
855687 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:855661 original size:33 final size:33
Alignment explanation
Indices: 855623--855702 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
855613 GCAACGAGAA
855623 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
855656 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
855689 AAACCAAAATCGCA
1 AAATGAAAATCGCA
855703 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:855739 original size:14 final size:14
Alignment explanation
Indices: 855720--855776 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
855710 TTTCATTTCG
855720 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
855734 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
855753 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
855767 CGTTGCGATT
1 CGTTGCGATT
855777 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:855745 original size:33 final size:33
Alignment explanation
Indices: 855703--855784 Score: 164
Period size: 33 Copynumber: 2.5 Consensus size: 33
855693 CAAAATCGCA
855703 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
855736 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
855769 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
855785 TCTCATTGCG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:855787 original size:21 final size:21
Alignment explanation
Indices: 855761--855825 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
855751 CGCGTTGCGA
855761 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
* ***
855782 TTCTCTCATTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
855802 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
855823 TTC
1 TTC
855826 AACCAAAGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.12, C:0.26, G:0.14, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:857667 original size:93 final size:93
Alignment explanation
Indices: 857508--857823 Score: 614
Period size: 93 Copynumber: 3.4 Consensus size: 93
857498 TAGATTGCTT
* *
857508 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATTGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
857573 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
857601 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
857666 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
857694 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
857759 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
857787 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
857824 AATACCCTGA
Statistics
Matches: 221, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 221 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:857958 original size:14 final size:14
Alignment explanation
Indices: 857939--857995 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
857929 CGAAACTTAA
857939 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
857953 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
857972 AATCGCAACGACAG
1 AATCGCAACGAGAG
857986 AATCGCAACG
1 AATCGCAACG
857996 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:857974 original size:33 final size:33
Alignment explanation
Indices: 857937--858011 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
857927 CACGAAACTT
* **
857937 AAAATCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGACAGAATCGCAACGCGAAACC
857970 AAAATCGCAACGACAGAATCGCAACGCGAAACC
1 AAAATCGCAACGACAGAATCGCAACGCGAAACC
858003 AAAATCGCA
1 AAAATCGCA
858012 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.47, C:0.25, G:0.20, T:0.08
Consensus pattern (33 bp):
AAAATCGCAACGACAGAATCGCAACGCGAAACC
Found at i:858010 original size:19 final size:18
Alignment explanation
Indices: 857953--858011 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
857943 GCAACGAGAG
*
857953 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-CAA
*
857972 AATCGCAA--CG--ACAG
1 AATCGCAACGCGAAACAA
857986 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-CAA
858005 AATCGCA
1 AATCGCA
858012 TTGCGATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 9 0.28
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.53
ACGTcount: A:0.46, C:0.27, G:0.19, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAACAA
Found at i:858029 original size:19 final size:19
Alignment explanation
Indices: 858007--858160 Score: 139
Period size: 19 Copynumber: 8.6 Consensus size: 19
857997 GAAACCAAAA
*
858007 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
858026 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
858040 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
858059 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
858075 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
858092 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
858111 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
858130 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
858150 TCGTGTTGCGA
1 TCGCGTTGCGA
858161 AAGTAAACTA
Statistics
Matches: 107, Mismatches: 17, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
14 17 0.16
16 8 0.07
17 8 0.07
19 62 0.58
20 12 0.11
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:858048 original size:14 final size:14
Alignment explanation
Indices: 858029--858085 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
858019 TTTCATTTCG
858029 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
858043 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
858060 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
858076 CGTTGCGATT
1 CGTTGCGATT
858086 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:858054 original size:33 final size:33
Alignment explanation
Indices: 858012--858142 Score: 181
Period size: 33 Copynumber: 3.8 Consensus size: 33
858002 CAAAATCGCA
858012 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
858045 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
858078 TTGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGA---T--TCTCTCG
*
858116 TTGCGATTCTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
858143 TTAAGTTTCG
Statistics
Matches: 87, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
33 56 0.64
35 1 0.01
36 1 0.01
38 29 0.33
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:860102 original size:14 final size:14
Alignment explanation
Indices: 860083--860118 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
860073 ATTGTTTAAT
860083 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
860097 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
860111 TGATTTGT
1 TGATTTGT
860119 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:860241 original size:19 final size:19
Alignment explanation
Indices: 860225--860322 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
860215 AAAAATGACT
860225 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
860244 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
860263 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
860277 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
860296 ATCGTAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
860316 ATCGCAA
1 ATCGCAA
860323 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 38 0.55
20 15 0.22
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:860305 original size:52 final size:53
Alignment explanation
Indices: 860225--860341 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
860215 AAAAATGACT
860225 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
860277 ATCGCAATGCGAAATGAAAATCGTAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
860330 ATCGCAATGCGA
1 ATCGCAATGCGA
860342 TTTTCATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 28 0.44
53 35 0.56
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:860361 original size:19 final size:19
Alignment explanation
Indices: 860331--860539 Score: 250
Period size: 19 Copynumber: 11.7 Consensus size: 19
860321 AACGAGAGAA
*
860331 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
860350 TTGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
860369 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
860385 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
860402 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
860421 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
860438 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
860455 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
860474 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
860493 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
860511 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
860527 TCGCATTGCGATT
1 TCGCATTGCGATT
860540 CTCTCGTTGC
Statistics
Matches: 164, Mismatches: 9, Indels: 34
0.79 0.04 0.16
Matches are distributed among these distances:
14 23 0.14
16 14 0.09
17 14 0.09
18 4 0.02
19 83 0.51
20 26 0.16
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:860450 original size:53 final size:52
Alignment explanation
Indices: 860337--860553 Score: 309
Period size: 53 Copynumber: 4.1 Consensus size: 52
860327 AGAATCGCAA
*
860337 TGCGATTTTCATTTTGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
860389 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
*
860442 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--T
*
860500 TGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
860547 TGCGATT
1 TGCGATT
860554 GTAATTTCCG
Statistics
Matches: 154, Mismatches: 4, Indels: 19
0.87 0.02 0.11
Matches are distributed among these distances:
47 8 0.05
49 2 0.01
50 2 0.01
51 3 0.02
52 42 0.27
53 76 0.49
54 3 0.02
55 3 0.02
56 3 0.02
58 12 0.08
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:860467 original size:72 final size:72
Alignment explanation
Indices: 860331--860539 Score: 275
Period size: 72 Copynumber: 2.9 Consensus size: 72
860321 AACGAGAGAA
* * * * * *
860331 TCGCAATGCGATTTTCATTT-TGCATTGCGATTTTCAT-TT-CGCA-TTGCGATTCTCTCGTTGC
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCATGTTGCG-ATTTTC-ATT-TCGCATTGC
860392 GATTTTCATT
63 GATTTTCATT
860402 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTGCGA
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCAT-GTTGCGATTTTCATTTCGCATTGCGA
860466 TTTTCATT
65 TTTTCATT
* *
860474 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCATGTTGCGATTTTCATTTCGCATTGCGAT
860539 T
66 T
860540 CTCTCGTTGC
Statistics
Matches: 124, Mismatches: 8, Indels: 11
0.87 0.06 0.08
Matches are distributed among these distances:
71 20 0.16
72 92 0.74
73 7 0.06
74 5 0.04
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (72 bp):
TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCATGTTGCGATTTTCATTTCGCATTGCGAT
TTTCATT
Found at i:860561 original size:33 final size:33
Alignment explanation
Indices: 860407--860553 Score: 188
Period size: 33 Copynumber: 4.2 Consensus size: 33
860397 TCATTTCGCA
860407 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
860441 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
*
860477 CATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 --TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
860513 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
860546 TTGCGATT
1 TTGCGATT
860554 GTAATTTCCG
Statistics
Matches: 99, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
32 1 0.01
33 32 0.32
34 29 0.29
35 3 0.03
36 6 0.06
37 3 0.03
38 15 0.15
39 10 0.10
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:860561 original size:105 final size:103
Alignment explanation
Indices: 860337--860553 Score: 307
Period size: 105 Copynumber: 2.1 Consensus size: 103
860327 AGAATCGCAA
*
860337 TGCGATTTTCATTTTGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCA-T
860402 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
65 TCG-ATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
860442 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--TTGCGATT
*
860507 TTCA-T-G-TTGGGATTTTCATTT-CGCATTGCGATTCTCTCGT
60 TTCATTCGATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
860547 TGCGATT
1 TGCGATT
860554 GTAATTTCCG
Statistics
Matches: 103, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
105 68 0.66
106 14 0.14
107 3 0.03
108 3 0.03
109 3 0.03
111 12 0.12
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (103 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
CGATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:862853 original size:12 final size:12
Alignment explanation
Indices: 862836--862860 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
862826 TCTTCGGGGA
862836 CTTTTTCTTCTT
1 CTTTTTCTTCTT
862848 CTTTTTCTTCTT
1 CTTTTTCTTCTT
862860 C
1 C
862861 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:863069 original size:24 final size:24
Alignment explanation
Indices: 863035--863081 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
863025 CTGAAACATC
863035 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
863059 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
863082 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:863755 original size:20 final size:20
Alignment explanation
Indices: 863727--863955 Score: 248
Period size: 20 Copynumber: 11.4 Consensus size: 20
863717 AAATTTCAGT
* * * *
863727 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
863747 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
863767 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
863787 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
863807 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
863827 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
*
863847 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
863867 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
* *
863887 GTTGCGGTTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
863907 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
863927 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
863947 GTTGCGATT
1 GTTGCGATT
863956 CTGGAAAATG
Statistics
Matches: 184, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
19 3 0.02
20 178 0.97
21 3 0.02
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:864220 original size:16 final size:15
Alignment explanation
Indices: 864181--864221 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
864171 GACTCATAAA
864181 TAAATTTGTTTAATAT
1 TAAATTT-TTTAATAT
*
864197 TAATTTTTTTAATATT
1 TAAATTTTTTAATA-T
864213 TAAATTTTT
1 TAAATTTTT
864222 ATAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
TAAATTTTTTAATAT
Found at i:864229 original size:16 final size:17
Alignment explanation
Indices: 864181--864229 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 17
864171 GACTCATAAA
864181 TAAATTTGTT-TAATA-T
1 TAAATTT-TTATAATATT
*
864197 T-AATTTTTTTAATATT
1 TAAATTTTTATAATATT
864213 TAAATTTTTATAA-ATT
1 TAAATTTTTATAATATT
864229 T
1 T
864230 TAATAATGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 2 0.07
15 10 0.34
16 7 0.24
17 10 0.34
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TAAATTTTTATAATATT
Found at i:865026 original size:7 final size:7
Alignment explanation
Indices: 865014--865053 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
865004 GGTTGGATAT
865014 GAAAGAA
1 GAAAGAA
865021 GAAAGAA
1 GAAAGAA
865028 GAAAGAA
1 GAAAGAA
865035 GAAAGAA
1 GAAAGAA
*
865042 TAAAGAA
1 GAAAGAA
*
865049 TAAAG
1 GAAAG
865054 TTGATTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (7 bp):
GAAAGAA
Found at i:866648 original size:45 final size:43
Alignment explanation
Indices: 866570--866663 Score: 111
Period size: 45 Copynumber: 2.2 Consensus size: 43
866560 AAAAAATCAC
* *
866570 TAATTTACTAATAAATAATAAAAAGATAAAAATTTACTAATCTAT
1 TAATTTTCTAATAAATAATAAAAAGATAAAAA-TTAATAAT-TAT
* *
866615 TAATTTTCTAATAAATAATTAAAA-ATATTAAATTAATAATTAT
1 TAATTTTCTAATAAATAATAAAAAGATA-AAAATTAATAATTAT
866658 T-ATTTT
1 TAATTTT
866664 ACTACACTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
42 5 0.11
43 4 0.09
44 10 0.23
45 25 0.57
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (43 bp):
TAATTTTCTAATAAATAATAAAAAGATAAAAATTAATAATTAT
Found at i:868543 original size:43 final size:43
Alignment explanation
Indices: 868455--868543 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 43
868445 TTTAGTGGCG
* * * *
868455 TTTTTGTACAAACGCCGCTATAGTACGAGTCTTTACCGGCCTT
1 TTTTTATACAAACGCCGCTATAGTACCAGTCTATACCGACCTT
* * *
868498 TTTTTATACAAACGCCGCTATAG-ACTCATTCTATAGCGACGTT
1 TTTTTATACAAACGCCGCTATAGTAC-CAGTCTATACCGACCTT
868541 TTT
1 TTT
868544 ATAGAAACAC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (43 bp):
TTTTTATACAAACGCCGCTATAGTACCAGTCTATACCGACCTT
Found at i:868645 original size:41 final size:41
Alignment explanation
Indices: 868407--868751 Score: 152
Period size: 41 Copynumber: 8.4 Consensus size: 41
868397 AATAATGTTC
* *
868407 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGA-T--TAA
1 TTTAGTGGCATTTTTATACAAACGCCGCGAAAGACTCATAA
* * * * * *
868445 TTTAGTGGCGTTTTTGTACAAACGCCGCTATAGTAC-GAGT-C
1 TTTAGTGGCATTTTTATACAAACGCCGCGAAAG-ACTCA-TAA
** * * * **
868486 TTTACCGGCCTTTTTTTATACAAACGCCGCTATAGACTCATTC
1 TTTAGTGG-C-ATTTTTATACAAACGCCGCGAAAGACTCATAA
* * * * * * * * * * *
868529 TATAGCGACGTTTTTATAGAAACACCGCTAAATAAT-TTAC
1 TTTAGTGGCATTTTTATACAAACGCCGCGAAAGACTCATAA
868569 TTTAGTGGCATTTTTATACAAACGCCGCGAAAGACT-ATAA
1 TTTAGTGGCATTTTTATACAAACGCCGCGAAAGACTCATAA
* * * * *
868609 TTTAGTGGCATTTTTAGAACAAACGCCGTTG-TAGACTCGTGA
1 TTTAGTGGCATTTTTA-TACAAACGCCG-CGAAAGACTCATAA
* * * * *
868651 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGTAC-GAGT-C
1 TTTAGTGGCATTTTTATACAAACGCCGCGAAAG-ACTCA-TAA
* * * * *
868692 TTTAGCGGCGTTTTTTATACAAACGCCGCTAAATACTCATAC
1 TTTAGTGGC-ATTTTTATACAAACGCCGCGAAAGACTCATAA
* *
868734 TATAGTGGCGTTTTTATA
1 TTTAGTGGCATTTTTATA
868752 TAAATGCCTC
Statistics
Matches: 239, Mismatches: 50, Indels: 33
0.74 0.16 0.10
Matches are distributed among these distances:
38 31 0.13
39 1 0.00
40 47 0.20
41 74 0.31
42 57 0.24
43 29 0.12
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (41 bp):
TTTAGTGGCATTTTTATACAAACGCCGCGAAAGACTCATAA
Found at i:868663 original size:122 final size:122
Alignment explanation
Indices: 868407--868680 Score: 293
Period size: 122 Copynumber: 2.2 Consensus size: 122
868397 AATAATGTTC
* * *
868407 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGATTAATTTAGTGGCGTTTTTGTACAAACGCCG
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAAATTAATTTAGTGGCATTTTTATACAAACGCCG
* * * * ** **
868472 CTATAGTACGAGTCTTTACCGGCCTTTTTTTATACAAACGCCGCTATAGACTCATTC
66 CGAAAGTACGAGTATTTACCGGCATTTTTAGATACAAACGCCGCTATAGACTCATGA
* * * * * *
868529 TATAGCGACGTTTTTATAGAAACACCGCTAAATAATTTACTTTAGTGGCATTTTTATACAAACGC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAA-AA-TTAATTTAGTGGCATTTTTATACAAACGC
* ** * * *
868594 CGCGAAAG-ACTA-TAATTTAGTGGCATTTTTAGA-ACAAACGCCGTTGTAGACTCGTGA
64 CGCGAAAGTACGAGT-ATTTACCGGCATTTTTAGATACAAACGCCGCTATAGACTCATGA
868651 TTTAGTGGCGTTTTTATACAAACGCCGCTA
1 TTTAGTGGCGTTTTTATACAAACGCCGCTA
868681 TAGTACGAGT
Statistics
Matches: 121, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
122 72 0.60
123 17 0.14
124 32 0.26
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (122 bp):
TTTAGTGGCGTTTTTATACAAACGCCGCTAAAAATTAATTTAGTGGCATTTTTATACAAACGCCG
CGAAAGTACGAGTATTTACCGGCATTTTTAGATACAAACGCCGCTATAGACTCATGA
Found at i:868767 original size:41 final size:41
Alignment explanation
Indices: 868643--868860 Score: 154
Period size: 42 Copynumber: 5.3 Consensus size: 41
868633 GCCGTTGTAG
* * * *
868643 ACTCGTGA-TTTAGTGGCGTTTTTATACAAACGCCGCTATAGT
1 ACTCGT-ACTTTAGTGGCGTTTTTATATAAACGCCAC-AAAAT
** * * * *
868685 ACGAGT-CTTTAGCGGCGTTTTTTATACAAACGCCGCTAAAT
1 ACTCGTACTTTAGTGGCG-TTTTTATATAAACGCCACAAAAT
* * * *
868726 ACTCATACTATAGTGGCGTTTTTATATAAATGCCTCAAAAT
1 ACTCGTACTTTAGTGGCGTTTTTATATAAACGCCACAAAAT
* * * * *
868767 AAT-GTACTTTAGTGGCGTTTTAAGCATAAACGCCACCAGAT
1 ACTCGTACTTTAGTGGCGTTTTTA-TATAAACGCCACAAAAT
* * * * *
868808 ACTCGTACTTTAGTGGCGTTTTAAGCACAAACACCACTAAAT
1 ACTCGTACTTTAGTGGCGTTTTTA-TATAAACGCCACAAAAT
868850 ACTCGTACTTT
1 ACTCGTACTTT
868861 TTAATCCGTA
Statistics
Matches: 142, Mismatches: 29, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
40 17 0.12
41 49 0.35
42 76 0.54
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (41 bp):
ACTCGTACTTTAGTGGCGTTTTTATATAAACGCCACAAAAT
Found at i:871460 original size:111 final size:111
Alignment explanation
Indices: 871266--871487 Score: 372
Period size: 111 Copynumber: 2.0 Consensus size: 111
871256 TCCGAAATTG
*
871266 CTGAATACCATGGGATATGTTGCTGCTACTGGCATGATGCCTTCTAGTACACTCTCTCATGATCT
1 CTGAATACCATGGGATATGTTGCTGCTACTGGCATGATGCATTCTAGTACACTCTCTCATGATCT
871331 TACAAGATTTTTGCGTTCTTGCATGCATATTTTTAGCTAATTTTGT
66 TACAAGATTTTTGCGTTCTTGCATGCATATTTTTAGCTAATTTTGT
* * **
871377 CTGAATACCGTGGGATCTGTTGCTGCTACTGGCATGATGCATTCTAGTACACTCTCTCATTCTCT
1 CTGAATACCATGGGATATGTTGCTGCTACTGGCATGATGCATTCTAGTACACTCTCTCATGATCT
* **
871442 TACAATATTTTTTTGTTCTTGCATGCATATTTTTAGCTAATTTTGT
66 TACAAGATTTTTGCGTTCTTGCATGCATATTTTTAGCTAATTTTGT
871488 TTACAACTTA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
111 103 1.00
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (111 bp):
CTGAATACCATGGGATATGTTGCTGCTACTGGCATGATGCATTCTAGTACACTCTCTCATGATCT
TACAAGATTTTTGCGTTCTTGCATGCATATTTTTAGCTAATTTTGT
Found at i:873038 original size:21 final size:21
Alignment explanation
Indices: 873014--873072 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
873004 TGATTTATTA
**
873014 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
873035 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
873056 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
873073 ATTGGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.05, G:0.20, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:873473 original size:43 final size:43
Alignment explanation
Indices: 873224--873492 Score: 299
Period size: 43 Copynumber: 6.3 Consensus size: 43
873214 ATATGACATT
** * * * * *
873224 TTGCGGCGTTTGTTCTAAAAAACGCCGCTATATA-CCAGATCTT
1 TTGCGGCGTTTGTT-GGAAAAACGCCGCTAAATATCAACACCTA
* * * *
873267 TTGCGGTGTTTGTGGGAAAAACGCCGCTAAATCTCAAGACCTA
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
* *
873310 TTGCGACGTTTG-TGGAAAAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTTGG-AAAAACGCCGCTAAATATCAACACCTA
* * *
873353 TTGCGGCATTTGTTGGAAAAATGCCGCCAAATATCAACACCTA
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
* *
873396 TTGCGGTGTTTGTTGGACAAACGCCGCTAAATATCAACACCTA
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
* * ***
873439 TTGCGGCGTTTGTTGTAAAAACGCCGCTATATATCGTTACCTA
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
873482 TTGCGGCGTTT
1 TTGCGGCGTTT
873493 TTTGTTACCA
Statistics
Matches: 193, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
42 17 0.09
43 173 0.90
44 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
Found at i:875093 original size:42 final size:42
Alignment explanation
Indices: 875032--875123 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
875022 CCTGAAATCT
*
875032 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTTCC
1 CGTGTTTGTTTCACATAATTCGTTTTCCGGAAAATGTTTTCC
*
875074 CGTGTTTGTTTCACATAATTCGTTTTCCGGAAAATGTTTTCT
1 CGTGTTTGTTTCACATAATTCGTTTTCCGGAAAATGTTTTCC
*
875116 AGTGTTTG
1 CGTGTTTG
875124 GTTGGAGGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.17, C:0.16, G:0.20, T:0.47
Consensus pattern (42 bp):
CGTGTTTGTTTCACATAATTCGTTTTCCGGAAAATGTTTTCC
Found at i:875373 original size:22 final size:23
Alignment explanation
Indices: 875326--875389 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 23
875316 TAATTATTAA
* *
875326 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
875347 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* * *
875370 -ATATTTTTTATATTATAATA
1 AATATTTATAATAATATAATA
875390 AAATAATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 11 0.31
22 21 0.58
23 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:875388 original size:30 final size:32
Alignment explanation
Indices: 875337--875396 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
875327 ATATTTAAAA
*
875337 TATATTTATTAATATTTATAATAATATAATAT
1 TATATTTATTAATATTTATAATAAAATAATAT
*
875369 TATATTT-TTTATA-TTATAATAAAATAAT
1 TATATTTATTAATATTTATAATAAAATAAT
875397 CAAATATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 14 0.54
31 5 0.19
32 7 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAATAATAT
Found at i:875405 original size:32 final size:33
Alignment explanation
Indices: 875334--875416 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 33
875324 AAAATATTTA
*
875334 AAATATATTTATTAATATTTATAATAATATAAT
1 AAATATATTTATTAATATTTATAATAAAATAAT
* *
875367 -ATTATATTT-TTTATA-TTATAATAAAATAAT
1 AAATATATTTATTAATATTTATAATAAAATAAT
*
875397 CAAATATATTATAATAATAT
1 -AAATATATT-TATTAATAT
875417 AAGATATTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
30 14 0.36
31 5 0.13
32 15 0.38
33 1 0.03
34 4 0.10
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (33 bp):
AAATATATTTATTAATATTTATAATAAAATAAT
Found at i:875718 original size:28 final size:34
Alignment explanation
Indices: 875653--875722 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
875643 ATATAATTTG
*
875653 TAATATTTTTATTTCAATAAAAATATATCAATAT
1 TAATATTTTTATTTCAATAAAAATATATCAATAA
875687 TAATATTTTTA-TT-AAT-AAAAT-TAT-AA-AA
1 TAATATTTTTATTTCAATAAAAATATATCAATAA
875715 TAATATTT
1 TAATATTT
875723 AATAATAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
28 9 0.26
29 2 0.06
30 3 0.09
31 5 0.14
32 3 0.09
33 2 0.06
34 11 0.31
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (34 bp):
TAATATTTTTATTTCAATAAAAATATATCAATAA
Found at i:875749 original size:27 final size:28
Alignment explanation
Indices: 875715--875767 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
875705 AATTATAAAA
*
875715 TAATA-TTTAATAATAAATAA-ATTAATT
1 TAATATTTTAAAAAT-AATAATATTAATT
875742 TAATATTTTAAAAATAATAATATTAA
1 TAATATTTTAAAAATAATAATATTAA
875768 GTTTTATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TAATATTTTAAAAATAATAATATTAATT
Found at i:875979 original size:29 final size:29
Alignment explanation
Indices: 875946--876001 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
875936 TTCCGGAAAT
* * *
875946 GTAATTTATTTTCCAGAATTTAATTTTTG
1 GTAATTCATTTTCCAAAATTCAATTTTTG
*
875975 GTAATTCATTTTTCAAAATTCAATTTT
1 GTAATTCATTTTCCAAAATTCAATTTT
876002 CAGAAAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.54
Consensus pattern (29 bp):
GTAATTCATTTTCCAAAATTCAATTTTTG
Found at i:883444 original size:40 final size:39
Alignment explanation
Indices: 883380--883459 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 39
883370 TTAGGGACCC
*
883380 AAGATGAAATTTTCATGTGCACAAGTTGACCACCTACCA
1 AAGATGAAATTTTCATGTGCACAAGTTGACCACCAACCA
* * *
883419 AAGATGAATTTTCTCATGTGTACAAGTTGGCCACCAACCA
1 AAGATGAAATTT-TCATGTGCACAAGTTGACCACCAACCA
883459 A
1 A
883460 CTTGTCAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 11 0.31
40 25 0.69
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (39 bp):
AAGATGAAATTTTCATGTGCACAAGTTGACCACCAACCA
Found at i:901169 original size:19 final size:19
Alignment explanation
Indices: 901141--901183 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
901131 ACCGTTATTC
*
901141 CAACCGTGATTCCAATTTT
1 CAACCATGATTCCAATTTT
901160 CAACCATGATTCCAATTTT
1 CAACCATGATTCCAATTTT
901179 CAACC
1 CAACC
901184 GTAATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (19 bp):
CAACCATGATTCCAATTTT
Found at i:901324 original size:12 final size:13
Alignment explanation
Indices: 901307--901335 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
901297 GGGGGAAGGA
901307 TAAAATA-AATTT
1 TAAAATATAATTT
901319 TAAAATATAATTT
1 TAAAATATAATTT
901332 TAAA
1 TAAA
901336 TGATATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAAATATAATTT
Found at i:905499 original size:54 final size:54
Alignment explanation
Indices: 905417--905595 Score: 241
Period size: 54 Copynumber: 3.1 Consensus size: 54
905407 GTGAAGTTCT
*
905417 TTTATAGCAGACCTATTGTTATATTGTTCATAAAGTAATAATGGGAACATATTG
1 TTTATAGCAGACCTATTGTTACATTGTTCATAAAGTAATAATGGGAACATATTG
905471 TTTATAGCAGACCTATTGTTACATTGTTCATAAAGTAATAATGGGAACATATTGTTACATTG
1 TTTATAGCAGACCTATTGTTACATTGTTCATAAAGTAATAATGGGAAC--A----T--ATTG
905533 TTCTTTCATAGCAGACCTATTGTTACATTGTTCATAAAGTAATAATGGGAACATATTG
1 ---TTT-ATAGCAGACCTATTGTTACATTGTTCATAAAGTAATAATGGGAACATATTG
905591 TTTAT
1 TTTAT
905596 GTTAGAAGCA
Statistics
Matches: 112, Mismatches: 1, Indels: 24
0.82 0.01 0.18
Matches are distributed among these distances:
54 49 0.44
55 3 0.03
56 1 0.01
58 4 0.04
60 2 0.02
62 4 0.04
64 1 0.01
65 3 0.03
66 45 0.40
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.40
Consensus pattern (54 bp):
TTTATAGCAGACCTATTGTTACATTGTTCATAAAGTAATAATGGGAACATATTG
Found at i:905520 original size:26 final size:26
Alignment explanation
Indices: 905439--905520 Score: 60
Period size: 26 Copynumber: 3.1 Consensus size: 26
905429 CTATTGTTAT
905439 ATTGTTCATAAAGTAATAATGGGAAC
1 ATTGTTCATAAAGTAATAATGGGAAC
* * * * **
905465 ATATTGTTTATAGCAG-ACCT-ATTGTTAC
1 --ATTGTTCATA-AAGTA-ATAATGGGAAC
905493 ATTGTTCATAAAGTAATAATGGGAAC
1 ATTGTTCATAAAGTAATAATGGGAAC
905519 AT
1 AT
905521 ATTGTTACAT
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
25 3 0.08
26 17 0.45
28 15 0.39
29 3 0.08
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (26 bp):
ATTGTTCATAAAGTAATAATGGGAAC
Found at i:905531 original size:36 final size:36
Alignment explanation
Indices: 905484--905592 Score: 124
Period size: 36 Copynumber: 3.2 Consensus size: 36
905474 ATAGCAGACC
905484 TATTGTTACATTGTTCATAAAGTAATAATGGGAACA
1 TATTGTTACATTGTTCATAAAGTAATAATGGGAACA
* * * *
905520 TATTGTTACATTGTTC-T----T--TCATAGCAGACC
1 TATTGTTACATTGTTCATAAAGTAATAATGGGA-ACA
905550 TATTGTTACATTGTTCATAAAGTAATAATGGGAACA
1 TATTGTTACATTGTTCATAAAGTAATAATGGGAACA
905586 TATTGTT
1 TATTGTT
905593 TATGTTAGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
29 5 0.09
30 18 0.32
31 2 0.04
35 2 0.04
36 25 0.44
37 5 0.09
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (36 bp):
TATTGTTACATTGTTCATAAAGTAATAATGGGAACA
Found at i:918220 original size:39 final size:37
Alignment explanation
Indices: 918131--918236 Score: 126
Period size: 37 Copynumber: 2.8 Consensus size: 37
918121 TTTGATATTT
*
918131 GGGTCAGATTTTTTTAAGTGTGATATTCAGGTCAGGTC
1 GGGTCAGGTTTTTTTAAGTGTGATATTC-GGTCAGGTC
* * *
918169 GGG-CCGAG-TTTTTTAAGTTTGATATTCGTTTCAGGTTC
1 GGGTCAG-GTTTTTTTAAGTGTGATATTCG-GTCAGG-TC
918207 GGGTCAGGTTTTTTTAAGTGTGATATTCGG
1 GGGTCAGGTTTTTTTAAGTGTGATATTCGG
918237 GTCGGGTTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
36 1 0.02
37 25 0.45
38 9 0.16
39 21 0.38
ACGTcount: A:0.18, C:0.10, G:0.29, T:0.42
Consensus pattern (37 bp):
GGGTCAGGTTTTTTTAAGTGTGATATTCGGTCAGGTC
Found at i:928299 original size:21 final size:21
Alignment explanation
Indices: 928274--928324 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
928264 TAATGAACAG
*
928274 TGCTACAGTGTATCGATGC-T
1 TGCTACAGTGTACCGATGCAT
*
928294 CTGCTATAGTGTACCGATGCAT
1 -TGCTACAGTGTACCGATGCAT
928316 TGCTACAGT
1 TGCTACAGT
928325 AATTTCAGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (21 bp):
TGCTACAGTGTACCGATGCAT
Found at i:928858 original size:23 final size:23
Alignment explanation
Indices: 928832--928893 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
928822 TCGTATAAAT
928832 TTGCA-CATAAGTGCCACGTAGAA
1 TTGCACCA-AAGTGCCACGTAGAA
* *
928855 TTGCACCAAAGTGTCGCGTAGAA
1 TTGCACCAAAGTGCCACGTAGAA
* **
928878 TTACACCGTAGTGCCA
1 TTGCACCAAAGTGCCA
928894 TATAAAATTG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
23 29 0.94
24 2 0.06
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (23 bp):
TTGCACCAAAGTGCCACGTAGAA
Found at i:931181 original size:6 final size:6
Alignment explanation
Indices: 931167--933410 Score: 4200
Period size: 6 Copynumber: 379.7 Consensus size: 6
931157 ATAATAATTA
*
931167 TAATTG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931215 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931263 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931311 TAATCG TAATCG TAATCG TAATCG TAATCG T-A-CG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931357 TAATCG TAATCG TAATCG T-ATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931404 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG T-ATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931451 TAATCG TAATCG T-ATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931498 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931546 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG T-ATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931593 TAATCG TAATCG TAATCG TAATCG TAATCG T-ATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931640 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931688 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931736 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931784 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931832 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931880 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931928 TAATCG TAA-CG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
931975 TAATCG TAATCG TAATCG TAATCG ---TCG TAATCG TAATCG -AATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932019 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932067 T-ATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932114 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932162 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAA--- TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932207 TAATCG TAATCG TAATCG TAATCG T-ATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932254 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATC-
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932301 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932349 TAATCG TAATCG TAATCG TAATCG TAATC- TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932396 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG T-ATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932443 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932491 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932539 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932587 T-ATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932634 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932682 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932730 TAATCG TAATCG T-ATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932777 TAATCG TAATCG TAATCG TAAT-- TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932823 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932871 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG T-A-CG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932917 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
932965 TAATCG TAATCG TAATCG T-ATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
933012 TAATCG TAATCG TAATCG TAAT-G TAA-CG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
933058 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
933106 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
933154 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
933202 TAATCG TAATCG TAATCG TAATCG ---TCG TAATCG TAATCG T-ATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
933246 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
933294 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG TAATCG
*
933342 TAATCG TAATCG TAATCG TAATCG TCGTATCG TAATCG TAATCG TAATCG
1 TAATCG TAATCG TAATCG TAATCG T--AATCG TAATCG TAATCG TAATCG
933392 TAATCG T-A-CG T-ATCG TAAT
1 TAATCG TAATCG TAATCG TAAT
933411 AAAGTAATCT
Statistics
Matches: 2198, Mismatches: 3, Indels: 74
0.97 0.00 0.03
Matches are distributed among these distances:
3 9 0.00
4 14 0.01
5 96 0.04
6 2074 0.94
8 5 0.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (6 bp):
TAATCG
Found at i:934386 original size:21 final size:21
Alignment explanation
Indices: 934346--934400 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
934336 GATTCTTGGA
934346 AATCGCAATGCGATAGTACA-
1 AATCGCAATGCGATAGTACAG
* **
934366 AATTCGCATTGCGATTTTACAG
1 AA-TCGCAATGCGATAGTACAG
*
934388 AATCGCAACGCGA
1 AATCGCAATGCGA
934401 ATATGAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (21 bp):
AATCGCAATGCGATAGTACAG
Found at i:934482 original size:20 final size:20
Alignment explanation
Indices: 934388--934616 Score: 239
Period size: 20 Copynumber: 11.4 Consensus size: 20
934378 GATTTTACAG
* ** *
934388 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
934408 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
934428 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
934448 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
934468 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
934488 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
934508 TATCGCAACGCGTATTCGTA
1 AATCGCAACGCGTATCCGTA
*
934528 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
934548 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
934568 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
934588 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
934608 AATCACAAC
1 AATCGCAAC
934617 ACTGAAATTT
Statistics
Matches: 177, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 173 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:935286 original size:24 final size:23
Alignment explanation
Indices: 935243--935288 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
935233 GAAATTGGTC
*
935243 TTGGTCAATATCGGACTTTGATA
1 TTGGTCAATAACGGACTTTGATA
*
935266 TTGGTCAATACACGGATTTTGAT
1 TTGGTCAATA-ACGGACTTTGAT
935289 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (23 bp):
TTGGTCAATAACGGACTTTGATA
Found at i:937756 original size:19 final size:19
Alignment explanation
Indices: 937729--937949 Score: 207
Period size: 19 Copynumber: 12.7 Consensus size: 19
937719 GCAACGAGAG
937729 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
937748 AATC-C----C--AATGAA
1 AATCGCAATGCGAAATGAA
937760 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
937780 AATCGCAATGTGAAATGAA
1 AATCGCAATGCGAAATGAA
*
937799 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
937813 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
937833 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
937852 AATCGCAA--CG--A-GAT
1 AATCGCAATGCGAAATGAA
937866 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
937885 AATCGTAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
937904 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
937918 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
937937 AATCGCATTGCGA
1 AATCGCAATGCGA
937950 TCTCTCGTTG
Statistics
Matches: 166, Mismatches: 12, Indels: 48
0.73 0.05 0.21
Matches are distributed among these distances:
12 10 0.06
13 1 0.01
14 31 0.19
15 3 0.02
16 5 0.03
17 7 0.04
18 3 0.02
19 77 0.46
20 29 0.17
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:937781 original size:32 final size:31
Alignment explanation
Indices: 937729--937888 Score: 115
Period size: 33 Copynumber: 4.7 Consensus size: 31
937719 GCAACGAGAG
937729 AATCGCAATGCGAAATGAAAATCCCAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAATGAA
*
937760 AATCGCAATGCGGAAATGAAAATCGCAATGTGAAATGAA
1 AATCGCAATGC-GAAATGAAAATC-C------CAATGAA
* * * **
937799 AATCGCAACGAGAGAATCG-CAATGCGGAAATGAA
1 AATCGCAATGCGA-AAT-GAAAAT-C-CCAATGAA
* *
937833 AATCGCAATGCGAAATGAAAATCGCAACGAGA
1 AATCGCAATGCGAAATGAAAATCCCAATGA-A
937865 TAATCGCAATGCGAAATGAAAATC
1 -AATCGCAATGCGAAATGAAAATC
937889 GTAATGCGAA
Statistics
Matches: 105, Mismatches: 10, Indels: 26
0.74 0.07 0.18
Matches are distributed among these distances:
31 16 0.15
32 15 0.14
33 30 0.29
34 18 0.17
38 2 0.02
39 21 0.20
40 3 0.03
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (31 bp):
AATCGCAATGCGAAATGAAAATCCCAATGAA
Found at i:937817 original size:33 final size:33
Alignment explanation
Indices: 937780--937943 Score: 145
Period size: 33 Copynumber: 4.8 Consensus size: 33
937770 CGGAAATGAA
*
937780 AATCGCAATGTGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
937813 AATCGCAATGCGGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAG
* * * *
937846 AAT-GAAAAT-CGCAACGAGATAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
*
937885 AATCGTAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
937918 AATCGCAATGCGAAATTAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
937944 TTGCGATCTC
Statistics
Matches: 105, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
31 5 0.05
32 3 0.03
33 50 0.48
34 20 0.19
35 1 0.01
36 2 0.02
38 10 0.10
39 7 0.07
40 7 0.07
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:937834 original size:53 final size:52
Alignment explanation
Indices: 937729--937949 Score: 347
Period size: 52 Copynumber: 4.2 Consensus size: 52
937719 GCAACGAGAG
* *
937729 AATCGCAATGCGAAATGAAAATCCCAATGA-A-AATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
*
937780 AATCGCAATGTGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
*
937833 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
* *
937885 AATCGTAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
937937 AATCGCATTGCGA
1 AATCGCAATGCGA
937950 TCTCTCGTTG
Statistics
Matches: 158, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
51 27 0.17
52 69 0.44
53 62 0.39
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:937981 original size:19 final size:19
Alignment explanation
Indices: 937957--938053 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
937947 CGATCTCTCG
937957 TTGCGA-TTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
937976 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
937995 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
938009 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
938028 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
938047 TTGCGAT
1 TTGCGAT
938054 AGTATTTTTG
Statistics
Matches: 70, Mismatches: 2, Indels: 12
0.83 0.02 0.14
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
19 42 0.60
20 8 0.11
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:938028 original size:52 final size:52
Alignment explanation
Indices: 937939--938053 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
937929 GAAATTAAAA
937939 TCGCATTGCGA-TCTCTCGTTGCGATTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTCATTTCCGCATTGCGATTTTCATT
937990 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGA-TTTCATTTCCGCATTGCGATTTTCATT
938042 TCGCATTGCGAT
1 TCGCATTGCGAT
938054 AGTATTTTTG
Statistics
Matches: 62, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
51 11 0.18
52 43 0.69
53 8 0.13
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTCATTTCCGCATTGCGATTTTCATT
Found at i:938183 original size:13 final size:14
Alignment explanation
Indices: 938152--938189 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
938142 TTCGCATCAA
938152 TTACAAATCAACTT
1 TTACAAATCAACTT
*
938166 TTACAAATCATC-T
1 TTACAAATCAACTT
938179 TTACAAATCAA
1 TTACAAATCAA
938190 TTAAACAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (14 bp):
TTACAAATCAACTT
Found at i:938269 original size:12 final size:12
Alignment explanation
Indices: 938252--938288 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
938242 ATCAACTTTT
938252 ACAATCAATTAA
1 ACAATCAATTAA
*
938264 ACAATCAA-AAA
1 ACAATCAATTAA
938275 ACAATCAATTAA
1 ACAATCAATTAA
938287 AC
1 AC
938289 TATTGATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (12 bp):
ACAATCAATTAA
Found at i:940114 original size:19 final size:19
Alignment explanation
Indices: 940088--940241 Score: 136
Period size: 19 Copynumber: 8.8 Consensus size: 19
940078 AACGAAACTT
940088 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
* * **
940107 AGAATCGCAACGAGAAACC
1 AAAATCGCAACGCGAAATG
**
940126 AAAATCGCAACGCG-AACC
1 AAAATCGCAACGCGAAATG
940144 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
940163 AAAATCGCAA--CGACA-G
1 AAAATCGCAACGCGAAATG
*
940179 --AATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
940196 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
940210 -AAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
940228 -AAATCGCAATGCGA
1 AAAATCGCAACGCGA
940242 TTTTGGTTTC
Statistics
Matches: 113, Mismatches: 11, Indels: 23
0.77 0.07 0.16
Matches are distributed among these distances:
13 9 0.08
14 9 0.08
15 3 0.03
16 5 0.04
17 8 0.07
18 32 0.28
19 47 0.42
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:940150 original size:37 final size:38
Alignment explanation
Indices: 940088--940174 Score: 113
Period size: 37 Copynumber: 2.3 Consensus size: 38
940078 AACGAAACTT
** *
940088 AAAATCGCAACGCGAAATGAGAATCGCAACGAGAAACC
1 AAAATCGCAACGCGAAACCAAAATCGCAACGAGAAACC
* **
940126 AAAATCGCAACGCG-AACCAAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACCAAAATCGCAACGAGAAACC
940163 AAAATCGCAACG
1 AAAATCGCAACG
940175 ACAGAATCGC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 29 0.67
38 14 0.33
ACGTcount: A:0.47, C:0.25, G:0.20, T:0.08
Consensus pattern (38 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACGAGAAACC
Found at i:940192 original size:33 final size:32
Alignment explanation
Indices: 940109--940236 Score: 150
Period size: 33 Copynumber: 3.8 Consensus size: 32
940099 GCGAAATGAG
* **
940109 AATCGCAACGAGAAACCAAAATCGCAACGCGAACCAA
1 AATCGCAACGCGAAATGAAAATCGCAA--CG-A-C-A
940146 AATCGCAACGCGAAATGAAAATCGCAACGACA
1 AATCGCAACGCGAAATGAAAATCGCAACGACA
* *
940178 GAATCGCAATGCGAAATGAAAATCGCAACGAGA
1 -AATCGCAACGCGAAATGAAAATCGCAACGACA
940211 AATCGCAACGCGAAATG-AAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
940237 TGCGATTTTG
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 9 0.11
32 17 0.20
33 31 0.37
34 1 0.01
35 2 0.02
37 24 0.29
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.09
Consensus pattern (32 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACA
Found at i:940200 original size:70 final size:64
Alignment explanation
Indices: 940107--940236 Score: 161
Period size: 70 Copynumber: 1.9 Consensus size: 64
940097 ACGCGAAATG
940107 AGAATCGCAACGAGAAACCAAAATCGCAACGCGAACCAAAATCGCAACGCGAAATGAAAATCGCA
1 AGAATCGCAACGAGAAACCAAAATCGCAA--CG-A--AAAATCGCAACGCGAAATG-AAATCGCA
940172 ACGAC
60 ACGAC
* * ** *
940177 AGAATCGCAATGCGAAATGAAAATCGCAACGAGAAATCGCAACGCGAAATGAAATCGCAA
1 AGAATCGCAACGAGAAACCAAAATCGCAACGAAAAATCGCAACGCGAAATGAAATCGCAA
940237 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
64 9 0.16
65 18 0.33
67 1 0.02
68 2 0.04
70 25 0.45
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.09
Consensus pattern (64 bp):
AGAATCGCAACGAGAAACCAAAATCGCAACGAAAAATCGCAACGCGAAATGAAATCGCAACGAC
Found at i:940215 original size:13 final size:13
Alignment explanation
Indices: 940197--940226 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
940187 TGCGAAATGA
940197 AAATCGCAACGAG
1 AAATCGCAACGAG
*
940210 AAATCGCAACGCG
1 AAATCGCAACGAG
940223 AAAT
1 AAAT
940227 GAAATCGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (13 bp):
AAATCGCAACGAG
Found at i:940272 original size:14 final size:14
Alignment explanation
Indices: 940253--940279 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
940243 TTTGGTTTCG
940253 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
940267 CGTTGCGATTTTG
1 CGTTGCGATTTTG
940280 GTTTCGCGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:940279 original size:33 final size:32
Alignment explanation
Indices: 940237--940359 Score: 149
Period size: 33 Copynumber: 3.8 Consensus size: 32
940227 GAAATCGCAA
940237 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTT-TCGT
*
940270 TGCGATTTTGGTTTCGCG-TGCGATTCTTTTGT
1 TGCGATTTTGGTTTCGCGTTGCGATT-TTTCGT
** *
940302 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATT-TTTCGT
* *
940335 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
940360 AAGTAAACTA
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
32 26 0.33
33 41 0.52
34 12 0.15
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.47
Consensus pattern (32 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTTTCGT
Found at i:940669 original size:92 final size:92
Alignment explanation
Indices: 940407--941496 Score: 1906
Period size: 92 Copynumber: 12.1 Consensus size: 92
940397 ATGGATTGCA
*
940407 TTAC-TTCAACCAAAACA-AAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTTT
1 TTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
940469 AGCAGAATTGGCAGCAACCGAACAAAT
66 AGCAGAATTGGCAGCAACCGAACAAAT
940496 TTACTTTC-ACC-AAAGACAAAACAAAGACAAATACTATTTCACA--GTT-AAGAAT--ACAGTT
1 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
940554 TAGCAGAATTGGCAGCAACCGAACAAAT
65 TAGCAGAATTGGCAGCAACCGAACAAAT
*
940582 TTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCATAGTGTTAAAGAATACACAGTTT
1 TTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
940647 AGCAGAATTGGCAGCAACCGAACAAAT
66 AGCAGAATTGGCAGCAACCGAACAAAT
940674 TTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
940738 TAGCAGAATTGGCAGCAACCGAACAAAT
65 TAGCAGAATTGGCAGCAACCGAACAAAT
940766 TTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAAT--ACAGTT
1 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
940828 TAGCAGAATTGGCAGCAACCGAAC-AA-
65 TAGCAGAATTGGCAGCAACCGAACAAAT
*
940854 TTACTTTCAACCAAAAGACAAACAAAGACAAATACTA-TTCACAGTGTTAAAGAATACACGGTTT
1 TTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
940918 AGCAGAATTGGCAGCAACCGAACAAAT
66 AGCAGAATTGGCAGCAACCGAACAAAT
940945 TTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
1 TTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
941010 AGCAGAATTGGCAGCAACCGAACAAAT
66 AGCAGAATTGGCAGCAACCGAACAAAT
*
941037 TTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC-GGTT
1 TTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
941101 AGCAGAATTGGCAGCAACCGAACAAAT
66 AGCAGAATTGGCAGCAACCGAACAAAT
941128 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
941193 TAGCAGAATTGGCAGCAACCGAACAAAT
65 TAGCAGAATTGGCAGCAACCGAACAAAT
941221 TTACTTTCAACC-AAAGACAAACAAAGACAAATACTATTTCACAGTG-TAAAGAATACACAGTTT
1 TTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
941284 AGCAGAATTGGCAGCAACCGAACAAAT
66 AGCAGAATTGGCAGCAACCGAACAAAT
941311 TTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
941375 TAGCAGAA-TGGCAGCAACCGAACAAAT
65 TAGCAGAATTGGCAGCAACCGAACAAAT
941402 TTACTTTCAACCAAAAGACAAA-ACAAGACAAATACTATTTCACAGTGTT-AAGAATACACAG-T
1 TTACTTTCAACCAAAAGACAAACA-AAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
941464 TAGCAGAATTGGCAGCAACCGAATAAAT
65 TAGCAGAATTGGCAGCAACCGAACAAAT
941492 TTACT
1 TTACT
941497 AGCAATCTAA
Statistics
Matches: 967, Mismatches: 8, Indels: 51
0.94 0.01 0.05
Matches are distributed among these distances:
86 42 0.04
87 45 0.05
88 46 0.05
89 60 0.06
90 150 0.16
91 214 0.22
92 368 0.38
93 42 0.04
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.22
Consensus pattern (92 bp):
TTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
AGCAGAATTGGCAGCAACCGAACAAAT
Found at i:940930 original size:271 final size:274
Alignment explanation
Indices: 940407--941496 Score: 1939
Period size: 271 Copynumber: 4.0 Consensus size: 274
940397 ATGGATTGCA
940407 TTAC-TTCAACCAAA-ACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTTT
1 TTACTTTCAACCAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
940469 AGCAGAATTGGCAGCAACCGAACAAATTTACTTTC-ACC-AAAGACAAAACAAAGACAAATACTA
65 AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA
940532 TTTCACA--GTT-AAGAATACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC
130 TTTCACAGTGTTAAAGAATACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC
*
940594 AAAAGACAAACAAAGACAAATACTATTTCATAGTGTTAAAGAATACACAGTTTAGCAGAATTGGC
195 AAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGC
940659 AGCAACCGAACAAAT
260 AGCAACCGAACAAAT
940674 TTACTTTCAACCAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
1 TTACTTTCAACCAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
940739 AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTA
65 AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA
940803 TTTCACAGTGTTAAAGAATACAGTTTAGCAGAATTGGCAGCAACCGAAC-AA-TTACTTTCAACC
130 TTTCACAGTGTTAAAGAATACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC
*
940866 AAAAGACAAACAAAGACAAATACTA-TTCACAGTGTTAAAGAATACACGGTTTAGCAGAATTGGC
195 AAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGC
940930 AGCAACCGAACAAAT
260 AGCAACCGAACAAAT
940945 TTACTTTCAACCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
1 TTACTTTCAACC-AAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
941010 AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTA
65 AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA
*
941074 TTTCACAGTGTTAAAGAATACACGGTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAAC
130 TTTCACAGTGTTAAAGAATACA-GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAAC
941139 CAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTG
194 CAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTG
941204 GCAGCAACCGAACAAAT
258 GCAGCAACCGAACAAAT
941221 TTACTTTCAACCAAAGACAAACAAAGACAAATACTATTTCACAGTG-TAAAGAATACACAGTTTA
1 TTACTTTCAACCAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
941285 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTAT
66 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAT
941349 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAA-TGGCAGCAACCGAACAAATTTACTTTCAAC
131 TTCACAGTGTTAAAGAAT--ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAAC
941413 CAAAAGACAAA-ACAAGACAAATACTATTTCACAGTGTT-AAGAATACACAG-TTAGCAGAATTG
194 CAAAAGACAAACA-AAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTG
*
941475 GCAGCAACCGAATAAAT
258 GCAGCAACCGAACAAAT
941492 TTACT
1 TTACT
941497 AGCAATCTAA
Statistics
Matches: 799, Mismatches: 6, Indels: 32
0.95 0.01 0.04
Matches are distributed among these distances:
267 4 0.01
268 10 0.01
269 13 0.02
270 70 0.09
271 257 0.32
272 88 0.11
273 35 0.04
274 182 0.23
275 72 0.09
276 68 0.09
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.22
Consensus pattern (274 bp):
TTACTTTCAACCAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAT
TTCACAGTGTTAAAGAATACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCA
AAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCA
GCAACCGAACAAAT
Found at i:941283 original size:455 final size:455
Alignment explanation
Indices: 940406--941496 Score: 1944
Period size: 455 Copynumber: 2.4 Consensus size: 455
940396 AATGGATTGC
*
940406 ATTAC-TTCAACCAAAACA-AAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACAGTTT
1 ATTACTTTCAACCAAAAGACAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACAGTTT
940469 AGCAGAATTGGCAGCAACCGAACAAATTTACTTTC-ACC-AAAGACAAAACAAAGACAAATACTA
66 AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTA
940532 TTTCACA--GTTAAGAAT--ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAAC
130 TTTCACAGTGTTAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAAC
* *
940593 CAAAAGACAAACAAAGACAAATACTATTTCATAGTGTTAAAGAATACACAGTTTAGCAGAATTGG
195 CAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGGTTAGCAGAATTGG
940658 CAGCAACCGAACAAATTTACTTTCAACCAAAGACAAAACAAAGACAAATACTATTTCACAGTGTT
260 CAGCAACCGAACAAATTTACTTTCAACCAAAGACAAAACAAAGACAAATACTATTTCACAGTGTT
940723 AAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAGACAAAA
325 AAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAGACAAAA
940788 CAAAGACAAATACTATTTCACAGTGTTAAAGAATACAGTTTAGCAGAATTGGCAGCAACCGAAC-
390 CAAAGACAAATACTATTTCACAGTGTTAAAGAATACAGTTTAGCAGAATTGGCAGCAACCGAACA
940852 A
455 A
*
940853 ATTACTTTCAACCAAAAGACAAACAAAGACAAATACTA-TTCACAGTGTTAAAGAATACACGGTT
1 ATTACTTTCAACCAAAAGACAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTT
940917 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTA
65 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTA
940982 TTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAA
130 TTTCACAGTGTT-AAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAA
941047 CCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC-GGTTAGCAGAATTG
194 CCAAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGGTTAGCAGAATTG
941111 GCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTG
259 GCAGCAACCGAACAAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTG
941176 TTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAGAC-A
323 TTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAGACAA
941240 AACAAAGACAAATACTATTTCACAGTG-TAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCG
388 AACAAAGACAAATACTATTTCACAGTGTTAAAGAAT--ACAGTTTAGCAGAATTGGCAGCAACCG
941304 AACAA
451 AACAA
941309 ATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACAGT
1 A-TTACTTTCAACCAAAAGAC-AAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACAGT
941374 TTAGCAGAA-TGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAA-ACAAGACAAATAC
64 TTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACA-AAGACAAATAC
*
941437 TATTTCACAGTGTTAAGAATACACAG-TTAGCAGAATTGGCAGCAACCGAATAAATTTACT
128 TATTTCACAGTGTTAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
941497 AGCAATCTAA
Statistics
Matches: 620, Mismatches: 6, Indels: 28
0.95 0.01 0.04
Matches are distributed among these distances:
447 5 0.01
448 12 0.02
449 71 0.11
450 35 0.06
451 6 0.01
452 3 0.00
453 14 0.02
454 70 0.11
455 254 0.41
456 15 0.02
457 92 0.15
458 43 0.07
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.22
Consensus pattern (455 bp):
ATTACTTTCAACCAAAAGACAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACAGTTT
AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTAT
TTCACAGTGTTAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC
AAAAGACAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGGTTAGCAGAATTGGC
AGCAACCGAACAAATTTACTTTCAACCAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTA
AAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAGACAAAAC
AAAGACAAATACTATTTCACAGTGTTAAAGAATACAGTTTAGCAGAATTGGCAGCAACCGAACAA
Found at i:943190 original size:21 final size:21
Alignment explanation
Indices: 943138--943200 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
943128 TCTTTTGGTT
943138 GAAATGAAAATCGCAA--AGA
1 GAAATGAAAATCGCAACGAGA
***
943157 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
943177 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
943198 GAA
1 GAA
943201 TCGCAACGCG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 11 0.31
19 1 0.03
20 4 0.11
21 19 0.54
ACGTcount: A:0.49, C:0.14, G:0.25, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:943204 original size:14 final size:14
Alignment explanation
Indices: 943185--943240 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
943175 GAGAAATGAA
943185 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
943199 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
943218 AATCGCAACGAGAG
1 AATCGCAACGAGAG
943232 -ATCGCAACG
1 AATCGCAACG
943241 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
13 9 0.26
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:943223 original size:19 final size:19
Alignment explanation
Indices: 943199--943262 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
943189 GCAACGAGAG
943199 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
943218 AATCGCAA--CG--A-G-A
1 AATCGCAACGCGAAATGAA
*
943231 GATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
943250 AATCGCAATGCGA
1 AATCGCAACGCGA
943263 TTTTGGTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 8 0.22
14 1 0.03
15 3 0.08
17 3 0.08
18 1 0.03
19 20 0.56
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:943241 original size:32 final size:33
Alignment explanation
Indices: 943177--943257 Score: 155
Period size: 32 Copynumber: 2.5 Consensus size: 33
943167 CGCAACGAGA
943177 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
943210 GAAATGAAAATCGCAACGAGAG-ATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
943242 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
943258 TGCGATTTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 26 0.54
33 22 0.46
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:943338 original size:33 final size:33
Alignment explanation
Indices: 943258--943410 Score: 256
Period size: 33 Copynumber: 4.7 Consensus size: 33
943248 AAAATCGCAA
**
943258 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
943291 TGCGA-TTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
943323 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
943356 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
943389 TGCGA-TTTCATTTTCTCGTTGC
1 TGCGATTTTCA-TTTCGCGTTGC
943411 AGATAGTCAT
Statistics
Matches: 115, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
32 35 0.30
33 80 0.70
ACGTcount: A:0.08, C:0.24, G:0.22, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:943420 original size:21 final size:19
Alignment explanation
Indices: 943285--943454 Score: 106
Period size: 14 Copynumber: 9.6 Consensus size: 19
943275 GTTGCGATTC
943285 TCTCGTTGCGATTTCA-TT
1 TCTCGTTGCGATTTCATTT
*
943303 TCGCGTTGCGA-TTC----
1 TCTCGTTGCGATTTCATTT
943317 TCTCGTTGCGATTTTCA-TT
1 TCTCGTTGCGA-TTTCATTT
*
943336 TCGCGTTGCGA-TTC----
1 TCTCGTTGCGATTTCATTT
943350 TCTCGTTGCGATTTTCA-TT
1 TCTCGTTGCGA-TTTCATTT
*
943369 TCGCGTTGCGA-TTC----
1 TCTCGTTGCGATTTCATTT
943383 TCTCGTTGCGATTTCATTT
1 TCTCGTTGCGATTTCATTT
*
943402 TCTCGTTGCAGATAGTCATTT
1 TCTCGTTGC-GAT-TTCATTT
* *
943423 TCACTTTGCGATTTTCATTT
1 TCTCGTTGCGA-TTTCATTT
943443 ATCTCGTTGCGA
1 -TCTCGTTGCGA
943455 CTCTTCTGCA
Statistics
Matches: 121, Mismatches: 12, Indels: 35
0.72 0.07 0.21
Matches are distributed among these distances:
14 30 0.25
15 3 0.02
16 6 0.05
17 9 0.07
18 10 0.08
19 29 0.24
20 11 0.09
21 23 0.19
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (19 bp):
TCTCGTTGCGATTTCATTT
Found at i:943442 original size:20 final size:20
Alignment explanation
Indices: 943386--943454 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
943376 GCGATTCTCT
*
943386 CGTTGCGA-TTTCATTTTCT
1 CGTTGCGATTTTCATTTTCA
**
943405 CGTTGCAGATAGTCATTTTCA
1 CGTTGC-GATTTTCATTTTCA
* *
943426 CTTTGCGATTTTCATTTATCT
1 CGTTGCGATTTTCATTT-TCA
943447 CGTTGCGA
1 CGTTGCGA
943455 CTCTTCTGCA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 6 0.15
20 11 0.28
21 22 0.56
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCA
Found at i:943576 original size:33 final size:33
Alignment explanation
Indices: 943534--943603 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
943524 AATACTAACT
*
943534 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACAAGAGAATAGCAACGCGAAA
* *
943567 TGAAAATCGCAACAAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACAAGAGAATAGCAACGCGAAA
943600 TGAA
1 TGAA
943604 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACAAGAGAATAGCAACGCGAAA
Found at i:944005 original size:20 final size:20
Alignment explanation
Indices: 943980--944172 Score: 237
Period size: 20 Copynumber: 9.6 Consensus size: 20
943970 CTTTAAAAAT
*
943980 CGCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
*
944000 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
944020 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
944041 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
944061 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
944081 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
944101 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
944121 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
944141 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
944161 CGCGTTGCGATT
1 CGCGTTGCGATT
944173 CTGTAAAATC
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
20 134 0.89
21 17 0.11
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:944190 original size:21 final size:20
Alignment explanation
Indices: 944166--944215 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
944156 ATATTCGCGT
944166 TGCGATTCTGTAAAATCGCAA
1 TGCGATT-TGTAAAATCGCAA
** *
944187 TGCGAATTTGTACTATCGCAT
1 TGCG-ATTTGTAAAATCGCAA
944208 TGCGATTT
1 TGCGATTT
944216 TCAAGAATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.16
21 18 0.72
22 3 0.12
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (20 bp):
TGCGATTTGTAAAATCGCAA
Found at i:945959 original size:65 final size:64
Alignment explanation
Indices: 945829--945988 Score: 189
Period size: 65 Copynumber: 2.5 Consensus size: 64
945819 AATTAAATTG
* * * *
945829 AACATCGAATGCATTTCATGCACCGATGCACATACCATGCATCAATGCACTGAGGAGTTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCACAAACCATGCATCAATGCACTCAGGAGTTTATG-A
* * * *
945894 AACATCGAATGTATTTGATGTATCGATGCACAAACCATGCATCGATGCACTCTGGCTA-TTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCACAAACCATGCATCAATGCACTCAGG--AGTTTATG
945957 A
64 A
* *
945958 AACATAGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
945989 TCTTAGTGCA
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 28 0.35
65 49 0.60
66 3 0.04
67 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACAAACCATGCATCAATGCACTCAGGAGTTTATGA
Found at i:948967 original size:14 final size:14
Alignment explanation
Indices: 948948--948978 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
948938 GAAATGGCTA
948948 GAACCATACTTTGT
1 GAACCATACTTTGT
948962 GAACCATACTTTGT
1 GAACCATACTTTGT
948976 GAA
1 GAA
948979 AACAATTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (14 bp):
GAACCATACTTTGT
Found at i:951419 original size:21 final size:21
Alignment explanation
Indices: 951354--951448 Score: 77
Period size: 21 Copynumber: 4.4 Consensus size: 21
951344 TTGTGCTTCA
*
951354 TGCATCGATACACCTAT-CA-G
1 TGCATCGATACACC-ATGAATG
* *
951374 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCATGAATG
*
951396 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCATGAATG
* * *
951417 TGCACCGATGCACGCCTTGAATG
1 TGCATCGAT--ACACCATGAATG
951440 TGCATCGAT
1 TGCATCGAT
951449 GCACAAGTCA
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
20 12 0.20
21 18 0.31
22 12 0.20
23 17 0.29
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (21 bp):
TGCATCGATACACCATGAATG
Found at i:951442 original size:23 final size:23
Alignment explanation
Indices: 951373--951453 Score: 96
Period size: 23 Copynumber: 3.7 Consensus size: 23
951363 ACACCTATCA
*
951373 GTGCATCGATGCA-TCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
951395 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
* *
951416 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
951439 GTGCATCGATGCACA
1 GTGCATCGATGCACA
951454 AGTCAATGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.32
22 10 0.21
23 21 0.45
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:951444 original size:44 final size:42
Alignment explanation
Indices: 951354--951448 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 42
951344 TTGTGCTTCA
* * *
951354 TGCATCGATACACCTATCAGTGCATCGATGCATCCTTGAATG
1 TGCATCGATACACCTATAAGTGCACCGATGCAGCCTTGAATG
951396 TGCATCGATACACC-ATGAAGGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACCTAT-AA-GTGCACCGATGCA-GCCTTGAATG
951440 TGCATCGAT
1 TGCATCGAT
951449 GCACAAGTCA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
41 2 0.04
42 15 0.32
43 12 0.26
44 18 0.38
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (42 bp):
TGCATCGATACACCTATAAGTGCACCGATGCAGCCTTGAATG
Found at i:951469 original size:43 final size:42
Alignment explanation
Indices: 951354--951471 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 42
951344 TTGTGCTTCA
* *
951354 TGCATCGATACACCTATC-AGTGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CAATCAAGTGCATCGATGCAGCCTTGAATG
* * *
951396 TGCATCGATACACCATGAAGGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACAATCAA-GTGCATCGATGCA-GCCTTGAATG
*
951440 TGCATCGATGCACAAGTCAA-TGCATCGATGCA
1 TGCATCGATACACAA-TCAAGTGCATCGATGCA
951472 TCCATCGGGT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 3 0.05
42 13 0.20
43 23 0.36
44 22 0.34
45 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (42 bp):
TGCATCGATACACAATCAAGTGCATCGATGCAGCCTTGAATG
Found at i:953030 original size:21 final size:21
Alignment explanation
Indices: 952988--953031 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
952978 ACTCCGGGAG
* *
952988 CTAGTTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
953009 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
953030 CT
1 CT
953032 CCTCCTCCAG
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:0.09, C:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:954063 original size:17 final size:19
Alignment explanation
Indices: 954035--954083 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
954025 TATGTTGAAA
954035 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
954053 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
954072 CACCGATGCACT
1 CATCGATGCACT
954084 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:957939 original size:31 final size:31
Alignment explanation
Indices: 957901--957964 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
957891 TTTTTATTTT
* *
957901 TTATTAAAGTTTTAT-GTTAAAGTCTTTTTCA
1 TTATTAAAGTTTT-TCATTAAAGTATTTTTCA
957932 TTATTAAAGTTTTTCATTAAAGTATTTTTCA
1 TTATTAAAGTTTTTCATTAAAGTATTTTTCA
957963 TT
1 TT
957965 TATTTCTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.30, C:0.06, G:0.08, T:0.56
Consensus pattern (31 bp):
TTATTAAAGTTTTTCATTAAAGTATTTTTCA
Found at i:961002 original size:6 final size:5
Alignment explanation
Indices: 960949--961009 Score: 52
Period size: 5 Copynumber: 11.8 Consensus size: 5
960939 TTCCTGTAAC
* * * *
960949 AAAAT AAAA- AAAGAT AGAAT AAAAT ACAAT TATAT AAAAT AAAAT AATAAT
1 AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT
961000 AATAAT AAAA
1 AA-AAT AAAA
961010 AATCAGTCCC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
4 3 0.07
5 29 0.64
6 13 0.29
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:961328 original size:26 final size:26
Alignment explanation
Indices: 961292--961345 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
961282 AACAAAAAAG
961292 TTGTTGTTTCCAACATGTTTGACTAA
1 TTGTTGTTTCCAACATGTTTGACTAA
961318 TTGTTGTTTCCAACATGTTTGACTAA
1 TTGTTGTTTCCAACATGTTTGACTAA
961344 TT
1 TT
961346 TTTTTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (26 bp):
TTGTTGTTTCCAACATGTTTGACTAA
Found at i:961817 original size:14 final size:14
Alignment explanation
Indices: 961794--961834 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
961784 GACAAATAGT
961794 TATT-AAATAATTA
1 TATTAAAATAATTA
*
961807 TATTAAAATAATTT
1 TATTAAAATAATTA
*
961821 TACTAAAA-AATTA
1 TATTAAAATAATTA
961834 T
1 T
961835 TACATAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
TATTAAAATAATTA
Found at i:963371 original size:14 final size:14
Alignment explanation
Indices: 963334--963391 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
963324 GCCGCTGAGC
963334 CGACTGAGTTAACCT
1 CGACTGAGTTAA-CT
963349 GCG-CTGAGTTAACT
1 -CGACTGAGTTAACT
*
963363 CGACTGAGTCAACT
1 CGACTGAGTTAACT
* *
963377 C-ATTGGGTTAACT
1 CGACTGAGTTAACT
963390 CG
1 CG
963392 TTGACTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 12 0.33
14 13 0.36
15 9 0.25
16 2 0.06
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (14 bp):
CGACTGAGTTAACT
Found at i:963585 original size:6 final size:6
Alignment explanation
Indices: 963574--963605 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
963564 TTGACTTCCT
963574 GAATCC GAATCC GAATCC GAATCC GAAGTCC G
1 GAATCC GAATCC GAATCC GAATCC GAA-TCC G
963606 TTTCGTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.16
Consensus pattern (6 bp):
GAATCC
Found at i:966021 original size:32 final size:31
Alignment explanation
Indices: 965939--966023 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
965929 CTAATTTGAC
* *
965939 TCTTAGGTAGGCTCTGTGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTGTGGCCCTAAGATCAT
** * **
965970 TCTCGGGTAGGCCATGTGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGTGGCCCTAAGAT-CAT
*
966002 TCTTAGGTAGGCCCCGTGGCCC
1 TCTTAGGTAGGCCCTGTGGCCC
966024 CGAAGCTTTC
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.55
32 19 0.45
ACGTcount: A:0.14, C:0.26, G:0.32, T:0.28
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGTGGCCCTAAGATCAT
Found at i:966054 original size:62 final size:63
Alignment explanation
Indices: 965939--966061 Score: 158
Period size: 62 Copynumber: 2.0 Consensus size: 63
965929 CTAATTTGAC
* * * * **
965939 TCTTAGGTAGGCTCTGTGGCCCTGAGATCATTCTCGGGTAGGCCATGTGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCGTGGCCCCGAGAGCATTCTCGGGTAGGCCATCAGGCCCTAAGATGTGT
* * *
966002 TCTTAGGTAGGCCCCGTGGCCCCGA-AGCTTTCTTGGGTAGGCTATCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCGTGGCCCCGAGAGCATTCTCGGGTAGGCCATCAGGCCCTAAGATGT
966062 TCCCTTAGGT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
62 29 0.57
63 22 0.43
ACGTcount: A:0.16, C:0.24, G:0.31, T:0.28
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCGTGGCCCCGAGAGCATTCTCGGGTAGGCCATCAGGCCCTAAGATGTGT
Found at i:975170 original size:29 final size:29
Alignment explanation
Indices: 975089--975170 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
975079 CTCACCTAAC
* *
975089 TAAATTGATGTAAACAATGACATATTTACT
1 TAAA-TGATGTAAGCAATGACATCTTTACT
975119 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCTTTACT
975148 TAAATGATGTAAGCAATGACATC
1 TAAATGATGTAAGCAATGACATC
975171 AATTTAGTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCTTTACT
Found at i:979277 original size:125 final size:125
Alignment explanation
Indices: 979055--979304 Score: 500
Period size: 125 Copynumber: 2.0 Consensus size: 125
979045 AATCCTTCAA
979055 AGTTGTCTTTTGATCCGGTGTAAGAGTAGCAAAAGCATCATCATCCGCAGGCTCGTTATAGCATT
1 AGTTGTCTTTTGATCCGGTGTAAGAGTAGCAAAAGCATCATCATCCGCAGGCTCGTTATAGCATT
979120 TCTCTATGATATCCCACACATCTTGTGATCCAAGAAGTTCCTTTATTTTGATACTCCAAT
66 TCTCTATGATATCCCACACATCTTGTGATCCAAGAAGTTCCTTTATTTTGATACTCCAAT
979180 AGTTGTCTTTTGATCCGGTGTAAGAGTAGCAAAAGCATCATCATCCGCAGGCTCGTTATAGCATT
1 AGTTGTCTTTTGATCCGGTGTAAGAGTAGCAAAAGCATCATCATCCGCAGGCTCGTTATAGCATT
979245 TCTCTATGATATCCCACACATCTTGTGATCCAAGAAGTTCCTTTATTTTGATACTCCAAT
66 TCTCTATGATATCCCACACATCTTGTGATCCAAGAAGTTCCTTTATTTTGATACTCCAAT
979305 TGTCGTAGTT
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (125 bp):
AGTTGTCTTTTGATCCGGTGTAAGAGTAGCAAAAGCATCATCATCCGCAGGCTCGTTATAGCATT
TCTCTATGATATCCCACACATCTTGTGATCCAAGAAGTTCCTTTATTTTGATACTCCAAT
Found at i:979911 original size:29 final size:29
Alignment explanation
Indices: 979865--979945 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 29
979855 CTCACCTAAC
*
979865 TAAATTGATGTAAGCAATGATATATTTACT
1 TAAA-TGATGTAAACAATGATATATTTACT
* *
979895 TAAATGATGTAAACAATGACATCTTTACT
1 TAAATGATGTAAACAATGATATATTTACT
*
979924 TAAATGATGTAATCAATGATAT
1 TAAATGATGTAAACAATGATAT
979946 CAATTTAGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 42 0.91
30 4 0.09
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (29 bp):
TAAATGATGTAAACAATGATATATTTACT
Found at i:982650 original size:212 final size:212
Alignment explanation
Indices: 982283--982709 Score: 845
Period size: 212 Copynumber: 2.0 Consensus size: 212
982273 AAATGCCAAG
*
982283 AAAGAAGAGATTAATATAAGAACCTACAAGCTCAACTTAAAGAAATGTAAATGCATTACTTAAAA
1 AAAGAAGAGATTAATATAAGAACCTACAAGCTCAACTTAAAGAAATATAAATGCATTACTTAAAA
982348 TGAACTACTGTAAGGTAAGTGCCAAATTAAGACTTGGGTGTTAGAACCAGCCATAGCACGCTGCA
66 TGAACTACTGTAAGGTAAGTGCCAAATTAAGACTTGGGTGTTAGAACCAGCCATAGCACGCTGCA
982413 TGCTATCTAAAGACCTTCAGGCTGCTGCAAGGAGGCAGCATACTCCCTCACCAACTTTGCACTGA
131 TGCTATCTAAAGACCTTCAGGCTGCTGCAAGGAGGCAGCATACTCCCTCACCAACTTTGCACTGA
982478 TAACCAATCAACTCCCT
196 TAACCAATCAACTCCCT
982495 AAAGAAGAGATTAATATAAGAACCTACAAGCTCAACTTAAAGAAATATAAATGCATTACTTAAAA
1 AAAGAAGAGATTAATATAAGAACCTACAAGCTCAACTTAAAGAAATATAAATGCATTACTTAAAA
982560 TGAACTACTGTAAGGTAAGTGCCAAATTAAGACTTGGGTGTTAGAACCAGCCATAGCACGCTGCA
66 TGAACTACTGTAAGGTAAGTGCCAAATTAAGACTTGGGTGTTAGAACCAGCCATAGCACGCTGCA
982625 TGCTATCTAAAGACCTTCAGGCTGCTGCAAGGAGGCAGCATACTCCCTCACCAACTTTGCACTGA
131 TGCTATCTAAAGACCTTCAGGCTGCTGCAAGGAGGCAGCATACTCCCTCACCAACTTTGCACTGA
982690 TAACCAATCAACTCCCT
196 TAACCAATCAACTCCCT
982707 AAA
1 AAA
982710 CCTCTTCATT
Statistics
Matches: 214, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
212 214 1.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (212 bp):
AAAGAAGAGATTAATATAAGAACCTACAAGCTCAACTTAAAGAAATATAAATGCATTACTTAAAA
TGAACTACTGTAAGGTAAGTGCCAAATTAAGACTTGGGTGTTAGAACCAGCCATAGCACGCTGCA
TGCTATCTAAAGACCTTCAGGCTGCTGCAAGGAGGCAGCATACTCCCTCACCAACTTTGCACTGA
TAACCAATCAACTCCCT
Found at i:983342 original size:12 final size:12
Alignment explanation
Indices: 983325--983349 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
983315 TAGAGTTGAT
983325 AAGTTGAATTTG
1 AAGTTGAATTTG
983337 AAGTTGAATTTG
1 AAGTTGAATTTG
983349 A
1 A
983350 CTTGTCATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AAGTTGAATTTG
Found at i:983551 original size:19 final size:19
Alignment explanation
Indices: 983529--983571 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
983519 GAAACATGAA
983529 GAATTGAAGTGGAAATGGT
1 GAATTGAAGTGGAAATGGT
983548 GAATTGAAGTGGAAATGGT
1 GAATTGAAGTGGAAATGGT
983567 GAATT
1 GAATT
983572 TTCGTGCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.35, T:0.28
Consensus pattern (19 bp):
GAATTGAAGTGGAAATGGT
Found at i:983975 original size:2 final size:2
Alignment explanation
Indices: 983954--983995 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
983944 GTTACATGAT
* *
983954 TA TA TG TA TA TA TG TGA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
983996 GCTTACATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 34 0.97
3 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (2 bp):
TA
Found at i:984589 original size:18 final size:18
Alignment explanation
Indices: 984518--984581 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
984508 AGGGTTACAA
*
984518 TGGTCCTACGGGACATAG
1 TGGTCCTACGAGACATAG
*
984536 TGGTCCTTCGAGACAATACAG
1 TGGTCCTACGAGAC-AT--AG
* *
984557 TGATCCTACGAGACATGG
1 TGGTCCTACGAGACATAG
984575 TGGTCCT
1 TGGTCCT
984582 TCGGGACAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 19 0.51
19 2 0.05
20 2 0.05
21 14 0.38
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (18 bp):
TGGTCCTACGAGACATAG
Found at i:993880 original size:21 final size:21
Alignment explanation
Indices: 993851--993891 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
993841 ACAATGCAAT
*
993851 ATTCTCAGTAATATATTAGGC
1 ATTCCCAGTAATATATTAGGC
*
993872 ATTCCCAGTAATATGTTAGG
1 ATTCCCAGTAATATATTAGG
993892 TAATGTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (21 bp):
ATTCCCAGTAATATATTAGGC
Found at i:994481 original size:15 final size:15
Alignment explanation
Indices: 994453--994503 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
994443 ATATTCACAC
994453 AATATA-TTTT-AAA
1 AATATATTTTTAAAA
994466 AATATATTTTTAAAA
1 AATATATTTTTAAAA
* **
994481 ATTATAAATTTAAAA
1 AATATATTTTTAAAA
994496 AATA-ATTT
1 AATATATTT
994504 AAGGTATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 6 0.20
14 6 0.20
15 18 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATATTTTTAAAA
Found at i:994839 original size:19 final size:19
Alignment explanation
Indices: 994817--994853 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
994807 TCCCAAAAGT
994817 ATAAAAAAATTACTAAAAA
1 ATAAAAAAATTACTAAAAA
* *
994836 ATAAAAATATTATTAAAA
1 ATAAAAAAATTACTAAAA
994854 CTTTTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (19 bp):
ATAAAAAAATTACTAAAAA
Found at i:996050 original size:37 final size:37
Alignment explanation
Indices: 996009--996087 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 37
995999 TGCACATACC
**
996009 ATGCA-TCGATGCACTCAGGGT-TTTATGAAAACATCGA
1 ATGCATTCGATGCACTCAGACTATTT-TG-AAACATCGA
*
996046 ATGCATTTGATGCACTCAGACTATTTTGAAACATCGA
1 ATGCATTCGATGCACTCAGACTATTTTGAAACATCGA
996083 ATGCA
1 ATGCA
996088 CTTCATTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 19 0.51
38 15 0.41
39 3 0.08
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (37 bp):
ATGCATTCGATGCACTCAGACTATTTTGAAACATCGA
Found at i:999185 original size:13 final size:13
Alignment explanation
Indices: 999167--999191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
999157 CCAACTAGGA
999167 CTACTAGCTTGGC
1 CTACTAGCTTGGC
999180 CTACTAGCTTGG
1 CTACTAGCTTGG
999192 GTGAAAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.28, G:0.24, T:0.32
Consensus pattern (13 bp):
CTACTAGCTTGGC
Found at i:1003105 original size:21 final size:21
Alignment explanation
Indices: 1003063--1003106 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1003053 ACTCCGAGAG
* *
1003063 CTAGTTCTTCACGGGCTGCTC
1 CTAGCTCTTCACGGGCTCCTC
* *
1003084 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGGGCTCCTC
1003105 CT
1 CT
1003107 CCTCTGGAAT
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:0.07, C:0.39, G:0.18, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGGGCTCCTC
Found at i:1004224 original size:63 final size:66
Alignment explanation
Indices: 1004107--1004262 Score: 178
Period size: 64 Copynumber: 2.4 Consensus size: 66
1004097 ATGCACATGA
**
1004107 AGTGCATCGATGCA-CTCTTTTAAAATAAAAACATCGAATGCCATATATGCATCGATGCAT-AAG
1 AGTGCATCGATGCATCTCCATTAAAATAAAAACATCGAATGCCATATATGCATCGATGCATGAAG
1004170 G
66 G
* * * **
1004171 AGTGCATCGATGCATC-CCATT-AAATACAAACATCGAATAG-GATTTATGCATCGATGCATGTT
1 AGTGCATCGATGCATCTCCATTAAAATAAAAACATCGAAT-GCCATATATGCATCGATGCATGAA
*
1004233 GT
65 GG
1004235 AGTGCATCGATGCATACCTCCATTAAAA
1 AGTGCATCGATGCAT--CTCCATTAAAA
1004263 GATGAAAAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
63 33 0.43
64 34 0.44
65 1 0.01
66 1 0.01
67 5 0.06
68 3 0.04
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (66 bp):
AGTGCATCGATGCATCTCCATTAAAATAAAAACATCGAATGCCATATATGCATCGATGCATGAAG
G
Found at i:1004627 original size:30 final size:30
Alignment explanation
Indices: 1004593--1004661 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
1004583 TTATATGAGT
* *
1004593 TATGTGATAAAGGTATGGAAATGATATGTC
1 TATGTGATAAAGGTATGAAAATAATATGTC
1004623 TATGTGATAAAGGTATGAAAATAATATGTC
1 TATGTGATAAAGGTATGAAAATAATATGTC
*
1004653 TACGTGATA
1 TATGTGATA
1004662 CAAATTATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.33
Consensus pattern (30 bp):
TATGTGATAAAGGTATGAAAATAATATGTC
Found at i:1004911 original size:23 final size:23
Alignment explanation
Indices: 1004885--1004934 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1004875 ATTACGGTGC
*
1004885 AATTCTACATGGTACTCCGATGT
1 AATTCTACATGGCACTCCGATGT
* * *
1004908 AATTCTACGTGGCACTTCGGTGT
1 AATTCTACATGGCACTCCGATGT
1004931 AATT
1 AATT
1004935 ATATGAGCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (23 bp):
AATTCTACATGGCACTCCGATGT
Found at i:1011136 original size:64 final size:64
Alignment explanation
Indices: 1011066--1011207 Score: 175
Period size: 63 Copynumber: 2.2 Consensus size: 64
1011056 ATGCACATGA
*
1011066 AGTGCATCGATGCA-CTCTTTTAAAATACAAACATCGAAT-GCCATTGATGCATCGATGCATAAG
1 AGTGCATCGATGCACCTC-ATT-AAATACAAACATCGAATAG-CATTGATGCATCGATGCAT-AG
1011129 -G-
62 TGT
* * * *
1011130 AGTGCATCAATGCACCTCATTAAATACAAACATCGAATAGGATTTATGCATCGATGCATGGTGT
1 AGTGCATCGATGCACCTCATTAAATACAAACATCGAATAGCATTGATGCATCGATGCATAGTGT
1011194 AGTGCATCGATGCA
1 AGTGCATCGATGCA
1011208 TACCTCCATT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
62 1 0.01
63 35 0.51
64 29 0.43
65 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (64 bp):
AGTGCATCGATGCACCTCATTAAATACAAACATCGAATAGCATTGATGCATCGATGCATAGTGT
Found at i:1011587 original size:30 final size:30
Alignment explanation
Indices: 1011551--1011619 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
1011541 TTATATGAGT
* *
1011551 TATGTGATAAAGGTATGGAAATGACATGTC
1 TATGTGATAAAGGTATGAAAATAACATGTC
*
1011581 TATGTGATAAAGGTATGAAAATAATATGTC
1 TATGTGATAAAGGTATGAAAATAACATGTC
*
1011611 TACGTGATA
1 TATGTGATA
1011620 CAAATTATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (30 bp):
TATGTGATAAAGGTATGAAAATAACATGTC
Found at i:1011865 original size:23 final size:23
Alignment explanation
Indices: 1011830--1011897 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
1011820 ATTATTATAT
*
1011830 GGCACTACAGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
1011853 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
1011876 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
1011898 AGTTGTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1013541 original size:64 final size:65
Alignment explanation
Indices: 1013385--1013544 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
1013375 GAATAAATTG
* * * * *
1013385 AACATCGAATGCATTTTATGCATCGATACACATATCATGCATCGATGCACTCAGGGTTTTATGAA
1 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCATCGATACACTCAGGCTTTTATGAA
* *
1013450 AACATAGAATGCATTTGATGCATCGATGCACA-AGCCATGCATCGATACACTCAGGCTATTT-TG
1 AACATCGAATGCATTTCATGCATCGATGCACATA-CCATGCATCGATACACTCAGGCT-TTTATG
1013513 -A
64 AA
*
1013514 AACATCGAATGCACTTCATGCATCGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
1013545 TCAGGCTGTT
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 30 0.36
65 51 0.61
66 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACATACCATGCATCGATACACTCAGGCTTTTATGAA
Done.