Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 343 of 373
Found at i:114699087 original size:55 final size:54
Alignment explanation
Indices: 114699000--114699254 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
114698990 ATTAAGGTTT
*
114699000 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
114699055 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * * *
114699110 AAAGG-TCCCATATAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
114699163 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * *
114699212 AAGGATACCACGTAAGACTATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
114699255 GTACCCGCGT
Statistics
Matches: 169, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 40 0.24
54 12 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:114699206 original size:108 final size:110
Alignment explanation
Indices: 114699007--114699207 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
114698997 TTTAAGGATA
* *
114699007 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
114699072 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
114699117 CCATATAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
114699179 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
114699208 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:114699468 original size:16 final size:16
Alignment explanation
Indices: 114699447--114699477 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
114699437 ATAAATTTGA
114699447 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
114699463 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
114699478 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:114709430 original size:12 final size:12
Alignment explanation
Indices: 114709404--114709441 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
114709394 TCAATTCGCC
*
114709404 TTTAT-TAAATT
1 TTTATATAATTT
*
114709415 TTTATATGATTT
1 TTTATATAATTT
114709427 TTTATATAATTT
1 TTTATATAATTT
114709439 TTT
1 TTT
114709442 TAAAAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 5 0.22
12 18 0.78
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (12 bp):
TTTATATAATTT
Found at i:114709646 original size:11 final size:11
Alignment explanation
Indices: 114709614--114709665 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
114709604 ACAATATCCA
*
114709614 AAAATAATAAT
1 AAAATAATAGT
*
114709625 AAAATATTAGT
1 AAAATAATAGT
*
114709636 AACATAATAGT
1 AAAATAATAGT
* * *
114709647 GAAATAACAGC
1 AAAATAATAGT
114709658 AAAATAAT
1 AAAATAAT
114709666 GGAAAACAAA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.25
Consensus pattern (11 bp):
AAAATAATAGT
Found at i:114712538 original size:2 final size:2
Alignment explanation
Indices: 114712531--114712573 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
114712521 AACAGATATG
*
114712531 CA CA CA CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
114712573 C
1 C
114712574 CTAGTTATAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.49, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:114713474 original size:12 final size:12
Alignment explanation
Indices: 114713459--114713483 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114713449 AAAATAAAAT
114713459 AAATATTTAACA
1 AAATATTTAACA
114713471 AAATATTTAACA
1 AAATATTTAACA
114713483 A
1 A
114713484 CATAGAAATA
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:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATATTTAACA
Found at i:114716604 original size:17 final size:17
Alignment explanation
Indices: 114716578--114716721 Score: 130
Period size: 17 Copynumber: 8.4 Consensus size: 17
114716568 CGAGATTTTT
114716578 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
114716596 TTTTCAAAACACCG-AAA
1 TTTTTAAAACA-CGAAAA
* **
114716613 TTTTTGAAAACAAGAGGA
1 TTTTT-AAAACACGAAAA
* *
114716631 TTTTTGAAATACGAAAAA
1 TTTTTAAAACACG-AAAA
*
114716649 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
114716666 TTTTTTAAACACGGAAA
1 TTTTTAAAACACGAAAA
*
114716683 TTTTTGAAA-ACGAAAA
1 TTTTTAAAACACGAAAA
* *
114716699 TTTTTATAACACAAAAA
1 TTTTTAAAACACGAAAA
114716716 TTTTTA
1 TTTTTA
114716722 GAAGACACTA
Statistics
Matches: 100, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
16 13 0.13
17 57 0.57
18 30 0.30
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.32
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:114716624 original size:35 final size:35
Alignment explanation
Indices: 114716578--114716739 Score: 150
Period size: 35 Copynumber: 4.7 Consensus size: 35
114716568 CGAGATTTTT
*
114716578 TTTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTTAAAACACCGAAA
* ** * *
114716613 TTTTTGAAAACAAGAGGATTTTTGAAATA-CGAAAA
1 TTTTTGAAAACACGAAAATTTTTAAAACACCG-AAA
* * *
114716648 ATTTTGAAAACACGAAAATTTTTTAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTTTAAAACACCGAAA
* **
114716683 TTTTTG-AAA-ACGAAAATTTTTATAACACAAAAA
1 TTTTTGAAAACACGAAAATTTTTAAAACACCGAAA
* * *
114716716 TTTTTAGAAGACACTAAAAATTTT
1 TTTTT-GAAAACACGAAAATTTTT
114716740 GGAAATGAAT
Statistics
Matches: 101, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
33 25 0.25
34 6 0.06
35 59 0.58
36 11 0.11
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTAAAACACCGAAA
Found at i:114716734 original size:19 final size:18
Alignment explanation
Indices: 114716578--114716739 Score: 61
Period size: 17 Copynumber: 9.2 Consensus size: 18
114716568 CGAGATTTTT
*
114716578 TTTTTGAAAACAC-GAAAA
1 TTTTT-AAAACACAAAAAA
* **
114716596 TTTTCAAAACAC-CGAAA
1 TTTTTAAAACACAAAAAA
* **
114716613 TTTTTGAAAACA-AGAGGA
1 TTTTT-AAAACACAAAAAA
* * *
114716631 TTTTTGAAATACGAAAAA
1 TTTTTAAAACACAAAAAA
* *
114716649 TTTTGAAAACAC-GAAAA
1 TTTTTAAAACACAAAAAA
* **
114716666 TTTTTTAAACAC-GGAAA
1 TTTTTAAAACACAAAAAA
* *
114716683 TTTTTGAAA-AC-GAAAA
1 TTTTTAAAACACAAAAAA
*
114716699 TTTTTATAACAC-AAAAA
1 TTTTTAAAACACAAAAAA
*
114716716 TTTTTAGAAGACACTAAAAA
1 TTTTTA-AA-ACACAAAAAA
114716736 TTTT
1 TTTT
114716740 GGAAATGAAT
Statistics
Matches: 110, Mismatches: 27, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
16 13 0.12
17 56 0.51
18 28 0.25
19 4 0.04
20 9 0.08
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (18 bp):
TTTTTAAAACACAAAAAA
Found at i:114716954 original size:20 final size:19
Alignment explanation
Indices: 114716916--114716962 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
114716906 GAATATATAT
114716916 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
114716936 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
114716955 -TTTTGAAA
1 TTTTTGAAA
114716963 AATAGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:114717335 original size:8 final size:8
Alignment explanation
Indices: 114717322--114717416 Score: 106
Period size: 8 Copynumber: 12.0 Consensus size: 8
114717312 TGAAACTCTT
114717322 TTTTTTTC
1 TTTTTTTC
114717330 TTTTTTTC
1 TTTTTTTC
114717338 TTCTTTTTCC
1 TT-TTTTT-C
*
114717348 TTTTTTCC
1 TTTTTTTC
114717356 TTTTTTTC
1 TTTTTTTC
*
114717364 -TCTTTTC
1 TTTTTTTC
114717371 TTTTTTTC
1 TTTTTTTC
*
114717379 -TTCTTTC
1 TTTTTTTC
114717386 TTTTTTTC
1 TTTTTTTC
114717394 -TTTTTTC
1 TTTTTTTC
* *
114717401 TTTCTCTC
1 TTTTTTTC
114717409 TTTTTTTC
1 TTTTTTTC
114717417 CTGGCCTACT
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
7 19 0.26
8 41 0.57
9 9 0.12
10 3 0.04
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTTC
Found at i:114717358 original size:15 final size:15
Alignment explanation
Indices: 114717324--114717414 Score: 58
Period size: 15 Copynumber: 5.9 Consensus size: 15
114717314 AAACTCTTTT
*
114717324 TTTTTCTTTTTTTCTTC
1 TTTTTCCTTTTTTC--C
114717341 TTTTTCCTTTTTTCC
1 TTTTTCCTTTTTTCC
* * *
114717356 TTTTTTTCTCTTTTCT
1 -TTTTTCCTTTTTTCC
* * *
114717372 TTTTTTCTTCTTTCT
1 TTTTTCCTTTTTTCC
*
114717387 TTTTTTCTTTTTT-C
1 TTTTTCCTTTTTTCC
*
114717401 TTTCTCTCTTTTTT
1 TTTTTC-CTTTTTT
114717415 TCCTGGCCTA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
14 4 0.06
15 33 0.53
16 12 0.19
17 13 0.21
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTCCTTTTTTCC
Found at i:114717732 original size:10 final size:10
Alignment explanation
Indices: 114717717--114717776 Score: 63
Period size: 9 Copynumber: 6.1 Consensus size: 10
114717707 GATTGTTAAG
114717717 TTTTTT-TTC
1 TTTTTTCTTC
114717726 TTTTTT-TTC
1 TTTTTTCTTC
*
114717735 TTTCTTCTTC
1 TTTTTTCTTC
*
114717745 TTTCTTCTTC
1 TTTTTTCTTC
114717755 -TTTTTCTTC
1 TTTTTTCTTC
114717764 TTCTTCTTCTTC
1 TT-TT-TTCTTC
114717776 T
1 T
114717777 CCTCCTACAC
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
9 22 0.49
10 14 0.31
11 2 0.04
12 7 0.16
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:114717742 original size:3 final size:3
Alignment explanation
Indices: 114717736--114717776 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
114717726 TTTTTTTTCT
*
114717736 TTC TTC TTC TTTC TTC TTC TTT TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
114717777 CCTCCTACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:114717870 original size:19 final size:18
Alignment explanation
Indices: 114717845--114717888 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
114717835 CCGGTACTCT
*
114717845 TTCTTTTCTTCTCCTCTTTC
1 TTCTTTTATTCT-CT-TTTC
114717865 -TCTTTTATTCTCTTTTC
1 TTCTTTTATTCTCTTTTC
114717882 TTCTTTT
1 TTCTTTT
114717889 TTCCTTCGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.18
18 8 0.36
19 10 0.45
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.70
Consensus pattern (18 bp):
TTCTTTTATTCTCTTTTC
Found at i:114717890 original size:10 final size:10
Alignment explanation
Indices: 114717842--114717891 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
114717832 ACGCCGGTAC
114717842 TCTT-TCTTT
1 TCTTCTCTTT
* *
114717851 TCTTCTCCTC
1 TCTTCTCTTT
114717861 T-TTCTCTTT
1 TCTTCTCTTT
*
114717870 TATTCTCTTT
1 TCTTCTCTTT
*
114717880 TCTTCTTTTT
1 TCTTCTCTTT
114717890 TC
1 TC
114717892 CTTCGAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
9 11 0.33
10 22 0.67
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:114718173 original size:29 final size:30
Alignment explanation
Indices: 114718140--114718256 Score: 114
Period size: 30 Copynumber: 3.9 Consensus size: 30
114718130 TGTCATTTTT
*
114718140 AGAAAATTTA-GGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGATCAAAATGAAATTTAA
* * * * *
114718169 TGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGGATCAAAATGAAATTTAA
*
114718199 AGAAAGTTTAAGGG-TCAAAATGAAATTT-A
1 AGAAAATTT-AGGGATCAAAATGAAATTTAA
* *
114718228 GGAAAAGTTTAGGGATCAAAATGCAATTT
1 AGAAAA-TTTAGGGATCAAAATGAAATTT
114718257 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
29 17 0.24
30 51 0.71
31 4 0.06
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.30
Consensus pattern (30 bp):
AGAAAATTTAGGGATCAAAATGAAATTTAA
Found at i:114718195 original size:30 final size:30
Alignment explanation
Indices: 114718155--114718256 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
114718145 ATTTAGGATT
*
114718155 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
114718185 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
114718215 AAAATGAAATTT-AGGAAAAGTTTAGGGATC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
114718245 AAAATGCAATTT
1 AAAATGAAATTT
114718257 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:114718702 original size:54 final size:55
Alignment explanation
Indices: 114718527--114718744 Score: 306
Period size: 54 Copynumber: 4.1 Consensus size: 55
114718517 CACGTGAGCC
* *
114718527 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AA
* *
114718582 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGAAAAATAG--A---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAA
* *
114718633 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
*
114718687 AAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
114718742 AAG
1 AAG
114718745 TAGAAATTGA
Statistics
Matches: 147, Mismatches: 9, Indels: 14
0.86 0.05 0.08
Matches are distributed among these distances:
50 14 0.10
51 33 0.22
52 1 0.01
54 51 0.35
55 36 0.24
56 6 0.04
57 6 0.04
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:114718742 original size:14 final size:14
Alignment explanation
Indices: 114718723--114718757 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
114718713 GAGTTGATTT
114718723 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
114718737 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
114718751 TTGAAAA
1 TTGAAAA
114718758 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:114718840 original size:15 final size:15
Alignment explanation
Indices: 114718820--114718848 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
114718810 TTTTTGAAAC
114718820 ACAGAAATTAAAAAA
1 ACAGAAATTAAAAAA
114718835 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
114718849 TAGAATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (15 bp):
ACAGAAATTAAAAAA
Found at i:114718909 original size:106 final size:105
Alignment explanation
Indices: 114718726--114718915 Score: 301
Period size: 106 Copynumber: 1.8 Consensus size: 105
114718716 TTGATTTTTG
* * *
114718726 AAAAACAGAAATTGAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTC
1 AAAAACAGAAATTGAAAAATAGAAATTGAAAAGACCTCAGCGTGCCCTGAGACTCAACTCACCTC
114718791 TTGCAATATGAGTTGATTTTTTTTGAAACACAGAAATTAA
66 TTGCAATATGAGTTGATTTTTTTTGAAACACAGAAATTAA
* * *
114718831 AAAAACAGAAATT-AAAAATAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCGCC
1 AAAAACAGAAATTGAAAAATAGAAATTGAAAAGACCTCAGC--GTGCCCTGAGACTCAACTCACC
114718895 TCTTGCAATATGAGTTGATTT
64 TCTTGCAATATGAGTTGATTT
114718916 GAAAAGTAGA
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
104 24 0.31
105 13 0.17
106 40 0.52
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (105 bp):
AAAAACAGAAATTGAAAAATAGAAATTGAAAAGACCTCAGCGTGCCCTGAGACTCAACTCACCTC
TTGCAATATGAGTTGATTTTTTTTGAAACACAGAAATTAA
Found at i:114719037 original size:15 final size:16
Alignment explanation
Indices: 114719004--114719037 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
114718994 TTGATTTTTG
* *
114719004 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
114719020 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
114719036 AA
1 AA
114719038 TTCCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:114719073 original size:91 final size:88
Alignment explanation
Indices: 114718844--114719098 Score: 297
Period size: 91 Copynumber: 2.9 Consensus size: 88
114718834 AACAGAAATT
* * * * *
114718844 AAAAATAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCGCCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
114718909 TTGA--TTTGAAAAGTAGAATTAG
65 TTGATTTTTGAAAAGTAGAATTAA
* * * *
114718931 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
114718994 TTGATTTTTGAAAAGCATAG-ATTGAA
65 TTGATTTTTGAAAAG--TAGAATT-AA
* *
114719020 AAAAACATAAATTGAAAATTCCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
114719084 GTTGATTTTTGAAAA
64 GTTGATTTTTGAAAA
114719099 ACAAAAATTA
Statistics
Matches: 142, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
84 3 0.02
85 32 0.23
87 31 0.22
88 3 0.02
89 27 0.19
91 43 0.30
93 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTTGAAAAGTAGAATTAA
Found at i:114719512 original size:192 final size:191
Alignment explanation
Indices: 114719056--114719666 Score: 1089
Period size: 192 Copynumber: 3.2 Consensus size: 191
114719046 CATGTGAGCC
** *
114719056 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
114719121 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
* *
114719186 AACTCATTTCTCGCAATATGAGTTGATTTTTTT-TAAATTTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
114719247 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
* * * *
114719312 ACCTCTCGCAACATGGGTCAATTTAAAACATAAACTAAACATACCTCGGCGTGCCCCGAGACTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
114719377 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACTTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTT-AAAAATTTAAAAATACCTCAACGTGTCTT
114719439 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
**
114719504 ACCTCTCGCAATATGAGTTTATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
114719569 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
114719630 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
114719667 CCTTGGAAAG
Statistics
Matches: 401, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
190 124 0.31
191 95 0.24
192 182 0.45
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (191 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:114727824 original size:36 final size:35
Alignment explanation
Indices: 114727759--114727834 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 35
114727749 AAGACATAAT
* *
114727759 ATTTTTTTTAAAACCAAAATTTATGAAACA-CGAG
1 ATTTTTTTTAAAACCAAAATTTATCAAACACCGAA
114727793 ATTTTTTTTGAAAACACGAAAATTT-TCAAACACCGAA
1 ATTTTTTTT-AAAAC-C-AAAATTTATCAAACACCGAA
114727830 ATTTT
1 ATTTT
114727835 GAAAACAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
34 9 0.25
35 5 0.14
36 7 0.19
37 15 0.42
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (35 bp):
ATTTTTTTTAAAACCAAAATTTATCAAACACCGAA
Found at i:114727868 original size:18 final size:17
Alignment explanation
Indices: 114727774--114727947 Score: 119
Period size: 17 Copynumber: 10.2 Consensus size: 17
114727764 TTTTAAAACC
*
114727774 AAAATTTATGAAACACG
1 AAAATTTTTGAAACACG
**
114727791 AGATTTTTTTTGAAAACACG
1 A-A-AATTTTTG-AAACACG
*
114727811 AAAA-TTTTCAAACACCG
1 AAAATTTTTGAAACA-CG
*
114727828 -AAA-TTTTGAAAACAAG
1 AAAATTTTTG-AAACACG
** *
114727844 AGGATTTTTGAAATACG
1 AAAATTTTTGAAACACG
*
114727861 AAAAATTTTGAAAACACG
1 AAAATTTTTG-AAACACG
114727879 AAAATTTTTGAAACACG
1 AAAATTTTTGAAACACG
*
114727896 GAAATTTTTGAAA-AC-
1 AAAATTTTTGAAACACG
*
114727911 AAAAATTTTGAAACAC-
1 AAAATTTTTGAAACACG
* *
114727927 -AAATTTTAGAAGACACT
1 AAAATTTTTGAA-ACACG
114727944 AAAA
1 AAAA
114727948 ATTTGGAAAA
Statistics
Matches: 123, Mismatches: 22, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
15 20 0.16
16 21 0.17
17 44 0.36
18 24 0.20
19 6 0.05
20 8 0.07
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (17 bp):
AAAATTTTTGAAACACG
Found at i:114727874 original size:35 final size:35
Alignment explanation
Indices: 114727798--114727926 Score: 135
Period size: 35 Copynumber: 3.8 Consensus size: 35
114727788 ACGAGATTTT
* *
114727798 TTTTGAAAACACGAAAA-TTTTCAAACACCG--AAA
1 TTTTGAAAACAAGAAAATTTTTGAAACA-CGAAAAA
** *
114727831 TTTTGAAAACAAGAGGATTTTTGAAATACGAAAAA
1 TTTTGAAAACAAGAAAATTTTTGAAACACGAAAAA
* * *
114727866 TTTTGAAAACACGAAAATTTTTGAAACACGGAAAT
1 TTTTGAAAACAAGAAAATTTTTGAAACACGAAAAA
114727901 TTTTGAAAAC-A-AAAA-TTTTGAAACAC
1 TTTTGAAAACAAGAAAATTTTTGAAACAC
114727927 AAATTTTAGA
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
32 11 0.14
33 20 0.25
34 8 0.10
35 42 0.52
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (35 bp):
TTTTGAAAACAAGAAAATTTTTGAAACACGAAAAA
Found at i:114728147 original size:19 final size:17
Alignment explanation
Indices: 114728123--114728167 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
114728113 GAATATATAT
114728123 TTTTGAAACACGAGAAAAA
1 TTTTGAAACAC--GAAAAA
*
114728142 TTTTGAAGGCACGAAAAA
1 TTTTGAA-ACACGAAAAA
114728160 TTTTGAAA
1 TTTTGAAA
114728168 AATAGAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 13 0.57
19 7 0.30
20 3 0.13
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.27
Consensus pattern (17 bp):
TTTTGAAACACGAAAAA
Found at i:114728538 original size:7 final size:7
Alignment explanation
Indices: 114728523--114728617 Score: 77
Period size: 7 Copynumber: 13.0 Consensus size: 7
114728513 CGAATTGAAA
114728523 CTTTTTT
1 CTTTTTT
*
114728530 -TTCTTT
1 CTTTTTT
*
114728536 -TTTCTT
1 CTTTTTT
114728542 CTTTTTT
1 CTTTTTT
114728549 CCTTTTTT
1 -CTTTTTT
114728557 CCTTTTTTT
1 -C-TTTTTT
*
114728566 CTCTTTT
1 CTTTTTT
114728573 CTTTTTTT
1 C-TTTTTT
*
114728581 CTTCTTT
1 CTTTTTT
114728588 CTTTTTTT
1 C-TTTTTT
114728596 CTTTTTT
1 CTTTTTT
*
114728603 CTTTCTCT
1 CTTT-TTT
114728611 CTTTTTT
1 CTTTTTT
114728618 TCCTGGCCTG
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
6 9 0.12
7 29 0.40
8 28 0.39
9 6 0.08
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
CTTTTTT
Found at i:114728538 original size:8 final size:8
Alignment explanation
Indices: 114728525--114728619 Score: 97
Period size: 8 Copynumber: 12.0 Consensus size: 8
114728515 AATTGAAACT
114728525 TTTTTTTC
1 TTTTTTTC
114728533 TTTTTTCTTC
1 -TTTTT-TTC
*
114728543 TTTTTTCC
1 TTTTTTTC
*
114728551 TTTTTTCC
1 TTTTTTTC
114728559 TTTTTTTC
1 TTTTTTTC
*
114728567 -TCTTTTC
1 TTTTTTTC
114728574 TTTTTTTC
1 TTTTTTTC
*
114728582 -TTCTTTC
1 TTTTTTTC
114728589 TTTTTTTC
1 TTTTTTTC
114728597 -TTTTTTC
1 TTTTTTTC
* *
114728604 TTTCTCTC
1 TTTTTTTC
114728612 TTTTTTTC
1 TTTTTTTC
114728620 CTGGCCTGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
7 19 0.26
8 40 0.56
9 10 0.14
10 3 0.04
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTTC
Found at i:114728604 original size:15 final size:15
Alignment explanation
Indices: 114728525--114728617 Score: 114
Period size: 15 Copynumber: 5.9 Consensus size: 15
114728515 AATTGAAACT
114728525 TTTTTTTCTTTTTTC
1 TTTTTTTCTTTTTTC
114728540 TTCTTTTTTCCTTTTTTCC
1 -T-TTTTTT-CTTTTTT-C
*
114728559 TTTTTTTCTCTTTTC
1 TTTTTTTCTTTTTTC
*
114728574 TTTTTTTCTTCTTTC
1 TTTTTTTCTTTTTTC
114728589 TTTTTTTCTTTTTTC
1 TTTTTTTCTTTTTTC
* *
114728604 TTTCTCTCTTTTTT
1 TTTTTTTCTTTTTT
114728618 TCCTGGCCTG
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
15 40 0.59
16 7 0.10
17 12 0.18
18 8 0.12
19 1 0.01
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTTCTTTTTTC
Found at i:114728608 original size:23 final size:23
Alignment explanation
Indices: 114728526--114728619 Score: 95
Period size: 23 Copynumber: 4.0 Consensus size: 23
114728516 ATTGAAACTT
114728526 TTTTTTCTTT-TTTCTTCTTTTTTCC
1 TTTTTTCTTTCTTTC-T-TTTTTT-C
* *
114728551 TTTTTTCCTTTTTTTC-TCTTTTC
1 TTTTTT-CTTTCTTTCTTTTTTTC
114728574 TTTTTT-TCTTCTTTCTTTTTTTC
1 TTTTTTCT-TTCTTTCTTTTTTTC
*
114728597 TTTTTTCTTTCTCTCTTTTTTTC
1 TTTTTTCTTTCTTTCTTTTTTTC
114728620 CTGGCCTGCT
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
21 1 0.02
22 6 0.10
23 33 0.55
24 6 0.10
25 6 0.10
26 4 0.07
27 4 0.07
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTTCTTTCTTTCTTTTTTTC
Found at i:114728730 original size:14 final size:13
Alignment explanation
Indices: 114728711--114728761 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 13
114728701 GGCCTGCTTC
114728711 TTTTTTCTGGGCTG
1 TTTTTT-TGGGCTG
114728725 TTTTTTTTGGGCCT-
1 -TTTTTTTGGG-CTG
114728739 TTTCTTTTGGGCTG
1 TTT-TTTTGGGCTG
114728753 CTTTTTTTG
1 -TTTTTTTG
114728762 CTTTGGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
13 5 0.16
14 16 0.50
15 11 0.34
ACGTcount: A:0.00, C:0.14, G:0.24, T:0.63
Consensus pattern (13 bp):
TTTTTTTGGGCTG
Found at i:114728927 original size:3 final size:3
Alignment explanation
Indices: 114728921--114728958 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
114728911 TTTTTCTTTT
114728921 TTC TTC TTC TTC TTTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC T
114728959 CCTCCTACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:114728935 original size:16 final size:16
Alignment explanation
Indices: 114728914--114728958 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
114728904 AAGTTTTTTT
*
114728914 TTCTTTTTTCTTCTTC
1 TTCTTTCTTCTTCTTC
114728930 TTCTTTCTTCTTCTTC
1 TTCTTTCTTCTTCTTC
114728946 TTC-TTCTTCTTCT
1 TTCTTTCTTCTTCT
114728959 CCTCCTACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCTTTCTTCTTCTTC
Found at i:114729044 original size:16 final size:16
Alignment explanation
Indices: 114729023--114729064 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
114729013 GACGCCGGTA
114729023 CTCTTTCT-TTCTTCTC
1 CTCTTTCTCTT-TTCTC
*
114729039 CTCTTTCTCTTTTCTT
1 CTCTTTCTCTTTTCTC
114729055 CTCTTT-TCTT
1 CTCTTTCTCTT
114729065 CTTTTTTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 18 0.75
17 2 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (16 bp):
CTCTTTCTCTTTTCTC
Found at i:114729058 original size:10 final size:10
Alignment explanation
Indices: 114729030--114729072 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
114729020 GTACTCTTTC
*
114729030 TTTCTTCTCC
1 TTTCTTCTCT
*
114729040 TCT-TTCTCT
1 TTTCTTCTCT
114729049 TTTCTTCTCT
1 TTTCTTCTCT
*
114729059 TTTCTTCTTT
1 TTTCTTCTCT
114729069 TTTC
1 TTTC
114729073 CTTCGAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 7 0.25
10 21 0.75
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTCTTCTCT
Found at i:114729070 original size:19 final size:19
Alignment explanation
Indices: 114729030--114729069 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
114729020 GTACTCTTTC
114729030 TTTCTTCTCCTCTTTCTCT
1 TTTCTTCTCCTCTTTCTCT
114729049 TTTCTTCT-CT-TTTCTTCT
1 TTTCTTCTCCTCTTTC-TCT
114729067 TTT
1 TTT
114729070 TTCCTTCGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 8 0.40
19 8 0.40
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTCTTCTCCTCTTTCTCT
Found at i:114729421 original size:29 final size:30
Alignment explanation
Indices: 114729334--114729434 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 30
114729324 ATTTAGGATT
* *
114729334 AAAATGAAATTTAATGAAATTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
114729364 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
114729394 AAAATGAAATTT-AGGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
114729423 AAAATGCAATTT
1 AAAATGAAATTT
114729435 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 26 0.43
30 35 0.57
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.31
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:114732044 original size:29 final size:29
Alignment explanation
Indices: 114732012--114732097 Score: 172
Period size: 29 Copynumber: 3.0 Consensus size: 29
114732002 CTACGAACCA
114732012 TCTATAATATAAGTGGAAAATAATAATAT
1 TCTATAATATAAGTGGAAAATAATAATAT
114732041 TCTATAATATAAGTGGAAAATAATAATAT
1 TCTATAATATAAGTGGAAAATAATAATAT
114732070 TCTATAATATAAGTGGAAAATAATAATA
1 TCTATAATATAAGTGGAAAATAATAATA
114732098 ATGTAAAAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.34
Consensus pattern (29 bp):
TCTATAATATAAGTGGAAAATAATAATAT
Found at i:114737923 original size:26 final size:25
Alignment explanation
Indices: 114737893--114737945 Score: 97
Period size: 26 Copynumber: 2.1 Consensus size: 25
114737883 AATGGCATCA
114737893 ATTAATTTTGGAGATGAAAGAAAATT
1 ATTAATTTTGGAGATGAAAG-AAATT
114737919 ATTAATTTTGGAGATGAAAGAAATT
1 ATTAATTTTGGAGATGAAAGAAATT
114737944 AT
1 AT
114737946 AGTTATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (25 bp):
ATTAATTTTGGAGATGAAAGAAATT
Found at i:114738152 original size:19 final size:19
Alignment explanation
Indices: 114738129--114738175 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
114738119 TTTTTATACT
*
114738129 ATTTTCTTTTT-TTTTTT-
1 ATTTTTTTTTTGTTTTTTC
114738146 ATTTTTTTTTTGTTTTTTC
1 ATTTTTTTTTTGTTTTTTC
114738165 ATTTTTTTTTT
1 ATTTTTTTTTT
114738176 CTGTATTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 10 0.37
18 6 0.22
19 11 0.41
ACGTcount: A:0.06, C:0.04, G:0.02, T:0.87
Consensus pattern (19 bp):
ATTTTTTTTTTGTTTTTTC
Found at i:114755237 original size:38 final size:37
Alignment explanation
Indices: 114755121--114755248 Score: 104
Period size: 38 Copynumber: 3.4 Consensus size: 37
114755111 GATCCGATTG
* *
114755121 AAACACGAGAATTTCTTGTTTTGAACACACGAGAATTTTA
1 AAACACGAG-ATTT-TT-TTTTGAAAACACGAAAATTTTA
* * *
114755161 AGACA-TA-ATATTTTTTTT-AAAAC-C-AAAATTTATG
1 AAACACGAGAT-TTTTTTTTGAAAACACGAAAATTT-TA
114755195 AAACACGAGATTTTTTTTTGAAAACACGAAAATTTTCA
1 AAACACGAGATTTTTTTTTGAAAACACGAAAATTTT-A
*
114755233 AAACACCGAAATTTTT
1 AAACA-CGAGATTTTT
114755249 GAAAACAAGA
Statistics
Matches: 70, Mismatches: 9, Indels: 19
0.71 0.09 0.19
Matches are distributed among these distances:
33 6 0.09
34 6 0.09
35 13 0.19
36 11 0.16
37 6 0.09
38 14 0.20
39 10 0.14
40 4 0.06
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.35
Consensus pattern (37 bp):
AAACACGAGATTTTTTTTTGAAAACACGAAAATTTTA
Found at i:114755242 original size:18 final size:17
Alignment explanation
Indices: 114755210--114755374 Score: 117
Period size: 17 Copynumber: 9.5 Consensus size: 17
114755200 CGAGATTTTT
114755210 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
* *
114755227 TTTTCAAAACACCGAAAT
1 TTTTGAAAACA-CGAAAA
* * *
114755245 TTTTGAAAACAAGAGGAT
1 TTTTGAAAACACGA-AAA
*
114755263 TTTTG-AAATACGAAAAA
1 TTTTGAAAACACG-AAAA
114755280 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
*
114755297 TTTTTG-AAACACGGAAAT
1 -TTTTGAAAACAC-GAAAA
114755315 TTTTGAAAACA--AAAA
1 TTTTGAAAACACGAAAA
*
114755330 TTTTTG-AAACAC-AAAT
1 -TTTTGAAAACACGAAAA
* *
114755346 TTTTAGAAGACACTAAAAA
1 TTTT-GAAAACAC-GAAAA
114755365 TTTTGGAAAA
1 TTTT-GAAAA
114755375 TGGATTTTTT
Statistics
Matches: 118, Mismatches: 17, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
15 12 0.10
16 9 0.08
17 43 0.36
18 43 0.36
19 11 0.09
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.29
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:114755255 original size:35 final size:34
Alignment explanation
Indices: 114755209--114755369 Score: 175
Period size: 35 Copynumber: 4.7 Consensus size: 34
114755199 ACGAGATTTT
**
114755209 TTTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACA-CGAAA
* ** *
114755244 TTTTTGAAAACAAGAGGATTTTTGAAATACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACG-AAA
*
114755279 ATTTTGAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACAC-GAAA
114755314 TTTTTGAAAACA--AAAATTTTTGAAACAC-AAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAA
* * *
114755345 TTTTTAGAAGACACTAAAAATTTTG
1 TTTTT-GAAAACACGAAAATTTTTG
114755370 GAAAATGGAT
Statistics
Matches: 107, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
31 8 0.07
32 6 0.06
33 16 0.15
34 11 0.10
35 65 0.61
36 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (34 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAAA
Found at i:114755583 original size:20 final size:19
Alignment explanation
Indices: 114755545--114755591 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
114755535 GAATATATAT
114755545 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
114755565 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
114755584 -TTTTGAAA
1 TTTTTGAAA
114755592 AATAGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:114755614 original size:20 final size:22
Alignment explanation
Indices: 114755591--114755630 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
114755581 AAATTTTGAA
114755591 AAATA-GA-AATTTTTTTTTGT
1 AAATATGAGAATTTTTTTTTGT
*
114755611 AAATATGAGACTTTTTTTTT
1 AAATATGAGAATTTTTTTTT
114755631 AATATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (22 bp):
AAATATGAGAATTTTTTTTTGT
Found at i:114755965 original size:7 final size:7
Alignment explanation
Indices: 114755953--114756040 Score: 95
Period size: 7 Copynumber: 11.9 Consensus size: 7
114755943 TTGAAACTTT
114755953 TTTTTTC
1 TTTTTTC
114755960 TTTTTTTC
1 -TTTTTTC
114755968 TTTTTTCC
1 TTTTTT-C
*
114755976 TTTTTCC
1 TTTTTTC
114755983 TTTTTTTC
1 -TTTTTTC
*
114755991 TCTTTTC
1 TTTTTTC
114755998 TTTTTTC
1 TTTTTTC
*
114756005 TTCTTTC
1 TTTTTTC
114756012 TTTTTTTC
1 -TTTTTTC
114756020 TTTTTTC
1 TTTTTTC
*
114756027 TTTCTCTC
1 TTT-TTTC
114756035 TTTTTT
1 TTTTTT
114756041 TCCTGGCCTG
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
7 37 0.54
8 31 0.46
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTTC
Found at i:114755973 original size:15 final size:15
Alignment explanation
Indices: 114755952--114756040 Score: 108
Period size: 15 Copynumber: 5.9 Consensus size: 15
114755942 ATTGAAACTT
114755952 TTTTTTTCTTTTTTTC
1 TTTTTTTC-TTTTTTC
* *
114755968 TTTTTTCCTTTTTCC
1 TTTTTTTCTTTTTTC
*
114755983 TTTTTTTCTCTTTTC
1 TTTTTTTCTTTTTTC
*
114755998 -TTTTTTCTTCTTTC
1 TTTTTTTCTTTTTTC
114756012 TTTTTTTCTTTTTTC
1 TTTTTTTCTTTTTTC
* *
114756027 TTTCTCTCTTTTTT
1 TTTTTTTCTTTTTT
114756041 TCCTGGCCTG
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
14 12 0.19
15 43 0.69
16 7 0.11
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTTCTTTTTTC
Found at i:114755979 original size:23 final size:22
Alignment explanation
Indices: 114755953--114756040 Score: 106
Period size: 22 Copynumber: 4.0 Consensus size: 22
114755943 TTGAAACTTT
*
114755953 TTTTTTCTTTTTTTCTTTTTTCC
1 TTTTTTCTTTCTTTCTTTTTT-C
* * *
114755976 TTTTTCCTTTTTTTCTCTTTTC
1 TTTTTTCTTTCTTTCTTTTTTC
114755998 TTTTTTC-TTCTTTCTTTTTTTC
1 TTTTTTCTTTCTTTC-TTTTTTC
*
114756020 TTTTTTCTTTCTCTCTTTTTT
1 TTTTTTCTTTCTTTCTTTTTT
114756041 TCCTGGCCTG
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
21 6 0.11
22 26 0.46
23 25 0.44
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTTCTTTCTTTCTTTTTTC
Found at i:114756041 original size:23 final size:23
Alignment explanation
Indices: 114755953--114756042 Score: 112
Period size: 23 Copynumber: 4.0 Consensus size: 23
114755943 TTGAAACTTT
* *
114755953 TTTTTTCTTTTTTTCTTTTTTCC
1 TTTTTTCTTTCTTTCTTTTTTTC
* * *
114755976 TTTTTCCTTTTTTTC-TCTTTTC
1 TTTTTTCTTTCTTTCTTTTTTTC
114755998 TTTTTTC-TTCTTTCTTTTTTTC
1 TTTTTTCTTTCTTTCTTTTTTTC
*
114756020 TTTTTTCTTTCTCTCTTTTTTTC
1 TTTTTTCTTTCTTTCTTTTTTTC
114756043 CTGGCCTGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
21 6 0.10
22 24 0.41
23 28 0.48
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTTCTTTCTTTCTTTTTTTC
Found at i:114756155 original size:15 final size:14
Alignment explanation
Indices: 114756135--114756187 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 14
114756125 GGCCTGCTTC
*
114756135 TTTTTTCTGGGCTG
1 TTTTTTTTGGGCTG
114756149 TTTTTTTTGGGCCT-
1 TTTTTTTTGGG-CTG
114756163 TTTCTTTTTGGGCTG
1 TTT-TTTTTGGGCTG
114756178 CTTTTTTTTG
1 -TTTTTTTTG
114756188 CTTTGGTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 15 0.44
15 16 0.47
16 3 0.09
ACGTcount: A:0.00, C:0.13, G:0.23, T:0.64
Consensus pattern (14 bp):
TTTTTTTTGGGCTG
Found at i:114756208 original size:32 final size:32
Alignment explanation
Indices: 114756162--114756236 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
114756152 TTTTTGGGCC
*
114756162 TTTTCTTTTTGGGCTGCTTT-TTTTTGCTTTG-G
1 TTTT-TTTTTGGGCTGATTTGTTTTT-CTTTGTG
*
114756194 TTTTTTTTTGGGGCTGATTTGTTTTTTTTTGTG
1 TTTTTTTTT-GGGCTGATTTGTTTTTCTTTGTG
114756227 TTGTTTTTTT
1 TT-TTTTTTT
114756237 TAATTAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
31 5 0.14
32 17 0.46
33 8 0.22
34 7 0.19
ACGTcount: A:0.01, C:0.07, G:0.21, T:0.71
Consensus pattern (32 bp):
TTTTTTTTTGGGCTGATTTGTTTTTCTTTGTG
Found at i:114756354 original size:3 final size:3
Alignment explanation
Indices: 114756348--114756385 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
114756338 TTTTTCTTTT
114756348 TTC TTC TTC TTC TTTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC T
114756386 CCTCCTACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:114756362 original size:16 final size:16
Alignment explanation
Indices: 114756341--114756385 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
114756331 TAAGTTTTTT
*
114756341 TTCTTTTTTCTTCTTC
1 TTCTTTCTTCTTCTTC
114756357 TTCTTTCTTCTTCTTC
1 TTCTTTCTTCTTCTTC
114756373 TTC-TTCTTCTTCT
1 TTCTTTCTTCTTCT
114756386 CCTCCTACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCTTTCTTCTTCTTC
Found at i:114756486 original size:10 final size:10
Alignment explanation
Indices: 114756451--114756500 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
114756441 ACGCCGGTAC
114756451 TCTT-TCTTT
1 TCTTCTCTTT
* *
114756460 TCTTCTCCTC
1 TCTTCTCTTT
114756470 T-TTCTCTTT
1 TCTTCTCTTT
114756479 TCTTCTCTTT
1 TCTTCTCTTT
*
114756489 TCTTCTTTTT
1 TCTTCTCTTT
114756499 TC
1 TC
114756501 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:114756498 original size:19 final size:19
Alignment explanation
Indices: 114756455--114756497 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
114756445 CGGTACTCTT
114756455 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
114756474 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
114756491 TTCTTTT
1 -TCTTTT
114756498 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:114756781 original size:29 final size:29
Alignment explanation
Indices: 114756748--114756864 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
114756738 TGTAATTTTT
*
114756748 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
114756777 TGAAATTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
114756807 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
114756836 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
114756865 TTATTTTTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
29 14 0.20
30 55 0.77
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:114756803 original size:30 final size:30
Alignment explanation
Indices: 114756763--114756864 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
114756753 ATTTAGGATT
* *
114756763 AAAATGAAATTTAATGAAATTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
114756793 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
114756823 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
114756853 AAAATGCAATTT
1 AAAATGAAATTT
114756865 TTATTTTTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:114759480 original size:29 final size:29
Alignment explanation
Indices: 114759448--114759533 Score: 172
Period size: 29 Copynumber: 3.0 Consensus size: 29
114759438 CTACGAACCA
114759448 TCTATAATATAAGTGGAAAATAATAATAT
1 TCTATAATATAAGTGGAAAATAATAATAT
114759477 TCTATAATATAAGTGGAAAATAATAATAT
1 TCTATAATATAAGTGGAAAATAATAATAT
114759506 TCTATAATATAAGTGGAAAATAATAATA
1 TCTATAATATAAGTGGAAAATAATAATA
114759534 ATGTAAAAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.34
Consensus pattern (29 bp):
TCTATAATATAAGTGGAAAATAATAATAT
Found at i:114765382 original size:26 final size:26
Alignment explanation
Indices: 114765352--114765405 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
114765342 AATGGCATCA
114765352 ATTAATTTTGGAGATGAAAGAAAATT
1 ATTAATTTTGGAGATGAAAGAAAATT
114765378 ATTAATTTTGGAGATGAAAGAAAATT
1 ATTAATTTTGGAGATGAAAGAAAATT
114765404 AT
1 AT
114765406 AGTTATTTAT
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:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (26 bp):
ATTAATTTTGGAGATGAAAGAAAATT
Found at i:114775118 original size:16 final size:16
Alignment explanation
Indices: 114775097--114775137 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
114775087 CACTTAGGGT
* *
114775097 AGTTGTAATTGAGTAG
1 AGTTGTAATGGAATAG
114775113 AGTTGTAATGGAATAG
1 AGTTGTAATGGAATAG
*
114775129 AGCTGTAAT
1 AGTTGTAAT
114775138 CAGTAATTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (16 bp):
AGTTGTAATGGAATAG
Found at i:114775378 original size:58 final size:58
Alignment explanation
Indices: 114775315--114775440 Score: 173
Period size: 58 Copynumber: 2.2 Consensus size: 58
114775305 TTTTAATAAG
* *
114775315 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAATAAAATTCTTAACATA
** * * *
114775373 ATTATTGCTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
114775431 ATTATTATTA
1 ATTATTATTA
114775441 TATGAATTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 23 0.40
58 35 0.60
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
Found at i:114778958 original size:50 final size:50
Alignment explanation
Indices: 114778877--114778975 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
114778867 ACCTTATTCT
* * * * *
114778877 AATCAATATCAAATAGAAGAAGCGTAGTTCTATATTGATTCTACTTGTGC
1 AATCAATATCAAATAAAAGAAGAGTAATTCTAGATGGATTCTACTTGTGC
*
114778927 AATCAATGTCAAATAAAAGAAGAGTAATTCTAGATGGATTCTACTTGTG
1 AATCAATATCAAATAAAAGAAGAGTAATTCTAGATGGATTCTACTTGTG
114778976 TAGCCTGGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (50 bp):
AATCAATATCAAATAAAAGAAGAGTAATTCTAGATGGATTCTACTTGTGC
Found at i:114786234 original size:42 final size:42
Alignment explanation
Indices: 114786175--114786259 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
114786165 AACCAAAAAC
114786175 CTTAATTTTTTGACTATTTCTTTCTTTCTTTCTTTTTTTGTT
1 CTTAATTTTTTGACTATTTCTTTCTTTCTTTCTTTTTTTGTT
114786217 CTTAATTTTTTGACTATTTCTTTCTTTCTTTCTTTTTTTGTT
1 CTTAATTTTTTGACTATTTCTTTCTTTCTTTCTTTTTTTGTT
114786259 C
1 C
114786260 CAAAATCATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.09, C:0.15, G:0.05, T:0.71
Consensus pattern (42 bp):
CTTAATTTTTTGACTATTTCTTTCTTTCTTTCTTTTTTTGTT
Found at i:114786425 original size:44 final size:44
Alignment explanation
Indices: 114786375--114786462 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
114786365 GCAATTCATG
114786375 CATATACATGTATTCATAATCAAATAGAAAAACTTACGCTGAAT
1 CATATACATGTATTCATAATCAAATAGAAAAACTTACGCTGAAT
114786419 CATATACATGTATTCATAATCAAATAGAAAAACTTACGCTGAAT
1 CATATACATGTATTCATAATCAAATAGAAAAACTTACGCTGAAT
114786463 TTACCATGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (44 bp):
CATATACATGTATTCATAATCAAATAGAAAAACTTACGCTGAAT
Found at i:114786749 original size:3 final size:3
Alignment explanation
Indices: 114786741--114786775 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
114786731 AACCATAACA
114786741 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
114786776 CTTCAATGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:114787961 original size:38 final size:38
Alignment explanation
Indices: 114787910--114787987 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
114787900 GATCTTAGGG
114787910 ATTTAATCTTCCAAATTAGCACACAAGAAATTCAGAGA
1 ATTTAATCTTCCAAATTAGCACACAAGAAATTCAGAGA
* *
114787948 ATTTAATCTTCCAAATTAGCACATAAGAAATTTAGAGA
1 ATTTAATCTTCCAAATTAGCACACAAGAAATTCAGAGA
114787986 AT
1 AT
114787988 ATCTACTCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.29
Consensus pattern (38 bp):
ATTTAATCTTCCAAATTAGCACACAAGAAATTCAGAGA
Found at i:114793328 original size:37 final size:37
Alignment explanation
Indices: 114793253--114793344 Score: 132
Period size: 37 Copynumber: 2.5 Consensus size: 37
114793243 TAAATATAAA
* *
114793253 AATAATTATATTAAGAATGTTATTAAATTATATGTAAT
1 AATAATTATATTAA-AATATGATTAAATTATATGTAAT
*
114793291 AATAATTATATTAAAATATGATTAAATTATATTTAAT
1 AATAATTATATTAAAATATGATTAAATTATATGTAAT
114793328 AATAATCT-TATTAAAAT
1 AATAAT-TATATTAAAAT
114793345 TTAATAACAA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
37 35 0.70
38 15 0.30
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (37 bp):
AATAATTATATTAAAATATGATTAAATTATATGTAAT
Found at i:114793525 original size:16 final size:16
Alignment explanation
Indices: 114793503--114793541 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
114793493 TGAATTACTG
*
114793503 ATTACAGCTCTATACC
1 ATTACAGCCCTATACC
* *
114793519 GTTACAGCCCTATTCC
1 ATTACAGCCCTATACC
114793535 ATTACAG
1 ATTACAG
114793542 TGAATTAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (16 bp):
ATTACAGCCCTATACC
Found at i:114795942 original size:21 final size:21
Alignment explanation
Indices: 114795900--114795952 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
114795890 TGCAGGGGTC
*
114795900 ACACGCCCATGTGGACAGGGG
1 ACACGCCCGTGTGGACAGGGG
*
114795921 ACACGCCCGTGTGG-CTATGGG
1 ACACGCCCGTGTGGAC-AGGGG
*
114795942 ACACACCCGTG
1 ACACGCCCGTG
114795953 CTTCAGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.21, C:0.32, G:0.34, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTGGACAGGGG
Found at i:114797053 original size:25 final size:25
Alignment explanation
Indices: 114797025--114797091 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
114797015 AGAATATTAA
* *
114797025 TAAGCTCCTACGAGCTGA-ATAACGG
1 TAAGCTCATACGAGCTGAGA-AACAG
* *
114797050 TAAGCTCTTACGAGCTGAGAATCAG
1 TAAGCTCATACGAGCTGAGAAACAG
114797075 TAAGCTCATACGAGCTG
1 TAAGCTCATACGAGCTG
114797092 CGGTGAGCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGAGAAACAG
Found at i:114798205 original size:11 final size:11
Alignment explanation
Indices: 114798189--114798213 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
114798179 ATACAAACGG
114798189 TAATATTAAAA
1 TAATATTAAAA
114798200 TAATATTAAAA
1 TAATATTAAAA
114798211 TAA
1 TAA
114798214 ATTTTATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:114798773 original size:11 final size:11
Alignment explanation
Indices: 114798757--114798781 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
114798747 ATATGATATT
114798757 TTATTATTTTA
1 TTATTATTTTA
114798768 TTATTATTTTA
1 TTATTATTTTA
114798779 TTA
1 TTA
114798782 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:114806714 original size:27 final size:27
Alignment explanation
Indices: 114806684--114806736 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
114806674 AAACACTACT
114806684 ATGAGTCATAATAAAAAAACATCATCA
1 ATGAGTCATAATAAAAAAACATCATCA
*
114806711 ATGAGTCATAATAAAACAACATCATC
1 ATGAGTCATAATAAAAAAACATCATC
114806737 CATCTCTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.53, C:0.17, G:0.08, T:0.23
Consensus pattern (27 bp):
ATGAGTCATAATAAAAAAACATCATCA
Found at i:114810850 original size:64 final size:65
Alignment explanation
Indices: 114810779--114810912 Score: 243
Period size: 64 Copynumber: 2.1 Consensus size: 65
114810769 TCATTTCATT
*
114810779 ATTTATTTAATTATTTTATATTATTTGGATAAAAATTCTAATACTTTAC-TTTTTTTTAAAAAGA
1 ATTTATTTAATTATTTTATATTATTTAGATAAAAATTCTAATACTTTACTTTTTTTTTAAAAAGA
114810843 ATTTATTTAATTATTTTATATTATTTAGATAAAAATTCTAATACTTTACTTTTTTTTTTAAAAAG
1 ATTTATTTAATTATTTTATATTATTTAGATAAAAATTCTAATACTTTAC-TTTTTTTTTAAAAAG
114810908 A
65 A
114810909 ATTT
1 ATTT
114810913 CAATTGCGTT
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
64 48 0.72
66 19 0.28
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (65 bp):
ATTTATTTAATTATTTTATATTATTTAGATAAAAATTCTAATACTTTACTTTTTTTTTAAAAAGA
Found at i:114818204 original size:21 final size:22
Alignment explanation
Indices: 114818178--114818224 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
114818168 ATCTACTCAA
* *
114818178 ACTCCACCTGTTTTGGAGTA-C
1 ACTCCACCTGCTGTGGAGTATC
114818199 ACTCCACCTGCTGTGGAGTATC
1 ACTCCACCTGCTGTGGAGTATC
114818221 ACTC
1 ACTC
114818225 GTCTGAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGTGGAGTATC
Found at i:114822869 original size:13 final size:13
Alignment explanation
Indices: 114822851--114822875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
114822841 TCACTTAACG
114822851 TAATCAAATTTGT
1 TAATCAAATTTGT
114822864 TAATCAAATTTG
1 TAATCAAATTTG
114822876 CTATTAACTT
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TAATCAAATTTGT
Found at i:114823184 original size:18 final size:17
Alignment explanation
Indices: 114823161--114823195 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
114823151 ATTTATAAAG
*
114823161 ATTCAATAGTATTAAATA
1 ATTCAATAATA-TAAATA
114823179 ATTCAATAATATAAATA
1 ATTCAATAATATAAATA
114823196 GTGTAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (17 bp):
ATTCAATAATATAAATA
Found at i:114823430 original size:20 final size:21
Alignment explanation
Indices: 114823405--114823451 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
114823395 GGGGGTGGGA
*
114823405 TGGGAGGAGAA-TAAA-AGTTT
1 TGGGAGGA-AAGTAAATAGGTT
114823425 TGGGAGGAAAGTAAATAGGTT
1 TGGGAGGAAAGTAAATAGGTT
114823446 TGGGAG
1 TGGGAG
114823452 TTTGGGGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 12 0.50
21 10 0.42
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.23
Consensus pattern (21 bp):
TGGGAGGAAAGTAAATAGGTT
Found at i:114826617 original size:4 final size:4
Alignment explanation
Indices: 114826610--114826636 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
114826600 AAACGCAAAA
114826610 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
114826637 CATACCTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:114827456 original size:22 final size:22
Alignment explanation
Indices: 114827428--114827485 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
114827418 TAATAACAAT
* *
114827428 ATAATAATAAAATGA-CAATAAA
1 ATAATAATAAAA-CACCAAGAAA
*
114827450 ATAATAAGAAAACACCAAGAAA
1 ATAATAATAAAACACCAAGAAA
114827472 ATAATAATAAAACA
1 ATAATAATAAAACA
114827486 GTGAGAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 1 0.03
22 30 0.97
ACGTcount: A:0.69, C:0.09, G:0.05, T:0.17
Consensus pattern (22 bp):
ATAATAATAAAACACCAAGAAA
Found at i:114827461 original size:11 final size:11
Alignment explanation
Indices: 114827416--114827483 Score: 55
Period size: 11 Copynumber: 6.2 Consensus size: 11
114827406 ATATTCAAAT
*
114827416 AATAATAACAA
1 AATAATAATAA
*
114827427 TATAATAATAA
1 AATAATAATAA
* *
114827438 AATGACAATAA
1 AATAATAATAA
*
114827449 AATAATAAGAA
1 AATAATAATAA
* ** *
114827460 AACACCAAGAA
1 AATAATAATAA
114827471 AATAATAATAA
1 AATAATAATAA
114827482 AA
1 AA
114827484 CAGTGAGAAA
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 42 1.00
ACGTcount: A:0.69, C:0.07, G:0.04, T:0.19
Consensus pattern (11 bp):
AATAATAATAA
Found at i:114830046 original size:11 final size:11
Alignment explanation
Indices: 114830030--114830060 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
114830020 TAGAATATAC
114830030 CCCATACCTTG
1 CCCATACCTTG
*
114830041 CCCATACCTTT
1 CCCATACCTTG
114830052 CCCATACCT
1 CCCATACCT
114830061 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:114830632 original size:18 final size:18
Alignment explanation
Indices: 114830603--114830677 Score: 105
Period size: 18 Copynumber: 4.2 Consensus size: 18
114830593 TACGACCGTT
*
114830603 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
*
114830621 TATGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
114830639 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* * *
114830657 TACGGTACTGTTCACATA
1 TACGGCACTATTCACGTA
114830675 TAC
1 TAC
114830678 AGTAGTTGGG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:114834741 original size:11 final size:11
Alignment explanation
Indices: 114834725--114834755 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
114834715 TAGAATATAC
114834725 CCCATACCTTG
1 CCCATACCTTG
*
114834736 CCCATACCTTT
1 CCCATACCTTG
114834747 CCCATACCT
1 CCCATACCT
114834756 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:114835988 original size:21 final size:20
Alignment explanation
Indices: 114835952--114835990 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
114835942 CCAAAACAAA
*
114835952 AAGAAAATAGAAGAAAGAAC
1 AAGAAAATAAAAGAAAGAAC
114835972 AAGAAAAGTAAAAGAAAGA
1 AAGAAAA-TAAAAGAAAGA
114835991 CGAAACAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (20 bp):
AAGAAAATAAAAGAAAGAAC
Found at i:114844311 original size:8 final size:8
Alignment explanation
Indices: 114844298--114844326 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
114844288 GAACTAATTA
114844298 ATAAAAAT
1 ATAAAAAT
114844306 ATAAAAAT
1 ATAAAAAT
114844314 ATAAAAAT
1 ATAAAAAT
114844322 -TAAAA
1 ATAAAA
114844327 TATGTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATAAAAAT
Found at i:114851495 original size:44 final size:44
Alignment explanation
Indices: 114851446--114851537 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
114851436 TGTTCAGGGA
* * *
114851446 TACTTCGACCTGGAGTCGATGAGGCA-CTATAAGTGTCGTACTGT
1 TACTTCAACCTGAAGTCGATGAGGCATCT-TAAGTGTCGTACTAT
* * **
114851490 TACTTCAACTTTAAGTCGATGAGGCATCTTGTGTGTCGTACTAT
1 TACTTCAACCTGAAGTCGATGAGGCATCTTAAGTGTCGTACTAT
114851534 TACT
1 TACT
114851538 ATTACTTTGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 38 0.95
45 2 0.05
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (44 bp):
TACTTCAACCTGAAGTCGATGAGGCATCTTAAGTGTCGTACTAT
Found at i:114852889 original size:29 final size:28
Alignment explanation
Indices: 114852832--114852917 Score: 127
Period size: 28 Copynumber: 3.0 Consensus size: 28
114852822 TACTTGTATC
* *
114852832 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
114852860 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
*
114852889 TGGCCCGTTAGGCCCAATCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
114852917 T
1 T
114852918 TCATGCTCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
28 27 0.52
29 25 0.48
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:114854345 original size:16 final size:16
Alignment explanation
Indices: 114854324--114854355 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
114854314 AAAAATTCAA
*
114854324 GATTTCGGGATTTTTG
1 GATTTCGAGATTTTTG
114854340 GATTTCGAGATTTTTG
1 GATTTCGAGATTTTTG
114854356 AGGCGTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.28, T:0.50
Consensus pattern (16 bp):
GATTTCGAGATTTTTG
Found at i:114854420 original size:18 final size:18
Alignment explanation
Indices: 114854383--114854494 Score: 107
Period size: 18 Copynumber: 6.2 Consensus size: 18
114854373 TAAATAAAAG
* *
114854383 TACTGAATGACTGACTGT
1 TACTGAATAACTGATTGT
* *
114854401 TACTGAATAATTGATCGT
1 TACTGAATAACTGATTGT
* *
114854419 TACTGCATAACTGATTGC
1 TACTGAATAACTGATTGT
** *
114854437 TACTGAGCAAATGATTGT
1 TACTGAATAACTGATTGT
* *
114854455 TACTGAATAACTAATTGC
1 TACTGAATAACTGATTGT
* *
114854473 TACTGAATAATTGAATGT
1 TACTGAATAACTGATTGT
114854491 TACT
1 TACT
114854495 AAATGAAACT
Statistics
Matches: 72, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 72 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:114854432 original size:36 final size:35
Alignment explanation
Indices: 114854383--114854494 Score: 125
Period size: 36 Copynumber: 3.1 Consensus size: 35
114854373 TAAATAAAAG
* * *
114854383 TACTGAATGACTGACTGTTACTGAATAATTGATCGT
1 TACTGAATAACTGATTGCTACTGAATAATTGAT-GT
* ** *
114854419 TACTGCATAACTGATTGCTACTGAGCAAATGATTGT
1 TACTGAATAACTGATTGCTACTGAATAATTGA-TGT
*
114854455 TACTGAATAACTAATTGCTACTGAATAATTGAATGT
1 TACTGAATAACTGATTGCTACTGAATAATTG-ATGT
114854491 TACT
1 TACT
114854495 AAATGAAACT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
36 60 0.97
37 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (35 bp):
TACTGAATAACTGATTGCTACTGAATAATTGATGT
Found at i:114861250 original size:18 final size:18
Alignment explanation
Indices: 114861201--114861251 Score: 75
Period size: 19 Copynumber: 2.8 Consensus size: 18
114861191 AAAATTGTGC
*
114861201 GCAATTTTATTTCTTTAT
1 GCAATTTTATTTCTTTAG
*
114861219 GTAATTTATATTTCTTTAG
1 GCAATTT-TATTTCTTTAG
114861238 GCAATTTTATTTCT
1 GCAATTTTATTTCT
114861252 CTGTCATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.59
Consensus pattern (18 bp):
GCAATTTTATTTCTTTAG
Found at i:114870178 original size:26 final size:26
Alignment explanation
Indices: 114870142--114870225 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
114870132 TGATACAAAT
*
114870142 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
114870168 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
114870194 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
114870220 TGATAA
1 TGATAA
114870226 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:114876306 original size:13 final size:13
Alignment explanation
Indices: 114876288--114876315 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
114876278 ACCTTTATCA
114876288 TTATTATTATTTT
1 TTATTATTATTTT
114876301 TTATTATTATTTT
1 TTATTATTATTTT
114876314 TT
1 TT
114876316 TTTTACCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:114876318 original size:16 final size:16
Alignment explanation
Indices: 114876287--114876317 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
114876277 AACCTTTATC
114876287 ATTATTATTATTTTTT
1 ATTATTATTATTTTTT
114876303 ATTATTATT-TTTTTT
1 ATTATTATTATTTTTT
114876318 TTACCTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTATTATTATTTTTT
Found at i:114876865 original size:9 final size:9
Alignment explanation
Indices: 114876851--114876893 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
114876841 TTTGGTTAAA
114876851 AATTACCCG
1 AATTACCCG
114876860 AATTACCCG
1 AATTACCCG
*
114876869 AATTAACCG
1 AATTACCCG
*
114876878 AATTAACCG
1 AATTACCCG
114876887 AATTACC
1 AATTACC
114876894 GAAAAATACC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:114878952 original size:29 final size:28
Alignment explanation
Indices: 114878920--114878982 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
114878910 ACTATTGGAT
114878920 TTAAATTT-GAAATATAAAAA-ATAGAATAA
1 TTAAATTTAGAAA-ATAAAAATATA-AA-AA
114878949 TTAAATTTCAGAAAATAAAAATATAAAAA
1 TTAAATTT-AGAAAATAAAAATATAAAAA
114878978 TTAAA
1 TTAAA
114878983 ATTAAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
29 15 0.48
30 9 0.29
31 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (28 bp):
TTAAATTTAGAAAATAAAAATATAAAAA
Found at i:114880555 original size:14 final size:14
Alignment explanation
Indices: 114880536--114880566 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
114880526 ATATTTTTTA
*
114880536 TTTTTTAAATGAAT
1 TTTTTTAAATAAAT
114880550 TTTTTTAAATAAAT
1 TTTTTTAAATAAAT
114880564 TTT
1 TTT
114880567 CAATTGAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
TTTTTTAAATAAAT
Found at i:114880627 original size:14 final size:15
Alignment explanation
Indices: 114880608--114880641 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
114880598 CTAACTCTAT
114880608 TAATAACT-TAAATA
1 TAATAACTATAAATA
*
114880622 TAATAACTATAGATA
1 TAATAACTATAAATA
114880637 TAATA
1 TAATA
114880642 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (15 bp):
TAATAACTATAAATA
Found at i:114880675 original size:15 final size:14
Alignment explanation
Indices: 114880657--114880693 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
114880647 AATTATTTTT
114880657 ATATAAAAATATAAA
1 ATATAAAAA-ATAAA
114880672 ATATAAAAAATAAA
1 ATATAAAAAATAAA
114880686 A-ATAAAAA
1 ATATAAAAA
114880694 CATTATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 7 0.32
14 6 0.27
15 9 0.41
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
ATATAAAAAATAAA
Found at i:114913447 original size:21 final size:21
Alignment explanation
Indices: 114913423--114913462 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
114913413 ATTAATAAAT
114913423 AATGAAATTACATTTTGACCC
1 AATGAAATTACATTTTGACCC
114913444 AATGAAATTACATTTTGAC
1 AATGAAATTACATTTTGAC
114913463 ACATTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (21 bp):
AATGAAATTACATTTTGACCC
Found at i:114913596 original size:23 final size:24
Alignment explanation
Indices: 114913563--114913622 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
114913553 TCCCTTCAAA
114913563 ATAATCAAATTATA-AAATTAATAT
1 ATAAT-AAATTATATAAATTAATAT
** *
114913587 ATAATAAATT-TATATTTTAATCT
1 ATAATAAATTATATAAATTAATAT
*
114913610 ATAAAAAATTATA
1 ATAATAAATTATA
114913623 GTTAAATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 2 0.07
23 21 0.70
24 7 0.23
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (24 bp):
ATAATAAATTATATAAATTAATAT
Found at i:114916832 original size:20 final size:20
Alignment explanation
Indices: 114916792--114916832 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
114916782 TCCCTTGTAG
*
114916792 TTTGGAAAAATTTTCTAAGT
1 TTTGGAAAAATTTCCTAAGT
* *
114916812 TTTGTAAAAATTTCCTGAGT
1 TTTGGAAAAATTTCCTAAGT
114916832 T
1 T
114916833 GTCAGTTTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (20 bp):
TTTGGAAAAATTTCCTAAGT
Found at i:114919595 original size:18 final size:18
Alignment explanation
Indices: 114919563--114919605 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
114919553 CAACTTCAGT
**
114919563 TGAGCTCACGTCTTTATG-
1 TGAGCTCACAACTTT-TGA
114919581 TGAGCTCACAACTTTTGA
1 TGAGCTCACAACTTTTGA
114919599 TGAGCTC
1 TGAGCTC
114919606 GTAGCTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (18 bp):
TGAGCTCACAACTTTTGA
Found at i:114922417 original size:6 final size:6
Alignment explanation
Indices: 114922406--114922451 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
114922396 TCAGTCTCTA
*
114922406 TCAGTT TCAGTT TCAGTT TCAGTT TCAGTT TCA-CT TCAGTT TCAGT
1 TCAGTT TCAGTT TCAGTT TCAGTT TCAGTT TCAGTT TCAGTT TCAGT
114922452 ATACATTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 4 0.11
6 33 0.89
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.48
Consensus pattern (6 bp):
TCAGTT
Found at i:114931747 original size:46 final size:46
Alignment explanation
Indices: 114931694--114931869 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
114931684 TGGTTGAGCA
114931694 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
114931740 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
114931785 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
114931833 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
114931870 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:114931850 original size:93 final size:93
Alignment explanation
Indices: 114931691--114931862 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
114931681 GGCTGGTTGA
* *
114931691 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
114931756 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
114931784 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
114931849 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
114931863 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:114939311 original size:46 final size:46
Alignment explanation
Indices: 114939261--114939436 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
114939251 TGATTGAGCA
114939261 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
114939307 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
114939352 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
114939400 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
114939437 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:114939417 original size:93 final size:93
Alignment explanation
Indices: 114939258--114939429 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
114939248 GGATGATTGA
* *
114939258 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
114939323 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
114939351 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
114939416 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
114939430 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:114949301 original size:25 final size:25
Alignment explanation
Indices: 114949225--114949302 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
114949215 CTCTCCCATC
*
114949225 CCTCACCCTCTTCCCCACCATCCCT
1 CCTCCCCCTCTTCCCCACCATCCCT
* *
114949250 CC-CCCCACTCTGATTCCC-TC-T-CC-
1 CCTCCCC-CTCT--TCCCCACCATCCCT
114949273 CCTCCCCCTCTTCCCCACCATCCCT
1 CCTCCCCCTCTTCCCCACCATCCCT
114949298 CCTCC
1 CCTCC
114949303 TACTCTGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
21 4 0.10
22 1 0.03
23 7 0.17
24 11 0.28
25 12 0.30
26 1 0.03
27 4 0.10
ACGTcount: A:0.09, C:0.65, G:0.01, T:0.24
Consensus pattern (25 bp):
CCTCCCCCTCTTCCCCACCATCCCT
Found at i:114957990 original size:9 final size:9
Alignment explanation
Indices: 114957959--114958033 Score: 62
Period size: 9 Copynumber: 8.2 Consensus size: 9
114957949 CATTCTAACT
114957959 TTTTTTTTA
1 TTTTTTTTA
* *
114957968 CTTTTTTGTC
1 -TTTTTTTTA
114957978 TTTTTTTTA
1 TTTTTTTTA
114957987 TTTTGTTTT-
1 TTTT-TTTTA
** *
114957996 TCATATTTA
1 TTTTTTTTA
*
114958005 TTTTTCTTA
1 TTTTTTTTA
114958014 TTTTTTTTA
1 TTTTTTTTA
*
114958023 TTATTTTTA
1 TTTTTTTTA
114958032 TT
1 TT
114958034 ATATTTGTTT
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
8 3 0.06
9 36 0.72
10 11 0.22
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:114957995 original size:12 final size:12
Alignment explanation
Indices: 114957978--114958039 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
114957968 CTTTTTTGTC
114957978 TTTTTTTTATT-
1 TTTTTTTTATTA
*
114957989 TTGTTTTTCA-TA
1 TT-TTTTTTATTA
*
114958001 TTTATTTTTCTTA
1 TTT-TTTTTATTA
114958014 TTTTTTTTATTA
1 TTTTTTTTATTA
*
114958026 TTTTTATTA-TA
1 TTTTTTTTATTA
114958037 TTT
1 TTT
114958040 GTTTACTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
11 9 0.21
12 28 0.67
13 5 0.12
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTTTTTATTA
Found at i:114958026 original size:21 final size:20
Alignment explanation
Indices: 114958002--114958058 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
114957992 TTTTTCATAT
*
114958002 TTATTTTTCTTATTTTTTTTA
1 TTATTTTT-TTATTTTGTTTA
114958023 TTATTTTTATTATATTTGTTTA
1 TTATTTTT-TTAT-TTTGTTTA
* *
114958045 CTATTGTTTTATTT
1 TTATTTTTTTATTT
114958059 AATTTAGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 2 0.06
21 16 0.52
22 13 0.42
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (20 bp):
TTATTTTTTTATTTTGTTTA
Found at i:114959290 original size:18 final size:18
Alignment explanation
Indices: 114959267--114959303 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
114959257 GGTACAAGTG
*
114959267 TTAAATAAATTTTTTTTA
1 TTAAATAAATTTTTATTA
*
114959285 TTAAATAGATTTTTATTA
1 TTAAATAAATTTTTATTA
114959303 T
1 T
114959304 AGTTATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTAAATAAATTTTTATTA
Found at i:114959351 original size:13 final size:13
Alignment explanation
Indices: 114959333--114959360 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
114959323 TATATATATA
114959333 AAAGAAACAAAAG
1 AAAGAAACAAAAG
114959346 AAAGAAACAAAAG
1 AAAGAAACAAAAG
114959359 AA
1 AA
114959361 TAAAAAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:114960357 original size:15 final size:15
Alignment explanation
Indices: 114960339--114960395 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
114960329 TATTTGTTTT
*
114960339 ATTGAATTTATCTTG
1 ATTGAATTTATATTG
* *
114960354 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
114960369 ATTGAATTTATATTG
1 ATTGAATTTATATTG
114960384 ATTGAA-TTATAT
1 ATTGAATTTATAT
114960396 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Done.