Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 320 of 325
Found at i:102938081 original size:20 final size:20
Alignment explanation
Indices: 102938051--102938100 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
102938041 AAGCGGCTTA
* *
102938051 TTTTAATATATTTTTA-AAT
1 TTTTAAAATATATTTATAAT
102938070 TATTTAAAATATATTTATAAT
1 T-TTTAAAATATATTTATAAT
*
102938091 TTATAAAATA
1 TTTTAAAATA
102938101 AATATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 21 0.81
21 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTAAAATATATTTATAAT
Found at i:102939598 original size:56 final size:55
Alignment explanation
Indices: 102939538--102939645 Score: 144
Period size: 56 Copynumber: 1.9 Consensus size: 55
102939528 TTTTATACTA
* * * * * *
102939538 TTTGGTACTTAAGTTTGATTTTAATGTTTAATTTGGTCCCTGAGTGTTTTTTTTAG
1 TTTGGTACCTAAGTTTGACTTCAATATTTAAATTGGTACCTGAGT-TTTTTTTTAG
*
102939594 TTTGGTACCTAAGTTTTACTTCAATATTTAAATTGGTACCTGAGTTTTTTTT
1 TTTGGTACCTAAGTTTGACTTCAATATTTAAATTGGTACCTGAGTTTTTTTT
102939646 CTCAATTGAG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 7 0.16
56 38 0.84
ACGTcount: A:0.20, C:0.09, G:0.17, T:0.54
Consensus pattern (55 bp):
TTTGGTACCTAAGTTTGACTTCAATATTTAAATTGGTACCTGAGTTTTTTTTTAG
Found at i:102940250 original size:31 final size:31
Alignment explanation
Indices: 102940215--102940276 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
102940205 GCCTAATGAT
102940215 TTAAATAAAAAAATTT-GAATAGTTCAATAAC
1 TTAAAT-AAAAAATTTCGAATAGTTCAATAAC
* * *
102940246 TTAAATGAAAACTTTCGAATAGTTCAGTAAC
1 TTAAATAAAAAATTTCGAATAGTTCAATAAC
102940277 CATTTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (31 bp):
TTAAATAAAAAATTTCGAATAGTTCAATAAC
Found at i:102942800 original size:54 final size:53
Alignment explanation
Indices: 102942739--102942946 Score: 242
Period size: 54 Copynumber: 3.9 Consensus size: 53
102942729 CCATAGCAAC
102942739 AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGATATGGCATCGGAAAA
1 AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGATATGGCATCGGAAAA
* * **
102942792 CAAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCTTCGGATTA
1 -AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGATATGGCATCGGAAAA
* * *
102942846 AAGTGATATAAGTG--ATCTGTATAAGACCATAGCTGGGCTATGGCATCGGAGAA
1 AAGTG--ATAAGTGATATCCGTATAAGACCATAGCTGGGATATGGCATCGGAAAA
* * * * * * *
102942899 AAGTGATAAGTGCT-CCCATGTCAGACCATATCCGGGATATGGCATCGG
1 AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGATATGGCATCGG
102942947 TATGATATAT
Statistics
Matches: 134, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
51 7 0.05
52 26 0.19
53 45 0.34
54 49 0.37
55 7 0.05
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (53 bp):
AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGATATGGCATCGGAAAA
Found at i:102942873 original size:53 final size:54
Alignment explanation
Indices: 102942744--102942906 Score: 224
Period size: 53 Copynumber: 3.0 Consensus size: 54
102942734 GCAACAAGTG
*
102942744 ATAAGTGATATCCGTATAAGACCATAGCTGGGATATGGCATCGGAAAACAAGTG--
1 ATAAGTGA-ATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAA-AAGTGAT
* **
102942798 ATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCTTCGGATTAAAGTGAT
1 ATAAGTGA-ATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAAAAGTGAT
* *
102942853 ATAAGTG-ATCTGTATAAGACCATAGCTGGGCTATGGCATCGGAGAAAAGTGAT
1 ATAAGTGAATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAAAAGTGAT
102942906 A
1 A
102942907 AGTGCTCCCA
Statistics
Matches: 99, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
53 48 0.48
54 44 0.44
55 7 0.07
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.25
Consensus pattern (54 bp):
ATAAGTGAATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAAAAAAGTGAT
Found at i:102942979 original size:98 final size:105
Alignment explanation
Indices: 102942757--102942995 Score: 260
Period size: 107 Copynumber: 2.3 Consensus size: 105
102942747 AGTGATATCC
* * *
102942757 GTATAAGACCATAGCTGGGATATGGCATCGGAAAACAAGTGATAAGTGATATCCGTATAAGACCA
1 GTATAAGACCATAGCTGGGCTATGGCATCGGAAAACAAGTGATAAGTGATACCCATATAAGACCA
* * *
102942822 TAGCTGGGCTATGGCTTCGGATTAAAGTGATATAAGTGATCT
66 TAGCCGGGATATGGCATCGGA-T-AAGTGATATAAGTGATCT
* * * *
102942864 GTATAAGACCATAGCTGGGCTATGGCATCGGAGAA-AAGTGATAAGTGCT-CCCATGTCAGACCA
1 GTATAAGACCATAGCTGGGCTATGGCATCGGAAAACAAGTGATAAGTGATACCCATATAAGACCA
*
102942927 TATCCGGGATATGGCATCGG-T-A-TGATAT-A-TGA-CT
66 TAGCCGGGATATGGCATCGGATAAGTGATATAAGTGATCT
* * * *
102942961 CGTGTAAGACCATGGCTGGGCCATGGCTTCGGAAA
1 -GTATAAGACCATAGCTGGGCTATGGCATCGGAAA
102942996 GTGAAACGTG
Statistics
Matches: 115, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
97 2 0.02
98 32 0.28
99 1 0.01
100 6 0.05
101 1 0.01
103 1 0.01
105 26 0.23
106 13 0.11
107 33 0.29
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (105 bp):
GTATAAGACCATAGCTGGGCTATGGCATCGGAAAACAAGTGATAAGTGATACCCATATAAGACCA
TAGCCGGGATATGGCATCGGATAAGTGATATAAGTGATCT
Found at i:102950416 original size:54 final size:53
Alignment explanation
Indices: 102950355--102950545 Score: 217
Period size: 53 Copynumber: 3.6 Consensus size: 53
102950345 CCATAGCAAC
* *
102950355 AAGTGATAAGTGATATCTGTATAAGACCATAGTTGGGCAATGGCATCGAAAAA
1 AAGTGATAAGTGATATCTGTATAAGACCATAGTTGGGCTATGGCATCGGAAAA
* * * **
102950408 CAAGTGATAAGTGATTTTTCGTATAAGACCATAGTTGGGCTATGGCTTCGGATTA
1 -AAGTGATAAGTGATATCT-GTATAAGACCATAGTTGGGCTATGGCATCGGAAAA
* *
102950463 AAGTGATATAAGTG--ATCCGTATAAGACCATAGTTGGGCTATGGCATCGGAGAA
1 AAGTG--ATAAGTGATATCTGTATAAGACCATAGTTGGGCTATGGCATCGGAAAA
* * *
102950516 AAGTGATAAGTGCTCTC-GTGTAAGACCATA
1 AAGTGATAAGTGATATCTGTATAAGACCATA
102950546 TCCGGAATAT
Statistics
Matches: 117, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
51 7 0.06
52 12 0.10
53 39 0.33
54 22 0.19
55 30 0.26
56 7 0.06
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.28
Consensus pattern (53 bp):
AAGTGATAAGTGATATCTGTATAAGACCATAGTTGGGCTATGGCATCGGAAAA
Found at i:102952503 original size:13 final size:13
Alignment explanation
Indices: 102952485--102952509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102952475 CACTTGTACC
102952485 AAAAAAATAAAAG
1 AAAAAAATAAAAG
102952498 AAAAAAATAAAA
1 AAAAAAATAAAA
102952510 TTAATAATTA
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:0.88, C:0.00, G:0.04, T:0.08
Consensus pattern (13 bp):
AAAAAAATAAAAG
Found at i:102954695 original size:18 final size:16
Alignment explanation
Indices: 102954664--102954710 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
102954654 AGATAATCAT
102954664 AACCCAAAATTTATCCTA
1 AACCCAAAA-TTATCC-A
*
102954682 AACCCTAAAATTATTCA
1 AACCC-AAAATTATCCA
102954699 AACCCAAAATTA
1 AACCCAAAATTA
102954711 ATCTTATCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 7 0.26
17 6 0.22
18 10 0.37
19 4 0.15
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (16 bp):
AACCCAAAATTATCCA
Found at i:102962881 original size:21 final size:21
Alignment explanation
Indices: 102962855--102962895 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
102962845 AGACGAGCAA
* *
102962855 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
102962876 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
102962896 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:102974969 original size:4 final size:4
Alignment explanation
Indices: 102974960--102975003 Score: 56
Period size: 4 Copynumber: 11.2 Consensus size: 4
102974950 GAAAAGCAGG
*
102974960 GAAA GAAA GAAA GAAA GAAA GAAA G-GA GAAAA GAAA G-AA GAAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA GAAA GAAA GAAA G
102975004 GGAAAATTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 5 0.14
4 28 0.80
5 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:102975016 original size:20 final size:20
Alignment explanation
Indices: 102974969--102975009 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
102974959 GGAAAGAAAG
102974969 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAGAAAGAAAGGAGA
102974989 AAAGAAAG-AAGAAAGG-GA
1 AAAGAAAGAAAGAAAGGAGA
102975007 AAA
1 AAA
102975010 TTGAAAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
AAAGAAAGAAAGAAAGGAGA
Found at i:102976405 original size:16 final size:16
Alignment explanation
Indices: 102976380--102976417 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
102976370 AAAAAAATAT
102976380 AATT-AATTAATT-AA
1 AATTGAATTAATTGAA
102976394 AATATGAATTAATTGAA
1 AAT-TGAATTAATTGAA
102976411 AATTGAA
1 AATTGAA
102976418 AAGTGAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 3 0.14
15 1 0.05
16 12 0.57
17 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (16 bp):
AATTGAATTAATTGAA
Found at i:102976414 original size:23 final size:23
Alignment explanation
Indices: 102976363--102976428 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
102976353 AATTATATTG
*
102976363 AATTGAAAA-AAAAATAT-AATT
1 AATTGAAAATTAAAATATGAATT
102976384 AATT---AATTAAAATATGAATT
1 AATTGAAAATTAAAATATGAATT
*
102976404 AATTGAAAATTGAAAA-GTGAATT
1 AATTGAAAATT-AAAATATGAATT
102976427 AA
1 AA
102976429 ATACCATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 2 0.05
19 7 0.19
20 8 0.22
21 4 0.11
23 12 0.32
24 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (23 bp):
AATTGAAAATTAAAATATGAATT
Found at i:102976555 original size:12 final size:12
Alignment explanation
Indices: 102976538--102976562 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
102976528 GCCGACTACT
102976538 GTTACTGTTACC
1 GTTACTGTTACC
102976550 GTTACTGTTACC
1 GTTACTGTTACC
102976562 G
1 G
102976563 ATTCGGATTT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:102976663 original size:53 final size:46
Alignment explanation
Indices: 102976542--102976658 Score: 155
Period size: 47 Copynumber: 2.5 Consensus size: 46
102976532 ACTACTGTTA
* *
102976542 CTGT-TACCGTTACTGTTACCGATTCGGATTTGTTCCGATGAGGTACT
1 CTGTGTACCG-TACTGTTACTG-TTCGAATTTGTTCCGATGAGGTACT
102976589 CTGTGTACCGTACTGTTACTGTTCCGAATTTGTTCCGATGAGGTACT
1 CTGTGTACCGTACTGTTACTGTT-CGAATTTGTTCCGATGAGGTACT
* * *
102976636 CTGTGTAACGTATTGCTACTGTT
1 CTGTGTACCGTACTGTTACTGTT
102976659 ACTGTTACTG
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
46 2 0.03
47 56 0.89
48 5 0.08
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (46 bp):
CTGTGTACCGTACTGTTACTGTTCGAATTTGTTCCGATGAGGTACT
Found at i:102976808 original size:18 final size:18
Alignment explanation
Indices: 102976787--102976977 Score: 167
Period size: 18 Copynumber: 10.6 Consensus size: 18
102976777 TAACTTATTA
102976787 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
102976805 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
102976823 TTACTGCAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
102976841 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
102976859 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
102976877 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
102976895 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* * *
102976913 CTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
102976932 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
102976949 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
102976967 TTACTGGATAA
1 TTACTGAATAA
102976978 CCGATCAATT
Statistics
Matches: 141, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
17 20 0.14
18 104 0.74
19 17 0.12
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:102976866 original size:72 final size:71
Alignment explanation
Indices: 102976775--102976972 Score: 220
Period size: 72 Copynumber: 2.7 Consensus size: 71
102976765 AAAGGTATAA
* * * * * *
102976775 AATAACTTATTATTACTGAATAATTGACTGTTACCGGATAATTGACTGTTACTGCAT-ATTAGAC
1 AATAACTTAATATTACTGAATAATTGA-TATTACTGAATAATTGACTGTTACTGAATGAAT-GAC
*
102976839 TGTTACTG
64 TGCTACTG
* * * *
102976847 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAATGACT
1 AATAACTTAATATTACTGAATAATTGAT-ATTACTGAATAATTGACTGTTACTGAATGAATGACT
102976912 GCTACTG
65 GCTACTG
* *
102976919 AATAACTTAATTGTTACTGAAT-ATCTGATTTTACTGAATAATTGACTGTTACTG
1 AATAACTTAA-TATTACTGAATAAT-TGATATTACTGAATAATTGACTGTTACTG
102976973 GATAACCGAT
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
71 1 0.01
72 88 0.84
73 16 0.15
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (71 bp):
AATAACTTAATATTACTGAATAATTGATATTACTGAATAATTGACTGTTACTGAATGAATGACTG
CTACTG
Found at i:102976978 original size:54 final size:53
Alignment explanation
Indices: 102976787--102976977 Score: 188
Period size: 54 Copynumber: 3.5 Consensus size: 53
102976777 TAACTTATTA
* * * * *
102976787 TTACTGAATAATTGACTGTTACCGGATAATTGACTGTTACTGCATAT-TAGACTG
1 TTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTGAATATCT-GA-TT
* * * ** *
102976841 TTACTGAATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATT
1 TTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTGAATATCTGATT
* * *
102976894 GTCACTGAATGAA-TGACTGCTACTGAATAACTTAATTGTTACTGAATATCTGATT
1 -TTACTGAAT-AATTGACTGTTACTGAATAA-TTGATTGTTACTGAATATCTGATT
*
102976949 TTACTGAATAATTGACTGTTACTGGATAA
1 TTACTGAATAATTGACTGTTACTGAATAA
102976978 CCGATCAATT
Statistics
Matches: 110, Mismatches: 22, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
53 3 0.03
54 84 0.76
55 23 0.21
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (53 bp):
TTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTGAATATCTGATT
Found at i:102977066 original size:18 final size:18
Alignment explanation
Indices: 102977015--102977070 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
102977005 TGGTTATTAT
* *
102977015 TGAATAATTCATTGTTAC
1 TGAATAAATAATTGTTAC
* * * *
102977033 CGAATAAGTGACTGTTAC
1 TGAATAAATAATTGTTAC
102977051 TGAATAAATAATTGTT-C
1 TGAATAAATAATTGTTAC
102977068 TGA
1 TGA
102977071 TTGTTAATGA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
17 4 0.13
18 26 0.87
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
TGAATAAATAATTGTTAC
Found at i:102979811 original size:40 final size:35
Alignment explanation
Indices: 102979687--102979852 Score: 161
Period size: 35 Copynumber: 4.6 Consensus size: 35
102979677 CATGGAAAAG
102979687 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
102979722 TGTGATATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* * *
102979757 TGTGATATGCAGGTATGGTATTATCAAATCCATATTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * *** * *
102979797 TAAGAAATGTAGGTATGGCATTGCCCATACCGAAT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
102979832 TGTAAAATGTAAGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
102979853 GTCAATGAGG
Statistics
Matches: 107, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
35 75 0.70
37 2 0.02
38 4 0.04
40 26 0.24
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:102983274 original size:14 final size:14
Alignment explanation
Indices: 102983255--102983281 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
102983245 TGCTGCAGTG
102983255 TTCTCAAAATAGAT
1 TTCTCAAAATAGAT
102983269 TTCTCAAAATAGA
1 TTCTCAAAATAGA
102983282 CCTTAGATCT
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:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (14 bp):
TTCTCAAAATAGAT
Found at i:102987194 original size:35 final size:36
Alignment explanation
Indices: 102987155--102987292 Score: 137
Period size: 35 Copynumber: 3.9 Consensus size: 36
102987145 CCATGGTTGT
102987155 TCCATGGAAAAG-TGTGAAATGTAGGTATGGTATCA
1 TCCATGGAAAAGTTGTGAAATGTAGGTATGGTATCA
**
102987190 TCCAT--ACTGAGTTGTGAAATGTAGGTATGGTATCA
1 TCCATGGA-AAAGTTGTGAAATGTAGGTATGGTATCA
*
102987225 TCCATACGG---AGTTGTGATATGTAGGTATGGTATCA
1 TCCAT--GGAAAAGTTGTGAAATGTAGGTATGGTATCA
*** *
102987260 TCCATACTAAA-TTGTGATATGTAGGTATGGTAT
1 TCCATGGAAAAGTTGTGAAATGTAGGTATGGTAT
102987293 TATCAAATCC
Statistics
Matches: 89, Mismatches: 5, Indels: 18
0.79 0.04 0.16
Matches are distributed among these distances:
33 1 0.01
34 2 0.02
35 85 0.96
36 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (36 bp):
TCCATGGAAAAGTTGTGAAATGTAGGTATGGTATCA
Found at i:102987252 original size:30 final size:33
Alignment explanation
Indices: 102987175--102987292 Score: 146
Period size: 35 Copynumber: 3.4 Consensus size: 33
102987165 AGTGTGAAAT
*
102987175 GTAGGTATGGTATCATCCATACTGAGTTGTGAAA
1 GTAGGTATGGTATCATCCATACGGAGTTGTG-AA
102987209 TGTAGGTATGGTATCATCCATACGGAGTTGTGATA
1 -GTAGGTATGGTATCATCCATACGGAGTTGTGA-A
** *
102987244 TGTAGGTATGGTATCATCCATACTAAATTGTGATA
1 -GTAGGTATGGTATCATCCATACGGAGTTGTGA-A
102987279 TGTAGGTATGGTAT
1 -GTAGGTATGGTAT
102987293 TATCAAATCC
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
34 1 0.01
35 77 0.99
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (33 bp):
GTAGGTATGGTATCATCCATACGGAGTTGTGAA
Found at i:102987347 original size:110 final size:105
Alignment explanation
Indices: 102987167--102987367 Score: 249
Period size: 110 Copynumber: 1.9 Consensus size: 105
102987157 CATGGAAAAG
** * *
102987167 TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTGTGAAATGTAGGTATGGTATCATCCATAC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACCCATAC
* * * * *
102987232 GGAGTTGTGATATGTAGGTATGGTATCATCCATACTAAAT
66 CGAGTTGTAAAATGTAAGTATCGTATCATCCATACTAAAT
* **
102987272 TGTGATATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTGCC
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACC
102987337 CATACCGAGTTGTAAAATGTAAGTATCGTAT
61 CATACCGAGTTGTAAAATGTAAGTATCGTAT
102987368 TTCAATGAGG
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
105 17 0.22
108 4 0.05
110 58 0.73
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (105 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACCCATAC
CGAGTTGTAAAATGTAAGTATCGTATCATCCATACTAAAT
Found at i:102989233 original size:29 final size:29
Alignment explanation
Indices: 102989201--102989281 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 29
102989191 ACTGAATCTA
102989201 AAATTTAAAATTTGAAAAATAAAAAGACT
1 AAATTTAAAATTTGAAAAATAAAAAGACT
* * *
102989230 AAATTTTTAAAA-AT-AAAAGTATAAAGACT
1 AAA--TTTAAAATTTGAAAAATAAAAAGACT
*
102989259 AAATTTTAAATTTACGAAAAATA
1 AAATTTAAAATTT--GAAAAATA
102989282 TATAAACTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
27 6 0.15
28 1 0.03
29 19 0.47
30 1 0.03
31 13 0.32
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (29 bp):
AAATTTAAAATTTGAAAAATAAAAAGACT
Found at i:102992597 original size:14 final size:14
Alignment explanation
Indices: 102992574--102992609 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
102992564 GTATAATATC
*
102992574 TAAAAAAATAACAA
1 TAAAATAATAACAA
102992588 TAAAATAATAACAA
1 TAAAATAATAACAA
*
102992602 TATAATAA
1 TAAAATAA
102992610 CGAAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAAATAATAACAA
Found at i:102993919 original size:31 final size:31
Alignment explanation
Indices: 102993876--102993941 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 31
102993866 TTAGACCATG
*
102993876 AACTTGGTAATTATTCTC-ATATTGTGA-CTTA
1 AACTAGGTAATTATTC-CGATATTG-GAGCTTA
102993907 AACTAGGTAATTATTCCGATATTGGAGCTTA
1 AACTAGGTAATTATTCCGATATTGGAGCTTA
102993938 AACT
1 AACT
102993942 TTTTTTGTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 3 0.09
31 29 0.91
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (31 bp):
AACTAGGTAATTATTCCGATATTGGAGCTTA
Found at i:103004587 original size:20 final size:19
Alignment explanation
Indices: 103004551--103004590 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
103004541 AATAGTTTCA
103004551 AAAAATATATTACTAATAT
1 AAAAATATATTACTAATAT
103004570 AAAAATATTATATA-TAATAT
1 AAAAATA-TAT-TACTAATAT
103004590 A
1 A
103004591 TTTATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 10 0.53
21 2 0.11
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATATATTACTAATAT
Found at i:103015720 original size:381 final size:381
Alignment explanation
Indices: 103015017--103015905 Score: 1634
Period size: 381 Copynumber: 2.3 Consensus size: 381
103015007 AGAAAGCTTG
*
103015017 AGGACAGAATGAAGATGGCTGACGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
1 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
*
103015082 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACGA
66 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACAA
**
103015147 ACAACTTGCAGAATCAGCAAAGGCAATCTTGAGTAAGGATGCTCTTTTGATTGACCAAGCTACCA
131 ACAACTTGCAGAATCAGCAAAGGCAATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA
103015212 TGATTGAAGAAGCAGAAAAACATATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
196 TGATTGAAGAAGCAGAAAAACATATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
103015277 TGCACTGAACTTAGCCAGAGGCTTCTGGAGGAGGAGCAGCGTGCTGCTGCTATTGAACAAAAGCT
261 TGCACTGAACTTAGCCAGAGGCTTCTGGAGGAGGAGCAGCGTGCTGCTGCTATTGAACAAAAGCT
*
103015342 TGAAGATATGGTGGAGAATGACATTTTGAAGACACAGGAGGAGCTGTCTAATCTTA
326 TGAAGATATGGTGGAGAATGACATTTTGAAGACACAGGAGGAGCTGTCTAAACTTA
*
103015398 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACCGTTGCTTTT
1 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
103015463 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACAA
66 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACAA
** *
103015528 ACAACTTGCAGAATCAGCGGAGGCGATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA
131 ACAACTTGCAGAATCAGCAAAGGCAATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA
* *
103015593 TGATTGAAGAAGCAGAAACACGTATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
196 TGATTGAAGAAGCAGAAAAACATATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
* *
103015658 TGCACTGAACTTCGCCAGAGGCTTCTGGAGGAGGAGCAGTGTGCTGCTGCTATTGAACAAAAGCT
261 TGCACTGAACTTAGCCAGAGGCTTCTGGAGGAGGAGCAGCGTGCTGCTGCTATTGAACAAAAGCT
* *
103015723 TGAAGATATGGTGGAGAATGACTTTTTGAAGACACAGGAGGAGCTGTCTAAACTTG
326 TGAAGATATGGTGGAGAATGACATTTTGAAGACACAGGAGGAGCTGTCTAAACTTA
*
103015779 AGGACAGAATGAAGATGGCTGAAGATGACCTAAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
1 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
103015844 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGA
66 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGA
103015906 TGCTCTTCTG
Statistics
Matches: 491, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
381 491 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (381 bp):
AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACAA
ACAACTTGCAGAATCAGCAAAGGCAATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA
TGATTGAAGAAGCAGAAAAACATATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
TGCACTGAACTTAGCCAGAGGCTTCTGGAGGAGGAGCAGCGTGCTGCTGCTATTGAACAAAAGCT
TGAAGATATGGTGGAGAATGACATTTTGAAGACACAGGAGGAGCTGTCTAAACTTA
Found at i:103018484 original size:222 final size:221
Alignment explanation
Indices: 103018202--103018763 Score: 818
Period size: 222 Copynumber: 2.5 Consensus size: 221
103018192 GTCCACTTAA
*
103018202 CTGACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTCCTTGATGGTTTAAAGAAAGAAATGACT
1 CTGACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTCC-TGATGGTTTAAAGAAAGAAATGATT
* * *
103018267 TTTACAAAATTAGATGCATGTTTGAAAGAGCAGCTATTGGTGGAGCGGGAAAGTGAGTTGTCTTT
65 TTTGCAAAATTAGATGCATATTTGAAAGAGCAGCTATTGGTGGAGCAGGAAAGTGAGTTGTCTTT
* ** * * *
103018332 TCTCCAAGAAAAAGTTGAAGAAGCACAGGTTGAGCAAAGAATGTTGAAGAAAGAGAACTGTCTAC
130 TCTACAAGAAAAAGTTGAAGAAGCACAAATTGAGCAAAGAAAGATGAAGAAAGAAAACTGTCTAC
* * *
103018397 TTCTCCAGGATTTGGAGGAGCAGAAAG
195 TTCTCCAGAATTTGGACGAGAAGAAAG
* *
103018424 CTGACTCTGGGAAAAAGCTTGCCAATGCTTATTCTGTCGCTGATGGTTTAAAGAAAGAAATGATT
1 CTGACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTC-CTGATGGTTTAAAGAAAGAAATGATT
* *
103018489 TTTGCAAAATTAGATGCATACTTGAAAGGGCAGCTATTGGTGGAGCAGGAAAGTGAGTTGTCTTT
65 TTTGCAAAATTAGATGCATATTTGAAAGAGCAGCTATTGGTGGAGCAGGAAAGTGAGTTGTCTTT
** *
103018554 TCTACAAGAAAAAGTTGAAGAAGCACAAATTGAGTTAAGAAAGATGAAGAAAGAAAACTGTCTGC
130 TCTACAAGAAAAAGTTGAAGAAGCACAAATTGAGCAAAGAAAGATGAAGAAAGAAAACTGTCTAC
*
103018619 TTCTCCAGAATTTGGACGAGAAGGAAG
195 TTCTCCAGAATTTGGACGAGAAGAAAG
* * * * * * *
103018646 CAGACACCGGAAAAAAGCTTACCAATGCTTATGCTATCATTGATGGTTTAAAGAAAGAAATAATT
1 CTGACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTC-CTGATGGTTTAAAGAAAGAAATGATT
* * *
103018711 TTTGCAAAAGTAGATGCATTTTTGAAAGAGCAGCTATTGGAGGAGCAGGAAAG
65 TTTGCAAAATTAGATGCATATTTGAAAGAGCAGCTATTGGTGGAGCAGGAAAG
103018764 GATATCAAAG
Statistics
Matches: 303, Mismatches: 36, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
222 302 1.00
223 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (221 bp):
CTGACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTCCTGATGGTTTAAAGAAAGAAATGATTT
TTGCAAAATTAGATGCATATTTGAAAGAGCAGCTATTGGTGGAGCAGGAAAGTGAGTTGTCTTTT
CTACAAGAAAAAGTTGAAGAAGCACAAATTGAGCAAAGAAAGATGAAGAAAGAAAACTGTCTACT
TCTCCAGAATTTGGACGAGAAGAAAG
Found at i:103031622 original size:33 final size:31
Alignment explanation
Indices: 103031576--103031661 Score: 75
Period size: 31 Copynumber: 2.7 Consensus size: 31
103031566 CTGTTTGATC
*
103031576 CACTTATTT-TTAATATTTGGTACATGAACTTAA
1 CACTT-TTTCTTAAT-TTT-GTACATAAACTTAA
* * *
103031609 CACTTTTTCTTAATTTTGTACTTAAATTTGA
1 CACTTTTTCTTAATTTTGTACATAAACTTAA
* * *
103031640 CAATTTTTCTTAAGTTGGTACA
1 CACTTTTTCTTAATTTTGTACA
103031662 ATTTGGTACA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 28 0.64
32 6 0.14
33 10 0.23
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (31 bp):
CACTTTTTCTTAATTTTGTACATAAACTTAA
Found at i:103037386 original size:66 final size:66
Alignment explanation
Indices: 103037280--103037472 Score: 275
Period size: 66 Copynumber: 3.0 Consensus size: 66
103037270 TGAAGACAAC
* * *
103037280 GATGATTCTGCATCCATGAATGCTGAAAGTGCAAAGGGAGAAGTGAAAGAAGAGGAAAAGGAGGA
1 GATGATTCTGAATCCATGAATGCTGAAAGTGCAAAGGGAGAAGAGAAAGAAGAGGAAAAGGAAGA
103037345 A
66 A
* *
103037346 GATGATTCTGTATCCATGAATGCTGAAAGTGCAAAGGGAGAAGAGAATGAAGAGGAAAAGGAAGA
1 GATGATTCTGAATCCATGAATGCTGAAAGTGCAAAGGGAGAAGAGAAAGAAGAGGAAAAGGAAGA
103037411 A
66 A
** * * *
103037412 GATGATTCTGAATCTTTAAATGCTGAAAATTCAAA---AGAAGAGAAAGAAGAGGAAAAGGAAG
1 GATGATTCTGAATCCATGAATGCTGAAAGTGCAAAGGGAGAAGAGAAAGAAGAGGAAAAGGAAG
103037473 GGGAGCAGGA
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
63 25 0.22
66 91 0.78
ACGTcount: A:0.45, C:0.08, G:0.30, T:0.17
Consensus pattern (66 bp):
GATGATTCTGAATCCATGAATGCTGAAAGTGCAAAGGGAGAAGAGAAAGAAGAGGAAAAGGAAGA
A
Found at i:103039769 original size:13 final size:13
Alignment explanation
Indices: 103039751--103039790 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
103039741 TAGTGTTTAC
103039751 TAGTAGAAATGGA
1 TAGTAGAAATGGA
103039764 TAGTAGAAATGGA
1 TAGTAGAAATGGA
103039777 TAGTAGAAATGGA
1 TAGTAGAAATGGA
103039790 T
1 T
103039791 GAAATTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (13 bp):
TAGTAGAAATGGA
Found at i:103050435 original size:19 final size:18
Alignment explanation
Indices: 103050395--103050449 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
103050385 TTACAAAACA
*
103050395 AAAAATTAAATAAATTT-T
1 AAAAATTTAA-AAATTTAT
103050413 -AAAATTTAAAATATTTAT
1 AAAAATTTAAAA-ATTTAT
*
103050431 AAAAATTTCAAAATTTAT
1 AAAAATTTAAAAATTTAT
103050449 A
1 A
103050450 TTTTTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 2 0.06
17 12 0.38
18 8 0.25
19 10 0.31
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAAATTTAAAAATTTAT
Found at i:103052794 original size:13 final size:12
Alignment explanation
Indices: 103052753--103052794 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
103052743 TTTCACTTTG
103052753 TTTTTTTATGAAT
1 TTTTTTTATG-AT
*
103052766 TTTTTATATGAT
1 TTTTTTTATGAT
103052778 TTTTTTTATGAT
1 TTTTTTTATGAT
*
103052790 CTTTT
1 TTTTT
103052795 CTCTTTGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (12 bp):
TTTTTTTATGAT
Found at i:103058385 original size:45 final size:43
Alignment explanation
Indices: 103058301--103058385 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 43
103058291 TACAAAAATA
103058301 GGAAGATAGAAAATATAAAATTTCTTTCCATAATTTTGTTGGTT
1 GGAAGATAGAAAATATAAAATTTCTTTCCAT-ATTTTGTTGGTT
*
103058345 GGAATGATAGAAAA-ATTATAATTTTCTTTCCAT-TTATTGTT
1 GGAA-GATAGAAAATA-TA-AAATTTCTTTCCATATT-TTGTT
103058386 TAGCAGATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
44 7 0.19
45 16 0.44
46 13 0.36
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (43 bp):
GGAAGATAGAAAATATAAAATTTCTTTCCATATTTTGTTGGTT
Found at i:103061795 original size:15 final size:15
Alignment explanation
Indices: 103061775--103061805 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
103061765 CGGGTTTAAG
*
103061775 TGTTTGAATCTAATT
1 TGTTTGAATCCAATT
103061790 TGTTTGAATCCAATT
1 TGTTTGAATCCAATT
103061805 T
1 T
103061806 CATTCGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.52
Consensus pattern (15 bp):
TGTTTGAATCCAATT
Found at i:103062233 original size:31 final size:30
Alignment explanation
Indices: 103062176--103062233 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
103062166 ACGATTTAAT
*
103062176 TTGAATTTTAAAAACTAAAAAGTAGAGGGA
1 TTGAATTTTAAAAACTAAAAAATAGAGGGA
* *
103062206 TTGAATTTTTAAAATTAAAAATATAGAG
1 TTGAATTTTAAAAACTAAAAA-ATAGAG
103062234 ACTAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.50, C:0.02, G:0.16, T:0.33
Consensus pattern (30 bp):
TTGAATTTTAAAAACTAAAAAATAGAGGGA
Found at i:103066003 original size:23 final size:23
Alignment explanation
Indices: 103065977--103066029 Score: 54
Period size: 25 Copynumber: 2.2 Consensus size: 23
103065967 TATAATTCTC
*
103065977 AAATTTACCACATTAA-AATTTGA
1 AAATTTACAAC-TTAAGAATTTGA
*
103066000 AAATAATACAACTTAATGAATTTGA
1 AAAT-TTACAACTTAA-GAATTTGA
103066025 AAATT
1 AAATT
103066030 GTCTTTTCGC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
23 8 0.33
24 5 0.21
25 11 0.46
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (23 bp):
AAATTTACAACTTAAGAATTTGA
Found at i:103071169 original size:3 final size:3
Alignment explanation
Indices: 103071085--103071160 Score: 109
Period size: 3 Copynumber: 25.3 Consensus size: 3
103071075 GTACTTTTGC
103071085 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
103071133 TAT TAT CAT CT-T TAC TAT TAT TAG TAT T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT T
103071161 GGTATTATTG
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 1 0.02
3 64 0.98
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:103071370 original size:36 final size:36
Alignment explanation
Indices: 103071291--103071370 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
103071281 AATTTGTTTA
*
103071291 ATATATATACATATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
103071327 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
103071363 ATATATAT
1 ATATATAT
103071371 TTATATGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 1 0.03
36 36 0.95
37 1 0.03
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:103083884 original size:46 final size:44
Alignment explanation
Indices: 103083817--103084101 Score: 177
Period size: 46 Copynumber: 6.6 Consensus size: 44
103083807 ATAATACAGG
*
103083817 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
103083863 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * *** *
103083907 TCCTATCTCCTTGAGATTACAATGGAGTGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * * *
103083946 TCTTATCTCTCT-AAAGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
*
103083987 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * * * *
103084033 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCA-GA
*
103084076 TCCTATCTCCCTGA-AGTTACAGTGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGA
103084102 GTGGATTAAA
Statistics
Matches: 186, Mismatches: 36, Indels: 37
0.72 0.14 0.14
Matches are distributed among these distances:
37 1 0.01
38 2 0.01
39 21 0.11
40 1 0.01
41 26 0.14
42 6 0.03
43 25 0.13
44 32 0.17
45 2 0.01
46 70 0.38
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:103085719 original size:3 final size:3
Alignment explanation
Indices: 103085630--103085710 Score: 112
Period size: 3 Copynumber: 27.3 Consensus size: 3
103085620 GTACTTTTGC
103085630 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
103085678 T-T TAT TAT TAT CAT CT-T TAC TAT TAT TAG TAT T
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT T
103085711 GGTATTATTG
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
2 3 0.04
3 66 0.96
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:103085887 original size:26 final size:28
Alignment explanation
Indices: 103085832--103085888 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
103085822 TTTACATATA
*
103085832 ATTTGTTTAATATATATACATATACTCAT
1 ATTTCTTTAATATATATACATATAC-CAT
103085861 ATTTCTTT-ATATATAT-CTATATA-CAT
1 ATTTCTTTAATATATATAC-ATATACCAT
103085887 AT
1 AT
103085889 ACATATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 5 0.19
27 1 0.04
28 13 0.50
29 7 0.27
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.51
Consensus pattern (28 bp):
ATTTCTTTAATATATATACATATACCAT
Found at i:103085916 original size:34 final size:34
Alignment explanation
Indices: 103085841--103085918 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 34
103085831 AATTTGTTTA
*
103085841 ATATATATACATATACTCATATTTCTTTATATAT
1 ATATATATACATATACTCATATTTATTTATATAT
* * *
103085875 ATCTATATACATATACAT-ATTTTTATTTTTATAAGT
1 ATATATATACATATAC-TCATATTTATTTATAT-A-T
103085911 ATATATAT
1 ATATATAT
103085919 TATATGTATG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 26 0.72
35 2 0.06
36 8 0.22
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (34 bp):
ATATATATACATATACTCATATTTATTTATATAT
Found at i:103089230 original size:2 final size:2
Alignment explanation
Indices: 103089223--103089251 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
103089213 TTAATGTAAA
103089223 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
103089252 AAATATTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:103091990 original size:208 final size:202
Alignment explanation
Indices: 103091634--103092187 Score: 671
Period size: 208 Copynumber: 2.7 Consensus size: 202
103091624 CCGAAAAAAA
* * * *
103091634 AAAAAAAACAAATGGTTTGTGTTGTAGTTGATTGCAAACCATTATCTGGGTTTGGTACCATTCAT
1 AAAAAAAACAAATGATTTGTGTTGTAGTTGATTGCAAATCATTATCCGGGTTTGGTACCGTTCAT
* * *
103091699 TCGTATGATAAAAGTG--TGTGTTTTTGGTAGTCGAGGTGTCCGTTTATTCTAGGAAATAAACGA
66 TCATATGATAAAAGTGTTTGTGTTTTTGGTAGTTGAGGTGT-CG-TTATTCTAGGAAATAAAGGA
* *
103091762 CATTGTTGTGATAATTATAGCCTGTTAACCAATTCGGTGTTTTC-TTTTACCAGCTTGTACTTAC
129 CGTTGTTGTGATAATTATAGCCTGTTAACCAATACGGTGTTTTCTTTTTACCAGCTTGTACTTAC
103091826 GGCTTAACCCCCCC
194 GGCTTAA-----CC
* *
103091840 AAAAAAAACAAATGCTTTGTGTTGTAGTTGATTGCAAATCGTTATCCGGGTTTGGTACCGTTCAT
1 AAAAAAAACAAATGATTTGTGTTGTAGTTGATTGCAAATCATTATCCGGGTTTGGTACCGTTCAT
103091905 TCATATGATAAAAGTGTTTGTGTTTTTGGTAGTTGAGGTGTCAGATTATTCTAGGAAATAAAGGA
66 TCATATGATAAAAGTGTTTGTGTTTTTGGTAGTTGAGGTGTC-G-TTATTCTAGGAAATAAAGGA
* **
103091970 CGTTGTTGTGATAATTATAGCCTGTTAACTAATACGGTGTTTTCTTTTATTTTACTGGCTTGTAC
129 CGTTGTTGTGATAATTATAGCCTGTTAACCAATACGGTGTTTTC---T-TTTTACCAGCTTGTAC
*
103092035 TTATGGCTTAACC
190 TTACGGCTTAACC
** * * *
103092048 -AAAAAAA-AAA-GAAATG-GTTGTAGTTGATTGCGAATCATTATCCGGGTTTGGTATCG-GCAT
1 AAAAAAAACAAATGATTTGTGTTGTAGTTGATTGCAAATCATTATCCGGGTTTGGTACCGTTCAT
* * * * *
103092108 TCACATGATAAAAGTGTTTGTGTTTTTTGCTAGTTGAGGTATC--CATT-TAGGAAATAAAGGAT
66 TCATATGATAAAAGTGTTTGTG-TTTTTGGTAGTTGAGGTGTCGTTATTCTAGGAAATAAAGGAC
*
103092170 GTTGTTGCGATAATTATA
130 GTTGTTGTGATAATTATA
103092188 ATGATGAATT
Statistics
Matches: 311, Mismatches: 28, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
199 31 0.10
200 3 0.01
203 24 0.08
204 55 0.18
205 3 0.01
206 78 0.25
207 8 0.03
208 85 0.27
213 24 0.08
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.38
Consensus pattern (202 bp):
AAAAAAAACAAATGATTTGTGTTGTAGTTGATTGCAAATCATTATCCGGGTTTGGTACCGTTCAT
TCATATGATAAAAGTGTTTGTGTTTTTGGTAGTTGAGGTGTCGTTATTCTAGGAAATAAAGGACG
TTGTTGTGATAATTATAGCCTGTTAACCAATACGGTGTTTTCTTTTTACCAGCTTGTACTTACGG
CTTAACC
Found at i:103098801 original size:42 final size:42
Alignment explanation
Indices: 103098739--103098821 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
103098729 AACAGATAGC
103098739 ACAACTTACCGAGGAGCCTTGTATCTCATTCATTTTGTTCTG
1 ACAACTTACCGAGGAGCCTTGTATCTCATTCATTTTGTTCTG
** * *
103098781 ACAACTTATTGAGGATCCTTGTATCTCCTTCATTTTGTTCT
1 ACAACTTACCGAGGAGCCTTGTATCTCATTCATTTTGTTCT
103098822 TTGGGCAGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.42
Consensus pattern (42 bp):
ACAACTTACCGAGGAGCCTTGTATCTCATTCATTTTGTTCTG
Found at i:103101335 original size:22 final size:24
Alignment explanation
Indices: 103101288--103101348 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 24
103101278 GTAACGAGGA
*
103101288 AAGAA-AGGAGAGAAGCGAGAGTG
1 AAGAAGAGGAGAGAAGCGAGAGCG
*
103101311 AAGAAGAGGAGAGGAGC-AG-GCG
1 AAGAAGAGGAGAGAAGCGAGAGCG
* *
103101333 AAGAAGATGAAAGAAG
1 AAGAAGAGGAGAGAAG
103101349 AGAAGATGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 15 0.47
23 7 0.22
24 10 0.31
ACGTcount: A:0.49, C:0.05, G:0.43, T:0.03
Consensus pattern (24 bp):
AAGAAGAGGAGAGAAGCGAGAGCG
Found at i:103102190 original size:5 final size:5
Alignment explanation
Indices: 103102180--103102204 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
103102170 TAAATTTCTA
103102180 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
103102205 TATATATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:103104733 original size:35 final size:35
Alignment explanation
Indices: 103104687--103104758 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
103104677 TATTCTTAAC
103104687 CAGGCTGAAATATTACTTTTGATTTACAATTAAGG
1 CAGGCTGAAATATTACTTTTGATTTACAATTAAGG
103104722 CAGGCTGAAATATTACTTTTGATTTACAATTAAGG
1 CAGGCTGAAATATTACTTTTGATTTACAATTAAGG
103104757 CA
1 CA
103104759 TATGAAATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (35 bp):
CAGGCTGAAATATTACTTTTGATTTACAATTAAGG
Found at i:103108688 original size:96 final size:96
Alignment explanation
Indices: 103108520--103108707 Score: 241
Period size: 96 Copynumber: 2.0 Consensus size: 96
103108510 AAACTAAACT
* * * * * *
103108520 GATACTCTCAGTAGACCGGAAGCTTGCATTTTTCACATCCTCCGATTCTTTCCTAGACAAAACGG
1 GATACTCTCAGTAGACCGAAAACTTGCACTCTGCACATCCTCCGATTCTTTCCTAGACAAAACAG
*
103108585 CACAATTCAACTCGTGAACCAAAACCGAACC
66 CAAAATTCAACTCGTGAACCAAAACCGAACC
* * * * * *
103108616 GATACTCTCGGTAGACCGAAAACTTGCACTCTGCACATCCTCTGGTTCTTTCCTATACAGAACAT
1 GATACTCTCAGTAGACCGAAAACTTGCACTCTGCACATCCTCCGATTCTTTCCTAGACAAAACAG
* *
103108681 CAAAATTCAACTCGTGAGCCGAAACCG
66 CAAAATTCAACTCGTGAACCAAAACCG
103108708 GTCTTCTCCT
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (96 bp):
GATACTCTCAGTAGACCGAAAACTTGCACTCTGCACATCCTCCGATTCTTTCCTAGACAAAACAG
CAAAATTCAACTCGTGAACCAAAACCGAACC
Found at i:103108902 original size:120 final size:123
Alignment explanation
Indices: 103108606--103108999 Score: 521
Period size: 123 Copynumber: 3.2 Consensus size: 123
103108596 TCGTGAACCA
* * * * *
103108606 AAACCGAACCGATACTCTCGGTAGACCGAAAACTTGCACTCTGCACATCCTCTGGTTCTTTCCTA
1 AAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCATTCTTCACATCCTCCGGTTCTTTCCCA
*
103108671 TACAGAACATCAAAATTCAACTCGTGAGCCGAAACCGGTCTTCTCCTCCTCGAGT-TAG
66 TACAAAACATCAAAATTCAACTCGTGAGCCGAAACCGGTC-TCTCCTCCTCGAGTCTAG
* * * * * *
103108729 AAACCAAACCGATACTCTCACTAGACCGAAAGCTTACATTTTTTACATCCTCCGGTTCTTTCCCA
1 AAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCATTCTTCACATCCTCCGGTTCTTTCCCA
* * *
103108794 TGCAAAACAGCACAATTCAACTCGTGAGCC-AAATCCGGTC-CT-CTCCTCG-GTCTAG
66 TACAAAACATCAAAATTCAACTCGTGAGCCGAAA-CCGGTCTCTCCTCCTCGAGTCTAG
*
103108849 AAACCGAACCGATGCTCTCAGTAGACCGAAAACTTGCATTCTTCACATCCTCCGGTTCTTTCCCA
1 AAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCATTCTTCACATCCTCCGGTTCTTTCCCA
** *
103108914 TACAAAACATCATGATTCAACTCGTGAGCCGAAACCGGTCCTCTCCTCCTCGAG-CTCG
66 TACAAAACATCAAAATTCAACTCGTGAGCCGAAACCGGT-CTCTCCTCCTCGAGTCTAG
** *
103108972 AAACCGAACCGACGCTCTCAGTGGACCG
1 AAACCGAACCGATACTCTCAGTAGACCG
103109000 GAGGCTTACA
Statistics
Matches: 235, Mismatches: 29, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
119 2 0.01
120 99 0.42
121 6 0.03
122 5 0.02
123 122 0.52
124 1 0.00
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (123 bp):
AAACCGAACCGATACTCTCAGTAGACCGAAAACTTGCATTCTTCACATCCTCCGGTTCTTTCCCA
TACAAAACATCAAAATTCAACTCGTGAGCCGAAACCGGTCTCTCCTCCTCGAGTCTAG
Found at i:103109735 original size:14 final size:14
Alignment explanation
Indices: 103109724--103109755 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
103109714 ATAGTCAACT
103109724 GTCAACAGTCAATA
1 GTCAACAGTCAATA
*
103109738 GTCAATAGTCAATA
1 GTCAACAGTCAATA
103109752 GTCA
1 GTCA
103109756 TGGATGCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (14 bp):
GTCAACAGTCAATA
Found at i:103109738 original size:21 final size:21
Alignment explanation
Indices: 103109712--103109755 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
103109702 TTTTATAATG
103109712 CAATAGTCAACT-GTCAACAGT
1 CAATAGTCAA-TAGTCAACAGT
*
103109733 CAATAGTCAATAGTCAATAGT
1 CAATAGTCAATAGTCAACAGT
103109754 CA
1 CA
103109756 TGGATGCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (21 bp):
CAATAGTCAATAGTCAACAGT
Found at i:103110365 original size:21 final size:20
Alignment explanation
Indices: 103110341--103110392 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
103110331 TTTTAAATGC
103110341 AATATTAAAAAATTAGATAAA
1 AATATTAAAAAA-TAGATAAA
* *
103110362 AATATTTAAAAAATAGTTTAA
1 AATA-TTAAAAAATAGATAAA
103110383 AATATTAAAA
1 AATATTAAAA
103110393 TCTTGTACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 6 0.21
21 14 0.50
22 8 0.29
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
AATATTAAAAAATAGATAAA
Found at i:103118100 original size:91 final size:89
Alignment explanation
Indices: 103117990--103118227 Score: 241
Period size: 91 Copynumber: 2.6 Consensus size: 89
103117980 ACTCAAGTTT
* * * **
103117990 AAGTGC-CTAAAAATAAAATATAATAAATAACAAATTTTACAATTATCTCG-AAATGTT-TTAAA
1 AAGTGCTCCAAAAATGAAATATAATAAATAA-AAATTTTACAATTATCCCGAAAAT-TTGCAAAA
*
103118052 AAAAATTGCAGCA-TCATACTCAAAGCTC
64 AAAAATTG-AGCACT-ATACTAAAAGC-C
* * * *
103118080 AAGTGCTCCAAAAGTGAAATAAAATAAATAATAATTTTAACAGTTATCCCGAAAATTTGCAAAAA
1 AAGTGCTCCAAAAATGAAATATAATAAATAAAAATTTT-ACAATTATCCCGAAAATTTGCAAAAA
* *
103118145 AAAATTGGGCACTATACTAAAATCC
65 AAAATTGAGCACTATACTAAAAGCC
* * *
103118170 AAGTGCTCCAAAAATGAAATATAATAAATAATAATTTTTATAATTATTCCGGAAAATT
1 AAGTGCTCCAAAAATGAAATATAATAAATAA-AAATTTTACAATTA-TCCCGAAAATT
103118228 AAAAAAATAT
Statistics
Matches: 122, Mismatches: 19, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
90 47 0.39
91 59 0.48
92 16 0.13
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (89 bp):
AAGTGCTCCAAAAATGAAATATAATAAATAAAAATTTTACAATTATCCCGAAAATTTGCAAAAAA
AAATTGAGCACTATACTAAAAGCC
Found at i:103118344 original size:92 final size:93
Alignment explanation
Indices: 103117910--103118344 Score: 346
Period size: 92 Copynumber: 4.8 Consensus size: 93
103117900 AATTATTTTT
* * * *
103117910 AATAAAATATAATAAA-AA-AATATTTTACAGTTATTTTGAAAATTATTTAAAAATATTTTTACA
1 AATAAAATATAATAAATAATAAT-TTTTACAATTATCTCGAAAATT-TTAAAAAATATTTTTACA
* * * *
103117973 CCACAATACTC-AAGTTTAAGTGC-CTAAA
64 CCACTATACTCAAAGCTCAAGTGCTCCAAA
* * * * * *
103118001 AATAAAATATAATAAATAACAAATTTTACAATTATCTCGAAATGTTTTAAAAAA-A--ATTGCAG
1 AATAAAATATAATAAATAATAATTTTTACAATTATCTCGAAA-ATTTTAAAAAATATTTTTACAC
103118063 CA-TCATACTCAAAGCTCAAGTGCTCCAAA
65 CACT-ATACTCAAAGCTCAAGTGCTCCAAA
* * * * * * * ** ***
103118092 AGTGAAATAAAATAAATAATAATTTTAACAGTTATCCCGAAAATTTGCAAAAAA-A-AATT-GGG
1 AATAAAATATAATAAATAATAATTTTTACAATTATCTCGAAAATTT-TAAAAAATATTTTTACAC
* *
103118154 CACTATACTAAAATC-CAAGTGCTCCAAA
65 CACTATACTCAAAGCTCAAGTGCTCCAAA
* * *
103118182 AATGAAATATAATAAATAATAATTTTTATAATTAT-TCCGGAAAA-TTAAAAAAATATTTTTA-A
1 AATAAAATATAATAAATAATAATTTTTACAATTATCT-C-GAAAATTTTAAAAAATATTTTTACA
** *
103118244 CGTGCTATACTCAAA-CACAAGTGC-CCTAAA
64 C-CACTATACTCAAAGCTCAAGTGCTCC-AAA
* *
103118274 AATAAAATATATTAAATAATAATTTTTATAATTATCTCGAAAATTTTAAAAAATATTTTTACACC
1 AATAAAATATAATAAATAATAATTTTTACAATTATCTCGAAAATTTTAAAAAATATTTTTACACC
103118339 ACTATA
66 ACTATA
103118345 ATGCCTCGAA
Statistics
Matches: 278, Mismatches: 46, Indels: 39
0.77 0.13 0.11
Matches are distributed among these distances:
89 18 0.06
90 60 0.22
91 89 0.32
92 104 0.37
93 7 0.03
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (93 bp):
AATAAAATATAATAAATAATAATTTTTACAATTATCTCGAAAATTTTAAAAAATATTTTTACACC
ACTATACTCAAAGCTCAAGTGCTCCAAA
Found at i:103118876 original size:95 final size:94
Alignment explanation
Indices: 103118721--103118939 Score: 264
Period size: 95 Copynumber: 2.3 Consensus size: 94
103118711 AATAATTTCT
* *
103118721 TTTTACAGTTATCTTAAAATA-TATAAAAAAATTATTTTTGCAACAACATATTCAAACCCAAGTG
1 TTTTACAGTTATCTTAAAAAATTA-AAAAAAATTATTTTTGCAACAACATATTCAAACCCAAATG
*
103118785 CTCCGGAAATGAAATATAATAAATAATAAA
65 CTCCGAAAATGAAATATAATAAATAATAAA
* ***
103118815 TTTTACAGTTATCTCAAAAAATTAAAAAAAATATATTTTTGC-ACAACA-ATCCTCTTGCCCAAA
1 TTTTACAGTTATCTTAAAAAATTAAAAAAAAT-TATTTTTGCAACAACATAT--TCAAACCCAAA
* * *
103118878 TGCTTCTAAAATGAAATATAATAAATAATAAT
63 TGCTCCGAAAATGAAATATAATAAATAATAAA
**
103118910 TTTTACAACTATCCTTAAAAAATTAAAAAA
1 TTTTACAGTTAT-CTTAAAAAATTAAAAAA
103118940 TATCACCACC
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
93 2 0.02
94 33 0.31
95 56 0.52
96 16 0.15
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (94 bp):
TTTTACAGTTATCTTAAAAAATTAAAAAAAATTATTTTTGCAACAACATATTCAAACCCAAATGC
TCCGAAAATGAAATATAATAAATAATAAA
Found at i:103119399 original size:96 final size:97
Alignment explanation
Indices: 103119282--103119485 Score: 263
Period size: 96 Copynumber: 2.1 Consensus size: 97
103119272 GTTTTTAAAT
* * ** *
103119282 TTTAGGG-TTTTAAGGAAAAAATTAAATAAATTAGGGTTTAATGTTTGTTAATTAAATTAATTAC
1 TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTAAGTAAATTAATTA-
*
103119346 T-AA-TTTTAAAAAAATAGATTATGG-TTTAGTG
65 TAAATTTTTAAAAAAATAGATTA-GGATTTAGGG
* * *
103119377 TTTATGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTAAGTAAATTAATTAT
*
103119442 AAATTTTTAAAAAATTAGATTAGGATTTTAGGG
66 AAATTTTTAAAAAAATAGATTAGGA-TTTAGGG
103119475 TTTAGGGTTTT
1 TTTAGGGTTTT
103119486 AGGGTATTTA
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
95 7 0.08
96 53 0.57
97 17 0.18
98 16 0.17
ACGTcount: A:0.39, C:0.01, G:0.18, T:0.42
Consensus pattern (97 bp):
TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTAAGTAAATTAATTAT
AAATTTTTAAAAAAATAGATTAGGATTTAGGG
Found at i:103119485 original size:15 final size:15
Alignment explanation
Indices: 103119461--103119490 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
103119451 AAAAATTAGA
103119461 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
*
103119476 TTAGGGTTTTAGGGT
1 TTAGGATTTTAGGGT
103119491 ATTTAAGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:103119791 original size:126 final size:126
Alignment explanation
Indices: 103119574--103120112 Score: 812
Period size: 126 Copynumber: 4.3 Consensus size: 126
103119564 AAAAGCTTCT
*
103119574 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCACAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
103119639 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* **
103119700 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * *
103119765 ATAGTGT-AAAAAGCGCTTCAATCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAACTTCC
66 ATAGTGTCAAAAA-CGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * *
103119826 ACGTGGACGCTCTTTTGTTACAGTAGTCTCTGAAAAAATAATTTTAAGAAGATGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * * * * *
103119891 ATAGCGGT-AAAAACACTTCAAGCAGAATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAG-TGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * * *
103119952 ACGTGGATGCTCCTTTGCTACAGTGGTTTCTGAAAAAATAATTCTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
*
103120017 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
103120078 ACGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
103120113 TAACTTGAGC
Statistics
Matches: 372, Mismatches: 38, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
125 7 0.02
126 358 0.96
127 7 0.02
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:103123301 original size:116 final size:116
Alignment explanation
Indices: 103123126--103123739 Score: 1052
Period size: 116 Copynumber: 5.3 Consensus size: 116
103123116 TTTATATTTT
* * * * *
103123126 ATTACATGAATTAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAAGATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * *
103123191 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* * * * *
103123242 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTGTTTAAAACAATTTCCATTTTACTA
1 ATTACATGAAATAATATAAAAAGATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
103123307 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTT-AAAACAACCTTTTATCTA
*
103123359 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAAGATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
103123424 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
103123475 ATTATATGAAATAATATAAAAAGATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAAGATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
103123540 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
103123591 ATTACATGAAAT-A-ATAAAAAGATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAAGATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
103123654 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
103123705 ATTATATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
103123740 TGCACAAATA
Statistics
Matches: 474, Mismatches: 21, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
114 111 0.23
115 2 0.00
116 251 0.53
117 110 0.23
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAAGATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:103123572 original size:54 final size:54
Alignment explanation
Indices: 103123513--103123690 Score: 173
Period size: 54 Copynumber: 3.2 Consensus size: 54
103123503 AAATGTTGCC
*
103123513 TTATTTAAAATAATTTCCATTTTATTAAAAATATAAAAGTAAATTATAATTACT
1 TTATTTAAAATAATTTCCATTTTATTAAAAATATAAAAGTAAATTAAAATTACT
* * * * * * *
103123567 TTATTTAAAACAACCTTT-TATCTAATTACATGAAATAATAAAA--AGATTCAAAATGTTGCC
1 TTATTTAAAATAA--TTTCCATTTTATTA-A--AAAT-ATAAAAGTAAATT-AAAA--TTACT
*
103123627 TTATTTAAAATAATTTCCATTTTATTAAAAATATAAAAGTAAATTACAATTACT
1 TTATTTAAAATAATTTCCATTTTATTAAAAATATAAAAGTAAATTAAAATTACT
103123681 TTATTTAAAA
1 TTATTTAAAA
103123691 CAACCTTTTA
Statistics
Matches: 96, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
54 25 0.26
55 13 0.14
56 11 0.11
57 8 0.08
58 11 0.11
59 13 0.14
60 15 0.16
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (54 bp):
TTATTTAAAATAATTTCCATTTTATTAAAAATATAAAAGTAAATTAAAATTACT
Found at i:103123704 original size:230 final size:233
Alignment explanation
Indices: 103123126--103123739 Score: 1072
Period size: 233 Copynumber: 2.6 Consensus size: 233
103123116 TTTATATTTT
* * * *
103123126 ATTACATGAATTAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * * * *
103123191 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATTATCACATGAAATAA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTATATGAAATAA
* *
103123256 TATAAAAATATTCAAAATGTTGCCTTGTTTAAAACAATTTCCATTTTACTAAAAATATAAAAGTA
131 TATAAAAAGATTCAAAATGTTGCCTTATTTAAAACAATTTCCATTTTACTAAAAATATAAAAGTA
103123321 AATTACAATTACTTTATTTAAAAACAACCTTTTATCTA
196 AATTACAATTACTTTATTTAAAAACAACCTTTTATCTA
103123359 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
103123424 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTATATGAAATAA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTATATGAAATAA
* *
103123489 TATAAAAAGATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTAAAAATATAAAAGTA
131 TATAAAAAGATTCAAAATGTTGCCTTATTTAAAACAATTTCCATTTTACTAAAAATATAAAAGTA
*
103123554 AATTATAATTACTTTATTT-AAAACAACCTTTTATCTA
196 AATTACAATTACTTTATTTAAAAACAACCTTTTATCTA
*
103123591 ATTACATGAAAT-A-ATAAAAAGATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
103123654 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTATATGAAATAA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTATATGAAATAA
103123719 TATAAAAAGATTCAAAATGTT
131 TATAAAAAGATTCAAAATGTT
103123740 TGCACAAATA
Statistics
Matches: 366, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
230 135 0.37
231 1 0.00
232 30 0.08
233 200 0.55
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (233 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTATATGAAATAA
TATAAAAAGATTCAAAATGTTGCCTTATTTAAAACAATTTCCATTTTACTAAAAATATAAAAGTA
AATTACAATTACTTTATTTAAAAACAACCTTTTATCTA
Found at i:103124149 original size:18 final size:18
Alignment explanation
Indices: 103124123--103124165 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
103124113 GACTAGAAAA
* * *
103124123 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGCCT
103124141 AGGATACATAAAAGGCCT
1 AGGATACATAAAAGGCCT
103124159 AGGATAC
1 AGGATAC
103124166 GTACTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.26, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGCCT
Found at i:103124276 original size:30 final size:30
Alignment explanation
Indices: 103124219--103124284 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
103124209 ATTGAACTGT
* *
103124219 TGGGCCTGGTGACTGTGTAGGTCCTGTT-A
1 TGGGCCGGGTGACTGTGTAGGGCCTGTTGA
*
103124248 CTGGGCCGGGTGATTGTGT-GGGCGCTGTTGA
1 -TGGGCCGGGTGACTGTGTAGGGC-CTGTTGA
103124279 TGGGCC
1 TGGGCC
103124285 TGCGCTGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 3 0.10
30 27 0.87
31 1 0.03
ACGTcount: A:0.08, C:0.18, G:0.44, T:0.30
Consensus pattern (30 bp):
TGGGCCGGGTGACTGTGTAGGGCCTGTTGA
Found at i:103125996 original size:31 final size:31
Alignment explanation
Indices: 103125952--103126010 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
103125942 AAAAAAATAA
* * *
103125952 TGAGAGTTTTGAGAGGAATTTAAGAGAAATT
1 TGAGAGATCTGAGAGAAATTTAAGAGAAATT
*
103125983 TGAGAGATCTGAGAGAAATTTGAGAGAA
1 TGAGAGATCTGAGAGAAATTTAAGAGAA
103126011 TATTGAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.31, T:0.27
Consensus pattern (31 bp):
TGAGAGATCTGAGAGAAATTTAAGAGAAATT
Found at i:103126016 original size:11 final size:11
Alignment explanation
Indices: 103125959--103126010 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
103125949 TAATGAGAGT
*
103125959 TTTGAGAGGAA
1 TTTGAGAGAAA
*
103125970 TTTAAGAGAAA
1 TTTGAGAGAAA
103125981 TTTGAGAG--A
1 TTTGAGAGAAA
*
103125990 TCTGAGAGAAA
1 TTTGAGAGAAA
103126001 TTTGAGAGAA
1 TTTGAGAGAA
103126011 TATTGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.24
11 26 0.76
ACGTcount: A:0.42, C:0.02, G:0.29, T:0.27
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:103127563 original size:46 final size:46
Alignment explanation
Indices: 103127496--103127668 Score: 206
Period size: 46 Copynumber: 3.6 Consensus size: 46
103127486 TGTAACCCGC
103127496 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
103127542 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * *
103127592 CTC-TCGAACTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CAT--AAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
103127641 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
103127669 AAGTTCGGAT
Statistics
Matches: 109, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
46 56 0.51
47 3 0.03
48 4 0.04
49 6 0.06
50 6 0.06
51 4 0.04
52 3 0.03
53 27 0.25
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:103130454 original size:30 final size:30
Alignment explanation
Indices: 103130415--103130471 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
103130405 TTTTATAAAT
103130415 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
103130445 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
103130472 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:103130666 original size:13 final size:13
Alignment explanation
Indices: 103130648--103130698 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
103130638 CTTAAACCAA
103130648 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
103130661 ACTTTTCTATAA-C
1 ACTTTTC-AAAAGC
*
103130674 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
103130687 ACTTTTCAAAAG
1 ACTTTTCAAAAG
103130699 TATTGCTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 3 0.09
13 26 0.81
14 3 0.09
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:103135965 original size:22 final size:22
Alignment explanation
Indices: 103135926--103135985 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
103135916 GAATGAAATT
*
103135926 TAAAA-AAAAAATTAAAATAACA
1 TAAAAGAAAAAAAT-AAATAACA
** *
103135948 TAAAAGAAAAAAATAAATTTCT
1 TAAAAGAAAAAAATAAATAACA
103135970 TAAAATGAAAAAAATA
1 TAAAA-GAAAAAAATA
103135986 TAGGGACCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (22 bp):
TAAAAGAAAAAAATAAATAACA
Found at i:103141401 original size:30 final size:32
Alignment explanation
Indices: 103141321--103141387 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
103141311 ATATACTAAA
* *
103141321 ACTACATGATATAAGTATATATATAGTTTACC
1 ACTATATGAGATAAGTATATATATAGTTTACC
103141353 ACTATATGAGATAAGTATATATATAGTTTACC
1 ACTATATGAGATAAGTATATATATAGTTTACC
103141385 ACT
1 ACT
103141388 TTTCTAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.37
Consensus pattern (32 bp):
ACTATATGAGATAAGTATATATATAGTTTACC
Found at i:103146094 original size:14 final size:14
Alignment explanation
Indices: 103146075--103146103 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
103146065 TATTCTGTTA
103146075 AATATTTTATAATG
1 AATATTTTATAATG
103146089 AATATTTTATAATG
1 AATATTTTATAATG
103146103 A
1 A
103146104 GCCACATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
AATATTTTATAATG
Found at i:103150142 original size:2 final size:2
Alignment explanation
Indices: 103150135--103150171 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
103150125 TCAATCTTCA
*
103150135 TC TC TC TC TC TC TC GC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
103150172 ATATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.03, T:0.49
Consensus pattern (2 bp):
TC
Found at i:103151043 original size:21 final size:20
Alignment explanation
Indices: 103151019--103151057 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
103151009 AACCTATCAG
*
103151019 GATTCAATATTTAAAGTTTAA
1 GATTCAAAATTT-AAGTTTAA
103151040 GATTCAAAATTTAAGTTT
1 GATTCAAAATTTAAGTTT
103151058 TGAGTTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
GATTCAAAATTTAAGTTTAA
Found at i:103167246 original size:60 final size:62
Alignment explanation
Indices: 103167124--103167251 Score: 147
Period size: 60 Copynumber: 2.1 Consensus size: 62
103167114 CATTTACTGT
* * * * * *
103167124 AAGTA-CTAATTTGGACAAAAAGTAAAGTTTAGGTACTAATTTGAACCAAGAAGCTAAGTTC
1 AAGTACCTAATTTGGACAAAAAGTAAACTTTAGATACCAAATTGAACCAAGAAGCAAAATTC
* *
103167185 AAGTACCTAA-TTGGACCAAAA-TAAACTTTAGATACCAAATTGAACCTTA-AAGCAAAATTC
1 AAGTACCTAATTTGGACAAAAAGTAAACTTTAGATACCAAATTGAACC-AAGAAGCAAAATTC
103167245 AAGTACC
1 AAGTACC
103167252 AAAATGTATA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
60 37 0.65
61 16 0.28
62 4 0.07
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.26
Consensus pattern (62 bp):
AAGTACCTAATTTGGACAAAAAGTAAACTTTAGATACCAAATTGAACCAAGAAGCAAAATTC
Found at i:103169654 original size:22 final size:22
Alignment explanation
Indices: 103169614--103169674 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
103169604 GAATGAAATT
103169614 TAAAA-AAAAAAATTAAAATAACA
1 TAAAAGAAAAAAA-T-AAATAACA
** *
103169637 TAAAAGAAAAAAATAAATTTCT
1 TAAAAGAAAAAAATAAATAACA
103169659 TAAAATGAAAAAAATA
1 TAAAA-GAAAAAAATA
103169675 TAGGGACCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 10 0.30
23 16 0.48
24 7 0.21
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.21
Consensus pattern (22 bp):
TAAAAGAAAAAAATAAATAACA
Found at i:103175065 original size:34 final size:32
Alignment explanation
Indices: 103175017--103175085 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
103175007 ATATACTAAA
*
103175017 ACTACATGATATAAGTATATATATATAGTTTACC
1 ACTACATGAGATAAG--TATATATATAGTTTACC
*
103175051 ACTATATGAGATAAGTATATATATAGTTTACC
1 ACTACATGAGATAAGTATATATATAGTTTACC
103175083 ACT
1 ACT
103175086 TTTCTAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 20 0.61
34 13 0.39
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.38
Consensus pattern (32 bp):
ACTACATGAGATAAGTATATATATAGTTTACC
Found at i:103179806 original size:14 final size:14
Alignment explanation
Indices: 103179787--103179815 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
103179777 TATTCTGTTA
103179787 AATATTTTATAATG
1 AATATTTTATAATG
103179801 AATATTTTATAATG
1 AATATTTTATAATG
103179815 A
1 A
103179816 GGGCCACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
AATATTTTATAATG
Found at i:103183869 original size:2 final size:2
Alignment explanation
Indices: 103183862--103183898 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
103183852 TCAATCTTCA
*
103183862 TC TC TC TC TC TC TC GC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
103183899 ATATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.03, T:0.49
Consensus pattern (2 bp):
TC
Found at i:103184779 original size:21 final size:21
Alignment explanation
Indices: 103184755--103184794 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
103184745 ACCTATTCAG
*
103184755 GATTCAATATTTAAAGTTTAA
1 GATTCAAAATTTAAAGTTTAA
*
103184776 GATTCAAAATTTAAGGTTT
1 GATTCAAAATTTAAAGTTT
103184795 TGAGTTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (21 bp):
GATTCAAAATTTAAAGTTTAA
Found at i:103185305 original size:30 final size:31
Alignment explanation
Indices: 103185245--103185319 Score: 73
Period size: 31 Copynumber: 2.5 Consensus size: 31
103185235 GATTAATGAA
* * *
103185245 AAAAATTTCAAAAAAATTAGAGGGCTAAATT
1 AAAATTTTCAAAAAAATTAGAAGGCAAAATT
103185276 AAAATTTTCAAAAAAATTCA-AAGG-AAAATT
1 AAAATTTTCAAAAAAATT-AGAAGGCAAAATT
* * *
103185306 GACATTTCCAAAAA
1 AAAATTTTCAAAAA
103185320 TTTTAAAAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 16 0.43
31 20 0.54
32 1 0.03
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.25
Consensus pattern (31 bp):
AAAATTTTCAAAAAAATTAGAAGGCAAAATT
Found at i:103185928 original size:15 final size:14
Alignment explanation
Indices: 103185898--103185925 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
103185888 TGTTTGGTTC
103185898 TCGAGAAAAAGAAA
1 TCGAGAAAAAGAAA
103185912 TCGAGAAAAAGAAA
1 TCGAGAAAAAGAAA
103185926 ATCAAAAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.21, T:0.07
Consensus pattern (14 bp):
TCGAGAAAAAGAAA
Found at i:103189982 original size:13 final size:14
Alignment explanation
Indices: 103189964--103189996 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
103189954 AAGTTAATAA
*
103189964 TTGAATT-TATCTC
1 TTGAATTATATATC
103189977 TTGAATTATATATC
1 TTGAATTATATATC
103189991 TTGAAT
1 TTGAAT
103189997 ATTTATCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (14 bp):
TTGAATTATATATC
Found at i:103203180 original size:21 final size:18
Alignment explanation
Indices: 103203135--103203172 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
103203125 ATAAGATAAC
103203135 CAATATCATGATGAACTT
1 CAATATCATGATGAACTT
103203153 CAATATCATGATGAACTT
1 CAATATCATGATGAACTT
103203171 CA
1 CA
103203173 CAAATATCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (18 bp):
CAATATCATGATGAACTT
Found at i:103210973 original size:29 final size:30
Alignment explanation
Indices: 103210909--103210964 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
103210899 AAATGAAAAA
* * *
103210909 AAAAATAT-TTTTAATCTCTTAAACATGAT
1 AAAATTATATTTTAATCTCTAAAAAATGAT
103210938 AAAATTATATTTTAATCTCTAAAAAAT
1 AAAATTATATTTTAATCTCTAAAAAAT
103210965 TTACAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 7 0.30
30 16 0.70
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (30 bp):
AAAATTATATTTTAATCTCTAAAAAATGAT
Found at i:103213185 original size:31 final size:30
Alignment explanation
Indices: 103213107--103213211 Score: 104
Period size: 31 Copynumber: 3.5 Consensus size: 30
103213097 ACCTTATAAT
* * *
103213107 ATTTTAAAAAAATTAATTATGCC-CCCAAA
1 ATTTTAAAAAATTTAATTAAGCCTTCCAAA
* *
103213136 AATTTAAAAAGTTCTAATTAAGCCTTCCAAA
1 ATTTTAAAAAATT-TAATTAAGCCTTCCAAA
* *
103213167 AGTTTTAAAAAATTTAATTAAACCTTCCAAT
1 A-TTTTAAAAAATTTAATTAAGCCTTCCAAA
**
103213198 ATTTTTTAAAATTT
1 ATTTTAAAAAATTT
103213212 CTCATCAATC
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
29 10 0.16
30 20 0.32
31 22 0.35
32 10 0.16
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (30 bp):
ATTTTAAAAAATTTAATTAAGCCTTCCAAA
Found at i:103213739 original size:31 final size:31
Alignment explanation
Indices: 103213666--103213724 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
103213656 TTTAATTTGA
* *
103213666 TCAA-TTTAGTCCCTATACTTTTTGAATTAG
1 TCAATTTTAGTCCCCATACTTTTTAAATTAG
103213696 TCAATTTTAGTCCCCATACTTTTTAAATT
1 TCAATTTTAGTCCCCATACTTTTTAAATT
103213725 TTTAACTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.27, C:0.19, G:0.07, T:0.47
Consensus pattern (31 bp):
TCAATTTTAGTCCCCATACTTTTTAAATTAG
Found at i:103221725 original size:24 final size:22
Alignment explanation
Indices: 103221685--103221730 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
103221675 AAAATTCTTA
*
103221685 TTTTTAATTTAATATTTAATAT
1 TTTTTAATTTAAAATTTAATAT
*
103221707 TTTTTAATTATTAAAATTTTATAT
1 TTTTTAA-T-TTAAAATTTAATAT
103221731 ACATTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTTAATTTAAAATTTAATAT
Found at i:103221894 original size:14 final size:14
Alignment explanation
Indices: 103221875--103221921 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
103221865 TATATTTACA
103221875 AATATTAAATAAAT
1 AATATTAAATAAAT
103221889 AATATTAAATAAAT
1 AATATTAAATAAAT
103221903 --T-TTAAATATAA-
1 AATATTAAATA-AAT
103221914 AATATTAA
1 AATATTAA
103221922 TGCACAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 7 0.24
12 3 0.10
13 1 0.03
14 18 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATTAAATAAAT
Found at i:103221907 original size:25 final size:25
Alignment explanation
Indices: 103221874--103221921 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
103221864 ATATATTTAC
103221874 AAATATTAAATA-AATAATATTAAAT
1 AAATATTAAATATAA-AATATTAAAT
*
103221899 AAATTTTAAATATAAAATATTAA
1 AAATATTAAATATAAAATATTAA
103221922 TGCACAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAATATTAAATATAAAATATTAAAT
Found at i:103222281 original size:7 final size:7
Alignment explanation
Indices: 103222269--103222298 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
103222259 TTAATTTATG
103222269 TTAAATT
1 TTAAATT
103222276 TTAAATT
1 TTAAATT
*
103222283 TTGAATT
1 TTAAATT
103222290 TTAAATT
1 TTAAATT
103222297 TT
1 TT
103222299 TTATAGTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (7 bp):
TTAAATT
Found at i:103227477 original size:40 final size:40
Alignment explanation
Indices: 103227415--103227509 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
103227405 CTTTTCTTTC
* *
103227415 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
103227456 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
103227496 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
103227510 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:103227539 original size:5 final size:5
Alignment explanation
Indices: 103227519--103227553 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
103227509 TTTCTTTGTC
103227519 ATAT- ATATA TATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA -ATATA ATATA ATATA ATATA ATATA
103227554 TTAATAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.14
5 20 0.69
6 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATATA
Found at i:103231269 original size:39 final size:39
Alignment explanation
Indices: 103231210--103231310 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
103231200 ATCGTGATAT
* * *
103231210 GAAGCCCGAAGTCTAGCTGAAGCACATAAATGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAATGCTAAACG
*
103231249 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAATGCTAAACG
103231288 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
103231311 TCATCAGAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.38, C:0.25, G:0.26, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAATGCTAAACG
Found at i:103231292 original size:21 final size:21
Alignment explanation
Indices: 103231228--103231292 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
103231218 AAGTCTAGCT
* *
103231228 GAAGCACATAAATGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
103231249 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
103231267 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
103231288 GAAGC
1 GAAGC
103231293 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.11
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:103231323 original size:39 final size:39
Alignment explanation
Indices: 103231210--103231325 Score: 155
Period size: 39 Copynumber: 3.0 Consensus size: 39
103231200 ATCGTGATAT
* * *
103231210 GAAGCCCGAAGTCTAGCTGAAGCACAT-AAATGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATCAGA-GCTAAACG
*
103231249 GAAGCCCGAAGGCTAACTGAAGCACA-CAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATC-AGAGCTAAACG
*
103231288 GAAGCCCGAAGGCTAACTGAAGCTCATCAGAGCTAAAC
1 GAAGCCCGAAGGCTAACTGAAGCACATCAGAGCTAAAC
103231326 TGAAACCCCA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
39 66 0.97
40 2 0.03
ACGTcount: A:0.38, C:0.25, G:0.24, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATCAGAGCTAAACG
Found at i:103232670 original size:17 final size:18
Alignment explanation
Indices: 103232623--103232670 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
103232613 TTACCTAATT
*
103232623 AATTCTTTTAATTCACAA
1 AATTCTTATAATTCACAA
**
103232641 AATTCACAT-ATTCAC-A
1 AATTCTTATAATTCACAA
103232657 AATTCTTATAATTC
1 AATTCTTATAATTC
103232671 CTTACTTGAC
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
16 8 0.33
17 10 0.42
18 6 0.25
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (18 bp):
AATTCTTATAATTCACAA
Found at i:103234111 original size:5 final size:5
Alignment explanation
Indices: 103234095--103234130 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
103234085 TTTTATTTAA
*
103234095 ATTAT A-TAT ATTGT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
103234131 AATTGATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:103234141 original size:15 final size:15
Alignment explanation
Indices: 103234095--103234144 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
103234085 TTTTATTTAA
103234095 ATTATATATATTG-T
1 ATTATATATATTGAT
103234109 ATTATATTATATT-AT
1 ATTATA-TATATTGAT
103234124 ATTATATA-ATTGATT
1 ATTATATATATTGA-T
103234139 ATTATA
1 ATTATA
103234145 ATTATTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 3 0.09
14 9 0.28
15 20 0.62
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (15 bp):
ATTATATATATTGAT
Found at i:103234151 original size:3 final size:3
Alignment explanation
Indices: 103234108--103234192 Score: 65
Period size: 3 Copynumber: 29.7 Consensus size: 3
103234098 ATATATATTG
* *
103234108 TAT TA- TAT TA- TAT TA- TAT TA- TAT AAT TGAT TAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* **
103234150 TAAT TGT TAT GGT T-T TA- TAT TAT TAT TAT TAT TAT TAT TAT TA
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
103234193 AATAAATTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
2 12 0.18
3 47 0.72
4 6 0.09
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:103234480 original size:33 final size:33
Alignment explanation
Indices: 103234443--103234509 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
103234433 TATTTATACA
*
103234443 ATTATAATATT-TTATTTAAATT-AGTAGATATTT
1 ATTAT-ATATTATTATTAAAATTAAG-AGATATTT
*
103234476 ATTATTTATTATTATTAAAATTAAGAGATATTT
1 ATTATATATTATTATTAAAATTAAGAGATATTT
103234509 A
1 A
103234510 ATAATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 4 0.13
33 24 0.80
34 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (33 bp):
ATTATATATTATTATTAAAATTAAGAGATATTT
Found at i:103235768 original size:39 final size:39
Alignment explanation
Indices: 103235716--103235823 Score: 108
Period size: 45 Copynumber: 2.6 Consensus size: 39
103235706 CAGGCACTTA
* * * *
103235716 TGTGCCGACTACTGTTACTGTTACCGATTCGACACTTTG
1 TGTGTCGAATACTGTTACTGTTACAGATTCAACACTTTG
103235755 TGTGTCGAATACTGTTACCGTTACTGTTACAGATTCAACACTTTG
1 TGTGTCGAATAC---T---GTTACTGTTACAGATTCAACACTTTG
* *
103235800 TGTGTTGAATACTATTACTGTTAC
1 TGTGTCGAATACTGTTACTGTTAC
103235824 TGCTACTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
39 20 0.35
42 2 0.04
45 35 0.61
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (39 bp):
TGTGTCGAATACTGTTACTGTTACAGATTCAACACTTTG
Found at i:103235796 original size:45 final size:45
Alignment explanation
Indices: 103235729--103235825 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 45
103235719 GCCGACTACT
* * *
103235729 GTTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTATTACC
* *
103235774 GTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTATTACT
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTATTACC
103235819 GTTACTG
1 GTTACTG
103235826 CTACTGCTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTATTACC
Found at i:103238834 original size:148 final size:147
Alignment explanation
Indices: 103238566--103238856 Score: 528
Period size: 148 Copynumber: 2.0 Consensus size: 147
103238556 CCGGATGCCG
*
103238566 GCGGAGGAACGAGGTAATGGTTAGAGCGGTGGAGAGGGTGGCTGTGGTGGAGGAGGCCATGTCGT
1 GCGGAGGAACGAGGTAATGGTTACAGCGGTGGAGAGGGTGGCTGTGGTGGAGGAGGCCATGTCGT
103238631 GAGAGCCGTTAGCAGATGAGTTGATATACAGGGGAAAGTACGGCTGAGGATAAAGAATTGGCTGG
66 GAGAGCCGTTAGCAGATGAGTTGATATACAGGGGAAAGTACGGCTGAGGATAAAGAATTGGCTGG
103238696 TTGTGTGGATTATTGGCA
131 TTGTGTGG-TTATTGGCA
* *
103238714 GCGGAGGAACGAGGTAATGGTTACAGCGGTGGAGAGGGTGGCTGTTGTGGAGGAGGCCATGTTGT
1 GCGGAGGAACGAGGTAATGGTTACAGCGGTGGAGAGGGTGGCTGTGGTGGAGGAGGCCATGTCGT
* *
103238779 GAGAGCCGTTAGCAGATGAGTTGATATAGAGGGGAAAGTATGGCTGAGGATAAAGAATTGGCTGG
66 GAGAGCCGTTAGCAGATGAGTTGATATACAGGGGAAAGTACGGCTGAGGATAAAGAATTGGCTGG
103238844 TTGTGTGGTTATT
131 TTGTGTGGTTATT
103238857 ATCTGCCACG
Statistics
Matches: 138, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
147 5 0.04
148 133 0.96
ACGTcount: A:0.25, C:0.09, G:0.42, T:0.24
Consensus pattern (147 bp):
GCGGAGGAACGAGGTAATGGTTACAGCGGTGGAGAGGGTGGCTGTGGTGGAGGAGGCCATGTCGT
GAGAGCCGTTAGCAGATGAGTTGATATACAGGGGAAAGTACGGCTGAGGATAAAGAATTGGCTGG
TTGTGTGGTTATTGGCA
Found at i:103254480 original size:18 final size:21
Alignment explanation
Indices: 103254443--103254485 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 21
103254433 TAAAAATACT
103254443 TTTTATACTCTTTGAAATAA-
1 TTTTATACTCTTTGAAATAAG
*
103254463 TTTTA-ACT-TTTTAAATAAG
1 TTTTATACTCTTTGAAATAAG
103254482 TTTT
1 TTTT
103254486 TTTATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 9 0.43
19 7 0.33
20 5 0.24
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTTATACTCTTTGAAATAAG
Found at i:103266436 original size:13 final size:13
Alignment explanation
Indices: 103266420--103266447 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
103266410 TTGAATATTG
103266420 AATATATATATAT
1 AATATATATATAT
103266433 AATATATATATAT
1 AATATATATATAT
103266446 AA
1 AA
103266448 AGGTTAAAAT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATATATATATAT
Found at i:103271223 original size:26 final size:24
Alignment explanation
Indices: 103271186--103271239 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 24
103271176 TTTTATATTT
*
103271186 TTATAAATATAAAATATAAAATTATA
1 TTATAAACATAAAA-A-AAAATTATA
*
103271212 TTATAAACATAAAAAAAAATTATT
1 TTATAAACATAAAAAAAAATTATA
103271236 TTAT
1 TTAT
103271240 TCTAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 12 0.46
25 1 0.04
26 13 0.50
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TTATAAACATAAAAAAAAATTATA
Found at i:103272993 original size:31 final size:31
Alignment explanation
Indices: 103272947--103273010 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
103272937 TTACTATAAT
*
103272947 TTGGTCAATTCTAGTCTCTTTATTTTTAGAA
1 TTGGTCAATTCTAGTCTCTGTATTTTTAGAA
* * *
103272978 TTGGTCGATTTTAGTCTCTGTATTTTTTGAA
1 TTGGTCAATTCTAGTCTCTGTATTTTTAGAA
103273009 TT
1 TT
103273011 TCAAAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.19, C:0.11, G:0.16, T:0.55
Consensus pattern (31 bp):
TTGGTCAATTCTAGTCTCTGTATTTTTAGAA
Found at i:103275842 original size:18 final size:18
Alignment explanation
Indices: 103275821--103275858 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
103275811 ATAATTAATA
103275821 TTAAAATATT-ATTATTTT
1 TTAAAAT-TTAATTATTTT
103275839 TTAAAATTTGAATTATTTT
1 TTAAAATTT-AATTATTTT
103275858 T
1 T
103275859 ATTTTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 7 0.39
19 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TTAAAATTTAATTATTTT
Found at i:103276126 original size:13 final size:13
Alignment explanation
Indices: 103276108--103276139 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
103276098 GAAAGAGAGA
103276108 TTTTAATAATTAT
1 TTTTAATAATTAT
*
103276121 TTTTAATCATTAT
1 TTTTAATAATTAT
103276134 TTTTAA
1 TTTTAA
103276140 ATGTGTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAATAATTAT
Found at i:103276712 original size:21 final size:20
Alignment explanation
Indices: 103276687--103276725 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
103276677 CAAATAGTAG
*
103276687 TTAAATAAATAATTAAAATAT
1 TTAAAAAAATAA-TAAAATAT
*
103276708 TTAAAAAAATTATAAAAT
1 TTAAAAAAATAATAAAAT
103276726 TTGATTCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TTAAAAAAATAATAAAATAT
Found at i:103280506 original size:18 final size:16
Alignment explanation
Indices: 103280451--103280495 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
103280441 TTTTTTTCTC
*
103280451 AATATATTTTTATTTA-
1 AATA-ATTTATATTTAT
103280467 AA-AA-TTATATTTAT
1 AATAATTTATATTTAT
103280481 AATAATTTATATTTA
1 AATAATTTATATTTA
103280496 ATCACTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
13 8 0.32
14 3 0.12
15 3 0.12
16 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AATAATTTATATTTAT
Found at i:103289862 original size:30 final size:30
Alignment explanation
Indices: 103289805--103289862 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
103289795 TTAATCATAT
* * *
103289805 TCTTTAAAGCTTTTAGAAAACTTAATTAAG
1 TCTTTAAAGCTTTTAAAAAAATCAATTAAG
103289835 TCTTTAAAAG-TTTTAAAAAAATCAATTA
1 TCTTT-AAAGCTTTTAAAAAAATCAATTA
103289863 GACCTCTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.40
Consensus pattern (30 bp):
TCTTTAAAGCTTTTAAAAAAATCAATTAAG
Found at i:103292615 original size:23 final size:24
Alignment explanation
Indices: 103292574--103292628 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 24
103292564 ATATGAGTTG
*
103292574 AATTTTTACACGTCTTTTGCCTGT
1 AATTTTTACACGTCTTTTGCATGT
103292598 AATTTTTACACGTC-TTTGCATGT
1 AATTTTTACACGTCTTTTGCATGT
*
103292621 AACTTTTA
1 AATTTTTA
103292629 AGGTGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 15 0.52
24 14 0.48
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (24 bp):
AATTTTTACACGTCTTTTGCATGT
Found at i:103299097 original size:195 final size:192
Alignment explanation
Indices: 103298765--103299154 Score: 672
Period size: 195 Copynumber: 2.0 Consensus size: 192
103298755 CATCCAATAA
103298765 AACAGCTGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
1 AACAGCTGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
103298830 TTGACATTAAGGATACATAGCAATAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTT
66 TTGACATTAAGGATACATAGCAATAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTT
** *
103298895 CGGTAAATGGAAAATTTGCATTTTAGGCCCTCCCAATAATTAAAATTTCAATTTAAGACCCTTTT
131 CGGTAAATGGAAAATTTGCATTTT-GGCCCAACCAAGAATTAAAATTTCAATTTAAGA--CTTTT
* *
103298960 AACAGCTGCAAAAAAATTATCCGAAACAACAAAGAATCAAAGTTCATCCAAACAAAATATCTACT
1 AACAGCTGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
*
103299025 TTGACATTAAGGATACGTAGCAATAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTT
66 TTGACATTAAGGATACATAGCAATAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTT
* * *
103299090 TGGTAAATGGAAATTTTGCATTTTGGTCCAACCAAGAATTAAAATTTCAATTTAAGACTTTT
131 CGGTAAATGGAAAATTTGCATTTTGGCCCAACCAAGAATTAAAATTTCAATTTAAGACTTTT
103299152 AAC
1 AAC
103299155 GCAAAATTCA
Statistics
Matches: 186, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
192 8 0.04
194 29 0.16
195 149 0.80
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (192 bp):
AACAGCTGCAAAAAAATTATCCAAAACAACAAAGAATCAAAGTCCATCCAAACAAAATATCTACT
TTGACATTAAGGATACATAGCAATAGCATACAAACAGGGGTGAAACCAAGGGACAGGCAGGCCTT
CGGTAAATGGAAAATTTGCATTTTGGCCCAACCAAGAATTAAAATTTCAATTTAAGACTTTT
Found at i:103300165 original size:31 final size:31
Alignment explanation
Indices: 103300130--103300192 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
103300120 TTATCATCCT
**
103300130 AGTAACTTAAATAAAAACTTTTGAATAGTTC
1 AGTAACTTAAATAAAAACTTTCAAATAGTTC
**
103300161 AGTAACTTAAATGGAAACTTTCAAATAGTTC
1 AGTAACTTAAATAAAAACTTTCAAATAGTTC
103300192 A
1 A
103300193 TTTTGTAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (31 bp):
AGTAACTTAAATAAAAACTTTCAAATAGTTC
Done.