Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 17 of 221
Found at i:5079020 original size:22 final size:22
Alignment explanation
Indices: 5078990--5079031 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5078980 ATTTGGAGAT
*
5078990 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
5079012 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
5079032 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:5079052 original size:52 final size:51
Alignment explanation
Indices: 5078981--5079083 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
5078971 TTAATATGGA
* * *
5078981 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
5079032 TTTGAGAGAATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
5079084 AAATTTTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:5079058 original size:22 final size:23
Alignment explanation
Indices: 5079033--5079124 Score: 111
Period size: 22 Copynumber: 4.2 Consensus size: 23
5079023 ATTTGAGAGT
5079033 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
5079055 TTGATAGAAATTTT-GAAGGGAA
1 TTGAGAGAAATTTTGGAAGGAAA
*
5079077 TTGAGAGAAATTTTGAAAGG-AA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
5079099 TTGAGAG-AATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
5079121 TTGA
1 TTGA
5079125 TATTGAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
21 9 0.15
22 41 0.68
23 10 0.17
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (23 bp):
TTGAGAGAAATTTTGGAAGGAAA
Found at i:5079082 original size:44 final size:44
Alignment explanation
Indices: 5079033--5079124 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
5079023 ATTTGAGAGT
* * * *
5079033 TTGAGAG-AATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAA
1 TTGAGAGAAATTTTGAAAGG-AATTGAGAGAAATTTTGAAAGAAA
*
5079077 TTGAGAGAAATTTTGAAAGGAATTGAGAGAATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGAAAGGAATTGAGAGAAATTTTGAAAGAAA
5079121 TTGA
1 TTGA
5079125 TATTGAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 31 0.74
45 11 0.26
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (44 bp):
TTGAGAGAAATTTTGAAAGGAATTGAGAGAAATTTTGAAAGAAA
Found at i:5082206 original size:101 final size:101
Alignment explanation
Indices: 5082018--5082219 Score: 395
Period size: 101 Copynumber: 2.0 Consensus size: 101
5082008 TACATCATTA
*
5082018 AAAACTAAAATTAATTATAAATTAAATTTTTCAAAAAGAGTTCGATTATTTTTTAATAGAAATGC
1 AAAACTAAAATTAATTATAAATTAAATTTTTCAAAAAGAGTTCGATTATTTTTTAATAGAAATAC
5082083 TAACTAAAATATTTATTTTTTAATGATATTGACTTG
66 TAACTAAAATATTTATTTTTTAATGATATTGACTTG
5082119 AAAACTAAAATTAATTATAAATTAAATTTTTCAAAAAGAGTTCGATTATTTTTTAATAGAAATAC
1 AAAACTAAAATTAATTATAAATTAAATTTTTCAAAAAGAGTTCGATTATTTTTTAATAGAAATAC
5082184 TAACTAAAATATTTATTTTTTAATGATATTGACTTG
66 TAACTAAAATATTTATTTTTTAATGATATTGACTTG
5082220 GTAACTTGCA
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (101 bp):
AAAACTAAAATTAATTATAAATTAAATTTTTCAAAAAGAGTTCGATTATTTTTTAATAGAAATAC
TAACTAAAATATTTATTTTTTAATGATATTGACTTG
Found at i:5082335 original size:17 final size:18
Alignment explanation
Indices: 5082297--5082338 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
5082287 CTATGCCAAC
5082297 AAATAATTTAAAAATTATAA
1 AAAT-ATTTAAAAA-TATAA
5082317 AAATATTTAAAAA-ATAA
1 AAATATTTAAAAATATAA
5082334 AAATA
1 AAATA
5082339 AATTCAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
19 9 0.41
20 4 0.18
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATATTTAAAAATATAA
Found at i:5085528 original size:30 final size:30
Alignment explanation
Indices: 5085472--5085529 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
5085462 CAACACAAAG
* *
5085472 TAAAATTATGATAACAATAAATAAAATAAA
1 TAAAACTATGATAAAAATAAATAAAATAAA
*
5085502 TAAAACTAT-ATAAAAATATATGAAAATA
1 TAAAACTATGATAAAAATAAAT-AAAATA
5085530 TACGTATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (30 bp):
TAAAACTATGATAAAAATAAATAAAATAAA
Found at i:5085686 original size:26 final size:26
Alignment explanation
Indices: 5085625--5085687 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
5085615 AGTTTTTTTT
*
5085625 TTTAAAATATA-AAAATTTGTATATA
1 TTTAAAATATAGAAAATATGTATATA
* *
5085650 -TAAAAATTATAGAATATATGTATATA
1 TTTAAAA-TATAGAAAATATGTATATA
5085676 TTTAAAATATAG
1 TTTAAAATATAG
5085688 GTATGCGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
24 5 0.16
25 4 0.13
26 17 0.55
27 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.41
Consensus pattern (26 bp):
TTTAAAATATAGAAAATATGTATATA
Found at i:5086696 original size:12 final size:12
Alignment explanation
Indices: 5086679--5086711 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5086669 CGTTTGTAAG
5086679 GAAAATAAAAAT
1 GAAAATAAAAAT
5086691 GAAAATAAAAAT
1 GAAAATAAAAAT
5086703 -AAAGATAAA
1 GAAA-ATAAA
5086712 TAACGAAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.15
12 17 0.85
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (12 bp):
GAAAATAAAAAT
Found at i:5087862 original size:19 final size:19
Alignment explanation
Indices: 5087833--5087886 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
5087823 ATTTTACAAC
* *
5087833 TTTTTAGAAAATGAAAATTA
1 TTTTTA-AAAATCAAAAATA
*
5087853 TTTTTAAAAAACAAAAATA
1 TTTTTAAAAATCAAAAATA
*
5087872 TTTTTCAAAATCAAA
1 TTTTTAAAAATCAAA
5087887 GGAAGGATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (19 bp):
TTTTTAAAAATCAAAAATA
Found at i:5089195 original size:10 final size:10
Alignment explanation
Indices: 5089161--5089195 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
5089151 AAATGGCATG
5089161 AAAATAAATA
1 AAAATAAATA
**
5089171 AAACGAAATA
1 AAAATAAATA
5089181 AAAATAAATA
1 AAAATAAATA
5089191 AAAAT
1 AAAAT
5089196 TATACAAGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (10 bp):
AAAATAAATA
Found at i:5089981 original size:20 final size:21
Alignment explanation
Indices: 5089956--5090000 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
5089946 GTAGTTGAAA
5089956 AAAAAATCAAAACTTTT-TTT
1 AAAAAATCAAAACTTTTCTTT
**
5089976 AAAAAATTTAAACTTTTCTTT
1 AAAAAATCAAAACTTTTCTTT
5089997 AAAA
1 AAAA
5090001 TAACTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAAATCAAAACTTTTCTTT
Found at i:5090023 original size:152 final size:151
Alignment explanation
Indices: 5089745--5090195 Score: 555
Period size: 151 Copynumber: 3.0 Consensus size: 151
5089735 AAAATTAAAG
* * * * *
5089745 TTTTATTTAGAAAAAATCATTAATTTTCTTAAAAATCAAAATTTTATTTCGAAATAGTT--AAAA
1 TTTT-TTTA-AAAAAAACACTATTTTTCTTAAAAATTAAAATTTTATTTTGAAATAGTTGAAAAA
* * * * *
5089808 AAATCAAAAATTTATTTTAAAATTTTAAACTTTCCTCTAAAATGACT-TAAAAACATATTTTTAT
64 AAATCAAAACTTTATTTTAAAATTTTAAACTTTTCTTTAAAATAACTAAAAAAACATATTTTTAT
5089872 TTTTCAAAATCTAAATTTTCTCC
129 TTTTCAAAATCTAAATTTTCTCC
*
5089895 -TTTTTTAAAAAAAACACTATTTTTCTTAAAAATTAAAATTTTTATTTTGAAGTAGTTGAAAAAA
1 TTTTTTTAAAAAAAACACTATTTTTCTTAAAAATTAAAA-TTTTATTTTGAAATAGTTG-AAAAA
*
5089959 AAATCAAAACTTT-TTTTAAAAAATTTAAACTTTTCTTTAAAATAACTAAAAAAACATATTTTTA
64 AAATCAAAACTTTATTTT-AAAATTTTAAACTTTTCTTTAAAATAACTAAAAAAACATATTTTTA
* *
5090023 TTTTTCAAAATATAAA--CTCTCC
128 TTTTTCAAAATCTAAATTTTCTCC
* * *
5090045 TTTTTGTTAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTACTTTGAAAT-GATTGAAAA
1 TTTTT-TTAAAAAAAACACTATTTTTCTTAAAAATTAAA-ATTTTATTTTGAAATAG-TTGAAAA
* *
5090109 AAAATCAAAACTTTATTTTAAAATTTTAAAC-TTTCTTTTAAAATAACTAAAAAAA-AGGAATTT
63 AAAATCAAAACTTTATTTTAAAATTTTAAACTTTTC-TTTAAAATAACTAAAAAAACA-TATTTT
5090172 TATTTGTT-AAAATCTAAATTTTCT
126 TATTT-TTCAAAATCTAAATTTTCT
5090196 ATTTTGCAGA
Statistics
Matches: 262, Mismatches: 23, Indels: 29
0.83 0.07 0.09
Matches are distributed among these distances:
147 27 0.10
148 20 0.08
149 3 0.01
150 14 0.05
151 112 0.43
152 83 0.32
153 3 0.01
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (151 bp):
TTTTTTTAAAAAAAACACTATTTTTCTTAAAAATTAAAATTTTATTTTGAAATAGTTGAAAAAAA
ATCAAAACTTTATTTTAAAATTTTAAACTTTTCTTTAAAATAACTAAAAAAACATATTTTTATTT
TTCAAAATCTAAATTTTCTCC
Found at i:5094943 original size:131 final size:120
Alignment explanation
Indices: 5094687--5095034 Score: 334
Period size: 122 Copynumber: 2.8 Consensus size: 120
5094677 TTAAGAATCC
* * *
5094687 TTTTTGCCAAAGGTA-TTAAGTGTTCTAATATATATCTATCACTACAAATAACCATTCAATTAAA
1 TTTTTGCCAAAGGTATTTAAGAGTTCTAATAAATATCTATCACTACAAATAACCATTCAATAAAA
* * * *
5094751 AAAATCAGTTTTTTAATCAGTT--TTTAGTTT-TAATTTATTTATAAAATCTCTAAGTTTTTTTT
66 AAAATCA-CTTTTTAGT--TTTAATTTA-TTTATAATCTATTTATAAAATCTCT-AG-----TTT
* *
5094813 TCCCCTTTTGCCAAAAGTATTTAAGAGTTTTAATAAATATCTATCACTACAAATAACCATTCAAT
1 T----TTTTGCCAAAGGTATTTAAGAGTTCTAATAAATATCTATCACTACAAATAACCATTCAAT
* * *
5094878 GCAAAAAAATCACTTTTTAGTTTTAATTTATTTATAAAATCT-TTTATAAGAT-TCT-TTTT
62 -AAAAAAAATCACTTTTTAGTTTTAATTTATTTAT--AATCTATTTATAAAATCTCTAGTTT
5094937 CCTTTTTGCCAAAGGTATTTAAGAGTTGC-AATAAATATCTATCACTACAAATAACCATTCAATT
1 --TTTTTGCCAAAGGTATTTAAGAGTT-CTAATAAATATCTATCACTACAAATAACCATTCAA-T
*
5095001 AAAAAAAATCACTTTTTAGTTTTAATTTTTTTAT
62 AAAAAAAATCACTTTTTAGTTTTAATTTATTTAT
5095035 GAATAATAAA
Statistics
Matches: 192, Mismatches: 15, Indels: 34
0.80 0.06 0.14
Matches are distributed among these distances:
122 88 0.46
123 1 0.01
124 3 0.02
126 2 0.01
129 2 0.01
130 16 0.08
131 57 0.30
132 19 0.10
133 4 0.02
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (120 bp):
TTTTTGCCAAAGGTATTTAAGAGTTCTAATAAATATCTATCACTACAAATAACCATTCAATAAAA
AAAATCACTTTTTAGTTTTAATTTATTTATAATCTATTTATAAAATCTCTAGTTT
Found at i:5094980 original size:122 final size:120
Alignment explanation
Indices: 5094765--5095034 Score: 407
Period size: 122 Copynumber: 2.2 Consensus size: 120
5094755 TCAGTTTTTT
* * * *
5094765 AATCAGTTTTTAGTTTTAATTTATTTATAAAATCTCTAAGTTTTTTTTTCCCCTTTTGCCAAAAG
1 AATCACTTTTTAGTTTTAATTTATTTATAAAATCTATAAGATTCTTTTTCCCCTTTTGCCAAAAG
** *
5094830 TATTTAAGAGTTTTAATAAATATCTATCACTACAAATAACCATTCAATGCAAAAA
66 TATTTAAGAGTTGCAATAAATATCTATCACTACAAATAACCATTCAATGAAAAAA
*
5094885 AATCACTTTTTAGTTTTAATTTATTTATAAAATCTTTTATAAGATTCTTTTT-CCTTTTTGCCAA
1 AATCACTTTTTAGTTTTAATTTATTTATAAAATC---TATAAGATTCTTTTTCCCCTTTTGCCAA
* *
5094949 AGGTATTTAAGAGTTGCAATAAATATCTATCACTACAAATAACCATTCAATTAAAAAA
63 AAGTATTTAAGAGTTGCAATAAATATCTATCACTACAAATAACCATTCAATGAAAAAA
*
5095007 AATCACTTTTTAGTTTTAATTTTTTTAT
1 AATCACTTTTTAGTTTTAATTTATTTAT
5095035 GAATAATAAA
Statistics
Matches: 136, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
120 33 0.24
122 91 0.67
123 12 0.09
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (120 bp):
AATCACTTTTTAGTTTTAATTTATTTATAAAATCTATAAGATTCTTTTTCCCCTTTTGCCAAAAG
TATTTAAGAGTTGCAATAAATATCTATCACTACAAATAACCATTCAATGAAAAAA
Found at i:5097067 original size:25 final size:25
Alignment explanation
Indices: 5097036--5097091 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
5097026 TATATTTTTT
5097036 TATTTTTAAAAAAATTTTAAAATAC
1 TATTTTTAAAAAAATTTTAAAATAC
* * *
5097061 TTTTTTTAAAATATTTTTAAAATAC
1 TATTTTTAAAAAAATTTTAAAATAC
5097086 TATTTT
1 TATTTT
5097092 AATTTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (25 bp):
TATTTTTAAAAAAATTTTAAAATAC
Found at i:5097069 original size:14 final size:14
Alignment explanation
Indices: 5097050--5097091 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 14
5097040 TTTAAAAAAA
5097050 TTTTAAAATACTTT
1 TTTTAAAATACTTT
5097064 TTTTAAAATA---T
1 TTTTAAAATACTTT
5097075 TTTTAAAATACTATT
1 TTTTAAAATACT-TT
5097090 TT
1 TT
5097092 AATTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 11 0.46
14 10 0.42
15 3 0.12
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTAAAATACTTT
Found at i:5097077 original size:13 final size:13
Alignment explanation
Indices: 5097050--5097111 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 13
5097040 TTTAAAAAAA
5097050 TTTTAAAATACTTT
1 TTTTAAAATA-TTT
5097064 TTTTAAAATA--T
1 TTTTAAAATATTT
* *
5097075 TTTTAAAATACTA
1 TTTTAAAATATTT
*
5097088 TTTT--AATTTTT
1 TTTTAAAATATTT
5097099 TTTTAAAAT-TTT
1 TTTTAAAATATTT
5097111 T
1 T
5097112 GTGTTTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
11 19 0.47
12 4 0.10
13 7 0.17
14 10 0.25
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTTAAAATATTT
Found at i:5097092 original size:24 final size:25
Alignment explanation
Indices: 5097039--5097107 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
5097029 ATTTTTTTAT
* * *
5097039 TTTTAAAAAAATTTTAAAATACTTT
1 TTTTAAAATATTTTTAAAATACTTA
5097064 TTTTAAAATATTTTTAAAATAC-TA
1 TTTTAAAATATTTTTAAAATACTTA
** *
5097088 TTTTAATTTTTTTTTAAAAT
1 TTTTAAAATATTTTTAAAAT
5097108 TTTTGTGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
24 18 0.47
25 20 0.53
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTTAAAATATTTTTAAAATACTTA
Found at i:5099730 original size:30 final size:29
Alignment explanation
Indices: 5099675--5099743 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 29
5099665 ACTTCTAAAA
5099675 AAATC-ATTAACCAACATTCAACCGAATT
1 AAATCGATTAACCAACATTCAACCGAATT
*
5099703 AGATCGATTAACCAACCAATT-AACCGAATT
1 AAATCGATTAACCAA-C-ATTCAACCGAATT
5099733 AAATCGATTAA
1 AAATCGATTAA
5099744 TTCAGTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 4 0.11
29 9 0.25
30 20 0.56
31 3 0.08
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (29 bp):
AAATCGATTAACCAACATTCAACCGAATT
Found at i:5104651 original size:105 final size:108
Alignment explanation
Indices: 5104453--5104651 Score: 269
Period size: 105 Copynumber: 1.9 Consensus size: 108
5104443 ATAATAAAGG
* * * * *
5104453 CAATGTTTTGCGTTTGGAGATTCGAGAAAAAGTGCCCTAATGTGCTGGGTTTCGATTTTTCTTGT
1 CAATATTTTGCATTTGGAAATTCGAGAAAAAGTGCCCTAATGTGCTGGGTTTCGATATTTCTCGT
* *
5104518 TCGACCAAATAGCCAAATATCCTTTTAAAATTTCGAAGTAAGA
66 TCAACCAAATAGCCAAATATCCTCTTAAAATTTCGAAGTAAGA
* *
5104561 CAATATTTTGCATTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTTC-A-ATTTCTCGT
1 CAATATTTTGCATTTGGAAATTCGAGAAAAAGTGCCCTAATGTGCTGGGTTTCGATATTTCTCGT
* * *
5104623 TTAACCAAATTGCCGAATATCCTCTTAAA
66 TCAACCAAATAGCCAAATATCCTCTTAAA
5104652 TTTTTTAATC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
105 31 0.39
106 1 0.01
107 24 0.30
108 23 0.29
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (108 bp):
CAATATTTTGCATTTGGAAATTCGAGAAAAAGTGCCCTAATGTGCTGGGTTTCGATATTTCTCGT
TCAACCAAATAGCCAAATATCCTCTTAAAATTTCGAAGTAAGA
Found at i:5105413 original size:18 final size:18
Alignment explanation
Indices: 5105389--5105432 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
5105379 AAAAATTGTG
5105389 ATAATTATACATTTAAAAT
1 ATAATTATA-ATTTAAAAT
* *
5105408 -TAATTAGAATTTAAATT
1 ATAATTATAATTTAAAAT
5105425 ATAATTAT
1 ATAATTAT
5105433 TGGTTGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATAATTATAATTTAAAAT
Found at i:5105652 original size:22 final size:24
Alignment explanation
Indices: 5105602--5105653 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
5105592 TTGTACGTTG
*
5105602 AATATATTAAAAATATTTTAATTAT
1 AATAT-TTAAAAATATTGTAATTAT
5105627 --TATTTAAAAA-ATTGT-ATTAT
1 AATATTTAAAAATATTGTAATTAT
5105647 AATATTT
1 AATATTT
5105654 GAATTGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
20 5 0.21
21 4 0.17
22 12 0.50
23 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
AATATTTAAAAATATTGTAATTAT
Found at i:5112080 original size:34 final size:34
Alignment explanation
Indices: 5112034--5112103 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
5112024 TTGTTTTCTT
* **
5112034 TTTTTTTTACTATTTTGTTGTTATTTTGTTGTTA
1 TTTTTTTCACTATTTTGTTACTATTTTGTTGTTA
5112068 TTTTTTTCACTATTTTGTTACTATTTTGTTGTTA
1 TTTTTTTCACTATTTTGTTACTATTTTGTTGTTA
5112102 TT
1 TT
5112104 GTTTGGATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.13, C:0.06, G:0.10, T:0.71
Consensus pattern (34 bp):
TTTTTTTCACTATTTTGTTACTATTTTGTTGTTA
Found at i:5112081 original size:12 final size:11
Alignment explanation
Indices: 5112035--5112097 Score: 63
Period size: 11 Copynumber: 5.6 Consensus size: 11
5112025 TGTTTTCTTT
*
5112035 TTTTTTTACTA
1 TTTTGTTACTA
**
5112046 TTTTGTTGTTA
1 TTTTGTTACTA
**
5112057 TTTTGTTGTTA
1 TTTTGTTACTA
*
5112068 TTTTTTTCACTA
1 TTTTGTT-ACTA
5112080 TTTTGTTACTA
1 TTTTGTTACTA
5112091 TTTTGTT
1 TTTTGTT
5112098 GTTATTGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
11 36 0.82
12 8 0.18
ACGTcount: A:0.13, C:0.06, G:0.10, T:0.71
Consensus pattern (11 bp):
TTTTGTTACTA
Found at i:5112103 original size:11 final size:11
Alignment explanation
Indices: 5112044--5112103 Score: 66
Period size: 11 Copynumber: 5.4 Consensus size: 11
5112034 TTTTTTTTAC
5112044 TATTTTGTTGT
1 TATTTTGTTGT
5112055 TATTTTGTTGT
1 TATTTTGTTGT
* **
5112066 TATTTTTTTCAC
1 TATTTTGTT-GT
**
5112078 TATTTTGTTAC
1 TATTTTGTTGT
5112089 TATTTTGTTGT
1 TATTTTGTTGT
5112100 TATT
1 TATT
5112104 GTTTGGATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
11 34 0.81
12 8 0.19
ACGTcount: A:0.13, C:0.05, G:0.12, T:0.70
Consensus pattern (11 bp):
TATTTTGTTGT
Found at i:5113501 original size:39 final size:40
Alignment explanation
Indices: 5113457--5113538 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
5113447 CCATTTTTAG
5113457 ATAGTTGGCCATA-TTTTTTTTAACTTTTTAAAAAATATT
1 ATAGTTGGCCATATTTTTTTTTAACTTTTTAAAAAATATT
5113496 ATAGTTGGCCATATTTTTTTTTAACTTTTTAAAAAATATT
1 ATAGTTGGCCATATTTTTTTTTAACTTTTTAAAAAATATT
5113536 ATA
1 ATA
5113539 TTTTTTTAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 13 0.31
40 29 0.69
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (40 bp):
ATAGTTGGCCATATTTTTTTTTAACTTTTTAAAAAATATT
Found at i:5118303 original size:31 final size:29
Alignment explanation
Indices: 5118267--5118338 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
5118257 AACGGCTCAA
5118267 TGACTAAAATGTTACAACACGTT-AACGTAAG
1 TGACTAAAATGTT--AACA-GTTAAACGTAAG
*
5118298 TGACTAAAATG-TAACATTTCAAACGTAAG
1 TGACTAAAATGTTAACAGTT-AAACGTAAG
5118327 TGACTAAAATGT
1 TGACTAAAATGT
5118339 AACTTGAAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
27 2 0.05
28 4 0.11
29 19 0.51
30 1 0.03
31 11 0.30
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (29 bp):
TGACTAAAATGTTAACAGTTAAACGTAAG
Found at i:5125625 original size:28 final size:29
Alignment explanation
Indices: 5125594--5125658 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
5125584 TCATTTAATC
*
5125594 AATAAATATAAT-TTTTAA-AAATTATAAA
1 AATAAATAT-ATGATTTAATAAATTATAAA
* *
5125622 AATATATATATGATTTAATAAATTTTAAA
1 AATAAATATATGATTTAATAAATTATAAA
5125651 AATAAATA
1 AATAAATA
5125659 CGTAATATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 2 0.06
28 13 0.42
29 16 0.52
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (29 bp):
AATAAATATATGATTTAATAAATTATAAA
Found at i:5125910 original size:19 final size:19
Alignment explanation
Indices: 5125886--5125925 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
5125876 TCTTGTTGTT
*
5125886 TTTCACTATTTTGTTACTA
1 TTTCACTATTGTGTTACTA
*
5125905 TTTCACTATTGTGTTGCTA
1 TTTCACTATTGTGTTACTA
5125924 TT
1 TT
5125926 ATTTTGTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.15, G:0.10, T:0.57
Consensus pattern (19 bp):
TTTCACTATTGTGTTACTA
Found at i:5131429 original size:17 final size:17
Alignment explanation
Indices: 5131407--5131439 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
5131397 AGTGCAGAGC
5131407 TTCATTGAATAATTGAT
1 TTCATTGAATAATTGAT
5131424 TTCATTGAATAATTGA
1 TTCATTGAATAATTGA
5131440 GTGTTGGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TTCATTGAATAATTGAT
Found at i:5134274 original size:28 final size:26
Alignment explanation
Indices: 5134218--5134268 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
5134208 ATAAAATTAT
5134218 TAAATATTAAAATAAAATAAAAAAAA
1 TAAATATTAAAATAAAATAAAAAAAA
*
5134244 TAAATATTTTAAA-AAAATAAAAAAA
1 TAAATA-TTAAAATAAAATAAAAAAA
5134269 TAATAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (26 bp):
TAAATATTAAAATAAAATAAAAAAAA
Found at i:5138190 original size:38 final size:38
Alignment explanation
Indices: 5138148--5138241 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 38
5138138 GTATGAGAAA
* *
5138148 ATGCCTACTATTCTGTATTTACTAATTGCATG-TAAAGC
1 ATGCC-ACTATTCTGTATTTACTAATCGCATGTTAAAAC
* * * *
5138186 ATGCCACTGTTACTG-AATTACTGATCGTATGTTAAAAC
1 ATGCCACTATT-CTGTATTTACTAATCGCATGTTAAAAC
5138224 ATGCCACTATTCTGTATT
1 ATGCCACTATTCTGTATT
5138242 GTACCTATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
37 20 0.44
38 25 0.56
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (38 bp):
ATGCCACTATTCTGTATTTACTAATCGCATGTTAAAAC
Found at i:5146958 original size:24 final size:24
Alignment explanation
Indices: 5146931--5146977 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
5146921 TATAAACATA
* *
5146931 CCAATATTCAAATTTAAAAATTAC
1 CCAATAGTCAAATGTAAAAATTAC
*
5146955 CCAATAGTCAAATGTCAAAATTA
1 CCAATAGTCAAATGTAAAAATTA
5146978 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (24 bp):
CCAATAGTCAAATGTAAAAATTAC
Found at i:5155167 original size:13 final size:12
Alignment explanation
Indices: 5155149--5155182 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
5155139 TGGGGTTCAT
5155149 GGTTTATGGTTTG
1 GGTTTA-GGTTTG
5155162 GGTTTAGGTTTTG
1 GGTTTAGG-TTTG
5155175 GGTTTAGG
1 GGTTTAGG
5155183 GTTCAAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 2 0.10
13 18 0.90
ACGTcount: A:0.09, C:0.00, G:0.41, T:0.50
Consensus pattern (12 bp):
GGTTTAGGTTTG
Found at i:5165030 original size:24 final size:24
Alignment explanation
Indices: 5165010--5165056 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
5165000 GACACCTTGC
5165010 ACCCAATTTAGAAACATACCTCTAG
1 ACCCAATTTAGAAACATACCT-TAG
5165035 ACCCAATTTAGAAACATACCTT
1 ACCCAATTTAGAAACATACCTT
5165057 TATTTATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.40, C:0.28, G:0.06, T:0.26
Consensus pattern (24 bp):
ACCCAATTTAGAAACATACCTTAG
Found at i:5172694 original size:57 final size:57
Alignment explanation
Indices: 5172606--5172721 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
5172596 TTTCTTAAAG
*
5172606 TTGACTTTGTGGATAGCTTTAAGATCAACAGTTTACTTTTGAAAATGGCACAATCTA
1 TTGACTTTGTGGATAGCTTTAAGATCAACAGTTTACTTTTGAAAAGGGCACAATCTA
5172663 TTGACTTTGTGGATAGCTTTAAGATCAACAGTTTACTTTTGAAAAGGGCACAATCTA
1 TTGACTTTGTGGATAGCTTTAAGATCAACAGTTTACTTTTGAAAAGGGCACAATCTA
5172720 TT
1 TT
5172722 TATTTATTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (57 bp):
TTGACTTTGTGGATAGCTTTAAGATCAACAGTTTACTTTTGAAAAGGGCACAATCTA
Found at i:5182686 original size:471 final size:471
Alignment explanation
Indices: 5181804--5182762 Score: 1891
Period size: 471 Copynumber: 2.0 Consensus size: 471
5181794 AAAATCAAAT
5181804 ATCGTACACATATATCCAACACATATATCACCACATACTAATTCATCCAACTATTATCATTACTC
1 ATCGTACACATATATCCAACACATATATCACCACATACTAATTCATCCAACTATTATCATTACTC
5181869 AAAATTATACATAACATATATTGAAAATCAAATATTAATGGAGTTTGACTCTATTCACCACACCT
66 AAAATTATACATAACATATATTGAAAATCAAATATTAATGGAGTTTGACTCTATTCACCACACCT
5181934 ATATATATGTTACAAAAATCAAACTTTGAAATGATGAAAAAGCTACGAAATCAACAACGAGATAG
131 ATATATATGTTACAAAAATCAAACTTTGAAATGATGAAAAAGCTACGAAATCAACAACGAGATAG
5181999 TGTGAGCTTCTGGTTGATCTGCTAGACACGTTCCGCAAGTGAAGAATGCAAGGACAAAGAAAAAA
196 TGTGAGCTTCTGGTTGATCTGCTAGACACGTTCCGCAAGTGAAGAATGCAAGGACAAAGAAAAAA
5182064 ATGGTATAAGCATATTAAATGCTTAGTGAGTTCATAATAATTTCACTCCATTTACCTTAACATTA
261 ATGGTATAAGCATATTAAATGCTTAGTGAGTTCATAATAATTTCACTCCATTTACCTTAACATTA
5182129 CATTAATTTAAGTAATTGAAACACATTGGCATAAATATGGTGTTCCTTTGGCATCCTTGTACTTT
326 CATTAATTTAAGTAATTGAAACACATTGGCATAAATATGGTGTTCCTTTGGCATCCTTGTACTTT
5182194 CATATGCAATTCAACAATATAACCTATAGATTAGTTCTTTAACACAACAAGCTCATAGTGCTCAT
391 CATATGCAATTCAACAATATAACCTATAGATTAGTTCTTTAACACAACAAGCTCATAGTGCTCAT
5182259 TCCACATACATGTACA
456 TCCACATACATGTACA
5182275 ATCGTACACATATATCCAACACATATATCACCACATACTAATTCATCCAACTATTATCATTACTC
1 ATCGTACACATATATCCAACACATATATCACCACATACTAATTCATCCAACTATTATCATTACTC
5182340 AAAATTATACATAACATATATTGAAAATCAAATATTAATGGAGTTTGACTCTATTCACCACACCT
66 AAAATTATACATAACATATATTGAAAATCAAATATTAATGGAGTTTGACTCTATTCACCACACCT
5182405 ATATATATGTTACAAAAATCAAACTTTGAAATGATGAAAAAGCTACGAAATCAACAACGAGATAG
131 ATATATATGTTACAAAAATCAAACTTTGAAATGATGAAAAAGCTACGAAATCAACAACGAGATAG
5182470 TGTGAGCTTCTGGTTGATCTGCTAGACACGTTCCGCAAGTGAAGAATGCAAGGACAAAGAAAAAA
196 TGTGAGCTTCTGGTTGATCTGCTAGACACGTTCCGCAAGTGAAGAATGCAAGGACAAAGAAAAAA
5182535 ATGGTATAAGCATATTAAATGCTTAGTGAGTTCATAATAATTTCACTCCATTTACCTTAACATTA
261 ATGGTATAAGCATATTAAATGCTTAGTGAGTTCATAATAATTTCACTCCATTTACCTTAACATTA
5182600 CATTAATTTAAGTAATTGAAACACATTGGCATAAATATGGTGTTCCTTTGGCATCCTTGTACTTT
326 CATTAATTTAAGTAATTGAAACACATTGGCATAAATATGGTGTTCCTTTGGCATCCTTGTACTTT
5182665 CATATGCAATTCAACAATATAACCTATAGATTAGTTCTTTAACACAACAAGCTCATAGTGCTCAT
391 CATATGCAATTCAACAATATAACCTATAGATTAGTTCTTTAACACAACAAGCTCATAGTGCTCAT
5182730 TCCACATACATGTACA
456 TCCACATACATGTACA
* *
5182746 ATCATACCACTTATATC
1 ATCGTA-CACATATATC
5182763 ATATACTATT
Statistics
Matches: 485, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
471 476 0.98
472 9 0.02
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.31
Consensus pattern (471 bp):
ATCGTACACATATATCCAACACATATATCACCACATACTAATTCATCCAACTATTATCATTACTC
AAAATTATACATAACATATATTGAAAATCAAATATTAATGGAGTTTGACTCTATTCACCACACCT
ATATATATGTTACAAAAATCAAACTTTGAAATGATGAAAAAGCTACGAAATCAACAACGAGATAG
TGTGAGCTTCTGGTTGATCTGCTAGACACGTTCCGCAAGTGAAGAATGCAAGGACAAAGAAAAAA
ATGGTATAAGCATATTAAATGCTTAGTGAGTTCATAATAATTTCACTCCATTTACCTTAACATTA
CATTAATTTAAGTAATTGAAACACATTGGCATAAATATGGTGTTCCTTTGGCATCCTTGTACTTT
CATATGCAATTCAACAATATAACCTATAGATTAGTTCTTTAACACAACAAGCTCATAGTGCTCAT
TCCACATACATGTACA
Found at i:5182990 original size:25 final size:26
Alignment explanation
Indices: 5182926--5182996 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 26
5182916 CTGACATATT
*
5182926 TGGCTGCTCACACAAGCTTCATATCA
1 TGGCTACTCACACAAGCTTCATATCA
* * *
5182952 TGGTTACT-ATACAAGCTTTAT-TCGA
1 TGGCTACTCACACAAGCTTCATATC-A
5182977 T-GCTACTCACACAAGCTTCA
1 TGGCTACTCACACAAGCTTCA
5182997 AAGAATCCAC
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
24 7 0.19
25 23 0.64
26 6 0.17
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (26 bp):
TGGCTACTCACACAAGCTTCATATCA
Found at i:5183092 original size:72 final size:72
Alignment explanation
Indices: 5182971--5183175 Score: 266
Period size: 72 Copynumber: 2.8 Consensus size: 72
5182961 TACAAGCTTT
* * * *
5182971 ATTCGATGCTACTCACACAAGCTTCAAAGAATCCACAACACGTGTTGGATCTCAAGCCATCGATA
1 ATTCGATGCTACTCACACAAGCTTTAGAGAATCCATAACACATGTTGGATCTCAAGCCATCGATA
**
5183036 AAGGATA
66 AAAAATA
* *
5183043 ATTTGATGCTACTCACACAAGTTTTAGAGAATCCATAACACATGTTGGATCTCAAGCCATCGATA
1 ATTCGATGCTACTCACACAAGCTTTAGAGAATCCATAACACATGTTGGATCTCAAGCCATCGATA
*
5183108 AAAAATG
66 AAAAATA
* ** * ** *
5183115 ATTCAATGCTGTTCATACAAGCTTTAGAGAATCGGTAACACATGTTGGAACTCAAGCCATC
1 ATTCGATGCTACTCACACAAGCTTTAGAGAATCCATAACACATGTTGGATCTCAAGCCATC
5183176 AATCATTAAA
Statistics
Matches: 115, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 115 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (72 bp):
ATTCGATGCTACTCACACAAGCTTTAGAGAATCCATAACACATGTTGGATCTCAAGCCATCGATA
AAAAATA
Found at i:5184234 original size:15 final size:15
Alignment explanation
Indices: 5184211--5184247 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
5184201 GTTTAATAAC
*
5184211 TAATTAATTATAATT
1 TAATTAATTAAAATT
*
5184226 TATTTAATTAAAATT
1 TAATTAATTAAAATT
5184241 TAATTAA
1 TAATTAA
5184248 CATACTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATTAATTAAAATT
Found at i:5199852 original size:21 final size:19
Alignment explanation
Indices: 5199810--5199874 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
5199800 ATATATAATC
*
5199810 TTTATACTTTTTATACTTT
1 TTTATACTTTTTATAATTT
*
5199829 TTTATAGTTTTCTAATAATTT
1 TTTATACTTTT-T-ATAATTT
5199850 TTTATA-TTTTT-TGAATTT
1 TTTATACTTTTTAT-AATTT
5199868 CTTTATA
1 -TTTATA
5199875 TTTAAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 1 0.03
18 5 0.12
19 17 0.43
20 5 0.12
21 12 0.30
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTATACTTTTTATAATTT
Found at i:5199877 original size:10 final size:9
Alignment explanation
Indices: 5199810--5199877 Score: 57
Period size: 10 Copynumber: 7.0 Consensus size: 9
5199800 ATATATAATC
*
5199810 TTTATACTT
1 TTTATATTT
5199819 TTTATACTTT
1 TTTATA-TTT
5199829 TTTATAGTTT
1 TTTATA-TTT
*
5199839 TCTAATAATTT
1 T-TTAT-ATTT
5199850 TTTATATTT
1 TTTATATTT
5199859 TTTGA-ATTT
1 TTT-ATATTT
5199868 CTTTATATTT
1 -TTTATATTT
5199878 AAAAAATAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
9 18 0.37
10 23 0.47
11 7 0.14
12 1 0.02
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.68
Consensus pattern (9 bp):
TTTATATTT
Found at i:5200472 original size:13 final size:13
Alignment explanation
Indices: 5200454--5200478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5200444 TTTGGGGTCC
5200454 AACTTGGCACTTG
1 AACTTGGCACTTG
5200467 AACTTGGCACTT
1 AACTTGGCACTT
5200479 TTTCTTAATG
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:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
AACTTGGCACTTG
Found at i:5200482 original size:61 final size:61
Alignment explanation
Indices: 5200391--5200507 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
5200381 TTTTTTTTGC
* *
5200391 CCAATTTGGCACTTGAACTTGACAAATTTTCCTAATTTAGCACCTAAACTTTTTTTGGGGT
1 CCAACTTGGCACTTGAACTTGACAAATTTTCCTAATGTAGCACCTAAACTTTTTTTGGGGT
* ** * * * *
5200452 CCAACTTGGCACTTGAACTTGGCACTTTTTCTTAATGTAGTATCTAAGCTTTTTTT
1 CCAACTTGGCACTTGAACTTGACAAATTTTCCTAATGTAGCACCTAAACTTTTTTT
5200508 AATATATAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.42
Consensus pattern (61 bp):
CCAACTTGGCACTTGAACTTGACAAATTTTCCTAATGTAGCACCTAAACTTTTTTTGGGGT
Found at i:5201051 original size:15 final size:17
Alignment explanation
Indices: 5201031--5201062 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
5201021 TAAATTACTT
5201031 TTTGAA-ATAT-TTTTA
1 TTTGAACATATATTTTA
5201046 TTTGAACATATATTTTA
1 TTTGAACATATATTTTA
5201063 AAAATATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTGAACATATATTTTA
Found at i:5207155 original size:2 final size:2
Alignment explanation
Indices: 5207148--5207186 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
5207138 CATTTTAAAA
* *
5207148 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5207187 AAAAAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:5208833 original size:44 final size:43
Alignment explanation
Indices: 5208779--5208886 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 43
5208769 CACTCTACTA
* * * *
5208779 CAACTGTAGGGAGATAGGATTTGTTCATTCAGTCTGCCCCACTG
1 CAACTTTAGGGAGATAGGATTTCTT-ACTCAGTCTACCCCACTG
* * *
5208823 CAATTTTAGGG-GATAAGACTTTCTTACTCAGTCTACTCCACTG
1 CAACTTTAGGGAGATAGGA-TTTCTTACTCAGTCTACCCCACTG
*
5208866 CAACTTCAGGGAGATAGGATT
1 CAACTTTAGGGAGATAGGATT
5208887 ATTGGCTTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
43 32 0.62
44 20 0.38
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (43 bp):
CAACTTTAGGGAGATAGGATTTCTTACTCAGTCTACCCCACTG
Found at i:5209042 original size:50 final size:50
Alignment explanation
Indices: 5208985--5209145 Score: 142
Period size: 50 Copynumber: 3.2 Consensus size: 50
5208975 TCGTCATCGT
5208985 AGCTTCAATATGTTCCACTACACCGCTAGGGAAGTAAGATTCGCTGTTGC
1 AGCTTCAATATGTTCCACTACACCGCTAGGGAAGTAAGATTCGCTGTTGC
* * * ** * * ** * * ** * *
5209035 AGTTTCAATCTTTTTAATTGCAATGTTGGGGAAGCGAGATTCGCTGTCGT
1 AGCTTCAATATGTTCCACTACACCGCTAGGGAAGTAAGATTCGCTGTTGC
* * * *
5209085 AGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGATTCGCCGTTGC
1 AGCTTCAATATGTTCCACTACACCGCTAGGGAAGTAAGATTCGCTGTTGC
*
5209135 GGCTTCAATAT
1 AGCTTCAATAT
5209146 TTTTAATTAC
Statistics
Matches: 77, Mismatches: 34, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (50 bp):
AGCTTCAATATGTTCCACTACACCGCTAGGGAAGTAAGATTCGCTGTTGC
Found at i:5209075 original size:100 final size:98
Alignment explanation
Indices: 5208944--5209224 Score: 364
Period size: 100 Copynumber: 2.8 Consensus size: 98
5208934 CATCTTCAGC
* * *
5208944 CTTTTAAATTGCAATGTTGGGGGAACAAGATTCGTCATCGTAGCTTCAATATGTTCCACTACACC
1 CTTTTTAATTGCAATGTT-GGGGAACAAGATTCG-CGTCGTAGCTTCAATCTGTTCCACTACACC
* * *
5209009 GCTAGGGAAGTAAGATTCGCTGTTGCAGTTTCAAT
64 GCCAGGGAAGTAAGATTCGCCGTTGCAGCTTCAAT
*
5209044 CTTTTTAATTGCAATGTTGGGGAAGCGAGATTCGCTGTCGTAGCTTCAATCTGTTCCACTACACC
1 CTTTTTAATTGCAATGTTGGGGAA-CAAGATTCGC-GTCGTAGCTTCAATCTGTTCCACTACACC
* *
5209109 GCCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAAT
64 GCCAGGGAAGTAAGATTCGCCGTTGCAGCTTCAAT
* * * * *
5209144 ATTTTTAATTACAATGTTGGGGAAACAAGATTTGCCGTCGTAGCTTAAATCTGTTCCATTACACC
1 CTTTTTAATTGCAATGTTGGGG-AACAAGATTCG-CGTCGTAGCTTCAATCTGTTCCACTACACC
* *
5209209 GCCAGGGGAGCAAGAT
64 GCCAGGGAAGTAAGAT
5209225 CTACCGTCAT
Statistics
Matches: 159, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
99 7 0.04
100 149 0.94
101 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (98 bp):
CTTTTTAATTGCAATGTTGGGGAACAAGATTCGCGTCGTAGCTTCAATCTGTTCCACTACACCGC
CAGGGAAGTAAGATTCGCCGTTGCAGCTTCAAT
Found at i:5209540 original size:169 final size:169
Alignment explanation
Indices: 5209241--5209852 Score: 909
Period size: 169 Copynumber: 3.6 Consensus size: 169
5209231 TCATGGTTTC
* * * * * *
5209241 AATCTGCTCCACTGTAATACCAAAGAGATAGGATTCGCTGCCCACAGCATTAATCCGCTTCGCTT
1 AATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTT
* * * *
5209306 TAGCTACTTCAAGTCTTAACGCTAGGGAGATAAGATTCGCTGCCCTCAGTTTTAATCTGCTCCGC
66 CAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGC
* *
5209371 TGCAATGCTAGGGAAACAAGGTTCGCTACCTTTAGTTTT
131 TGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTT
* * *
5209410 AATCTGTTCCACTATAATTCCAAAGAGATAGGATTCGCTGCCCATAGCTTTAACCCGCTCCACTT
1 AATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTT
** * * * *
5209475 CAGCTATTTTGAGTCTTAACACCAGGGAGATAAGATTCGCTACCCTCAACTTTAATCTACTCCGC
66 CAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGC
5209540 TGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTT
131 TGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTT
*
5209579 AATCTGTTTCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTT
1 AATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTT
* * * * *
5209644 CAGCTAATCCAAGTCTTAACGCTAGGGAGATAAGATTCGTTGCCCTCAGCTTTAATCTGCTCCAC
66 CAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGC
* * *
5209709 TACAACGCTAGGGAAACAAGATTCACTACCTTTAGCTTT
131 TGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTT
* * *
5209748 AATCTGTTCCACTATAATGCCAAAGAGATAGGATTTGCTGTCCACAGCTTTAATCCGTTCCACTT
1 AATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTT
* *
5209813 CAGCTATTTCAAGTATTAATGCCAGGGAGATAAGATTCGC
66 CAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGC
5209853 CATCTTCAGC
Statistics
Matches: 395, Mismatches: 48, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
169 395 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (169 bp):
AATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTT
CAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGC
TGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTT
Found at i:5209717 original size:51 final size:51
Alignment explanation
Indices: 5209661--5209761 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
5209651 TCCAAGTCTT
* * ** *
5209661 AACGCTAGGGAGATAAGATTCGTTGCCCTCAGCTTTAATCTGCTCCACTAC
1 AACGCTAGGGAAACAAGATTCACTACCCTCAGCTTTAATCTGCTCCACTAC
* * *
5209712 AACGCTAGGGAAACAAGATTCACTACCTTTAGCTTTAATCTGTTCCACTA
1 AACGCTAGGGAAACAAGATTCACTACCCTCAGCTTTAATCTGCTCCACTA
5209762 TAATGCCAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (51 bp):
AACGCTAGGGAAACAAGATTCACTACCCTCAGCTTTAATCTGCTCCACTAC
Found at i:5210350 original size:87 final size:87
Alignment explanation
Indices: 5209988--5210765 Score: 780
Period size: 87 Copynumber: 9.0 Consensus size: 87
5209978 GATCTGCCAT
* * * *** * *
5209988 CTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGTAGTTCCTCGGTCTGCTCCGCTGCT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA-ATCTTCAACCTACTCCACTGCT
* *
5210053 GCTCATGGAGATAAGACCT---GA
65 GCTCAGGGAGATAAG-GCTGGGGA
* * * ** * * * * *
5210074 -TGCGATCTACTCTACTACACCTTTAGAGATATAAGATCTTTTATTTTCAACCTACTCCACTGCT
1 CTTCGATCTGCTCCACTACTGC-TTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCT
* * *
5210138 GCTCAGGGAGACAAGGCTAGGGT
65 GCTCAGGGAGATAAGGCTGGGGA
* * * * * *** ** * * *
5210161 CTTTGATCTGCTTCACTGTCAG-TACAAAAAGGCAAGATCTGTTATCTTTAACCTGCT-CAGCTG
1 CTTCGATCTGCTCCACT-ACTGCT-TAGGGAGATAAGATCTGTAATCTTCAACCTACTCCA-CTG
** * ** * * *
5210224 CCACTGAGGGAGGCAAGGCTAGTGT
63 CTGCTCAGGGAGATAAGGCTGGGGA
* * * *
5210249 CTTCGATCTACTCCACTACTGCGTAGGGAGATGAGATCTGTAATCTTCAACCTACTCCACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTG
* *
5210314 CTCAAGGAGATAAGGATGGGGA
66 CTCAGGGAGATAAGGCTGGGGA
* *
5210336 CTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTG
*
5210401 CTCAGGGAGAT-AGGCTGGGGT
66 CTCAGGGAGATAAGGCTGGGGA
* * *
5210422 TTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTACTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTG
* * * *
5210487 CTCAGGGAGACAATGTTGGGGT
66 CTCAGGGAGATAAGGCTGGGGA
* *
5210509 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTACTT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTG
* *
5210574 CTCAGGGAAATAAGGCTGGGGT
66 CTCAGGGAGATAAGGCTGGGGA
* * * * *
5210596 CTTCGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTACACTACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTG
*
5210661 CTCAGGGAGATAAGGCTAGGGA
66 CTCAGGGAGATAAGGCTGGGGA
* * * *
5210683 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACTCCACTACGG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTG
5210748 CTCAGGGAGAT-AGGCTGG
66 CTCAGGGAGATAAGGCTGG
5210766 AGTTTCATCG
Statistics
Matches: 566, Mismatches: 115, Indels: 22
0.81 0.16 0.03
Matches are distributed among these distances:
84 2 0.00
85 42 0.07
86 100 0.18
87 347 0.61
88 73 0.13
89 2 0.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTG
CTCAGGGAGATAAGGCTGGGGA
Found at i:5210461 original size:173 final size:173
Alignment explanation
Indices: 5210250--5210770 Score: 799
Period size: 173 Copynumber: 3.0 Consensus size: 173
5210240 GGCTAGTGTC
* * *
5210250 TTCGATCTACTCCACTACTGCGTAGGGAGATGAGATCTGTAATCTTCAACCTACTCCACTGTTGC
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTGC
* *
5210315 TCAAGGAGATAAGGATGGGGACTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
66 TCAGGGAGATAAGGATGGGGACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
*
5210380 TTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGCTGGGGTT
131 TTTCAACCTACTCCACTACTGCTCAGGGAGATAGGCTGGGGTT
* * *
5210423 TTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTACTGC
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTGC
* * * *
5210488 TCAGGGAGACAATGTTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
66 TCAGGGAGATAAGGATGGGGACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
* * * *
5210553 CTTCAACCTACTCCACTACTTCTCAGGGAAATAAGGCTGGGGTC
131 TTTCAACCTACTCCACTACTGCTCAGGGAGAT-AGGCTGGGGTT
* * * *
5210597 TTCGATCTACTCCGCTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTACACTACTGCTGC
1 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTGC
* *
5210662 TCAGGGAGATAAGGCTAGGGACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
66 TCAGGGAGATAAGGATGGGGACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
* * *
5210727 TTTTAACCTACTCCACTACGGCTCAGGGAGATAGGCTGGAGTT
131 TTTCAACCTACTCCACTACTGCTCAGGGAGATAGGCTGGGGTT
5210770 T
1 T
5210771 CATCGGTTTG
Statistics
Matches: 311, Mismatches: 36, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
173 156 0.50
174 155 0.50
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (173 bp):
TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTGC
TCAGGGAGATAAGGATGGGGACTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
TTTCAACCTACTCCACTACTGCTCAGGGAGATAGGCTGGGGTT
Found at i:5212035 original size:13 final size:13
Alignment explanation
Indices: 5212017--5212042 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5212007 TTAGCCTCTC
5212017 CATTTTCATTTTT
1 CATTTTCATTTTT
5212030 CATTTTCATTTTT
1 CATTTTCATTTTT
5212043 TTCATCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
CATTTTCATTTTT
Found at i:5223056 original size:26 final size:25
Alignment explanation
Indices: 5223010--5223072 Score: 58
Period size: 26 Copynumber: 2.5 Consensus size: 25
5223000 AAATTATACA
* *
5223010 AAAAGATAATTAGATGAATAATATCAT
1 AAAA-ATAATTAAATGAATAA-AACAT
5223037 AAAAATAATTAAAT-ACATAAAACAT
1 AAAAATAATTAAATGA-ATAAAACAT
*
5223062 -TAAATAATTAA
1 AAAAATAATTAA
5223073 CTGAGCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 10 0.31
25 5 0.16
26 13 0.41
27 4 0.12
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (25 bp):
AAAAATAATTAAATGAATAAAACAT
Found at i:5223702 original size:28 final size:29
Alignment explanation
Indices: 5223668--5223784 Score: 72
Period size: 28 Copynumber: 4.3 Consensus size: 29
5223658 ATTATTGAAA
5223668 TAATTTAAAATTATATATATGTTTAAAAG
1 TAATTTAAAATTATATATATGTTTAAAAG
* ** *
5223697 T-ATTT-AAATT-TGTA-ATGATTTTTAAT
1 TAATTTAAAATTATATATATG-TTTAAAAG
* * * * * *
5223723 TCAGTTGATATTAT-TAT-T-ATTGAAA-
1 TAATTTAAAATTATATATATGTTTAAAAG
5223748 TAATTTAAAATTATATATATGTTTAAAAG
1 TAATTTAAAATTATATATATGTTTAAAAG
5223777 T-ATTTAAA
1 TAATTTAAA
5223785 TTTGTAATTA
Statistics
Matches: 64, Mismatches: 15, Indels: 19
0.65 0.15 0.19
Matches are distributed among these distances:
25 13 0.20
26 16 0.25
27 9 0.14
28 23 0.36
29 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.49
Consensus pattern (29 bp):
TAATTTAAAATTATATATATGTTTAAAAG
Found at i:5223720 original size:80 final size:80
Alignment explanation
Indices: 5223625--5223792 Score: 329
Period size: 80 Copynumber: 2.1 Consensus size: 80
5223615 AAGTATGCAT
5223625 ATTTG-AATGATTTTTAATTCAGTTGATATTATTATTATTGAAATAATTTAAAATTATATATATG
1 ATTTGTAATGATTTTTAATTCAGTTGATATTATTATTATTGAAATAATTTAAAATTATATATATG
5223689 TTTAAAAGTATTTAA
66 TTTAAAAGTATTTAA
5223704 ATTTGTAATGATTTTTAATTCAGTTGATATTATTATTATTGAAATAATTTAAAATTATATATATG
1 ATTTGTAATGATTTTTAATTCAGTTGATATTATTATTATTGAAATAATTTAAAATTATATATATG
5223769 TTTAAAAGTATTTAA
66 TTTAAAAGTATTTAA
5223784 ATTTGTAAT
1 ATTTGTAAT
5223793 TATTGGTAAT
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 5 0.06
80 83 0.94
ACGTcount: A:0.40, C:0.01, G:0.09, T:0.50
Consensus pattern (80 bp):
ATTTGTAATGATTTTTAATTCAGTTGATATTATTATTATTGAAATAATTTAAAATTATATATATG
TTTAAAAGTATTTAA
Found at i:5225023 original size:37 final size:37
Alignment explanation
Indices: 5224969--5225043 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
5224959 AAGTTATTAA
*
5224969 ATTTTAATAAAAATATAAGAAATATTTATCTATTATT
1 ATTTTAATAAAAATATAACAAATATTTATCTATTATT
* * *
5225006 ATTTTAATAAAAGTATAACAAATATTTATTTTTTATT
1 ATTTTAATAAAAATATAACAAATATTTATCTATTATT
5225043 A
1 A
5225044 AAAAATAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (37 bp):
ATTTTAATAAAAATATAACAAATATTTATCTATTATT
Found at i:5225154 original size:49 final size:48
Alignment explanation
Indices: 5225063--5225175 Score: 115
Period size: 49 Copynumber: 2.3 Consensus size: 48
5225053 AAAAGATTAC
* * * *
5225063 AAAAATTGTAAAATTTTATAAAATTCTAAAAAAAATTATAAAATATAG-
1 AAAAATTATAAAATTTTATAAAAGTCTAAAAAAAATGATAAAAAAT-GT
*
5225111 AAAAATATATAAAATTTTAT-AAAGTCGT-AAGAAAATGATTAAAAAATGT
1 AAAAAT-TATAAAATTTTATAAAAGTC-TAAAAAAAATGA-TAAAAAATGT
5225160 AAAGAATTATAAAATT
1 AAA-AATTATAAAATT
5225176 CGTAAAAGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
48 20 0.36
49 32 0.58
50 3 0.05
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (48 bp):
AAAAATTATAAAATTTTATAAAAGTCTAAAAAAAATGATAAAAAATGT
Found at i:5225386 original size:18 final size:18
Alignment explanation
Indices: 5225340--5225387 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 18
5225330 TTTCTGATGC
5225340 ATTTTATAATTTTTTTATAAG
1 ATTTTAT-A-TTTTTTAT-AG
5225361 ATTTTATATTTTTTAT-G
1 ATTTTATATTTTTTATAG
5225378 ATTTATATAT
1 ATTT-TATAT
5225388 ATTTCTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 8 0.31
20 1 0.04
21 7 0.27
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (18 bp):
ATTTTATATTTTTTATAG
Found at i:5225415 original size:28 final size:27
Alignment explanation
Indices: 5225341--5225421 Score: 69
Period size: 28 Copynumber: 2.9 Consensus size: 27
5225331 TTCTGATGCA
*
5225341 TTTTATAATTTTTTTATAAGATTTTATATT
1 TTTTATAA-TTTTTTAT-ATATTTTATA-T
* *
5225371 TTTTATGA-TTTATATATATTTCTA-AT
1 TTTTATAATTTTTTATATATTT-TATAT
5225397 TTTTAATAATTTTTTATAT-TTTTAT
1 TTTT-ATAATTTTTTATATATTTTAT
5225422 TAAAGTTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
26 7 0.17
27 12 0.29
28 16 0.38
30 7 0.17
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTATAATTTTTTATATATTTTATAT
Found at i:5225450 original size:20 final size:19
Alignment explanation
Indices: 5225397--5225450 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 19
5225387 TATTTCTAAT
* * *
5225397 TTTTAATAATTTTTTATAT
1 TTTTATTAATTTTTAATAC
**
5225416 TTTTATTAAAGTTTAATCAC
1 TTTTATTAATTTTTAAT-AC
5225436 TTTTATTAATTTTTA
1 TTTTATTAATTTTTA
5225451 TTTTTCATAA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTATTAATTTTTAATAC
Found at i:5225696 original size:81 final size:81
Alignment explanation
Indices: 5225609--5225767 Score: 187
Period size: 81 Copynumber: 2.0 Consensus size: 81
5225599 AATTGCTCTC
* * * *
5225609 TTTTTTTTTGAAAACTTTTGAGGGT-CTTTTTAATGTATTTCGACAGT-TCAAGTACTCAATTGA
1 TTTTTTTTTGAAAA-GTTTGA-GGTCCTTTTTAATGCATTTCGA-AATATCAAGTACCCAATTGA
*
5225672 GTGTAAAAAAAAAGGTTAA
63 GTGCAAAAAAAAAGGTTAA
*** * *
5225691 TTTTTTTTTTTTAAGTTTGAGTTCCTTTTTAATGCATTTTGAAATATCAAGTACCCAATTGAGTG
1 TTTTTTTTTGAAAAGTTTGAGGTCCTTTTTAATGCATTTCGAAATATCAAGTACCCAATTGAGTG
5225756 CAAAAAAAAAGG
66 CAAAAAAAAAGG
5225768 AGTTTAATTG
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
80 4 0.06
81 50 0.77
82 11 0.17
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (81 bp):
TTTTTTTTTGAAAAGTTTGAGGTCCTTTTTAATGCATTTCGAAATATCAAGTACCCAATTGAGTG
CAAAAAAAAAGGTTAA
Found at i:5231561 original size:20 final size:20
Alignment explanation
Indices: 5231525--5231563 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5231515 ATTTTTTAAA
*
5231525 ATTAAAAAATTTTAAAAATT
1 ATTAAAAAATTTAAAAAATT
5231545 ATTAAAATAA-TTAAAAAAT
1 ATTAAAA-AATTTAAAAAAT
5231564 GTAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTAAAAAATTTAAAAAATT
Found at i:5234086 original size:25 final size:23
Alignment explanation
Indices: 5234058--5234135 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 23
5234048 CATATAAACA
5234058 GGAAGCTCATGCGAGCCATGTAACG
1 GGAAGCTCAT-CGAGCCAT-TAACG
*
5234083 GGAAGCTCCA-CAAAGCCATTAACG
1 GGAAGCT-CATC-GAGCCATTAACG
* *
5234107 GGAAGCTCATAAGAGCCAATAACG
1 GGAAGCTCAT-CGAGCCATTAACG
5234131 GGAAG
1 GGAAG
5234136 GTTCAAGCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
23 2 0.04
24 28 0.62
25 13 0.29
26 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.28, T:0.13
Consensus pattern (23 bp):
GGAAGCTCATCGAGCCATTAACG
Found at i:5234110 original size:24 final size:24
Alignment explanation
Indices: 5234070--5234135 Score: 89
Period size: 24 Copynumber: 2.7 Consensus size: 24
5234060 AAGCTCATGC
5234070 GAGCCATGTAACGGGAAGCTCCACAA
1 GAGCCAT-TAACGGGAAGCT-CACAA
*
5234096 -AGCCATTAACGGGAAGCTCATAA
1 GAGCCATTAACGGGAAGCTCACAA
*
5234119 GAGCCAATAACGGGAAG
1 GAGCCATTAACGGGAAG
5234136 GTTCAAGCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
23 4 0.11
24 27 0.73
25 6 0.16
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.12
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCACAA
Found at i:5234205 original size:27 final size:27
Alignment explanation
Indices: 5234182--5234243 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
5234172 AAATTAATTA
5234182 GGAAGCTCATGAAAGAGCCTTTAATCG
1 GGAAGCTCATGAAAGAGCCTTTAATCG
5234209 GGAAGCTCATGAAAGAGCCTTTAATCG
1 GGAAGCTCATGAAAGAGCCTTTAATCG
5234236 GGAAGCTC
1 GGAAGCTC
5234244 CGGAGATCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.21
Consensus pattern (27 bp):
GGAAGCTCATGAAAGAGCCTTTAATCG
Found at i:5234748 original size:11 final size:11
Alignment explanation
Indices: 5234732--5234759 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
5234722 TATTCGAATG
5234732 AATTTAACATA
1 AATTTAACATA
5234743 AATTTAACATA
1 AATTTAACATA
5234754 AATTTA
1 AATTTA
5234760 TATTCAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (11 bp):
AATTTAACATA
Found at i:5234951 original size:18 final size:19
Alignment explanation
Indices: 5234924--5234959 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5234914 CATGTATTTC
5234924 ATAAAATTTA-ATTTTTTT
1 ATAAAATTTACATTTTTTT
*
5234942 ATAAAGTTTACATTTTTT
1 ATAAAATTTACATTTTTT
5234960 CAATTTAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (19 bp):
ATAAAATTTACATTTTTTT
Found at i:5236564 original size:28 final size:27
Alignment explanation
Indices: 5236489--5236564 Score: 64
Period size: 30 Copynumber: 2.7 Consensus size: 27
5236479 TTTGTTACTA
* *
5236489 TTTTATT-ATTATGTTGCTATAATTTTG
1 TTTTATTGTTTATATTG-TATAATTTTG
*
5236516 TTGTTATTGTTAGGATATTGTATAACTTTTG
1 TT-TTATTGTT--TATATTGTATAA-TTTTG
*
5236547 TTTTATTGTTTATTTTGT
1 TTTTATTGTTTATATTGT
5236565 TACTATTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
27 2 0.05
28 11 0.28
29 1 0.03
30 13 0.33
31 12 0.31
ACGTcount: A:0.20, C:0.03, G:0.14, T:0.63
Consensus pattern (27 bp):
TTTTATTGTTTATATTGTATAATTTTG
Found at i:5239455 original size:66 final size:65
Alignment explanation
Indices: 5239363--5239494 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 65
5239353 CGTCTGGTGC
5239363 GGTGGCTACGACCGGGCCTTCACTAGACCCATGGCCGGATTGTTTTGGAGAGTGGGGAGGAAAGA
1 GGTGGCTACGACCGGGCCTTCACTAGACCCATGGCCGGATTGTTTTGGAGAGTGGGGAGGAAAGA
*
5239428 GGTGGCTACGACTGGAGCCTTCACTAGACCCATGGCCGGATTGTTTTGGAGAGTGGGGAGGAAAG
1 GGTGGCTACGACCGG-GCCTTCACTAGACCCATGGCCGGATTGTTTTGGAGAGTGGGGAGGAAAG
5239493 A
65 A
5239494 G
1 G
5239495 AGGATTTTTT
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 14 0.22
66 51 0.78
ACGTcount: A:0.22, C:0.19, G:0.39, T:0.20
Consensus pattern (65 bp):
GGTGGCTACGACCGGGCCTTCACTAGACCCATGGCCGGATTGTTTTGGAGAGTGGGGAGGAAAGA
Found at i:5240220 original size:69 final size:70
Alignment explanation
Indices: 5240126--5240269 Score: 163
Period size: 69 Copynumber: 2.1 Consensus size: 70
5240116 ACTATTACTA
* * *
5240126 TATTT-TATTTATATTTACTTATTT-AAATTTTAAATATATTTGTCTTATTATA-TATTATTATT
1 TATTTATATATATATTTACTTATTTAAAACTTTAAAT-TATTTG--TTATTATACTATTAATATT
5240188 -ATATAAT
63 AATATAAT
* * *
5240195 TATTTATATATATATTTTCTT-TTTAAAACTTTAGATTATTTGTTATTCTACTATTAATATTAAT
1 TATTTATATATATATTTACTTATTTAAAACTTTAAATTATTTGTTATTATACTATTAATATTAAT
*
5240259 ATTAT
66 ATAAT
5240264 TATTTA
1 TATTTA
5240270 CTTATTTATA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
67 7 0.11
68 9 0.14
69 26 0.41
70 22 0.34
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (70 bp):
TATTTATATATATATTTACTTATTTAAAACTTTAAATTATTTGTTATTATACTATTAATATTAAT
ATAAT
Found at i:5240878 original size:72 final size:72
Alignment explanation
Indices: 5240696--5240908 Score: 336
Period size: 72 Copynumber: 2.9 Consensus size: 72
5240686 TATTTTCAAA
* * *
5240696 CAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGTATGATCCCTT
1 CAAGTTTTAAACGATCTTGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC--
5240761 TTTTTTTCT
64 TTTTTTTCT
* *
5240770 CAAATTTTAAACGATCTTGGGAATTAAGAAACGATCGTGTCCTAACTTACTGGGCATGATCCCTT
1 CAAGTTTTAAACGATCTTGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCTT
5240835 TTTTTCT
66 TTTTTCT
* * *
5240842 CAAGTTTTAAATGATCTTGGGAATTAATAAAAGATCGTGTCCTAACTTACTGGGCATGATCCATT
1 CAAGTTTTAAACGATCTTGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCTT
5240907 TT
66 TT
5240909 CTAAAATCCG
Statistics
Matches: 129, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
72 71 0.55
74 58 0.45
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (72 bp):
CAAGTTTTAAACGATCTTGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCTT
TTTTTCT
Found at i:5250706 original size:46 final size:46
Alignment explanation
Indices: 5250629--5250813 Score: 273
Period size: 46 Copynumber: 4.0 Consensus size: 46
5250619 ACAAGGCTAT
5250629 AACTCAGTATGGTTTTCTTCA-CGAAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCG-AAATACCATACCTACTTTTCAC
* *
5250675 AACTCAGTATGGTTTTCTTTACCGAATTACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
** * *
5250721 AACTCAGTATGGTTTTCTTCATTGAAATATCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* * *
5250767 AACTCAGTATGGTTTTCTTCACTGGAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
5250813 A
1 A
5250814 CTTTGCCATG
Statistics
Matches: 125, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
46 123 0.98
47 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
Found at i:5252059 original size:17 final size:17
Alignment explanation
Indices: 5252037--5252085 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
5252027 TAAATTCTTT
5252037 TTAAATCACAAAATTCA
1 TTAAATCACAAAATTCA
5252054 TTAAATCACAAAATTCA
1 TTAAATCACAAAATTCA
* *
5252071 CTAATTCA-AAAATTC
1 TTAAATCACAAAATTC
5252086 TTCTAAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.23
17 23 0.77
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAATCACAAAATTCA
Found at i:5255420 original size:20 final size:20
Alignment explanation
Indices: 5255395--5255447 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
5255385 ATAAAATGAA
5255395 ATAAAATAATATATATAAAT
1 ATAAAATAATATATATAAAT
* *
5255415 ATAAAAGAA-ACTATATATAT
1 ATAAAATAATA-TATATAAAT
5255435 AT-AAAT-ATATATA
1 ATAAAATAATATATA
5255448 CATATACTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.18
19 5 0.18
20 18 0.64
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
ATAAAATAATATATATAAAT
Found at i:5255496 original size:16 final size:17
Alignment explanation
Indices: 5255475--5255510 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
5255465 AAGCACATAG
5255475 ATATTTATATATA-TAA
1 ATATTTATATATATTAA
5255491 ATATTTATATATATTAA
1 ATATTTATATATATTAA
5255508 ATA
1 ATA
5255511 GGTTAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTTATATATATTAA
Found at i:5255555 original size:3 final size:3
Alignment explanation
Indices: 5255547--5255617 Score: 74
Period size: 3 Copynumber: 23.3 Consensus size: 3
5255537 AAGCTATCAC
* * *
5255547 ATA ATA ATA ATG ATA AGTA ACA GTA AT- ATA CATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
5255593 GA-A ATA ATA ATA ATA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA ATA ATA A
5255618 ATGATAATAC
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
2 3 0.05
3 47 0.82
4 7 0.12
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:5255639 original size:19 final size:17
Alignment explanation
Indices: 5255578--5255640 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 17
5255568 AGTAATATAC
*
5255578 ATAATAATAATAATAGAA
1 ATAATGATAATAATA-AA
*
5255596 ATAATAATAATAATAATA
1 ATAATGATAATAATAA-A
5255614 ATAAATGATAATACATTAAA
1 AT-AATGATAATA-A-TAAA
5255634 ATAATGA
1 ATAATGA
5255641 AGAAGATAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
17 1 0.03
18 18 0.45
19 14 0.35
20 4 0.10
21 3 0.08
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (17 bp):
ATAATGATAATAATAAA
Found at i:5257199 original size:44 final size:44
Alignment explanation
Indices: 5257149--5258265 Score: 737
Period size: 44 Copynumber: 25.6 Consensus size: 44
5257139 ATTTTAATTC
*
5257149 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCT
* * * * *
5257193 GATCCACTATAATCTCAGGGAGATAAGA--CCT-GGTACGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCT
* * * * * * * **
5257234 ACTCTACTGTAA-CTTCAGAGAGATAAGATCATTGGTTTTAATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTACTAGCTTCGATCT
* * *
5257278 ACTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCT
* * * * * ** *
5257322 GTTCCACTGTAATCTCAAGGAGATAAGATCT-TTGGTTTTAATCC
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TACTAGCTTCGATCT
* * *
5257366 GCTCCACCGTAATATCAGGGAGATAGGATTACTAGCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCT
* * * *
5257410 GCTCCACTGTAATCTCATGGAGATAAGA--CCT-GGTACGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCT
* * * * * * ** *
5257451 ACTCTACTGTAA-CTTCAGAGAGATAAGATCATTAGTTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTACTAGCTTCGATCT
* *
5257495 GCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCT
*
5257539 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCT
* * * * *
5257583 GCTCCACTATAATATTAGGGAGATAAGA--CCTAG-TACGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCT
* * * * * * ** *
5257624 ACTCTACTGTAA-CTTCAGAGAGATAAGATCA-TTGATTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTACTAG-CTTCGATCT
*
5257668 GCTCCACTGTAATATCAGGGAGAT-AGAATTACTAGCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAG-ATTACTAGCTTCGATCT
* * * ** *
5257712 GCTCCACTGTAATCTCAGGGAGATAAGATCT-TTGGTTTTAATCC
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TACTAGCTTCGATCT
* * * *
5257756 GCTCCACTGTAATATCAGGGAGATAGGATTACTACCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCT
* ** * *
5257800 GCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TACTA-GCTTCGATCT
* * * * *
5257846 GTTCCACTGTAATCTCAGGGAAATAAGA-CA-T-GGTGCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCT
* * * * * * * ** *
5257887 ACTCTACTGTAA-CTTCAGAGAGACAAGA-TCCTTGGTTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTAC-TAGCTTCGATCT
* * * *
5257931 GCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCCATAT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCT
* * * * ** *
5257975 GCTCCGCTGTAATCTCAGGGAGATAAGATCT-TTGGTTTTAATCC
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TACTAGCTTCGATCT
* *
5258019 GCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCT
*
5258063 GCTCCACTGTAATCTCAGGGAGATAAGA-T-CT-GACAT-GATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAG-CTTCGATCT
* * ** * * ** *
5258104 ACTCTACTGTAA-CTTCAGATAGATAAGATCCT-TTA-TTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTCGATCT
* * *
5258148 ACTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCT
** * * ** *
5258192 ATTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTTTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTCGATCT
*
5258238 GTTCCACTGTAATCTCAGGGAGATAAGA
1 GCTCCACTGTAATCTCAGGGAGATAAGA
5258266 CCTGACGCGA
Statistics
Matches: 813, Mismatches: 214, Indels: 90
0.73 0.19 0.08
Matches are distributed among these distances:
40 4 0.00
41 141 0.17
42 15 0.02
43 12 0.01
44 561 0.69
45 15 0.02
46 65 0.08
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCGATCT
Found at i:5257220 original size:129 final size:128
Alignment explanation
Indices: 5257061--5258308 Score: 794
Period size: 129 Copynumber: 9.6 Consensus size: 128
5257051 AATCCCACGG
* * *
5257061 TCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGTTGCGATCTACTCTACTGTAACTTCAGAGA
5257126 GATAAGATCCTTTATTTTAAT-TCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGA
66 GATAAGAT-CTTTATTTTAATCT-GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGA
* * * *
5257190 TCTGATCCACTATAATCTCAGGGAGATAAGACCTGGTACGATCTACTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGTTGCGATCTACTCTACTGTAACTTCAGAGA
** * *
5257255 GATAAGATCATTGGTTTTAATCTACTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCGA
66 GATAAGATC-TTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGA
* * * *** ** * *
5257319 TCTGTTCCACTGTAATCTCAAGGAGATAAGATCTTTGGTTTTAATCCGCTCCACCGTAA-TATCA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGA-C-CT-GTTGCGATCTACTCTACTGTAACT-TCA
* * * * ** * * * *
5257383 GGGAGATAGGAT-TACTAGCTTCGATCTGCTCCACTGTAATCTCATGGAGATAAGA--CCT-GGT
62 GAGAGATAAGATCT-TTA-TTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCT
*
5257444 ACGA
125 TCGA
* * * * *** ** *
5257448 TCTACTCTACTGTAA-CTTCAGAGAGATAAGATCATTAGTTTTAATCCGCTCCACTGTAA-TATC
1 TCTGCTCCACTGTAATC-TCAGGGAGATAAGA-C-CT-GTTGCGATCTACTCTACTGTAACT-TC
* * * * **
5257511 AGGGAGATAGGAT-TACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
61 AGAGAGATAAGATCT-TTA-TTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
5257575 TTCGA
124 TTCGA
* * * *
5257580 TCTGCTCCACTATAATATTAGGGAGATAAGACCTAG-TACGATCTACTCTACTGTAACTTCAGAG
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCT-GTTGCGATCTACTCTACTGTAACTTCAGAG
* * * *
5257644 AGATAAGATCATTGATTTTAATCCGCTCCACTGTAATATCAGGGAGATAGAATTACTAGCTTCGA
65 AGATAAGATC-TTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGA
* *** ** *
5257709 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTTTGGTTTTAATCCGCTCCACTGTAA-TATCA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGA-C-CT-GTTGCGATCTACTCTACTGTAACT-TCA
* * * * * * * ** *
5257773 GGGAGATAGGAT-TACTACCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATT
62 GAGAGATAAGATCT-TTA-TTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGAT-TACTA-G
*
5257837 CTTCGG
123 CTTCGA
* * * *
5257843 TCTGTTCCACTGTAATCTCAGGGAAATAAGACATGGTGCGATCTACTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGTTGCGATCTACTCTACTGTAACTTCAGAGA
* ** * * *
5257908 GACAAGATCCTTGGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCCA
66 GATAAGAT-CTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGA
* * * *** ** *
5257972 TATGCTCCGCTGTAATCTCAGGGAGATAAGATCTTTGGTTTTAATCCGCTCCACTGTAA-TATCA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGA-C-CT-GTTGCGATCTACTCTACTGTAACT-TCA
* * * * ** *
5258036 GGGAGATAGGAT-TACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGA-T-CT-GAC
62 GAGAGATAAGATCT-TTA-TTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAG-C
*
5258097 AT-GA
124 TTCGA
* * ** * *** * *
5258101 TCTACTCTACTGTAA-CTTCAGATAGATAAGATCCTTTATTTTAATCCACTCCACTGTAA-TCTC
1 TCTGCTCCACTGTAATC-TCAGGGAGATAAGA-CC--TGTTGCGATCTACTCTACTGTAACT-TC
* * * * * ** * * *
5258164 AGGGAGATAGGAT-TACTAGCTTCAATCTATTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AA
61 AGAGAGATAAGATCT-TTA-TTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGAT-T-ACTA
** *
5258227 TTTTTCGG
122 -GCTTCGA
* ** *
5258235 TCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGTTGCGATCTACTCTACTGTAACTTCAGAGA
5258300 GATAAGATC
66 GATAAGATC
5258309 ATTTCTTCAA
Statistics
Matches: 886, Mismatches: 186, Indels: 91
0.76 0.16 0.08
Matches are distributed among these distances:
128 3 0.00
129 488 0.55
130 22 0.02
131 100 0.11
132 205 0.23
133 8 0.01
134 59 0.07
135 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (128 bp):
TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGTTGCGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGA
Found at i:5257438 original size:217 final size:217
Alignment explanation
Indices: 5257111--5258222 Score: 1231
Period size: 217 Copynumber: 5.1 Consensus size: 217
5257101 ATCTACTCTG
* * *
5257111 CTGTAA-CTTCAGAGAGATAAGATCCTTTA-TTTTAATTCGCTCCACTGTAATCTCAGGGAGATA
1 CTGTAATC-TCAGGGAGATAAGAT-CTTTAGTTTTAATCCGCTCCACTGTAATATCAGGGAGATA
* *
5257174 GGATTACTAGCTTCGATCTGATCCACTATAATCTCAGGGAGATAAGACCTGGTACGATCTACTCT
64 GGATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGGTACGATCTACTCT
* **
5257239 ACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCTACTCCACTGTAATATCAGGGAGATAG
129 ACTGTAACTTCAGAGAGATAAGATCATTAGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAG
* *
5257304 GATTACTAGCTTCGATCTGTTCCA
194 GATTACTAGCTTCAATCTGCTCCA
* * *
5257328 CTGTAATCTCAAGGAGATAAGATCTTTGGTTTTAATCCGCTCCACCGTAATATCAGGGAGATAGG
1 CTGTAATCTCAGGGAGATAAGATCTTTAGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGG
*
5257393 ATTACTAGCTTCGATCTGCTCCACTGTAATCTCATGGAGATAAGACCTGGTACGATCTACTCTAC
66 ATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGGTACGATCTACTCTAC
5257458 TGTAACTTCAGAGAGATAAGATCATTAGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGA
131 TGTAACTTCAGAGAGATAAGATCATTAGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGA
*
5257523 TTACTAGCTTCGATCTGCTCCA
196 TTACTAGCTTCAATCTGCTCCA
* * * ** * * * *
5257545 CTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCGATCTGCTCCACTATAATATTAGGGAGATAA
1 CTGTAATCTCAGGGAGATAAGATCT-TTAGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAG
* * * * * * * *** **
5257609 GA--CCTAG-TACGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCATTGATTTTAATCCGC
65 GATTACTAGCTTCGATCTGCTCCACTGTAATC-TCAGGGAGATAAGA-C-CTG-GTACGATCTAC
* * * * * ** * *
5257670 TCCACTGTAA-TATCAGGGAGAT-AGAATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGA
126 TCTACTGTAACT-TCAGAGAGATAAG-ATCATTAGTTTTAATCCGCTCCACTGTAATATCAGGGA
* * * * * *
5257733 GATAAGATCT-TTGGTTTTAATCCGCTCCA
189 GATAGGAT-TACTAGCTTCAATCTGCTCCA
* * * ** * * * * *
5257762 CTGTAATATCAGGGAGATAGGAT-TACTACCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAA
1 CTGTAATCTCAGGGAGATAAGATCT-TTAGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAG
** * * * * * *
5257826 GATCTAAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACATGGTGCGATCTACTC
65 GAT-TACTA-GCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGGTACGATCTACTC
* * *
5257891 TACTGTAACTTCAGAGAGACAAGATCCTTGGTTTTAATCCGCTCCACTGTAATATCAGGGAGATA
128 TACTGTAACTTCAGAGAGATAAGATCATTAGTTTTAATCCGCTCCACTGTAATATCAGGGAGATA
* * *
5257956 GGATTACTAGCTTCCATATGCTCCG
193 GGATTACTAGCTTCAATCTGCTCCA
*
5257981 CTGTAATCTCAGGGAGATAAGATCTTTGGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGG
1 CTGTAATCTCAGGGAGATAAGATCTTTAGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGG
* ** *
5258046 ATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGACATGATCTACTCTAC
66 ATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGGTACGATCTACTCTAC
* * * *
5258111 TGTAACTTCAGATAGATAAGATCCTTTA-TTTTAATCCACTCCACTGTAATCTCAGGGAGATAGG
131 TGTAACTTCAGAGAGATAAGAT-CATTAGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGG
** *
5258175 ATTACTAGCTTCAATCTATTCCG
195 ATTACTAGCTTCAATCTGCTCCA
5258198 CTGTAATCTCAGGGAGATAAGATCT
1 CTGTAATCTCAGGGAGATAAGATCT
5258223 GAAATTTTTC
Statistics
Matches: 741, Mismatches: 133, Indels: 42
0.81 0.15 0.05
Matches are distributed among these distances:
213 1 0.00
214 29 0.04
215 5 0.01
216 10 0.01
217 528 0.71
218 9 0.01
219 123 0.17
220 7 0.01
221 1 0.00
222 27 0.04
223 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (217 bp):
CTGTAATCTCAGGGAGATAAGATCTTTAGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGG
ATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGGTACGATCTACTCTAC
TGTAACTTCAGAGAGATAAGATCATTAGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGA
TTACTAGCTTCAATCTGCTCCA
Found at i:5258115 original size:41 final size:41
Alignment explanation
Indices: 5257066--5258308 Score: 192
Period size: 44 Copynumber: 28.7 Consensus size: 41
5257056 CACGGTCTGT
* ***
5257066 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCTGACATGATCTAC
** * * ** * *
5257107 TCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAAT-TCGC
1 TCCACTGTAATC-TCAGGGAGATAAGAT-C-TGA-CATGATCT-AC
* *
5257151 TCCACTGTAATCTCAGGGAGATAGGATTACT-AGCTTCGATCTGA-
1 TCCACTGTAATCTCAGGGAGATAAGA-T-CTGA-CAT-GATCT-AC
* * ** *
5257195 TCCACTATAATCTCAGGGAGATAAGACCTGGTACGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCTGACATGATCTAC
* * *** *
5257236 TCTACTGTAA-CTTCAGAGAGATAAGATCATTGGTTTTAATCTAC
1 TCCACTGTAATC-TCAGGGAGATAAGATC--T-GACATGATCTAC
* * * **
5257280 TCCACTGTAATATCAGGGAGATAGGATTACT-AGCTTCGATCTGT
1 TCCACTGTAATCTCAGGGAGATAAGA-T-CTGA-CAT-GATCTAC
* *** * **
5257324 TCCACTGTAATCTCAAGGAGATAAGATCTTTGGTTTTAATCCGC
1 TCCACTGTAATCTCAGGGAGATAAGATC--T-GACATGATCTAC
* * * * *
5257368 TCCACCGTAATATCAGGGAGATAGGATTACT-AGCTTCGATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGA-T-CTGA-CAT-GATCTAC
* * ** *
5257412 TCCACTGTAATCTCATGGAGATAAGACCTGGTACGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCTGACATGATCTAC
* * *** * **
5257453 TCTACTGTAA-CTTCAGAGAGATAAGATCATTAGTTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATC--T-GACATGATCTAC
* * * *
5257497 TCCACTGTAATATCAGGGAGATAGGATTACT-AGCTTCGATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGA-T-CTGA-CAT-GATCTAC
* * *
5257541 TCCACTGTAATCTCAGGGAGATAGGATTACT-AGCTTCGATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGA-T-CTGA-CAT-GATCTAC
* * * *
5257585 TCCACTATAATATTAGGGAGATAAGACCTAGTAC--GATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCT-G-ACATGATCTAC
* * ** * **
5257626 TCTACTGTAA-CTTCAGAGAGATAAGATCATTGATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATC--TGA-CATGATCTAC
* * *
5257670 TCCACTGTAATATCAGGGAGAT-AGAATTACT-AGCTTCGATCTGC
1 TCCACTGTAATCTCAGGGAGATAAG-A-T-CTGA-CAT-GATCTAC
*** * **
5257714 TCCACTGTAATCTCAGGGAGATAAGATCTTTGGTTTTAATCCGC
1 TCCACTGTAATCTCAGGGAGATAAGATC--T-GACATGATCTAC
* * * * *
5257758 TCCACTGTAATATCAGGGAGATAGGATTACT-ACCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGA-T-CTGA-CAT-GATCTAC
* * * * **
5257802 TCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGATCT--GA--CAT-GATCTAC
* ****
5257848 TCCACTGTAATCTCAGGGAAATAAGA-CATGGTGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATC-TGACATGATCTAC
* * * *** * **
5257889 TCTACTGTAA-CTTCAGAGAGACAAGATCCTTGGTTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGAT-C-T-GACATGATCTAC
* * * * * *
5257933 TCCACTGTAATATCAGGGAGATAGGATTACT-AGCTTCCATATGC
1 TCCACTGTAATCTCAGGGAGATAAGA-T-CTGA-CAT-GATCTAC
* *** * **
5257977 TCCGCTGTAATCTCAGGGAGATAAGATCTTTGGTTTTAATCCGC
1 TCCACTGTAATCTCAGGGAGATAAGATC--T-GACATGATCTAC
* * * *
5258021 TCCACTGTAATATCAGGGAGATAGGATTACT-AGCTTCGATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGA-T-CTGA-CAT-GATCTAC
5258065 TCCACTGTAATCTCAGGGAGATAAGATCTGACATGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCTGACATGATCTAC
* ** * ** * *
5258106 TCTACTGTAA-CTTCAGATAGATAAGATCCTTTATTTTAATCCAC
1 TCCACTGTAATC-TCAGGGAGATAAGAT-C-TGA-CATGATCTAC
* * * *
5258150 TCCACTGTAATCTCAGGGAGATAGGATTACT-AGCTTCAATCTAT
1 TCCACTGTAATCTCAGGGAGATAAGA-T-CTGA-CAT-GATCTAC
* * * **
5258194 TCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGATCTGACA----T-GATCTAC
* **
5258240 TCCACTGTAATCTCAGGGAGATAAGACCTGACGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCTGACATGATCTAC
** *
5258281 TCTGCTGTAA-CTTCAGAGAGATAAGATC
1 TCCACTGTAATC-TCAGGGAGATAAGATC
5258309 ATTTCTTCAA
Statistics
Matches: 891, Mismatches: 215, Indels: 192
0.69 0.17 0.15
Matches are distributed among these distances:
40 7 0.01
41 182 0.20
42 20 0.02
43 41 0.05
44 541 0.61
45 26 0.03
46 74 0.08
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (41 bp):
TCCACTGTAATCTCAGGGAGATAAGATCTGACATGATCTAC
Found at i:5258160 original size:173 final size:174
Alignment explanation
Indices: 5257101--5258308 Score: 796
Period size: 173 Copynumber: 6.9 Consensus size: 174
5257091 ACCTGATGCG
** * *
5257101 ATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTA-TTTTAATTCGCTCCACTGTAATCT
1 ATCTACTCCACTGTAATC-TCAGGGAGATAAGAT-CTTTAGTTTTAATCCGCTCCACTGTAATCT
* * *
5257164 CAGGGAGATAGGATTACTAGCTTCGATCTGATCCACTATAATCTCAGGGAGATAAGACCTGGTAC
64 CAGGGAGATAGGATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-G-AC
* * * ** *
5257229 --GATCTACTCTACTGTAACT-TCAGAGAGATAAGAT-C-ATTGGTTTTA
127 TTGATCTGCTCCACTGTAA-TATCAGAGAGATAAGATCCTACT-ACTTCA
* * * * ** * *
5257274 ATCTACTCCACTGTAATATCAGGGAGATAGGAT-TACTAGCTTCGATCTGTTCCACTGTAATCTC
1 ATCTACTCCACTGTAATCTCAGGGAGATAAGATCT-TTAGTTTTAATCCGCTCCACTGTAATCTC
* * * * * ** * * * *
5257338 AAGGAGATAAGATCT-TTGGTTTTAATCCGCTCCACCGTAATATCAGGGAGATAGGATTACT-AG
65 AGGGAGATAGGAT-TACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGA-T-CTGA-
* ** *
5257401 CTTCGATCTGCTCCACTGTAATCTCATG-GAGATAAGA-CCTGGTA---CG
126 CTT-GATCTGCTCCACTGTAATATCA-GAGAGATAAGATCCTACTACTTCA
* * * *
5257447 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCATTAGTTTTAATCCGCTCCACTGTAATATC
1 ATCTACTCCACTGTAATC-TCAGGGAGATAAGATCTTTAGTTTTAATCCGCTCCACTGTAATCTC
*
5257511 AGGGAGATAGGATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACT-AGC
65 AGGGAGATAGGATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGA-T-CTGA-C
* * * * *
5257575 TTCGATCTGCTCCACTATAATATTAGGGAGATAAGA-CCTAGTA---CG
127 TT-GATCTGCTCCACTGTAATATCAGAGAGATAAGATCCTACTACTTCA
* * * *
5257620 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCATT-GATTTTAATCCGCTCCACTGTAATAT
1 ATCTACTCCACTGTAATC-TCAGGGAGATAAGATCTTTAG-TTTTAATCCGCTCCACTGTAATCT
* *
5257683 CAGGGAGATAGAATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTTTGGT
64 CAGGGAGATAGGATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATC--T-GA
* * * * *
5257748 TTTAATCCGCTCCACTGTAATATCAGGGAGATAGGAT--TACTACCTTCA
126 CTTGATCTGCTCCACTGTAATATCAGAGAGATAAGATCCTACTA-CTTCA
* * ** * ** * *
5257796 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTGTTCCACTGTAATCT
1 ATCTACTCCACTGTAATCTCAGGGAGATAAGATCTTTAGTT-TT-AATCCGCTCCACTGTAATCT
* * * * * * * * *
5257861 CAGGGAAATAAGA-CA-T-GGTGCGATCTACTCTACTGTAA-CTTCAGAGAGACAAGATCCTTGG
64 CAGGGAGATAGGATTACTAGCTTCGATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-C-T-G
** * * * * *
5257922 TTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGAT--TACTAGCTTCC
125 ACTTGATCTGCTCCACTGTAATATCAGAGAGATAAGATCCTACTA-CTTCA
* * * * *
5257971 ATATGCTCCGCTGTAATCTCAGGGAGATAAGATCTTTGGTTTTAATCCGCTCCACTGTAATATCA
1 ATCTACTCCACTGTAATCTCAGGGAGATAAGATCTTTAGTTTTAATCCGCTCCACTGTAATCTCA
*
5258036 GGGAGATAGGATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGACATGA
66 GGGAGATAGGATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGACTTGA
* * * * * *
5258101 TCTACTCTACTGTAACT-TCAGATAGATAAGATCCT-TTATTTTA
131 TCTGCTCCACTGTAA-TATCAGAGAGATAAGATCCTACTACTTCA
* * * * * *** *
5258144 ATCCACTCCACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTATTCCGCTGTAATCTC
1 ATCTACTCCACTGTAATCTCAGGGAGATAAGATCT-TTAGTTTTAATCCGCTCCACTGTAATCTC
* * ** * * *
5258208 AGGGAGATAAGATCTGA-AATTTTTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGAC
65 AGGGAGATAGGAT-T-ACTA-GCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAC
** * **
5258272 GCGATCTACTCTGCTGTAACT-TCAGAGAGATAAGATC
127 TTGATCTGCTCCACTGTAA-TATCAGAGAGATAAGATC
5258309 ATTTCTTCAA
Statistics
Matches: 837, Mismatches: 153, Indels: 88
0.78 0.14 0.08
Matches are distributed among these distances:
171 2 0.00
172 12 0.01
173 489 0.58
174 13 0.02
175 197 0.24
176 92 0.11
177 7 0.01
178 25 0.03
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (174 bp):
ATCTACTCCACTGTAATCTCAGGGAGATAAGATCTTTAGTTTTAATCCGCTCCACTGTAATCTCA
GGGAGATAGGATTACTAGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGACTTGA
TCTGCTCCACTGTAATATCAGAGAGATAAGATCCTACTACTTCA
Found at i:5259786 original size:28 final size:29
Alignment explanation
Indices: 5259755--5259816 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
5259745 CCATTTTTGC
5259755 TTTTTCA-TTTTTCAT-TTTTTTCATTCAT
1 TTTTTCATTTTTTCATCTTTTTTCA-TCAT
*
5259783 TTTTTCATTTTTTCTTCTTTTTTCATCAT
1 TTTTTCATTTTTTCATCTTTTTTCATCAT
5259812 TTTTT
1 TTTTT
5259817 TTGTTTGAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
28 7 0.23
29 16 0.52
30 8 0.26
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (29 bp):
TTTTTCATTTTTTCATCTTTTTTCATCAT
Found at i:5259811 original size:21 final size:22
Alignment explanation
Indices: 5259758--5259816 Score: 74
Period size: 20 Copynumber: 2.9 Consensus size: 22
5259748 TTTTTGCTTT
5259758 TTCATTTTTCAT--TTTTTTCA
1 TTCATTTTTCATCATTTTTTCA
5259778 TTCATTTTT--TCATTTTTTC-
1 TTCATTTTTCATCATTTTTTCA
*
5259797 TTCTTTTTTCATCATTTTTT
1 TTCATTTTTCATCATTTTTT
5259817 TTGTTTGAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
18 1 0.03
19 8 0.24
20 16 0.47
21 9 0.26
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (22 bp):
TTCATTTTTCATCATTTTTTCA
Found at i:5260631 original size:5 final size:6
Alignment explanation
Indices: 5260615--5260641 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5260605 TTGACCTCTC
5260615 CTTTTT CTTTTT CTTTTT CTTTTT CTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTT
5260642 CTATTTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:5264783 original size:24 final size:25
Alignment explanation
Indices: 5264755--5264813 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
5264745 GATATAAAAA
* *
5264755 ATAAAATGAAATAAAATA-ATATAT
1 ATAAAATAAAAGAAAATATATATAT
*
5264779 ATAAATATAAAAGAAACTATATATAT
1 ATAAA-ATAAAAGAAAATATATATAT
5264805 ATATAAATA
1 ATA-AAATA
5264814 TATATACATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 5 0.17
25 10 0.34
26 12 0.41
27 2 0.07
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (25 bp):
ATAAAATAAAAGAAAATATATATAT
Found at i:5264784 original size:28 final size:28
Alignment explanation
Indices: 5264746--5264815 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
5264736 TACATGTGAG
*
5264746 ATATA-AAAAATAAAATGAAA-TAAAATAAT
1 ATATATAAATATAAAA-GAAACT-AAAT-AT
*
5264775 ATATATAAATATAAAAGAAACTATATAT
1 ATATATAAATATAAAAGAAACTAAATAT
5264803 ATATATAAATATA
1 ATATATAAATATA
5264816 TATACATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 15 0.41
29 12 0.32
30 10 0.27
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (28 bp):
ATATATAAATATAAAAGAAACTAAATAT
Found at i:5264790 original size:20 final size:20
Alignment explanation
Indices: 5264765--5264819 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
5264755 ATAAAATGAA
5264765 ATAAAATAATATATATAAAT
1 ATAAAATAATATATATAAAT
* *
5264785 ATAAAAGAA-ACTATATATAT
1 ATAAAATAATA-TATATAAAT
5264805 ATATAAAT-ATATATA
1 ATA-AAATAATATATA
5264820 CATATACTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 1 0.03
20 24 0.83
21 4 0.14
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
ATAAAATAATATATATAAAT
Found at i:5264868 original size:16 final size:17
Alignment explanation
Indices: 5264847--5264882 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
5264837 AAGCACATAG
5264847 ATATTTATATATA-TAA
1 ATATTTATATATATTAA
5264863 ATATTTATATATATTAA
1 ATATTTATATATATTAA
5264880 ATA
1 ATA
5264883 GGTTAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTTATATATATTAA
Found at i:5264926 original size:3 final size:3
Alignment explanation
Indices: 5264918--5264988 Score: 65
Period size: 3 Copynumber: 23.3 Consensus size: 3
5264908 AAGCTATCAC
* ** *
5264918 ATA ATA ATA ATG ATA AGTA CCA GTA AT- ATA CATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
5264964 GA-A ATA ATA ATA ATA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA ATA ATA A
5264989 ATGATAATAC
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
2 3 0.05
3 47 0.84
4 6 0.11
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:5265010 original size:19 final size:17
Alignment explanation
Indices: 5264949--5265011 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 17
5264939 AGTAATATAC
*
5264949 ATAATAATAATAATAGAA
1 ATAATGATAATAATA-AA
*
5264967 ATAATAATAATAATAATA
1 ATAATGATAATAATAA-A
5264985 ATAAATGATAATACATTAAA
1 AT-AATGATAATA-A-TAAA
5265005 ATAATGA
1 ATAATGA
5265012 AGAAGATAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
17 1 0.03
18 18 0.45
19 14 0.35
20 4 0.10
21 3 0.08
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (17 bp):
ATAATGATAATAATAAA
Found at i:5267874 original size:261 final size:261
Alignment explanation
Indices: 5267410--5267884 Score: 727
Period size: 261 Copynumber: 1.8 Consensus size: 261
5267400 TAGCACCGAA
* *
5267410 GTTGCAGCGAAACAGATTGAAGCTAAAAATAGCGAATCTTGTTTCCCTGGCGTTGCAGTGGAATA
1 GTTGCAGCGAAACAGATTAAAGCTAAAAATAGCAAATCTTGTTTCCCTGGCGTTGCAGTGGAATA
*** *
5267475 GATTAAAGCTAAAGTAGAGCGGATTAAAGTTGAAGGCAGTGAATCCTATCTCTTTGGTGTCGTAG
66 GATTAAAGCTAAAGTAGAGCGGATTAAAGTTGAAGGCAACAAATCCTATCTCCTTGGTGTCGTAG
* * * *
5267540 TGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGTATTACAGCGGAGCAGATTAAA
131 TGGAACAGATTAAAGCTAAAAGTAGCGAATCTTCTTTCCCTGGCATTACAACGGAGCAGATTAAA
5267605 GCTGAAGGCAGCGAATCTTATCTCTCTAGCGTTAAGACTGAGAGCAGCAAATCTTATTTCCCTTA
196 GCTGAAGGCAGCGAATCTTATCTCTCTAGCGTTAAGACTGAGAGCAGCAAATCTTATTTCCCTTA
5267670 C
261 C
* ** * *
5267671 GTTGCAGCGGAACAGATTAAAGCTAAAGGTAGCAAATCTTGTTTTCCTGGTGTTGCAGTGGAATA
1 GTTGCAGCGAAACAGATTAAAGCTAAAAATAGCAAATCTTGTTTCCCTGGCGTTGCAGTGGAATA
* * * *
5267736 GATTAAAGCTGAAGTGGAGCGGATTAAAGTTGAAGGTAACAAATCCTATCTCCTTGGTGT-TTCA
66 GATTAAAGCTAAAGTAGAGCGGATTAAAGTTGAAGGCAACAAATCCTATCTCCTTGGTGTCGT-A
* * *
5267800 GTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTCTTTCTCTGGCGTTGCAACGGAGCAGATTAA
130 GTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTCTTTCCCTGGCATTACAACGGAGCAGATTAA
*
5267865 AGTTGAAGGCAGCGAATCTT
195 AGCTGAAGGCAGCGAATCTT
5267885 GTTTCCTTAG
Statistics
Matches: 190, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
260 1 0.01
261 189 0.99
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (261 bp):
GTTGCAGCGAAACAGATTAAAGCTAAAAATAGCAAATCTTGTTTCCCTGGCGTTGCAGTGGAATA
GATTAAAGCTAAAGTAGAGCGGATTAAAGTTGAAGGCAACAAATCCTATCTCCTTGGTGTCGTAG
TGGAACAGATTAAAGCTAAAAGTAGCGAATCTTCTTTCCCTGGCATTACAACGGAGCAGATTAAA
GCTGAAGGCAGCGAATCTTATCTCTCTAGCGTTAAGACTGAGAGCAGCAAATCTTATTTCCCTTA
C
Found at i:5267901 original size:51 final size:51
Alignment explanation
Indices: 5267802--5267933 Score: 131
Period size: 51 Copynumber: 2.6 Consensus size: 51
5267792 GTGTTTCAGT
* * * * *
5267802 GGAACAGATTAAAGCTAAAAGTAGCGAATCTTCTTTCTCTGGCGTTGCAAC
1 GGAACAGATTAAAGCTGAAGGCAGCGAATCTTCTTTCTCTAGCATTGCAAC
* * * **
5267853 GGAGCAGATTAAAGTTGAAGGCAGCGAATCTTGTTTC-CTTAGCATTGCAGT
1 GGAACAGATTAAAGCTGAAGGCAGCGAATCTTCTTTCTC-TAGCATTGCAAC
* *
5267904 GGAATAGATTAAAGCTGAAGTGGAGCGAAT
1 GGAACAGATTAAAGCTGAAG-GCAGCGAAT
5267934 TAAAGTTGAA
Statistics
Matches: 65, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
50 1 0.02
51 56 0.86
52 8 0.12
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (51 bp):
GGAACAGATTAAAGCTGAAGGCAGCGAATCTTCTTTCTCTAGCATTGCAAC
Found at i:5267952 original size:20 final size:21
Alignment explanation
Indices: 5267911--5267953 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
5267901 AGTGGAATAG
5267911 ATTAAAGCTGAAGTGGAGCGA
1 ATTAAAGCTGAAGTGGAGCGA
* *
5267932 ATTAAAGTTGAAG-GTAGCGA
1 ATTAAAGCTGAAGTGGAGCGA
5267952 AT
1 AT
5267954 CTTGTTTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (21 bp):
ATTAAAGCTGAAGTGGAGCGA
Found at i:5267973 original size:72 final size:72
Alignment explanation
Indices: 5267860--5267995 Score: 193
Period size: 72 Copynumber: 1.9 Consensus size: 72
5267850 AACGGAGCAG
** *
5267860 ATTAAAGTTGAAGGCAGCGAATCTTGTTTCCTTAGCATTGCAGTGGAATAGATTAAAGCTGAAGT
1 ATTAAAGTTGAAGGCAGCGAATCTTGTTTCCTTAGCATTGCAGCAGAACAGATTAAAGCTGAAGT
5267925 GGAGCGA
66 GGAGCGA
* * * *
5267932 ATTAAAGTTGAAGGTAGCGAATCTTGTTT-CTCTGGCGTTGCAGCAGAGCAGATTAAAGCTGAAG
1 ATTAAAGTTGAAGGCAGCGAATCTTGTTTCCT-TAGCATTGCAGCAGAACAGATTAAAGCTGAAG
5267996 GCTGCGAATC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 2 0.04
72 54 0.96
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (72 bp):
ATTAAAGTTGAAGGCAGCGAATCTTGTTTCCTTAGCATTGCAGCAGAACAGATTAAAGCTGAAGT
GGAGCGA
Found at i:5268007 original size:174 final size:174
Alignment explanation
Indices: 5267670--5267991 Score: 432
Period size: 174 Copynumber: 1.9 Consensus size: 174
5267660 ATTTCCCTTA
* * * **
5267670 CGTTGCAGCGGAACAGATTAAAGCTAAAGGTAGCAAATCTTGTTTTCCTGGTGTTGCAGTGGAAT
1 CGTTGCAACGGAACAGATTAAAGCTAAAGGCAGCAAATCTTGTTTTCCTAGCATTGCAGTGGAAT
* * *
5267735 AGATTAAAGCTGAAGTGGAGCGGATTAAAGTTGAAGGTAACAAATCCTATCTCCTTGGTGTTTCA
66 AGATTAAAGCTGAAGTGGAGCGAATTAAAGTTGAAGGTAACAAATCCTATCTCCTTGGCGTTGCA
**
5267800 GTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTCTTTCTCTGG
131 GCAGAACAGATTAAAGCTAAAAGTAGCGAATCTTCTTTCTCTGG
* * * *
5267844 CGTTGCAACGGAGCAGATTAAAGTTGAAGGCAGCGAATCTTG-TTTCCTTAGCATTGCAGTGGAA
1 CGTTGCAACGGAACAGATTAAAGCTAAAGGCAGCAAATCTTGTTTTCC-TAGCATTGCAGTGGAA
* * * * *
5267908 TAGATTAAAGCTGAAGTGGAGCGAATTAAAGTTGAAGGTAGCGAATCTTGT-TTCTCTGGCGTTG
65 TAGATTAAAGCTGAAGTGGAGCGAATTAAAGTTGAAGGTAACAAATCCTATCTCCT-TGGCGTTG
*
5267972 CAGCAGAGCAGATTAAAGCT
129 CAGCAGAACAGATTAAAGCT
5267992 GAAGGCTGCG
Statistics
Matches: 126, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
173 8 0.06
174 118 0.94
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (174 bp):
CGTTGCAACGGAACAGATTAAAGCTAAAGGCAGCAAATCTTGTTTTCCTAGCATTGCAGTGGAAT
AGATTAAAGCTGAAGTGGAGCGAATTAAAGTTGAAGGTAACAAATCCTATCTCCTTGGCGTTGCA
GCAGAACAGATTAAAGCTAAAAGTAGCGAATCTTCTTTCTCTGG
Found at i:5268095 original size:51 final size:51
Alignment explanation
Indices: 5268034--5268147 Score: 158
Period size: 51 Copynumber: 2.2 Consensus size: 51
5268024 GACTGAGAGC
*
5268034 AGCGAATCTTATTTCCCTGACGTTGCAACGGAGCAGATTAAAGCT-AAAGGT
1 AGCGAATCTTATTTCCCTGACATTGCAACGGAGCAGATTAAAGCTGAAA-GT
* * **
5268085 AGCGAATCTTATTTCTCTGGCATTGCAACGGATTAGATTAAAGCTGAAAGT
1 AGCGAATCTTATTTCCCTGACATTGCAACGGAGCAGATTAAAGCTGAAAGT
*
5268136 AGCAAATCTTAT
1 AGCGAATCTTAT
5268148 CTCCTTGGCG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 53 0.95
52 3 0.05
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (51 bp):
AGCGAATCTTATTTCCCTGACATTGCAACGGAGCAGATTAAAGCTGAAAGT
Found at i:5268363 original size:132 final size:132
Alignment explanation
Indices: 5268212--5268798 Score: 746
Period size: 132 Copynumber: 4.5 Consensus size: 132
5268202 GGGGCAAACT
* *
5268212 GAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGAGAAGTAGATTAAAGCCACCAGTCCTATCTC
1 GAAGACAGTGAATCTTATCTTCCCAAGGTAGTAGAGAAGCAGATTAAAGCCACCAGTCCTATCTC
* * * * *
5268277 CCGGAGCAGCAGTGGAGTAGGTTAAAGGTTACAGATCCCGTCTCCCTAAGCAGTAGTGGAGCAGA
66 CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
5268342 TC
131 TC
* *
5268344 GAAGACGGTGAATCTTATCTTCCTAAGGTAGTAG-GAAAGCAGA-TATAAGCCACCAGTCCTATC
1 GAAGACAGTGAATCTTATCTTCCCAAGGTAGTAGAG-AAGCAGATTA-AAGCCACCAGTCCTATC
*
5268407 TCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGCTCCTGTCTCCCTAAGCAGTAGTGGAGCA
64 TCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGTGGAGCA
5268472 GATC
129 GATC
* * * * *
5268476 GAAGACAGCGAATCTTATCTTCCCAAGGTAGTAGGGGAGCATATTTAAA-CCGCCAGTCCTATCT
1 GAAGACAGTGAATCTTATCTTCCCAAGGTAGTAGAGAAGCAGA-TTAAAGCCACCAGTCCTATCT
* * * * *
5268540 CCCTAAGCAGCAGTGGAGTAAGTTGAAGATTGCAGATCCTGTCTCCCTAAGTAGTAGTTGAGCAA
65 CCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAG
5268605 ATC
130 ATC
* * * *
5268608 GTAGACAGCGAATATTATCCTT-CCAAGGTAGTAGAGAAGCAGATTTAAGCCACCAGTCCTATCT
1 GAAGACAGTGAATCTTAT-CTTCCCAAGGTAGTAGAGAAGCAGATTAAAGCCACCAGTCCTATCT
* * * *
5268672 CCCT--G-AGCA--GGAGTAGGTTGAAGATTGCAGATCCTGTCTTCCTAAGTAGTCGTGTAGCAG
65 CCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAG
5268732 ATC
130 ATC
* * * * *
5268735 -AAGGACAGTGAATCTTATCTTTCTAAGGTAGTA-AGGAAGCAGATTGAAGCCACTAGTCTTATC
1 GAA-GACAGTGAATCTTATCTTCCCAAGGTAGTAGA-GAAGCAGATTAAAGCCACCAGTCCTATC
5268798 T
64 T
5268799 TACTGAGGTT
Statistics
Matches: 405, Mismatches: 40, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
126 5 0.01
127 97 0.24
129 4 0.01
130 1 0.00
131 7 0.02
132 283 0.70
133 6 0.01
134 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (132 bp):
GAAGACAGTGAATCTTATCTTCCCAAGGTAGTAGAGAAGCAGATTAAAGCCACCAGTCCTATCTC
CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
TC
Found at i:5268468 original size:44 final size:44
Alignment explanation
Indices: 5268308--5268603 Score: 155
Period size: 44 Copynumber: 6.7 Consensus size: 44
5268298 TTAAAGGTTA
** *
5268308 CAGATCCCGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTG
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC--TG
* * * **
5268354 -A-ATCTTATCTTCCTAAG--GTAGTAGGAAAGCAGATAT-AAGCCAC
1 CAGATCCTATCTCCCTAAGCAGTAGT-GG--AGCAGAT-TGAAGACTG
* * * * *
5268397 CAG-TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTG
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTG
* * * *
5268440 CAGCTCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAG
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTG
* * * * * *
5268484 C-GAATCTTATCTTCCC-AAGGTAGTAGGGGAGCATATTTAA-ACCG
1 CAG-ATCCTATC-TCCCTAA-GCAGTAGTGGAGCAGATTGAAGACTG
* * *
5268528 CCAG-TCCTATCTCCCTAAGCAGCAGTGGAGTA-AGTTGAAGATTG
1 -CAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGA-TTGAAGACTG
* * *
5268572 CAGATCCTGTCTCCCTAAGTAGTAGTTGAGCA
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAGCA
5268604 AATCGTAGAC
Statistics
Matches: 183, Mismatches: 48, Indels: 40
0.68 0.18 0.15
Matches are distributed among these distances:
42 7 0.04
43 35 0.19
44 101 0.55
45 35 0.19
46 5 0.03
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (44 bp):
CAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACTG
Found at i:5268843 original size:45 final size:45
Alignment explanation
Indices: 5268793--5268878 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
5268783 GCCACTAGTC
* *
5268793 TTATCTTACTGAGGTTGCAGT-GTAGAAGACTGAAGATAGCAACTT
1 TTATCTCACTGAGGTTGCAGTAG-AGAAGACTGAAGAGAGCAACTT
*
5268838 TTATCTCACTGAGGTTGCAGTAGAGTAGACTGAAGAGAGCA
1 TTATCTCACTGAGGTTGCAGTAGAGAAGACTGAAGAGAGCA
5268879 GATCTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 36 0.97
46 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (45 bp):
TTATCTCACTGAGGTTGCAGTAGAGAAGACTGAAGAGAGCAACTT
Found at i:5270473 original size:50 final size:50
Alignment explanation
Indices: 5270350--5270598 Score: 259
Period size: 50 Copynumber: 4.8 Consensus size: 50
5270340 GATAATAACA
* * * ** *
5270350 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGT-TC-TCGTGATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATC-TCA--G
* *
5270401 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAG
* * * *
5270451 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAG
* *
5270501 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-TCA-G
* *
5270556 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
5270599 TTACCCAAAT
Statistics
Matches: 167, Mismatches: 23, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
50 85 0.51
51 33 0.20
52 4 0.02
53 4 0.02
54 1 0.01
55 1 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAG
Found at i:5270526 original size:100 final size:104
Alignment explanation
Indices: 5270349--5270598 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
5270339 TGATAATAAC
* **
5270349 ATGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
5270414 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-TCA-G
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
5270451 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
5270514 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
5270556 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
5270599 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 0.27
103 3 0.02
104 2 0.02
105 1 0.01
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:5270714 original size:13 final size:13
Alignment explanation
Indices: 5270693--5270723 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
5270683 GCTTTTATCA
*
5270693 TCATCAAATAAAT
1 TCATAAAATAAAT
5270706 TCATAAAATAAAT
1 TCATAAAATAAAT
5270719 TCATA
1 TCATA
5270724 TGTAACACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:5271956 original size:41 final size:41
Alignment explanation
Indices: 5271712--5271950 Score: 283
Period size: 41 Copynumber: 5.8 Consensus size: 41
5271702 TTAAACAGAT
* * * *
5271712 TCACCGGCAATT-TGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGC-ATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
5271754 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
5271794 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
*
5271835 TCACCGGTATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
5271876 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
5271915 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
5271951 TATTACATTC
Statistics
Matches: 179, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 2 0.01
40 9 0.05
41 166 0.93
42 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:5273812 original size:30 final size:30
Alignment explanation
Indices: 5273777--5273834 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5273767 CCTCGACTCT
*
5273777 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
5273807 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
5273835 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:5285881 original size:10 final size:9
Alignment explanation
Indices: 5285850--5285884 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
5285840 TTTATCATCT
*
5285850 TTTTTTACG
1 TTTTTTATG
5285859 TTTTTTATG
1 TTTTTTATG
5285868 TTTTTTATG
1 TTTTTTATG
5285877 ATTTTTTA
1 -TTTTTTA
5285885 ACATAGATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 17 0.71
10 7 0.29
ACGTcount: A:0.14, C:0.03, G:0.09, T:0.74
Consensus pattern (9 bp):
TTTTTTATG
Found at i:5287760 original size:403 final size:403
Alignment explanation
Indices: 5287013--5287824 Score: 1606
Period size: 403 Copynumber: 2.0 Consensus size: 403
5287003 AATTGATGTA
5287013 AAAAATATGTTATAAAATGTTAGAATGCCTTTGTAGGACCCAATTTATGCCCGGGCCCAAAATGA
1 AAAAATATGTTATAAAATGTTAGAATGCCTTTGTAGGACCCAATTTATGCCCGGGCCCAAAATGA
5287078 AACAACTTATGTACAACGGACCCGAAACGGCCCAAATTCTTAAAAAACCCTGAACGTCCCATTGG
66 AACAACTTATGTACAACGGACCCGAAACGGCCCAAATTCTTAAAAAACCCTGAACGTCCCATTGG
*
5287143 GGCCCAAAAACTAAGCAAGCACCAGGGAACCCTAGAGTTCTCTCCCCTCTCGCGCCGCTCTCCCC
131 GGCCCAAAAACTAAGCAAGCACCAGGGAACCCTAGAGTTCCCTCCCCTCTCGCGCCGCTCTCCCC
5287208 TTTCGGGCCACCCGAGGTGCTTCGTCCCGAGGTCTGCCTCCCCTTTGCACCGAAATGGCAAGGTC
196 TTTCGGGCCACCCGAGGTGCTTCGTCCCGAGGTCTGCCTCCCCTTTGCACCGAAATGGCAAGGTC
5287273 ACCTCCGTTGACCTTGCCTAACCCTGCAAAACAAAGCAAAAATAGAGGACAGAACGCAGAGAAAA
261 ACCTCCGTTGACCTTGCCTAACCCTGCAAAACAAAGCAAAAATAGAGGACAGAACGCAGAGAAAA
5287338 AACGAATCTTTGTAATCGGCTATAAAGCCTGAGGAAAAATGTAATCTTTACACAACGAAGAGAAA
326 AACGAATCTTTGTAATCGGCTATAAAGCCTGAGGAAAAATGTAATCTTTACACAACGAAGAGAAA
5287403 TACAACAGAGAAC
391 TACAACAGAGAAC
5287416 AAAAATATGTTATAAAATGTTAGAATGCCTTTGTAGGACCCAATTTATGCCCGGGCCCAAAATGA
1 AAAAATATGTTATAAAATGTTAGAATGCCTTTGTAGGACCCAATTTATGCCCGGGCCCAAAATGA
*
5287481 AACAACTTATGTACAACGGGCCCGAAACGGCCCAAATTCTTAAAAAACCCTGAACGTCCCATTGG
66 AACAACTTATGTACAACGGACCCGAAACGGCCCAAATTCTTAAAAAACCCTGAACGTCCCATTGG
5287546 GGCCCAAAAACTAAGCAAGCACCAGGGAACCCTAGAGTTCCCTCCCCTCTCGCGCCGCTCTCCCC
131 GGCCCAAAAACTAAGCAAGCACCAGGGAACCCTAGAGTTCCCTCCCCTCTCGCGCCGCTCTCCCC
5287611 TTTCGGGCCACCCGAGGTGCTTCGTCCCGAGGTCTGCCTCCCCTTTGCACCGAAATGGCAAGGTC
196 TTTCGGGCCACCCGAGGTGCTTCGTCCCGAGGTCTGCCTCCCCTTTGCACCGAAATGGCAAGGTC
5287676 ACCTCCGTTGACCTTGCCTAACCCTGCAAAACAAAGCAAAAATAGAGGACAGAACGCAGAGAAAA
261 ACCTCCGTTGACCTTGCCTAACCCTGCAAAACAAAGCAAAAATAGAGGACAGAACGCAGAGAAAA
5287741 AACGAATCTTTGTAATCGGCTATAAAGCCTGAGGAAAAATGTAATCTTTACACAACGAAGAGAAA
326 AACGAATCTTTGTAATCGGCTATAAAGCCTGAGGAAAAATGTAATCTTTACACAACGAAGAGAAA
5287806 TACAACAGAGAAC
391 TACAACAGAGAAC
5287819 AAAAAT
1 AAAAAT
5287825 CAATCAAGAA
Statistics
Matches: 407, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
403 407 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (403 bp):
AAAAATATGTTATAAAATGTTAGAATGCCTTTGTAGGACCCAATTTATGCCCGGGCCCAAAATGA
AACAACTTATGTACAACGGACCCGAAACGGCCCAAATTCTTAAAAAACCCTGAACGTCCCATTGG
GGCCCAAAAACTAAGCAAGCACCAGGGAACCCTAGAGTTCCCTCCCCTCTCGCGCCGCTCTCCCC
TTTCGGGCCACCCGAGGTGCTTCGTCCCGAGGTCTGCCTCCCCTTTGCACCGAAATGGCAAGGTC
ACCTCCGTTGACCTTGCCTAACCCTGCAAAACAAAGCAAAAATAGAGGACAGAACGCAGAGAAAA
AACGAATCTTTGTAATCGGCTATAAAGCCTGAGGAAAAATGTAATCTTTACACAACGAAGAGAAA
TACAACAGAGAAC
Found at i:5289469 original size:107 final size:106
Alignment explanation
Indices: 5289283--5289610 Score: 392
Period size: 106 Copynumber: 3.1 Consensus size: 106
5289273 CATCAAAAAG
* * * *
5289283 AAACTTTAAAAATAAGGTAATATTTCGCATTTGAAAACTCGAGAAAACATGCCCTAACGTGCTGG
1 AAACTTTCAAAATAAGGCAATATTTCGCATTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* * *
5289348 GTTTC-AGTTTCTCGTTCGACCGAATAGCCAAATATCATTTTT
66 GTTTCGA-TTTCTCGTTCGACCAAATAGCCAAATATC-CTTTC
* *
5289390 AAACTTTCAAAATAAGGCAATATTTCGCGTTTGAAAATTCGAGAAAACGTGCCCTAACGTGTTGG
1 AAACTTTCAAAATAAGGCAATATTTCGCATTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* * ***
5289455 GTTTCGATTACTCGTTTGACCAAATAGTTGAATATCCTTTC
66 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTC
* ** * * * * *
5289496 AAAATTTCAAAACGAGGCAATGTTTTGCATTTGGAAATTCGAGAGAACGGGCCCTAACGTGCTGG
1 AAACTTTCAAAATAAGGCAATATTTCGCATTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* *
5289561 GTTTCGATTTCTTGTTCGACTAAATAGCCAAATATCCTCTT-
66 GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCT-TTC
5289602 AAA-TTTCAA
1 AAACTTTCAA
5289611 TCCATGTCAT
Statistics
Matches: 188, Mismatches: 31, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
105 6 0.03
106 92 0.49
107 89 0.47
108 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (106 bp):
AAACTTTCAAAATAAGGCAATATTTCGCATTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTGG
GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTC
Found at i:5290574 original size:17 final size:16
Alignment explanation
Indices: 5290554--5290618 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 16
5290544 TTTCTCATAA
5290554 AAATAATAAAAAATTAT
1 AAAT-ATAAAAAATTAT
*
5290571 AAATATCAGAAAA-TAT
1 AAATAT-AAAAAATTAT
* *
5290587 CAAAAATATAAAAATGATT
1 -AAATATA-AAAAATTA-T
5290606 AAATATAAAAAAT
1 AAATATAAAAAAT
5290619 ATGAAAATTG
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
16 6 0.16
17 24 0.63
18 7 0.18
19 1 0.03
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
AAATATAAAAAATTAT
Found at i:5290609 original size:25 final size:27
Alignment explanation
Indices: 5290581--5290635 Score: 78
Period size: 25 Copynumber: 2.1 Consensus size: 27
5290571 AAATATCAGA
*
5290581 AAATATCAAAAATAT-AAAAATGAT-T
1 AAATATAAAAAATATGAAAAATGATAT
*
5290606 AAATATAAAAAATATGAAAATTGATAT
1 AAATATAAAAAATATGAAAAATGATAT
5290633 AAA
1 AAA
5290636 CTTATAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 14 0.54
26 8 0.31
27 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (27 bp):
AAATATAAAAAATATGAAAAATGATAT
Found at i:5290666 original size:23 final size:24
Alignment explanation
Indices: 5290631--5290680 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
5290621 GAAAATTGAT
*
5290631 ATAAACTTAT-AAATATTATAAAA
1 ATAAACTTATAAAAAATTATAAAA
* * *
5290654 ATAAATTTCTAAAAAATTCTAAAA
1 ATAAACTTATAAAAAATTATAAAA
5290678 ATA
1 ATA
5290681 TATAAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (24 bp):
ATAAACTTATAAAAAATTATAAAA
Found at i:5291046 original size:21 final size:20
Alignment explanation
Indices: 5291020--5291065 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
5291010 TATAAATACC
5291020 CCCCTTTTTATGT-GTAATTTG
1 CCCCTTTTT-T-TAGTAATTTG
*
5291041 CCCCTTTTTTTAGTATTTTG
1 CCCCTTTTTTTAGTAATTTG
5291061 CCCCT
1 CCCCT
5291066 AATAATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 13 0.57
21 9 0.39
ACGTcount: A:0.11, C:0.26, G:0.11, T:0.52
Consensus pattern (20 bp):
CCCCTTTTTTTAGTAATTTG
Found at i:5291777 original size:39 final size:41
Alignment explanation
Indices: 5291721--5291826 Score: 108
Period size: 39 Copynumber: 2.6 Consensus size: 41
5291711 CACGTCAGCA
* * * * * *
5291721 AATCACGCTTACGTGGACGCGATTTGTTGCCACGT-AAGT-
1 AATCGCGCTGACGTGGACGCGATTTGCTGACACATCAACTG
* **
5291760 AATCGCGCTGACGTGGACGCGGTTTGCTGACACATCCCCTG
1 AATCGCGCTGACGTGGACGCGATTTGCTGACACATCAACTG
5291801 ACATCGCGCTGACGTGGACGCGATTT
1 A-ATCGCGCTGACGTGGACGCGATTT
5291827 TGGGAAAATG
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
39 29 0.54
40 1 0.02
41 1 0.02
42 23 0.43
ACGTcount: A:0.20, C:0.27, G:0.28, T:0.25
Consensus pattern (41 bp):
AATCGCGCTGACGTGGACGCGATTTGCTGACACATCAACTG
Found at i:5291967 original size:10 final size:10
Alignment explanation
Indices: 5291925--5291977 Score: 60
Period size: 9 Copynumber: 5.7 Consensus size: 10
5291915 ATTAAATTTC
*
5291925 TATAAAATCA
1 TATAAAATTA
*
5291935 TA-AAAAGTA
1 TATAAAATTA
5291944 T-TAAAATTA
1 TATAAAATTA
5291953 T-TAAAATTA
1 TATAAAATTA
5291962 TATAAAATTA
1 TATAAAATTA
5291972 TA-AAAA
1 TATAAAA
5291978 AATCATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
9 26 0.68
10 12 0.32
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (10 bp):
TATAAAATTA
Found at i:5291977 original size:19 final size:19
Alignment explanation
Indices: 5291925--5291977 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
5291915 ATTAAATTTC
*
5291925 TATAAAATCATAAAAAGTA
1 TATAAAATTATAAAAAGTA
* *
5291944 T-TAAAATTATTAAAATTA
1 TATAAAATTATAAAAAGTA
5291962 TATAAAATTATAAAAA
1 TATAAAATTATAAAAA
5291978 AATCATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
TATAAAATTATAAAAAGTA
Found at i:5291985 original size:19 final size:19
Alignment explanation
Indices: 5291945--5291987 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
5291935 TAAAAAGTAT
**
5291945 TAAAATTATTAAAATTATA
1 TAAAATTATTAAAAAAATA
5291964 TAAAATTA-TAAAAAAATCA
1 TAAAATTATTAAAAAAAT-A
5291983 TAAAA
1 TAAAA
5291988 ATTTGAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATTATTAAAAAAATA
Found at i:5292546 original size:16 final size:16
Alignment explanation
Indices: 5292525--5292562 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
5292515 TTTAATATTC
*
5292525 TTTTTAATTTTTTTAA
1 TTTTTAATTTTTATAA
5292541 TTTTTAATTTTTATAA
1 TTTTTAATTTTTATAA
5292557 TTTTTA
1 TTTTTA
5292563 TACACAATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTAATTTTTATAA
Done.