Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 38 of 38
Found at i:7539922 original size:60 final size:63
Alignment explanation
Indices: 7539855--7539991 Score: 156
Period size: 60 Copynumber: 2.2 Consensus size: 63
7539845 CTTCTTAATG
* * * *
7539855 TTTCAATTTTATCCCT-AAATTATGACTATCATTCTAAATTAAT-CCTCAAAC-TTTTGAACA
1 TTTCAATTTCATCCCTCAAATTATAACCATCATTCTAAATTAATCCCCCAAACTTTTTGAACA
* * ** *
7539915 TTTCAATTTCAT-CCTCAAATTATAACCCTCTTTCTAAATTGGTCCCCCAAACTTTTTGAGCA
1 TTTCAATTTCATCCCTCAAATTATAACCATCATTCTAAATTAATCCCCCAAACTTTTTGAACA
*
7539977 TTCCAATTTCATCCC
1 TTTCAATTTCATCCC
7539992 AAACTATACT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
59 3 0.05
60 32 0.51
61 7 0.11
62 19 0.30
63 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (63 bp):
TTTCAATTTCATCCCTCAAATTATAACCATCATTCTAAATTAATCCCCCAAACTTTTTGAACA
Found at i:7540667 original size:10 final size:10
Alignment explanation
Indices: 7540652--7540719 Score: 64
Period size: 10 Copynumber: 6.4 Consensus size: 10
7540642 CAATTAAATG
7540652 ATAAACGAAC
1 ATAAACGAAC
7540662 ATAAACGAAC
1 ATAAACGAAC
*
7540672 GTAAACGAAC
1 ATAAACGAAC
*
7540682 ACAAACGAAGAAAC
1 ATAAAC---G-AAC
*
7540696 ATAAACAAAC
1 ATAAACGAAC
*
7540706 ATAAACAAAC
1 ATAAACGAAC
7540716 ATAA
1 ATAA
7540720 TAAATGAACA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
10 40 0.82
13 1 0.02
14 8 0.16
ACGTcount: A:0.63, C:0.19, G:0.09, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:7540729 original size:23 final size:23
Alignment explanation
Indices: 7540652--7540764 Score: 92
Period size: 23 Copynumber: 5.0 Consensus size: 23
7540642 CAATTAAATG
*
7540652 ATAAACGAACATAAAC-GA-AC-
1 ATAAACGAACATAAACAAACACA
* * *
7540672 GTAAACGAACACAAACGAAGAAAC-
1 ATAAACGAACATAAAC-AA-ACACA
* *
7540696 ATAAACAAACATAAACAAACATA
1 ATAAACGAACATAAACAAACACA
* *
7540719 ATAAATGAACATAAACAAATACA
1 ATAAACGAACATAAACAAACACA
*
7540742 ATAAACGAACA-ACACAAACACA
1 ATAAACGAACATAAACAAACACA
7540764 A
1 A
7540765 ACACAAAAAA
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
20 14 0.19
22 12 0.16
23 32 0.44
24 15 0.21
ACGTcount: A:0.64, C:0.19, G:0.07, T:0.10
Consensus pattern (23 bp):
ATAAACGAACATAAACAAACACA
Found at i:7541039 original size:10 final size:10
Alignment explanation
Indices: 7541024--7541070 Score: 58
Period size: 10 Copynumber: 4.3 Consensus size: 10
7541014 CATTTGTTCA
7541024 AACATAAATG
1 AACATAAATG
7541034 AACATAAATG
1 AACATAAATG
7541044 AACGGACATAAATG
1 -A---ACATAAATG
7541058 AACATAAATG
1 AACATAAATG
7541068 AAC
1 AAC
7541071 GAACATAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.57, C:0.13, G:0.13, T:0.17
Consensus pattern (10 bp):
AACATAAATG
Found at i:7541054 original size:14 final size:13
Alignment explanation
Indices: 7541035--7541079 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
7541025 ACATAAATGA
7541035 ACATAAATGAACGG
1 ACATAAATGAAC-G
7541049 ACATAAATG-A--
1 ACATAAATGAACG
7541059 ACATAAATGAACG
1 ACATAAATGAACG
7541072 AACATAAA
1 -ACATAAA
7541080 CAAACATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 9 0.33
11 1 0.04
13 1 0.04
14 16 0.59
ACGTcount: A:0.58, C:0.13, G:0.13, T:0.16
Consensus pattern (13 bp):
ACATAAATGAACG
Found at i:7541054 original size:24 final size:24
Alignment explanation
Indices: 7541024--7541097 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 24
7541014 CATTTGTTCA
7541024 AACATAAATGAACATAAATGAACG
1 AACATAAATGAACATAAATGAACG
*
7541048 GACATAAATGAACATAAATGAACG
1 AACATAAATGAACATAAATGAACG
**
7541072 AACATAAACAAACATATAATCGAACG
1 AACATAAATGAACATA-AAT-GAACG
7541098 TTCACGAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 36 0.82
25 3 0.07
26 5 0.11
ACGTcount: A:0.57, C:0.15, G:0.12, T:0.16
Consensus pattern (24 bp):
AACATAAATGAACATAAATGAACG
Found at i:7544148 original size:2 final size:2
Alignment explanation
Indices: 7544112--7544140 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7544102 ATAAGAGATA
7544112 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7544141 GTTATATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7556331 original size:32 final size:32
Alignment explanation
Indices: 7556283--7556401 Score: 175
Period size: 32 Copynumber: 3.7 Consensus size: 32
7556273 CGAGGGTTAT
7556283 CTATGTCTTTCGGGACATATGGACAAGATTAC
1 CTATGTCTTTCGGGACATATGGACAAGATTAC
* * *
7556315 CTATGTCATTCAGGACATATGGACAGGATTAC
1 CTATGTCTTTCGGGACATATGGACAAGATTAC
* * * *
7556347 CTATGCCTTTCGGGATATATGAACATGATTAC
1 CTATGTCTTTCGGGACATATGGACAAGATTAC
7556379 CTATGTCTTTCGGGACATATGGA
1 CTATGTCTTTCGGGACATATGGA
7556402 TAATTACTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 75 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (32 bp):
CTATGTCTTTCGGGACATATGGACAAGATTAC
Found at i:7560454 original size:2 final size:2
Alignment explanation
Indices: 7560447--7560475 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7560437 ATAAGAGACA
7560447 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7560476 AGACTTGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7560903 original size:32 final size:32
Alignment explanation
Indices: 7560862--7560997 Score: 186
Period size: 32 Copynumber: 4.3 Consensus size: 32
7560852 GAGTCGAGGG
* *
7560862 TTACCTATGTCTTTCAGGATATATGAACAAGA
1 TTACCTATGTCTTTCGGGACATATGAACAAGA
* *
7560894 TTACCTATGTCTTTCGGGACATATGGACAGGA
1 TTACCTATGTCTTTCGGGACATATGAACAAGA
* * *
7560926 TTACCTATGTATTTCGGGACATATGGACAGGA
1 TTACCTATGTCTTTCGGGACATATGAACAAGA
*
7560958 TTACCTCTGTCTTTCGGGACATATGAAC-AG-
1 TTACCTATGTCTTTCGGGACATATGAACAAGA
7560988 TTACCTATGT
1 TTACCTATGT
7560998 TATTAGGAAC
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
30 9 0.10
31 1 0.01
32 84 0.89
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (32 bp):
TTACCTATGTCTTTCGGGACATATGAACAAGA
Found at i:7561971 original size:18 final size:20
Alignment explanation
Indices: 7561948--7561994 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
7561938 ATAAACTTGT
7561948 ATTTAAA-ATTTA-TAAATA
1 ATTTAAATATTTACTAAATA
7561966 ATTTAAAATATTTACTAAATA
1 ATTT-AAATATTTACTAAATA
7561987 ATATTAAA
1 AT-TTAAA
7561995 CATAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.16
19 3 0.12
20 5 0.20
21 11 0.44
22 2 0.08
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTTAAATATTTACTAAATA
Found at i:7563411 original size:14 final size:17
Alignment explanation
Indices: 7563382--7563428 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
7563372 GCTTTTGGGC
* *
7563382 TATATAAATAATAATAT
1 TATATATATAATATTAT
7563399 T-TATAATATAATATTAT
1 TATAT-ATATAATATTAT
7563416 TATATATATAATA
1 TATATATATAATA
7563429 ACGTATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 3 0.12
17 20 0.77
18 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATATATATAATATTAT
Found at i:7564121 original size:179 final size:178
Alignment explanation
Indices: 7563553--7564178 Score: 905
Period size: 178 Copynumber: 3.5 Consensus size: 178
7563543 GAATTTCTTG
** * * * *
7563553 CTTTGCTGGGAAATTCGTTCCACTACTCTTTCGTGGAGAGTGAATTTCGATCTGATCGAGTTCCT
1 CTTTGCTGAAAAATTCGTTCCACTACTCTTCCGTGGAGAGCGAATTTCGATCTGATCGTGCTCCT
* *
7563618 GCTTCACTACTCTTTTGTGAAGGGTGAGGATTGACTTTGCAAATGATTTGCTTTACTACTCTTCC
66 GCTTCACTACTCTTCTGTGAAGGGTGAGGA-TGAC-TTACAAATGATTTGCTTTACTACTCTTCC
* * *
7563683 GTGAAGGATAAATTTGCATGACTTCATTACTCTTTCATGAAGGCTTCGTA
129 GTGAAGGCTAAATTTTCATGACTTCATTACTCTTTCATGAAGGCTTCATA
* *
7563733 CTTTGCTGAAAAA-TCTGTTCCACTACTCTTCCGCGGAGAGCGAATTTCAATCTGATCGTGCTCC
1 CTTTGCTGAAAAATTC-GTTCCACTACTCTTCCGTGGAGAGCGAATTTCGATCTGATCGTGCTCC
* * * * *
7563797 TGCTTTACTACTCTTCTGTGAAGGTTGAGAATGAATTACAAATGATTTTCTTTACTACTCTTCCG
65 TGCTTCACTACTCTTCTGTGAAGGGTGAGGATGACTTACAAATGATTTGCTTTACTACTCTTCCG
* *
7563862 TGAAGGCTAAATTTTCATGATTTTATTACTCTTTCATGAAGGCTTCATA
130 TGAAGGCTAAATTTTCATGACTTCATTACTCTTTCATGAAGGCTTCATA
* *
7563911 CTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGAGCGAATTTCGATCTGATCGTGCTTCT
1 CTTTGCTGAAAAATTCGTTCCACTACTCTTCCGTGGAGAGCGAATTTCGATCTGATCGTGCTCCT
*
7563976 GCTTCACTACTCTTCTGTGAAGGGTGAGGATGACTTACAAATGATTTGCTTCACTACTCTTTCCG
66 GCTTCACTACTCTTCTGTGAAGGGTGAGGATGACTTACAAATGATTTGCTTTACTACTC-TTCCG
*
7564041 TGAATGCTAAATTTTCATGACTTCATTACTCTTTCATGAAGGCTTCATA
130 TGAAGGCTAAATTTTCATGACTTCATTACTCTTTCATGAAGGCTTCATA
* * * * **
7564090 CTTTGCTGAAAAATTCGTTCCACTACTCTTCCGTGGAAAACGAATTTGGATCTTGCTTATGC-CC
1 CTTTGCTGAAAAATTCGTTCCACTACTCTTCCGTGGAGAGCGAATTTCGATC-TGATCGTGCTCC
*
7564154 TCGCTTCACTACTCTTTTGTGAAGG
65 T-GCTTCACTACTCTTCTGTGAAGG
7564179 CTGAATTTAC
Statistics
Matches: 399, Mismatches: 42, Indels: 10
0.88 0.09 0.02
Matches are distributed among these distances:
178 184 0.46
179 107 0.27
180 108 0.27
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (178 bp):
CTTTGCTGAAAAATTCGTTCCACTACTCTTCCGTGGAGAGCGAATTTCGATCTGATCGTGCTCCT
GCTTCACTACTCTTCTGTGAAGGGTGAGGATGACTTACAAATGATTTGCTTTACTACTCTTCCGT
GAAGGCTAAATTTTCATGACTTCATTACTCTTTCATGAAGGCTTCATA
Found at i:7564301 original size:42 final size:42
Alignment explanation
Indices: 7564242--7564564 Score: 230
Period size: 42 Copynumber: 7.5 Consensus size: 42
7564232 GAATCTGTTT
*
7564242 CACTACTCTTCCATGAAGTTCAGATTCAAACTTGGATTACTC
1 CACTACTCTTCCGTGAAGTTCAGATTCAAACTTGGATTACTC
* *
7564284 CACTACTCTTCCGTGAAGTTC----TCATACTTTGCTGAAAAATCTATTC
1 CACTACTCTTCCGTGAAGTTCAGATTCAAAC-TTG--G----AT-TACTC
* * * * * * *
7564330 CACTACTCTTTCATGGAGTTCAGACTAAAAGTTGGATTACTT
1 CACTACTCTTCCGTGAAGTTCAGATTCAAACTTGGATTACTC
* * *
7564372 CACTAATCTTTCGTGAAGTTTAGATTCAAACTTGGATTACTC
1 CACTACTCTTCCGTGAAGTTCAGATTCAAACTTGGATTACTC
* * * *
7564414 CACTACTCTTCTGTGAAGTTC----TCATACTTTGCTGAAAAATCAATTC
1 CACTACTCTTCCGTGAAGTTCAGATTCAAAC-TTG--G----AT-TACTC
* * * * *
7564460 CACTACTCTTTCGTGGAGTTCAGACTAAAACTTGGATTACTT
1 CACTACTCTTCCGTGAAGTTCAGATTCAAACTTGGATTACTC
7564502 CACTACTCTTCCGTGAAGTTCAGATTCAAACTTGGATTACTC
1 CACTACTCTTCCGTGAAGTTCAGATTCAAACTTGGATTACTC
**
7564544 CACTACTCTTCTTTGAAGTTC
1 CACTACTCTTCCGTGAAGTTC
7564565 TCATACTTTG
Statistics
Matches: 216, Mismatches: 41, Indels: 48
0.71 0.13 0.16
Matches are distributed among these distances:
38 10 0.05
39 6 0.03
41 2 0.01
42 132 0.61
43 4 0.02
45 4 0.02
46 43 0.20
47 2 0.01
49 6 0.03
50 7 0.03
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (42 bp):
CACTACTCTTCCGTGAAGTTCAGATTCAAACTTGGATTACTC
Found at i:7564411 original size:130 final size:130
Alignment explanation
Indices: 7564240--7564612 Score: 622
Period size: 130 Copynumber: 2.9 Consensus size: 130
7564230 CAGAATCTGT
* *
7564240 TTCACTACTCTTCCATGAAGTTCAGATTCAAACTTGGATTACTCCACTACTCTTCCGTGAAGTTC
1 TTCACTACTCTTCCGTGAAGTTCAGATTCAAACTTGGATTACTCCACTACTCTTCTGTGAAGTTC
* * *
7564305 TCATACTTTGCTGAAAAATCTATTCCACTACTCTTTCATGGAGTTCAGACTAAAAGTTGGATTAC
66 TCATACTTTGCTGAAAAATCAATTCCACTACTCTTTCGTGGAGTTCAGACTAAAACTTGGATTAC
* * *
7564370 TTCACTAATCTTTCGTGAAGTTTAGATTCAAACTTGGATTACTCCACTACTCTTCTGTGAAGTTC
1 TTCACTACTCTTCCGTGAAGTTCAGATTCAAACTTGGATTACTCCACTACTCTTCTGTGAAGTTC
7564435 TCATACTTTGCTGAAAAATCAATTCCACTACTCTTTCGTGGAGTTCAGACTAAAACTTGGATTAC
66 TCATACTTTGCTGAAAAATCAATTCCACTACTCTTTCGTGGAGTTCAGACTAAAACTTGGATTAC
*
7564500 TTCACTACTCTTCCGTGAAGTTCAGATTCAAACTTGGATTACTCCACTACTCTTCTTTGAAGTTC
1 TTCACTACTCTTCCGTGAAGTTCAGATTCAAACTTGGATTACTCCACTACTCTTCTGTGAAGTTC
** * *
7564565 TCATACTTTGCTG-AAAATCCGTTTCACTACTCTTTTGTGGAGTTCAGA
66 TCATACTTTGCTGAAAAATCAATTCCACTACTCTTTCGTGGAGTTCAGA
7564613 TTTTGGCCTT
Statistics
Matches: 227, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
129 31 0.14
130 196 0.86
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (130 bp):
TTCACTACTCTTCCGTGAAGTTCAGATTCAAACTTGGATTACTCCACTACTCTTCTGTGAAGTTC
TCATACTTTGCTGAAAAATCAATTCCACTACTCTTTCGTGGAGTTCAGACTAAAACTTGGATTAC
Found at i:7565237 original size:22 final size:22
Alignment explanation
Indices: 7565209--7565259 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
7565199 TTTACAGCTC
*
7565209 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCGA
*
7565231 TCATCTTTGAAAAGATAATCGA
1 TCATCTTTGAAAAGAGAATCGA
7565253 TCATCTT
1 TCATCTT
7565260 CACAAAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCGA
Found at i:7568269 original size:219 final size:216
Alignment explanation
Indices: 7567857--7568280 Score: 821
Period size: 216 Copynumber: 1.9 Consensus size: 216
7567847 CTGAGTTATC
7567857 TCTTGGTCAAATCCCATCATCATCTTTCCTAACTGGAAATTGAGCTCAGTTTGTATTTCAGAACA
1 TCTTGGTCAAATCCCATCATCATCTTTCCTAACTGGAAATTGAGCTCAGTTTGTATTTCAGAACA
7567922 AATCTCTTTAGTGGAAATTATTGTATCCTGGTTCTGGATGTTTCTTGCAGCTGTACTGGAGTAGT
66 AATCTCTTTAGTGGAAATTATTGTATCCTGGTTCTGGATGTTTCTTGCAGCTGTACTGGAGTAGT
7567987 ATCCACAATTCTTTAAATTGCCCTCGGCTTCCCTTGATTTCAGAAAATATGATATGAGTGTCTCC
131 ATCCACAATTCTTTAAATTGCCCTCGGCTTCCCTTGATTTCAGAAAATATGATATGAGTGTCTCC
7568052 AAGGTTGTATATTATTTCTTT
196 AAGGTTGTATATTATTTCTTT
7568073 TCTTGGTCAAATCCCATCATCATCTTTCCTAACTGGAAATTGAGCTCAGTTTGTATTTCAGAACA
1 TCTTGGTCAAATCCCATCATCATCTTTCCTAACTGGAAATTGAGCTCAGTTTGTATTTCAGAACA
7568138 AATCTCTTTAGTGGAAATTATTGTATCCTGGTTCTGGATGTTTCTTGCAGCTGTACTTGGAGTAG
66 AATCTCTTTAGTGGAAATTATTGTATCCTGGTTCTGGATGTTTCTTGCAGCTGTAC-TGGAGTAG
7568203 TATCCACTAAATTCTTTAAATTGCCCTCGGCTTCCCTTGATTTCAGAAAATATGATATGAGTGTC
130 TATCCAC--AATTCTTTAAATTGCCCTCGGCTTCCCTTGATTTCAGAAAATATGATATGAGTGTC
7568268 TCCAAGGTTGTAT
193 TCCAAGGTTGTAT
7568281 CTACCTTATT
Statistics
Matches: 205, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
216 121 0.59
217 15 0.07
219 69 0.34
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (216 bp):
TCTTGGTCAAATCCCATCATCATCTTTCCTAACTGGAAATTGAGCTCAGTTTGTATTTCAGAACA
AATCTCTTTAGTGGAAATTATTGTATCCTGGTTCTGGATGTTTCTTGCAGCTGTACTGGAGTAGT
ATCCACAATTCTTTAAATTGCCCTCGGCTTCCCTTGATTTCAGAAAATATGATATGAGTGTCTCC
AAGGTTGTATATTATTTCTTT
Found at i:7573725 original size:45 final size:45
Alignment explanation
Indices: 7573630--7573749 Score: 199
Period size: 45 Copynumber: 2.7 Consensus size: 45
7573620 GGTAAACATG
7573630 AAAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGCAAGTATATTGGT
*
7573674 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGCAAGTATATTGGT
*
7573719 AGAATAAGCTTACGAGCTTATAGG-ATAAATG
1 AAAATAAGCTTACGAGCTTAT-GGAATAAATG
7573750 ATAATAAATT
Statistics
Matches: 72, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
44 26 0.36
45 44 0.61
46 2 0.03
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGCAAGTATATTGGT
Found at i:7576231 original size:16 final size:17
Alignment explanation
Indices: 7576197--7576242 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
7576187 CTTCGGGCTA
7576197 TATAA-ATAATAATATT
1 TATAATATAATAATATT
*
7576213 TATAATATAATATTA-T
1 TATAATATAATAATATT
*
7576229 TATTATAT-ATAATA
1 TATAATATAATAATA
7576243 ACGTATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 5 0.19
16 13 0.50
17 8 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TATAATATAATAATATT
Found at i:7582217 original size:149 final size:149
Alignment explanation
Indices: 7581946--7582632 Score: 1024
Period size: 149 Copynumber: 4.6 Consensus size: 149
7581936 TTAACAAAAT
* * * *
7581946 AAAATTGATAGTTAGAATATTAAATGTCTAATTTACCCAATTCTATTTTAGGTTAAAGAAAATAA
1 AAAAGTGATAGTTGGAATATTAAATGTCTAATTTACCCAATTCTATTTTATGTTAAAGAAAAGAA
*
7582011 AATTAATTTTAATTATTTATAAGCGGGAACAACCACACAAGCAATTTTATATAACAATCATTTTA
66 AATTAATTTTAATTATTTATAAGCGGGAACAACCACACAAGCAATTTTATATGACAATCATTTTA
7582076 ACGCTTTAGGATTGTTCTTA
131 ACG-TTTAGGATTGTTCTTA
* * *
7582096 AAAAGTGATAGTTGAAATATTAAATGTATAATTTATCCAATTCTATTTTATGTTAAA-AAAAGAA
1 AAAAGTGATAGTTGGAATATTAAATGTCTAATTTACCCAATTCTATTTTATGTTAAAGAAAAGAA
* * * ** *
7582160 AATTAATTTTAATTATTTATAAGTGGGTACATCTGCACAAGTAATTTTATATGACAATCATTTTA
66 AATTAATTTTAATTATTTATAAGCGGGAACAACCACACAAGCAATTTTATATGACAATCATTTTA
*
7582225 ACGGTTTAGGATGGTTCTTAA
131 AC-GTTTAGGATTGTTCTT-A
*
7582246 AAAAGTGATAGTTGGAATATT-AA-GTCTAATTTACCCAATTTTATTTTATGTTAAAGAAAAGAA
1 AAAAGTGATAGTTGGAATATTAAATGTCTAATTTACCCAATTCTATTTTATGTTAAAGAAAAGAA
*
7582309 AATTAATTTTAATTATTTATAAGCGGG-ACAACCACACAAGCAGTTTTATATGACAATCATTTTA
66 AATTAATTTTAATTATTTATAAGCGGGAACAACCACACAAGCAATTTTATATGACAATCATTTTA
*
7582373 ACAGTTTAGAATTGTTCTTA
131 AC-GTTTAGGATTGTTCTTA
* * *
7582393 AAAAGTGAGAGTTGGAATATTAAATGTCTAATTTACCCAATTCTATTTTGTGTTAAAGAAAATAA
1 AAAAGTGATAGTTGGAATATTAAATGTCTAATTTACCCAATTCTATTTTATGTTAAAGAAAAGAA
** *
7582458 AATTAATTTTAATTATTTATAAGC-GGAACAGTCGCACAAGCAATTTTATATGACAATCATTTTA
66 AATTAATTTTAATTATTTATAAGCGGGAACAACCACACAAGCAATTTTATATGACAATCATTTTA
* *
7582522 ATAGTTTATGATTGTTCTTA
131 A-CGTTTAGGATTGTTCTTA
* * *
7582542 AAAAGTGATAGTTGGAATATTAAATGTCTAATTTATCTAATTTTATTTTATGTTAAAGAAAAGAA
1 AAAAGTGATAGTTGGAATATTAAATGTCTAATTTACCCAATTCTATTTTATGTTAAAGAAAAGAA
7582607 AATTAAATTTTAATTATTTATAAGCG
66 AATT-AATTTTAATTATTTATAAGCG
7582633 AGTATAGTCG
Statistics
Matches: 483, Mismatches: 45, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
147 21 0.04
148 81 0.17
149 288 0.60
150 93 0.19
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (149 bp):
AAAAGTGATAGTTGGAATATTAAATGTCTAATTTACCCAATTCTATTTTATGTTAAAGAAAAGAA
AATTAATTTTAATTATTTATAAGCGGGAACAACCACACAAGCAATTTTATATGACAATCATTTTA
ACGTTTAGGATTGTTCTTA
Found at i:7582573 original size:298 final size:300
Alignment explanation
Indices: 7581946--7582632 Score: 1082
Period size: 297 Copynumber: 2.3 Consensus size: 300
7581936 TTAACAAAAT
* * * * *
7581946 AAAATTGATAGTTAGAATATTAAATGTCTAATTTACCCAATTCTATTTTAGGTTAAAGAAAATAA
1 AAAAGTGATAGTTGGAATATTAAATGTCTAATTTACCCAATTTTATTTTATGTTAAAGAAAAGAA
7582011 AATTAATTTTAATTATTTATAAGCGGGAACAACCACACAAGCAATTTTATATAACAATCATTTTA
66 AATTAATTTTAATTATTTATAAGCGGGAACAACCACACAAGCAATTTTATATAACAATCATTTTA
* * *
7582076 ACGCTTTAGGATTGTTCTTAAAAAGTGATAGTTGAAATATTAAATGTATAATTTATCCAATTCTA
131 ACGCTTTAGAATTGTTCTTAAAAAGTGAGAGTTGAAATATTAAATGTATAATTTACCCAATTCTA
* * *
7582141 TTTTATGTTAAAAAAAGAAAATTAATTTTAATTATTTATAAGTGGGTACATCTGCACAAGTAATT
196 TTTTATGTTAAAAAAAGAAAATTAATTTTAATTATTTATAAGTCGGAACATCTGCACAAGCAATT
*
7582206 TTATATGACAATCATTTTAACGGTTTAGGATGGTTCTTAA
261 TTATATGACAATCATTTTAACAGTTTAGGATGGTTCTTAA
7582246 AAAAGTGATAGTTGGAATATT-AA-GTCTAATTTACCCAATTTTATTTTATGTTAAAGAAAAGAA
1 AAAAGTGATAGTTGGAATATTAAATGTCTAATTTACCCAATTTTATTTTATGTTAAAGAAAAGAA
* *
7582309 AATTAATTTTAATTATTTATAAGCGGG-ACAACCACACAAGCAGTTTTATATGACAATCATTTTA
66 AATTAATTTTAATTATTTATAAGCGGGAACAACCACACAAGCAATTTTATATAACAATCATTTTA
* *
7582373 ACAG-TTTAGAATTGTTCTTAAAAAGTGAGAGTTGGAATATTAAATGTCTAATTTACCCAATTCT
131 AC-GCTTTAGAATTGTTCTTAAAAAGTGAGAGTTGAAATATTAAATGTATAATTTACCCAATTCT
* *
7582437 ATTTTGTGTTAAAGAAAATAAAATTAATTTTAATTATTTATAAG-CGGAACAGTC-GCACAAGCA
195 ATTTTATGTTAAA-AAAAGAAAATTAATTTTAATTATTTATAAGTCGGAACA-TCTGCACAAGCA
* * *
7582500 ATTTTATATGACAATCATTTTAATAGTTTATGATTGTTCTT-A
258 ATTTTATATGACAATCATTTTAACAGTTTAGGATGGTTCTTAA
* *
7582542 AAAAGTGATAGTTGGAATATTAAATGTCTAATTTATCTAATTTTATTTTATGTTAAAGAAAAGAA
1 AAAAGTGATAGTTGGAATATTAAATGTCTAATTTACCCAATTTTATTTTATGTTAAAGAAAAGAA
7582607 AATTAAATTTTAATTATTTATAAGCG
66 AATT-AATTTTAATTATTTATAAGCG
7582633 AGTATAGTCG
Statistics
Matches: 358, Mismatches: 23, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
296 22 0.06
297 156 0.44
298 138 0.39
299 23 0.06
300 19 0.05
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (300 bp):
AAAAGTGATAGTTGGAATATTAAATGTCTAATTTACCCAATTTTATTTTATGTTAAAGAAAAGAA
AATTAATTTTAATTATTTATAAGCGGGAACAACCACACAAGCAATTTTATATAACAATCATTTTA
ACGCTTTAGAATTGTTCTTAAAAAGTGAGAGTTGAAATATTAAATGTATAATTTACCCAATTCTA
TTTTATGTTAAAAAAAGAAAATTAATTTTAATTATTTATAAGTCGGAACATCTGCACAAGCAATT
TTATATGACAATCATTTTAACAGTTTAGGATGGTTCTTAA
Found at i:7583436 original size:22 final size:22
Alignment explanation
Indices: 7583409--7583450 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
7583399 AAACCATTCA
7583409 GGGGGGAATCGGTACCCTCTTG
1 GGGGGGAATCGGTACCCTCTTG
*
7583431 GGGGGGAATCGGTTCCCTCT
1 GGGGGGAATCGGTACCCTCT
7583451 GAGCAATCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.24, G:0.40, T:0.24
Consensus pattern (22 bp):
GGGGGGAATCGGTACCCTCTTG
Found at i:7586110 original size:23 final size:23
Alignment explanation
Indices: 7586060--7586109 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
7586050 ATTCCCCTGT
7586060 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTTCCCCTTCAA
*
7586083 AGGGGGAATCGGTT-CCC-TCAA
1 GGGGGGAATCGGTTCCCCTTCAA
7586104 GGGGGG
1 GGGGGG
7586110 GTCGATTCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.36
22 3 0.12
23 13 0.52
ACGTcount: A:0.18, C:0.22, G:0.42, T:0.18
Consensus pattern (23 bp):
GGGGGGAATCGGTTCCCCTTCAA
Found at i:7591901 original size:22 final size:22
Alignment explanation
Indices: 7591874--7591915 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7591864 AAACCATTCA
7591874 GGGGGGAATCGGTACCCTCTTG
1 GGGGGGAATCGGTACCCTCTTG
* *
7591896 GGGGGGAATTGGTTCCCTCT
1 GGGGGGAATCGGTACCCTCT
7591916 GAGCAATCTG
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:0.12, C:0.21, G:0.40, T:0.26
Consensus pattern (22 bp):
GGGGGGAATCGGTACCCTCTTG
Found at i:7597381 original size:80 final size:78
Alignment explanation
Indices: 7597237--7597386 Score: 180
Period size: 80 Copynumber: 1.9 Consensus size: 78
7597227 AATTAATAAT
* *
7597237 AAAATATTATTTAATTAATTCAATTAAATATACATTAAAGACTTATAATCTGAATTATAATC-TT
1 AAAATATTATTTAATTAATTCAATTAAATATACATTAAAGACTTATAATCTAAATTACAATCTTT
7597301 TAATGTTTATTTA
66 TAATGTTTATTTA
* * * *
7597314 AAAAT-TTATTTAATT-ATTCCTAATTATATATACCAATTAAAAGAGTTGTAATCTAAATTACAT
1 AAAATATTATTTAATTAATT-C-AATTAAATATA-C-ATT-AAAGACTTATAATCTAAATTACAA
7597377 TCTTTTAATG
61 TCTTTTAATG
7597387 CTTACTTACT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
75 3 0.05
76 11 0.18
77 15 0.25
78 1 0.02
79 3 0.05
80 21 0.34
81 7 0.11
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.45
Consensus pattern (78 bp):
AAAATATTATTTAATTAATTCAATTAAATATACATTAAAGACTTATAATCTAAATTACAATCTTT
TAATGTTTATTTA
Found at i:7599825 original size:2 final size:2
Alignment explanation
Indices: 7599818--7599868 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
7599808 TAAAAACATA
7599818 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7599860 AT AT AT AT A
1 AT AT AT AT A
7599869 CTATTTATTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7600205 original size:27 final size:27
Alignment explanation
Indices: 7600169--7600227 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
7600159 GAGATAAAAC
* *
7600169 ATAAATTATCATAATTACTTCAAAATA
1 ATAAAATATCATAAATACTTCAAAATA
*
7600196 TTAAAATATCATAAATACTTCAAAATA
1 ATAAAATATCATAAATACTTCAAAATA
7600223 ATAAA
1 ATAAA
7600228 TTCAACTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (27 bp):
ATAAAATATCATAAATACTTCAAAATA
Found at i:7601599 original size:21 final size:21
Alignment explanation
Indices: 7601565--7601621 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
7601555 CAACATCTAC
7601565 TAAATCA--AAAATCCATCCT
1 TAAATCATTAAAATCCATCCT
*
7601584 TAAATCATTCAAATCCATCCT
1 TAAATCATTAAAATCCATCCT
7601605 TAAATCATTAAAATCCA
1 TAAATCATTAAAATCCA
7601622 ACTTGTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.21
21 27 0.79
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAATCATTAAAATCCATCCT
Found at i:7608905 original size:18 final size:17
Alignment explanation
Indices: 7608882--7608916 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
7608872 TGACCGGTCA
7608882 CGACCCGACCCGTTGACC
1 CGACCCGA-CCGTTGACC
7608900 CGACCCGACCGTTGACC
1 CGACCCGACCGTTGACC
7608917 AGTGCTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.11
Consensus pattern (17 bp):
CGACCCGACCGTTGACC
Found at i:7608978 original size:29 final size:29
Alignment explanation
Indices: 7608918--7609013 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 29
7608908 CCGTTGACCA
* * * ** *
7608918 GTGCTATTCTGGGAATTTATTCGATTTTG
1 GTGCTATTATGGGAATTAATTCAAAATGG
7608947 GTGCTATTATGGGAATTAATTCAAAATGG
1 GTGCTATTATGGGAATTAATTCAAAATGG
* * *
7608976 GTGCTATTTTGGTAATTAATTCGAAAAGGG
1 GTGCTATTATGGGAATTAATTC-AAAATGG
7609006 GTGCTATT
1 GTGCTATT
7609014 TCTGTAAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
29 43 0.75
30 14 0.25
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.41
Consensus pattern (29 bp):
GTGCTATTATGGGAATTAATTCAAAATGG
Found at i:7615294 original size:17 final size:17
Alignment explanation
Indices: 7615272--7615322 Score: 93
Period size: 17 Copynumber: 3.0 Consensus size: 17
7615262 CCGGTAGCAT
7615272 GGCCGGTTCGCTAACCG
1 GGCCGGTTCGCTAACCG
*
7615289 GGCCGGTTCGCTAACCA
1 GGCCGGTTCGCTAACCG
7615306 GGCCGGTTCGCTAACCG
1 GGCCGGTTCGCTAACCG
7615323 ATCCGGTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.14, C:0.35, G:0.33, T:0.18
Consensus pattern (17 bp):
GGCCGGTTCGCTAACCG
Found at i:7615328 original size:17 final size:17
Alignment explanation
Indices: 7615273--7615331 Score: 84
Period size: 17 Copynumber: 3.5 Consensus size: 17
7615263 CGGTAGCATG
*
7615273 GCCGGTTCGCTAACCGG
1 GCCGGTTCGCTAACCGA
7615290 GCCGGTTCGCTAACC-A
1 GCCGGTTCGCTAACCGA
7615306 GGCCGGTTCGCTAACCGA
1 -GCCGGTTCGCTAACCGA
*
7615324 TCCGGTTC
1 GCCGGTTC
7615332 TGAAAACCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 37 0.97
18 1 0.03
ACGTcount: A:0.14, C:0.36, G:0.31, T:0.20
Consensus pattern (17 bp):
GCCGGTTCGCTAACCGA
Found at i:7617066 original size:19 final size:19
Alignment explanation
Indices: 7617042--7617081 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
7617032 GTAAGGTAAC
7617042 ACATTTCTAACACTTCTAT
1 ACATTTCTAACACTTCTAT
7617061 ACATTTCTAACACTTCTAT
1 ACATTTCTAACACTTCTAT
7617080 AC
1 AC
7617082 CGCTTGTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (19 bp):
ACATTTCTAACACTTCTAT
Found at i:7618722 original size:30 final size:30
Alignment explanation
Indices: 7618688--7618750 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
7618678 GATGAATGCC
*
7618688 GAATTAGGGTTTAAAAAAGGGAAATTGAGG
1 GAATTAGGGATTAAAAAAGGGAAATTGAGG
* * * * *
7618718 GAATTGGGGATTGAGAAGGGGAAATTGGGG
1 GAATTAGGGATTAAAAAAGGGAAATTGAGG
7618748 GAA
1 GAA
7618751 ATTTGAGAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.21
Consensus pattern (30 bp):
GAATTAGGGATTAAAAAAGGGAAATTGAGG
Found at i:7620420 original size:20 final size:20
Alignment explanation
Indices: 7620395--7620551 Score: 253
Period size: 20 Copynumber: 7.8 Consensus size: 20
7620385 TTGGTTTACG
7620395 GAATGTAAGATTACCAGT-A
1 GAATGTAAGATTACCAGTGA
* *
7620414 TGAATGTAAAATTAACAGTGA
1 -GAATGTAAGATTACCAGTGA
*
7620435 GAATGTAAGATTAACAGTGA
1 GAATGTAAGATTACCAGTGA
7620455 GAATGTAAGATTACCAGTGA
1 GAATGTAAGATTACCAGTGA
*
7620475 GAATGTAAGATTACCAGTGG
1 GAATGTAAGATTACCAGTGA
*
7620495 GAATGTAAGATTACCAGTGG
1 GAATGTAAGATTACCAGTGA
7620515 GAATGTAAGATTACCAGTGA
1 GAATGTAAGATTACCAGTGA
7620535 GAATGTAAGATTACCAG
1 GAATGTAAGATTACCAG
7620552 GGAATAAGAT
Statistics
Matches: 130, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
20 129 0.99
21 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.25
Consensus pattern (20 bp):
GAATGTAAGATTACCAGTGA
Found at i:7620571 original size:15 final size:16
Alignment explanation
Indices: 7620460--7620564 Score: 66
Period size: 20 Copynumber: 5.6 Consensus size: 16
7620450 AGTGAGAATG
7620460 TAAGATTACCAGTGAGAA
1 TAAGATTACCAG-G-GAA
7620478 TGTAAGATTACCAGTGGGAA
1 --TAAGATTACCA--GGGAA
7620498 TGTAAGATTACCAGTGGGAA
1 --TAAGATTACCA--GGGAA
7620518 TGTAAGATTACCAGTGAGAA
1 --TAAGATTACCAG-G-GAA
7620538 TGTAAGATTACCAGGGAA
1 --TAAGATTACCAGGGAA
7620556 TAAGATTAC
1 TAAGATTAC
7620565 TGGGAATGTT
Statistics
Matches: 81, Mismatches: 0, Indels: 12
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.11
18 4 0.05
19 2 0.02
20 64 0.79
21 1 0.01
22 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.25
Consensus pattern (16 bp):
TAAGATTACCAGGGAA
Found at i:7620670 original size:71 final size:71
Alignment explanation
Indices: 7620579--7620721 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 71
7620569 AATGTTGTAT
*
7620579 TTTGTGTTTGGTTGGTTTAGCAGGAATGTAAGATTACCGTGTTGGGTTAAAGGAATAAAAGATTA
1 TTTGTGTTTGGTTGGTTTAGCAAGAATGTAAGATTACCGTGTTGGGTTAAAGGAATAAAAGATTA
7620644 TTGGAA
66 TTGGAA
* *
7620650 TTTGTGTTTGGTTGGTTTAGCAAGAATGTAAGATTACCGTGTTTGGTTAAATGAATAAAAGATTA
1 TTTGTGTTTGGTTGGTTTAGCAAGAATGTAAGATTACCGTGTTGGGTTAAAGGAATAAAAGATTA
7620715 TTGGAA
66 TTGGAA
7620721 T
1 T
7620722 GTATATTTGA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.30, C:0.04, G:0.27, T:0.38
Consensus pattern (71 bp):
TTTGTGTTTGGTTGGTTTAGCAAGAATGTAAGATTACCGTGTTGGGTTAAAGGAATAAAAGATTA
TTGGAA
Found at i:7628824 original size:13 final size:13
Alignment explanation
Indices: 7628806--7628831 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7628796 TACTTTTAGA
7628806 GCACTTGTAATAC
1 GCACTTGTAATAC
7628819 GCACTTGTAATAC
1 GCACTTGTAATAC
7628832 TTGCTTCCTA
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:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
GCACTTGTAATAC
Found at i:7628863 original size:2 final size:2
Alignment explanation
Indices: 7628858--7628926 Score: 52
Period size: 2 Copynumber: 35.5 Consensus size: 2
7628848 CATGTGTGTG
* * * * * *
7628858 TA TA TA TA TA TA TA TA -A TG TG TG TG TG TA TA TA TA TA -A TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
7628898 TG TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7628927 TCTACGATCA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
1 2 0.03
2 59 0.97
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7628888 original size:21 final size:21
Alignment explanation
Indices: 7628854--7628915 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
7628844 TTATCATGTG
*
7628854 TGTGTATATATATATATATAA
1 TGTGTGTATATATATATATAA
* *
7628875 TGTGTGTGTGTATATATATAA
1 TGTGTGTATATATATATATAA
7628896 TGTGTGTATATATATATATA
1 TGTGTGTATATATATATATA
7628916 TATATATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (21 bp):
TGTGTGTATATATATATATAA
Found at i:7628890 original size:17 final size:19
Alignment explanation
Indices: 7628862--7628913 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 19
7628852 TGTGTGTATA
7628862 TATATATATATAATGTGTGTG
1 TATATATATATAA--TGTGTG
*
7628883 TGTATATATATAATGTGTG
1 TATATATATATAATGTGTG
7628902 TATATATATATA
1 TATATATATATA
7628914 TATATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
21 12 0.41
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (19 bp):
TATATATATATAATGTGTG
Found at i:7636944 original size:15 final size:15
Alignment explanation
Indices: 7636924--7637011 Score: 79
Period size: 15 Copynumber: 5.5 Consensus size: 15
7636914 TAATAAGGTT
7636924 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
7636939 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
7636954 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
7636973 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
*
7636991 ATATATTTT-AAATA
1 ATTTATTTTAAAATA
7637005 ATTTATT
1 ATTTATT
7637012 AGTATGGATT
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
14 11 0.18
15 29 0.48
16 4 0.07
17 2 0.03
18 1 0.02
19 1 0.02
20 2 0.03
21 4 0.07
22 6 0.10
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:7636981 original size:22 final size:22
Alignment explanation
Indices: 7636956--7637056 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
7636946 TTAAAATAAA
*
7636956 TTATTATAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
** * *
7636978 TTATTTTAAAATAATATATTTTAA
1 TTATTTTAAAAT-ATGGA-TTGAT
* * * *
7637002 ATAATTTATTAGTATGGATTGAT
1 TTATTTTA-AAATATGGATTGAT
7637025 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
7637047 TTATTTTAAA
1 TTATTTTAAA
7637057 TAATTTATTA
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
22 33 0.56
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (22 bp):
TTATTTTAAAATATGGATTGAT
Found at i:7637032 original size:32 final size:32
Alignment explanation
Indices: 7636994--7637088 Score: 120
Period size: 32 Copynumber: 3.3 Consensus size: 32
7636984 TAAAATAATA
7636994 TATTTTAAATAATTTATTAGTATGGATTGATT
1 TATTTTAAATAATTTATTAGTATGGATTGATT
7637026 TA-TTT---TAA---A--A-TATGGATTGATT
1 TATTTTAAATAATTTATTAGTATGGATTGATT
7637048 TATTTTAAATAATTTATTAGTATGGATTGATT
1 TATTTTAAATAATTTATTAGTATGGATTGATT
7637080 TATTTTAAA
1 TATTTTAAA
7637089 ATATGAATTT
Statistics
Matches: 53, Mismatches: 0, Indels: 20
0.73 0.00 0.27
Matches are distributed among these distances:
22 14 0.26
23 4 0.08
25 1 0.02
26 3 0.06
28 3 0.06
29 1 0.02
31 4 0.08
32 23 0.43
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
TATTTTAAATAATTTATTAGTATGGATTGATT
Found at i:7637057 original size:54 final size:54
Alignment explanation
Indices: 7636994--7637412 Score: 485
Period size: 54 Copynumber: 7.7 Consensus size: 54
7636984 TAAAATAATA
7636994 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
1 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
* *
7637048 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTTATT
1 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
*
7637102 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA---ATTTATT
1 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
* * ** * * * * *
7637152 TGTATGGATTGATTTATTTTAAAATATTGATTAATTTATTTTAAAATATGGATTGATT
1 TATTTTAAATAATTTA--TT--AGTATGGATTGATTTATTTTAAAATATGGATTGATT
*
7637210 TATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATT
1 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
7637264 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
1 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
* * * * * *
7637318 TATTATT--ATAGTTCTA-T-GGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
1 TATT-TTAAATAATT-TATTAGTATGGATTGA-TTT--AT--TTTA-AAATATGGATTGATT
* *
7637376 TATTTTAAATAATTTATTTGTATAGATTGATTTATTT
1 TATTTTAAATAATTTATTAGTATGGATTGATTTATTT
7637413 ATTTTAAATA
Statistics
Matches: 312, Mismatches: 33, Indels: 39
0.81 0.09 0.10
Matches are distributed among these distances:
50 17 0.05
52 10 0.03
53 14 0.04
54 198 0.63
55 11 0.04
56 2 0.01
57 8 0.03
58 35 0.11
59 9 0.03
60 8 0.03
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.53
Consensus pattern (54 bp):
TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
Found at i:7637093 original size:22 final size:22
Alignment explanation
Indices: 7637068--7637110 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7637058 AATTTATTAG
*
7637068 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
7637090 TATGAATTTATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
7637111 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:7637140 original size:32 final size:32
Alignment explanation
Indices: 7637090--7637174 Score: 143
Period size: 32 Copynumber: 2.7 Consensus size: 32
7637080 TATTTTAAAA
* *
7637090 TATGAATTTATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
7637122 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
7637154 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
7637175 ATATTGATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:7637183 original size:22 final size:22
Alignment explanation
Indices: 7637154--7637218 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
7637144 AATTTATTTG
7637154 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
* *
7637176 TATTGATTAATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
7637198 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
7637219 TAATTTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:7637243 original size:32 final size:32
Alignment explanation
Indices: 7637198--7637304 Score: 135
Period size: 32 Copynumber: 3.7 Consensus size: 32
7637188 TATTTTAAAA
7637198 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
7637230 TATGAATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
7637252 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
7637284 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
7637305 ATATGGATTG
Statistics
Matches: 63, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
22 13 0.21
23 4 0.06
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.06
32 34 0.54
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:7637255 original size:22 final size:22
Alignment explanation
Indices: 7637230--7637272 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
7637220 AATTTATTAG
7637230 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
7637252 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
7637273 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:7637298 original size:18 final size:18
Alignment explanation
Indices: 7637275--7637322 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
7637265 ATTTTAAATA
*
7637275 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
7637293 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
7637315 ATTTATTA
1 ATTTATTA
7637323 TTATAGTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:7637309 original size:22 final size:22
Alignment explanation
Indices: 7637284--7637352 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
7637274 AATTTATTAG
7637284 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
**
7637306 TATGGATTGATTTATTATTATAGTTC
1 TATGGATTGATTTATT-TTA-A--AA
7637332 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
7637353 TAATTTATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 16 0.40
23 3 0.08
24 2 0.05
25 3 0.08
26 16 0.40
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:7637416 original size:26 final size:26
Alignment explanation
Indices: 7637387--7637464 Score: 61
Period size: 26 Copynumber: 3.0 Consensus size: 26
7637377 ATTTTAAATA
*
7637387 ATTTATTTGTATAGATTGATTTATTT
1 ATTTAATTGTATAGATTGATTTATTT
* * **
7637413 ATTTTAAAT-AATTTATTGATTTA-TT
1 A-TTTAATTGTATAGATTGATTTATTT
* *
7637438 ATTGTAGTTGTATGGATTGATTTATTT
1 ATT-TAATTGTATAGATTGATTTATTT
7637465 TAAATAATTT
Statistics
Matches: 38, Mismatches: 10, Indels: 7
0.69 0.18 0.13
Matches are distributed among these distances:
24 2 0.05
25 6 0.16
26 23 0.61
27 7 0.18
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (26 bp):
ATTTAATTGTATAGATTGATTTATTT
Found at i:7637429 original size:36 final size:32
Alignment explanation
Indices: 7637332--7637412 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 32
7637322 ATTATAGTTC
7637332 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
7637364 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
7637396 TATAGATTGATTTATTT
1 TATGGATTGATTTATTT
7637413 ATTTTAAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:7637452 original size:116 final size:112
Alignment explanation
Indices: 7637252--7637500 Score: 399
Period size: 116 Copynumber: 2.2 Consensus size: 112
7637242 TATTTTAAAA
*
7637252 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
7637317 TTATTATTATAGTTCTATGGATTGATTTATTTTAAATAATTTATTAG
66 TTATTATTATAGTTCTATGGATTGATTTATTTTAAATAATTTATTAG
* * **
7637364 TATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTATTTTAAATAATTTAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTA--T-TTTAAAAT-ATGGAT
* *
7637429 TGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
62 TGATTTATTATTATAGTTCTATGGATTGATTTATTTTAAATAATTTATTAG
7637480 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
7637501 ATATGGATTG
Statistics
Matches: 126, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
112 44 0.35
114 1 0.01
115 7 0.06
116 74 0.59
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (112 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTATAGTTCTATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:7637505 original size:22 final size:22
Alignment explanation
Indices: 7637480--7637522 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
7637470 AATTTATTAG
7637480 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
7637502 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
7637523 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:7637529 original size:116 final size:116
Alignment explanation
Indices: 7637252--7637531 Score: 331
Period size: 116 Copynumber: 2.4 Consensus size: 116
7637242 TATTTTAAAA
** * * *
7637252 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGA-T---TGATTTATTTTAAAATATGGAT
1 TATGGATTGATTTATTTTAAATAATGGATTTGTATAGATTAAATAATTTATTTTAAAATATGGAT
7637313 TGATTTATTATTATAGTTCTATGGATTGATTTATTTTAAATAATTTATTAG
66 TGATTTATTATTATAGTTCTATGGATTGATTTATTTTAAATAATTTATTAG
** * * * **
7637364 TATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTATTTT-AAATAATTTA
1 TATGGATTGATTTATTTTAAATAATGGATTTGTATAGATTAAATAATTTATTTTAAAAT-ATGGA
* *
7637428 TTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
65 TTGATTTATTATTATAGTTCTATGGATTGATTTATTTTAAATAATTTATTAG
* **
7637480 TATGGATTGATTTATTTTAAA-ATATGGA-TTGATTTATTTTAAATAATTTATT
1 TATGGATTGATTTATTTTAAATA-ATGGATTTG-TATAGATTAAATAATTTATT
7637532 ATTGTAGTTG
Statistics
Matches: 146, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
112 36 0.25
113 1 0.01
115 8 0.05
116 101 0.69
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (116 bp):
TATGGATTGATTTATTTTAAATAATGGATTTGTATAGATTAAATAATTTATTTTAAAATATGGAT
TGATTTATTATTATAGTTCTATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:7637582 original size:31 final size:31
Alignment explanation
Indices: 7637547--7637605 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
7637537 AGTTGTATGG
* *
7637547 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
7637578 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
7637606 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:7643531 original size:24 final size:24
Alignment explanation
Indices: 7643504--7643559 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
7643494 TTACTTGAAT
* *
7643504 TCTGATCTGGATTCTGTTATGATA
1 TCTGATATGAATTCTGTTATGATA
* *
7643528 TCTGATATGAATTCTGTTTTGATT
1 TCTGATATGAATTCTGTTATGATA
7643552 TCTGATAT
1 TCTGATAT
7643560 CTCCATTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.21, C:0.11, G:0.18, T:0.50
Consensus pattern (24 bp):
TCTGATATGAATTCTGTTATGATA
Found at i:7644575 original size:2 final size:2
Alignment explanation
Indices: 7644568--7644611 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
7644558 TAATAAATAA
7644568 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7644610 AT
1 AT
7644612 GGTCGGGTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7645497 original size:18 final size:16
Alignment explanation
Indices: 7645461--7645492 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7645451 GTTCATTTTA
7645461 ATATTTTTTTAATATT
1 ATATTTTTTTAATATT
*
7645477 ATATTTTTTTATTATT
1 ATATTTTTTTAATATT
7645493 CTATACATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
ATATTTTTTTAATATT
Found at i:7645902 original size:31 final size:31
Alignment explanation
Indices: 7645867--7645941 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
7645857 AAATTGAAAA
7645867 TTTAAGTATTAAAACATATCAAAATTAATAG
1 TTTAAGTATTAAAACATATCAAAATTAATAG
7645898 TTTAAGTATTAAAACATATCAAAATTAATAG
1 TTTAAGTATTAAAACATATCAAAATTAATAG
*
7645929 TTTATGTATTAAA
1 TTTAAGTATTAAA
7645942 TATGTAGTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (31 bp):
TTTAAGTATTAAAACATATCAAAATTAATAG
Found at i:7660893 original size:22 final size:19
Alignment explanation
Indices: 7660874--7660910 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7660864 GAAAAAAATG
*
7660874 AAAAAATAAAAAGAAGAAA
1 AAAAAAAAAAAAGAAGAAA
*
7660893 AAAAAAAAAAATGAAGAA
1 AAAAAAAAAAAAGAAGAA
7660911 GGAGGGTTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAAAAGAAGAAA
Found at i:7660898 original size:19 final size:19
Alignment explanation
Indices: 7660874--7660910 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
7660864 GAAAAAAATG
*
7660874 AAAAAATAAAAA-GAAGAA
1 AAAAAAAAAAAATGAAGAA
7660892 AAAAAAAAAAAATGAAGAA
1 AAAAAAAAAAAATGAAGAA
7660911 GGAGGGTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAAAATGAAGAA
Found at i:7662042 original size:136 final size:136
Alignment explanation
Indices: 7661860--7662335 Score: 704
Period size: 136 Copynumber: 3.6 Consensus size: 136
7661850 AAAAAGATGT
* *
7661860 GGATCAGCATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTT
1 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTT
7661925 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCG
66 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCG
7661990 CTTGAG
131 CTTGAG
* ** * *
7661996 GAATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAAGTT
1 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTT
7662061 CATAATGAGAAGAGCTTGTTCGACCTA-CACTCG----ATGACATTTCGAATCAGTGACACCTCG
66 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCG
7662121 CTTGAG
131 CTTGAG
* *
7662127 GGATCAACA-TTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAC-GAGGGAGAAGAAGTT
1 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTT
* * * * *
7662190 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCA-CAGCATTTTGAGTCAGGGACGCCTC
66 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGA-CATTTCGAATCAGTGACACCTC
7662254 GCTTGAG
130 GCTTGAG
* * *
7662261 GGATCAACATTTTCAGTGAAGAGTTCATAATGAGAA-AACTCATCC-A-AAAGAGAGAAGAAGTT
1 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTT
*
7662323 CATAATGCGAAGA
66 CATAATGAGAAGA
7662336 A
Statistics
Matches: 308, Mismatches: 24, Indels: 19
0.88 0.07 0.05
Matches are distributed among these distances:
129 41 0.13
130 42 0.14
131 39 0.13
133 27 0.09
134 44 0.14
135 30 0.10
136 85 0.28
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (136 bp):
GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTT
CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCG
CTTGAG
Done.