Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold202
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: 2706578
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 9 of 16
Found at i:1544553 original size:52 final size:52
Alignment explanation
Indices: 1544453--1544620 Score: 158
Period size: 53 Copynumber: 3.2 Consensus size: 52
1544443 TATTGGGTTC
* * * * *
1544453 AAAGATGAGAAAAAGGATGTCAATGTGCTGATTCACGGTCAGCGACATTAGACTT
1 AAAGATGAG-AAAA--ATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
* * **
1544508 GAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTT
1 AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATT-GGACTT
* ** * *
1544561 ATAGATGATG-AAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
1 AAAGATGA-GAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
1544613 AAAGATGA
1 AAAGATGA
1544621 AGATGAGAAA
Statistics
Matches: 92, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
52 39 0.42
53 40 0.43
54 5 0.05
55 8 0.09
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.24
Consensus pattern (52 bp):
AAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
Found at i:1544769 original size:52 final size:55
Alignment explanation
Indices: 1544677--1544790 Score: 162
Period size: 52 Copynumber: 2.1 Consensus size: 55
1544667 CGATATTGGG
* *
1544677 CTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCTAGCTACATTAAA
1 CTTAAAGATGAGAAAAAGGATGCCAATATGCTGATTCAAGGCTAGCTACATTAAA
* **
1544732 CTTAAAGATG-G-AAAAGG-TGCCAATATGCTGATTCAAGGCTAGCTATATTGGA
1 CTTAAAGATGAGAAAAAGGATGCCAATATGCTGATTCAAGGCTAGCTACATTAAA
1544784 CTTAAAG
1 CTTAAAG
1544791 GTGCCAATGT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
52 37 0.69
53 6 0.11
54 1 0.02
55 10 0.19
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (55 bp):
CTTAAAGATGAGAAAAAGGATGCCAATATGCTGATTCAAGGCTAGCTACATTAAA
Found at i:1544805 original size:43 final size:43
Alignment explanation
Indices: 1544744--1545314 Score: 340
Period size: 43 Copynumber: 12.6 Consensus size: 43
1544734 TAAAGATGGA
* *
1544744 AAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
*
1544787 AAAGGTGCCAATGTGCTGATTCAAGG-CAGCTACA-TGGACTAAGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACT---T
* * * *
1544831 GAGAAAAATGATGTCAATGTGCTAATTCACAATGGCCAGCTACAATTGGACTT
1 -----AAA-GGTGCCAATGTGCTGATT--CAA-GGCCAGCTA-TATTGGACTT
* * * *
1544884 AAAGATGAAGATGCC-ATATGCTGATTCAAGGCTAGCGAT-TTCGGATTT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTATATT-GGACTT
* *
1544932 AAAGGTGCCAATGTGCTGATTCAAGGCC-GCTACATTGCACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
1544974 AAGATGAGGTACCAATATGCTGATTCCAAGGCCAGCGATATTTGGACTT
1 -A-A--AGGTGCCAATGTGCTGATT-CAAGGCCAGCTATA-TTGGACTT
* *
1545023 -AAGGTGCCAATGTGCTAATTCAAGGCCAGCGAATATTGGACTTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGC-TATATTGGAC-TT
* **
1545067 AAAGGTGTCAA-GTGC-GATTCAA-GCCA-CTACCTTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
* * * *
1545112 AAAGGGTGCCAATATACTGATTCAAGG-CAGCGAGATTGGACTT
1 AAA-GGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
*
1545155 AAAGGT-CCAATGTGCTGATTCAAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTC-AAGGCCAGCTATATTGGACTT
* * * **
1545198 AAAGGTGTCAAGGTGCT-ATGCAAGGCCAGCTACCTTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
1545240 AAAGAATAAGGGTGTCAATATACTGATTCAAGGCCAACTATATTGGACTT
1 -----A-AA-GGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
1545290 AAAAGGTGCCAATGTGCTGATTCAA
1 -AAAGGTGCCAATGTGCTGATTCAA
1545315 AAAAAGGCCA
Statistics
Matches: 415, Mismatches: 60, Indels: 105
0.72 0.10 0.18
Matches are distributed among these distances:
40 9 0.02
41 20 0.05
42 46 0.11
43 95 0.23
44 53 0.13
45 16 0.04
46 28 0.07
47 14 0.03
48 21 0.05
49 40 0.10
50 42 0.10
52 12 0.03
53 6 0.01
54 6 0.01
55 1 0.00
56 6 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:1544812 original size:21 final size:20
Alignment explanation
Indices: 1544745--1544812 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
1544735 AAAGATGGAA
1544745 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
* *
1544766 AAGGCTAGCTATATTG--GACTTA
1 AAGG-T-GCCA-ATTGCTGA-TTC
1544788 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
1544809 AAGG
1 AAGG
1544813 CAGCTACATG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (20 bp):
AAGGTGCCAATTGCTGATTC
Found at i:1544904 original size:145 final size:144
Alignment explanation
Indices: 1544685--1544966 Score: 401
Period size: 145 Copynumber: 1.9 Consensus size: 144
1544675 GGCTTAAAGA
* * *
1544685 TGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCTAGCTACATTAAACTTAAAGATGGAAAAGGT
1 TGAGAAAAAGGATGTCAATGTGCTAATTCAAGGCCAGCTACATTAAACTTAAAGATGG-AAAGAT
*
1544750 GCCAATATGCTGATTCAAGGCTAGCTATATT-GGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
65 GCCAATATGCTGATTCAAGGCTAGCGAT-TTCGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
1544814 AGCTACATGGACTAAG
129 AGCTACATGGACTAAG
* **
1544830 TGAGAAAAATGATGTCAATGTGCTAATTCACAATGGCCAGCTACAATTGGACTTAAAGAT-G-AA
1 TGAGAAAAAGGATGTCAATGTGCTAATT--CAA-GGCCAGCTAC-ATTAAACTTAAAGATGGAAA
*
1544893 GATGCC-ATATGCTGATTCAAGGCTAGCGATTTCGGATTTAAAGGTGCCAATGTGCTGATTCAAG
62 GATGCCAATATGCTGATTCAAGGCTAGCGATTTCGGACTTAAAGGTGCCAATGTGCTGATTCAAG
*
1544957 GCCGCTACAT
127 GCAGCTACAT
1544967 TGCACTTAAG
Statistics
Matches: 123, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
144 2 0.02
145 88 0.72
146 7 0.06
147 3 0.02
148 10 0.08
149 13 0.11
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (144 bp):
TGAGAAAAAGGATGTCAATGTGCTAATTCAAGGCCAGCTACATTAAACTTAAAGATGGAAAGATG
CCAATATGCTGATTCAAGGCTAGCGATTTCGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCAG
CTACATGGACTAAG
Found at i:1545027 original size:90 final size:92
Alignment explanation
Indices: 1544845--1545052 Score: 264
Period size: 90 Copynumber: 2.2 Consensus size: 92
1544835 AAAATGATGT
* *
1544845 CAATGTGCTAATTCACAATGGCCAGCTACAATTGGACTTAAAGATGAAGATGCCATATGCTGATT
1 CAATGTGCTAATT--CAA-GGCCAGCTACAATTGCACTTAAAGATGAAGATACCATATGCTGATT
* *
1544910 CAAGGCTAGCGATTTCGGATTTAAAGGTGC
63 CAAGGCCAGCGATTTCGGACTTAAAGGTGC
* *
1544940 CAATGTGCTGATTCAAGGCC-GCTAC-ATTGCACTT-AAGATG-AGGTACCAATATGCTGATTCC
1 CAATGTGCTAATTCAAGGCCAGCTACAATTGCACTTAAAGATGAAGATACC-ATATGCTGATT-C
*
1545001 AAGGCCAGCGATATTTGGACTT-AAGGTGC
64 AAGGCCAGCGAT-TTCGGACTTAAAGGTGC
1545030 CAATGTGCTAATTCAAGGCCAGC
1 CAATGTGCTAATTCAAGGCCAGC
1545053 GAATATTGGA
Statistics
Matches: 101, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
88 5 0.05
89 17 0.17
90 46 0.46
91 14 0.14
92 4 0.04
93 3 0.03
95 12 0.12
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (92 bp):
CAATGTGCTAATTCAAGGCCAGCTACAATTGCACTTAAAGATGAAGATACCATATGCTGATTCAA
GGCCAGCGATTTCGGACTTAAAGGTGC
Found at i:1545191 original size:132 final size:135
Alignment explanation
Indices: 1544744--1545314 Score: 519
Period size: 133 Copynumber: 4.2 Consensus size: 135
1544734 TAAAGATGGA
* * * * *
1544744 AAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGAC-TTAAAGGTGCCAATGTGCTGATT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTTAAAGGTGTCAAGGTGC-GATT
* * * * * * * *
1544808 CAAGG-CAGCTA-CATGGAC-TAAGTGAGAAAAATGATGTCAATGTGCTAATTCACAATGGCCAG
65 CAAGGCCA-CTACCTTGGACTTAA---AGATAAAGGGTGCCAATATACTGATT--CAA-GGCCAG
* *
1544870 CTACAATTGGACTT
123 CGA-TATTGGACTT
* * * *
1544884 AAAGATGAAGATGCC-ATATGCTGATTCAAGGCTAGCGAT-TTCGGA-TTTAAAGGTGCCAATGT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCGATATT-GGACTTTAAAGGTGTCAAGGT
* * * * * *
1544946 GCTGATTCAAGGCCGCTACATTGCACTT-AAGAT-GA-GGTACCAATATGCTGATTCCAAGGCCA
59 GC-GATTCAAGGCCACTACCTTGGACTTAAAGATAAAGGGTGCCAATATACTGATT-CAAGGCCA
1545008 GCGATATTTGGACTT
122 GCGATA-TTGGACTT
*
1545023 -AAGGTGCCAATGTGCTAATTCAAGGCCAGCGAATATTGGACTTTAAAGGTGTCAA-GTGCGATT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCG-ATATTGGACTTTAAAGGTGTCAAGGTGCGATT
*
1545086 CAA-GCCACTACCTTGGACTTAAAGATAAAGGGTGCCAATATACTGATTCAAGG-CAGCGAGATT
65 CAAGGCCACTACCTTGGACTTAAAGATAAAGGGTGCCAATATACTGATTCAAGGCCAGCGATATT
1545149 GGACTT
130 GGACTT
* *
1545155 AAAGGT-CCAATGTGCTGATTCAAAGGCCAGCGATATTGGAC-TTAAAGGTGTCAAGGTGCTATG
1 AAAGGTGCCAATGTGCTGATTC-AAGGCCAGCGATATTGGACTTTAAAGGTGTCAAGGTGCGATT
* * *
1545218 CAAGGCCAGCTACCTTGGACTTAAAGA-ATAAGGGTGTCAATATACTGATTCAAGGCCAACTATA
65 CAAGGCCA-CTACCTTGGACTTAAAGATA-AAGGGTGCCAATATACTGATTCAAGGCCAGCGATA
1545282 TTGGACTT
128 TTGGACTT
1545290 AAAAGGTGCCAATGTGCTGATTCAA
1 -AAAGGTGCCAATGTGCTGATTCAA
1545315 AAAAAGGCCA
Statistics
Matches: 370, Mismatches: 33, Indels: 59
0.80 0.07 0.13
Matches are distributed among these distances:
131 13 0.04
132 58 0.16
133 59 0.16
134 58 0.16
135 45 0.12
136 9 0.02
137 16 0.04
138 1 0.00
139 16 0.04
140 3 0.01
141 15 0.04
142 2 0.01
143 4 0.01
144 2 0.01
145 58 0.16
146 10 0.03
147 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (135 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTTAAAGGTGTCAAGGTGCGATTC
AAGGCCACTACCTTGGACTTAAAGATAAAGGGTGCCAATATACTGATTCAAGGCCAGCGATATTG
GACTT
Found at i:1545260 original size:134 final size:133
Alignment explanation
Indices: 1544744--1545314 Score: 529
Period size: 145 Copynumber: 4.2 Consensus size: 133
1544734 TAAAGATGGA
* * * *
1544744 AAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGTCAA-GTGCT-ATTC
* * * * * * * *
1544809 AAGG-CAGCTA-CATGGAC-TAAGTGAGAAAAATGATGTCAATGTGCTAATTCACAATGGCCAGC
64 AAGGCCAGCTACCTTGGACTTAA---AG-ATAAGGGTGCCAATATACTGATT--CAA-GGCCAGC
* *
1544871 TACAATTGGACTT
122 GA-TATTGGACTT
* * * *
1544884 AAAGATGAAGATGCC-ATATGCTGATTCAAGGCTAGCGAT-TTCGGATTTAAAGGTGCCAATGTG
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGGTGTCAA-GTG
* * * * *
1544947 CTGATTCAAGGCC-GCTACATTGCACTT-AAGATGA-GGTACCAATATGCTGATTCCAAGGCCAG
58 CT-ATTCAAGGCCAGCTACCTTGGACTTAAAGATAAGGGTGCCAATATACTGATT-CAAGGCCAG
1545009 CGATATTTGGACTT
121 CGATA-TTGGACTT
* *
1545023 -AAGGTGCCAATGTGCTAATTCAAGGCCAGCGAATATTGGACTTTAAAGGTGTCAAGTGCGATTC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCG-ATATTGGAC-TTAAAGGTGTCAAGTGCTATTC
*
1545087 AA-GCCA-CTACCTTGGACTTAAAGATAAAGGGTGCCAATATACTGATTCAAGG-CAGCGAGATT
64 AAGGCCAGCTACCTTGGACTTAAAGAT-AAGGGTGCCAATATACTGATTCAAGGCCAGCGATATT
1545149 GGACTT
128 GGACTT
*
1545155 AAAGGT-CCAATGTGCTGATTCAAAGGCCAGCGATATTGGACTTAAAGGTGTCAAGGTGCTATGC
1 AAAGGTGCCAATGTGCTGATTC-AAGGCCAGCGATATTGGACTTAAAGGTGTCAA-GTGCTATTC
* * *
1545219 AAGGCCAGCTACCTTGGACTTAAAGAATAAGGGTGTCAATATACTGATTCAAGGCCAACTATATT
64 AAGGCCAGCTACCTTGGACTTAAAG-ATAAGGGTGCCAATATACTGATTCAAGGCCAGCGATATT
1545284 GGACTT
128 GGACTT
1545290 AAAAGGTGCCAATGTGCTGATTCAA
1 -AAAGGTGCCAATGTGCTGATTCAA
1545315 AAAAAGGCCA
Statistics
Matches: 369, Mismatches: 34, Indels: 59
0.80 0.07 0.13
Matches are distributed among these distances:
131 13 0.04
132 58 0.16
133 57 0.15
134 57 0.15
135 46 0.12
136 9 0.02
137 16 0.04
138 1 0.00
139 16 0.04
140 3 0.01
141 15 0.04
142 3 0.01
143 3 0.01
144 2 0.01
145 59 0.16
146 10 0.03
147 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (133 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGTCAAGTGCTATTCAA
GGCCAGCTACCTTGGACTTAAAGATAAGGGTGCCAATATACTGATTCAAGGCCAGCGATATTGGA
CTT
Found at i:1545491 original size:33 final size:32
Alignment explanation
Indices: 1545445--1545524 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 32
1545435 CCAGCGATAT
*
1545445 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCAACTTGTG
1545475 TGGGCTTTAGAGAAGGGTTGCCACCAACTTGTG
1 TGGGCTTT-GAGAAGGGTTGCCACCAACTTGTG
1545508 TGGGCTTTGAGAAGGGT
1 TGGGCTTTGAGAAGGGT
1545525 GAAAGATGCC
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
30 5 0.11
31 2 0.04
32 9 0.20
33 30 0.65
ACGTcount: A:0.19, C:0.16, G:0.38, T:0.28
Consensus pattern (32 bp):
TGGGCTTTGAGAAGGGTTGCCACCAACTTGTG
Found at i:1545568 original size:33 final size:33
Alignment explanation
Indices: 1545539--1545707 Score: 172
Period size: 31 Copynumber: 5.2 Consensus size: 33
1545529 GATGCCACAA
1545539 AGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGG
1 AGTTGTGGACTTTAAAAGGAA-AAGGTGCCACGG
* *
1545572 AGTTGTGGGCTTTGAAAGG--AAGGTGCCACGG
1 AGTTGTGGACTTTAAAAGGAAAAGGTGCCACGG
*
1545603 AGTCGTGGAC-TTAAAAGGAATAAGGTGCCACGG
1 AGTTGTGGACTTTAAAAGGAA-AAGGTGCCACGG
* *
1545636 GGTTGTGGACTTTAAAAGGGAAAAAGAGTGTCACGG
1 AGTTGTGGACTTTAAAA-GG-AAAAG-GTGCCACGG
* *
1545672 AGTTGTGGGCTTTGAAAA-G--AAGGTGCCACGA
1 AGTTGTGGACTTT-AAAAGGAAAAGGTGCCACGG
1545703 AGTTG
1 AGTTG
1545708 GAACAAGGTG
Statistics
Matches: 115, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
30 7 0.06
31 32 0.28
32 3 0.03
33 29 0.25
34 13 0.11
35 6 0.05
36 21 0.18
37 4 0.03
ACGTcount: A:0.30, C:0.12, G:0.36, T:0.21
Consensus pattern (33 bp):
AGTTGTGGACTTTAAAAGGAAAAGGTGCCACGG
Found at i:1545754 original size:33 final size:34
Alignment explanation
Indices: 1545712--1546099 Score: 324
Period size: 34 Copynumber: 11.7 Consensus size: 34
1545702 AAGTTGGAAC
* * *
1545712 AAGGTGCCACGGGGTCGTGGACTTCAAAAAG-AA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAA
* * *
1545745 AAGGTGCCACGAAGTGGT-GAGCTTTGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGA-CTTTAAAAAGAAA
* *
1545779 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAA
* *
1545813 AAGGTGCCATGGAGTTGTGGGCTTTAAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAA
* *
1545847 AAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAAC
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAA
* * * *
1545880 AAGATGCCACGGGGTCGTGGAC-TTAAAAGGAACA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAA-A
* *
1545914 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG---
1 AAG-GTGCCACGGAGTTGTGGACTTTAAAAAGAAA
* * *
1545946 AAGGTGCCACGGAGTCGTGGAC-TTAGAAGGAAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAA
* *
1545979 AAGAGTGCCACGAAGTTGTGGGC-TT-AAAAG---
1 AAG-GTGCCACGGAGTTGTGGACTTTAAAAAGAAA
** *
1546009 --GGTGCCACAAAGTTGTGGAC-TT-AAAAGGAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAA
* *
1546039 AAGGATGCCACAGAGTTGTGGGCTTTAAAAAGAAA
1 AAGG-TGCCACGGAGTTGTGGACTTTAAAAAGAAA
** *
1546074 AAGGATGCCACTAAGTCGTGGACTTT
1 AAGG-TGCCACGGAGTTGTGGACTTT
1546100 GAGACAAAAG
Statistics
Matches: 294, Mismatches: 43, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
27 24 0.08
28 1 0.00
30 5 0.02
31 17 0.06
32 7 0.02
33 83 0.28
34 106 0.36
35 45 0.15
36 6 0.02
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.19
Consensus pattern (34 bp):
AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAA
Found at i:1545783 original size:88 final size:88
Alignment explanation
Indices: 1545619--1545795 Score: 225
Period size: 88 Copynumber: 2.0 Consensus size: 88
1545609 GGACTTAAAA
* * * * * * * *
1545619 GGAATAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAGAGTGTCACGGAGTTGTGGGCTT
1 GGAACAAGGTGCCACGGGGTCGTGGACTTCAAAAGAGAAAAAGAGTGCCACGAAGTGGTGAGCTT
1545684 TGAAAAGAAGGTGCCACGAAGTT
66 TGAAAAGAAGGTGCCACGAAGTT
1545707 GGAACAAGGTGCCACGGGGTCGTGGACTTCAAAA-AG-AAAAG-GTGCCACGAAGTGGTGAGCTT
1 GGAACAAGGTGCCACGGGGTCGTGGACTTCAAAAGAGAAAAAGAGTGCCACGAAGTGGTGAGCTT
*
1545769 TGAAAAGAAAAAGGTGCCACGGAGTT
66 TGAAAAG---AAGGTGCCACGAAGTT
1545795 G
1 G
1545796 TGGGCTTTGA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
85 24 0.31
86 5 0.06
87 1 0.01
88 47 0.61
ACGTcount: A:0.32, C:0.14, G:0.36, T:0.19
Consensus pattern (88 bp):
GGAACAAGGTGCCACGGGGTCGTGGACTTCAAAAGAGAAAAAGAGTGCCACGAAGTGGTGAGCTT
TGAAAAGAAGGTGCCACGAAGTT
Found at i:1546036 original size:27 final size:27
Alignment explanation
Indices: 1545977--1546036 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
1545967 CTTAGAAGGA
* * *
1545977 AAAAGAGTGCCACGAAGTTGTGGGCTT
1 AAAAGGGTGCCACAAAGTTGTGGACTT
1546004 AAAAGGGTGCCACAAAGTTGTGGACTT
1 AAAAGGGTGCCACAAAGTTGTGGACTT
1546031 AAAAGG
1 AAAAGG
1546037 AAAAGGATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACAAAGTTGTGGACTT
Found at i:1546123 original size:32 final size:31
Alignment explanation
Indices: 1546069--1546224 Score: 190
Period size: 32 Copynumber: 5.0 Consensus size: 31
1546059 GGCTTTAAAA
*
1546069 AGAAAAAGGATGCCACTAAGTCGTGGACTTTG
1 AGAAAAA-GATGCCACTGAGTCGTGGACTTTG
*
1546101 AGACAAAAGATGCGACTGAGTCGTGGACTTTG
1 AGA-AAAAGATGCCACTGAGTCGTGGACTTTG
* *
1546133 AAGAAAAGGATGCCATTGAGTCGTGGACTTTG
1 -AGAAAAAGATGCCACTGAGTCGTGGACTTTG
* * *
1546165 AGACAAA-ATGCCACTGAGTCATGGGCTTTG
1 AGAAAAAGATGCCACTGAGTCGTGGACTTTG
*
1546195 A-AAAGAGATTGCCACTGAGTCGTGGACTTT
1 AGAAAAAGA-TGCCACTGAGTCGTGGACTTT
1546225 AAAAAGGTAT
Statistics
Matches: 106, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
29 3 0.03
30 22 0.21
31 24 0.23
32 50 0.47
33 7 0.07
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (31 bp):
AGAAAAAGATGCCACTGAGTCGTGGACTTTG
Found at i:1546155 original size:64 final size:61
Alignment explanation
Indices: 1546071--1546224 Score: 211
Period size: 64 Copynumber: 2.5 Consensus size: 61
1546061 CTTTAAAAAG
* * *
1546071 AAAAAGGATGCCACTAAGTCGTGGACTTTGAGACAAAAGATGCGACTGAGTCGTGGACTTTGA
1 AAAAAGGATGCCACTGAGTCGTGGACTTTGAGAC-AAA-ATGCCACTGAGTCATGGACTTTGA
* *
1546134 AGAAAAGGATGCCATTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCATGGGCTTTGA
1 A-AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCATGGACTTTGA
*
1546196 AAAGA-GATTGCCACTGAGTCGTGGACTTT
1 AAAAAGGA-TGCCACTGAGTCGTGGACTTT
1546225 AAAAAGGTAT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
60 2 0.02
61 23 0.28
62 22 0.27
63 4 0.05
64 31 0.38
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (61 bp):
AAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCATGGACTTTGA
Found at i:1547267 original size:15 final size:16
Alignment explanation
Indices: 1547242--1547276 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1547232 CTCACCGAGA
*
1547242 TTTTCTGTTTTGTTTT
1 TTTTCTGTTTTCTTTT
1547258 TTTTCT-TTTTCTTTT
1 TTTTCTGTTTTCTTTT
1547273 TTTT
1 TTTT
1547277 TTGTGTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.86
Consensus pattern (16 bp):
TTTTCTGTTTTCTTTT
Found at i:1547555 original size:12 final size:12
Alignment explanation
Indices: 1547524--1547557 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1547514 CTTTGCACCT
1547524 TTTTTTTGTTCTG
1 TTTTTTT-TTCTG
*
1547537 TTTTTTTTTGTG
1 TTTTTTTTTCTG
1547549 TTTTTTTTT
1 TTTTTTTTT
1547558 TCTTTTGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTCTG
Found at i:1554633 original size:52 final size:52
Alignment explanation
Indices: 1554528--1554643 Score: 180
Period size: 52 Copynumber: 2.2 Consensus size: 52
1554518 TTTGCCTGCA
***
1554528 TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTTTATAG
1 TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAGATATAG
*
1554580 TGTATCGATATATCTGGGCAAATTTGCCTGCATGTATCGATACAAAGAT-TAG
1 TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATAC-AAGATATAG
1554632 TGTATCGATACA
1 TGTATCGATACA
1554644 ATGTATCGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 56 0.97
53 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (52 bp):
TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACAAGATATAG
Found at i:1554650 original size:13 final size:13
Alignment explanation
Indices: 1554632--1554656 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1554622 CAAAGATTAG
1554632 TGTATCGATACAA
1 TGTATCGATACAA
1554645 TGTATCGATACA
1 TGTATCGATACA
1554657 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1554760 original size:32 final size:32
Alignment explanation
Indices: 1554697--1554794 Score: 115
Period size: 32 Copynumber: 3.0 Consensus size: 32
1554687 AGTAGCTTAT
* * *
1554697 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGCATCAATACAACACTTATGTATCGATAC
* * *
1554729 ATTGCATCAATGCAACACTTATATATTGATAC
1 ATTGCATCAATACAACACTTATGTATCGATAC
* *
1554761 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGCATCAATACAACAC-TTATGTATCGATAC
1554794 A
1 A
1554795 AATCGTTGAA
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
32 41 0.76
33 13 0.24
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (32 bp):
ATTGCATCAATACAACACTTATGTATCGATAC
Found at i:1555484 original size:102 final size:102
Alignment explanation
Indices: 1555308--1555513 Score: 412
Period size: 102 Copynumber: 2.0 Consensus size: 102
1555298 CCATGTGTAC
1555308 GACAAATATCATGGAGCTGCCATGTCCTCCATTGTCCAAAAAGGTAAGAACCATCCATCAAAGTA
1 GACAAATATCATGGAGCTGCCATGTCCTCCATTGTCCAAAAAGGTAAGAACCATCCATCAAAGTA
1555373 GATGTATCGCCATTGGCTACCTAATTGTTCGTAGCAT
66 GATGTATCGCCATTGGCTACCTAATTGTTCGTAGCAT
1555410 GACAAATATCATGGAGCTGCCATGTCCTCCATTGTCCAAAAAGGTAAGAACCATCCATCAAAGTA
1 GACAAATATCATGGAGCTGCCATGTCCTCCATTGTCCAAAAAGGTAAGAACCATCCATCAAAGTA
1555475 GATGTATCGCCATTGGCTACCTAATTGTTCGTAGCAT
66 GATGTATCGCCATTGGCTACCTAATTGTTCGTAGCAT
1555512 GA
1 GA
1555514 TGAATGAGTC
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 104 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (102 bp):
GACAAATATCATGGAGCTGCCATGTCCTCCATTGTCCAAAAAGGTAAGAACCATCCATCAAAGTA
GATGTATCGCCATTGGCTACCTAATTGTTCGTAGCAT
Found at i:1556434 original size:20 final size:20
Alignment explanation
Indices: 1556405--1556497 Score: 123
Period size: 20 Copynumber: 4.7 Consensus size: 20
1556395 TTCTACAATT
* *
1556405 TGTATCGATACAAAAGTAAA
1 TGTATCGATACATAAGTGAA
*
1556425 TGTATTGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
* *
1556445 TATATCAATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
*
1556465 TGTATCAATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
*
1556485 TATATCGATACAT
1 TGTATCGATACAT
1556498 GTTTGAAATA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:1556467 original size:40 final size:40
Alignment explanation
Indices: 1556407--1556497 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 40
1556397 CTACAATTTG
* **
1556407 TATCGATACAAAAGTAAATGTATTGATACATAAGTGAATA
1 TATCGATACATAAGTAAATGTATCAATACATAAGTGAATA
* *
1556447 TATCAATACATAAGTGAATGTATCAATACATAAGTGAATA
1 TATCGATACATAAGTAAATGTATCAATACATAAGTGAATA
1556487 TATCGATACAT
1 TATCGATACAT
1556498 GTTTGAAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (40 bp):
TATCGATACATAAGTAAATGTATCAATACATAAGTGAATA
Found at i:1556613 original size:30 final size:31
Alignment explanation
Indices: 1556577--1556652 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 31
1556567 TATTTTTTGT
1556577 TGTATCGATACATTCTAGG-TTTGATCC-AAA
1 TGTATCGATACATTCTAGGTTTTGA-CCAAAA
* *
1556607 TGTATCGATACATTGTGGGTTTTTGACCAAAA
1 TGTATCGATACATTCTAGG-TTTTGACCAAAA
*
1556639 TGTATTGATACATT
1 TGTATCGATACATT
1556653 ATTCATTGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
30 17 0.43
31 2 0.05
32 21 0.52
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (31 bp):
TGTATCGATACATTCTAGGTTTTGACCAAAA
Found at i:1556725 original size:50 final size:52
Alignment explanation
Indices: 1556605--1556725 Score: 149
Period size: 50 Copynumber: 2.4 Consensus size: 52
1556595 GTTTGATCCA
* * *
1556605 AATGTATCGATACATTGTGGGTTTTTGACCAAAATGTATTGATACATTATTC
1 AATGTATCGATACATTCTAGGTTTTTGACCAAAATGTATCGATACATTATTC
* * * * *
1556657 ATTGTA-AGACACATTCTAGG-TTTTGACCAAAATGTATCGATATATTTTTC
1 AATGTATCGATACATTCTAGGTTTTTGACCAAAATGTATCGATACATTATTC
1556707 AATGTATCGATACA-TCTAG
1 AATGTATCGATACATTCTAG
1556726 TTAAATTTGA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
50 37 0.65
51 15 0.26
52 5 0.09
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (52 bp):
AATGTATCGATACATTCTAGGTTTTTGACCAAAATGTATCGATACATTATTC
Found at i:1561074 original size:27 final size:27
Alignment explanation
Indices: 1561036--1561087 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
1561026 AAAAACTCTC
1561036 CTTTTGCTACTCCTATTGTGGCATCTT
1 CTTTTGCTACTCCTATTGTGGCATCTT
1561063 CTTTTGCTACTCCTATTGTGGCATC
1 CTTTTGCTACTCCTATTGTGGCATC
1561088 CTGATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.12, C:0.27, G:0.15, T:0.46
Consensus pattern (27 bp):
CTTTTGCTACTCCTATTGTGGCATCTT
Found at i:1563902 original size:156 final size:151
Alignment explanation
Indices: 1563690--1564488 Score: 516
Period size: 156 Copynumber: 5.1 Consensus size: 151
1563680 GCCCTTGGGG
* * * * *
1563690 ACCTTCGATGTAAAAGTATCTCGACAGCCCTAAAGGACTTAAAAAGGCTTATAAAAGGAATGAAC
1 ACCTTCGACGTAAAAGTATCCCG-CAACCCTAAAGGACTTAAAAAGAC-TAAAAAAGG-ATGAAC
* *
1563755 CTATCCTAAAAGCCCAACTTCGGCATAAAAGCGGACCGGTGATGACCTAGGAGTTGGTTCTAAAA
63 CTATCCTAAAAGCCCACCTTCGGCATAAAAGCGGACCGGTGATGACCTAAGAGTTGGTTCTAAAA
1563820 AATTACCAAAATACCCCTATGGGTAT
128 AATTACCAAAAT-CCCCTATGGG-AT
* * *
1563846 ACCTTCGATGTAAAAGTATCCCAGCAACCCTAAAGGGCTTAAAAAGACTCAAAAAAGGGATGAAA
1 ACCTTCGACGTAAAAGTATCCC-GCAACCCTAAAGGACTTAAAAAGACT-AAAAAA-GGATGAAC
* * * ** * *
1563911 CTATCCTAAATGCCCACCTTTGGCATAAAAGTGGACCCGACGATGACCTAAGACTCGGTTCTAAA
63 CTATCCTAAAAGCCCACCTTCGGCATAAAAGCGGA-CCGGTGATGACCTAAGAGTTGGTTCTAAA
* *
1563976 AAATTACGAAAATCCCCT-TAGAAGAT
127 AAATTACCAAAATCCCCTAT-G-GGAT
* * * * * * *
1564002 ACCTTTGACGTGAAAGTATCCTGGTACCCCAAAAGGACTTAAAAAGGACTATAAAATGGATGAAC
1 ACCTTCGACGTAAAAGTATCC-CGCAACCCTAAAGGACTTAAAAA-GACTA-AAAAAGGATGAAC
* * ** * *
1564067 CTATCTTAAATA-TCCACCTTCGGCATAAAAGCGGACCTGGTGACAACCTAAGAGTTAGTTCTAG
63 CTATCCTAAA-AGCCCACCTTCGGCATAAAAGCGGACC-GGTGATGACCTAAGAGTTGGTTCTAA
* * *
1564131 AAAATAACTAAAATGCCCCTAAGGGAT
126 AAAATTACCAAAAT-CCCCTATGGGAT
* ** * * * * ** * *
1564158 ACCTTCGACGTAAAAGAATCTTGGTATCTCTAAAAGACTTAAAAAGGGTTTTAAAAGGGATGAAC
1 ACCTTCGACGTAAAAGTATC-CCGCAACCCTAAAGGACTTAAAAA--GACTAAAAAAGGATGAAC
* * * * * * * * * * *
1564223 CTATCTTAAATGCCTATCTTTGGTATAAAA-TGGACTCGGCGATGACTTAAGAATCGGTTCTAAA
63 CTATCCTAAAAGCCCACCTTCGGCATAAAAGCGGAC-CGGTGATGACCTAAGAGTTGGTTCT-AA
* ** *
1564287 AAAAATATGAAAATGCCCT-TAGAGGAT
126 AAAATTACCAAAATCCCCTAT-G-GGAT
* * ** * * * * * *
1564314 ATCTTCAATATGATAGTATCCAGGTC-CCCCTAAA-GAATTAAAAATGGACTATAAAAGGGATGA
1 ACCTTCGACGTAAAAGTATCC-CG-CAACCCTAAAGGACTTAAAAA--GACTA-AAAAAGGATGA
* * * * *
1564377 ACCTATCCTAAATGCCCACCTTCGACATAAAAGTGAACCTGGTGATGACCT-AGAAGTTAGTTCT
61 ACCTATCCTAAAAGCCCACCTTCGGCATAAAAGCGGACC-GGTGATGACCTAAG-AGTTGGTTCT
* ** *
1564441 -AAAAATTACGAAAATGCCTTTAGGGGAT
124 AAAAAATTACCAAAAT-CCCCTATGGGAT
* *
1564469 ACTTTCGACGTGAAAGTATC
1 ACCTTCGACGTAAAAGTATC
1564489 TCGGTACCCC
Statistics
Matches: 498, Mismatches: 117, Indels: 57
0.74 0.17 0.08
Matches are distributed among these distances:
155 73 0.15
156 348 0.70
157 77 0.15
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (151 bp):
ACCTTCGACGTAAAAGTATCCCGCAACCCTAAAGGACTTAAAAAGACTAAAAAAGGATGAACCTA
TCCTAAAAGCCCACCTTCGGCATAAAAGCGGACCGGTGATGACCTAAGAGTTGGTTCTAAAAAAT
TACCAAAATCCCCTATGGGAT
Found at i:1564308 original size:312 final size:310
Alignment explanation
Indices: 1563721--1564504 Score: 887
Period size: 312 Copynumber: 2.5 Consensus size: 310
1563711 CGACAGCCCT
*
1563721 AAAGGACTTAAAAAGG-CTTATAAAAGGAATGAACCTATCCTAAA-AGCCCAACTTCGGCATAAA
1 AAAGGACTTAAAAAGGAC-TATAAAAGG-ATGAACCTATCCTAAATA-CCCACCTTCGGCATAAA
* * * *
1563784 AGCGGACC-GGTGATGACCTAGGAGTTGGTTCTAAAAAATTACCAAAATACCCCTATGGGTATAC
63 AGCGGACCTGGTGATGACCTAAGAGTTAGTTCT-AAAAATTACCAAAATGCCCCTAAGGG-ATAC
* * * * * *
1563848 CTTCGATGTAAAAGTATCCCAGCAACCCTAAAGGGCTTAAAAAGACTCAAAAAAGGGATGAAACT
126 CTTCGACGTAAAAGTATCTCGGTAACCCTAAAAGACTTAAAAAGACTCAAAAAAGGGATGAAACT
*
1563913 ATCCTAAATGCCCACCTTTGGCATAAAAGTGGACCCGACGATGACCTAAGACTCGGTTCTAAAAA
191 ATCCTAAATGCCCACCTTTGGCATAAAAGTGGACCCGACGATGACCTAAGAATCGGTTCTAAAAA
* ** * *
1563978 ATTACGAAAATCCCCTTAGAAGATACCTTTGACGTGAAAGTATCCTGGTACCCCA
256 AATACGAAAATCCCCTTAGAAGATACCTTCAACATGAAAGTATCCAGGTACCCCA
* *
1564033 AAAGGACTTAAAAAGGACTATAAAATGGATGAACCTATCTTAAATATCCACCTTCGGCATAAAAG
1 AAAGGACTTAAAAAGGACTATAAAA-GGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAG
** * *
1564098 CGGACCTGGTGACAACCTAAGAGTTAGTTCTAGAAAATAACTAAAATGCCCCTAAGGGATACCTT
65 CGGACCTGGTGATGACCTAAGAGTTAGTTCTA-AAAATTACCAAAATGCCCCTAAGGGATACCTT
* * * * ** *** *
1564163 CGACGTAAAAGAATCTTGGTATCTCTAAAAGACTTAAAAAGGGTTTTAAAAGGGATGAACCTATC
129 CGACGTAAAAGTATCTCGGTAACCCTAAAAGACTTAAAAAGACTCAAAAAAGGGATGAAACTATC
* * * * * * *
1564228 TTAAATGCCTATCTTTGGTATAAAA-TGGACTCGGCGATGACTTAAGAATCGGTTCTAAAAAAAA
194 CTAAATGCCCACCTTTGGCATAAAAGTGGACCCGACGATGACCTAAGAATCGGTTCT-AAAAAAA
* * * * * * * *
1564292 TATGAAAATGCCCTTAGAGGATATCTTCAATATGATAGTATCCAGGTCCCCCT
258 TACGAAAATCCCCTTAGAAGATACCTTCAACATGAAAGTATCCAGGTACCCCA
* * *
1564345 AAA-GAATTAAAAATGGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGACATAAAA
1 AAAGGACTTAAAAA-GGACTATAAAA-GGATGAACCTATCCTAAATACCCACCTTCGGCATAAAA
* * * ** * *
1564409 GTGAACCTGGTGATGACCT-AGAAGTTAGTTCTAAAAATTACGAAAATGCCTTTAGGGGATACTT
64 GCGGACCTGGTGATGACCTAAG-AGTTAGTTCTAAAAATTACCAAAATGCCCCTAAGGGATACCT
* *
1564473 TCGACGTGAAAGTATCTCGGTACCCCTAAAAG
128 TCGACGTAAAAGTATCTCGGTAACCCTAAAAG
1564505 CCCTTCAATC
Statistics
Matches: 395, Mismatches: 69, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
311 90 0.23
312 260 0.66
313 45 0.11
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (310 bp):
AAAGGACTTAAAAAGGACTATAAAAGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGC
GGACCTGGTGATGACCTAAGAGTTAGTTCTAAAAATTACCAAAATGCCCCTAAGGGATACCTTCG
ACGTAAAAGTATCTCGGTAACCCTAAAAGACTTAAAAAGACTCAAAAAAGGGATGAAACTATCCT
AAATGCCCACCTTTGGCATAAAAGTGGACCCGACGATGACCTAAGAATCGGTTCTAAAAAAATAC
GAAAATCCCCTTAGAAGATACCTTCAACATGAAAGTATCCAGGTACCCCA
Found at i:1567763 original size:165 final size:165
Alignment explanation
Indices: 1567373--1567832 Score: 556
Period size: 163 Copynumber: 2.8 Consensus size: 165
1567363 GAAAATGGGG
* *
1567373 ATTTCAAAGAAAAAATTCAAGAACTCATGAACATGAATGAATTTTTGAAAACTGAATTAATATGA
1 ATTTC-AAGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAACT-AATTAATATGA
* * * * ** * *
1567438 AATTAATAATGATGTTTTATGAATTTTAAAAATTGAAAACCTTGAAAAATCTCCTC----GAA-T
64 AATAAATAATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATT
* *
1567498 ACGGAGTAAAAAACACCATATTTTGGAAAAAAAAGGA
129 ACGGAGTAAAAAACACCATATTTTCGAAAAAAAAGAA
* * * *
1567535 ATTTTAAGGAGAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTTAAAAATAAATTAATATA
1 ATTTCAA-GA-AAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAACT-AATTAATATG
1567600 AAATAAATAATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAAT
63 AAATAAATAATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAAT
* * * * *
1567665 TACGGAGTAGAAAATATCGTA-TTTCGAAAAAAGAGAA
128 TACGGAGTAAAAAACACCATATTTTCGAAAAAAAAGAA
* * *
1567702 ATTTCAAGAAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTGAAAACTAATTTAATATGAG
1 ATTTCAAGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAA-TTAATATGAA
* **
1567767 ATAAATAATAATATTTGATGAACTTTTAAAAATTAAAAATTAAGAAAAATCCTCC-CAAAAAAAT
65 ATAAATAATAATATTTGATGAA-TTTTAAAAATTGAAAACCAAGAAAAATCC-CCTCAAAAAAAT
1567831 TA
128 TA
1567833 TGAAAAGAAA
Statistics
Matches: 256, Mismatches: 32, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
161 2 0.01
162 6 0.02
163 98 0.38
164 2 0.01
165 69 0.27
166 39 0.15
167 23 0.09
168 17 0.07
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (165 bp):
ATTTCAAGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAATTAATATGAAA
TAAATAATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATTAC
GGAGTAAAAAACACCATATTTTCGAAAAAAAAGAA
Found at i:1567884 original size:165 final size:165
Alignment explanation
Indices: 1567379--1567892 Score: 469
Period size: 165 Copynumber: 3.1 Consensus size: 165
1567369 GGGGATTTCA
* * * * * * *
1567379 AAGAAAAAATTCAAGAACTCATGAACATGAATGAATTTTTGAAAACTGAATTAATATGAAATTAA
1 AAGAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATAAATTAATATAAAATAAA
* * * * ** * *
1567444 TAATGATGTTTTATGAATTTTAAAAATTGAAAACCTTGAAAAATCTCCTC----GAA-TACGGAG
66 TAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTACGGA-
* * * * *
1567504 TAAA-AAACACCATA-T-TTTGGAAAAAA-AAGGAATTTT
130 -AAAGAAA-A-TATAGTATTTCGAAAAAAGAA-AAAATTC
* *
1567540 AAGGAGAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTTAAAAATAAATTAATATAAAATA
1 AA-GA-AAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATAAATTAATATAAAATA
*
1567605 AATAATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATTACGG
64 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTACGG
** * * *
1567670 AGTAGAAAATATCGTATTTCGAAAAAAGAGAAATTTC
129 AAAAGAAAATATAGTATTTCGAAAAAAGAAAAAATTC
* * * * *
1567707 AAGAAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTGAAAACTAATTTAATATGAGATAAA
1 AAGAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATAAATTAATATAAAATAAA
** *
1567772 TAATAATATTTGATGAACTTTTAAAAATTAAAAATTAAGAAAAATCCTCC-CAAAAAAATTA-TG
66 TAATAATATTTGATGAA-TTTTAAAAATTAAAAACCAAGAAAAATCC-CCTCAAAAAAATTACGG
* * **
1567835 AAAAGAAAACTCTATTATTT-GAAAGTAGAAAAAATTC
129 AAAAGAAAA-TATAGTATTTCGAAAAAAGAAAAAATTC
*
1567872 AA-AAAGAAAATCAATAACTCA
1 AAGAAA-AAAATCAAAAACTCA
1567893 AAATATAAAG
Statistics
Matches: 295, Mismatches: 43, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
161 2 0.01
162 2 0.01
163 98 0.33
164 3 0.01
165 110 0.37
166 49 0.17
167 24 0.08
168 7 0.02
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.28
Consensus pattern (165 bp):
AAGAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATAAATTAATATAAAATAAA
TAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTACGGAA
AAGAAAATATAGTATTTCGAAAAAAGAAAAAATTC
Found at i:1568051 original size:33 final size:33
Alignment explanation
Indices: 1568008--1568074 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1567998 AGCAAAGAAA
* * * *
1568008 AGCTCCTGTTTTGTTACGAGGAAAAATCTAAGG
1 AGCTCATGTTTTGCTACCAGAAAAAATCTAAGG
1568041 AGCTCATGTTTTGCTACCAGAAAAAATCTAAGG
1 AGCTCATGTTTTGCTACCAGAAAAAATCTAAGG
1568074 A
1 A
1568075 TTTCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (33 bp):
AGCTCATGTTTTGCTACCAGAAAAAATCTAAGG
Found at i:1570598 original size:57 final size:57
Alignment explanation
Indices: 1570502--1570782 Score: 191
Period size: 57 Copynumber: 4.9 Consensus size: 57
1570492 ATTTTAGTCA
* * * *
1570502 TTTCCATGAC-TCAA-GAATTTTATGACATTTTATGCATTTTAATATCATTTA-ATTAT
1 TTTCCATGACAT-AAGGACTTTTATG-TATTTTATGAATTTTGATATCATTTAGATTAT
* *
1570558 TTTCCATGACATAAGGACTTTTATGTGATTTTGTGAATTTTGATGTCATTTA-AGTTAT
1 TTTCCATGACATAAGGACTTTTATGT-ATTTTATGAATTTTGATATCATTTAGA-TTAT
* * * * * * * *
1570616 TTT-CATGATATAGGGACTTTCATGCAATTATAAGAATTATGATATCATTTAGATAAT
1 TTTCCATGACATAAGGACTTTTATG-TATTTTATGAATTTTGATATCATTTAGATTAT
* ** * * * *
1570673 TTTTCATGATTTAGGGAC-TTTATGCTATTTTATGAATTTTGATGTTATTTAGATCAT
1 TTTCCATGACATAAGGACTTTTATG-TATTTTATGAATTTTGATATCATTTAGATTAT
** * **
1570730 TTTCCATGATC-T-AGAGACTTTTACATAATTTTATGAACTTTGATGCCATTTAG
1 TTTCCATGA-CATAAG-GACTTTTATGT-ATTTTATGAATTTTGATATCATTTAG
1570783 GTATGTAAGC
Statistics
Matches: 181, Mismatches: 33, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
56 13 0.07
57 120 0.66
58 48 0.27
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.47
Consensus pattern (57 bp):
TTTCCATGACATAAGGACTTTTATGTATTTTATGAATTTTGATATCATTTAGATTAT
Found at i:1570703 original size:114 final size:115
Alignment explanation
Indices: 1570543--1570750 Score: 271
Period size: 114 Copynumber: 1.8 Consensus size: 115
1570533 ATGCATTTTA
* *
1570543 ATATCATTTAATTATTTTCCATGACATAAGGACTTTTATGTGATTTTGTGAATTTTGATGTCATT
1 ATATCATTTAATAATTTTCCATGACATAAGGACTTTTATGTGATTTTATGAATTTTGATGTCATT
* *
1570608 TA-AGTTATTTT-CATGATATAGGGACTTTCATGCAATTATAAGAATTATG
66 TAGA-TCATTTTCCATGATATAGAGACTTTCATGCAATTATAAGAATTATG
* ** * *
1570657 ATATCATTTAGATAATTTTTCATGATTTAGGGAC-TTTATGCT-ATTTTATGAATTTTGATGTTA
1 ATATCATTTA-ATAATTTTCCATGACATAAGGACTTTTATG-TGATTTTATGAATTTTGATGTCA
*
1570720 TTTAGATCATTTTCCATGATCTAGAGACTTT
64 TTTAGATCATTTTCCATGATATAGAGACTTT
1570751 TACATAATTT
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
114 45 0.56
115 35 0.44
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.47
Consensus pattern (115 bp):
ATATCATTTAATAATTTTCCATGACATAAGGACTTTTATGTGATTTTATGAATTTTGATGTCATT
TAGATCATTTTCCATGATATAGAGACTTTCATGCAATTATAAGAATTATG
Found at i:1571546 original size:13 final size:13
Alignment explanation
Indices: 1571512--1571546 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
1571502 TTAGACTCAA
*
1571512 TGTATCGATACAG
1 TGTATCGATACAC
1571525 TGTAT-GATACAC
1 TGTATCGATACAC
1571537 TGTATCGATA
1 TGTATCGATA
1571547 TTAAGTGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1571652 original size:20 final size:20
Alignment explanation
Indices: 1571627--1571678 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1571617 TATCGATATA
*
1571627 ATGTATCAATACTAAGCAAT
1 ATGTATCGATACTAAGCAAT
1571647 ATGTATCGATACTAAGCAAT
1 ATGTATCGATACTAAGCAAT
1571667 ATGTATCGATAC
1 ATGTATCGATAC
1571679 ATCTGGGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACTAAGCAAT
Found at i:1571653 original size:33 final size:32
Alignment explanation
Indices: 1571595--1571657 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
1571585 ACAATTTAGT
*
1571595 ATGTATCGATACCAAGAACATGTATCGATATA
1 ATGTATCAATACCAAGAACATGTATCGATATA
* *
1571627 ATGTATCAATACTAAGCAATATGTATCGATA
1 ATGTATCAATACCAAG-AACATGTATCGATA
1571658 CTAAGCAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (32 bp):
ATGTATCAATACCAAGAACATGTATCGATATA
Found at i:1572037 original size:58 final size:58
Alignment explanation
Indices: 1571951--1572360 Score: 280
Period size: 58 Copynumber: 7.2 Consensus size: 58
1571941 TCCTAACAAG
* * * * * *
1571951 GTCATTTTCCAAGACCT-GGAGACATTTATCCAATTTTATCAATTTTGATGTCATTTAA
1 GTCATTTTCCATGATCTAGG-GACTTTTATGCAATTTTATGAATTTTGATATCATTTAA
** * *
1572009 GTCATTTTTTATGATCTAGGGACTTTTATGTAATTTTATGAATTTTGATGTCATTT-A
1 GTCATTTTCCATGATCTAGGGACTTTTATGCAATTTTATGAATTTTGATATCATTTAA
* * * * * * *
1572066 GTCATTTTCCATGATCTAGGCAGTTTTAT--ATTTTTATAAATTTGGGTATCATTTAG
1 GTCATTTTCCATGATCTAGGGACTTTTATGCAATTTTATGAATTTTGATATCATTTAA
** * * * * * * *
1572122 GTTGTTTT--ATGATATAGGGACTTTCATGTAATTTTGTGAATTTTGATATTAATTAG
1 GTCATTTTCCATGATCTAGGGACTTTTATGCAATTTTATGAATTTTGATATCATTTAA
* * * * * * * * *
1572178 GTCATTTTTCATAATCTTGGAACTTCTATGCCATATTATGAATTTTGATGTCATCTAA
1 GTCATTTTCCATGATCTAGGGACTTTTATGCAATTTTATGAATTTTGATATCATTTAA
** * * * * *
1572236 GTCATTTTCCATG-TACTAAAGATTTTTATGCAATTTTATGAATTTTAATATTACTTAG
1 GTCATTTTCCATGAT-CTAGGGACTTTTATGCAATTTTATGAATTTTGATATCATTTAA
* * * * * * *
1572294 GTCATTTTCTATGATCTAGGAATTTTTATGTAATTTCAT-ATATTTTAAAGAT-ATTTAA
1 GTCATTTTCCATGATCTAGGGACTTTTATGCAATTTTATGA-ATTTT-GATATCATTTAA
1572352 GTCATTTTC
1 GTCATTTTC
1572361 AATAATTTAG
Statistics
Matches: 269, Mismatches: 73, Indels: 20
0.74 0.20 0.06
Matches are distributed among these distances:
54 15 0.06
55 20 0.07
56 32 0.12
57 28 0.10
58 167 0.62
59 7 0.03
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (58 bp):
GTCATTTTCCATGATCTAGGGACTTTTATGCAATTTTATGAATTTTGATATCATTTAA
Found at i:1573435 original size:13 final size:14
Alignment explanation
Indices: 1573419--1573449 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
1573409 TTCAATATTT
1573419 TAATTTTTA-TCAA
1 TAATTTTTATTCAA
1573432 TAATTTTTATTCAA
1 TAATTTTTATTCAA
1573446 TAAT
1 TAAT
1573450 ATGAACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATTTTTATTCAA
Found at i:1575134 original size:21 final size:19
Alignment explanation
Indices: 1575085--1575145 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 19
1575075 GAATACTTAC
*
1575085 ATAAAAATAAAAAATAAAA
1 ATAAAAATAATAAATAAAA
*
1575104 ACACAAAATAATAAATAATAA
1 ATA-AAAATAATAAATAA-AA
1575125 ATTAAAAATAATAAATTAAAA
1 A-TAAAAATAATAAA-TAAAA
1575146 GATGTAAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 2 0.06
20 13 0.37
21 16 0.46
22 4 0.11
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.21
Consensus pattern (19 bp):
ATAAAAATAATAAATAAAA
Found at i:1575153 original size:14 final size:14
Alignment explanation
Indices: 1575086--1575145 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
1575076 AATACTTACA
*
1575086 TAAAAATAA-AAAA
1 TAAAAATAATAAAT
*
1575099 TAAAAACACA-AAA-
1 TAAAAATA-ATAAAT
1575112 TAATAAATAATAAAT
1 TAA-AAATAATAAAT
1575127 TAAAAATAATAAAT
1 TAAAAATAATAAAT
1575141 TAAAA
1 TAAAA
1575146 GATGTAAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
13 11 0.27
14 27 0.66
15 3 0.07
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAAAATAATAAAT
Found at i:1575585 original size:22 final size:22
Alignment explanation
Indices: 1575557--1575600 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1575547 GTAACAACAA
1575557 ACGAGTCCAATTCAGATTTAGT
1 ACGAGTCCAATTCAGATTTAGT
1575579 ACGAGTCCAATTCAGATTTAGT
1 ACGAGTCCAATTCAGATTTAGT
1575601 CTTACTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (22 bp):
ACGAGTCCAATTCAGATTTAGT
Found at i:1575911 original size:19 final size:19
Alignment explanation
Indices: 1575887--1575931 Score: 67
Period size: 17 Copynumber: 2.5 Consensus size: 19
1575877 AAATCAAAAA
*
1575887 ATATTTTTAATATTTAAAT
1 ATATTTTTAATAATTAAAT
1575906 ATA-TTTT-ATAATTAAAT
1 ATATTTTTAATAATTAAAT
1575923 ATATTTTTA
1 ATATTTTTA
1575932 GATTGAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 12 0.52
18 8 0.35
19 3 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATTTTTAATAATTAAAT
Found at i:1576134 original size:16 final size:16
Alignment explanation
Indices: 1576115--1576150 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1576105 GGTTCATTTA
*
1576115 GGTTTAAGTTTGTTCG
1 GGTTTAAGTTCGTTCG
1576131 GGTTTAAGTTCGTTCG
1 GGTTTAAGTTCGTTCG
1576147 GGTT
1 GGTT
1576151 CAGATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.08, G:0.33, T:0.47
Consensus pattern (16 bp):
GGTTTAAGTTCGTTCG
Found at i:1576175 original size:16 final size:16
Alignment explanation
Indices: 1576156--1576248 Score: 80
Period size: 16 Copynumber: 5.8 Consensus size: 16
1576146 GGGTTCAGAT
1576156 TTATTCGAGTTCGAGC
1 TTATTCGAGTTCGAGC
*
1576172 TTATTCGAGTTCAAGC
1 TTATTCGAGTTCGAGC
* * *
1576188 TCATT-TAGGTTCGGGC
1 TTATTCGA-GTTCGAGC
*
1576204 TTATTCGGGTTCGAGC
1 TTATTCGAGTTCGAGC
* * *
1576220 TTATACGGGTTCGGGC
1 TTATTCGAGTTCGAGC
* *
1576236 TTTTTCAAGTTCG
1 TTATTCGAGTTCG
1576249 GTTTCAAGTT
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
15 1 0.02
16 59 0.98
ACGTcount: A:0.16, C:0.18, G:0.27, T:0.39
Consensus pattern (16 bp):
TTATTCGAGTTCGAGC
Found at i:1576413 original size:18 final size:18
Alignment explanation
Indices: 1576386--1576424 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1576376 TTAAGTAAAT
*
1576386 TTTTATTATACTTTAA-TA
1 TTTTAATATA-TTTAATTA
1576404 TTTTAATATATTTAATTA
1 TTTTAATATATTTAATTA
1576422 TTT
1 TTT
1576425 ATTTATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAATATATTTAATTA
Found at i:1576465 original size:19 final size:18
Alignment explanation
Indices: 1576443--1576478 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1576433 AAATCTATAT
1576443 TTATATATAAAATAATTTA
1 TTATATA-AAAATAATTTA
*
1576462 TTATATAAAATTAATTT
1 TTATATAAAAATAATTT
1576479 TTCAAATAAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTATATAAAAATAATTTA
Found at i:1576468 original size:17 final size:17
Alignment explanation
Indices: 1576441--1576478 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
1576431 TGAAATCTAT
1576441 ATTTATATATAAAA-TA
1 ATTTATATATAAAATTA
1576457 ATTTATTATATAAAATTA
1 ATTTA-TATATAAAATTA
1576475 ATTT
1 ATTT
1576479 TTCAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.25
17 9 0.45
18 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTATATATAAAATTA
Found at i:1576900 original size:56 final size:57
Alignment explanation
Indices: 1576838--1576963 Score: 143
Period size: 56 Copynumber: 2.3 Consensus size: 57
1576828 AGGCAGCAGT
* *
1576838 AGGCAACAGCAACAAAATC-AAAC-CTAGATTGAAACTTAGACCGAACTAATAGCAAC
1 AGGCAACAGCAACAAAACCTAAACGC-AGATTGAAACTTAGACCAAACTAATAGCAAC
* * * *
1576894 AGGCAACAGTAA-TAAACCTAAACGCAGATTGAAGCTTAGACCAAATTAATAGCAAC
1 AGGCAACAGCAACAAAACCTAAACGCAGATTGAAACTTAGACCAAACTAATAGCAAC
**
1576950 -GGCAATGGCAACAA
1 AGGCAACAGCAACAA
1576964 CAACAGCTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
55 12 0.21
56 44 0.77
57 1 0.02
ACGTcount: A:0.47, C:0.21, G:0.17, T:0.15
Consensus pattern (57 bp):
AGGCAACAGCAACAAAACCTAAACGCAGATTGAAACTTAGACCAAACTAATAGCAAC
Found at i:1577133 original size:17 final size:15
Alignment explanation
Indices: 1577110--1577147 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 15
1577100 TCATAAAGAG
1577110 TTAATAATATTTCATT
1 TTAATAATATTT-ATT
1577126 TATAATAATATTTATT
1 T-TAATAATATTTATT
1577142 TTAATA
1 TTAATA
1577148 TAAATTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 5 0.24
17 11 0.52
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAATAATATTTATT
Found at i:1577150 original size:17 final size:17
Alignment explanation
Indices: 1577111--1577156 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
1577101 CATAAAGAGT
1577111 TAATAATATTTCA-TTTA
1 TAATAATATTT-ATTTTA
1577128 TAATAATATTTATTTTA
1 TAATAATATTTATTTTA
1577145 -ATATAA-ATTTAT
1 TA-ATAATATTTAT
1577157 AAGTTTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.30
17 19 0.70
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATAATATTTATTTTA
Found at i:1578441 original size:17 final size:19
Alignment explanation
Indices: 1578411--1578445 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1578401 ATTAAAAATT
1578411 ATAATATTTAATTAAATAC
1 ATAATATTTAATTAAATAC
1578430 ATAAT-TTT-ATTAAATA
1 ATAATATTTAATTAAATA
1578446 TTTATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAATATTTAATTAAATAC
Found at i:1578480 original size:16 final size:17
Alignment explanation
Indices: 1578455--1578487 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1578445 ATTTATTAAA
1578455 TTTAATTTTTTTAATAT
1 TTTAATTTTTTTAATAT
1578472 TTTAA-TTTTTTAATAT
1 TTTAATTTTTTTAATAT
1578488 CATTAATCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTAATTTTTTTAATAT
Found at i:1578493 original size:17 final size:16
Alignment explanation
Indices: 1578456--1578494 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
1578446 TTTATTAAAT
*
1578456 TTAATTTTTTTAATATT
1 TTAA-TTTTTTAATATA
1578473 TTAATTTTTTAATATCA
1 TTAATTTTTTAATAT-A
1578490 TTAAT
1 TTAAT
1578495 CGATTTGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
TTAATTTTTTAATATA
Found at i:1583236 original size:125 final size:120
Alignment explanation
Indices: 1583107--1583484 Score: 419
Period size: 124 Copynumber: 3.1 Consensus size: 120
1583097 ATTATTTTTA
* *
1583107 TTTTATATAAATTAATTAAATTTAAAAAAATTAATAAATAATAATATATTAATTATTATTTTT-T
1 TTTTATATAAATTAA-AAAATTTAAAAAAA--AATAAA-AATAGT-TATT-ATTATTATTTTTAT
* * *
1583171 AATA-AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAATAAATTAAAATATTATT
60 AAAATAAAAATAATATTTAATTAAATTTAAAAAAATTACATTAATAAATTAAAATATTATT
1583231 TTTT-TA-AAA-TAAAAAATTTAAATAAAAAATAAAAAGT-GTTTATTATTATTAGTTTTTAATA
1 TTTTATATAAATTAAAAAATTTAAA-AAAAAATAAAAA-TAG-TTATTATTATTA-TTTTT-ATA
*
1583292 AAATAAAAATAATATTTAATTAAATTTTAAAAAAATTACATTAATAAATTAAAATATTAAT
61 AAATAAAAATAATATTTAATTAAA-TTTAAAAAAATTACATTAATAAATTAAAATATTATT
* ** * * *
1583353 TATTATATTTTATAAAAAAATTTAAAATAAAAAATAAAAA-AGTTTTTTATTATAATTTTTAATA
1 TTTTATA-TAAATTAAAAAATTT-AAA-AAAAAATAAAAATAG-TTATTATTATTATTTTT-ATA
* *
1583417 AAATAAAAATAATATTTAATTAAATTTAAAAAAATTACATTAACAAATTAAAATATTAAT
61 AAATAAAAATAATATTTAATTAAATTTAAAAAAATTACATTAATAAATTAAAATATTATT
*
1583477 TGTTATAT
1 TTTTATAT
1583485 TTTTAAAATA
Statistics
Matches: 226, Mismatches: 14, Indels: 29
0.84 0.05 0.11
Matches are distributed among these distances:
117 7 0.03
118 11 0.05
119 8 0.04
120 13 0.06
121 26 0.12
122 40 0.18
123 5 0.02
124 45 0.20
125 34 0.15
126 21 0.09
127 16 0.07
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.43
Consensus pattern (120 bp):
TTTTATATAAATTAAAAAATTTAAAAAAAAATAAAAATAGTTATTATTATTATTTTTATAAAATA
AAAATAATATTTAATTAAATTTAAAAAAATTACATTAATAAATTAAAATATTATT
Found at i:1583242 original size:67 final size:68
Alignment explanation
Indices: 1583118--1583247 Score: 158
Period size: 68 Copynumber: 1.9 Consensus size: 68
1583108 TTTATATAAA
* * *
1583118 TTAATTAAATTTAAAAAAATTAATAAATAATAATATATTAATTATTATTTTTTAATAAAAAATAA
1 TTAATTAAATTTAAAAAAATTAATAAATAATAATAAAATAATTATTATTTTTAAATAAAAAATAA
1583183 TAT
66 TAT
* * * *
1583186 TTAATTAAGTTTAAAAAATTTACATTAATAA-ATTAAAAT-ATTATT-TTTTTAAAATAAAAAAT
1 TTAATTAAATTTAAAAAAATTA-ATAAATAATAATAAAATAATTATTATTTTT-AAATAAAAAAT
1583248 TTAAATAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
66 5 0.09
67 16 0.30
68 25 0.47
69 7 0.13
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.44
Consensus pattern (68 bp):
TTAATTAAATTTAAAAAAATTAATAAATAATAATAAAATAATTATTATTTTTAAATAAAAAATAA
TAT
Found at i:1583391 original size:46 final size:39
Alignment explanation
Indices: 1583290--1583391 Score: 89
Period size: 46 Copynumber: 2.4 Consensus size: 39
1583280 TAGTTTTTAA
*
1583290 TAAAAT-AAAAATAATATTTAATTAAATTTTAAAAAAAT
1 TAAAATAAAAAATAAAATTTAATTAAATTTTAAAAAAAT
* * *
1583328 TACATTAATAAATTAAAATATTAATTATTATATTTTATAAAAAAATT
1 TAAAATAA-AAAATAAAAT-TTAATTA--A-A-TTT-TAAAAAAA-T
1583375 TAAAATAAAAAATAAAA
1 TAAAATAAAAAATAAAA
1583392 AAGTTTTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
38 4 0.08
39 1 0.02
40 8 0.17
41 7 0.15
43 1 0.02
44 1 0.02
45 3 0.06
46 16 0.33
47 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (39 bp):
TAAAATAAAAAATAAAATTTAATTAAATTTTAAAAAAAT
Found at i:1583489 original size:125 final size:126
Alignment explanation
Indices: 1583175--1583507 Score: 477
Period size: 124 Copynumber: 2.7 Consensus size: 126
1583165 TTTTTTAATA
* * *
1583175 AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAATAAATTAAAATATT-ATTTT-T-TTA
1 AAAAATAATATTTAATTAAATTTAAAAAAATTACATTAATAAATTAAAATATTAATTTTATATTT
** *
1583237 AAAT-AAAAAATTT-AAATAAAAAATAAAAAGTGTTTATTATTATTAGTTTTTAATAAAAT
66 TTATAAAAAAATTTAAAATAAAAAATAAAAAGTGTTTATTATTATTAATTTTTAATAAAAT
1583296 AAAAATAATATTTAATTAAATTTTAAAAAAATTACATTAATAAATTAAAATATTAATTATTATA-
1 AAAAATAATATTTAATTAAA-TTTAAAAAAATTACATTAATAAATTAAAATATTAATT-TTATAT
1583360 TTTTATAAAAAAATTTAAAATAAAAAATAAAAAAGT-TTT-TTATTA-TAATTTTTAATAAAAT
64 TTTTATAAAAAAATTTAAAATAAAAAAT-AAAAAGTGTTTATTATTATTAATTTTTAATAAAAT
*
1583421 AAAAATAATATTTAATTAAATTTAAAAAAATTACATTAACAAATTAAAATATTAATTGTTATATT
1 AAAAATAATATTTAATTAAATTTAAAAAAATTACATTAATAAATTAAAATATTAATT-TTATATT
*
1583486 TTTAAAATAAAAAATTTAAAAT
65 TTT-ATA-AAAAAATTTAAAAT
1583508 TAAGATTTTT
Statistics
Matches: 192, Mismatches: 9, Indels: 16
0.88 0.04 0.07
Matches are distributed among these distances:
121 19 0.10
122 32 0.17
123 3 0.02
124 43 0.22
125 43 0.22
126 17 0.09
127 28 0.15
128 7 0.04
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (126 bp):
AAAAATAATATTTAATTAAATTTAAAAAAATTACATTAATAAATTAAAATATTAATTTTATATTT
TTATAAAAAAATTTAAAATAAAAAATAAAAAGTGTTTATTATTATTAATTTTTAATAAAAT
Found at i:1584225 original size:19 final size:19
Alignment explanation
Indices: 1584201--1584237 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1584191 ATTAGATTCC
1584201 TTCTTCTATGAAAAAAATT
1 TTCTTCTATGAAAAAAATT
1584220 TTCTTCTATGAAAAAAAT
1 TTCTTCTATGAAAAAAAT
1584238 GATAAGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (19 bp):
TTCTTCTATGAAAAAAATT
Found at i:1584618 original size:88 final size:87
Alignment explanation
Indices: 1584385--1584763 Score: 364
Period size: 86 Copynumber: 4.3 Consensus size: 87
1584375 AATCGGATTT
* * * *
1584385 TTTTTTTTA-AAAAAAGAAAAGTTAATTGAGTGTAAAAGTCAAACT-CTAAGGA-TAAGATTAAT
1 TTTTTTTTATAAAAAA-AAAAGTTGATTGAATGTAAATGTCAAACTGC-AAGGATTAA-ACTAAT
*
1584447 GCATAAATTATATTTGAGAATCA-A
63 GCATAAATTATATTAGAGAATCAGA
* * * * * * *
1584471 ATTTTTTTAT-TAAAAAAAA-TTGATTGAGA-GTAAATATTAGACTGCAAAGATTAGACTAATGC
1 TTTTTTTTATAAAAAAAAAAGTTGATTGA-ATGTAAATGTCAAACTGCAAGGATTAAACTAATGC
* *
1584533 ATTAATTATATCAGAGAATCAGA
65 ATAAATTATATTAGAGAATCAGA
* *
1584556 TTTTTTTTATAGAAAAAAAAAGTTGATTGAATATAAATGTCAAACTGTAAGGATTAAACTAATGC
1 TTTTTTTTATA-AAAAAAAAAGTTGATTGAATGTAAATGTCAAACTGCAAGGATTAAACTAATGC
*
1584621 ATGAATTATATTAGAGAATC-GTA
65 ATAAATTATATTAGAGAATCAG-A
* * * *
1584644 TTCTTTTTTAT--AAAAAAAAGTTGATTGATTGTAAATGTCAAATTGCAAGGATTAGACTAATAC
1 TT-TTTTTTATAAAAAAAAAAGTTGATTGAATGTAAATGTCAAACTGCAAGGATTAAACTAATGC
* * *
1584707 ATAAATTATATTTGAAAATCAAA
65 ATAAATTATATTAGAGAATCAGA
1584730 TTTCTTTTTATAGAAAAGCAAAAAAGTTGATTGA
1 TTT-TTTTTAT--AAAA--AAAAAAGTTGATTGA
1584764 TTTTCATGTT
Statistics
Matches: 239, Mismatches: 35, Indels: 32
0.78 0.11 0.10
Matches are distributed among these distances:
84 46 0.19
85 18 0.08
86 85 0.36
87 10 0.04
88 55 0.23
89 8 0.03
90 2 0.01
92 15 0.06
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (87 bp):
TTTTTTTTATAAAAAAAAAAGTTGATTGAATGTAAATGTCAAACTGCAAGGATTAAACTAATGCA
TAAATTATATTAGAGAATCAGA
Found at i:1584716 original size:174 final size:172
Alignment explanation
Indices: 1584383--1584763 Score: 442
Period size: 172 Copynumber: 2.2 Consensus size: 172
1584373 TAAATCGGAT
* * * * * *
1584383 TTTTTTTTTTAAAAAAAGAAAAGTTAATTGAGTGTAAAAGTCAAACTCTAAGGATAAGATTAATG
1 TTTTTTTTATAGAAAAA-AAAAGTTGATTGAATATAAAAGTCAAACTCTAAGGATAAGACTAATG
* * *
1584448 CATAAATTATATTTGAGAATCAAATTTTTTTATTAAAAAAAATTGATTGAGAGTAAATATTAGAC
65 CATAAATTATATTAGAGAATCAAATTTTTTTATTAAAAAAAATTGATTGAGAGTAAATATCAAAC
* * * *
1584513 TGCAAAGATTAGACTAATGCATTAATTATATCAGAGAATCAGA
130 TGCAAAGATTAGACTAATACATAAATTATATCAGAAAATCAAA
* *
1584556 TTTTTTTTATAGAAAAAAAAAGTTGATTGAATATAAATGTCAAACTGTAAGGATTAA-ACTAATG
1 TTTTTTTTATAGAAAAAAAAAGTTGATTGAATATAAAAGTCAAACTCTAAGGA-TAAGACTAATG
* ** ** *
1584620 CATGAATTATATTAGAGAATCGTATTCTTTTT-TATAAAAAAAAGTTGATTGATTGTAAATGTCA
65 CATAAATTATATTAGAGAATCAAATT-TTTTTAT-TAAAAAAAA-TTGATTGAGAGTAAATATCA
* * **
1584684 AATTGCAAGGATTAGACTAATACATAAATTATATTTGAAAATCAAA
127 AACTGCAAAGATTAGACTAATACATAAATTATATCAGAAAATCAAA
1584730 TTTCTTTTTATAGAAAAGCAAAAAAGTTGATTGA
1 TTT-TTTTTATAG-AAA--AAAAAAGTTGATTGA
1584764 TTTTCATGTT
Statistics
Matches: 175, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
172 60 0.34
173 32 0.18
174 56 0.32
175 9 0.05
176 3 0.02
178 15 0.09
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (172 bp):
TTTTTTTTATAGAAAAAAAAAGTTGATTGAATATAAAAGTCAAACTCTAAGGATAAGACTAATGC
ATAAATTATATTAGAGAATCAAATTTTTTTATTAAAAAAAATTGATTGAGAGTAAATATCAAACT
GCAAAGATTAGACTAATACATAAATTATATCAGAAAATCAAA
Found at i:1585372 original size:20 final size:19
Alignment explanation
Indices: 1585342--1585415 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
1585332 TTTACCTAGA
*
1585342 TGTATCGATACATTTTGCAT
1 TGTATCAATACATTTT-CAT
* *
1585362 TGTATTAATACATTGCTCAT
1 TGTATCAATACATT-TTCAT
*
1585382 TGTATCAATACATTTTACAA
1 TGTATCAATACATTTT-CAT
*
1585402 TGTATCGATACATT
1 TGTATCAATACATT
1585416 CAGGCATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (19 bp):
TGTATCAATACATTTTCAT
Found at i:1587788 original size:51 final size:51
Alignment explanation
Indices: 1587708--1587876 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
1587698 ATTTTTCATC
* * * *
1587708 TCGGGGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAA-TTTCTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACACCAATTTTC-CATAA
* * *
1587759 TCGGGGATACTTCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAA
* ** * *
1587810 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAATACTGATTTTTCACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAA
1587861 TCGGGGATACTCCAAC
1 TCGGGGATACTCCAAC
1587877 CCCGTTATTT
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
51 97 0.95
52 5 0.05
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAA
Found at i:1587904 original size:79 final size:79
Alignment explanation
Indices: 1587812--1588163 Score: 444
Period size: 79 Copynumber: 4.5 Consensus size: 79
1587802 TTCCATAATC
* * *
1587812 GGGGATACTCCAACTCCGATTTTATTTCCAAAATACTGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAAC
*
1587877 CCCGTTATTTCCGA
66 CCCGTTATTTTCGA
* * * * *
1587891 GGGGACACTCCAACCCCGGTTTTATTTATAAAACATTAATTTTT--C-ATCGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAAC
*
1587953 TCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * *
1587967 GGGGATACCCCAA-TCCCGACTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACT-CCGATTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAA
1588031 CCCCGTTATTTTCGA
65 CCCCGTTATTTTCGA
* * * * * *
1588046 GGGGATACTTCAACTCCGGTTTTATTTCTAAAACATCAATTTTTCATAGTCGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGATTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAAC
1588111 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * *
1588125 GGGGATACTCCAAC-CCTATTATTATCTCCAAAATATTAA
1 GGGGATACTCCAACTCCGATT-TTATTTCTAAAATATTAA
1588164 ATTTCTCGTC
Statistics
Matches: 232, Mismatches: 35, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
76 64 0.28
77 1 0.00
78 4 0.02
79 162 0.70
80 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACTCCGATTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:1588147 original size:155 final size:152
Alignment explanation
Indices: 1587812--1588170 Score: 466
Period size: 155 Copynumber: 2.3 Consensus size: 152
1587802 TTCCATAATC
* * * * *
1587812 GGGGATACTCCAACTCCGATTTTATTTCCAAAATACTGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAAC-CC--TATTATTTCTAAAATATTAATTTCTCACAATCGGGGATACTCCAAC
*
1587877 CCCGTTATTTCCGAGGGGACACTCCAACCCCGGTTTTATTTATAAAACATTAATTTTTCATCGGG
63 CCCGTTATTTCCGAGGGGACACTCCAACCCCGGTTTTATTTATAAAACATCAATTTTTCATCGGG
*
1587942 GATACTCCAACTCCGTTATTTTCGA
128 GATACTCCAACCCCGTTATTTTCGA
* * *
1587967 GGGGATACCCCAATCCCGACTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAA-CCCTA--TTATTTCTAAAATATTAATTTCTCACAATCGGGGATACTCCAAC
* * * * *
1588032 CCCGTTATTTTCGAGGGGATACTTCAACTCCGGTTTTATTTCTAAAACATCAATTTTTCATAGTC
63 CCCGTTATTTCCGAGGGGACACTCCAACCCCGGTTTTATTTATAAAACATCAATTTTTC--A-TC
1588097 GGGGATACTCCAACCCCGTTATTTTCGA
125 GGGGATACTCCAACCCCGTTATTTTCGA
1588125 GGGGATACTCCAACCCTATTATTATCTCCAAAATATTAAATTTCTC
1 GGGGATACTCCAACCCTATTATT-TCT--AAAATATT-AATTTCTC
1588171 GTCGGGAGAT
Statistics
Matches: 177, Mismatches: 17, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
155 111 0.63
156 4 0.02
157 5 0.03
158 49 0.28
159 8 0.05
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (152 bp):
GGGGATACTCCAACCCTATTATTTCTAAAATATTAATTTCTCACAATCGGGGATACTCCAACCCC
GTTATTTCCGAGGGGACACTCCAACCCCGGTTTTATTTATAAAACATCAATTTTTCATCGGGGAT
ACTCCAACCCCGTTATTTTCGA
Found at i:1594407 original size:62 final size:62
Alignment explanation
Indices: 1594194--1594494 Score: 425
Period size: 62 Copynumber: 5.0 Consensus size: 62
1594184 TTTTTGGCCC
* * *
1594194 TTTAGTCCTCAAAGAGTAGGACGCATTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
* * *
1594255 TTTAGTCCTCAAAGAGCAGGATGCC-TTCTC-TTTCAAAGCCCACACGAGTTGGTGGCACC-
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
**
1594314 TTTAGTCCTCAAAGAGCAGGATACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
* * *
1594376 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTTAAAGCCCATACAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
* * * *
1594438 TCTAATCCTCAAAGAGCAGGACGTC-TTCTC-TTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1594495 TTTTCCAAGC
Statistics
Matches: 217, Mismatches: 19, Indels: 9
0.89 0.08 0.04
Matches are distributed among these distances:
59 27 0.12
60 56 0.26
61 54 0.25
62 80 0.37
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (62 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
Found at i:1595089 original size:51 final size:51
Alignment explanation
Indices: 1594976--1595094 Score: 150
Period size: 51 Copynumber: 2.3 Consensus size: 51
1594966 CGAAAATAAT
* * * *
1594976 AGGGTTGGAGTATCCCCGATTGTGAGAAATTGATGTTTTGGAAATAAAATT
1 AGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAATC
* * *
1595027 AGAGTTAGAGTATCTCCGATTGTGAAAAATT-AGTATTTTAGAAATAAAATC
1 AGGGTTGGAGTATCCCCGATTGTGAAAAATTGA-TATTTTAGAAATAAAATC
*
1595078 GGGGTTGGAGTATCCCC
1 AGGGTTGGAGTATCCCC
1595095 TCAAAAAAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 1 0.02
51 55 0.98
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (51 bp):
AGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAATC
Found at i:1595259 original size:28 final size:30
Alignment explanation
Indices: 1595184--1595260 Score: 126
Period size: 28 Copynumber: 2.7 Consensus size: 30
1595174 GATACAAAGC
1595184 CGGGGTTGGAGTATCCCC--TCGAAAATAA
1 CGGGGTTGGAGTATCCCCAATCGAAAATAA
1595212 CGGGGTTGGAGTATCCCCAAT-G-AAATAA
1 CGGGGTTGGAGTATCCCCAATCGAAAATAA
1595240 CGGGGTTGGAGTATCCCCAAT
1 CGGGGTTGGAGTATCCCCAAT
1595261 TGTGAAAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
28 45 0.96
29 1 0.02
30 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (30 bp):
CGGGGTTGGAGTATCCCCAATCGAAAATAA
Found at i:1595305 original size:107 final size:105
Alignment explanation
Indices: 1595034--1595307 Score: 334
Period size: 107 Copynumber: 2.6 Consensus size: 105
1595024 ATTAGAGTTA
*
1595034 GAGTATCTCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAA
1 GAGTATCCCCGATTGTGAAAAATTAGTATTTTA-AAATAAAATCGGGGTTGGAGTATCCCCTCAA
* * *
1595099 AAAAATGGGATTGGAGTATCCCCGATGACATAACGGGGTTG
65 AAAAACGGGATTGGAGTATCCCCAATGAAATAACGGGGTTG
* * * * * * *
1595140 GAGTACCCCCGATTATGAAAAAATCAATATCTT-AGATACAAAGCCGGGGTTGGAGTATCCCCTC
1 GAGTATCCCCGATTGTG-AAAAATTAGTATTTTAAAATA-AAA-TCGGGGTTGGAGTATCCCCTC
* *
1595204 GAAAATAACGGGGTTGGAGTATCCCCAATGAAATAACGGGGTTG
63 -AAAAAAACGGGATTGGAGTATCCCCAATGAAATAACGGGGTTG
* * * *
1595248 GAGTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCC
1 GAGTATCCCCGATTGTGAAAAATTAGTATTTT-AAAATAAAATCGGGGTTGGAGTATCCC
1595308 TGATTGCGGT
Statistics
Matches: 138, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
105 4 0.03
106 17 0.12
107 58 0.42
108 55 0.40
109 4 0.03
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (105 bp):
GAGTATCCCCGATTGTGAAAAATTAGTATTTTAAAATAAAATCGGGGTTGGAGTATCCCCTCAAA
AAAACGGGATTGGAGTATCCCCAATGAAATAACGGGGTTG
Found at i:1595370 original size:64 final size:64
Alignment explanation
Indices: 1595269--1595397 Score: 222
Period size: 64 Copynumber: 2.0 Consensus size: 64
1595259 ATTGTGAAAA
*
1595269 ATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCTGATTGCGGTAAATCGATGCTTTAG
1 ATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTGCGGTAAATCGATGCTTTAG
* * *
1595333 ATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTTCGGTAAATTGATGCTTTAG
1 ATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTGCGGTAAATCGATGCTTTAG
1595397 A
1 A
1595398 AATAAAATCG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (64 bp):
ATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTGCGGTAAATCGATGCTTTAG
Found at i:1595470 original size:51 final size:51
Alignment explanation
Indices: 1595333--1595451 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
1595323 GATGCTTTAG
* ** **
1595333 ATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTTCGGTAA
1 ATTGATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAA
* *
1595384 ATTGATGCTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAA
1 ATTGATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAA
1595435 ATTGATGTTTTGGAAAT
1 ATTGATGTTTTGGAAAT
1595452 GGAACCGGGA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (51 bp):
ATTGATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAA
Found at i:1597787 original size:20 final size:21
Alignment explanation
Indices: 1597762--1597816 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
1597752 TGCCTGAATG
1597762 TATCGATACATTGTA-AAATA
1 TATCGATACATTGTAGAAATA
* *
1597782 TATCGATACATTG-AGCAATG
1 TATCGATACATTGTAGAAATA
*
1597802 TATCGATACAATGTA
1 TATCGATACATTGTA
1597817 TCGATACAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
TATCGATACATTGTAGAAATA
Found at i:1597815 original size:13 final size:13
Alignment explanation
Indices: 1597797--1597826 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1597787 ATACATTGAG
1597797 CAATGTATCGATA
1 CAATGTATCGATA
1597810 CAATGTATCGATA
1 CAATGTATCGATA
1597823 CAAT
1 CAAT
1597827 AAGCAATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1597824 original size:33 final size:33
Alignment explanation
Indices: 1597782--1597880 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
1597772 TTGTAAAATA
*
1597782 TATCGATACATTGAGCAATGTATCGATACAATG
1 TATCGATACAATGAGCAATGTATCGATACAATG
* *
1597815 TATCGATACAATAAGCAATGTATCAATACAATG
1 TATCGATACAATGAGCAATGTATCGATACAATG
* **
1597848 TATCTATACAATGAATAATGTATCGATACAATG
1 TATCGATACAATGAGCAATGTATCGATACAATG
1597881 AACAATGTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
TATCGATACAATGAGCAATGTATCGATACAATG
Found at i:1597835 original size:20 final size:20
Alignment explanation
Indices: 1597809--1597898 Score: 97
Period size: 20 Copynumber: 4.8 Consensus size: 20
1597799 ATGTATCGAT
1597809 ACAATGTATCGATACAAT-A
1 ACAATGTATCGATACAATGA
1597828 AGCAATG--T--AT-CAAT--
1 A-CAATGTATCGATACAATGA
*
1597842 ACAATGTATCTATACAATGA
1 ACAATGTATCGATACAATGA
*
1597862 ATAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
1597882 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
1597899 ATTATGAAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
13 5 0.08
14 1 0.02
15 5 0.08
16 2 0.03
17 2 0.03
18 5 0.08
19 1 0.02
20 39 0.65
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:1597848 original size:13 final size:13
Alignment explanation
Indices: 1597830--1597860 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1597820 ATACAATAAG
1597830 CAATGTATCAATA
1 CAATGTATCAATA
*
1597843 CAATGTATCTATA
1 CAATGTATCAATA
1597856 CAATG
1 CAATG
1597861 AATAATGTAT
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:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (13 bp):
CAATGTATCAATA
Found at i:1598726 original size:45 final size:43
Alignment explanation
Indices: 1598582--1598772 Score: 214
Period size: 42 Copynumber: 4.4 Consensus size: 43
1598572 AAAAAGAGTA
* * *
1598582 CGTCCTACT-TTTCGAGGATAAAG-GAAAAAAGGAAAACGAAA-TG
1 CGTCCTACTCTTT-GAGGACAAAGAG-AAAGAGGAAAA-TAAAGTG
*
1598625 CGTCCTGCTCTTTGAGGACAAA-AGAAAGAGGAAAATAAAGTG
1 CGTCCTACTCTTTGAGGACAAAGAGAAAGAGGAAAATAAAGTG
* *
1598667 CGTCCTACTCTTTGAGGACAAAAGAGACAAGAAGG-GAATGAAGTG
1 CGTCCTACTCTTTGAGGAC-AAAGAGA-AAG-AGGAAAATAAAGTG
* *
1598712 TGTCCTGCTCTTTGAGGACAAAG-GAAAGAGGAAAATAAAGTG
1 CGTCCTACTCTTTGAGGACAAAGAGAAAGAGGAAAATAAAGTG
1598754 CGTCCTACTCTTTGAGGAC
1 CGTCCTACTCTTTGAGGAC
1598773 TAAAAAGTGC
Statistics
Matches: 127, Mismatches: 13, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
41 6 0.05
42 58 0.46
43 22 0.17
44 10 0.08
45 28 0.22
46 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.20
Consensus pattern (43 bp):
CGTCCTACTCTTTGAGGACAAAGAGAAAGAGGAAAATAAAGTG
Found at i:1598844 original size:61 final size:61
Alignment explanation
Indices: 1598748--1598992 Score: 336
Period size: 61 Copynumber: 4.0 Consensus size: 61
1598738 AGAGGAAAAT
* * **
1598748 AAAGTGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGG
1 AAAG-GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGG
* * *
1598810 AAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAG
1 AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG-G
* *
1598872 AAA-GCATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGCCTTTG-AAAGG
1 AAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGG
1598931 AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGG
1 -AAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGG
1598993 TGTCTTGCTC
Statistics
Matches: 163, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
59 1 0.01
60 7 0.04
61 117 0.72
62 38 0.23
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (61 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGG
Found at i:1599086 original size:94 final size:95
Alignment explanation
Indices: 1598936--1599117 Score: 305
Period size: 94 Copynumber: 1.9 Consensus size: 95
1598926 AAAGGAAAAG
* *
1598936 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCTTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGGGTGGGCTTTAAAAGGTGTCCTGC
1599001 TCTTTGAGGACT-AAAGGGTGAAAGGAGAGA
66 TCTTTGAGGACTAAAAGGG-GAAAGGAGAGA
**
1599031 GCGTCCTGCTCTTTGAGGACT-GGGAAGTGCCACCAACTTGGGTGGGCTTTAAAAGGTGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGGGTGGGCTTTAAAAGGTGTCCTGC
1599095 TCTTTGAGGACTAAAAGGGGAAA
66 TCTTTGAGGACTAAAAGGGGAAA
1599118 ATAAGGAAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
94 55 0.67
95 27 0.33
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (95 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGGGTGGGCTTTAAAAGGTGTCCTGC
TCTTTGAGGACTAAAAGGGGAAAGGAGAGA
Found at i:1599191 original size:43 final size:43
Alignment explanation
Indices: 1599133--1599258 Score: 147
Period size: 45 Copynumber: 3.0 Consensus size: 43
1599123 GAAATGGAAC
1599133 GTGTCCTACTCTTTGAGGACAAAAGAGAAGAGGAAAATAAAGT
1 GTGTCCTACTCTTTGAGGACAAAAGAGAAGAGGAAAATAAAGT
* * *
1599176 GTGTCCTGCTTTTTGAGGACAAAAGGGAAAAGAAGG-AAATGAAA-T
1 GTGTCCTACTCTTTGAGGACAAAA--GAGAAG-AGGAAAAT-AAAGT
1599221 GTGTCCTACTCTTTGAGGACAAAA-AG--G-GGAAAATAAAG
1 GTGTCCTACTCTTTGAGGACAAAAGAGAAGAGGAAAATAAAG
1599259 AAATGGAACG
Statistics
Matches: 71, Mismatches: 6, Indels: 16
0.76 0.06 0.17
Matches are distributed among these distances:
38 5 0.07
39 4 0.06
40 1 0.01
42 1 0.01
43 22 0.31
45 32 0.45
46 6 0.08
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.21
Consensus pattern (43 bp):
GTGTCCTACTCTTTGAGGACAAAAGAGAAGAGGAAAATAAAGT
Found at i:1599237 original size:88 final size:85
Alignment explanation
Indices: 1599082--1599258 Score: 259
Period size: 88 Copynumber: 2.0 Consensus size: 85
1599072 GTGGGCTTTA
* *
1599082 AAAGGTGTCCTGCTCTTTGAGGACTAAAAGGGGAAAATAAGGAAATGGAACGTGTCCTACTCTTT
1 AAAGGTGTCCTGCTCTTTGAGGACTAAAAGGGGAAAAGAAGGAAATGAAACGTGTCCTACTCTTT
1599147 GAGGACAAAAGAGAAGAGGAAAAT
66 GAGGACAAAA-AG--G-GGAAAAT
* *
1599171 AAAGTGTGTCCTGCTTTTTGAGGAC-AAAA-GGGAAAAGAAGGAAATGAAATGTGTCCTACTCTT
1 AAAG-GTGTCCTGCTCTTTGAGGACTAAAAGGGGAAAAGAAGGAAATGAAACGTGTCCTACTCTT
1599234 TGAGGACAAAAAGGGGAAAAT
65 TGAGGACAAAAAGGGGAAAAT
1599255 AAAG
1 AAAG
1599259 AAATGGAACG
Statistics
Matches: 83, Mismatches: 4, Indels: 7
0.88 0.04 0.07
Matches are distributed among these distances:
84 11 0.13
85 1 0.01
87 2 0.02
88 42 0.51
89 8 0.10
90 19 0.23
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (85 bp):
AAAGGTGTCCTGCTCTTTGAGGACTAAAAGGGGAAAAGAAGGAAATGAAACGTGTCCTACTCTTT
GAGGACAAAAAGGGGAAAAT
Found at i:1599280 original size:47 final size:47
Alignment explanation
Indices: 1599086--1599294 Score: 195
Period size: 47 Copynumber: 4.6 Consensus size: 47
1599076 GCTTTAAAAG
* *
1599086 GTGTCCTGCTCTTTGAGGACTAAAAGGGGAAAATAAGGAAATGGAAC
1 GTGTCCTGCTCTTTGAGGACAAAAAGGGGAAAATAAAGAAATGGAAC
*
1599133 GTGTCCTACTCTTTGAGGACAAAAGAGAAGAGGAAAATAAAG---T-----
1 GTGTCCTGCTCTTTGAGGACAAAA-AG--G-GGAAAATAAAGAAATGGAAC
* * * * *
1599176 GTGTCCTGCTTTTTGAGGAC-AAAA-GGGAAAAGAAGGAAATGAAAT
1 GTGTCCTGCTCTTTGAGGACAAAAAGGGGAAAATAAAGAAATGGAAC
*
1599221 GTGTCCTACTCTTTGAGGACAAAAAGGGGAAAATAAAGAAATGGAAC
1 GTGTCCTGCTCTTTGAGGACAAAAAGGGGAAAATAAAGAAATGGAAC
* **
1599268 GTATCCTGCTCTTCAAGGACTAAAAAG
1 GTGTCCTGCTCTTTGAGGAC-AAAAAG
1599295 TGCCACCAAC
Statistics
Matches: 130, Mismatches: 17, Indels: 29
0.74 0.10 0.16
Matches are distributed among these distances:
37 9 0.07
38 1 0.01
40 1 0.01
41 1 0.01
42 3 0.02
43 18 0.14
45 18 0.14
46 4 0.03
47 55 0.42
48 9 0.07
50 1 0.01
51 10 0.08
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (47 bp):
GTGTCCTGCTCTTTGAGGACAAAAAGGGGAAAATAAAGAAATGGAAC
Found at i:1599480 original size:61 final size:61
Alignment explanation
Indices: 1599271--1599833 Score: 679
Period size: 61 Copynumber: 9.3 Consensus size: 61
1599261 ATGGAACGTA
** ** *
1599271 TCCTGCTCTTCAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCG
* * * * *
1599332 TCATGCTCTTTAAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTT-GAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * *
1599391 TCTTGCTCTTTGAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * **
1599452 TCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGAAG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * *
1599513 TCTTGCTCTTTGAGGACTAGG-AAGTGACACCAACTCGTGTGGGCTTTGAAAGGAAAAGACG
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* **
1599574 TCCTGCTTTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * * **
1599635 TCCTACTCTTTGAGGATTGGAAAATGCCGCCAACTTGTGTGGGCTTTGAAAGGCGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * *
1599696 TCCTGCTATTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-AAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * *
1599756 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGT-GGCCTTCAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1599816 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1599834 AGAAGGGCTA
Statistics
Matches: 441, Mismatches: 55, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
58 2 0.00
59 29 0.07
60 129 0.29
61 279 0.63
62 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
Found at i:1605611 original size:79 final size:78
Alignment explanation
Indices: 1605516--1605665 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 78
1605506 TGAAGATAAC
*
1605516 AACAGGGCTGGAGTATCCCCGACTATG-GA-AAATCAGTATTTTGGAAATAAAATCGGGATTGGA
1 AACAGGGCTGGAGTATCCCCGA-T-TGTGAGAAATCAGTATTTTGGAAATAAAATCGGAATTGGA
1605579 GTATTCCCTCGAAAAT
64 GTA-TCCCTCGAAAAT
* * ** *
1605595 AACAGGGTTGGAGTATCCTCGATTGTGAGAAATTGGTGTTTTGGAAATAAAATCGGAATTGGAGT
1 AACAGGGCTGGAGTATCCCCGATTGTGAGAAATCAGTATTTTGGAAATAAAATCGGAATTGGAGT
1605660 ATCCCT
66 ATCCCT
1605666 GATTGTGAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
77 2 0.03
78 8 0.13
79 53 0.84
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (78 bp):
AACAGGGCTGGAGTATCCCCGATTGTGAGAAATCAGTATTTTGGAAATAAAATCGGAATTGGAGT
ATCCCTCGAAAAT
Found at i:1605662 original size:51 final size:51
Alignment explanation
Indices: 1605597--1605715 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 51
1605587 TCGAAAATAA
* * * * *
1605597 CAGGGTTGGAGTAT-CCTCGATTGTGAGAAATTGGTGTTTTGGAAATAAAAT
1 CAGGATTGGAGTATCCCT-GATTGTGAAAAATTAGTATTTTAGAAATAAAAT
1605648 C-GGAATTGGAGTATCCCTGATTGTGAAAAATTAGTATTTTAGAAATAAAAT
1 CAGG-ATTGGAGTATCCCTGATTGTGAAAAATTAGTATTTTAGAAATAAAAT
*
1605699 CAGGGTTGGAGTATCCC
1 CAGGATTGGAGTATCCC
1605716 CTCGAAAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
50 2 0.03
51 52 0.88
52 5 0.08
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (51 bp):
CAGGATTGGAGTATCCCTGATTGTGAAAAATTAGTATTTTAGAAATAAAAT
Found at i:1605764 original size:28 final size:29
Alignment explanation
Indices: 1605701--1605774 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 29
1605691 AATAAAATCA
1605701 GGGTTGGAGTATCCCC--TCGAAAAAACG
1 GGGTTGGAGTATCCCCGATCGAAAAAACG
* * *
1605728 GGATTGGAGTATCCCCGAT-GACATAACG
1 GGGTTGGAGTATCCCCGATCGAAAAAACG
*
1605756 GGGTTGGAGTACCCCCGAT
1 GGGTTGGAGTATCCCCGAT
1605775 TATGAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
27 15 0.38
28 24 0.60
29 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (29 bp):
GGGTTGGAGTATCCCCGATCGAAAAAACG
Found at i:1605838 original size:28 final size:28
Alignment explanation
Indices: 1605806--1605879 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
1605796 GATACAAAGC
**
1605806 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1605834 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1605862 CGAGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1605880 AATTGTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:1608376 original size:20 final size:19
Alignment explanation
Indices: 1608351--1608424 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1608341 AAAATGCCTG
* *
1608351 AATGTATTGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
1608371 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
1608391 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
*
1608411 AATGTATCAATACA
1 AATGTATCGATACA
1608425 TCTGGGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1608458 original size:13 final size:13
Alignment explanation
Indices: 1608440--1608469 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1608430 GTAAACCCAA
*
1608440 AATGTATTGATAC
1 AATGTATCGATAC
1608453 AATGTATCGATAC
1 AATGTATCGATAC
1608466 AATG
1 AATG
1608470 AATAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1608478 original size:20 final size:20
Alignment explanation
Indices: 1608451--1608507 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
1608441 ATGTATTGAT
1608451 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
1608471 ATAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
1608491 ACAATGTATCGGTACAA
1 ACAATGTATCGATACAA
1608508 ATTGTGAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:1612091 original size:12 final size:12
Alignment explanation
Indices: 1612074--1612137 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
1612064 AGGAAGAGAG
1612074 AAAAAAGAAAGA
1 AAAAAAGAAAGA
1612086 AAAAAAGAAAGA
1 AAAAAAGAAAGA
* * * *
1612098 AGGAAAGGGAAGC
1 A-AAAAAGAAAGA
*
1612111 AAAAAAGGAA-A
1 AAAAAAGAAAGA
1612122 AAAAAAGAAAAGA
1 AAAAAAG-AAAGA
1612135 AAA
1 AAA
1612138 TAGGTGGCCT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
11 7 0.17
12 22 0.54
13 12 0.29
ACGTcount: A:0.77, C:0.02, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAGA
Found at i:1613116 original size:109 final size:108
Alignment explanation
Indices: 1612917--1613255 Score: 357
Period size: 110 Copynumber: 3.1 Consensus size: 108
1612907 TGCATTGATC
* * * *
1612917 ACATAGTATTCAGGCACC-AAGAGATTGGCCTTGAAATAGGTT-ATTCTCTAGAGT-TGTAAAGT
1 ACATAG-ATTCAGGCACCAAAG-GATTAGCTTTGAAAT-GGTTCATTGTCTAAAGTCT-TAAAGT
*
1612979 GGCGTACGAACGCCCTTTATATAAGATAATTTATTTAATTT-ATTAATT
62 GGCGTACGAATGCCCTTTATATAAGATAATTTATTT--TTTAATTAATT
** *
1613027 ATGTAGATTCAGGCACCAAAGGATTAGCTTTGAAATGGTTCATTGTCTAAAGTCTTAAAGTGGCA
1 ACATAGATTCAGGCACCAAAGGATTAGCTTTGAAATGGTTCATTGTCTAAAGTCTTAAAGTGGCG
* *
1613092 TACAAATGCCCTTTATATAGGATAATTTATTTTTTACATTAATT
66 TACGAATGCCCTTTATATAAGATAATTTATTTTTTA-ATTAATT
* * * ** * * *
1613136 ACATAGATTCGAGACATCAAAGGATTAG-TCCTGAAATACTTCATTGTTTAAAGTCATAAAGTGA
1 ACATAGATTC-AGGCACCAAAGGATTAGCT-TTGAAATGGTTCATTGTCTAAAGTCTTAAAGTGG
* *
1613200 CGTACGAATGCTCTTTATATAAGATAATTCT-TTTTTTGCATTAATT
64 CGTACGAATGCCCTTTATATAAGATAATT-TATTTTTT-AATTAATT
1613246 ACATAGATTC
1 ACATAGATTC
1613256 TAACACTAAA
Statistics
Matches: 195, Mismatches: 25, Indels: 18
0.82 0.11 0.08
Matches are distributed among these distances:
107 3 0.02
108 4 0.02
109 88 0.45
110 99 0.51
111 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.37
Consensus pattern (108 bp):
ACATAGATTCAGGCACCAAAGGATTAGCTTTGAAATGGTTCATTGTCTAAAGTCTTAAAGTGGCG
TACGAATGCCCTTTATATAAGATAATTTATTTTTTAATTAATT
Found at i:1613210 original size:110 final size:105
Alignment explanation
Indices: 1612973--1613312 Score: 362
Period size: 110 Copynumber: 3.1 Consensus size: 105
1612963 TCTAGAGTTG
* * **
1612973 TAAAGTGGCGTACGAACGCCCTTTATATAAGATAATTTATTTAATTT-ATTAATTATGTAGATTC
1 TAAAGTGACGTACGAATGCCCTTTATATAAGATAATTTATTT--TTTCATTAATTACATAGATTC
* * * *
1613037 AGGCACCAAAGGATTAGCTTTGAAATGGTTCATTGTCTAAAGTCT
64 AGACA-CAAAGGATTAGC-CTGAAAT-ATTCATTGTCTAAAGTCA
* * * *
1613082 TAAAGTGGCATACAAATGCCCTTTATATAGGATAATTTATTTTTTACATTAATTACATAGATTCG
1 TAAAGTGACGTACGAATGCCCTTTATATAAGATAATTTATTTTTT-CATTAATTACATAGATTC-
*
1613147 AGACATCAAAGGATTAGTCCTGAAATACTTCATTGTTTAAAGTCA
64 AGACA-CAAAGGATTAG-CCTGAAATA-TTCATTGTCTAAAGTCA
*
1613192 TAAAGTGACGTACGAATGCTCTTTATATAAGATAATTCT-TTTTTTGCATTAATTACATAGATTC
1 TAAAGTGACGTACGAATGCCCTTTATATAAGATAATT-TATTTTTT-CATTAATTACATAGATTC
* * * *
1613256 TA-ACACTAAAGGGTTAGCCTTAAATATGTCATCGTCTAAAGTTA
64 -AGACAC-AAAGGATTAGCCTGAAATAT-TCATTGTCTAAAGTCA
1613300 TAAAGTGACGTAC
1 TAAAGTGACGTAC
1613313 AAACGCATTT
Statistics
Matches: 199, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
107 4 0.02
108 35 0.18
109 65 0.33
110 93 0.47
111 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (105 bp):
TAAAGTGACGTACGAATGCCCTTTATATAAGATAATTTATTTTTTCATTAATTACATAGATTCAG
ACACAAAGGATTAGCCTGAAATATTCATTGTCTAAAGTCA
Found at i:1613755 original size:12 final size:12
Alignment explanation
Indices: 1613738--1613762 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1613728 ATGATTATAA
1613738 AAATAATAAAAT
1 AAATAATAAAAT
1613750 AAATAATAAAAT
1 AAATAATAAAAT
1613762 A
1 A
1613763 CTTTTTGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATAATAAAAT
Found at i:1614931 original size:18 final size:18
Alignment explanation
Indices: 1614908--1614944 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1614898 TATCATTATA
1614908 CGACACTAGTATCTGATT
1 CGACACTAGTATCTGATT
1614926 CGACACTAGTATCTGATT
1 CGACACTAGTATCTGATT
1614944 C
1 C
1614945 ATTTTCGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
CGACACTAGTATCTGATT
Found at i:1615415 original size:12 final size:12
Alignment explanation
Indices: 1615400--1615429 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1615390 TAATATTATT
1615400 TTTTATATCATA
1 TTTTATATCATA
*
1615412 TTTTATATTATA
1 TTTTATATCATA
1615424 TTTTAT
1 TTTTAT
1615430 TTTTTTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTATATCATA
Found at i:1616386 original size:2 final size:2
Alignment explanation
Indices: 1616379--1616420 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1616369 CGCTTCATGG
1616379 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
1616421 TTGACTAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1616608 original size:22 final size:23
Alignment explanation
Indices: 1616553--1616614 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
1616543 ATTTGAAAAT
*
1616553 TTTGGATATTTAAATTAATCAAA
1 TTTGAATATTTAAATTAATCAAA
*
1616576 TTTGAATATTTAAATTAA-CTGAA
1 TTTGAATATTTAAATTAATC-AAA
1616599 TTT-AATATTT-AATTAA
1 TTTGAATATTTAAATTAA
1616615 ATTAGTTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.17
22 8 0.22
23 22 0.61
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (23 bp):
TTTGAATATTTAAATTAATCAAA
Found at i:1618925 original size:19 final size:20
Alignment explanation
Indices: 1618881--1618917 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1618871 AAAAATTTAT
1618881 ATTT-AAAAATTTTAATTGA
1 ATTTAAAAAATTTTAATTGA
1618900 ATTTAAAAAATTTTAATT
1 ATTTAAAAAATTTTAATT
1618918 TTTTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
ATTTAAAAAATTTTAATTGA
Found at i:1619130 original size:20 final size:22
Alignment explanation
Indices: 1619090--1619132 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
1619080 TTAATTTATT
*
1619090 TATTATTTATATTAAATTTAAA
1 TATTATTTATATTAAAATTAAA
1619112 TATTA-TTAT-TTAAAATTAAA
1 TATTATTTATATTAAAATTAAA
1619132 T
1 T
1619133 TAAATTACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 4 0.20
22 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTATTTATATTAAAATTAAA
Found at i:1619135 original size:25 final size:25
Alignment explanation
Indices: 1619062--1619137 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
1619052 ATCTAAAGTT
* * *
1619062 ATATAATTATTATAAAATTTAATT-T
1 ATATTATTATT-TAAAATTAAATTAA
*
1619087 AT-TTATTATTT-ATATTAAATTTAA
1 ATATTATTATTTAAAATTAAA-TTAA
1619111 ATATTATTATTTAAAATTAAATTAA
1 ATATTATTATTTAAAATTAAATTAA
1619136 AT
1 AT
1619138 TACATTACTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
22 6 0.14
23 3 0.07
24 9 0.21
25 17 0.40
26 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATATTATTATTTAAAATTAAATTAA
Found at i:1625473 original size:14 final size:14
Alignment explanation
Indices: 1625454--1625481 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1625444 TTAATTATAA
1625454 AATATAAAAATATT
1 AATATAAAAATATT
1625468 AATATAAAAATATT
1 AATATAAAAATATT
1625482 TTTAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATAAAAATATT
Found at i:1626867 original size:23 final size:22
Alignment explanation
Indices: 1626841--1626883 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
1626831 TAGATGGAAA
*
1626841 TTAAAATTTAAGAGTTTATTTGG
1 TTAAAATTAAAG-GTTTATTTGG
*
1626864 TTAATATTAAAGGTTTATTT
1 TTAAAATTAAAGGTTTATTT
1626884 AAGTATGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TTAAAATTAAAGGTTTATTTGG
Found at i:1631382 original size:15 final size:15
Alignment explanation
Indices: 1631362--1631417 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
1631352 TTGGTTGCTA
1631362 TTTTTTTCTTTTTCT
1 TTTTTTTCTTTTTCT
*
1631377 TTTTTTTCTTTTTAT
1 TTTTTTTCTTTTTCT
* *
1631392 ATTTTTTCTTTTTCA
1 TTTTTTTCTTTTTCT
*
1631407 TTATTTTCTTT
1 TTTTTTTCTTT
1631418 GACAATTTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTTCTTTTTCT
Found at i:1631545 original size:15 final size:17
Alignment explanation
Indices: 1631525--1631563 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
1631515 ACTAGGTTTA
1631525 TTTTTTCCTTT-TTCTT
1 TTTTTTCCTTTATTCTT
*
1631541 TTTTTATTCTTTATTCTT
1 TTTTT-TCCTTTATTCTT
1631559 TTTTT
1 TTTTT
1631564 CTTTCTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 5 0.25
18 10 0.50
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTCCTTTATTCTT
Found at i:1631576 original size:26 final size:26
Alignment explanation
Indices: 1631533--1631591 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
1631523 TATTTTTTCC
* *
1631533 TTTTTCTTTTTTTATTCTTTATTCTT
1 TTTTTCTTTTATTATTCTTGATTCTT
*
1631559 TTTTTCTTTCTATT-TTCTTGCTTCTT
1 TTTTTCTTT-TATTATTCTTGATTCTT
*
1631585 TTCTTCT
1 TTTTTCT
1631592 ATTTTTCCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 25 0.89
27 3 0.11
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (26 bp):
TTTTTCTTTTATTATTCTTGATTCTT
Found at i:1636912 original size:17 final size:17
Alignment explanation
Indices: 1636890--1636934 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
1636880 TATAACTATT
*
1636890 ATTATAAAAAATATATA
1 ATTATAAAAAATATAAA
1636907 ATTATATTAAAAATATAAA
1 ATTATA--AAAAATATAAA
1636926 ATTTATAAA
1 A-TTATAAA
1636935 TTAAAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 6 0.25
18 2 0.08
19 11 0.46
20 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTATAAAAAATATAAA
Found at i:1636914 original size:22 final size:21
Alignment explanation
Indices: 1636875--1636919 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
1636865 CTAGTAAAAT
1636875 AAAATTATAACTATTATTATAA
1 AAAATTATAACTATTATTA-AA
*
1636897 AAAATATATAATTA-TATTAAA
1 AAAAT-TATAACTATTATTAAA
1636918 AA
1 AA
1636920 TATAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 10 0.48
23 7 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATTATAACTATTATTAAA
Found at i:1638290 original size:8 final size:8
Alignment explanation
Indices: 1638273--1638306 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
1638263 ATTAATGAGA
*
1638273 TTTAAATT
1 TTTAATTT
1638281 TTTAATTTT
1 TTTAA-TTT
1638290 TTTAATTT
1 TTTAATTT
1638298 TTTAATTT
1 TTTAATTT
1638306 T
1 T
1638307 ATATTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTAATTT
Found at i:1638299 original size:17 final size:17
Alignment explanation
Indices: 1638273--1638306 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1638263 ATTAATGAGA
1638273 TTTAAATTTTTAATTTT
1 TTTAAATTTTTAATTTT
*
1638290 TTTAATTTTTTAATTTT
1 TTTAAATTTTTAATTTT
1638307 ATATTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTAAATTTTTAATTTT
Found at i:1643036 original size:42 final size:42
Alignment explanation
Indices: 1642961--1643040 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
1642951 TCCTCCGCCA
* **
1642961 CCGCCACCTTTGCCAGCACCACCACTGCCTCCACCTTTACCG
1 CCGCCACCTTTGCCACCACCACCACCACCTCCACCTTTACCG
* * *
1643003 CCGCTACCTTTGCTACCACCACCACCACTTCCACCTTT
1 CCGCCACCTTTGCCACCACCACCACCACCTCCACCTTT
1643041 GCATCCCATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.17, C:0.51, G:0.09, T:0.23
Consensus pattern (42 bp):
CCGCCACCTTTGCCACCACCACCACCACCTCCACCTTTACCG
Found at i:1643296 original size:2 final size:2
Alignment explanation
Indices: 1643289--1643337 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1643279 TGAAGCTAGA
1643289 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
1643331 AT AT AT A
1 AT AT AT A
1643338 AAAGTTTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1644015 original size:3 final size:3
Alignment explanation
Indices: 1644007--1644050 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
1643997 CCTTTATTTA
* * *
1644007 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AGT AAT AAG AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1644051 CGTGTTATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:1644129 original size:6 final size:6
Alignment explanation
Indices: 1644118--1644142 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1644108 ATGATATAAT
1644118 TAATTA TAATTA TAATTA TAATTA T
1 TAATTA TAATTA TAATTA TAATTA T
1644143 TAGTTTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:1659920 original size:40 final size:40
Alignment explanation
Indices: 1659860--1659938 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
1659850 ACTCACACAT
* * * * *
1659860 AAGAAAACTATAAAGTGAAGTTTTGGGGGGCGGGGTCTCC
1 AAGAAAACTAGAAAGAGAAGTATAGGGGGGCAGGGTCTCC
*
1659900 AAGAAAACTAGGAAGAGAAGTATAGGGGGGCAGGGTCTC
1 AAGAAAACTAGAAAGAGAAGTATAGGGGGGCAGGGTCTC
1659939 TCTTACCAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.37, T:0.18
Consensus pattern (40 bp):
AAGAAAACTAGAAAGAGAAGTATAGGGGGGCAGGGTCTCC
Found at i:1659994 original size:61 final size:61
Alignment explanation
Indices: 1659899--1660045 Score: 276
Period size: 61 Copynumber: 2.4 Consensus size: 61
1659889 GCGGGGTCTC
*
1659899 CAAGAAAACTAGGAAGAGAAGTATAGGGGGGCAGGGTCTCTCTTACCAGCACACTCACACA
1 CAAGAAAACTAGAAAGAGAAGTATAGGGGGGCAGGGTCTCTCTTACCAGCACACTCACACA
1659960 CAAGAAAACTAGAAAGAGAAGTATAGGGGGGCAGGGTCTCTCTTACCAGCACACTCACACA
1 CAAGAAAACTAGAAAGAGAAGTATAGGGGGGCAGGGTCTCTCTTACCAGCACACTCACACA
*
1660021 CACGAAAACTAGAAAGAGAAGTATA
1 CAAGAAAACTAGAAAGAGAAGTATA
1660046 AGGGAGAGGG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 84 1.00
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.14
Consensus pattern (61 bp):
CAAGAAAACTAGAAAGAGAAGTATAGGGGGGCAGGGTCTCTCTTACCAGCACACTCACACA
Found at i:1664477 original size:3 final size:3
Alignment explanation
Indices: 1664469--1664509 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
1664459 ATTCACCATT
* *
1664469 GCA GCA GCA GCA GCA GCA GCA GCA GCA TCA GCA ACA GCA GC
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GC
1664510 GGTGCGGCGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.34, C:0.34, G:0.29, T:0.02
Consensus pattern (3 bp):
GCA
Found at i:1665334 original size:2 final size:2
Alignment explanation
Indices: 1665327--1665360 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1665317 ACATTAAGGC
1665327 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
1665361 TCTGAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1666134 original size:2 final size:2
Alignment explanation
Indices: 1666127--1666163 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1666117 TTATCATAAT
* *
1666127 TA TA TA TA TA TA TA TA TA TG TG TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1666164 CTTTGGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1667233 original size:18 final size:18
Alignment explanation
Indices: 1667210--1667246 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1667200 CTTTCTCACT
1667210 ATGGTACAAGGATTGCAG
1 ATGGTACAAGGATTGCAG
1667228 ATGGTACAAGGATTGCAG
1 ATGGTACAAGGATTGCAG
1667246 A
1 A
1667247 AGATCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.32, T:0.22
Consensus pattern (18 bp):
ATGGTACAAGGATTGCAG
Found at i:1668314 original size:19 final size:19
Alignment explanation
Indices: 1668287--1668328 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
1668277 TGAACTTTTT
*
1668287 GAAGTTTTTTATATATTTG
1 GAAGCTTTTTATATATTTG
1668306 GAAGCTTTTTATATATTTG
1 GAAGCTTTTTATATATTTG
1668325 GAAG
1 GAAG
1668329 ATTGTACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.50
Consensus pattern (19 bp):
GAAGCTTTTTATATATTTG
Done.