Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 40
Found at i:4373550 original size:31 final size:31
Alignment explanation
Indices: 4373512--4373685 Score: 321
Period size: 31 Copynumber: 5.6 Consensus size: 31
4373502 TTCATAGATT
* *
4373512 CCGAAGAACCTAGGTAATCAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
*
4373543 CCGAAGAACATAGGTAAACAGCCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
4373574 CCGAAGAACATAGGTAAACAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
4373605 CCGAAGAACATAGGTAAACAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
4373636 CCGAAGAACATAGGTAAACAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
4373667 CCGAAGAACATAGGTAAAC
1 CCGAAGAACATAGGTAAAC
4373686 CTCGACCCTG
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 139 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.18
Consensus pattern (31 bp):
CCGAAGAACATAGGTAAACAGTCCATATGTC
Found at i:4378030 original size:31 final size:31
Alignment explanation
Indices: 4377988--4378127 Score: 244
Period size: 31 Copynumber: 4.5 Consensus size: 31
4377978 ATAGATTCCA
* * *
4377988 AAGAACCTAGGTAATCAGTTCATATGTCCCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
4378019 AAGAACATAGGTAAACAGTCCATATGTCCCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
4378050 AAGAACATAGGTAAACAGTCCATATGTCCCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
*
4378081 AAGAATATAGGTAAACAGTCCATATGTCCCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
4378112 AAGAACATAGGTAAAC
1 AAGAACATAGGTAAAC
4378128 CCTCGACCCT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (31 bp):
AAGAACATAGGTAAACAGTCCATATGTCCCG
Found at i:4379966 original size:35 final size:33
Alignment explanation
Indices: 4379927--4380011 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
4379917 GTATTTCAGT
4379927 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAATA-C--TTATTG
*
4379962 TAATTTGGTTATCATTTACCATTTAATACTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATACTTATTG
* *
4379997 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
4380012 TAAAATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 2 0.05
38 13 0.30
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATACTTATTG
Found at i:4388619 original size:114 final size:114
Alignment explanation
Indices: 4388416--4388643 Score: 334
Period size: 114 Copynumber: 2.0 Consensus size: 114
4388406 AAAAATCATA
* * *
4388416 TTGATTCCGAATCAGGTAATAAGATTGATGCTGAGTCGGAAAAGTGTACGGAACAGATGGATGAA
1 TTGATTCCGAATCAGGCAATAAGATTGATGCTGACTCGGAAAAGGGTACGGAACAGATGGATGAA
* *
4388481 TACGAAGCAGAGAATAATTTTTTGT-CGGAAACAGCAAGCAGTACCATTG
66 TACAAAGCAGAGAATAATTCTTTGTCCGG-AACAGCAAGCAGTACCATTG
* * *
4388530 TTGATTCTGAATCAGGCAATAAGATTGATGCTGACTGGGAAAAGGGTACGGAACAGATGGATGAT
1 TTGATTCCGAATCAGGCAATAAGATTGATGCTGACTCGGAAAAGGGTACGGAACAGATGGATGAA
* *
4388595 TACAAAGCTGAG-ATGATATCTTTGTCCGGAACAGCAAGCAGTACCATTG
66 TACAAAGCAGAGAATAAT-TCTTTGTCCGGAACAGCAAGCAGTACCATTG
4388644 ATACCGAGAA
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
113 4 0.04
114 95 0.93
115 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.25
Consensus pattern (114 bp):
TTGATTCCGAATCAGGCAATAAGATTGATGCTGACTCGGAAAAGGGTACGGAACAGATGGATGAA
TACAAAGCAGAGAATAATTCTTTGTCCGGAACAGCAAGCAGTACCATTG
Found at i:4392707 original size:27 final size:27
Alignment explanation
Indices: 4392677--4392728 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
4392667 ATATTTTCGG
*
4392677 TAAAGTGCCCAACAATAACAAAACCAA
1 TAAAGCGCCCAACAATAACAAAACCAA
* *
4392704 TAAAGCGTCCAATAATAACAAAACC
1 TAAAGCGCCCAACAATAACAAAACC
4392729 GATAGAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.54, C:0.25, G:0.08, T:0.13
Consensus pattern (27 bp):
TAAAGCGCCCAACAATAACAAAACCAA
Found at i:4394794 original size:65 final size:65
Alignment explanation
Indices: 4394709--4394862 Score: 200
Period size: 65 Copynumber: 2.4 Consensus size: 65
4394699 CACACCCATT
* * *
4394709 TCGAATGCATTTTGTATACCGATGCACAAACCATGCATCGATGCACTCCTGAATATTTTGAAACA
1 TCGAATGTATTTTGTGTACCGATGCACAAACCATGAATCGATGCACTCCTGAATATTTTGAAACA
* * ** *
4394774 TCGAATGTATTTTGTGTACCGATGCACAGACCATGAATCGATGCACTCTTGGCTCTTTTGAAACA
1 TCGAATGTATTTTGTGTACCGATGCACAAACCATGAATCGATGCACTCCTGAATATTTTGAAACA
* * * *
4394839 TCAAATGTAATTAGTGTACTGATG
1 TCGAATGTATTTTGTGTACCGATG
4394863 TACCCCTAGT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 77 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (65 bp):
TCGAATGTATTTTGTGTACCGATGCACAAACCATGAATCGATGCACTCCTGAATATTTTGAAACA
Found at i:4397165 original size:21 final size:21
Alignment explanation
Indices: 4397104--4397168 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
4397094 CCGTTAGACA
* * *
4397104 GGGGGAAATCGGTACCTCATGG
1 GGGGGGAATCGGTACCCCCT-G
4397126 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
*
4397147 GGGGGGAATCTGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
4397168 G
1 G
4397169 ACATTCTGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 22 0.56
22 17 0.44
ACGTcount: A:0.17, C:0.25, G:0.42, T:0.17
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTG
Found at i:4397237 original size:19 final size:19
Alignment explanation
Indices: 4397201--4397240 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
4397191 AAAACCTGCA
4397201 GGGGGAATCTGTACCCCCT
1 GGGGGAATCTGTACCCCCT
*
4397220 GGGGAGAATTTGTACCCCCT
1 GGGG-GAATCTGTACCCCCT
4397240 G
1 G
4397241 AACAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.23
Consensus pattern (19 bp):
GGGGGAATCTGTACCCCCT
Found at i:4400489 original size:20 final size:21
Alignment explanation
Indices: 4400450--4400489 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4400440 GAAGCTTTAA
* *
4400450 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACTCTTGAT
4400471 GATCATC-ATTTACTCTTGA
1 GATCATCAATTTACTCTTGA
4400490 AAGTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACTCTTGAT
Found at i:4402653 original size:65 final size:64
Alignment explanation
Indices: 4402564--4402717 Score: 175
Period size: 65 Copynumber: 2.4 Consensus size: 64
4402554 TACACTAGGA
** * * * *
4402564 GTGCATCGGTACATTAATTACATTCAATGTTTTAA-AAGAGCCAGGAGTGCATCGATGCATGGTC
1 GTGCATCGGTACACAAAATACATTCAATGTTTCAATAA-AGCCAAGAGTGCATCGATGCATGG-A
4402628 T
64 T
* * **
4402629 GTGCATCGGTACACAAAATCCATTCGATGTTTCAATAAATTCAAGAGTGCATCGATGCATGGAT
1 GTGCATCGGTACACAAAATACATTCAATGTTTCAATAAAGCCAAGAGTGCATCGATGCATGGAT
* *
4402693 GTGCATTGGTACACAAAATGCATTC
1 GTGCATCGGTACACAAAATACATTC
4402718 GAAATAGGGT
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 24 0.32
65 50 0.66
66 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (64 bp):
GTGCATCGGTACACAAAATACATTCAATGTTTCAATAAAGCCAAGAGTGCATCGATGCATGGAT
Found at i:4405009 original size:62 final size:63
Alignment explanation
Indices: 4404912--4405053 Score: 214
Period size: 62 Copynumber: 2.3 Consensus size: 63
4404902 TATAAAGCTA
* *
4404912 AGATAAGTGATTGATTGAATACAGTGGAGTGATTTGTTTTTATATATAT-ATTTCAAGATAAG
1 AGATAAGTGATTGATTGAATACAGGGGAGTGATTTGTTTTTATATATATAATCTCAAGATAAG
*
4404974 AGATAAGTGATTGATTGAATATAGGGGAGTGATTTGTTTTTATATATATAAATCTCAAGATAAG
1 AGATAAGTGATTGATTGAATACAGGGGAGTGATTTGTTTTTATATATAT-AATCTCAAGATAAG
* **
4405038 GGATGGGTGATTGATT
1 AGATAAGTGATTGATT
4405054 TAAAGAAATA
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
62 47 0.65
64 25 0.35
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.39
Consensus pattern (63 bp):
AGATAAGTGATTGATTGAATACAGGGGAGTGATTTGTTTTTATATATATAATCTCAAGATAAG
Found at i:4408756 original size:24 final size:24
Alignment explanation
Indices: 4408729--4408819 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
4408719 TCAAATTTGA
* *
4408729 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* * *
4408753 ATTCTGATCTGAT-GTTGACATGG
1 ATTCTGATATGATACTTGACCTGG
* *
4408776 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
4408800 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
4408820 TTGAATTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 20 0.36
24 36 0.64
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:4408945 original size:35 final size:35
Alignment explanation
Indices: 4408898--4408972 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
4408888 TGGAGGAAGA
* *
4408898 TTACTTGGAGGCTCCTCGGCTTTGTGCTCATGGCC
1 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
4408933 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
4408968 TTACT
1 TTACT
4408973 GTTCGTGACG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.09, C:0.29, G:0.27, T:0.35
Consensus pattern (35 bp):
TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
Found at i:4410475 original size:62 final size:63
Alignment explanation
Indices: 4410402--4410543 Score: 214
Period size: 64 Copynumber: 2.3 Consensus size: 63
4410392 TATAAAGCTA
* * *
4410402 AGATAAGTGATTGATTGAATACAGTGGAGTGATTTG-TTTATATATATATATTTCAAGATAAG
1 AGATAAGTGATTGATTGAATACAGGGGAGTGATTTGTTTTATATATATAAATCTCAAGATAAG
4410464 AGATAAGTGATTGATTGAATACAGGGGAGTGATTTGTTTTTATATATATAAATCTCAAGATAAG
1 AGATAAGTGATTGATTGAATACAGGGGAGTGATTTG-TTTTATATATATAAATCTCAAGATAAG
* **
4410528 GGATGGGTGATTGATT
1 AGATAAGTGATTGATT
4410544 TAAAGAAATA
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
62 35 0.49
64 37 0.51
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (63 bp):
AGATAAGTGATTGATTGAATACAGGGGAGTGATTTGTTTTATATATATAAATCTCAAGATAAG
Found at i:4414246 original size:24 final size:24
Alignment explanation
Indices: 4414219--4414309 Score: 130
Period size: 24 Copynumber: 3.8 Consensus size: 24
4414209 TCAAATTTGA
* *
4414219 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* *
4414243 ATTCTGATATGAT-GTTGACATGG
1 ATTCTGATATGATACTTGACCTGG
*
4414266 ATTCTGATATGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
4414290 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
4414310 TTGAATTATG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 20 0.34
24 38 0.66
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.37
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:4414435 original size:35 final size:35
Alignment explanation
Indices: 4414388--4414462 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
4414378 TGGAGGAAGA
*
4414388 TTACTTGGAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGGAGGCTCCTCGGCATTGTGCTCAGGGCC
*
4414423 TTACTTGTAGGCTCCTCGGCATTGTGCTCAGGGCC
1 TTACTTGGAGGCTCCTCGGCATTGTGCTCAGGGCC
4414458 TTACT
1 TTACT
4414463 GTTCGTGATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.11, C:0.28, G:0.28, T:0.33
Consensus pattern (35 bp):
TTACTTGGAGGCTCCTCGGCATTGTGCTCAGGGCC
Found at i:4421879 original size:30 final size:30
Alignment explanation
Indices: 4421845--4421904 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
4421835 TGTGGTCAAT
*
4421845 TTGACATTGCTTGTAATCACTACCAATGAC
1 TTGACATTGCTTGTAACCACTACCAATGAC
*
4421875 TTGACATTGCTTGTAACCACTTCCAATGAC
1 TTGACATTGCTTGTAACCACTACCAATGAC
4421905 CACTTTGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (30 bp):
TTGACATTGCTTGTAACCACTACCAATGAC
Found at i:4424511 original size:14 final size:14
Alignment explanation
Indices: 4424492--4424519 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4424482 ATTACTTACA
4424492 GATAAGAGTTATAG
1 GATAAGAGTTATAG
4424506 GATAAGAGTTATAG
1 GATAAGAGTTATAG
4424520 AATATCTAAC
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:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (14 bp):
GATAAGAGTTATAG
Found at i:4432412 original size:184 final size:183
Alignment explanation
Indices: 4432052--4432418 Score: 662
Period size: 184 Copynumber: 2.0 Consensus size: 183
4432042 GTCGTGAACG
*
4432052 GAGCTTGGTAAGTGACACCATTAGCTTCAAATCAATTTTTAATTAATTTTGGTAATTTTTTCGGC
1 GAGCTTGGTAAGTGACACCATTAGCTTCAAATCAATTTTTAATTAATTTTGATAATTTTTTCGGC
* * *
4432117 CGCCGGAGTCACCACACCCCCCCATGCGCCATCACCGCTCGTGGGGCTTGTTTCGTTTGTTAGCC
66 CGCCAGAGTCACCACACCCCCCCATGCGCCATCACCGCTCGTAGGGCATGTTTCGTTTGTTAGCC
* * *
4432182 TTTCTAGAAACCTTCCGATCCAACCCATACTCGCGACCCGACCTGCAACCCGA
131 TTTCTAGAAAACTTCCGATCCAACCCATACCCGCGACCCAACCTGCAACCCGA
4432235 GAGCTTGGTAAGTGACACCATTAGCTTCAAATCAATTTTTAATTAATTTTGATAATTTTTTCGGC
1 GAGCTTGGTAAGTGACACCATTAGCTTCAAATCAATTTTTAATTAATTTTGATAATTTTTTCGGC
4432300 CGCCAGAGTCACCACACGCCCCCCATGCGCCATCACCGCTCGTAGGGCATGTTTCGTTTGTTAGC
66 CGCCAGAGTCACCACAC-CCCCCCATGCGCCATCACCGCTCGTAGGGCATGTTTCGTTTGTTAGC
4432365 CTTTCTAGAAAACTTCCGATCCAACCCATACCCGCGACCCAACCTGCAACCCGA
130 CTTTCTAGAAAACTTCCGATCCAACCCATACCCGCGACCCAACCTGCAACCCGA
4432419 TTCGACCTGT
Statistics
Matches: 176, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
183 80 0.45
184 96 0.55
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (183 bp):
GAGCTTGGTAAGTGACACCATTAGCTTCAAATCAATTTTTAATTAATTTTGATAATTTTTTCGGC
CGCCAGAGTCACCACACCCCCCCATGCGCCATCACCGCTCGTAGGGCATGTTTCGTTTGTTAGCC
TTTCTAGAAAACTTCCGATCCAACCCATACCCGCGACCCAACCTGCAACCCGA
Found at i:4434372 original size:28 final size:29
Alignment explanation
Indices: 4434309--4434375 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
4434299 CATTTTAGAT
*
4434309 CAAATCATTTCCCAATATTAAAAATTTTC
1 CAAATCATTTCCCAATATTAAAAACTTTC
4434338 CAAATCATTTCCCAATATTAAAAACTTTC
1 CAAATCATTTCCCAATATTAAAAACTTTC
4434367 C-AATCATTT
1 CAAATCATTT
4434376 TTGCATTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 8 0.22
29 29 0.78
ACGTcount: A:0.40, C:0.22, G:0.00, T:0.37
Consensus pattern (29 bp):
CAAATCATTTCCCAATATTAAAAACTTTC
Found at i:4440752 original size:15 final size:15
Alignment explanation
Indices: 4440732--4440769 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
4440722 CTCCAATACT
4440732 TCATCATCAAATTCA
1 TCATCATCAAATTCA
*
4440747 TCATCATCAATTTCA
1 TCATCATCAAATTCA
*
4440762 TGATCATC
1 TCATCATC
4440770 TTGATCTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (15 bp):
TCATCATCAAATTCA
Found at i:4450159 original size:25 final size:25
Alignment explanation
Indices: 4450135--4450181 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
4450125 TTTTGTTTTA
4450135 AAAACTT-TTCAAATTATTATATTT
1 AAAACTTGTTCAAATTATTATATTT
**
4450159 AAATTTTGTTCAAATTATTATAT
1 AAAACTTGTTCAAATTATTATAT
4450182 ACTAATACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.51
Consensus pattern (25 bp):
AAAACTTGTTCAAATTATTATATTT
Found at i:4451442 original size:36 final size:37
Alignment explanation
Indices: 4451402--4451492 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
4451392 GACCTGACCT
*
4451402 AAAAATATATA-CCTTCACCCAATTTGACGCGA-CTCG
1 AAAAATATATACCCTTCACCCAATTTGACCCGATC-CG
* *
4451438 AAAAATATATATCCTCCACCCAATTTGACCCGATCCG
1 AAAAATATATACCCTTCACCCAATTTGACCCGATCCG
4451475 AAAAA-ATATACCCTTCAC
1 AAAAATATATACCCTTCAC
4451493 TCGACTCAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
36 22 0.45
37 26 0.53
38 1 0.02
ACGTcount: A:0.38, C:0.30, G:0.08, T:0.24
Consensus pattern (37 bp):
AAAAATATATACCCTTCACCCAATTTGACCCGATCCG
Found at i:4453106 original size:22 final size:20
Alignment explanation
Indices: 4453078--4453139 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
4453068 TAATATTAAT
*
4453078 ATTTTTAAAATATTAAAATA
1 ATTTTTTAAATATTAAAATA
*
4453098 ATTTATTT-ATTATTAAAAT-
1 ATTT-TTTAAATATTAAAATA
*
4453117 ATTTTTTATAATTTTATAAATA
1 ATTTTTTA-AATATTA-AAATA
4453139 A
1 A
4453140 AAATATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 3 0.09
19 4 0.12
20 19 0.58
21 6 0.18
22 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTTTAAATATTAAAATA
Found at i:4453111 original size:20 final size:18
Alignment explanation
Indices: 4453088--4453125 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
4453078 ATTTTTAAAA
4453088 TATTAAAATAATTTATTTAT
1 TATTAAAAT-ATTT-TTTAT
4453108 TATTAAAATATTTTTTAT
1 TATTAAAATATTTTTTAT
4453126 AATTTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTAAAATATTTTTTAT
Found at i:4453357 original size:20 final size:20
Alignment explanation
Indices: 4453334--4453390 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
4453324 TTTCTATGAA
4453334 ATTAATAAATAATATAAATT
1 ATTAATAAATAATATAAATT
* * *
4453354 ATT-ATAATTTATTATATATT
1 ATTAATAA-ATAATATAAATT
* *
4453374 ATTAAAAAAAAATATAA
1 ATTAATAAATAATATAA
4453391 TATCTTATAT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
19 4 0.15
20 20 0.74
21 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTAATAAATAATATAAATT
Found at i:4459577 original size:12 final size:12
Alignment explanation
Indices: 4459560--4459585 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4459550 TAGTAACATA
4459560 CATCGCATTGTT
1 CATCGCATTGTT
4459572 CATCGCATTGTT
1 CATCGCATTGTT
4459584 CA
1 CA
4459586 ACTTAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.38
Consensus pattern (12 bp):
CATCGCATTGTT
Found at i:4459830 original size:2 final size:2
Alignment explanation
Indices: 4459823--4459909 Score: 165
Period size: 2 Copynumber: 43.5 Consensus size: 2
4459813 ATATGTGTAC
*
4459823 AT AT AT AT AT AT AC 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
4459865 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
4459907 AT A
1 AT A
4459910 CGAATACAAG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 83 1.00
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4460988 original size:3 final size:3
Alignment explanation
Indices: 4460980--4461018 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
4460970 CAAAAATGAT
4460980 TAA TAA TAA TAA TAA -ACA TAA TAA TAA TAAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA T-AA TAA TAA TA
4461019 GTTTAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 1 0.03
3 28 0.85
4 4 0.12
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:4463193 original size:76 final size:76
Alignment explanation
Indices: 4463049--4463232 Score: 298
Period size: 76 Copynumber: 2.4 Consensus size: 76
4463039 CTTAACCGGT
* * * * * *
4463049 TAAAATAAAATAGACGCTACCTATTATGTT-AAACTACCTACTGGTTTGTTTGAATGTTACTAAT
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAAAATACCTACCGATTTGTTTAAATGTTACTAAT
4463113 AATGTAAACGG
66 AATGTAAACGG
4463124 TAAAATAAAATAGGCGCTACCTATTACGTTAAAAATACCTACCGATTTGTTTAAATGTTACTAAT
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAAAATACCTACCGATTTGTTTAAATGTTACTAAT
4463189 AATGTAAACGG
66 AATGTAAACGG
*
4463200 TAAAATAAAGTAGGCGCTACCTATTACGTTAAA
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAA
4463233 TAAGCGTTAC
Statistics
Matches: 101, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 28 0.28
76 73 0.72
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (76 bp):
TAAAATAAAATAGGCGCTACCTATTACGTTAAAAATACCTACCGATTTGTTTAAATGTTACTAAT
AATGTAAACGG
Found at i:4463317 original size:73 final size:74
Alignment explanation
Indices: 4463230--4463402 Score: 260
Period size: 75 Copynumber: 2.3 Consensus size: 74
4463220 CTATTACGTT
* * * *
4463230 AAATAAGCGTTACCTATTATGTTAAACTA-CTACC-GATTGTTTGAAGGTTACTAATAATGTAAA
1 AAATAGGCGCTACCTATT-TGTTAAAATATCTACCAGATTGTTTAAAGGTTACTAATAATGTAAA
4463293 CGGTAAAATA
65 CGGTAAAATA
*
4463303 AAATAGGCGCTACCTATTGTGTTAAAATATCTACCAGTTTGTTTAAAGGTTACTAATAATGTAAA
1 AAATAGGCGCTACCTATT-TGTTAAAATATCTACCAGATTGTTTAAAGGTTACTAATAATGTAAA
4463368 CGGTAAAATA
65 CGGTAAAATA
*
4463378 AAATAGGCACTACCTATTTGTTAAA
1 AAATAGGCGCTACCTATTTGTTAAA
4463403 TAGGCGCTAC
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
73 25 0.27
74 12 0.13
75 54 0.59
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (74 bp):
AAATAGGCGCTACCTATTTGTTAAAATATCTACCAGATTGTTTAAAGGTTACTAATAATGTAAAC
GGTAAAATA
Found at i:4463328 original size:96 final size:99
Alignment explanation
Indices: 4463131--4463320 Score: 296
Period size: 96 Copynumber: 1.9 Consensus size: 99
4463121 CGGTAAAATA
* *
4463131 AAATAGGCGCTACCTATTACGTTAAAAATACCTACCGATTTGTTTAAATGTTACTAATAATGTAA
1 AAATAAGCGCTACCTATTACGTTAAAAATACCTACCGATTTGTTTAAAGGTTACTAATAATGTAA
*
4463196 ACGGTAAAATAAAGTAGGCGCTACCTATTACGTT
66 ACGGTAAAATAAAATAGGCGCTACCTATTACGTT
* * * *
4463230 AAATAAGCGTTACCTATTATGTT-AAACTA-CTACCGA-TTGTTTGAAGGTTACTAATAATGTAA
1 AAATAAGCGCTACCTATTACGTTAAAAATACCTACCGATTTGTTTAAAGGTTACTAATAATGTAA
4463292 ACGGTAAAATAAAATAGGCGCTACCTATT
66 ACGGTAAAATAAAATAGGCGCTACCTATT
4463321 GTGTTAAAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
96 52 0.62
97 7 0.08
98 5 0.06
99 20 0.24
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (99 bp):
AAATAAGCGCTACCTATTACGTTAAAAATACCTACCGATTTGTTTAAAGGTTACTAATAATGTAA
ACGGTAAAATAAAATAGGCGCTACCTATTACGTT
Found at i:4463357 original size:96 final size:96
Alignment explanation
Indices: 4463131--4463517 Score: 289
Period size: 96 Copynumber: 4.0 Consensus size: 96
4463121 CGGTAAAATA
* * * *
4463131 AAATAGGCGCTACCTATTACGTTAAAAATACCTACCGATTTGTTTAAATGTTACTAATAATGTAA
1 AAATAAGCG-TACCTATTATGTT-AAACTA-CTACCGATTTGTTTAAAGGTTACTAATAATGTAA
*
4463196 ACGGTAAAATAAAGTAGGCGCTACCTATTACGTT
63 ACGGTAAAATAAAATAGGCGCTACCTATTACGTT
*
4463230 AAATAAGCGTTACCTATTATGTTAAACTACTACCGA-TTGTTTGAAGGTTACTAATAATGTAAAC
1 AAATAAGCG-TACCTATTATGTTAAACTACTACCGATTTGTTTAAAGGTTACTAATAATGTAAAC
**
4463294 GGTAAAATAAAATAGGCGCTACCTATTGTGTT
65 GGTAAAATAAAATAGGCGCTACCTATTACGTT
* * * * *
4463326 AAA-ATATC-TACC-AGTT-TGTTTAAAGGTTACTA---ATAATG--TAAACGGTAAAATAA-AA
1 AAATA-AGCGTACCTA-TTATG-TTAAA--CTACTACCGAT-TTGTTTAAA-GGT-TACTAATAA
* * * *** *
4463381 TAGGCACTAC-CTATTTGTTAAATAGGCGCTACCTATTACGTT
58 T--GTA-AACGGTA-AAATAAAATAGGCGCTACCTATTACGTT
* * *
4463423 AAATAAGTGCTACCTATTATGTTAAACTATCTACC-AGTTTGTTTGAATG-TATCTAATAATGTA
1 AAATAAGCG-TACCTATTATGTTAAACTA-CTACCGA-TTTGTTTAAAGGTTA-CTAATAATGTA
4463486 AACGGTAAAATAAAATAGGCGCTACCTATTAC
62 AACGGTAAAATAAAATAGGCGCTACCTATTAC
4463518 ATTTGTAACA
Statistics
Matches: 222, Mismatches: 39, Indels: 55
0.70 0.12 0.17
Matches are distributed among these distances:
93 7 0.03
94 17 0.08
95 7 0.03
96 69 0.31
97 37 0.17
98 32 0.14
99 36 0.16
100 9 0.04
101 5 0.02
102 3 0.01
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (96 bp):
AAATAAGCGTACCTATTATGTTAAACTACTACCGATTTGTTTAAAGGTTACTAATAATGTAAACG
GTAAAATAAAATAGGCGCTACCTATTACGTT
Found at i:4463403 original size:22 final size:23
Alignment explanation
Indices: 4463378--4463448 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
4463368 CGGTAAAATA
*
4463378 AAATAGGCACTACCTATT-TGTT
1 AAATAGGCGCTACCTATTATGTT
*
4463400 AAATAGGCGCTACCTATTACGTT
1 AAATAGGCGCTACCTATTATGTT
* *
4463423 AAATAAGTGCTACCTATTATGTT
1 AAATAGGCGCTACCTATTATGTT
4463446 AAA
1 AAA
4463449 CTATCTACCA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 17 0.40
23 26 0.60
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (23 bp):
AAATAGGCGCTACCTATTATGTT
Found at i:4464999 original size:20 final size:21
Alignment explanation
Indices: 4464954--4465007 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
4464944 CTACGCGTTT
4464954 TTCGGGACAAATACATAGGTAC
1 TTCGGGACAAATACA-AGGTAC
4464976 TTCGGGACAAATAC-AGGT-C
1 TTCGGGACAAATACAAGGTAC
4464995 ATTCGGGACAAAT
1 -TTCGGGACAAAT
4465008 TTCATATGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.03
20 16 0.52
22 14 0.45
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (21 bp):
TTCGGGACAAATACAAGGTAC
Found at i:4465778 original size:20 final size:21
Alignment explanation
Indices: 4465749--4465790 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4465739 TGTAGCAGTA
* *
4465749 CTGTAGCA-GGGTATCGGTAC
1 CTGTAACAGGGGTATCGATAC
4465769 CTGTAACAGGGGTATCGATAC
1 CTGTAACAGGGGTATCGATAC
4465790 C
1 C
4465791 CTTGAAGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (21 bp):
CTGTAACAGGGGTATCGATAC
Found at i:4466870 original size:73 final size:74
Alignment explanation
Indices: 4466745--4466894 Score: 284
Period size: 73 Copynumber: 2.0 Consensus size: 74
4466735 GGTTGGGGTG
4466745 TTACATTTAATACCTACCGGTTTGTTTAAAGATTACTAATAATGTAAACGGTAAAATAAAATAGG
1 TTACATTTAATACCTACCGGTTTGTTTAAAGATTACTAATAATGTAAACGGTAAAATAAAATAGG
4466810 CGCTACCTA
66 CGCTACCTA
*
4466819 TTACA-TTAATACCTATCGGTTTGTTTAAAGATTACTAATAATGTAAACGGTAAAATAAAATAGG
1 TTACATTTAATACCTACCGGTTTGTTTAAAGATTACTAATAATGTAAACGGTAAAATAAAATAGG
4466883 CGCTACCTA
66 CGCTACCTA
4466892 TTA
1 TTA
4466895 TGTTATTATG
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
73 70 0.93
74 5 0.07
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (74 bp):
TTACATTTAATACCTACCGGTTTGTTTAAAGATTACTAATAATGTAAACGGTAAAATAAAATAGG
CGCTACCTA
Found at i:4467390 original size:12 final size:12
Alignment explanation
Indices: 4467373--4467413 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
4467363 ATGAGAGTAG
4467373 TGTTCATGGTAC
1 TGTTCATGGTAC
*
4467385 TGTTCAT--TAT
1 TGTTCATGGTAC
*
4467395 TGTTCACGGTAC
1 TGTTCATGGTAC
4467407 TGTTCAT
1 TGTTCAT
4467414 ATCGTATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
10 8 0.35
12 15 0.65
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (12 bp):
TGTTCATGGTAC
Found at i:4468480 original size:21 final size:21
Alignment explanation
Indices: 4468454--4468498 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4468444 GATTTCTGGG
* *
4468454 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
4468475 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
4468496 CAA
1 CAA
4468499 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:4469443 original size:2 final size:2
Alignment explanation
Indices: 4469436--4469462 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4469426 TGAACATGTG
4469436 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4469463 TTCTAAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4469731 original size:21 final size:22
Alignment explanation
Indices: 4469707--4469748 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4469697 TATATGAAGT
4469707 ATATGATCA-TATGTGAACAAG
1 ATATGATCAGTATGTGAACAAG
* *
4469728 ATATGATGAGTATGTGTACAA
1 ATATGATCAGTATGTGAACAA
4469749 TAAATGTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.31
Consensus pattern (22 bp):
ATATGATCAGTATGTGAACAAG
Found at i:4470316 original size:147 final size:149
Alignment explanation
Indices: 4470105--4470408 Score: 535
Period size: 148 Copynumber: 2.1 Consensus size: 149
4470095 AAGGCGAGGG
* *
4470105 TCTACGC-GGTCCTTCGGGACATATGTTATTTCTTTGGAACATGTGTGAAGTCTGAAAGACACAT
1 TCTACGCGGGTCCTTCGGGACATATGATATTTCTGTGGAACATGTGTGAAGTCTGAAAGACACAT
4470169 ACTTGATCCCTAGCATATGTATATGATTC-TAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
4470233 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* *
4470252 TCTACGCGGGTCCTTCGGGATATAT-ATA-TTCTGTGGAACATGTGTGAAGTCTTGGAAGACACA
1 TCTACGCGGGTCCTTCGGGACATATGATATTTCTGTGGAACATGTGTGAAGTC-TGAAAGACACA
4470315 TACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
65 TACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
4470380 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
4470400 TCTACGCGG
1 TCTACGCGG
4470409 CACTTCGGTG
Statistics
Matches: 150, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
146 22 0.15
147 49 0.33
148 79 0.53
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (149 bp):
TCTACGCGGGTCCTTCGGGACATATGATATTTCTGTGGAACATGTGTGAAGTCTGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:4470417 original size:23 final size:23
Alignment explanation
Indices: 4470384--4470428 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
4470374 ATCATTATAT
*
4470384 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
4470407 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
4470429 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:4474502 original size:20 final size:22
Alignment explanation
Indices: 4474477--4474522 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
4474467 GGCAAATAGG
4474477 TCATTACT-TTCAC-GTATTGT
1 TCATTACTGTTCACGGTATTGT
4474497 TCATTACTGTTCACGGTATTGT
1 TCATTACTGTTCACGGTATTGT
4474519 TCAT
1 TCAT
4474523 ACCGTATAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 8 0.33
21 5 0.21
22 11 0.46
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.48
Consensus pattern (22 bp):
TCATTACTGTTCACGGTATTGT
Found at i:4474556 original size:18 final size:19
Alignment explanation
Indices: 4474512--4474560 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
4474502 ACTGTTCACG
*
4474512 GTATTGTTCATACCGTATA
1 GTATTGTTCATACCATATA
* *
4474531 GTACTGTTCA-ACCATTTA
1 GTATTGTTCATACCATATA
4474549 GTATTGTTCATA
1 GTATTGTTCATA
4474561 AACGTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (19 bp):
GTATTGTTCATACCATATA
Found at i:4479380 original size:2 final size:2
Alignment explanation
Indices: 4479368--4479411 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
4479358 ATCATACTCC
*
4479368 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4479410 TA
1 TA
4479412 ATGAAATGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4492492 original size:19 final size:19
Alignment explanation
Indices: 4492468--4492508 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
4492458 GTATGCTAGT
4492468 GTGGTTTCAATTGTTTAAC
1 GTGGTTTCAATTGTTTAAC
*
4492487 GTGGTTTCAGTTGTTTAAC
1 GTGGTTTCAATTGTTTAAC
4492506 GTG
1 GTG
4492509 CCTTTGGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.10, G:0.27, T:0.46
Consensus pattern (19 bp):
GTGGTTTCAATTGTTTAAC
Found at i:4492611 original size:25 final size:25
Alignment explanation
Indices: 4492583--4492631 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
4492573 TAATGGACTC
4492583 GATTACAGCCTCTCGAGAGAGGCTT
1 GATTACAGCCTCTCGAGAGAGGCTT
4492608 GATTACAGCCTCTCGAGAGAGGCT
1 GATTACAGCCTCTCGAGAGAGGCT
4492632 CGAGTACGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (25 bp):
GATTACAGCCTCTCGAGAGAGGCTT
Found at i:4499434 original size:65 final size:65
Alignment explanation
Indices: 4499364--4499494 Score: 201
Period size: 65 Copynumber: 2.0 Consensus size: 65
4499354 TCCCTAATTT
* * *
4499364 AATATTCTTCAATTATTCCTTTTTTATACCATACCTACAATTCACTTCATTCAAATTCAAA-AAG
1 AATATTCTTCAATTATTCATTTTTTATACCATACCTACAATTCAATTCACTCAAATT-AAAGAAG
4499428 A
65 A
* *
4499429 AATATTCTTCAATTATTCATTTTTTATACCATACTTATAATTCAATTCACTCAAATTAAAGAAGA
1 AATATTCTTCAATTATTCATTTTTTATACCATACCTACAATTCAATTCACTCAAATTAAAGAAGA
4499494 A
1 A
4499495 GAAGAACGTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
64 3 0.05
65 57 0.95
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.40
Consensus pattern (65 bp):
AATATTCTTCAATTATTCATTTTTTATACCATACCTACAATTCAATTCACTCAAATTAAAGAAGA
Found at i:4499955 original size:15 final size:15
Alignment explanation
Indices: 4499937--4499975 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4499927 TGTTAAGCAT
*
4499937 GTTGATGTTGATAAC
1 GTTGATATTGATAAC
*
4499952 GTTGATATTGATAAT
1 GTTGATATTGATAAC
*
4499967 GTTAATATT
1 GTTGATATT
4499976 TTTGATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (15 bp):
GTTGATATTGATAAC
Found at i:4501661 original size:61 final size:61
Alignment explanation
Indices: 4501593--4501714 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
4501583 CAACCAAAAC
* * *
4501593 TCCCATATTTTACAACCGATAGAATATCTAAAAAGTTGTAAATGAAAGTTTTCGTTTTAGG
1 TCCCATATTTTACAACCGATAGAACATCTAAAAAATTGTAAATGAAAATTTTCGTTTTAGG
4501654 TCCCATATTTTACAACCGATAGAACATCTAAAAAATTGTAAATGAAAATTTTCGTTTTAGG
1 TCCCATATTTTACAACCGATAGAACATCTAAAAAATTGTAAATGAAAATTTTCGTTTTAGG
4501715 GTTTTTAGTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (61 bp):
TCCCATATTTTACAACCGATAGAACATCTAAAAAATTGTAAATGAAAATTTTCGTTTTAGG
Found at i:4504594 original size:65 final size:65
Alignment explanation
Indices: 4504434--4504594 Score: 204
Period size: 64 Copynumber: 2.5 Consensus size: 65
4504424 TTGTTTAAGG
* * * **
4504434 TGCATCGATGCACATGCAGTGCATCGATGCAT--GAATTTAAATAGAAAACATCGAATAGGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATAGAAAACATCGAATAGGATTT
4504497 A
65 A
*
4504498 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
*
4504562 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
4504595 ACCTTCATTA
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
63 1 0.01
64 62 0.72
65 22 0.26
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
Found at i:4506102 original size:23 final size:23
Alignment explanation
Indices: 4506068--4506113 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4506058 CATTATTATA
*
4506068 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
*
4506091 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
4506114 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:4507757 original size:2 final size:2
Alignment explanation
Indices: 4507750--4507782 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4507740 AATCAGAACA
4507750 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4507783 ATCATTGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4511497 original size:17 final size:17
Alignment explanation
Indices: 4511475--4511509 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4511465 TGGACGGGGA
4511475 AATGTGGGATTCTCATG
1 AATGTGGGATTCTCATG
4511492 AATGTGGGATTCTCATG
1 AATGTGGGATTCTCATG
4511509 A
1 A
4511510 GAATGGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (17 bp):
AATGTGGGATTCTCATG
Found at i:4518360 original size:6 final size:6
Alignment explanation
Indices: 4518349--4518380 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
4518339 TGAAGCTCTG
4518349 CTTCCT CTTCCT CTTCCT CTTCCT -TTCC- CTTC
1 CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT CTTC
4518381 TGTTTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 7 0.28
6 18 0.72
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
CTTCCT
Found at i:4519364 original size:20 final size:20
Alignment explanation
Indices: 4519335--4519376 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4519325 TTCATCACAC
* *
4519335 CAAATCCTCTCAACTTCTCT
1 CAAATACTCTCAAATTCTCT
*
4519355 CAAATACTCTTAAATTCTCT
1 CAAATACTCTCAAATTCTCT
4519375 CA
1 CA
4519377 TAGCTCTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (20 bp):
CAAATACTCTCAAATTCTCT
Found at i:4525267 original size:29 final size:29
Alignment explanation
Indices: 4525212--4525267 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
4525202 GATATTTACG
* *
4525212 GGTTGAGAGGATTATTGTTTAATGTTTTC
1 GGTTGAGAGGATTATTGTTGAAAGTTTTC
*
4525241 GGTTGAGAGG-TTGTTGTGTGAAAGTTT
1 GGTTGAGAGGATTATTGT-TGAAAGTTT
4525268 ATGGGGTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.45
Consensus pattern (29 bp):
GGTTGAGAGGATTATTGTTGAAAGTTTTC
Found at i:4525997 original size:84 final size:85
Alignment explanation
Indices: 4525852--4526047 Score: 270
Period size: 84 Copynumber: 2.3 Consensus size: 85
4525842 ACAGGAGTGA
* * *
4525852 TGAACCCATGTCAAACTTATAACACAACATTAAACTGAGAAATAACTTAACAAGAATTGAGAGGA
1 TGAACCCATGTCAAACTTATAACACAATATTAAACTGAGAAATAACTTAACAAGAAATGAGAAGA
* * * *
4525917 TAAGGTAAAGGTGGGAAC-T
66 TAAAGCAAAGATGGAAACGT
* * * *
4525936 TGAACCCATGTCAAACTTATAACACAATATTAAATTGTGAAATAATTTAGCAAGAAATGAGAAGA
1 TGAACCCATGTCAAACTTATAACACAATATTAAACTGAGAAATAACTTAACAAGAAATGAGAAGA
4526001 TAAAGCAAAGATGGAAACGT
66 TAAAGCAAAGATGGAAACGT
*
4526021 T-AACCCATGTCAAATTTATAACACAAT
1 TGAACCCATGTCAAACTTATAACACAAT
4526048 TTTGAAGATC
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
84 97 0.98
85 2 0.02
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.23
Consensus pattern (85 bp):
TGAACCCATGTCAAACTTATAACACAATATTAAACTGAGAAATAACTTAACAAGAAATGAGAAGA
TAAAGCAAAGATGGAAACGT
Found at i:4526674 original size:21 final size:21
Alignment explanation
Indices: 4526649--4526693 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
4526639 TCAAAAATAT
*
4526649 TAAAAATATTAATGTTTTAGG
1 TAAAAATAATAATGTTTTAGG
*
4526670 TAAAAATAATAATGTTTTCGG
1 TAAAAATAATAATGTTTTAGG
4526691 TAA
1 TAA
4526694 TTTTTATCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.40
Consensus pattern (21 bp):
TAAAAATAATAATGTTTTAGG
Found at i:4527409 original size:14 final size:14
Alignment explanation
Indices: 4527320--4527412 Score: 55
Period size: 15 Copynumber: 6.4 Consensus size: 14
4527310 TACTTAATTG
*
4527320 TATTTTCATATATTA
1 TATTTT-ATATATTT
* *
4527335 AATTTTATGTTATTT
1 TATTTTAT-ATATTT
* *
4527350 TAATTTT-TGGTATTG
1 T-ATTTTAT-ATATTT
4527365 TATTTTATATTATTT
1 TATTTTATA-TATTT
*
4527380 TATTTTCA-ATCTTT
1 TATTTT-ATATATTT
*
4527394 TATTTTATATAATT
1 TATTTTATATATTT
4527408 TATTT
1 TATTT
4527413 GTATTTTATC
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
13 1 0.02
14 26 0.43
15 28 0.46
16 6 0.10
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (14 bp):
TATTTTATATATTT
Found at i:4535423 original size:12 final size:12
Alignment explanation
Indices: 4535408--4535434 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4535398 CCAATTTTTT
4535408 AAAATATTGTTA
1 AAAATATTGTTA
4535420 AAAATATTGTTA
1 AAAATATTGTTA
4535432 AAA
1 AAA
4535435 TGATTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
AAAATATTGTTA
Found at i:4536479 original size:18 final size:18
Alignment explanation
Indices: 4536453--4536490 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4536443 TCAAATTTTG
4536453 ATTTCATTTAACAAAT-TT
1 ATTTCATTTAA-AAATATT
*
4536471 ATTTTATTTAAAAATATT
1 ATTTCATTTAAAAATATT
4536489 AT
1 AT
4536491 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTCATTTAAAAATATT
Found at i:4537104 original size:63 final size:63
Alignment explanation
Indices: 4537035--4537157 Score: 160
Period size: 63 Copynumber: 2.0 Consensus size: 63
4537025 AGGTATTTAT
* *
4537035 TATCTATTTAACTTTAAATA-TTAAAGGTAAT-TATATCCTTTTGACTATTTCAAATTAAAATAA
1 TATCTATTTAACTTTAAATAGTAAAAGGT-ATCTATAT-CTTTTGAATATTTCAAATTAAAATAA
* * * *
4537098 TATCTATTTAAGTTTGAATAGTAAAATGTCTCTATATCTTTTGAATATTTCAAATTAAAA
1 TATCTATTTAACTTTAAATAGTAAAAGGTATCTATATCTTTTGAATATTTCAAATTAAAA
4537158 GAGATTATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
63 41 0.79
64 11 0.21
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.45
Consensus pattern (63 bp):
TATCTATTTAACTTTAAATAGTAAAAGGTATCTATATCTTTTGAATATTTCAAATTAAAATAA
Found at i:4538199 original size:35 final size:35
Alignment explanation
Indices: 4538086--4538205 Score: 150
Period size: 35 Copynumber: 3.4 Consensus size: 35
4538076 TGTAATTGTC
* * * * *
4538086 GTGCATTCTCTAAATACGACACATGACACACTGTT
1 GTGCATTATCTGAATGCGAAACATGACACACTATT
* * *
4538121 GTGCATGATCTAAATGCGATACATGACACACTATT
1 GTGCATTATCTGAATGCGAAACATGACACACTATT
4538156 GTGCATTATCTGAATGCGAAACATGACACACTATT
1 GTGCATTATCTGAATGCGAAACATGACACACTATT
* *
4538191 ATGAATTATCTGAAT
1 GTGCATTATCTGAAT
4538206 ATGACACACT
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 75 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (35 bp):
GTGCATTATCTGAATGCGAAACATGACACACTATT
Found at i:4540421 original size:64 final size:64
Alignment explanation
Indices: 4540333--4540494 Score: 281
Period size: 64 Copynumber: 2.5 Consensus size: 64
4540323 TAAAACCTGA
4540333 GTGCATCGATGCATGGAGAGTGCATCGATGCATAAACTGCATTCGATGTTCAATTTATTCATTG
1 GTGCATCGATGCATGGAGAGTGCATCGATGCATAAACTGCATTCGATGTTCAATTTATTCATTG
*
4540397 GTGCATCGATGCATGGAGAGTGCATCGATGCATAAACTGTATTCGATGTTCAATTTATTCATTG
1 GTGCATCGATGCATGGAGAGTGCATCGATGCATAAACTGCATTCGATGTTCAATTTATTCATTG
*
4540461 GTGCATCGATGCATGGATTG-GTGCATCGGTGCAT
1 GTGCATCGATGCATGGA--GAGTGCATCGATGCAT
4540495 CCCTTTGAAA
Statistics
Matches: 94, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
64 80 0.85
65 13 0.14
66 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCATGGAGAGTGCATCGATGCATAAACTGCATTCGATGTTCAATTTATTCATTG
Found at i:4540482 original size:20 final size:20
Alignment explanation
Indices: 4540457--4540494 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4540447 CAATTTATTC
4540457 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
4540477 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
4540495 CCCTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:4541137 original size:14 final size:16
Alignment explanation
Indices: 4541102--4541138 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
4541092 ACCAAAACAG
4541102 TAATCCAAACATTAAA
1 TAATCCAAACATTAAA
*
4541118 TCATCCAAA-A-TAAA
1 TAATCCAAACATTAAA
4541132 TAATCCA
1 TAATCCA
4541139 GAAACATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 10 0.53
15 1 0.05
16 8 0.42
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (16 bp):
TAATCCAAACATTAAA
Found at i:4547013 original size:22 final size:22
Alignment explanation
Indices: 4546983--4547035 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
4546973 AAATCAAAAT
*
4546983 TTTCTTTTTCAATACTTTCAAA
1 TTTCATTTTCAATACTTTCAAA
4547005 TTTCATTTTCAATACTTTCAAA
1 TTTCATTTTCAATACTTTCAAA
4547027 TTTCATTTT
1 TTTCATTTT
4547036 TGAAAGCTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTCATTTTCAATACTTTCAAA
Found at i:4547221 original size:118 final size:117
Alignment explanation
Indices: 4547002--4547222 Score: 250
Period size: 118 Copynumber: 1.9 Consensus size: 117
4546992 CAATACTTTC
*
4547002 AAATTTCATTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAGATTTCA
1 AAATTTCATTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTTCA
* *
4547067 TTTTGATCTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTTGA
66 TTTTGATCTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGA
* * * * * * *
4547119 AAATTTCTTTTTCAA-AGTTTTCATATTTTATTTTTTTAAAGCTCTAACT-CTTTTCTCAACATT
1 AAATTTCATTTTCAATA-CTTTCAAATTTCA-TTTTTGAAAGCTCTAAATCCTTCT-TCAACATT
* * * **
4547182 TCATTTTGATTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAAG
63 TCATTTTGATCTTCAAAATCCATTTTAG-TTTCTAAAAGAAG
4547223 ATCATTTTTA
Statistics
Matches: 85, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
116 1 0.01
117 28 0.33
118 52 0.61
119 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (117 bp):
AAATTTCATTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTTCA
TTTTGATCTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGA
Found at i:4548532 original size:64 final size:65
Alignment explanation
Indices: 4548462--4548641 Score: 247
Period size: 65 Copynumber: 2.8 Consensus size: 65
4548452 TGGAACACTT
* * * *
4548462 AGTGCATCGGTGCACT-AAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAT-AAGCCT
1 AGTGCATCGATGCA-TGGAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCT
4548525 A
65 A
* * *
4548526 AGTGCATCGATGCATGGTGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCATTAAAACCTG
1 AGTGCATCGATGCATGGAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTA
* * *
4548591 AGTGCATCGATGTATGGAGAGTGCATCGATGCATAAACTGCATTCGATGTT
1 AGTGCATCGATGCATGGAGTGTGCATCGATGCATAAAATGCATTCGATGTT
4548642 CAATTTATTC
Statistics
Matches: 103, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
63 1 0.01
64 50 0.49
65 52 0.50
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (65 bp):
AGTGCATCGATGCATGGAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTA
Found at i:4550142 original size:40 final size:40
Alignment explanation
Indices: 4550098--4550179 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
4550088 ACCGTAGTGC
4550098 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
*
4550138 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
4550178 TA
1 TA
4550180 TAAACCTGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
Found at i:4556063 original size:31 final size:31
Alignment explanation
Indices: 4556025--4556083 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
4556015 ATGGTTACTT
4556025 TTTTTATTTAATTAAGATAAGGTCACTATCG
1 TTTTTATTTAATTAAGATAAGGTCACTATCG
* **
4556056 TTTTTATTTAGTTAAGATGTGGTCACTA
1 TTTTTATTTAATTAAGATAAGGTCACTA
4556084 CGGGTTAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.47
Consensus pattern (31 bp):
TTTTTATTTAATTAAGATAAGGTCACTATCG
Found at i:4568297 original size:20 final size:20
Alignment explanation
Indices: 4568260--4568298 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4568250 AGATTGAGTG
* * *
4568260 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
4568280 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
4568299 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:4568493 original size:20 final size:20
Alignment explanation
Indices: 4568470--4568507 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4568460 TTCCCCTGTG
*
4568470 GGGGGAATCGGTTCCCTCAA
1 GGGGGAATCGATTCCCTCAA
*
4568490 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
4568508 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.26, G:0.37, T:0.21
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAA
Found at i:4568493 original size:21 final size:20
Alignment explanation
Indices: 4568447--4568507 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
4568437 CCAGAACCCC
*
4568447 AGGGGGGTATCGATTCCC-CTG
1 AGGGGGG-ATCGATTCCCTC-A
* *
4568468 TGGGGGGAATCGGTTCCCTCA
1 AGGGGGG-ATCGATTCCCTCA
4568489 AGGGGGGATCGATTCCCTC
1 AGGGGGGATCGATTCCCTC
4568508 TGCACCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 11 0.33
21 21 0.64
22 1 0.03
ACGTcount: A:0.15, C:0.25, G:0.38, T:0.23
Consensus pattern (20 bp):
AGGGGGGATCGATTCCCTCA
Found at i:4572333 original size:22 final size:21
Alignment explanation
Indices: 4572293--4572332 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
4572283 GAGTTTGTTT
4572293 TCATTTTTCAATTTTAAAACA
1 TCATTTTTCAATTTTAAAACA
4572314 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4572333 ATAATTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4575532 original size:32 final size:32
Alignment explanation
Indices: 4575491--4575597 Score: 123
Period size: 31 Copynumber: 3.4 Consensus size: 32
4575481 AGTCGAGGGT
*
4575491 TTACCTATGTTCTACTGAACATATGGACA-TAA
1 TTACCTATGTTCTAATGAACATATGGACAGT-A
**
4575523 TTACCTATGTT-TTTTGAGACATATGGACAGTA
1 TTACCTATGTTCTAATGA-ACATATGGACAGTA
*
4575555 -TACCTATGTTCTAAGGAACATATGGACAGT-
1 TTACCTATGTTCTAATGAACATATGGACAGTA
*
4575585 TTACCTAGGTTCT
1 TTACCTATGTTCT
4575598 TCAGGACCTA
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
31 38 0.58
32 26 0.40
33 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (32 bp):
TTACCTATGTTCTAATGAACATATGGACAGTA
Found at i:4577837 original size:14 final size:15
Alignment explanation
Indices: 4577809--4577837 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4577799 TTTGATTATA
4577809 TAAAGTAGATATTTT
1 TAAAGTAGATATTTT
4577824 TAAAGTAG-TATTTT
1 TAAAGTAGATATTTT
4577838 GGTCAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (15 bp):
TAAAGTAGATATTTT
Found at i:4579754 original size:32 final size:32
Alignment explanation
Indices: 4579713--4579819 Score: 123
Period size: 31 Copynumber: 3.4 Consensus size: 32
4579703 AGTCGAGGGT
*
4579713 TTACCTATGTTCTACGGAACATATGGACA-TAA
1 TTACCTATGTTCTAAGGAACATATGGACAGT-A
***
4579745 TTACCTATGTT-TTTTGAGACATATGGACAGTA
1 TTACCTATGTTCTAAGGA-ACATATGGACAGTA
4579777 -TACCTATGTTCTAAGGAACATATGGACAGT-
1 TTACCTATGTTCTAAGGAACATATGGACAGTA
*
4579807 TTACCTAGGTTCT
1 TTACCTATGTTCT
4579820 TCAGGACCTA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
31 37 0.58
32 26 0.41
33 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (32 bp):
TTACCTATGTTCTAAGGAACATATGGACAGTA
Found at i:4580652 original size:16 final size:17
Alignment explanation
Indices: 4580626--4580658 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4580616 AACGATATAC
4580626 GTGATTACATGTAATAT
1 GTGATTACATGTAATAT
*
4580643 GTGA-TACATGTTATAT
1 GTGATTACATGTAATAT
4580659 TGCATTAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.42
Consensus pattern (17 bp):
GTGATTACATGTAATAT
Found at i:4580926 original size:31 final size:31
Alignment explanation
Indices: 4580842--4580947 Score: 101
Period size: 31 Copynumber: 3.4 Consensus size: 31
4580832 GTCGAGGGTT
* *
4580842 TACCTATATTCTACGGAACATATGGACAGA-A
1 TACCTATGTTCTAAGGAACATATGGACA-ATA
*
4580873 TTACCTATG-TCT-TGTGAGACATATGGACAATA
1 -TACCTATGTTCTAAG-GA-ACATATGGACAATA
* *
4580905 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTAAGGAACATATGGACAATA
*
4580936 TACCTAGGTTCT
1 TACCTATGTTCT
4580948 TCGGGACCTA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
30 1 0.02
31 37 0.59
32 24 0.38
33 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (31 bp):
TACCTATGTTCTAAGGAACATATGGACAATA
Found at i:4583937 original size:18 final size:18
Alignment explanation
Indices: 4583914--4583950 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4583904 GACTCGTTCT
4583914 TCTTCCTACAATTTAAAA
1 TCTTCCTACAATTTAAAA
4583932 TCTTCCTACAATTTAAAA
1 TCTTCCTACAATTTAAAA
4583950 T
1 T
4583951 TAAAATAATT
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:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCTTCCTACAATTTAAAA
Found at i:4584779 original size:22 final size:24
Alignment explanation
Indices: 4584743--4584787 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
4584733 TCTTCATTAC
*
4584743 GTTTTAATTATATTTTAATTATTT
1 GTTTTAATTATATTTTAACTATTT
4584767 GTTTT-ATTA-ATTTTAACTATT
1 GTTTTAATTATATTTTAACTATT
4584788 GAGGGATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 4 0.20
24 5 0.25
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (24 bp):
GTTTTAATTATATTTTAACTATTT
Found at i:4585066 original size:28 final size:28
Alignment explanation
Indices: 4585026--4585093 Score: 127
Period size: 28 Copynumber: 2.4 Consensus size: 28
4585016 ATGAGTTATA
*
4585026 ATTCAAAATAATCATTTATTATGCTATT
1 ATTCAAATTAATCATTTATTATGCTATT
4585054 ATTCAAATTAATCATTTATTATGCTATT
1 ATTCAAATTAATCATTTATTATGCTATT
4585082 ATTCAAATTAAT
1 ATTCAAATTAAT
4585094 TAAGAAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (28 bp):
ATTCAAATTAATCATTTATTATGCTATT
Found at i:4587995 original size:2 final size:2
Alignment explanation
Indices: 4587988--4588013 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4587978 TTTTAATCAA
4587988 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
4588014 TCATGGAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4588326 original size:15 final size:15
Alignment explanation
Indices: 4588308--4588338 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4588298 AAATTCTAAA
4588308 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
4588323 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
4588338 T
1 T
4588339 CTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:4589423 original size:30 final size:29
Alignment explanation
Indices: 4589382--4589455 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
4589372 TTTTAGTGTT
*
4589382 GTATTTGTGTTCGTTTATTTATTTTTGAAG
1 GTATTTATGTTCGTTTATTT-TTTTTGAAG
** *
4589412 GTATTTATGTTCACTTATTTTTTTTTAAG
1 GTATTTATGTTCGTTTATTTTTTTTGAAG
*
4589441 GT-GTTAGTGTTCGTT
1 GTATTTA-TGTTCGTT
4589456 CGTATAGTGC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 3 0.08
29 16 0.44
30 17 0.47
ACGTcount: A:0.16, C:0.05, G:0.19, T:0.59
Consensus pattern (29 bp):
GTATTTATGTTCGTTTATTTTTTTTGAAG
Found at i:4589451 original size:29 final size:30
Alignment explanation
Indices: 4589396--4589452 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
4589386 TTGTGTTCGT
*
4589396 TTATTTATTTTTGAAGGTATTTATGTTCAC
1 TTATTTATTTTTGAAGGTAGTTATGTTCAC
*
4589426 TTATTT-TTTTTTAAGGT-GTTAGTGTTC
1 TTATTTATTTTTGAAGGTAGTTA-TGTTC
4589453 GTTCGTATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 15 0.62
30 6 0.25
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (30 bp):
TTATTTATTTTTGAAGGTAGTTATGTTCAC
Found at i:4593705 original size:21 final size:21
Alignment explanation
Indices: 4593676--4593728 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
4593666 ATTCTGAATA
4593676 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
4593697 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
* *
4593718 TCACAATGCGA
1 TCGCATTGCGA
4593729 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:4593746 original size:20 final size:20
Alignment explanation
Indices: 4593721--4593790 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
4593711 TCCTAATTCA
4593721 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
4593741 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
4593761 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
*
4593781 CAACGCGAAT
1 CAATGCGAAT
4593791 CTGACTATCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (20 bp):
CAATGCGAATACGTAAATCG
Found at i:4594014 original size:22 final size:22
Alignment explanation
Indices: 4593989--4594050 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
4593979 ACATCCGTCT
4593989 CCATCTCCGACGAAATCAGTCC
1 CCATCTCCGACGAAATCAGTCC
* * *
4594011 CCATCTCCAACGATATCAGTCT
1 CCATCTCCGACGAAATCAGTCC
*
4594033 CCATCTCCGGCGAAATCA
1 CCATCTCCGACGAAATCA
4594051 TTCACGGTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.27, C:0.39, G:0.13, T:0.21
Consensus pattern (22 bp):
CCATCTCCGACGAAATCAGTCC
Found at i:4594443 original size:34 final size:33
Alignment explanation
Indices: 4594374--4594446 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
4594364 ACTATCGTAA
** *
4594374 TGCGATTCTGTCGTTGCGATTTTCATTTCGCGT
1 TGCGATTCTGTCGTTGCGATAGTCAATTCGCGT
4594407 TGCGATTCT-TGCGTTGCGATAGTCAAATTCGCGT
1 TGCGATTCTGT-CGTTGCGATAGTC-AATTCGCGT
4594441 TGCGAT
1 TGCGAT
4594447 AGTCATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 1 0.03
33 20 0.57
34 14 0.40
ACGTcount: A:0.14, C:0.21, G:0.26, T:0.40
Consensus pattern (33 bp):
TGCGATTCTGTCGTTGCGATAGTCAATTCGCGT
Found at i:4594462 original size:20 final size:20
Alignment explanation
Indices: 4594419--4594486 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
4594409 CGATTCTTGC
* *
4594419 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCAATTTCGT
* *
4594439 GTTGCGATAGTCATTTTTGT
1 GTTGCGATAGTCAATTTCGT
** *
4594459 GTTGCGATTTTCAGTTTCGT
1 GTTGCGATAGTCAATTTCGT
4594479 GTTGCGAT
1 GTTGCGAT
4594487 TTAAAGTTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.16, C:0.15, G:0.26, T:0.43
Consensus pattern (20 bp):
GTTGCGATAGTCAATTTCGT
Found at i:4594494 original size:20 final size:20
Alignment explanation
Indices: 4594457--4594496 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4594447 AGTCATTTTT
**
4594457 GTGTTGCGATTTTCAGTTTC
1 GTGTTGCGATTTAAAGTTTC
4594477 GTGTTGCGATTTAAAGTTTC
1 GTGTTGCGATTTAAAGTTTC
4594497 AGAAACTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.12, G:0.25, T:0.47
Consensus pattern (20 bp):
GTGTTGCGATTTAAAGTTTC
Found at i:4596350 original size:20 final size:20
Alignment explanation
Indices: 4596325--4596521 Score: 206
Period size: 20 Copynumber: 10.5 Consensus size: 20
4596315 AGAATAGTTT
4596325 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
4596345 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
4596365 ACTATTGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
4596381 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
** *
4596398 AAAATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
4596418 ACTATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
4596434 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
4596452 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
4596472 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
4596492 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
4596512 ACTATCGCAA
1 ACTATCGCAA
4596522 CGAAAGAATC
Statistics
Matches: 152, Mismatches: 11, Indels: 28
0.80 0.06 0.15
Matches are distributed among these distances:
14 13 0.09
16 10 0.07
17 8 0.05
18 6 0.04
19 10 0.07
20 105 0.69
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:4596490 original size:40 final size:39
Alignment explanation
Indices: 4596325--4596559 Score: 202
Period size: 40 Copynumber: 6.4 Consensus size: 39
4596315 AGAATAGTTT
*
4596325 ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATG
1 ACTATCGCAA-GCGAAAATGACTATCGCAATGCGAAAATG
* *
4596365 ACTATTGCAA-CG-AGA-GA--ATCGCAATGCG-AAATG
1 ACTATCGCAAGCGAAAATGACTATCGCAATGCGAAAATG
**
4596398 AAAATCGCAACGCGAAAATGACTATCGCAA--C-AACAA--
1 ACTATCGCAA-GCGAAAATGACTATCGCAATGCGAA-AATG
4596434 A--ATCGCAACGCGAAAATGACTATCGCAATGCGAAAATG
1 ACTATCGCAA-GCGAAAATGACTATCGCAATGCGAAAATG
**
4596472 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAATTTG
1 ACTATCGCAA-GCGAAAATGACTATCGCAATGCGAAAATG
4596512 ACTATCGCAA-CG-AAA-GA--ATCGCAATGCG-AAATG
1 ACTATCGCAAGCGAAAATGACTATCGCAATGCGAAAATG
**
4596545 AAAATCGCATAGCGA
1 ACTATCGCA-AGCGA
4596560 TTCTCTCGTT
Statistics
Matches: 163, Mismatches: 14, Indels: 40
0.75 0.06 0.18
Matches are distributed among these distances:
33 22 0.13
34 49 0.30
35 4 0.02
36 10 0.06
37 11 0.07
38 7 0.04
39 7 0.04
40 53 0.33
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (39 bp):
ACTATCGCAAGCGAAAATGACTATCGCAATGCGAAAATG
Found at i:4596611 original size:20 final size:20
Alignment explanation
Indices: 4596566--4596611 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
4596556 GCGATTCTCT
4596566 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* **
4596586 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
4596606 CGTTGC
1 CGTTGC
4596612 AATTTTAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:4597189 original size:21 final size:20
Alignment explanation
Indices: 4597098--4597189 Score: 60
Period size: 21 Copynumber: 4.4 Consensus size: 20
4597088 GACTCACCTG
4597098 TCATCGTTCAAGAGG-CCTCC
1 TCATCGTTCAAGAGGCCCT-C
* *
4597118 CCTATCGTTCAAGAGGCCCTTA
1 TC-ATCGTTCAAGAGGCCC-TC
** *
4597140 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAG-GCCCTC
* * *
4597161 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCC-CTC
4597182 TCATCGTT
1 TCATCGTT
4597190 GAGAAGCCCC
Statistics
Matches: 52, Mismatches: 15, Indels: 9
0.68 0.20 0.12
Matches are distributed among these distances:
20 3 0.06
21 42 0.81
22 6 0.12
23 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.17, T:0.25
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCTC
Found at i:4598657 original size:14 final size:14
Alignment explanation
Indices: 4598638--4598691 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
4598628 GGAAATGACT
4598638 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
4598652 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
4598671 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
4598685 ATCGCAA
1 ATCGCAA
4598692 TGCGAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:4598706 original size:34 final size:33
Alignment explanation
Indices: 4598618--4598713 Score: 147
Period size: 33 Copynumber: 2.8 Consensus size: 33
4598608 AAAACAGACT
* **
4598618 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
4598652 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
4598685 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
4598714 TGAAACTAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 32 0.55
34 26 0.45
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4598787 original size:33 final size:33
Alignment explanation
Indices: 4598728--4598822 Score: 154
Period size: 33 Copynumber: 2.8 Consensus size: 33
4598718 ACTAAATTCG
4598728 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
** *
4598762 CGTTGCGATTTTCATTTCGTTTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
4598795 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
4598823 AGTCAATTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 42 0.75
34 14 0.25
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:4598788 original size:19 final size:17
Alignment explanation
Indices: 4598728--4598813 Score: 67
Period size: 16 Copynumber: 5.1 Consensus size: 17
4598718 ACTAAATTCG
4598728 CGTTGCGATTTTCATTTT
1 CGTTGCGATTTTCA-TTT
*
4598746 CGCATTGCGA--TTCA-CT
1 CG--TTGCGATTTTCATTT
4598762 CGTTGCGATTTTCATTT
1 CGTTGCGATTTTCATTT
*
4598779 CGTTTTGCGA--TTC-TCT
1 CG--TTGCGATTTTCATTT
4598795 CGTTGCGATTTTCATTT
1 CGTTGCGATTTTCATTT
4598812 CG
1 CG
4598814 CATTGCGATA
Statistics
Matches: 54, Mismatches: 4, Indels: 21
0.68 0.05 0.27
Matches are distributed among these distances:
14 12 0.22
16 14 0.26
17 10 0.19
18 6 0.11
19 6 0.11
20 6 0.11
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.48
Consensus pattern (17 bp):
CGTTGCGATTTTCATTT
Found at i:4598840 original size:20 final size:20
Alignment explanation
Indices: 4598815--4598872 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
4598805 TTCATTTCGC
4598815 ATTGCGATAGTCAATTCCGT
1 ATTGCGATAGTCAATTCCGT
*
4598835 ATTGCGATAGTCATTTCCGT
1 ATTGCGATAGTCAATTCCGT
*
4598855 GTTGCGATAGTCATATTC
1 ATTGCGATAGTCA-ATTC
4598873 GCGTTGCGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 31 0.91
21 3 0.09
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTGCGATAGTCAATTCCGT
Found at i:4598878 original size:20 final size:19
Alignment explanation
Indices: 4598795--4598882 Score: 88
Period size: 20 Copynumber: 4.5 Consensus size: 19
4598785 GCGATTCTCT
**
4598795 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
4598814 CATTGCGATAGTCAATTC-
1 CGTTGCGATAGTCATTTCG
4598832 CGTATTGCGATAGTCATTTCCG
1 CG--TTGCGATAGTCATTT-CG
*
4598854 TGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAT-TTCG
4598874 CGTTGCGAT
1 CGTTGCGAT
4598883 TTCCGCGTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
18 1 0.02
19 14 0.25
20 37 0.66
21 3 0.05
22 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:4601108 original size:14 final size:14
Alignment explanation
Indices: 4601089--4601115 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4601079 TCCCGTAGCA
4601089 TTTTCTTTGGGGAC
1 TTTTCTTTGGGGAC
4601103 TTTTCTTTGGGGA
1 TTTTCTTTGGGGA
4601116 TTTCTTCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.30, T:0.52
Consensus pattern (14 bp):
TTTTCTTTGGGGAC
Found at i:4601353 original size:24 final size:24
Alignment explanation
Indices: 4601326--4601372 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
4601316 CAAAATCCGA
*
4601326 GTATTGACCAATATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
4601350 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
4601373 AATACCGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:4602057 original size:22 final size:21
Alignment explanation
Indices: 4602018--4602058 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4602008 TGCCGGATGG
**
4602018 GGAAGGATGTCGTTGGATATA
1 GGAAGGATGTCGCCGGATATA
4602039 GGAACGGATGTCGCCGGATA
1 GGAA-GGATGTCGCCGGATA
4602059 GAGTGATAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.27, C:0.12, G:0.39, T:0.22
Consensus pattern (21 bp):
GGAAGGATGTCGCCGGATATA
Found at i:4602231 original size:20 final size:20
Alignment explanation
Indices: 4602206--4602272 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
4602196 AAATTCAGTA
4602206 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
4602226 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
* *
4602246 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCTCG
4602266 TTGCGAT
1 TTGCGAT
4602273 TTACGTATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:4602289 original size:20 final size:20
Alignment explanation
Indices: 4602259--4602371 Score: 181
Period size: 20 Copynumber: 5.7 Consensus size: 20
4602249 CGATAGTCAG
*
4602259 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
4602279 ATTTGCATTGCGAATTACGT
1 ATTCGCATTGCGATTTACGT
4602299 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4602319 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
4602339 ATTCACATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
4602359 ATTCTCATTGCGA
1 ATTCGCATTGCGA
4602372 ATTAGGAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 86 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:4603501 original size:21 final size:21
Alignment explanation
Indices: 4603467--4603515 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
4603457 CAGGTCTTAT
*
4603467 AGGGAAGATCTTGGAGGAGTGC
1 AGGG-AGATCTTGGAGGAATGC
*
4603489 AGGGAGATGTTGGAGGAATGC
1 AGGGAGATCTTGGAGGAATGC
4603510 AGGGAG
1 AGGGAG
4603516 TTGAGGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.29, C:0.06, G:0.49, T:0.16
Consensus pattern (21 bp):
AGGGAGATCTTGGAGGAATGC
Found at i:4606597 original size:113 final size:113
Alignment explanation
Indices: 4606391--4606600 Score: 278
Period size: 113 Copynumber: 1.9 Consensus size: 113
4606381 TAGGCTTGTT
* * ** * * *
4606391 TAACGAGTTGAACAGGTTGAATTTGGTTCGTTCAAAATTCGATAAACGTTCGAATTGAGATCATA
1 TAACGAGTTAAACAGCTCAAATTTGATTCGTTCAAAATTCGATAAACATTCGAATCGAGATCATA
* * *
4606456 ATGAATTGAGCACAAGTCGAACACAATTTTAATGAATTTAATGAGCAA
66 ATAAACTGAGCACAAGTCAAACACAATTTTAATGAATTTAATGAGCAA
* * *
4606504 TAACGAGTTAAACAGCTCAAATTTGATTTGTTCAAAATTTGATAAACATTCGAATCGAGATCTTA
1 TAACGAGTTAAACAGCTCAAATTTGATTCGTTCAAAATTCGATAAACATTCGAATCGAGATCATA
*
4606569 ATAAACTGAGCACGAA-TCAAACATAATTTTAA
66 ATAAACTGAGCAC-AAGTCAAACACAATTTTAA
4606601 CAAACTTAAC
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
113 80 0.98
114 2 0.02
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (113 bp):
TAACGAGTTAAACAGCTCAAATTTGATTCGTTCAAAATTCGATAAACATTCGAATCGAGATCATA
ATAAACTGAGCACAAGTCAAACACAATTTTAATGAATTTAATGAGCAA
Found at i:4608722 original size:21 final size:22
Alignment explanation
Indices: 4608688--4608738 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 22
4608678 TGATGTCAAC
4608688 TTTCTTCGAACTCTTATGTTAA
1 TTTCTTCGAACTCTTATGTTAA
4608710 TTTCTTC-AACTCTTATGTTAA
1 TTTCTTCGAACTCTTATGTTAA
4608731 TTTCTTCG
1 TTTCTTCG
4608739 GCTACCGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.53
Consensus pattern (22 bp):
TTTCTTCGAACTCTTATGTTAA
Found at i:4614713 original size:19 final size:19
Alignment explanation
Indices: 4614618--4614725 Score: 85
Period size: 19 Copynumber: 5.4 Consensus size: 19
4614608 AACGCGATTT
*
4614618 TGAAAAA-TGTGTGTGATAG
1 TGAAAAAGTGT-TGCGATAG
*
4614637 TTAAAATA-TGTTGCGATAG
1 TGAAAA-AGTGTTGCGATAG
* * *
4614656 TTAAAATGTGTTGCGAGAG
1 TGAAAAAGTGTTGCGATAG
4614675 TTTGAAAAACGTGTTGTTGCGATAG
1 --TGAAAAA---G-TGTTGCGATAG
4614700 TGAAAAAGTGTTGCGATAG
1 TGAAAAAGTGTTGCGATAG
4614719 TGAAAAA
1 TGAAAAA
4614726 TCCAAATAAG
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
19 46 0.62
20 5 0.07
21 5 0.07
23 7 0.09
24 1 0.01
25 10 0.14
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.31
Consensus pattern (19 bp):
TGAAAAAGTGTTGCGATAG
Found at i:4615166 original size:45 final size:46
Alignment explanation
Indices: 4615100--4615230 Score: 181
Period size: 45 Copynumber: 3.0 Consensus size: 46
4615090 TTAGACTATC
4615100 GCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTT
1 GCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTT
4615146 GCATTGCGA-TTTGTATTATCGCATTGCGATAGTCAGAATCGC---
1 GCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTT
* *
4615188 G--TTGCGATTTTGTATTATCGCGTT---ATAGTTAGAATCGCGTT
1 GCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTT
4615229 GC
1 GC
4615231 GATTTACATA
Statistics
Matches: 78, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
38 13 0.17
40 6 0.08
41 16 0.21
42 1 0.01
45 33 0.42
46 9 0.12
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.37
Consensus pattern (46 bp):
GCATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTT
Found at i:4615171 original size:20 final size:20
Alignment explanation
Indices: 4615146--4615208 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
4615136 GAATCGCGTT
4615146 GCATTGCGATTTGTATTATC
1 GCATTGCGATTTGTATTATC
* **
4615166 GCATTGCGA-TAGTCAGAATC
1 GCATTGCGATTTGT-ATTATC
*
4615186 GCGTTGCGATTTTGTATTATC
1 GCATTGCGA-TTTGTATTATC
4615207 GC
1 GC
4615209 GTTATAGTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
19 3 0.09
20 21 0.64
21 6 0.18
22 3 0.09
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (20 bp):
GCATTGCGATTTGTATTATC
Found at i:4615369 original size:21 final size:21
Alignment explanation
Indices: 4615345--4615388 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
4615335 ATTTTCCAAA
*
4615345 ATCGCAACGCGATCTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
4615366 ATCGCAACGTGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
4615387 AT
1 AT
4615389 TACAACGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:4615394 original size:21 final size:21
Alignment explanation
Indices: 4615349--4615395 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4615339 TCCAAAATCG
* *
4615349 CAACGCGATCTTGGACTATCG
1 CAACGCGAACTTGGACTATCA
* *
4615370 CAACGTGAACTTGGACTATTA
1 CAACGCGAACTTGGACTATCA
4615391 CAACG
1 CAACG
4615396 AATTTGGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (21 bp):
CAACGCGAACTTGGACTATCA
Found at i:4615464 original size:269 final size:266
Alignment explanation
Indices: 4614973--4615507 Score: 702
Period size: 269 Copynumber: 2.0 Consensus size: 266
4614963 TCGTGGTCGT
* *
4614973 GGTCGTGGTAATACGTGTGTTCGACACGTTCGCGGGATACTATCTTTTAGAGAAATTTCTTAAGA
1 GGTCGTGGTAATACGTGTCTTCGACACGTCCGCGGGATACTATCTTTTAGAGAAATTTCTTAAGA
4615038 AACAAATGCAATACCACCAGTCGTTGCGATTTTCCAAAATCGCAACGCGAACTTAGACTATCGCA
66 AACAAATGCAATACCACCAGTCGTTGCGATTTTCCAAAATCGCAACGCGAACTTAGACTATCGCA
** ** * * * * ** **
4615103 TTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTTGCATTGCGATTTGTATTATCGC
131 ACGCGAACTTGGACTATCACA-TACGATAGTCAGAA-C-AATCACATTGCGATTTGTATTATCGC
* *
4615168 ATTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGCGTT-ATAGTTAGAATCGCGTTGCG
193 ATTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGCATTAATAGTCAGAATCGCGTTGCG
4615232 ATTTACATA
258 ATTTACATA
4615241 GGTCGTGGTAATACGTGTCTTCGACACGTCCGCGCGGATACTATCTTTTTAGAGAAATTTCTTAA
1 GGTCGTGGTAATACGTGTCTTCGACACGTCCGCG-GGATACTATC-TTTTAGAGAAATTTCTTAA
* * *
4615306 GAAACAAATGCAATGCCACCA-TCGTTGCGATTTTCCAAAATCGCAACGCGATCTTGGACTATCG
64 GAAACAAATGCAATACCACCAGTCGTTGCGATTTTCCAAAATCGCAACGCGAACTTAGACTATCG
* * * **
4615370 CAACGTGAACTTGGACTATTACA-ACGA-ATTTGGAA-AATCACATTGCGATTTTGTATTATCGC
129 CAACGCGAACTTGGACTATCACATACGATAGTCAGAACAATCACATTGCGA-TTTGTATTATCGC
4615432 ATTGCGATAGTCAGAATCGCGTTGCATTGCGATTTTGTATTATCGCATTACGATAGTCAGAATCG
193 ATTGCGATAGTCAGAATCGC---G--TTGCGATTTTGTATTATCGCATTA--ATAGTCAGAATCG
4615497 CGTTGCGATTT
251 CGTTGCGATTT
4615508 TGTATTATCG
Statistics
Matches: 232, Mismatches: 24, Indels: 18
0.85 0.09 0.07
Matches are distributed among these distances:
263 9 0.04
264 33 0.14
266 5 0.02
267 4 0.02
268 32 0.14
269 87 0.38
270 39 0.17
272 23 0.10
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (266 bp):
GGTCGTGGTAATACGTGTCTTCGACACGTCCGCGGGATACTATCTTTTAGAGAAATTTCTTAAGA
AACAAATGCAATACCACCAGTCGTTGCGATTTTCCAAAATCGCAACGCGAACTTAGACTATCGCA
ACGCGAACTTGGACTATCACATACGATAGTCAGAACAATCACATTGCGATTTGTATTATCGCATT
GCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGCATTAATAGTCAGAATCGCGTTGCGATT
TACATA
Found at i:4615477 original size:46 final size:46
Alignment explanation
Indices: 4615410--4615542 Score: 206
Period size: 46 Copynumber: 3.0 Consensus size: 46
4615400 TGGAAAATCA
*
4615410 CATTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTTG
1 CATTGCGATTTTGTATTATCGCATTACGATAGTCAGAATCGCGTTG
4615456 CATTGCGATTTTGTATTATCGCATTACGATAGTCAGAATCGC---G
1 CATTGCGATTTTGTATTATCGCATTACGATAGTCAGAATCGCGTTG
*
4615499 --TTGCGATTTTGTATTATCG-GTTACGATAGTCAGAATCGCGTTG
1 CATTGCGATTTTGTATTATCGCATTACGATAGTCAGAATCGCGTTG
4615542 C
1 C
4615543 GATTTACATA
Statistics
Matches: 81, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
40 19 0.23
41 19 0.23
43 2 0.02
46 41 0.51
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (46 bp):
CATTGCGATTTTGTATTATCGCATTACGATAGTCAGAATCGCGTTG
Done.